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Conserved domains on  [gi|1393428056|ref|NP_001350591|]
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poly(A) polymerase alpha isoform 6 [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: 650.35  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  21 GITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 100
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 101 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 180
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 181 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 260
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 261 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 340
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 1393428056 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 1.40e-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: 121.24  E-value: 1.40e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 367 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSF------------------------- 421
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFervyvckteeeveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 422 ---------PAPKENPDKEE-------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYrqaiNSKMFEVD-MKIA 484
Cdd:pfam04926  82 grktitnatKVTDENKEDEGdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCK----SWEKYDEEtMSIT 156
                         170
                  ....*....|.
gi 1393428056 485 AMHVKRKQLHQ 495
Cdd:pfam04926 157 VRHVKNYDLPD 167
motB super family cl32828
flagellar motor protein MotB; Reviewed
501-646 1.49e-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: 44.71  E-value: 1.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 501 VLQKKKKHSTEGvklTALNDSSLDL-------SMDSDNSMSV--PSPTSATKTS---PLNSSGSSQGRNSPAPaVTAASV 568
Cdd:PRK12799  263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVaaVTPSSAVTQSsaiTPSSAAIPSPAVIPSS-VTTQSA 338
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1393428056 569 TNIQATEVSVPQVNSSESSGGTSSESIPQTATQPAISPPPKPTVSRVVSSTRLVNPPPRSSGNAATSGNAATKIPTPI 646
Cdd:PRK12799  339 TTTQASAVALSSAGVLPSDVTLPGTVALPAAEPVNMQPQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPT 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: 650.35  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  21 GITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 100
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 101 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 180
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 181 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 260
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 261 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 340
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 1393428056 341 FKQGLAITDEILLSKAEWSKLFE 363
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PTZ00418 PTZ00418
Poly(A) polymerase; Provisional
9-567 0e+00

Poly(A) polymerase; Provisional


Pssm-ID: 240410 [Multi-domain]  Cd Length: 593  Bit Score: 548.25  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056   9 GSQQTQPPQKHYGITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQS 88
Cdd:PTZ00418   41 YLSYSIECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEE 120
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  89 VIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDI 168
Cdd:PTZ00418  121 EASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDL 200
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 169 LFARLALQTIPEDLDL-RDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGV 247
Cdd:PTZ00418  201 LFANLPLPTIPDCLNSlDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGV 280
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 248 SWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECN-----LNLPVWDPRVNPSDRYHLMPIITPAYPQ 322
Cdd:PTZ00418  281 SWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPnipglMNFKVWDPRVNPQDRAHLMPIITPAFPS 360
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 323 QNSTYNVSVSTRMVMVEEFKQGLAITDEI-LLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRIL 401
Cdd:PTZ00418  361 MNSTHNVTYTTKRVITEEFKRAHEIIKYIeKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFL 440
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 402 VGSLEknefiTLAHVNPQSFP-APKENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKmFEVD 480
Cdd:PTZ00418  441 IKKLE-----TLNNLKIRPYPkFFKYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIRDFVDIINNWPEMEK-YPDQ 514
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 481 MKIAAMHVKRKQlhqlLPNHVLQKKKkhstEGVKLTALNDSSLDLSMDSDNSMSVPSPTSATKTSPLNSSGSSQGrnSPA 560
Cdd:PTZ00418  515 IDINIKYLKKSQ----LPAFVLSQTP----EEPVKTKANTKTNTSSATTSGQSGSSGSTSNSNSNESSPTMSSTE--LLN 584

                  ....*..
gi 1393428056 561 PAVTAAS 567
Cdd:PTZ00418  585 VSSTSTT 591
PAP1 COG5186
Poly(A) polymerase Pap1 [RNA processing and modification];
94-428 9.59e-60

