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Conserved domains on  [gi|1958670811|ref|XP_038946081|]
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ataxin-2 isoform X15 [Rattus norvegicus]

Protein Classification

PABP-interacting PAM2 motif-containing protein( domain architecture ID 10627809)

PABP-interacting PAM2 motif-containing protein similar to human polyadenylate-binding protein-interacting protein 2 (PAIP2) that acts as a repressor in the regulation of translation initiation of poly(A)-containing mRNAs

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SM-ATX pfam14438
Ataxin 2 SM domain; This SM domain is found in Ataxin-2.
 236-309 3.71e-21

Ataxin 2 SM domain; This SM domain is found in Ataxin-2.


:

Pssm-ID: 464173  Cd Length: 78  Bit Score: 88.38  E-value: 3.71e-21
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  236 MVHILTSVVGSKCEVQVKNGGVYEGVFKTYSP--KCDLVLDAAHEKSTESSSG--PKREEIMESVLFKCSDFVVVQFK 309
Cdd:pfam14438    1 LLFLLTSLVGLVVEVTTKNGEVYEGIFSTASLekDFGVVLKMARRIKKSNGSGlnPVRGEIVDTMIFPAKDIVDIEAK 78
LsmAD pfam06741
LsmAD domain; This domain is found associated with Lsm domain.
 377-438 9.31e-16

LsmAD domain; This domain is found associated with Lsm domain.


:

Pssm-ID: 461998 [Multi-domain]  Cd Length: 65  Bit Score: 72.60  E-value: 9.31e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  377 YGVVSTYDSSLssYTVPLERdNSEEFLKREARANQLAEEIESSAQYKARVALENDDR------SEEEK 438
Cdd:pfam06741    1 FGVKSTYDENL--YTTKLDR-SSPDYKEREAEAERIAREIEGSASTNAHVAEERGLDvddsglDEEDK 65
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 897-1214 4.98e-05

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 48.01  E-value: 4.98e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  897 PKPSTTPTSPRPQAQPSP------SMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQPLYPIPMTPMPVNQAKTYRAGKV 970
Cdd:PHA03247  2674 AQASSPPQRPRRRAARPTvgsltsLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGG 2753

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  971 PNMPQQRQEQHHQSTMMHPASAAGPPIVATPPAAYSTQYVAYSPQQFPNQPLVQHVPhyqSQHPHVYSPVIQGNARMMAP 1050
Cdd:PHA03247  2754 PARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAA---VLAPAAALPPAASPAGPLPP 2830

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1051 PAHAQPGLVSSSAAQFGAHEQTHAMYVSTGSLA------QQYAHPNATLHPHPPHPQPSA-TPTGQQQSQHGGSHPAPSP 1123
Cdd:PHA03247  2831 PTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRrrppsrSPAAKPAAPARPPVRRLARPAvSRSTESFALPPDQPERPPQ 2910

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1124 VQHHQHQAAQALHLASPQQQSAIYHAGLAPTPPSMTPASNTQSPQSSFPAAPQTVFTIHPSHVQPAYTTPPHMAHVPQYK 1203
Cdd:PHA03247  2911 PQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAPA 2990

                          330
                   ....*....|.
gi 1958670811 1204 PTTNSSCKSAL 1214
Cdd:PHA03247  2991 SSTPPLTGHSL 3001
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 534-717 1.18e-03

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.39  E-value: 1.18e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  534 RYQSGPNSLPPRAAtptRPPSRPPSRPSRPPSHPSAHGSPAPVSTMPKRMSAEGPPRMSPKAQRH---------PRNHRV 604
Cdd:PHA03247  2609 RGPAPPSPLPPDTH---APDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLgraaqasspPQRPRR 2685

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  605 SAGRGSMSSGLEFVSHNPPSEAAAPPVARTSPAGGTWSSVVSGVPRLSPKTHRPRSPRQNSAGNSPSGPV-LASPQAGIT 683
Cdd:PHA03247  2686 RAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPArPARPPTTAG 2765

                          170       180       190
                   ....*....|....*....|....*....|....*
gi 1958670811  684 PAEAVSMPVPAASPTPASPASNRA-LTPSIEAKDS 717
Cdd:PHA03247  2766 PPAPAPPAAPAAGPPRRLTRPAVAsLSESRESLPS 2800
PAM2 pfam07145
Ataxin-2 C-terminal region; The PABP-interacting motif PAM2 has been identified in various ...
 878-893 6.39e-03

Ataxin-2 C-terminal region; The PABP-interacting motif PAM2 has been identified in various eukaryotic proteins as an important binding site for pfam00658. It has been found in a wide range of eukaryotic proteins. Strikingly, this motif appears to occur solely outside of globular domains.


