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Conserved domains on  [gi|1958783391|ref|XP_038968319|]
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poly(A) polymerase alpha isoform X2 [Rattus norvegicus]

Protein Classification

polynucleotide adenylyltransferase( domain architecture ID 13705838)

polynucleotide adenylyltransferase is responsible for the post-transcriptional adenylation of the 3'-terminal of mRNA precursors and several small RNAs including signal recognition particle (SRP) RNA, nuclear 7SK RNA, U2 small nuclear RNA, and ribosomal 5S RNA

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PAP_central pfam04928
Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural ...
36-378 0e+00

Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta- sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.


:

Pssm-ID: 461486 [Multi-domain]  Cd Length: 344  Bit Score: 648.42  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  36 GITSPISLAAPKETDCLLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 115
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 116 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 195
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 196 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 275
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 276 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 355
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 1958783391 356 FKQGLAITDEILLSKAEWSKLFE 378
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PAP_RNA-bind pfam04926
Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the ...
382-510 2.65e-31

Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the RNA recognition motif this domain is thought to be RNA binding.


:

Pssm-ID: 461484  Cd Length: 177  Bit Score: 120.47  E-value: 2.65e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 382 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKESPDREE-------------- 447
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFERVYVCKTEEEveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 448 ---------------------------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYRqaiNSKMFELDMKIAA 500
Cdd:pfam04926  82 grktitnatkvtdenkedegdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCKS---WEKYDEETMSITV 157
                         170
                  ....*....|
gi 1958783391 501 MHVKRKQLHQ 510
Cdd:pfam04926 158 RHVKNYDLPD 167
motB super family cl32828
flagellar motor protein MotB; Reviewed
516-661 2.08e-04

flagellar motor protein MotB; Reviewed


The actual alignment was detected with superfamily member PRK12799:

Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 44.32  E-value: 2.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 516 VLQKRKKHSTEGvklAALNDSSLDL-------SMDSDNSMSVPSPTSAMKTSPLNSSGSSQGNSPAPAVTAASVTSIQAS 588
Cdd:PRK12799  263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVAAVTPSSAVTQSSAITPSSAAIPSPAVIPSSVTTQSAT 339
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958783391 589 EVSVPQANSSESPGGPSSESIPQTATQPAISP-----PPKPTVSRVVSSTRLVNPSPRPSGNAATKVPNPIVGVKRTS 661
Cdd:PRK12799  340 TTQASAVALSSAGVLPSDVTLPGTVALPAAEPvnmqpQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPTS 417
 
Name Accession Description Interval E-value
PAP_central pfam04928
Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural ...
36-378 0e+00

Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta- sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.


Pssm-ID: 461486 [Multi-domain]  Cd Length: 344  Bit Score: 648.42  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  36 GITSPISLAAPKETDCLLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 115
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 116 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 195
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 196 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 275
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 276 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 355
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 1958783391 356 FKQGLAITDEILLSKAEWSKLFE 378
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PTZ00418 PTZ00418
Poly(A) polymerase; Provisional
7-555 0e+00