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


Pssm-ID: 444067 [Multi-domain]  Cd Length: 983  Bit Score: 217.71  E-value: 9.59e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  94 GGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLklQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARL 173
Cdd:COG5186   632 GGVLHVTGSRRLGCALPGSDLDLVAVLPGYLSLEDFETRVRAAL--PEECSSLRRVLDARVPLLRLSLGGLDVDLLYVDV 709
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 174 AlqtiPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPN----IDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSW 249
Cdd:COG5186   710 G----VCPPEEAVARRGERLDEAAARALSGVWDADALLEAVGQegarRERFRTLLRAVKAWAKARGLYSAPFGGLGGLSW 785
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 250 AMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLkQPEEcnlnlpvwdPRVNPSDRYHLMPIITPAYPQQNSTYNV 329
Cdd:COG5186   786 AVLAARTCRDASDKSDGDLLANFFGTWAAWDWRQPIAL-TPSG---------PQYGVPGPRDPVPIITPIAPCRNTARNV 855
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 330 SVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEkne 409
Cdd:COG5186   856 TRSTLEILRDELYRAWEAVERARAERDAWAALFAPPPLHRRHAAWAVVTVEAPDPEGREKALGWVRGRIIALLIALE--- 932
                         330       340
                  ....*....|....*....|
gi 1393428056 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 1.40e-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: 121.24  E-value: 1.40e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 367 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSF------------------------- 421
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFervyvckteeeveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 422 ---------PAPKENPDKEE-------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYrqaiNSKMFEVD-MKIA 484
Cdd:pfam04926  82 grktitnatKVTDENKEDEGdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCK----SWEKYDEEtMSIT 156
                         170
                  ....*....|.
gi 1393428056 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 2.83e-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: 2.83e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  60 RRILILGKLNNLVKEWireisesknlpqsvieNVGGKIFTFGSYRLGVHTKGADIDALCVAPRH-VDRSDFFTSFYDKLK 138
Cdd:cd05402     1 KREEVLDRLQELIKEW----------------FPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHrVDREDFLRKLAKLLK 64
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1393428056 139 LQEEVKDLRAVEEAFVPVIKLCFD--GIEIDILFARlalqtipedldlrddsllknldircirsLNGCRVTDEILHLV 214
Cdd:cd05402    65 KSGEVVEVEPIINARVPIIKFVDKptGIEVDISFNN----------------------------LNGIRNTKLLRAYV 114
motB PRK12799
flagellar motor protein MotB; Reviewed
501-646 1.49e-04

flagellar motor protein MotB; Reviewed


Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 44.71  E-value: 1.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 501 VLQKKKKHSTEGvklTALNDSSLDL-------SMDSDNSMSV--PSPTSATKTS---PLNSSGSSQGRNSPAPaVTAASV 568
Cdd:PRK12799  263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVaaVTPSSAVTQSsaiTPSSAAIPSPAVIPSS-VTTQSA 338
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1393428056 569 TNIQATEVSVPQVNSSESSGGTSSESIPQTATQPAISPPPKPTVSRVVSSTRLVNPPPRSSGNAATSGNAATKIPTPI 646
Cdd:PRK12799  339 TTTQASAVALSSAGVLPSDVTLPGTVALPAAEPVNMQPQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPT 416
Herpes_BLLF1 pfam05109
Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ...
537-643 8.29e-03

Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 viral late glycoprotein, also termed gp350/220. It is the most abundantly expressed glycoprotein in the viral envelope of the Herpesviruses and is the major antigen responsible for stimulating the production of neutralising antibodies in vivo.


Pssm-ID: 282904 [Multi-domain]  Cd Length: 886  Bit Score: 39.51  E-value: 8.29e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 537 SPTSATKTSPLNSSGSSQGRNSPAPAVTAASvtniqaTEVSVPQVNSSESSGGTSSESIPQTATQPAISPPPKPTVSRVV 616
Cdd:pfam05109 557 SPTPAVTTPTPNATIPTLGKTSPTSAVTTPT------PNATSPTVGETSPQANTTNHTLGGTSSTPVVTSPPKNATSAVT 630
                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1393428056 617 --------SSTRLVNPPPRS---SGNAATSGNAATKIP 643
Cdd:pfam05109 631 tgqhnitsSSTSSMSLRPSSiseTLSPSTSDNSTSHMP 668
 
