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Conserved domains on  [gi|18397002|ref|NP_566237|]
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Pentatricopeptide repeat (PPR-like) superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000098)

pentatricopeptide repeat (PPR)-containing protein may form anti-parallel alpha helices and bind single-stranded RNA in a sequence-specific and modular manner

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 96-535 4.54e-42

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 163.12  E-value: 4.54e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002    96 FHRSCRSGNYIESLHLLETMVRKG-YNPDVILCTKLIKGFFTLRNIPKAVRVMEILEkfgQPDVFAYNALINGFCKMNRI 174
Cdd:PLN03218  377 YNRLLRDGRIKDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR---NPTLSTFNMLMSVCASSQDI 453

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   175 DDATRVLDRMRSKDFSPDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEM 254
Cdd:PLN03218  454 DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM 533

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   255 LSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNL--ELKGCEPDVISYNILLRALLNQGKWEEGEKL--MTKMFSEKCD 330
Cdd:PLN03218  534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVyqMIHEYNIKGT 613

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   331 PNVvtYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVL 410
Cdd:PLN03218  614 PEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM 691

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   411 ATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKIRALHMILEMMSNGIDPDEITYnSMISCLC-REGMV 489
Cdd:PLN03218  692 GACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITY-SILLVASeRKDDA 770

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*.
gi 18397002   490 DEAFELLVDMRSCEFHPSVVTYNiVLLGFCKaHRIEDAINVLESMV 535
Cdd:PLN03218  771 DVGLDLLSQAKEDGIKPNLVMCR-CITGLCL-RRFEKACALGEPVV 814
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 96-535 4.54e-42

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 163.12  E-value: 4.54e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002    96 FHRSCRSGNYIESLHLLETMVRKG-YNPDVILCTKLIKGFFTLRNIPKAVRVMEILEkfgQPDVFAYNALINGFCKMNRI 174
Cdd:PLN03218  377 YNRLLRDGRIKDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR---NPTLSTFNMLMSVCASSQDI 453

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   175 DDATRVLDRMRSKDFSPDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEM 254
Cdd:PLN03218  454 DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM 533

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   255 LSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNL--ELKGCEPDVISYNILLRALLNQGKWEEGEKL--MTKMFSEKCD 330
Cdd:PLN03218  534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVyqMIHEYNIKGT 613

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   331 PNVvtYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVL 410
Cdd:PLN03218  614 PEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM 691

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   411 ATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKIRALHMILEMMSNGIDPDEITYnSMISCLC-REGMV 489
Cdd:PLN03218  692 GACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITY-SILLVASeRKDDA 770

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*.
gi 18397002   490 DEAFELLVDMRSCEFHPSVVTYNiVLLGFCKaHRIEDAINVLESMV 535
Cdd:PLN03218  771 DVGLDLLSQAKEDGIKPNLVMCR-CITGLCL-RRFEKACALGEPVV 814
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 156-204 8.51e-16

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 71.63  E-value: 8.51e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 18397002   156 PDVFAYNALINGFCKMNRIDDATRVLDRMRSKDFSPDTVTYNIMIGSLC 204
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 160-424 2.00e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 58.97  E-value: 2.00e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 160 AYNALINGfckmnRIDDATRVLDRMRSKDfsPDTVTYNIMIGSLC-SRGKLDLALKVLNQLLSDNCQPTVITYTiLIEAT 238
Cdd:COG2956  15 GLNYLLNG-----QPDKAIDLLEEALELD--PETVEAHLALGNLYrRRGEYDRAIRIHQKLLERDPDRAEALLE-LAQDY 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 239 MLEGGVDEALKLMDEMLSrgLKPDMFTYNTIIRGMC-KEGMVDRAFEMVRNLELKGcEPDVISYNILLRALLNQGKWEEG 317
Cdd:COG2956  87 LKAGLLDRAEELLEKLLE--LDPDDAEALRLLAEIYeQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEA 163

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 318 EKLMTKMFseKCDPNVVTYSILITTLC-RDGKIEEAMNLLKLMKEkgLTPDAYS-YDPLIAAFCREGRLDVAIEFLETMI 395
Cdd:COG2956 164 IEALEKAL--KLDPDCARALLLLAELYlEQGDYEEAIAALERALE--QDPDYLPaLPRLAELYEKLGDPEEALELLRKAL 239

