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Conserved domains on  [gi|1622847433|ref|XP_028685956|]
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nuclear receptor corepressor 2 isoform X25 [Macaca mulatta]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
GPS2_interact pfam15784
G-protein pathway suppressor 2-interacting domain; GPS2_interact is the more N-terminal domain ...
66-154 3.40e-41

G-protein pathway suppressor 2-interacting domain; GPS2_interact is the more N-terminal domain of two co-repressor protein-families found in vertebrates. The domain is found in NCoR and SMRT proteins; N-CoR (nuclear receptor co-repressor) and SMRT (silencing mediator for retinoid and thyroid receptors) are related corepressors that mediate transcriptional repression by unliganded nuclear receptors and other classes of transcriptional repressors. GPS2 is a stoichiometric subunit of the N-CoR-HDAC3 complex. GPS2 links the complex to membrane receptor-related intracellular JNK (c-Jun amino-terminal kinase) signalling pathways.


:

Pssm-ID: 464868 [Multi-domain]  Cd Length: 89  Bit Score: 146.93  E-value: 3.40e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   66 LTGKLEPVSPPSPPHTDPELELVPPRLSKEELIQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPVSPPPIE 145
Cdd:pfam15784    1 YYPQVEAISPTLPSPEGQDQELSPFRSSKDELLQNIDKVDREIAKVEQQISKLKKKQQQLEEEAAKPPEPEEPVSPPPSE 80

                   ....*....
gi 1622847433  146 SKHRSLVQI 154
Cdd:pfam15784   81 SKHRSLAQI 89
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
531-574 7.51e-13

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


:

Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 64.83  E-value: 7.51e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1622847433  531 RWTEEEMETAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNYK 574
Cdd:pfam00249    3 PWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
PHA03247 super family cl33720
large tegument protein UL36; Provisional
811-1134 9.76e-07

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 54.56  E-value: 9.76e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  811 APQDSDSSATCSADEVDEPEggDKNRLLSPRpsllTPTGDPRANASPQ------KPLDLKQLKQRAAAIPPIQVTKVHEP 884
Cdd:PHA03247  2574 APRPSEPAVTSRARRPDAPP--QSARPRAPV----DDRGDPRGPAPPSplppdtHAPDPPPPSPSPAANEPDPHPPPTVP 2647
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  885 PREDAAPTKPAPPAPPPPQHLQPESdaPQQPGSSPRGksrsPAPAADKEAEKPVFFPAFAAEAQKLPGD-PPCWTSGLPF 963
Cdd:PHA03247  2648 PPERPRDDPAPGRVSRPRRARRLGR--AAQASSPPQR----PRRRAARPTVGSLTSLADPPPPPPTPEPaPHALVSATPL 2721
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  964 PVPPREVIKASPHAPDPSAFSYAPPGHPLPLGLHDTARPVLPRPPTISNPPPLISSAKHPSVLERQIGAISQGMSVQLHV 1043
Cdd:PHA03247  2722 PPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSP 2801
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1044 PYSEHAKAPVGPVTMGLPLPMDPKKLAPFSGVKQeQLSPRGQAGPPESlgvPTAQEASVlrgtalgsVPGGSITKGIPST 1123
Cdd:PHA03247  2802 WDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQ-PTAPPPPPGPPPP---SLPLGGSV--------APGGDVRRRPPSR 2869
                          330
                   ....*....|.
gi 1622847433 1124 RVPSDSAITYR 1134
Cdd:PHA03247  2870 SPAAKPAAPAR 2880
SANT super family cl21498
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
357-400 1.06e-06

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


The actual alignment was detected with superfamily member cd11661:

Pssm-ID: 473887 [Multi-domain]  Cd Length: 46  Bit Score: 47.22  E-value: 1.06e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1622847433  357 WSEQEKETFREKFMQHPKNFGLI-ASFLERKTVAECVLYYYLTKK 400
Cdd:cd11661      2 WSESEAKLFEEGLRKYGKDFHDIrQDFLPWKSVGELVEFYYMWKK 46
SMC_N super family cl47134
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
25-383 9.09e-06