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: 650.35  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  21 GITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTF 100
Cdd:pfam04928   1 GVTPPISTAGPTEADLKLTDELIEELKAQGLFESEEETQKREEVLGKLNKLVKEFVKRVSKEKGLPESVAKEAGGKIFTF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 101 GSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPE 180
Cdd:pfam04928  81 GSYRLGVHGPGSDIDTLCVVPKHVTREDFFTSFLEMLRERPEVTELTAVPDAFVPVIKFKFSGISIDLLFARLALPSVPD 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 181 DLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY 260
Cdd:pfam04928 161 DLDLSDDNLLRNLDEKCVRSLNGCRVTDEILRLVPNVETFRTALRAIKLWAKRRGIYSNVLGFPGGVAWAMLVARICQLY 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 261 PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEE 340
Cdd:pfam04928 241 PNAAPSTLVSKFFRIFSQWKWPQPVLLKPIEEGPLQLRVWNPRINPSDRFHLMPIITPAYPSMNSTHNVSRSTLEVIKEE 320
                         330       340
                  ....*....|....*....|...
gi 1393428056 341 FKQGLAITDEILLSKAEWSKLFE 363
Cdd:pfam04928 321 FKRGLEITDEIMLGKAPWKDLFE 343
PTZ00418 PTZ00418
Poly(A) polymerase; Provisional
9-567 0e+00

Poly(A) polymerase; Provisional


Pssm-ID: 240410 [Multi-domain]  Cd Length: 593  Bit Score: 548.25  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056   9 GSQQTQPPQKHYGITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQS 88
Cdd:PTZ00418   41 YLSYSIECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEE 120
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  89 VIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDI 168
Cdd:PTZ00418  121 EASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDL 200
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 169 LFARLALQTIPEDLDL-RDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGV 247
Cdd:PTZ00418  201 LFANLPLPTIPDCLNSlDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGV 280
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 248 SWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECN-----LNLPVWDPRVNPSDRYHLMPIITPAYPQ 322
Cdd:PTZ00418  281 SWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPnipglMNFKVWDPRVNPQDRAHLMPIITPAFPS 360
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 323 QNSTYNVSVSTRMVMVEEFKQGLAITDEI-LLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRIL 401
Cdd:PTZ00418  361 MNSTHNVTYTTKRVITEEFKRAHEIIKYIeKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFL 440
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 402 VGSLEknefiTLAHVNPQSFP-APKENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKmFEVD 480
Cdd:PTZ00418  441 IKKLE-----TLNNLKIRPYPkFFKYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIRDFVDIINNWPEMEK-YPDQ 514
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 481 MKIAAMHVKRKQlhqlLPNHVLQKKKkhstEGVKLTALNDSSLDLSMDSDNSMSVPSPTSATKTSPLNSSGSSQGrnSPA 560
Cdd:PTZ00418  515 IDINIKYLKKSQ----LPAFVLSQTP----EEPVKTKANTKTNTSSATTSGQSGSSGSTSNSNSNESSPTMSSTE--LLN 584

                  ....*..
gi 1393428056 561 PAVTAAS 567
Cdd:PTZ00418  585 VSSTSTT 591
PAP1 COG5186
Poly(A) polymerase Pap1 [RNA processing and modification];
94-428 9.59e-60

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


Pssm-ID: 444067 [Multi-domain]  Cd Length: 983  Bit Score: 217.71  E-value: 9.59e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  94 GGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLklQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARL 173
Cdd:COG5186   632 GGVLHVTGSRRLGCALPGSDLDLVAVLPGYLSLEDFETRVRAAL--PEECSSLRRVLDARVPLLRLSLGGLDVDLLYVDV 709
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 174 AlqtiPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPN----IDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSW 249
Cdd:COG5186   710 G----VCPPEEAVARRGERLDEAAARALSGVWDADALLEAVGQegarRERFRTLLRAVKAWAKARGLYSAPFGGLGGLSW 785
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 250 AMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLkQPEEcnlnlpvwdPRVNPSDRYHLMPIITPAYPQQNSTYNV 329
Cdd:COG5186   786 AVLAARTCRDASDKSDGDLLANFFGTWAAWDWRQPIAL-TPSG---------PQYGVPGPRDPVPIITPIAPCRNTARNV 855
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 330 SVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEkne 409
Cdd:COG5186   856 TRSTLEILRDELYRAWEAVERARAERDAWAALFAPPPLHRRHAAWAVVTVEAPDPEGREKALGWVRGRIIALLIALE--- 932
                         330       340
                  ....*....|....*....|
gi 1393428056 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 1.40e-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: 121.24  E-value: 1.40e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 367 FFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSF------------------------- 421
Cdd:pfam04926   2 FFHKYKYYLQVVASSKTKEAHLKWSGLVESKLRLLVQKLERVPGIALAHPFPKGFervyvckteeeveavqqgslkyqvk 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 422 ---------PAPKENPDKEE-------FRTMWVIGLVFKKtENSENLSVDLTYDIQSFTDTVYrqaiNSKMFEVD-MKIA 484
Cdd:pfam04926  82 grktitnatKVTDENKEDEGdegstkvYTTTFYIGLELDP-KAKGSKKLDISYPVQEFKNLCK----SWEKYDEEtMSIT 156
                         170
                  ....*....|.
gi 1393428056 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 2.83e-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: 2.83e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  60 RRILILGKLNNLVKEWireisesknlpqsvieNVGGKIFTFGSYRLGVHTKGADIDALCVAPRH-VDRSDFFTSFYDKLK 138
Cdd:cd05402     1 KREEVLDRLQELIKEW----------------FPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHrVDREDFLRKLAKLLK 64
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1393428056 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 4.13e-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: 68.21  E-value: 4.13e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  83 KNLPQSVIENVGG-KIFTFGSYRLGVHTKGADIDALCVAPRHVDrsdfFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCF 161
Cdd:pfam01909   2 RKLREILKELFPVaEVVLFGSYARGTALPGSDIDLLVVFPEPVE----EERLLKLAKIIKELEELLGLEVDLVTREKIEF 77
                          90
                  ....*....|....
gi 1393428056 162 DGIEIDILFARLAL 175
Cdd:pfam01909  78 PLVKIDILEERILL 91
motB PRK12799
flagellar motor protein MotB; Reviewed
501-646 1.49e-04