                       250       260
                ....*....|....*....|....*....
gi 18397002 396 SDGclPDIVNYNTVLATLCKNGKADQALE 424
Cdd:COG2956 240 ELD--PSDDLLLALADLLERKEGLEAALA 266
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 474-508 3.89e-08

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 49.38  E-value: 3.89e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   474 ITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSV 508
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 96-535 4.54e-42

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 163.12  E-value: 4.54e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002    96 FHRSCRSGNYIESLHLLETMVRKG-YNPDVILCTKLIKGFFTLRNIPKAVRVMEILEkfgQPDVFAYNALINGFCKMNRI 174
Cdd:PLN03218  377 YNRLLRDGRIKDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR---NPTLSTFNMLMSVCASSQDI 453

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   175 DDATRVLDRMRSKDFSPDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEM 254
Cdd:PLN03218  454 DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM 533

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   255 LSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNL--ELKGCEPDVISYNILLRALLNQGKWEEGEKL--MTKMFSEKCD 330
Cdd:PLN03218  534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVyqMIHEYNIKGT 613

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   331 PNVvtYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVL 410
Cdd:PLN03218  614 PEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM 691

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   411 ATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKIRALHMILEMMSNGIDPDEITYnSMISCLC-REGMV 489
Cdd:PLN03218  692 GACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITY-SILLVASeRKDDA 770

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*.
gi 18397002   490 DEAFELLVDMRSCEFHPSVVTYNiVLLGFCKaHRIEDAINVLESMV 535
Cdd:PLN03218  771 DVGLDLLSQAKEDGIKPNLVMCR-CITGLCL-RRFEKACALGEPVV 814
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 92-483 1.90e-40

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 158.12  E-value: 1.90e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002    92 MLKIFHRscrsgnyieslhlletMVRKGYNPDVILCTKLIKGFFTLRNIPKAVRVMEIL-EKFGQPDVFAYNALINGFCK 170
Cdd:PLN03218  491 MFEVFHE----------------MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMrSKNVKPDRVVFNALISACGQ 554

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   171 MNRIDDATRVLDRMR--SKDFSPDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEAL 248
Cdd:PLN03218  555 SGAVDRAFDVLAEMKaeTHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFAL 634

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   249 KLMDEMLSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEK 328
Cdd:PLN03218  635 SIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIK 714

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   329 CDPNVVTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNT 408
Cdd:PLN03218  715 LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRC 794

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18397002   409 VLAtLCKngkadQALEIFGKLGEVGCSPNSSsyNTMFSALWSSgdkiRALHMILEMMSNGIDPDEITYNSMISCL 483
Cdd:PLN03218  795 ITG-LCL-----RRFEKACALGEPVVSFDSG--RPQIENKWTS----WALMVYRETISAGTLPTMEVLSQVLGCL 857
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 24-571 3.93e-28

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 119.59  E-value: 3.93e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   24 SNSSHGLLLSHNRssLLTFSNSNPNNDNGRSFSSSGARNLQTTTTTDATLPTERRQQHSQSLgFRDTQMLKIFHRSCRS- 102
Cdd:PLN03081  18 DSLSNPRLLHSPR--KFSLRGRRTKTPFSSISCSSVEQGLKPRPRLKPEPIRIEVSESKDAR-LDDTQIRKSGVSLCSQi 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  103 ------GNYIESLHLLETM-VRKGYNPDVILCTKLIKGFFTLRNIPKAVRVMEILEKFG-QPDVFAYNALINGFCKMNRI 174
Cdd:PLN03081  95 eklvacGRHREALELFEILeAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGfEPDQYMMNRVLLMHVKCGML 174

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  175 DDATRVLDRMRSKDFspdtVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEM 254
Cdd:PLN03081 175 IDARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCV 250

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  255 LSRGLKPDMFTYNTIIRGMCKEGMVD---RAFEMVRnlelkgcEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDP 331
Cdd:PLN03081 251 LKTGVVGDTFVSCALIDMYSKCGDIEdarCVFDGMP-------EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI 323

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  332 NVVTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMisdgclP--DIVNYNTV 409
Cdd:PLN03081 324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM------PrkNLISWNAL 397

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  410 LATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKIRALHMILEMMSN-GIDPDEITYNSMISCLCREGM 488
Cdd:PLN03081 398 IAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGL 477

