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Conserved domains on  [gi|651166638|ref|NP_001280556|]
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poly(A) polymerase alpha isoform 4 [Homo sapiens]

Protein Classification

flagellar motor protein MotB( domain architecture ID 13705838)

flagellar motor protein MotB (motility protein B) is required for the rotation of the flagellar motor

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 ...
21-363 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: 650.73  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638   21 GITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 100
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  101 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 180
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  181 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 260
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  261 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 340
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 651166638  341 FKQGLAITDEILLSKAEWSKLFE 363
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PAP_RNA-bind pfam04926
Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the ...
367-495 2.30e-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: 2.30e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  367 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSF------------------------- 421
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFervyvckteeeveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  422 ---------PAPKENPDKEE-------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYrqaiNSKMFEVD-MKIA 484
Cdd:pfam04926  82 grktitnatKVTDENKEDEGdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCK----SWEKYDEEtMSIT 156
                         170
                  ....*....|.
gi 651166638  485 AMHVKRKQLHQ 495
Cdd:pfam04926 157 VRHVKNYDLPD 167
motB super family cl32828
flagellar motor protein MotB; Reviewed
501-645 8.11e-05

flagellar motor protein MotB; Reviewed


The actual alignment was detected with superfamily member PRK12799:

Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 45.86  E-value: 8.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 501 VLQKKKKHSTEGvklTALNDSSLDL-------SMDSDNSMSVPSPTSATKTSPLNSSGSSQGNSPAPAVTAASVTNIQAT 573
Cdd:PRK12799 263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVAAVTPSSAVTQSSAITPSSAAIPSPAVIPSSVTTQSAT 339
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 651166638 574 EVSVPQVNSSESSGGTSSESIPQTATQPAISP-----PPKPTVSRVVSSTRLVNPPPRSSGNAATSGNAATKIPTPI 645
Cdd:PRK12799 340 TTQASAVALSSAGVLPSDVTLPGTVALPAAEPvnmqpQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPT 416
 
Name Accession Description Interval E-value
PAP_central pfam04928
Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural ...
21-363 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: 650.73  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638   21 GITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 100
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  101 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 180
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  181 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 260
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  261 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 340
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 651166638  341 FKQGLAITDEILLSKAEWSKLFE 363
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PTZ00418 PTZ00418
Poly(A) polymerase; Provisional
9-540 0e+00

Poly(A) polymerase; Provisional


Pssm-ID: 240410 [Multi-domain]  Cd Length: 593  Bit Score: 544.39  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638   9 GSQQTQPPQKHYGITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQS 88
Cdd:PTZ00418  41 YLSYSIECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEE 120
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  89 VIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDI 168
Cdd:PTZ00418 121 EASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDL 200
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 169 LFARLALQTIPEDLDL-RDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGV 247
Cdd:PTZ00418 201 LFANLPLPTIPDCLNSlDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGV 280
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 248 SWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECN-----LNLPVWDPRVNPSDRYHLMPIITPAYPQ 322
Cdd:PTZ00418 281 SWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPnipglMNFKVWDPRVNPQDRAHLMPIITPAFPS 360
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 323 QNSTYNVSVSTRMVMVEEFKQGLAITDEI-LLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRIL 401
Cdd:PTZ00418 361 MNSTHNVTYTTKRVITEEFKRAHEIIKYIeKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFL 440
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 402 VGSLEknefiTLAHVNPQSFP-APKENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKmFEVD 480
Cdd:PTZ00418 441 IKKLE-----TLNNLKIRPYPkFFKYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIRDFVDIINNWPEMEK-YPDQ 514
                        490       500       510       520       530       540
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 481 MKIAAMHVKRKQlhqlLPNHVLQKKKKHSTEGVKLTALNDSSLDLSMDSDNSMSVPSPTS 540
Cdd:PTZ00418 515 IDINIKYLKKSQ----LPAFVLSQTPEEPVKTKANTKTNTSSATTSGQSGSSGSTSNSNS 570
PAP1 COG5186
Poly(A) polymerase Pap1 [RNA processing and modification];
94-428 1.32e-59