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


The actual alignment was detected with superfamily member TIGR02169:

Pssm-ID: 481474 [Multi-domain]  Cd Length: 1164  Bit Score: 51.22  E-value: 9.09e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   25 MEFIESKRP-----RLELLPDPLLRPSPLLAAGQPAGSEDLTKDRSLTGKLEPVSppsppHTDPELELVPPRLSKE--EL 97
Cdd:TIGR02169  626 VEDIEAARRlmgkyRMVTLEGELFEKSGAMTGGSRAPRGGILFSRSEPAELQRLR-----ERLEGLKRELSSLQSElrRI 700
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   98 IQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPvspppIESKHRSLVQIIYDENRKKAEAAHRI--LEGLGP 175
Cdd:TIGR02169  701 ENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEE-----LEEDLSSLEQEIENVKSELKELEARIeeLEEDLH 775
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  176 QVELPLyNQPSDtRQYHENIKINQAMRKKLILYFKR-------------RNHARKQWEQKFCQRYDQLMEAWEKKV---- 238
Cdd:TIGR02169  776 KLEEAL-NDLEA-RLSHSRIPEIQAELSKLEEEVSRiearlreieqklnRLTLEKEYLEKEIQELQEQRIDLKEQIksie 853
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  239 ERIEN-NPRRRAKESKVREY------YEKQFPEIRKQR-ELQERM---QSRVGQrgsgLSMSAARSEHEVSEIIDGLSEQ 307
Cdd:TIGR02169  854 KEIENlNGKKEELEEELEELeaalrdLESRLGDLKKERdELEAQLrelERKIEE----LEAQIEKKRKRLSELKAKLEAL 929
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  308 EN----LEKQMRQLAVIPPMLYDADQ------------QRIKFINM-------------NGLMADPMKVYKDR----QVM 354
Cdd:TIGR02169  930 EEelseIEDPKGEDEEIPEEELSLEDvqaelqrveeeiRALEPVNMlaiqeyeevlkrlDELKEKRAKLEEERkailERI 1009
                          410       420
                   ....*....|....*....|....*....
gi 1622847433  355 NMWSEQEKETFREKFMQHPKNFGLIASFL 383
Cdd:TIGR02169 1010 EEYEKKKREVFMEAFEAINENFNEIFAEL 1038
RSC8 super family cl34960
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
458-566 6.56e-04

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


The actual alignment was detected with superfamily member COG5259:

Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 44.88  E-value: 6.56e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  458 DKEDLLKEKTDDTSGEDNDEKEAVASKGRKTANSQGRrKGRITRSMANEANS--------EEAITPQ--QSAELASMELN 527
Cdd:COG5259    196 ENYSPSLKSPKKESQGKVDELKDHSEKHPSSCSCCGN-KSFNTRYHNLRAEKynscsecyDQGRFPSefTSSDFKPVTIS 274
                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1622847433  528 ESSR---WTEEEMETAKKGLLEHGRNWSAIARMVGSKTVSQC 566
Cdd:COG5259    275 LLIRdknWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQC 316
PHA03247 super family cl33720
large tegument protein UL36; Provisional
1656-2173 6.90e-04