:

Pssm-ID: 429316  Cd Length: 17  Bit Score: 35.28  E-value: 6.39e-03
                           10
                   ....*....|....*.
gi 1958670811  878 RKSTLNPNAKEFNPRS 893
Cdd:pfam07145    1 SKSKLNPNAKEFVPSF 16
 
Name Accession Description Interval E-value
SM-ATX pfam14438
Ataxin 2 SM domain; This SM domain is found in Ataxin-2.
 236-309 3.71e-21

Ataxin 2 SM domain; This SM domain is found in Ataxin-2.


Pssm-ID: 464173  Cd Length: 78  Bit Score: 88.38  E-value: 3.71e-21
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  236 MVHILTSVVGSKCEVQVKNGGVYEGVFKTYSP--KCDLVLDAAHEKSTESSSG--PKREEIMESVLFKCSDFVVVQFK 309
Cdd:pfam14438    1 LLFLLTSLVGLVVEVTTKNGEVYEGIFSTASLekDFGVVLKMARRIKKSNGSGlnPVRGEIVDTMIFPAKDIVDIEAK 78
LsmAD pfam06741
LsmAD domain; This domain is found associated with Lsm domain.
 377-438 9.31e-16

LsmAD domain; This domain is found associated with Lsm domain.


Pssm-ID: 461998 [Multi-domain]  Cd Length: 65  Bit Score: 72.60  E-value: 9.31e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  377 YGVVSTYDSSLssYTVPLERdNSEEFLKREARANQLAEEIESSAQYKARVALENDDR------SEEEK 438
Cdd:pfam06741    1 FGVKSTYDENL--YTTKLDR-SSPDYKEREAEAERIAREIEGSASTNAHVAEERGLDvddsglDEEDK 65
PHA03247 PHA03247
large tegument protein UL36; Provisional
 897-1214 4.98e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 48.01  E-value: 4.98e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  897 PKPSTTPTSPRPQAQPSP------SMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQPLYPIPMTPMPVNQAKTYRAGKV 970
Cdd:PHA03247  2674 AQASSPPQRPRRRAARPTvgsltsLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGG 2753

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  971 PNMPQQRQEQHHQSTMMHPASAAGPPIVATPPAAYSTQYVAYSPQQFPNQPLVQHVPhyqSQHPHVYSPVIQGNARMMAP 1050
Cdd:PHA03247  2754 PARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAA---VLAPAAALPPAASPAGPLPP 2830

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1051 PAHAQPGLVSSSAAQFGAHEQTHAMYVSTGSLA------QQYAHPNATLHPHPPHPQPSA-TPTGQQQSQHGGSHPAPSP 1123
Cdd:PHA03247  2831 PTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRrrppsrSPAAKPAAPARPPVRRLARPAvSRSTESFALPPDQPERPPQ 2910

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1124 VQHHQHQAAQALHLASPQQQSAIYHAGLAPTPPSMTPASNTQSPQSSFPAAPQTVFTIHPSHVQPAYTTPPHMAHVPQYK 1203
Cdd:PHA03247  2911 PQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAPA 2990

                          330
                   ....*....|.
gi 1958670811 1204 PTTNSSCKSAL 1214
Cdd:PHA03247  2991 SSTPPLTGHSL 3001
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 869-1037 9.76e-05

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 46.72  E-value: 9.76e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  869 ERKDTteqvRKSTLNpnaKEFNPRSFSQPKPSTTptSPRPQAQPSPSMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQP 948
Cdd:TIGR01628  362 QRKEQ----RRAHLQ---DQFMQLQPRMRQLPMG--SPMGGAMGQPPYYGQGPQQQFNGQPLGWPRMSMMPTPMGPGGPL 432

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  949 LypiPMTPMPVNQaktyrAGKVPNMPQQRQEQHHQSTMMHPASAAGPPIVATPPAAYSTqYVAYSPQQFPNQPLVQHVPH 1028
Cdd:TIGR01628  433 R---PNGLAPMNA-----VRAPSRNAQNAAQKPPMQPVMYPPNYQSLPLSQDLPQPQST-ASQGGQNKKLAQVLASATPQ 503

