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Conserved domains on  [gi|15233088|ref|NP_191695|]
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Tetratricopeptide repeat (TPR)-like superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 13329789)

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

CATH:  1.25.40.10
Gene Ontology:  GO:0003723
PubMed:  19004664|23635770|25882680|34065603|18031283|30809817
SCOP:  4001344

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 208-257 4.46e-12

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: 60.84  E-value: 4.46e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15233088   208 PDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGIRIDGFCK 257
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 134-441 2.52e-11

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 66.44  E-value: 2.52e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   134 PNLLSFKSMsILLC----KIAK-FGSYEETLEAFVKMEKEIFrkkfgvdefNILL----------RAFCTEREMK-EARS 197
Cdd:PLN03218  505 ANVHTFGAL-IDGCaragQVAKaFGAYGIMRSKNVKPDRVVF---------NALIsacgqsgavdRAFDVLAEMKaETHP 574

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   198 IfeklhsrfNPDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGIRIDGFCKKRNFGEALRLFEDMDRLDFD 277
Cdd:PLN03218  575 I--------DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVK 646

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   278 ITVQILTTLIHGSGVARNKIKARQLFDEISKRGLTPDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDSVTFHSMF 357
Cdd:PLN03218  647 PDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALI 726

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   358 IGMMKSKEFgfNGVCEYYQKMKERSLVPKTPTIVMLMKLFCHNGEVNLGLDLWKYMLEKGYCPHGHALELLtTALCARRR 437
Cdd:PLN03218  727 TALCEGNQL--PKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI-TGLCLRRF 803


                  ....
gi 15233088   438 ANDA 441
Cdd:PLN03218  804 EKAC 807
 
Name Accession Description Interval E-value
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 208-257 4.46e-12

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: 60.84  E-value: 4.46e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15233088   208 PDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGIRIDGFCK 257
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 134-441 2.52e-11

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 66.44  E-value: 2.52e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   134 PNLLSFKSMsILLC----KIAK-FGSYEETLEAFVKMEKEIFrkkfgvdefNILL----------RAFCTEREMK-EARS 197
Cdd:PLN03218  505 ANVHTFGAL-IDGCaragQVAKaFGAYGIMRSKNVKPDRVVF---------NALIsacgqsgavdRAFDVLAEMKaETHP 574

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   198 IfeklhsrfNPDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGIRIDGFCKKRNFGEALRLFEDMDRLDFD 277
Cdd:PLN03218  575 I--------DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVK 646

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   278 ITVQILTTLIHGSGVARNKIKARQLFDEISKRGLTPDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDSVTFHSMF 357
Cdd:PLN03218  647 PDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALI 726

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   358 IGMMKSKEFgfNGVCEYYQKMKERSLVPKTPTIVMLMKLFCHNGEVNLGLDLWKYMLEKGYCPHGHALELLtTALCARRR 437
Cdd:PLN03218  727 TALCEGNQL--PKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI-TGLCLRRF 803


                  ....
gi 15233088   438 ANDA 441
Cdd:PLN03218  804 EKAC 807
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 313-362 6.25e-11

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: 57.37  E-value: 6.25e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15233088   313 PDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDSVTFHSMFIGMMK 362
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 317-350 1.90e-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: 44.37  E-value: 1.90e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15233088   317 AYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDS 350
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 208-257 4.46e-12

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: 60.84  E-value: 4.46e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15233088   208 PDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGIRIDGFCK 257
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 134-441 2.52e-11

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 66.44  E-value: 2.52e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   134 PNLLSFKSMsILLC----KIAK-FGSYEETLEAFVKMEKEIFrkkfgvdefNILL----------RAFCTEREMK-EARS 197
Cdd:PLN03218  505 ANVHTFGAL-IDGCaragQVAKaFGAYGIMRSKNVKPDRVVF---------NALIsacgqsgavdRAFDVLAEMKaETHP 574

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   198 IfeklhsrfNPDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGIRIDGFCKKRNFGEALRLFEDMDRLDFD 277
Cdd:PLN03218  575 I--------DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVK 646

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   278 ITVQILTTLIHGSGVARNKIKARQLFDEISKRGLTPDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDSVTFHSMF 357
Cdd:PLN03218  647 PDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALI 726