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  489 VDEAFELLvdmRSCEFHPSVVTYNiVLLGFCKAHR-IEDAINVLESMVGNGcrPNE-TTYTVLIEGIGFAGYRAEAMELA 566
Cdd:PLN03081 478 LDEAYAMI---RRAPFKPTVNMWA-ALLTACRIHKnLELGRLAAEKLYGMG--PEKlNNYVVLLNLYNSSGRQAEAAKVV 551


                 ....*
gi 18397002  567 NDLVR 571
Cdd:PLN03081 552 ETLKR 556
PLN03077 PLN03077
Protein ECB2; Provisional
 101-565 6.79e-23

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 103.78  E-value: 6.79e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  101 RSGNYIESLHLLETMVRKGYNPDVILCTKLIKgffTLRNIPKAVRVMEI---LEKFG-QPDVFAYNALINGFCKMNRIDD 176
Cdd:PLN03077 164 KAGYFDEALCLYHRMLWAGVRPDVYTFPCVLR---TCGGIPDLARGREVhahVVRFGfELDVDVVNALITMYVKCGDVVS 240

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  177 ATRVLDRMRSKDfspdTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATmleggvdealklmdEMLS 256
Cdd:PLN03077 241 ARLVFDRMPRRD----CISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC--------------ELLG 302

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  257 -RGLKPDMFTYntiirgmckegMVDRAFEMvrnlelkgcepDVISYNILLRALLNQGKWEEGEKLMTKMFSEkcdpNVVT 335
Cdd:PLN03077 303 dERLGREMHGY-----------VVKTGFAV-----------DVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVS 356

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  336 YSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVLATLCK 415
Cdd:PLN03077 357 WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK 436

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  416 NGKADQALEIFGKLGEvgcsPNSSSYNTMFSALWSSGDKIRALHMILEMMSNgIDPDEITYNSMISCLCREGMVDEAFEL 495
Cdd:PLN03077 437 CKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEI 511

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  496 ------------------LVDM------------RSCEFHPSVVTYNIVLLGFCKAHRIEDAINVLESMVGNGCRPNETT 545
Cdd:PLN03077 512 hahvlrtgigfdgflpnaLLDLyvrcgrmnyawnQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT 591

                        490       500
                 ....*....|....*....|
gi 18397002  546 YTVLIEGIGFAGYRAEAMEL 565
Cdd:PLN03077 592 FISLLCACSRSGMVTQGLEY 611
PLN03077 PLN03077
Protein ECB2; Provisional
 107-518 5.58e-18

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 87.98  E-value: 5.58e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  107 ESLHLLETMVRKGYNPDVILCTKLIKGFFTLRNIPKAVRVMEILEKFGQPD-VFAYNALINGFCKMNRIDDATRVLDRMR 185
Cdd:PLN03077 372 KALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISyVVVANALIEMYSKCKCIDKALEVFHNIP 451

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  186 SKDfspdTVTYNIMIGSLCSRGKLDLALKVLNQLLSDnCQPTVITYTILIEATMLEGGVDEALKLMDEMLSRGLKPDMFT 265
Cdd:PLN03077 452 EKD----VISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFL 526

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  266 YNTIIRGMCKEGMVDRAFEmvrnlELKGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVTYSILITTLCR 345
Cdd:PLN03077 527 PNALLDLYVRCGRMNYAWN-----QFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR 601

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  346 DGKIEEAMNLLKLMKEK-GLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDgclPDIVNYNTVLatlckNG-KADQAL 423
Cdd:PLN03077 602 SGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKMPIT---PDPAVWGALL-----NAcRIHRHV 673

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  424 EifgkLGEVGCS------PNSSSYNTMFSALWSSGDKIRALHMILEMM-SNGIDPDeitynSMISCLCREGMVdEAFell 496
Cdd:PLN03077 674 E----LGELAAQhifeldPNSVGYYILLCNLYADAGKWDEVARVRKTMrENGLTVD-----PGCSWVEVKGKV-HAF--- 740

                        410       420
                 ....*....|....*....|..
gi 18397002  497 vdMRSCEFHPSVVTYNIVLLGF 518
Cdd:PLN03077 741 --LTDDESHPQIKEINTVLEGF 760
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 156-204 8.51e-16

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 71.63  E-value: 8.51e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 18397002   156 PDVFAYNALINGFCKMNRIDDATRVLDRMRSKDFSPDTVTYNIMIGSLC 204
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 471-520 9.94e-15