                          170
                   ....*....|....*
gi 1958670811 1029 YQSQ------HPHVY 1037
Cdd:TIGR01628  504 MQKQvlgerlFPLVE 518
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 978-1201 6.48e-04

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 44.26  E-value: 6.48e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  978 QEQHHQSTMMHPASAAGPPIVATPPAAYSTQYVAYSPQQFPNQPLVQHVPHYQSQHP----HVySPVIQGNA--RMMAPP 1051
Cdd:pfam09770   96 EEEQVRFNRQQPAARAAQSSAQPPASSLPQYQYASQQSQQPSKPVRTGYEKYKEPEPipdlQV-DASLWGVApkKAAAPA 174

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1052 AHAQPGLVSSSAAQFG----------------AHEQTHAMYVSTGSLAQQYAHPNATLHPHPPHPQPSATPTGQQQSQHG 1115
Cdd:pfam09770  175 PAPQPAAQPASLPAPSrkmmsleeveaamraqAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQ 254

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1116 GSHPAPSPVQHHQHQAAQALHLASPQQQSAIYHAGLAPTPPSMTPASNTQSPQ----SSFPAAPQTVFTIHPSHVQPAYT 1191
Cdd:pfam09770  255 QHPGQGHPVTILQRPQSPQPDPAQPSIQPQAQQFHQQPPPVPVQPTQILQNPNrlsaARVGYPQNPQPGVQPAPAHQAHR 334

                          250
                   ....*....|
gi 1958670811 1192 TPPHMAHVPQ 1201
Cdd:pfam09770  335 QQGSFGRQAP 344
PHA03247 PHA03247
large tegument protein UL36; Provisional
 534-717 1.18e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.39  E-value: 1.18e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  534 RYQSGPNSLPPRAAtptRPPSRPPSRPSRPPSHPSAHGSPAPVSTMPKRMSAEGPPRMSPKAQRH---------PRNHRV 604
Cdd:PHA03247  2609 RGPAPPSPLPPDTH---APDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLgraaqasspPQRPRR 2685

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  605 SAGRGSMSSGLEFVSHNPPSEAAAPPVARTSPAGGTWSSVVSGVPRLSPKTHRPRSPRQNSAGNSPSGPV-LASPQAGIT 683
Cdd:PHA03247  2686 RAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPArPARPPTTAG 2765

                          170       180       190
                   ....*....|....*....|....*....|....*
gi 1958670811  684 PAEAVSMPVPAASPTPASPASNRA-LTPSIEAKDS 717
Cdd:PHA03247  2766 PPAPAPPAAPAAGPPRRLTRPAVAsLSESRESLPS 2800
Sm_like cd00600
Sm and related proteins; The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to ...
 240-307 1.49e-03

Sm and related proteins; The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.


Pssm-ID: 212462 [Multi-domain]  Cd Length: 63  Bit Score: 38.00  E-value: 1.49e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  240 LTSVVGSKCEVQVKNGGVYEGVFKTYSPKCDLVLDAAHEKSTEsssgpKREEIMESVLFKCSDFVVVQ 307
Cdd:cd00600      1 LKDFIGKTVSVELKDGRVLTGTLVAFDKYMNLVLDDVVETGRD-----GKVRVLGLVLIRGSNIVSIR 63
PAM2 pfam07145
Ataxin-2 C-terminal region; The PABP-interacting motif PAM2 has been identified in various ...
 878-893 6.39e-03

Ataxin-2 C-terminal region; The PABP-interacting motif PAM2 has been identified in various eukaryotic proteins as an important binding site for pfam00658. It has been found in a wide range of eukaryotic proteins. Strikingly, this motif appears to occur solely outside of globular domains.


Pssm-ID: 429316  Cd Length: 17  Bit Score: 35.28  E-value: 6.39e-03
                           10
                   ....*....|....*.
gi 1958670811  878 RKSTLNPNAKEFNPRS 893
Cdd:pfam07145    1 SKSKLNPNAKEFVPSF 16
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 833-958 9.19e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 40.45  E-value: 9.19e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  833 SPSVLSNAEHKRGPEVTSQGVQTSSPACKQEKDDREERKDTTEQVRKSTLNPNAKEFNPRSFSQP-KPSTTPTSPRPQAQ 911
Cdd:PRK10263   746 TPIVEPVQQPQQPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPvAPQPQYQQPQQPVA 825

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1958670811  912 PSPSMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQPLYPIP----MTPMP 958
Cdd:PRK10263   826 PQPQYQQPQQPVAPQPQDTLLHPLLMRNGDSRPLHKPTTPLPsldlLTPPP 876
 
Name Accession Description Interval E-value
SM-ATX pfam14438
Ataxin 2 SM domain; This SM domain is found in Ataxin-2.
 236-309 3.71e-21

Ataxin 2 SM domain; This SM domain is found in Ataxin-2.