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   358 IGMMKSKEFgfNGVCEYYQKMKERSLVPKTPTIVMLMKLFCHNGEVNLGLDLWKYMLEKGYCPHGHALELLtTALCARRR 437
Cdd:PLN03218  727 TALCEGNQL--PKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI-TGLCLRRF 803


                  ....
gi 15233088   438 ANDA 441
Cdd:PLN03218  804 EKAC 807
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 179-463 2.58e-11

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 66.44  E-value: 2.58e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   179 FNILLRAFCTEREMKEARSIFEKLHSR-FNPDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGIRIDGFCK 257
Cdd:PLN03218  440 FNMLMSVCASSQDIDGALRVLRLVQEAgLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR 519

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   258 KRNFGEALRLFEDM-------DRLDFD---------------------------------ITVQIL-TTLIHGSGVARnk 296
Cdd:PLN03218  520 AGQVAKAFGAYGIMrsknvkpDRVVFNalisacgqsgavdrafdvlaemkaethpidpdhITVGALmKACANAGQVDR-- 597

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   297 ikARQLFDEISKRGL--TPDCgaYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDSVtFHSMFI---GMMKSKEFGFngv 371
Cdd:PLN03218  598 --AKEVYQMIHEYNIkgTPEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV-FFSALVdvaGHAGDLDKAF--- 669

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088   372 cEYYQKMKERSLVPKTPTIVMLMKLFCHNGEVNLGLDLWKYMLEKGYCPHGHALELLTTALCARRRANDAFECSWQTVER 451
Cdd:PLN03218  670 -EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL 748

                         330
                  ....*....|..
gi 15233088   452 GRCVSEPVYRML 463
Cdd:PLN03218  749 GLCPNTITYSIL 760
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 313-362 6.25e-11

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: 57.37  E-value: 6.25e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15233088   313 PDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDSVTFHSMFIGMMK 362
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 148-359 6.71e-10

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 61.42  E-value: 6.71e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  148 KIAKFGSYEETLEAFVKMEKEiFRKKFGVDEFNILLRAFCTEREMKEARSIFEKLHSR-FNPDVKTMNILLLGFKEAGDV 226
Cdd:PLN03081  96 KLVACGRHREALELFEILEAG-CPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSgFEPDQYMMNRVLLMHVKCGML 174

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  227 TATELFYHEMVKRgfkpNSVTYGIRIDGFCKKRNFGEALRLFEDMDRLDFDITVQILTTLIHGSGVARNKIKARQLFDEI 306
Cdd:PLN03081 175 IDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCV 250

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 15233088  307 SKRGLTPDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKGIepdsVTFHSMFIG 359
Cdd:PLN03081 251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTT----VAWNSMLAG 299
PLN03077 PLN03077
Protein ECB2; Provisional
 206-418 2.78e-08

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 56.40  E-value: 2.78e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  206 FNPDVKTMNILLLGFKEAGDVTATELFYHEMVKRgfkpNSVTYGIRIDGFCKKRNFGEALRLFEDMDRLDFDITVQILTT 285
Cdd:PLN03077 218 FELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITS 293

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  286 LIHGSGVARNKIKARQLFDEISKRGLTPDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKgiepDSVTFHSMFIGMMKSke 365
Cdd:PLN03077 294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKN-- 367

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 15233088  366 fGF-NGVCEYYQKMKERSLVPKTPTIVMLMKLFCHNGEVNLGLDLWKYMLEKGY 418
Cdd:PLN03077 368 -GLpDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL 420
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 239-271 3.56e-08