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 68.54  E-value: 9.94e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18397002   471 PDEITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSVVTYNIVLLGFCK 520
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 296-345 2.30e-14

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 67.39  E-value: 2.30e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18397002   296 PDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVTYSILITTLCR 345
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 226-275 3.75e-14

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 66.62  E-value: 3.75e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18397002   226 PTVITYTILIEATMLEGGVDEALKLMDEMLSRGLKPDMFTYNTIIRGMCK 275
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 261-308 1.41e-13

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 65.08  E-value: 1.41e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 18397002   261 PDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRAL 308
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 331-380 1.53e-13

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 65.08  E-value: 1.53e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18397002   331 PNVVTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCR 380
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 506-552 3.40e-13

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 63.92  E-value: 3.40e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 18397002   506 PSVVTYNIVLLGFCKAHRIEDAINVLESMVGNGCRPNETTYTVLIEG 552
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 467-500 5.07e-12

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 60.44  E-value: 5.07e-12
                          10        20        30
                  ....*....|....*....|....*....|....
gi 18397002   467 NGIDPDEITYNSMISCLCREGMVDEAFELLVDMR 500
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PLN03077 PLN03077
Protein ECB2; Provisional
 203-563 7.33e-12

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 68.34  E-value: 7.33e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  203 LCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKL----MDEMLSRGLK------------------ 260
Cdd:PLN03077  61 LCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVcsraLSSHPSLGVRlgnamlsmfvrfgelvha 140

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  261 ---------PDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRALLNQGKWEEGEK------------ 319
Cdd:PLN03077 141 wyvfgkmpeRDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREvhahvvrfgfel 220

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  320 -------LMT------------KMFSEKCDPNVVTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCR 380
Cdd:PLN03077 221 dvdvvnaLITmyvkcgdvvsarLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEL 300

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  381 EGRLDVAIEFLETMISDGCLPDIVNYNTVLATLCKNGKADQALEIFGKLGevgcSPNSSSYNTMFSALWSSGDKIRALHM 460
Cdd:PLN03077 301 LGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALET 376

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  461 ILEMMSNGIDPDEITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSVVTYNIVLLGFCKAHRIEDAINVLESMVgngcR 540
Cdd:PLN03077 377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP----E 452

                        410       420
                 ....*....|....*....|...
gi 18397002  541 PNETTYTVLIEGIGFAGYRAEAM 563
Cdd:PLN03077 453 KDVISWTSIIAGLRLNNRCFEAL 475
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 415-551 7.42e-12

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 65.11  E-value: 7.42e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   415 KNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGD-----KIRALHMILE----MMSNGIDPDEITYNSMISCLCR 485
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADatdlkPQLAADRGFEvfeaMKAQGVSPNEATYTAVARLAAA 102

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18397002   486 EGMVDEAFELLVDMRSCEFHPSVVTYNIVLLGFCKAHRIEDAINVLESMVGNGCRPNETTYTVLIE 551
Cdd:pfam17177 103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLK 168
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 247-434 1.18e-11

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 64.34  E-value: 1.18e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   247 ALKLMDEMLSRGLKPDMFTYNTIIrgmckegmvdrafemvrNLELKGCEPDvisynillrALLNQGKWEEGEKLMTKMFS 326
Cdd:pfam17177  30 ALALYDAAKAEGVRLAQYHYNVLL-----------------YLCSKAADAT---------DLKPQLAADRGFEVFEAMKA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   327 EKCDPNVVTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNY 406
Cdd:pfam17177  84 QGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPEL 163

                         170       180
                  ....*....|....*....|....*....
gi 18397002   407 NTVLATLCKNGKADQALEIFGKL-GEVGC 434
Cdd:pfam17177 164 AALLKVSAKAGRADKVYAYLHRLrDAVRQ 192
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 257-287 4.84e-11

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 57.36  E-value: 4.84e-11
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   257 RGLKPDMFTYNTIIRGMCKEGMVDRAFEMVR 287
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLD 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 401-448 1.41e-10

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.60  E-value: 1.41e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 18397002   401 PDIVNYNTVLATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSAL 448
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 84-364 5.93e-10