Pssm-ID: 464173  Cd Length: 78  Bit Score: 88.38  E-value: 3.71e-21
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  236 MVHILTSVVGSKCEVQVKNGGVYEGVFKTYSP--KCDLVLDAAHEKSTESSSG--PKREEIMESVLFKCSDFVVVQFK 309
Cdd:pfam14438    1 LLFLLTSLVGLVVEVTTKNGEVYEGIFSTASLekDFGVVLKMARRIKKSNGSGlnPVRGEIVDTMIFPAKDIVDIEAK 78
LsmAD pfam06741
LsmAD domain; This domain is found associated with Lsm domain.
 377-438 9.31e-16

LsmAD domain; This domain is found associated with Lsm domain.


Pssm-ID: 461998 [Multi-domain]  Cd Length: 65  Bit Score: 72.60  E-value: 9.31e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  377 YGVVSTYDSSLssYTVPLERdNSEEFLKREARANQLAEEIESSAQYKARVALENDDR------SEEEK 438
Cdd:pfam06741    1 FGVKSTYDENL--YTTKLDR-SSPDYKEREAEAERIAREIEGSASTNAHVAEERGLDvddsglDEEDK 65
PHA03247 PHA03247
large tegument protein UL36; Provisional
 897-1214 4.98e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 48.01  E-value: 4.98e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  897 PKPSTTPTSPRPQAQPSP------SMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQPLYPIPMTPMPVNQAKTYRAGKV 970
Cdd:PHA03247  2674 AQASSPPQRPRRRAARPTvgsltsLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGG 2753

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  971 PNMPQQRQEQHHQSTMMHPASAAGPPIVATPPAAYSTQYVAYSPQQFPNQPLVQHVPhyqSQHPHVYSPVIQGNARMMAP 1050
Cdd:PHA03247  2754 PARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAA---VLAPAAALPPAASPAGPLPP 2830

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1051 PAHAQPGLVSSSAAQFGAHEQTHAMYVSTGSLA------QQYAHPNATLHPHPPHPQPSA-TPTGQQQSQHGGSHPAPSP 1123
Cdd:PHA03247  2831 PTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRrrppsrSPAAKPAAPARPPVRRLARPAvSRSTESFALPPDQPERPPQ 2910

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1124 VQHHQHQAAQALHLASPQQQSAIYHAGLAPTPPSMTPASNTQSPQSSFPAAPQTVFTIHPSHVQPAYTTPPHMAHVPQYK 1203
Cdd:PHA03247  2911 PQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAPA 2990

                          330
                   ....*....|.
gi 1958670811 1204 PTTNSSCKSAL 1214
Cdd:PHA03247  2991 SSTPPLTGHSL 3001
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 869-1037 9.76e-05

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 46.72  E-value: 9.76e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  869 ERKDTteqvRKSTLNpnaKEFNPRSFSQPKPSTTptSPRPQAQPSPSMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQP 948
Cdd:TIGR01628  362 QRKEQ----RRAHLQ---DQFMQLQPRMRQLPMG--SPMGGAMGQPPYYGQGPQQQFNGQPLGWPRMSMMPTPMGPGGPL 432

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  949 LypiPMTPMPVNQaktyrAGKVPNMPQQRQEQHHQSTMMHPASAAGPPIVATPPAAYSTqYVAYSPQQFPNQPLVQHVPH 1028
Cdd:TIGR01628  433 R---PNGLAPMNA-----VRAPSRNAQNAAQKPPMQPVMYPPNYQSLPLSQDLPQPQST-ASQGGQNKKLAQVLASATPQ 503

                          170
                   ....*....|....*
gi 1958670811 1029 YQSQ------HPHVY 1037
Cdd:TIGR01628  504 MQKQvlgerlFPLVE 518
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 978-1201 6.48e-04