Poly(A) polymerase; Provisional


Pssm-ID: 240410 [Multi-domain]  Cd Length: 593  Bit Score: 544.78  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391   7 LVPYFRFPPRNGPVTTQGSQQTQPPQRHYGITSPISLAAPKETDCLLTQKLIETLKPFGVFEEEEELQRRILILGKLNNL 86
Cdd:PTZ00418   24 IEAFSQLSSSKSENEETYLSYSIECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKL 103
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  87 VKEWIREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEE 166
Cdd:PTZ00418  104 VREFVVEASIEQGINEEEASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRESFFSDFYAKLQQDPNITKLQPVPD 183
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 167 AFVPVIKLCFDGIEIDILFARLALQTIPEDLDL-RDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLW 245
Cdd:PTZ00418  184 AYTPVIKFVYDGIDIDLLFANLPLPTIPDCLNSlDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLW 263
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 246 AKRHNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECN-----LNLPVWDPRVN 320
Cdd:PTZ00418  264 AKRRGIYSNVLGYLGGVSWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPnipglMNFKVWDPRVN 343
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 321 PSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEI-LLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTE 399
Cdd:PTZ00418  344 PQDRAHLMPIITPAFPSMNSTHNVTYTTKRVITEEFKRAHEIIKYIeKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNE 423
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 400 KQRLEWVGLVESKIRILVGSLEKNEFITLAhvnpqsfPAPK---ESPDREEFRTMWVIGLVFKKTENSENLSVDLTYDIQ 476
Cdd:PTZ00418  424 HVHNKWEGWIESKIRFLIKKLETLNNLKIR-------PYPKffkYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIR 496
                         490       500       510       520       530       540       550
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958783391 477 SFTDTVYRQAINSKmFELDMKIAAMHVKRKQlhqlLPSHVLQKRKKHSTEGVKLAALNDSSLDLSMDSDNSMSVPSPTS 555
Cdd:PTZ00418  497 DFVDIINNWPEMEK-YPDQIDINIKYLKKSQ----LPAFVLSQTPEEPVKTKANTKTNTSSATTSGQSGSSGSTSNSNS 570
PAP1 COG5186
Poly(A) polymerase Pap1 [RNA processing and modification];
109-443 1.89e-58

Poly(A) polymerase Pap1 [RNA processing and modification];


Pssm-ID: 444067 [Multi-domain]  Cd Length: 983  Bit Score: 215.01  E-value: 1.89e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 109 GGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLklQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARL 188
Cdd:COG5186   632 GGVLHVTGSRRLGCALPGSDLDLVAVLPGYLSLEDFETRVRAAL--PEECSSLRRVLDARVPLLRLSLGGLDVDLLYVDV 709
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 189 AlqtiPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPN----IDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSW 264
Cdd:COG5186   710 G----VCPPEEAVARRGERLDEAAARALSGVWDADALLEAVGQegarRERFRTLLRAVKAWAKARGLYSAPFGGLGGLSW 785
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 265 AMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLkQPEEcnlnlpvwdPRVNPSDRYHLMPIITPAYPQQNSTYNV 344
Cdd:COG5186   786 AVLAARTCRDASDKSDGDLLANFFGTWAAWDWRQPIAL-TPSG---------PQYGVPGPRDPVPIITPIAPCRNTARNV 855
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 345 SVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEkne 424
Cdd:COG5186   856 TRSTLEILRDELYRAWEAVERARAERDAWAALFAPPPLHRRHAAWAVVTVEAPDPEGREKALGWVRGRIIALLIALE--- 932
                         330       340
                  ....*....|....*....|
gi 1958783391 425 fiTLAHVNPQSFP-APKESP 443
Cdd:COG5186   933 --GDRRAFPRPFPtAPRLAR 950
PAP_RNA-bind pfam04926
Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the ...
382-510 2.65e-31

Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the RNA recognition motif this domain is thought to be RNA binding.


Pssm-ID: 461484  Cd Length: 177  Bit Score: 120.47  E-value: 2.65e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 382 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKESPDREE-------------- 447
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFERVYVCKTEEEveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 448 ---------------------------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYRqaiNSKMFELDMKIAA 500
Cdd:pfam04926  82 grktitnatkvtdenkedegdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCKS---WEKYDEETMSITV 157
                         170
                  ....*....|
gi 1958783391 501 MHVKRKQLHQ 510
Cdd:pfam04926 158 RHVKNYDLPD 167
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
75-229 1.30e-28

Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxylate residues are conserved.