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 62.20  E-value: 5.93e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   84 SLGFRDTQMLKIFHRSCRSGNYIES------------LHLLE-------TMVRKGYNPDVILCTKLIKGFFTLRNIPKAV 144
Cdd:PLN03081 301 ALHGYSEEALCLYYEMRDSGVSIDQftfsimirifsrLALLEhakqahaGLIRTGFPLDIVANTALVDLYSKWGRMEDAR 380

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  145 RVmeiLEKFGQPDVFAYNALINGFCKMNRIDDATRVLDRMRSKDFSPDTVTYnimigslcsrgkldlaLKVLNqllsdnc 224
Cdd:PLN03081 381 NV---FDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF----------------LAVLS------- 434

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  225 qptvitytilieATMLEGGVDEALKLMDEML-SRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKgcePDVISYNI 303
Cdd:PLN03081 435 ------------ACRYSGLSEQGWEIFQSMSeNHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFK---PTVNMWAA 499

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18397002  304 LLRALLNQGKWEEG----EKLMTkMFSEKCDPNVVTYSILIttlcRDGKIEEAMNLLKLMKEKGL 364
Cdd:PLN03081 500 LLTACRIHKNLELGrlaaEKLYG-MGPEKLNNYVVLLNLYN----SSGRQAEAAKVVETLKRKGL 559
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 155-185 6.14e-10

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 54.27  E-value: 6.14e-10
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   155 QPDVFAYNALINGFCKMNRIDDATRVLDRMR 185
Cdd:pfam12854   4 KPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PLN03077 PLN03077
Protein ECB2; Provisional
 267-515 1.20e-09

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 61.40  E-value: 1.20e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  267 NTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVTYSILITTLCRD 346
Cdd:PLN03077  55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRF 134

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  347 GKIEEAMNLLKLMKEKgltpDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVLATlCkNGKADQAL--E 424
Cdd:PLN03077 135 GELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRT-C-GGIPDLARgrE 208

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  425 IFGKLGEVGCSPNSSSYNTMFSALWSSGDkIRALHMILEMMSNgidPDEITYNSMISCLCREGMVDEAFELLVDMRSCEF 504
Cdd:PLN03077 209 VHAHVVRFGFELDVDVVNALITMYVKCGD-VVSARLVFDRMPR---RDCISWNAMISGYFENGECLEGLELFFTMRELSV 284

                        250
                 ....*....|.
gi 18397002  505 HPSVVTYNIVL 515
Cdd:PLN03077 285 DPDLMTITSVI 295
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 160-424 2.00e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 58.97  E-value: 2.00e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 160 AYNALINGfckmnRIDDATRVLDRMRSKDfsPDTVTYNIMIGSLC-SRGKLDLALKVLNQLLSDNCQPTVITYTiLIEAT 238
Cdd:COG2956  15 GLNYLLNG-----QPDKAIDLLEEALELD--PETVEAHLALGNLYrRRGEYDRAIRIHQKLLERDPDRAEALLE-LAQDY 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 239 MLEGGVDEALKLMDEMLSrgLKPDMFTYNTIIRGMC-KEGMVDRAFEMVRNLELKGcEPDVISYNILLRALLNQGKWEEG 317
Cdd:COG2956  87 LKAGLLDRAEELLEKLLE--LDPDDAEALRLLAEIYeQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEA 163

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 318 EKLMTKMFseKCDPNVVTYSILITTLC-RDGKIEEAMNLLKLMKEkgLTPDAYS-YDPLIAAFCREGRLDVAIEFLETMI 395
Cdd:COG2956 164 IEALEKAL--KLDPDCARALLLLAELYlEQGDYEEAIAALERALE--QDPDYLPaLPRLAELYEKLGDPEEALELLRKAL 239

                       250       260
                ....*....|....*....|....*....
gi 18397002 396 SDGclPDIVNYNTVLATLCKNGKADQALE 424
Cdd:COG2956 240 ELD--PSDDLLLALADLLERKEGLEAALA 266
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 329-360 2.11e-09

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 52.73  E-value: 2.11e-09
                          10        20        30
                  ....*....|....*....|....*....|..
gi 18397002   329 CDPNVVTYSILITTLCRDGKIEEAMNLLKLMK 360
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 130-395 2.26e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 58.59  E-value: 2.26e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 130 LIKGFFTLRN--IPKAVRVMEILEKFGQPDVFAYNALINGFCKMNRIDDATRVLDRMRSKDfsPDTVTYNIMIGSLC-SR 206
Cdd:COG2956  12 YFKGLNYLLNgqPDKAIDLLEEALELDPETVEAHLALGNLYRRRGEYDRAIRIHQKLLERD--PDRAEALLELAQDYlKA 89