flagellar motor protein MotB; Reviewed


Pssm-ID: 183756 [Multi-domain]  Cd Length: 421  Bit Score: 44.71  E-value: 1.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 501 VLQKKKKHSTEGvklTALNDSSLDL-------SMDSDNSMSV--PSPTSATKTS---PLNSSGSSQGRNSPAPaVTAASV 568
Cdd:PRK12799  263 VLNKQSQHDIEH---ENLDNRALDIekatglkQIDTHGTVPVaaVTPSSAVTQSsaiTPSSAAIPSPAVIPSS-VTTQSA 338
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1393428056 569 TNIQATEVSVPQVNSSESSGGTSSESIPQTATQPAISPPPKPTVSRVVSSTRLVNPPPRSSGNAATSGNAATKIPTPI 646
Cdd:PRK12799  339 TTTQASAVALSSAGVLPSDVTLPGTVALPAAEPVNMQPQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSPT 416
TRF4 COG5260
DNA polymerase sigma [Replication, recombination and repair];
56-172 6.66e-04

DNA polymerase sigma [Replication, recombination and repair];


Pssm-ID: 227585 [Multi-domain]  Cd Length: 482  Bit Score: 42.84  E-value: 6.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056  56 EELQRRILILGKLNNLVKewiREISESknlpqsvienvggKIFTFGSYRLGVHTKGADIDaLCV-APRHVDRSDF-FTSF 133
Cdd:COG5260    73 EELKRRKALLEKLRTLLK---KEFPDA-------------DLKVFGSTETGLALPKSDID-LCIiSDPRGYKETRnAGSL 135
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1393428056 134 YDKLKLQEEVKDLRAVEEAFVPVIKLcFD---GIEIDILFAR 172
Cdd:COG5260   136 ASHLFKKNLAKEVVVVSTARVPIIKL-VDpqsGLHCDISFNN 176
Herpes_BLLF1 pfam05109
Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ...
537-643 8.29e-03

Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 viral late glycoprotein, also termed gp350/220. It is the most abundantly expressed glycoprotein in the viral envelope of the Herpesviruses and is the major antigen responsible for stimulating the production of neutralising antibodies in vivo.


Pssm-ID: 282904 [Multi-domain]  Cd Length: 886  Bit Score: 39.51  E-value: 8.29e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1393428056 537 SPTSATKTSPLNSSGSSQGRNSPAPAVTAASvtniqaTEVSVPQVNSSESSGGTSSESIPQTATQPAISPPPKPTVSRVV 616
Cdd:pfam05109 557 SPTPAVTTPTPNATIPTLGKTSPTSAVTTPT------PNATSPTVGETSPQANTTNHTLGGTSSTPVVTSPPKNATSAVT 630
                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1393428056 617 --------SSTRLVNPPPRS---SGNAATSGNAATKIP 643
Cdd:pfam05109 631 tgqhnitsSSTSSMSLRPSSiseTLSPSTSDNSTSHMP 668
 
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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