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 44.26  E-value: 6.48e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  978 QEQHHQSTMMHPASAAGPPIVATPPAAYSTQYVAYSPQQFPNQPLVQHVPHYQSQHP----HVySPVIQGNA--RMMAPP 1051
Cdd:pfam09770   96 EEEQVRFNRQQPAARAAQSSAQPPASSLPQYQYASQQSQQPSKPVRTGYEKYKEPEPipdlQV-DASLWGVApkKAAAPA 174

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1052 AHAQPGLVSSSAAQFG----------------AHEQTHAMYVSTGSLAQQYAHPNATLHPHPPHPQPSATPTGQQQSQHG 1115
Cdd:pfam09770  175 PAPQPAAQPASLPAPSrkmmsleeveaamraqAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQ 254

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1116 GSHPAPSPVQHHQHQAAQALHLASPQQQSAIYHAGLAPTPPSMTPASNTQSPQ----SSFPAAPQTVFTIHPSHVQPAYT 1191
Cdd:pfam09770  255 QHPGQGHPVTILQRPQSPQPDPAQPSIQPQAQQFHQQPPPVPVQPTQILQNPNrlsaARVGYPQNPQPGVQPAPAHQAHR 334

                          250
                   ....*....|
gi 1958670811 1192 TPPHMAHVPQ 1201
Cdd:pfam09770  335 QQGSFGRQAP 344
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 895-1039 1.04e-03

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 43.49  E-value: 1.04e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  895 SQPKPSTTPtsPRPQAQPSPSMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQPLYP-IPMTPMPVNQAKTYRAGKVPNM 973
Cdd:pfam09770  205 AQAKKPAQQ--PAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQgHPVTILQRPQSPQPDPAQPSIQ 282

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958670811  974 PQQRQEQHHQ-STMMHPASAAGPPIVATPPAAYSTQYVAYSPQQFPNQPLVQHVPHYQSQHPHVYSP 1039
Cdd:pfam09770  283 PQAQQFHQQPpPVPVQPTQILQNPNRLSAARVGYPQNPQPGVQPAPAHQAHRQQGSFGRQAPIITHP 349
PHA03247 PHA03247
large tegument protein UL36; Provisional
 534-717 1.18e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.39  E-value: 1.18e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  534 RYQSGPNSLPPRAAtptRPPSRPPSRPSRPPSHPSAHGSPAPVSTMPKRMSAEGPPRMSPKAQRH---------PRNHRV 604
Cdd:PHA03247  2609 RGPAPPSPLPPDTH---APDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLgraaqasspPQRPRR 2685

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  605 SAGRGSMSSGLEFVSHNPPSEAAAPPVARTSPAGGTWSSVVSGVPRLSPKTHRPRSPRQNSAGNSPSGPV-LASPQAGIT 683
Cdd:PHA03247  2686 RAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPArPARPPTTAG 2765

                          170       180       190
                   ....*....|....*....|....*....|....*
gi 1958670811  684 PAEAVSMPVPAASPTPASPASNRA-LTPSIEAKDS 717
Cdd:PHA03247  2766 PPAPAPPAAPAAGPPRRLTRPAVAsLSESRESLPS 2800
Sm_like cd00600
Sm and related proteins; The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to ...
 240-307 1.49e-03

Sm and related proteins; The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.


Pssm-ID: 212462 [Multi-domain]  Cd Length: 63  Bit Score: 38.00  E-value: 1.49e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958670811  240 LTSVVGSKCEVQVKNGGVYEGVFKTYSPKCDLVLDAAHEKSTEsssgpKREEIMESVLFKCSDFVVVQ 307
Cdd:cd00600      1 LKDFIGKTVSVELKDGRVLTGTLVAFDKYMNLVLDDVVETGRD-----GKVRVLGLVLIRGSNIVSIR 63
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 895-1059 1.99e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 42.76  E-value: 1.99e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  895 SQPKPSTTPTSPRPQAQPSPsmvGHQQPAPVYT-QPVCFAPNMMYPVPVSPGVQPLypipmtPMPVNQAKTYRAGKVPNM 973
Cdd:PRK10263   345 PVASVDVPPAQPTVAWQPVP---GPQTGEPVIApAPEGYPQQSQYAQPAVQYNEPL------QQPVQPQQPYYAPAAEQP 415

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  974 PQQRQEqhhqstmmhpASAAGPPIVATPPAAYSTQYVAYSPQQFPNQ-PLVQHVPHYQSQHPHVySPVIQgNARMMAPPA 1052
Cdd:PRK10263   416 AQQPYY----------APAPEQPAQQPYYAPAPEQPVAGNAWQAEEQqSTFAPQSTYQTEQTYQ-QPAAQ-EPLYQQPQP 483