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 207 GKLDLALKVLNQLLSDNCQpTVITYTILIEATMLEGGVDEALKLMDEMLSRGLKpDMFTYNTIIRGMCKEGMVDRAFEMV 286
Cdd:COG2956  90 GLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPE-NAHAYCELAELYLEQGDYDEAIEAL 167

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 287 RN-LELkgcEPDVISYNILL-RALLNQGKWEEGEKLMTKMFSEkcDPN-VVTYSILITTLCRDGKIEEAMNLLKlmKEKG 363
Cdd:COG2956 168 EKaLKL---DPDCARALLLLaELYLEQGDYEEAIAALERALEQ--DPDyLPALPRLAELYEKLGDPEEALELLR--KALE 240

                       250       260       270
                ....*....|....*....|....*....|..
gi 18397002 364 LTPDAYSYDPLIAAFCREGRLDVAIEFLETMI 395
Cdd:COG2956 241 LDPSDDLLLALADLLERKEGLEAALALLERQL 272
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 366-415 4.17e-09

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 52.37  E-value: 4.17e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18397002   366 PDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVLATLCK 415
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 474-508 3.89e-08

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 49.38  E-value: 3.89e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   474 ITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSV 508
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 249-307 6.37e-08

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 49.66  E-value: 6.37e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 18397002   249 KLMDEMLSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRA 307
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 362-394 1.12e-07

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 48.11  E-value: 1.12e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 18397002   362 KGLTPDAYSYDPLIAAFCREGRLDVAIEFLETM 394
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 101-289 1.47e-07

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 53.19  E-value: 1.47e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 101 RSGNYIESLHLLETMVRK-GYNPDVILctKLIKGFFTLRNIPKAVRVMEILEKFGQPDVFAYNALINGFCKMNRIDDATR 179
Cdd:COG2956  88 KAGLLDRAEELLEKLLELdPDDAEALR--LLAEIYEQEGDWEKAIEVLERLLKLGPENAHAYCELAELYLEQGDYDEAIE 165

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 180 VLDRMRSKDfsPDTVTYNIMIGSLC-SRGKLDLALKVLNQLLSDNcQPTVITYTILIEATMLEGGVDEALKLMDEMLSRg 258
Cdd:COG2956 166 ALEKALKLD--PDCARALLLLAELYlEQGDYEEAIAALERALEQD-PDYLPALPRLAELYEKLGDPEEALELLRKALEL- 241

                       170       180       190
                ....*....|....*....|....*....|.
gi 18397002 259 lKPDMFTYNTIIRGMCKEGMVDRAFEMVRNL 289
Cdd:COG2956 242 -DPSDDLLLALADLLERKEGLEAALALLERQ 271
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 187-218 1.49e-07

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 47.73  E-value: 1.49e-07
                          10        20        30
                  ....*....|....*....|....*....|..
gi 18397002   187 KDFSPDTVTYNIMIGSLCSRGKLDLALKVLNQ 218
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 159-193 1.92e-07

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 47.45  E-value: 1.92e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   159 FAYNALINGFCKMNRIDDATRVLDRMRSKDFSPDT 193
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 285-342 2.30e-07

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 48.12  E-value: 2.30e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 18397002   285 MVRNLELKGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVTYSILITT 342
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 380-551 2.31e-07

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 51.63  E-value: 2.31e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   380 REGRLDVAIEFLETMISDGCLPDIVNYNTVLaTLC----------KNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALW 449
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAQYHYNVLL-YLCskaadatdlkPQLAADRGFEVFEAMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   450 SSGDKIRALHMILEMMSNGIDPDEITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSVVTYNIVLLGFCKAHRIEDAIN 529
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYA 181

                         170       180
                  ....*....|....*....|..
gi 18397002   530 VLESMVGNGCRPNETTYTVLIE 551
Cdd:pfam17177 182 YLHRLRDAVRQVSESTAGVLEE 203
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 122-170 2.48e-07

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 47.36  E-value: 2.48e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18397002   122 PDVILCTKLIKGFFTLRNIPKAVRVMEILEKFG-QPDVFAYNALINGFCK 170
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGvKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 264-298 3.04e-07