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 45.31  E-value: 6.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1656 PGTPATAMDRLAYLPTAPQPFSSRHSSSPLSPGGPTHLTKPTTTsssererdrdrerdrdrereksILTSSTTVEHAP-- 1733
Cdd:PHA03247  2475 PGAPVYRRPAEARFPFAAGAAPDPGGGGPPDPDAPPAPSRLAPA----------------------ILPDEPVGEPVHpr 2532
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1734 --IWRPGTEQ-SSGSSGSSGGGGGSSSRPASHSHAHQHSPISPRTQD----ALQQRPSVLHNTGMKGiiTAVEPSTPTVL 1806
Cdd:PHA03247  2533 mlTWIRGLEElASDDAGDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEpavtSRARRPDAPPQSARPR--APVDDRGDPRG 2610
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1807 RSTSTSSPVRPAATFPPA-THCPLGGTLDGVYPTLMEPVLLPKEAPRVARPERPRAdtghaflAKPPARSGlePASSPSK 1885
Cdd:PHA03247  2611 PAPPSPLPPDTHAPDPPPpSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRR-------ARRLGRAA--QASSPPQ 2681
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1886 GSEPRPLAPPVSGHATIARTPAKNLAPHHASPDPPAPPASASDPHREKTQSKPFSIQEL-------------ELRSLGYH 1952
Cdd:PHA03247  2682 RPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAppavpagpatpggPARPARPP 2761
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1953 GSSYSPEGVEPVSPVSSPSLTHDKGLPKHLEELDKShLEGELRPKQPGPVKLGGEAAHLPHLRPLPENQPSSSPlLQTAP 2032
Cdd:PHA03247  2762 TTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRES-LPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSA-QPTAP 2839
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 2033 GVKGHQRVVTLAQHISEVITQDYTRHHPQQLSAPLPAPLYSFPGASCPVLDLRRPPSDLYLPP--------PDHGAPARG 2104
Cdd:PHA03247  2840 PPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPdqperppqPQAPPPPQP 2919
                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622847433 2105 SPNSEGGKRSPEPSKTSvlGGGEDGIEPVSPPEGVTEP---------GHSRSAVYPLLYRDGEQTEPSRMGSKSPGNT 2173
Cdd:PHA03247  2920 QPQPPPPPQPQPPPPPP--PRPQPPLAPTTDPAGAGEPsgavpqpwlGALVPGRVAVPRFRVPQPAPSREAPASSTPP 2995
 
Name Accession Description Interval E-value
GPS2_interact pfam15784
G-protein pathway suppressor 2-interacting domain; GPS2_interact is the more N-terminal domain ...
66-154 3.40e-41

G-protein pathway suppressor 2-interacting domain; GPS2_interact is the more N-terminal domain of two co-repressor protein-families found in vertebrates. The domain is found in NCoR and SMRT proteins; N-CoR (nuclear receptor co-repressor) and SMRT (silencing mediator for retinoid and thyroid receptors) are related corepressors that mediate transcriptional repression by unliganded nuclear receptors and other classes of transcriptional repressors. GPS2 is a stoichiometric subunit of the N-CoR-HDAC3 complex. GPS2 links the complex to membrane receptor-related intracellular JNK (c-Jun amino-terminal kinase) signalling pathways.


Pssm-ID: 464868 [Multi-domain]  Cd Length: 89  Bit Score: 146.93  E-value: 3.40e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   66 LTGKLEPVSPPSPPHTDPELELVPPRLSKEELIQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPVSPPPIE 145
Cdd:pfam15784    1 YYPQVEAISPTLPSPEGQDQELSPFRSSKDELLQNIDKVDREIAKVEQQISKLKKKQQQLEEEAAKPPEPEEPVSPPPSE 80

                   ....*....
gi 1622847433  146 SKHRSLVQI 154
Cdd:pfam15784   81 SKHRSLAQI 89
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
531-574 7.51e-13

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 64.83  E-value: 7.51e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1622847433  531 RWTEEEMETAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNYK 574
Cdd:pfam00249    3 PWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
531-576 1.31e-10

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 58.39  E-value: 1.31e-10
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 1622847433   531 RWTEEEMETAKKGLLEHG-RNWSAIARMVGSKTVSQCKNFYFNYKKR 576
Cdd:smart00717    3 EWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
531-574 1.85e-10

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 57.97  E-value: 1.85e-10
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1622847433  531 RWTEEEMETAKKGLLEHG-RNWSAIARMVGSKTVSQCKNFYFNYK 574
Cdd:cd00167      1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
PHA03247 PHA03247
large tegument protein UL36; Provisional
811-1134 9.76e-07