                   ....*..
gi 1958670811 1053 HAQPGLV 1059
Cdd:PRK10263   484 VEQQPVV 490
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
536-714 2.69e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 42.17  E-value: 2.69e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  536 QSGPNSLPPRAAT----PTRPPSRPPSRPSRPPSHPSAHGSPAPVSTMPKRMSAEGPPRMSPKAQRHPRNHRVSAGRGSM 611
Cdd:PRK12323   367 QSGGGAGPATAAAapvaQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGG 446

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  612 SSGlefvshnPPSEAAAPPVARTSPAGGTWSSVVSGVPRLSPKTHRPRSPRQNSAGNSP--------SGPVLASPQAGIT 683
Cdd:PRK12323   447 APA-------PAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPAPADDDPPPweelppefASPAPAQPDAAPA 519

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|...
gi 1958670811  684 PAEAVSMPVPAAS------------PTPASPASNRALTPSIEA 714
Cdd:PRK12323   520 GWVAESIPDPATAdpddafetlapaPAAAPAPRAAAATEPVVA 562
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 875-1121 5.88e-03

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 40.79  E-value: 5.88e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  875 EQVRKSTLNPNAKEFNP--RSFSQPKPSTTPTSPRPQAQPSPSMVG---HQQPAPVytqpvcfaPNM-----MYPVPVSP 944
Cdd:pfam09770   98 EQVRFNRQQPAARAAQSsaQPPASSLPQYQYASQQSQQPSKPVRTGyekYKEPEPI--------PDLqvdasLWGVAPKK 169

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  945 GVQPLYPIPMTPMPVNQAKTYRagKVPNMPQ---QRQEQHHQSTMMHPASAAGPPivATPPAAYSTQYVAYSPQQFPNQP 1021
Cdd:pfam09770  170 AAAPAPAPQPAAQPASLPAPSR--KMMSLEEveaAMRAQAKKPAQQPAPAPAQPP--AAPPAQQAQQQQQFPPQIQQQQQ 245

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1022 LVQHVPHYQSQHPHVYSPVIQgnARMMAPPAhaQPGLVSSSAAQFGAHEQTHAMYVSTGSLAQQ------YAHPNATLHP 1095
Cdd:pfam09770  246 PQQQPQQPQQHPGQGHPVTIL--QRPQSPQP--DPAQPSIQPQAQQFHQQPPPVPVQPTQILQNpnrlsaARVGYPQNPQ 321

                          250       260
                   ....*....|....*....|....*.
gi 1958670811 1096 HPphpQPSATPTGQQQSQHGGSHPAP 1121
Cdd:pfam09770  322 PG---VQPAPAHQAHRQQGSFGRQAP 344
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 896-1034 6.18e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 40.84  E-value: 6.18e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  896 QPKPSTTPTSPRPQAQPSPSMVGHQQPapvYTQPVCFAPNMMYPVPVSPGVQPLYPiPMTPMPVNQAKTYRAGKVPNMPQ 975
Cdd:PRK10263   370 EPVIAPAPEGYPQQSQYAQPAVQYNEP---LQQPVQPQQPYYAPAAEQPAQQPYYA-PAPEQPAQQPYYAPAPEQPVAGN 445

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1958670811  976 QRQEQHHQSTmMHPASAAGPPIVATPPAAYSTQYVAysPQQFPNQPLVQHVPHYQSQHP 1034
Cdd:PRK10263   446 AWQAEEQQST-FAPQSTYQTEQTYQQPAAQEPLYQQ--PQPVEQQPVVEPEPVVEETKP 501
PAM2 pfam07145
Ataxin-2 C-terminal region; The PABP-interacting motif PAM2 has been identified in various ...
 878-893 6.39e-03

Ataxin-2 C-terminal region; The PABP-interacting motif PAM2 has been identified in various eukaryotic proteins as an important binding site for pfam00658. It has been found in a wide range of eukaryotic proteins. Strikingly, this motif appears to occur solely outside of globular domains.