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 46.68  E-value: 3.04e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   264 FTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDV 298
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 334-368 5.16e-07

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 46.29  E-value: 5.16e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   334 VTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDA 368
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 474-504 8.94e-07

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 45.53  E-value: 8.94e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   474 ITYNSMISCLCREGMVDEAFELLVDMRSCEF 504
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 214-274 1.21e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.81  E-value: 1.21e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18397002   214 KVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEMLSRGLKPDMFTYNTIIrGMC 274
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL-GVI 60
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 391-447 1.62e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.43  E-value: 1.62e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 18397002   391 LETMISDGCLPDIVNYNTVLATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSA 447
Cdd:pfam13812   3 LREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 504-535 4.24e-06

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 43.49  E-value: 4.24e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 18397002   504 FHPSVVTYNIVLLGFCKAHRIEDAINVLESMV 535
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 509-543 6.54e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.21  E-value: 6.54e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   509 VTYNIVLLGFCKAHRIEDAINVLESMVGNGCRPNE 543
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 355-416 6.98e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 43.89  E-value: 6.98e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18397002   355 LLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVLATLCKN 416
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 179-237 7.78e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 43.50  E-value: 7.78e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 18397002   179 RVLDRMRSKDFSPDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEA 237
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 334-364 8.03e-06

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 42.84  E-value: 8.03e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   334 VTYSILITTLCRDGKIEEAMNLLKLMKEKGL 364
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 194-228 8.20e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 42.83  E-value: 8.20e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   194 VTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTV 228
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 222-254 8.59e-06

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 42.72  E-value: 8.59e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 18397002   222 DNCQPTVITYTILIEATMLEGGVDEALKLMDEM 254
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 173-312 1.08e-05

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 46.62  E-value: 1.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   173 RIDDATRVL---DRMRSKDFSPDTVTYNIMIgSLCSRG----------KLDLALKVLNQLLSDNCQPTVITYTILIEATM 239
Cdd:pfam17177  23 KHADATGALalyDAAKAEGVRLAQYHYNVLL-YLCSKAadatdlkpqlAADRGFEVFEAMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 18397002   240 LEGGVDEALKLMDEMLSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRALLNQG 312
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAG 174
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 111-171 1.66e-05

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 42.73  E-value: 1.66e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18397002   111 LLETMVRKGYNPDVILCTKLIKGFFTLRNIPKAVRVMEILEKFG-QPDVFAYNALINGFCKM 171
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGiKPTLDTYNAILGVIGGR 63
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 397-428 2.23e-05

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 41.56  E-value: 2.23e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 18397002   397 DGCLPDIVNYNTVLATLCKNGKADQALEIFGK 428
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 369-403 2.34e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.29  E-value: 2.34e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   369 YSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDI 403
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 155-201 6.18e-05

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 41.19  E-value: 6.18e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 18397002   155 QPDVFAYNALINGFCKMNRIDDATRVLDRMRSKDFSPDTVTYNIMIG 201
Cdd:pfam13812  12 QLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 331-378 9.80e-05

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 40.42  E-value: 9.80e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 18397002   331 PNVVTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAF 378
Cdd:pfam13812  13 LNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 159-189 9.90e-05

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 39.76  E-value: 9.90e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   159 FAYNALINGFCKMNRIDDATRVLDRMRSKDF 189
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 299-333 2.87e-04

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 38.59  E-value: 2.87e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   299 ISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNV 333
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 264-294 2.92e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 38.22  E-value: 2.92e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   264 FTYNTIIRGMCKEGMVDRAFEMVRNLELKGC 294
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 495-554 3.07e-04

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 39.26  E-value: 3.07e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   495 LLVDMRSCEFHPSVVTYNIVLLGFCKAHRIEDAINVLESMVGNGCRPNETTYTVLIEGIG 554
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 194-224 3.58e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 38.22  E-value: 3.58e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   194 VTYNIMIGSLCSRGKLDLALKVLNQLLSDNC 224
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 340-519 8.33e-04

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 41.23  E-value: 8.33e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   340 ITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLI---------AAFCREGRLDVAIEFLETMISDGCLPDIVNYnTVL 410
Cdd:pfam17177  18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLylcskaadaTDLKPQLAADRGFEVFEAMKAQGVSPNEATY-TAV 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   411 ATLC-KNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKIRALHMILEMMSNGIDPDEITYNSMISCLCREGMV 489
Cdd:pfam17177  97 ARLAaAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRA 176