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 54.56  E-value: 9.76e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  811 APQDSDSSATCSADEVDEPEggDKNRLLSPRpsllTPTGDPRANASPQ------KPLDLKQLKQRAAAIPPIQVTKVHEP 884
Cdd:PHA03247  2574 APRPSEPAVTSRARRPDAPP--QSARPRAPV----DDRGDPRGPAPPSplppdtHAPDPPPPSPSPAANEPDPHPPPTVP 2647
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  885 PREDAAPTKPAPPAPPPPQHLQPESdaPQQPGSSPRGksrsPAPAADKEAEKPVFFPAFAAEAQKLPGD-PPCWTSGLPF 963
Cdd:PHA03247  2648 PPERPRDDPAPGRVSRPRRARRLGR--AAQASSPPQR----PRRRAARPTVGSLTSLADPPPPPPTPEPaPHALVSATPL 2721
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  964 PVPPREVIKASPHAPDPSAFSYAPPGHPLPLGLHDTARPVLPRPPTISNPPPLISSAKHPSVLERQIGAISQGMSVQLHV 1043
Cdd:PHA03247  2722 PPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSP 2801
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1044 PYSEHAKAPVGPVTMGLPLPMDPKKLAPFSGVKQeQLSPRGQAGPPESlgvPTAQEASVlrgtalgsVPGGSITKGIPST 1123
Cdd:PHA03247  2802 WDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQ-PTAPPPPPGPPPP---SLPLGGSV--------APGGDVRRRPPSR 2869
                          330
                   ....*....|.
gi 1622847433 1124 RVPSDSAITYR 1134
Cdd:PHA03247  2870 SPAAKPAAPAR 2880
SANT_MTA3_like cd11661
Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family ...
357-400 1.06e-06

Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family include domains found in mouse metastasis-associated protein 3 (MTA3) proteins and arginine-glutamic dipeptide (RERE) repeats proteins. SANT (SWI3, ADA2, N-CoR and TFIIIB) DNA-binding domains are a diverse set of proteins that share a common 3 alpha-helix bundle. MTA3 has been shown to interact with nucleosome remodeling and deacetylase (NuRD) proteins CHD4 and HDAC1, and the core cohesin complex protein RAD21 in the ovary, and regulate G2/M progression in proliferating granulosa cells. RERE belongs to the atrophin family and has been identified as a nuclear receptor corepressor; altered expression levels of RERE are associated with cancer in humans while mutations of Rere in mice cause failure in closing the anterior neural tube and fusion of the telencephalic and optic vesicles during embryogenesis.


Pssm-ID: 212559 [Multi-domain]  Cd Length: 46  Bit Score: 47.22  E-value: 1.06e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1622847433  357 WSEQEKETFREKFMQHPKNFGLI-ASFLERKTVAECVLYYYLTKK 400
Cdd:cd11661      2 WSESEAKLFEEGLRKYGKDFHDIrQDFLPWKSVGELVEFYYMWKK 46
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
357-396 2.73e-06

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 45.96  E-value: 2.73e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 1622847433  357 WSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYY 396
Cdd:pfam00249    4 WTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQ 43
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
25-383 9.09e-06

chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274009 [Multi-domain]  Cd Length: 1164  Bit Score: 51.22  E-value: 9.09e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   25 MEFIESKRP-----RLELLPDPLLRPSPLLAAGQPAGSEDLTKDRSLTGKLEPVSppsppHTDPELELVPPRLSKE--EL 97
Cdd:TIGR02169  626 VEDIEAARRlmgkyRMVTLEGELFEKSGAMTGGSRAPRGGILFSRSEPAELQRLR-----ERLEGLKRELSSLQSElrRI 700
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   98 IQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPvspppIESKHRSLVQIIYDENRKKAEAAHRI--LEGLGP 175
Cdd:TIGR02169  701 ENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEE-----LEEDLSSLEQEIENVKSELKELEARIeeLEEDLH 775
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  176 QVELPLyNQPSDtRQYHENIKINQAMRKKLILYFKR-------------RNHARKQWEQKFCQRYDQLMEAWEKKV---- 238
Cdd:TIGR02169  776 KLEEAL-NDLEA-RLSHSRIPEIQAELSKLEEEVSRiearlreieqklnRLTLEKEYLEKEIQELQEQRIDLKEQIksie 853
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  239 ERIEN-NPRRRAKESKVREY------YEKQFPEIRKQR-ELQERM---QSRVGQrgsgLSMSAARSEHEVSEIIDGLSEQ 307
Cdd:TIGR02169  854 KEIENlNGKKEELEEELEELeaalrdLESRLGDLKKERdELEAQLrelERKIEE----LEAQIEKKRKRLSELKAKLEAL 929
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  308 EN----LEKQMRQLAVIPPMLYDADQ------------QRIKFINM-------------NGLMADPMKVYKDR----QVM 354
Cdd:TIGR02169  930 EEelseIEDPKGEDEEIPEEELSLEDvqaelqrveeeiRALEPVNMlaiqeyeevlkrlDELKEKRAKLEEERkailERI 1009
                          410       420
                   ....*....|....*....|....*....
gi 1622847433  355 NMWSEQEKETFREKFMQHPKNFGLIASFL 383
Cdd:TIGR02169 1010 EEYEKKKREVFMEAFEAINENFNEIFAEL 1038
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
357-400 7.87e-05

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 42.21  E-value: 7.87e-05
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*
gi 1622847433   357 WSEQEKETFREKFMQHP-KNFGLIASFLERKTVAECVLYYYLTKK 400
Cdd:smart00717    4 WTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLK 48
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
458-566 6.56e-04

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 44.88  E-value: 6.56e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  458 DKEDLLKEKTDDTSGEDNDEKEAVASKGRKTANSQGRrKGRITRSMANEANS--------EEAITPQ--QSAELASMELN 527
Cdd:COG5259    196 ENYSPSLKSPKKESQGKVDELKDHSEKHPSSCSCCGN-KSFNTRYHNLRAEKynscsecyDQGRFPSefTSSDFKPVTIS 274
                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1622847433  528 ESSR---WTEEEMETAKKGLLEHGRNWSAIARMVGSKTVSQC 566
Cdd:COG5259    275 LLIRdknWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQC 316
PHA03247 PHA03247
large tegument protein UL36; Provisional
1656-2173 6.90e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 45.31  E-value: 6.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1656 PGTPATAMDRLAYLPTAPQPFSSRHSSSPLSPGGPTHLTKPTTTsssererdrdrerdrdrereksILTSSTTVEHAP-- 1733
Cdd:PHA03247  2475 PGAPVYRRPAEARFPFAAGAAPDPGGGGPPDPDAPPAPSRLAPA----------------------ILPDEPVGEPVHpr 2532
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1734 --IWRPGTEQ-SSGSSGSSGGGGGSSSRPASHSHAHQHSPISPRTQD----ALQQRPSVLHNTGMKGiiTAVEPSTPTVL 1806
Cdd:PHA03247  2533 mlTWIRGLEElASDDAGDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEpavtSRARRPDAPPQSARPR--APVDDRGDPRG 2610
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1807 RSTSTSSPVRPAATFPPA-THCPLGGTLDGVYPTLMEPVLLPKEAPRVARPERPRAdtghaflAKPPARSGlePASSPSK 1885
Cdd:PHA03247  2611 PAPPSPLPPDTHAPDPPPpSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRR-------ARRLGRAA--QASSPPQ 2681
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1886 GSEPRPLAPPVSGHATIARTPAKNLAPHHASPDPPAPPASASDPHREKTQSKPFSIQEL-------------ELRSLGYH 1952
Cdd:PHA03247  2682 RPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAppavpagpatpggPARPARPP 2761
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1953 GSSYSPEGVEPVSPVSSPSLTHDKGLPKHLEELDKShLEGELRPKQPGPVKLGGEAAHLPHLRPLPENQPSSSPlLQTAP 2032
Cdd:PHA03247  2762 TTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRES-LPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSA-QPTAP 2839
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 2033 GVKGHQRVVTLAQHISEVITQDYTRHHPQQLSAPLPAPLYSFPGASCPVLDLRRPPSDLYLPP--------PDHGAPARG 2104
Cdd:PHA03247  2840 PPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPdqperppqPQAPPPPQP 2919
                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622847433 2105 SPNSEGGKRSPEPSKTSvlGGGEDGIEPVSPPEGVTEP---------GHSRSAVYPLLYRDGEQTEPSRMGSKSPGNT 2173
Cdd:PHA03247  2920 QPQPPPPPQPQPPPPPP--PRPQPPLAPTTDPAGAGEPsgavpqpwlGALVPGRVAVPRFRVPQPAPSREAPASSTPP 2995
 