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


Pssm-ID: 444067 [Multi-domain]  Cd Length: 983  Bit Score: 217.71  E-value: 1.32e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  94 GGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLklQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARL 173
Cdd:COG5186  632 GGVLHVTGSRRLGCALPGSDLDLVAVLPGYLSLEDFETRVRAAL--PEECSSLRRVLDARVPLLRLSLGGLDVDLLYVDV 709
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 174 AlqtiPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPN----IDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSW 249
Cdd:COG5186  710 G----VCPPEEAVARRGERLDEAAARALSGVWDADALLEAVGQegarRERFRTLLRAVKAWAKARGLYSAPFGGLGGLSW 785
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 250 AMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLkQPEEcnlnlpvwdPRVNPSDRYHLMPIITPAYPQQNSTYNV 329
Cdd:COG5186  786 AVLAARTCRDASDKSDGDLLANFFGTWAAWDWRQPIAL-TPSG---------PQYGVPGPRDPVPIITPIAPCRNTARNV 855
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 330 SVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEkne 409
Cdd:COG5186  856 TRSTLEILRDELYRAWEAVERARAERDAWAALFAPPPLHRRHAAWAVVTVEAPDPEGREKALGWVRGRIIALLIALE--- 932
                        330       340
                 ....*....|....*....|
gi 651166638 410 fiTLAHVNPQSFP-APKENP 428
Cdd:COG5186  933 --GDRRAFPRPFPtAPRLAR 950
PAP_RNA-bind pfam04926
Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the ...
367-495 2.30e-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: 2.30e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  367 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSF------------------------- 421
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFervyvckteeeveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  422 ---------PAPKENPDKEE-------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYrqaiNSKMFEVD-MKIA 484
Cdd:pfam04926  82 grktitnatKVTDENKEDEGdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCK----SWEKYDEEtMSIT 156
                         170
                  ....*....|.
gi 651166638  485 AMHVKRKQLHQ 495
Cdd:pfam04926 157 VRHVKNYDLPD 167
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
60-214 2.50e-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: 109.57  E-value: 2.50e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  60 RRILILGKLNNLVKEWireisesknlpqsvieNVGGKIFTFGSYRLGVHTKGADIDALCVAPRH-VDRSDFFTSFYDKLK 138
Cdd:cd05402    1 KREEVLDRLQELIKEW----------------FPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHrVDREDFLRKLAKLLK 64
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 651166638 139 LQEEVKDLRAVEEAFVPVIKLCFD--GIEIDILFARlalqtipedldlrddsllknldircirsLNGCRVTDEILHLV 214
Cdd:cd05402   65 KSGEVVEVEPIINARVPIIKFVDKptGIEVDISFNN----------------------------LNGIRNTKLLRAYV 114
motB PRK12799
flagellar motor protein MotB; Reviewed
501-645 8.11e-05

flagellar motor protein MotB; Reviewed


Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 45.86  E-value: 8.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 501 VLQKKKKHSTEGvklTALNDSSLDL-------SMDSDNSMSVPSPTSATKTSPLNSSGSSQGNSPAPAVTAASVTNIQAT 573
Cdd:PRK12799 263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVAAVTPSSAVTQSSAITPSSAAIPSPAVIPSSVTTQSAT 339
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 651166638 574 EVSVPQVNSSESSGGTSSESIPQTATQPAISP-----PPKPTVSRVVSSTRLVNPPPRSSGNAATSGNAATKIPTPI 645
Cdd:PRK12799 340 TTQASAVALSSAGVLPSDVTLPGTVALPAAEPvnmqpQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPT 416
 
Name Accession Description Interval E-value
PAP_central pfam04928
Poly(A) polymerase central domain; The central domain of Poly(A) polymerase shares structural ...
21-363 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: 650.73  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638   21 GITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 100
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  101 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 180
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  181 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 260
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  261 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 340
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 651166638  341 FKQGLAITDEILLSKAEWSKLFE 363
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PTZ00418 PTZ00418
Poly(A) polymerase; Provisional
9-540 0e+00

Poly(A) polymerase; Provisional


Pssm-ID: 240410 [Multi-domain]  Cd Length: 593  Bit Score: 544.39  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638   9 GSQQTQPPQKHYGITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQS 88
Cdd:PTZ00418  41 YLSYSIECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEE 120
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  89 VIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDI 168
Cdd:PTZ00418 121 EASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDL 200
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 169 LFARLALQTIPEDLDL-RDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGV 247
Cdd:PTZ00418 201 LFANLPLPTIPDCLNSlDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGV 280
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 248 SWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECN-----LNLPVWDPRVNPSDRYHLMPIITPAYPQ 322
Cdd:PTZ00418 281 SWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPnipglMNFKVWDPRVNPQDRAHLMPIITPAFPS 360
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 323 QNSTYNVSVSTRMVMVEEFKQGLAITDEI-LLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRIL 401
Cdd:PTZ00418 361 MNSTHNVTYTTKRVITEEFKRAHEIIKYIeKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFL 440
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 402 VGSLEknefiTLAHVNPQSFP-APKENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKmFEVD 480
Cdd:PTZ00418 441 IKKLE-----TLNNLKIRPYPkFFKYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIRDFVDIINNWPEMEK-YPDQ 514
                        490       500       510       520       530       540
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 481 MKIAAMHVKRKQlhqlLPNHVLQKKKKHSTEGVKLTALNDSSLDLSMDSDNSMSVPSPTS 540
Cdd:PTZ00418 515 IDINIKYLKKSQ----LPAFVLSQTPEEPVKTKANTKTNTSSATTSGQSGSSGSTSNSNS 570
PAP1 COG5186
Poly(A) polymerase Pap1 [RNA processing and modification];
94-428 1.32e-59