Pssm-ID: 143392 [Multi-domain]  Cd Length: 114  Bit Score: 110.34  E-value: 1.30e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  75 RRILILGKLNNLVKEWireisesknlpqsvieNVGGKIFTFGSYRLGVHTKGADIDALCVAPRH-VDRSDFFTSFYDKLK 153
Cdd:cd05402     1 KREEVLDRLQELIKEW----------------FPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHrVDREDFLRKLAKLLK 64
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958783391 154 LQEEVKDLRAVEEAFVPVIKLCFD--GIEIDILFARlalqtipedldlrddsllknldircirsLNGCRVTDEILHLV 229
Cdd:cd05402    65 KSGEVVEVEPIINARVPIIKFVDKptGIEVDISFNN----------------------------LNGIRNTKLLRAYV 114
motB PRK12799
flagellar motor protein MotB; Reviewed
516-661 2.08e-04

flagellar motor protein MotB; Reviewed


Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 44.32  E-value: 2.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 516 VLQKRKKHSTEGvklAALNDSSLDL-------SMDSDNSMSVPSPTSAMKTSPLNSSGSSQGNSPAPAVTAASVTSIQAS 588
Cdd:PRK12799  263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVAAVTPSSAVTQSSAITPSSAAIPSPAVIPSSVTTQSAT 339
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958783391 589 EVSVPQANSSESPGGPSSESIPQTATQPAISP-----PPKPTVSRVVSSTRLVNPSPRPSGNAATKVPNPIVGVKRTS 661
Cdd:PRK12799  340 TTQASAVALSSAGVLPSDVTLPGTVALPAAEPvnmqpQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPTS 417
DamX COG3266
Cell division protein DamX, binds to the septal ring, contains C-terminal SPOR domain [Cell ...
508-662 1.63e-03

Cell division protein DamX, binds to the septal ring, contains C-terminal SPOR domain [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 442497 [Multi-domain]  Cd Length: 455  Bit Score: 41.76  E-value: 1.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 508 LHQLLPSHVLQKRKKHSTEGVKLAALNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNSSgssqgnsPAPAVTAASVTSIQA 587
Cdd:COG3266   224 AELAALALLAAGAAEVLTARLVLLLLIIGSALKAPSQASSASAPATTSLGEQQEVSLP-------PAVAAQPAAAAAAQP 296
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958783391 588 SEVSVPQANSSespggpssesiPQTATQPAISPPPKPTVSRVVSSTRLVNPSPRPSGNAATKVPNPIVGVKRTSS 662
Cdd:COG3266   297 SAVALPAAPAA-----------AAAAAAPAEAAAPQPTAAKPVVTETAAPAAPAPEAAAAAAAPAAPAVAKKLAA 360
 
Name Accession Description Interval E-value
PAP_central pfam04928
Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural ...
36-378 0e+00

Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta- sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.


Pssm-ID: 461486 [Multi-domain]  Cd Length: 344  Bit Score: 648.42  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  36 GITSPISLAAPKETDCLLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 115
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 116 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 195
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 196 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 275
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 276 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 355
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 1958783391 356 FKQGLAITDEILLSKAEWSKLFE 378
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PTZ00418 PTZ00418
Poly(A) polymerase; Provisional
7-555 0e+00

Poly(A) polymerase; Provisional


Pssm-ID: 240410 [Multi-domain]  Cd Length: 593  Bit Score: 544.78  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391   7 LVPYFRFPPRNGPVTTQGSQQTQPPQRHYGITSPISLAAPKETDCLLTQKLIETLKPFGVFEEEEELQRRILILGKLNNL 86
Cdd:PTZ00418   24 IEAFSQLSSSKSENEETYLSYSIECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKL 103
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  87 VKEWIREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEE 166
Cdd:PTZ00418  104 VREFVVEASIEQGINEEEASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRESFFSDFYAKLQQDPNITKLQPVPD 183
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 167 AFVPVIKLCFDGIEIDILFARLALQTIPEDLDL-RDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLW 245
Cdd:PTZ00418  184 AYTPVIKFVYDGIDIDLLFANLPLPTIPDCLNSlDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLW 263
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 246 AKRHNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECN-----LNLPVWDPRVN 320
Cdd:PTZ00418  264 AKRRGIYSNVLGYLGGVSWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPnipglMNFKVWDPRVN 343
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 321 PSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEI-LLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTE 399
Cdd:PTZ00418  344 PQDRAHLMPIITPAFPSMNSTHNVTYTTKRVITEEFKRAHEIIKYIeKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNE 423
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 400 KQRLEWVGLVESKIRILVGSLEKNEFITLAhvnpqsfPAPK---ESPDREEFRTMWVIGLVFKKTENSENLSVDLTYDIQ 476
Cdd:PTZ00418  424 HVHNKWEGWIESKIRFLIKKLETLNNLKIR-------PYPKffkYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIR 496
                         490       500       510       520       530       540       550
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958783391 477 SFTDTVYRQAINSKmFELDMKIAAMHVKRKQlhqlLPSHVLQKRKKHSTEGVKLAALNDSSLDLSMDSDNSMSVPSPTS 555
Cdd:PTZ00418  497 DFVDIINNWPEMEK-YPDQIDINIKYLKKSQ----LPAFVLSQTPEEPVKTKANTKTNTSSATTSGQSGSSGSTSNSNS 570
PAP1 COG5186
Poly(A) polymerase Pap1 [RNA processing and modification];
109-443 1.89e-58