Name Accession Description Interval E-value
GPS2_interact pfam15784
G-protein pathway suppressor 2-interacting domain; GPS2_interact is the more N-terminal domain ...
66-154 3.40e-41

G-protein pathway suppressor 2-interacting domain; GPS2_interact is the more N-terminal domain of two co-repressor protein-families found in vertebrates. The domain is found in NCoR and SMRT proteins; N-CoR (nuclear receptor co-repressor) and SMRT (silencing mediator for retinoid and thyroid receptors) are related corepressors that mediate transcriptional repression by unliganded nuclear receptors and other classes of transcriptional repressors. GPS2 is a stoichiometric subunit of the N-CoR-HDAC3 complex. GPS2 links the complex to membrane receptor-related intracellular JNK (c-Jun amino-terminal kinase) signalling pathways.


Pssm-ID: 464868 [Multi-domain]  Cd Length: 89  Bit Score: 146.93  E-value: 3.40e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   66 LTGKLEPVSPPSPPHTDPELELVPPRLSKEELIQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPVSPPPIE 145
Cdd:pfam15784    1 YYPQVEAISPTLPSPEGQDQELSPFRSSKDELLQNIDKVDREIAKVEQQISKLKKKQQQLEEEAAKPPEPEEPVSPPPSE 80

                   ....*....
gi 1622847433  146 SKHRSLVQI 154
Cdd:pfam15784   81 SKHRSLAQI 89
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
531-574 7.51e-13

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 64.83  E-value: 7.51e-13
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1622847433  531 RWTEEEMETAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNYK 574
Cdd:pfam00249    3 PWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
531-576 1.31e-10

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 58.39  E-value: 1.31e-10
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 1622847433   531 RWTEEEMETAKKGLLEHG-RNWSAIARMVGSKTVSQCKNFYFNYKKR 576
Cdd:smart00717    3 EWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
531-574 1.85e-10

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 57.97  E-value: 1.85e-10
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1622847433  531 RWTEEEMETAKKGLLEHG-RNWSAIARMVGSKTVSQCKNFYFNYK 574
Cdd:cd00167      1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
PHA03247 PHA03247
large tegument protein UL36; Provisional
811-1134 9.76e-07