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


Pssm-ID: 444067 [Multi-domain]  Cd Length: 983  Bit Score: 217.71  E-value: 1.32e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  94 GGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLklQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARL 173
Cdd:COG5186  632 GGVLHVTGSRRLGCALPGSDLDLVAVLPGYLSLEDFETRVRAAL--PEECSSLRRVLDARVPLLRLSLGGLDVDLLYVDV 709
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 174 AlqtiPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPN----IDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSW 249
Cdd:COG5186  710 G----VCPPEEAVARRGERLDEAAARALSGVWDADALLEAVGQegarRERFRTLLRAVKAWAKARGLYSAPFGGLGGLSW 785
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 250 AMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLkQPEEcnlnlpvwdPRVNPSDRYHLMPIITPAYPQQNSTYNV 329
Cdd:COG5186  786 AVLAARTCRDASDKSDGDLLANFFGTWAAWDWRQPIAL-TPSG---------PQYGVPGPRDPVPIITPIAPCRNTARNV 855
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 330 SVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEkne 409
Cdd:COG5186  856 TRSTLEILRDELYRAWEAVERARAERDAWAALFAPPPLHRRHAAWAVVTVEAPDPEGREKALGWVRGRIIALLIALE--- 932
                        330       340
                 ....*....|....*....|
gi 651166638 410 fiTLAHVNPQSFP-APKENP 428
Cdd:COG5186  933 --GDRRAFPRPFPtAPRLAR 950
PAP_RNA-bind pfam04926
Poly(A) polymerase predicted RNA binding domain; Based on its similarity structurally to the ...
367-495 2.30e-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: 2.30e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  367 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSF------------------------- 421
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFervyvckteeeveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  422 ---------PAPKENPDKEE-------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYrqaiNSKMFEVD-MKIA 484
Cdd:pfam04926  82 grktitnatKVTDENKEDEGdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCK----SWEKYDEEtMSIT 156
                         170
                  ....*....|.
gi 651166638  485 AMHVKRKQLHQ 495
Cdd:pfam04926 157 VRHVKNYDLPD 167
NT_PAP_TUTase cd05402
Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases; ...
60-214 2.50e-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: 109.57  E-value: 2.50e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  60 RRILILGKLNNLVKEWireisesknlpqsvieNVGGKIFTFGSYRLGVHTKGADIDALCVAPRH-VDRSDFFTSFYDKLK 138
Cdd:cd05402    1 KREEVLDRLQELIKEW----------------FPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHrVDREDFLRKLAKLLK 64
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 651166638 139 LQEEVKDLRAVEEAFVPVIKLCFD--GIEIDILFARlalqtipedldlrddsllknldircirsLNGCRVTDEILHLV 214
Cdd:cd05402   65 KSGEVVEVEPIINARVPIIKFVDKptGIEVDISFNN----------------------------LNGIRNTKLLRAYV 114
NTP_transf_2 pfam01909
Nucleotidyltransferase domain; Members of this family belong to a large family of ...
83-175 5.92e-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: 5.92e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638   83 KNLPQSVIENVGG-KIFTFGSYRLGVHTKGADIDALCVAPRHVDrsdfFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCF 161
Cdd:pfam01909   2 RKLREILKELFPVaEVVLFGSYARGTALPGSDIDLLVVFPEPVE----EERLLKLAKIIKELEELLGLEVDLVTREKIEF 77
                          90
                  ....*....|....
gi 651166638  162 DGIEIDILFARLAL 175
Cdd:pfam01909  78 PLVKIDILEERILL 91
motB PRK12799
flagellar motor protein MotB; Reviewed
501-645 8.11e-05

flagellar motor protein MotB; Reviewed


Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 45.86  E-value: 8.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638 501 VLQKKKKHSTEGvklTALNDSSLDL-------SMDSDNSMSVPSPTSATKTSPLNSSGSSQGNSPAPAVTAASVTNIQAT 573
Cdd:PRK12799 263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVAAVTPSSAVTQSSAITPSSAAIPSPAVIPSSVTTQSAT 339
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 651166638 574 EVSVPQVNSSESSGGTSSESIPQTATQPAISP-----PPKPTVSRVVSSTRLVNPPPRSSGNAATSGNAATKIPTPI 645
Cdd:PRK12799 340 TTQASAVALSSAGVLPSDVTLPGTVALPAAEPvnmqpQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPT 416
TRF4 COG5260
DNA polymerase sigma [Replication, recombination and repair];
56-172 6.33e-04

DNA polymerase sigma [Replication, recombination and repair];


Pssm-ID: 227585 [Multi-domain]  Cd Length: 482  Bit Score: 42.84  E-value: 6.33e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651166638  56 EELQRRILILGKLNNLVKewiREISESknlpqsvienvggKIFTFGSYRLGVHTKGADIDaLCV-APRHVDRSDF-FTSF 133
Cdd:COG5260   73 EELKRRKALLEKLRTLLK---KEFPDA-------------DLKVFGSTETGLALPKSDID-LCIiSDPRGYKETRnAGSL 135
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 651166638 134 YDKLKLQEEVKDLRAVEEAFVPVIKLcFD---GIEIDILFAR 172
Cdd:COG5260  136 ASHLFKKNLAKEVVVVSTARVPIIKL-VDpqsGLHCDISFNN 176
 
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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