Poly(A) polymerase Pap1 [RNA processing and modification];


Pssm-ID: 444067 [Multi-domain]  Cd Length: 983  Bit Score: 215.01  E-value: 1.89e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 109 GGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLklQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARL 188
Cdd:COG5186   632 GGVLHVTGSRRLGCALPGSDLDLVAVLPGYLSLEDFETRVRAAL--PEECSSLRRVLDARVPLLRLSLGGLDVDLLYVDV 709
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 189 AlqtiPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPN----IDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSW 264
Cdd:COG5186   710 G----VCPPEEAVARRGERLDEAAARALSGVWDADALLEAVGQegarRERFRTLLRAVKAWAKARGLYSAPFGGLGGLSW 785
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 265 AMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLkQPEEcnlnlpvwdPRVNPSDRYHLMPIITPAYPQQNSTYNV 344
Cdd:COG5186   786 AVLAARTCRDASDKSDGDLLANFFGTWAAWDWRQPIAL-TPSG---------PQYGVPGPRDPVPIITPIAPCRNTARNV 855
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 345 SVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEkne 424
Cdd:COG5186   856 TRSTLEILRDELYRAWEAVERARAERDAWAALFAPPPLHRRHAAWAVVTVEAPDPEGREKALGWVRGRIIALLIALE--- 932
                         330       340
                  ....*....|....*....|
gi 1958783391 425 fiTLAHVNPQSFP-APKESP 443
Cdd:COG5186   933 --GDRRAFPRPFPtAPRLAR 950
PAP_RNA-bind pfam04926
Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the ...
382-510 2.65e-31

Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the RNA recognition motif this domain is thought to be RNA binding.


Pssm-ID: 461484  Cd Length: 177  Bit Score: 120.47  E-value: 2.65e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 382 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKESPDREE-------------- 447
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFERVYVCKTEEEveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 448 ---------------------------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYRqaiNSKMFELDMKIAA 500
Cdd:pfam04926  82 grktitnatkvtdenkedegdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCKS---WEKYDEETMSITV 157
                         170
                  ....*....|
gi 1958783391 501 MHVKRKQLHQ 510
Cdd:pfam04926 158 RHVKNYDLPD 167
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
75-229 1.30e-28

Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxylate residues are conserved.


Pssm-ID: 143392 [Multi-domain]  Cd Length: 114  Bit Score: 110.34  E-value: 1.30e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  75 RRILILGKLNNLVKEWireisesknlpqsvieNVGGKIFTFGSYRLGVHTKGADIDALCVAPRH-VDRSDFFTSFYDKLK 153
Cdd:cd05402     1 KREEVLDRLQELIKEW----------------FPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHrVDREDFLRKLAKLLK 64
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958783391 154 LQEEVKDLRAVEEAFVPVIKLCFD--GIEIDILFARlalqtipedldlrddsllknldircirsLNGCRVTDEILHLV 229
Cdd:cd05402    65 KSGEVVEVEPIINARVPIIKFVDKptGIEVDISFNN----------------------------LNGIRNTKLLRAYV 114
NTP_transf_2 pfam01909
Nucleotidyltransferase domain; Members of this family belong to a large family of ...
98-190 6.04e-14

Nucleotidyltransferase domain; Members of this family belong to a large family of nucleotidyltransferases. This family includes kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTase in-activates antibiotics by catalysing the addition of a nucleotidyl group onto the drug.