Pssm-ID: 429316  Cd Length: 17  Bit Score: 35.28  E-value: 6.39e-03
                           10
                   ....*....|....*.
gi 1958670811  878 RKSTLNPNAKEFNPRS 893
Cdd:pfam07145    1 SKSKLNPNAKEFVPSF 16
PHA03247 PHA03247
large tegument protein UL36; Provisional
 535-1107 7.71e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.69  E-value: 7.71e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  535 YQSGPNSLPPRAATPtrpPSRPPSRPSRPPSHPSAHGSPAPVSTMPKRMSAEGPPRMSpkaqrhprnhrvsagrgSMSSG 614
Cdd:PHA03247  2480 YRRPAEARFPFAAGA---APDPGGGGPPDPDAPPAPSRLAPAILPDEPVGEPVHPRML-----------------TWIRG 2539

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  615 LEFVSHN------PPSEAAAPPVARTSPAGGTWSSVVSGVPRLSPKTHRPRSPRQNSAGNSPSGPvlaspqAGITPAEAV 688
Cdd:PHA03247  2540 LEELASDdagdppPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVDD------RGDPRGPAP 2613

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  689 SMPVPAASPTPASPASNRaltpsieakdsrlqdqrqnSPAGNKENIKASETSPSFSKAENKGVSPVISEHRKqiddlkkf 768
Cdd:PHA03247  2614 PSPLPPDTHAPDPPPPSP-------------------SPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRR-------- 2666

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  769 kndfrlqpsSTSESMDQLLSKNREGEKSRDLmkdKTEASAKDSFIDSGSSSCTSSSSKTNSPSASPSVLSNAEHKRG-PE 847
Cdd:PHA03247  2667 ---------ARRLGRAAQASSPPQRPRRRAA---RPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQAsPA 2734

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  848 VTSQGVQTSSPA--CKQEKDDREERKDTTEQVRKSTlnPNAKEFNPRSFSQPKPSTTPTSPRPQAQPS---PSMVGHQQP 922
Cdd:PHA03247  2735 LPAAPAPPAVPAgpATPGGPARPARPPTTAGPPAPA--PPAAPAAGPPRRLTRPAVASLSESRESLPSpwdPADPPAAVL 2812

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  923 APVYTQPVCFAPNMmyPVPVSPGVQPLYPiPMTPMPVNQAKTYRAGKVPNMPQQRQEQhHQSTMMHPASAAGPPI--VAT 1000
Cdd:PHA03247  2813 APAAALPPAASPAG--PLPPPTSAQPTAP-PPPPGPPPPSLPLGGSVAPGGDVRRRPP-SRSPAAKPAAPARPPVrrLAR 2888

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811 1001 PPAAYSTQYVAYSP--QQFPNQPLVQHVPHYQSQHPHVYSPVIQgnarmMAPPAHAQPGLVSSSAAQFGAHEQTHAMYVS 1078
Cdd:PHA03247  2889 PAVSRSTESFALPPdqPERPPQPQAPPPPQPQPQPPPPPQPQPP-----PPPPPRPQPPLAPTTDPAGAGEPSGAVPQPW 2963

                          570       580       590
                   ....*....|....*....|....*....|
gi 1958670811 1079 TGSLAQ-QYAHPNATLHPHPPHPQPSATPT 1107
Cdd:PHA03247  2964 LGALVPgRVAVPRFRVPQPAPSREAPASST 2993
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 833-958 9.19e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 40.45  E-value: 9.19e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  833 SPSVLSNAEHKRGPEVTSQGVQTSSPACKQEKDDREERKDTTEQVRKSTLNPNAKEFNPRSFSQP-KPSTTPTSPRPQAQ 911
Cdd:PRK10263   746 TPIVEPVQQPQQPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPvAPQPQYQQPQQPVA 825

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1958670811  912 PSPSMVGHQQPAPVYTQPVCFAPNMMYPVPVSPGVQPLYPIP----MTPMP 958
Cdd:PRK10263   826 PQPQYQQPQQPVAPQPQDTLLHPLLMRNGDSRPLHKPTTPLPsldlLTPPP 876
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 622-704 9.73e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 40.35  E-value: 9.73e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958670811  622 PPSEAAAPPVARTSPAGGTWSSVVSGVPRLSPKTHRPRSPRQNSAGNSPSGPVLASPQAGITPAEAVSMPVPAASPTPAS 701
Cdd:PRK07764   417 PAAAAAPAPAAAPQPAPAPAPAPAPPSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAPAPAPPAAPAPAAAPAA 496


                   ...
gi 1958670811  702 PAS 704
Cdd:PRK07764   497 PAA 499
 
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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