                         170       180       190
                  ....*....|....*....|....*....|
gi 18397002   490 DEAFELLVDMRSCEFHPSVVTYNIVLLGFC 519
Cdd:pfam17177 177 DKVYAYLHRLRDAVRQVSESTAGVLEEWFR 206
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 509-539 9.48e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.67  E-value: 9.48e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   509 VTYNIVLLGFCKAHRIEDAINVLESMVGNGC 539
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 143-284 1.10e-03

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 40.84  E-value: 1.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002   143 AVRVMEILEKFGQPDV----FAYNALINgFC----------KMNRIDDATRVLDRMRSKDFSPDTVTYNIMIgSLCS-RG 207
Cdd:pfam17177  27 ATGALALYDAAKAEGVrlaqYHYNVLLY-LCskaadatdlkPQLAADRGFEVFEAMKAQGVSPNEATYTAVA-RLAAaKG 104

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 18397002   208 KLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKLMDEMLSRGLKPDMFTYNTIIRGMCKEGMVDRAFE 284
Cdd:pfam17177 105 DGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYA 181
PLN03077 PLN03077
Protein ECB2; Provisional
 407-546 1.13e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 42.14  E-value: 1.13e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002  407 NTVLATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSAL-W----SSGDKIRAlHMILEMMSNGIDPDeityNSMIS 481
Cdd:PLN03077  55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCeWkravEEGSRVCS-RALSSHPSLGVRLG----NAMLS 129

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18397002  482 CLCREGMVDEAFELLVDMRscefHPSVVTYNIVLLGFCKAHRIEDAINVLESMVGNGCRPNETTY 546
Cdd:PLN03077 130 MFVRFGELVHAWYVFGKMP----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTF 190
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 406-438 1.37e-03

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 36.66  E-value: 1.37e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 18397002   406 YNTVLATLCKNGKADQALEIFGKLGEVGCSPNS 438
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 297-396 1.39e-03

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 39.40  E-value: 1.39e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 297 DVISYNILLRALLNQGKWEEGEKLMTKMFSEkcDP-NVVTYSILITTLCRDGKIEEAMNLL-KLMKEKGLTPDAYSYdpL 374
Cdd:COG4783  37 NPEAFALLGEILLQLGDLDEAIVLLHEALEL--DPdEPEARLNLGLALLKAGDYDEALALLeKALKLDPEHPEAYLR--L 112

                        90       100
                ....*....|....*....|..
gi 18397002 375 IAAFCREGRLDVAIEFLETMIS 396
Cdd:COG4783 113 ARAYRALGRPDEAIAALEKALE 134
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 463-519 1.55e-03

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 37.34  E-value: 1.55e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 18397002   463 EMMSNGIDPDEITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSVVTYNiVLLGFC 519
Cdd:pfam13812   5 EMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYN-AILGVI 60
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
295-458 1.86e-03

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 40.38  E-value: 1.86e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 295 EPD-VISYNILLRALLNQGKWEEGEKLMTKmfSEKCDPN-VVTYSILITTLCRDGKIEEAMNLL-KLMKekgLTP-DAYS 370
Cdd:COG0457   4 DPDdAEAYNNLGLAYRRLGRYEEAIEDYEK--ALELDPDdAEALYNLGLAYLRLGRYEEALADYeQALE---LDPdDAEA 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397002 371 YDPLIAAFCREGRLDVAIEFLETMISdgCLPDIVNYNTVLATLCKN-GKADQALEIFGKLGEVgcSPNS-SSYNTMFSAL 448
Cdd:COG0457  79 LNNLGLALQALGRYEEALEDYDKALE--LDPDDAEALYNLGLALLElGRYDEAIEAYERALEL--DPDDaDALYNLGIAL 154

                       170
                ....*....|
gi 18397002 449 WSSGDKIRAL 458
Cdd:COG0457 155 EKLGRYEEAL 164
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 229-262 2.86e-03

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.51  E-value: 2.86e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 18397002   229 ITYTILIEAtMLEGG-VDEALKLMDEMLSRGLKPD 262
Cdd:TIGR00756   1 VTYNTLIDG-LCKAGrVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 229-259 8.67e-03

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 33.98  E-value: 8.67e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 18397002   229 ITYTILIEATMLEGGVDEALKLMDEMLSRGL 259
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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