Pssm-ID: 396474  Cd Length: 91  Bit Score: 67.83  E-value: 6.04e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  98 KNLPQSVIENVGG-KIFTFGSYRLGVHTKGADIDALCVAPRHVDrsdfFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCF 176
Cdd:pfam01909   2 RKLREILKELFPVaEVVLFGSYARGTALPGSDIDLLVVFPEPVE----EERLLKLAKIIKELEELLGLEVDLVTREKIEF 77
                          90
                  ....*....|....
gi 1958783391 177 DGIEIDILFARLAL 190
Cdd:pfam01909  78 PLVKIDILEERILL 91
motB PRK12799
flagellar motor protein MotB; Reviewed
516-661 2.08e-04

flagellar motor protein MotB; Reviewed


Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 44.32  E-value: 2.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 516 VLQKRKKHSTEGvklAALNDSSLDL-------SMDSDNSMSVPSPTSAMKTSPLNSSGSSQGNSPAPAVTAASVTSIQAS 588
Cdd:PRK12799  263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVAAVTPSSAVTQSSAITPSSAAIPSPAVIPSSVTTQSAT 339
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958783391 589 EVSVPQANSSESPGGPSSESIPQTATQPAISP-----PPKPTVSRVVSSTRLVNPSPRPSGNAATKVPNPIVGVKRTS 661
Cdd:PRK12799  340 TTQASAVALSSAGVLPSDVTLPGTVALPAAEPvnmqpQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPTS 417
TRF4 COG5260
DNA polymerase sigma [Replication, recombination and repair];
71-187 4.46e-04

DNA polymerase sigma [Replication, recombination and repair];


Pssm-ID: 227585 [Multi-domain]  Cd Length: 482  Bit Score: 43.61  E-value: 4.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391  71 EELQRRILILGKLNNLVKewiREISESknlpqsvienvggKIFTFGSYRLGVHTKGADIDaLCV-APRHVDRSDF-FTSF 148
Cdd:COG5260    73 EELKRRKALLEKLRTLLK---KEFPDA-------------DLKVFGSTETGLALPKSDID-LCIiSDPRGYKETRnAGSL 135
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1958783391 149 YDKLKLQEEVKDLRAVEEAFVPVIKLcFD---GIEIDILFAR 187
Cdd:COG5260   136 ASHLFKKNLAKEVVVVSTARVPIIKL-VDpqsGLHCDISFNN 176
DamX COG3266
Cell division protein DamX, binds to the septal ring, contains C-terminal SPOR domain [Cell ...
508-662 1.63e-03

Cell division protein DamX, binds to the septal ring, contains C-terminal SPOR domain [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 442497 [Multi-domain]  Cd Length: 455  Bit Score: 41.76  E-value: 1.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783391 508 LHQLLPSHVLQKRKKHSTEGVKLAALNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNSSgssqgnsPAPAVTAASVTSIQA 587
Cdd:COG3266   224 AELAALALLAAGAAEVLTARLVLLLLIIGSALKAPSQASSASAPATTSLGEQQEVSLP-------PAVAAQPAAAAAAQP 296
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958783391 588 SEVSVPQANSSespggpssesiPQTATQPAISPPPKPTVSRVVSSTRLVNPSPRPSGNAATKVPNPIVGVKRTSS 662
Cdd:COG3266   297 SAVALPAAPAA-----------AAAAAAPAEAAAPQPTAAKPVVTETAAPAAPAPEAAAAAAAPAAPAVAKKLAA 360
 
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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