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: 49.27  E-value: 3.56e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 15233088   239 RGFKPNSVTYGIRIDGFCKKRNFGEALRLFEDM 271
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 266-323 3.98e-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: 46.97  E-value: 3.98e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 15233088   266 RLFEDMDRLDFDITVQILTTLIHGSGVARNKIKARQLFDEISKRGLTPDCGAYNALMS 323
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 243-289 6.26e-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: 46.20  E-value: 6.26e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15233088   243 PNSVTYGIRIDGFCKKRNFGEALRLFEDMDRLDFDITVQILTTLIHG 289
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 317-350 1.90e-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: 44.37  E-value: 1.90e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15233088   317 AYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDS 350
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03077 PLN03077
Protein ECB2; Provisional
 174-418 4.22e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 49.46  E-value: 4.22e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  174 FGVDEFNILLRAFCTEREMKEARSIFEKLHSRfnpDVKTMNILLLGFKEAGDVTATELFYHEMVKRGFKPNSVTYGirid 253
Cdd:PLN03077 119 LGVRLGNAMLSMFVRFGELVHAWYVFGKMPER---DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP---- 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  254 gfCKKRNFGEALRLfedmdrldfditvqilttlihgsgvarnkIKARQLFDEISKRGLTPDCGAYNALMSSLMKCGDVSG 333
Cdd:PLN03077 192 --CVLRTCGGIPDL-----------------------------ARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVS 240

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  334 AIKVMKEMEEKgiepDSVTFHSMFIGMMKskefgfNGVC----EYYQKMKERSLVPKTPTIVMLMKLFCHNGEVNLGLDL 409
Cdd:PLN03077 241 ARLVFDRMPRR----DCISWNAMISGYFE------NGECleglELFFTMRELSVDPDLMTITSVISACELLGDERLGREM 310


                 ....*....
gi 15233088  410 WKYMLEKGY 418
Cdd:PLN03077 311 HGYVVKTGF 319
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 302-360 5.85e-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: 5.85e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15233088   302 LFDEISKRGLTPDCGAYNALMSSLMKCGDVSGAIKVMKEMEEKGIEPDSVTFHSMfIGM 360
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAI-LGV 59
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 317-346 1.11e-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: 39.37  E-value: 1.11e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 15233088   317 AYNALMSSLMKCGDVSGAIKVMKEMEEKGI 346
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 309-342 1.46e-04

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: 38.87  E-value: 1.46e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15233088   309 RGLTPDCGAYNALMSSLMKCGDVSGAIKVMKEME 342
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 246-280 4.33e-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: 37.82  E-value: 4.33e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15233088   246 VTYGIRIDGFCKKRNFGEALRLFEDMDRLDFDITV 280
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 ...
 246-276 8.18e-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: 8.18e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15233088   246 VTYGIRIDGFCKKRNFGEALRLFEDMDRLDF 276
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03077 PLN03077
Protein ECB2; Provisional
 176-350 9.80e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 41.76  E-value: 9.80e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  176 VDEFNILLRAFCTEREMKEARSIFEKL-HSRFNPDVKTMNILLLGFKEAGDVTATELFYHEM-VKRGFKPNSVTYGIRID 253
Cdd:PLN03077 554 VVSWNILLTGYVAHGKGSMAVELFNRMvESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMeEKYSITPNLKHYACVVD 633

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  254 GFCKKRNFGEALRLFEDMDrldFDITVQILTTLIHGSGVARN----KIKARQLFDeiskrgLTPDCGAYNALMSSL-MKC 328
Cdd:PLN03077 634 LLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHvelgELAAQHIFE------LDPNSVGYYILLCNLyADA 704

                        170       180
                 ....*....|....*....|..
gi 15233088  329 GDVSGAIKVMKEMEEKGIEPDS 350
Cdd:PLN03077 705 GKWDEVARVRKTMRENGLTVDP 726
PLN03077 PLN03077
Protein ECB2; Provisional
 167-324 1.26e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 41.37  E-value: 1.26e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  167 KEI----FRKKFGVDEF--NILLRAFCTEREMKEARSIFeKLHSRfnpDVKTMNILLLGFKEAGD-VTATELFyHEMVKR 239
Cdd:PLN03077 509 KEIhahvLRTGIGFDGFlpNALLDLYVRCGRMNYAWNQF-NSHEK---DVVSWNILLTGYVAHGKgSMAVELF-NRMVES 583

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15233088  240 GFKPNSVTYGIRIDGFCKKRNFGEALRLFEDMDRlDFDITvqilTTLIHGSGVARNKIKARQLFDE---ISKRGLTPDCG 316
Cdd:PLN03077 584 GVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEE-KYSIT----PNLKHYACVVDLLGRAGKLTEAynfINKMPITPDPA 658


                 ....*...
gi 15233088  317 AYNALMSS 324
Cdd:PLN03077 659 VWGALLNA 666
 
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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