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 54.56  E-value: 9.76e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  811 APQDSDSSATCSADEVDEPEggDKNRLLSPRpsllTPTGDPRANASPQ------KPLDLKQLKQRAAAIPPIQVTKVHEP 884
Cdd:PHA03247  2574 APRPSEPAVTSRARRPDAPP--QSARPRAPV----DDRGDPRGPAPPSplppdtHAPDPPPPSPSPAANEPDPHPPPTVP 2647
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  885 PREDAAPTKPAPPAPPPPQHLQPESdaPQQPGSSPRGksrsPAPAADKEAEKPVFFPAFAAEAQKLPGD-PPCWTSGLPF 963
Cdd:PHA03247  2648 PPERPRDDPAPGRVSRPRRARRLGR--AAQASSPPQR----PRRRAARPTVGSLTSLADPPPPPPTPEPaPHALVSATPL 2721
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  964 PVPPREVIKASPHAPDPSAFSYAPPGHPLPLGLHDTARPVLPRPPTISNPPPLISSAKHPSVLERQIGAISQGMSVQLHV 1043
Cdd:PHA03247  2722 PPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSP 2801
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1044 PYSEHAKAPVGPVTMGLPLPMDPKKLAPFSGVKQeQLSPRGQAGPPESlgvPTAQEASVlrgtalgsVPGGSITKGIPST 1123
Cdd:PHA03247  2802 WDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQ-PTAPPPPPGPPPP---SLPLGGSV--------APGGDVRRRPPSR 2869
                          330
                   ....*....|.
gi 1622847433 1124 RVPSDSAITYR 1134
Cdd:PHA03247  2870 SPAAKPAAPAR 2880
SANT_MTA3_like cd11661
Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family ...
357-400 1.06e-06

Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family include domains found in mouse metastasis-associated protein 3 (MTA3) proteins and arginine-glutamic dipeptide (RERE) repeats proteins. SANT (SWI3, ADA2, N-CoR and TFIIIB) DNA-binding domains are a diverse set of proteins that share a common 3 alpha-helix bundle. MTA3 has been shown to interact with nucleosome remodeling and deacetylase (NuRD) proteins CHD4 and HDAC1, and the core cohesin complex protein RAD21 in the ovary, and regulate G2/M progression in proliferating granulosa cells. RERE belongs to the atrophin family and has been identified as a nuclear receptor corepressor; altered expression levels of RERE are associated with cancer in humans while mutations of Rere in mice cause failure in closing the anterior neural tube and fusion of the telencephalic and optic vesicles during embryogenesis.


Pssm-ID: 212559 [Multi-domain]  Cd Length: 46  Bit Score: 47.22  E-value: 1.06e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1622847433  357 WSEQEKETFREKFMQHPKNFGLI-ASFLERKTVAECVLYYYLTKK 400
Cdd:cd11661      2 WSESEAKLFEEGLRKYGKDFHDIrQDFLPWKSVGELVEFYYMWKK 46
PHA03247 PHA03247
large tegument protein UL36; Provisional
658-1127 1.80e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 53.79  E-value: 1.80e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  658 AAKDTGqnGPQPPATQSTDGPPPEPPTPPPEDIPAPTEPTPASEATgpPTPPPAPPSPSVPPPVVPKEEKEEEAAAVSPV 737
Cdd:PHA03247  2544 ASDDAG--DPPPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRAR--RPDAPPQSARPRAPVDDRGDPRGPAPPSPLPP 2619
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  738 EEGEEQKPPAAEELAVDTGKAEEPIKSECTEQAEEGPAKGKDAEASEATAEgalkaekkeggsGRATTAkgSGAPQDSDS 817
Cdd:PHA03247  2620 DTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRL------------GRAAQA--SSPPQRPRR 2685
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  818 SATcsadevdEPEGGDKNRLLSPRPSLLTPTGDPRAnASPQKPLDLKQLKQRAAAiPPIQVTKVHEPPREDAAPTKPAPP 897
Cdd:PHA03247  2686 RAA-------RPTVGSLTSLADPPPPPPTPEPAPHA-LVSATPLPPGPAAARQAS-PALPAAPAPPAVPAGPATPGGPAR 2756
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  898 APPPPQHLQPESDAPqqpgssPRGKSRSPAPAADKEAEKPVFFPAFAAEAQKLPGDPPCWTSGlPFPVPPREVIKASPHA 977
Cdd:PHA03247  2757 PARPPTTAGPPAPAP------PAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLA-PAAALPPAASPAGPLP 2829
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  978 PDPSAFSYAPPGHPLPL-------GLHDTARPVLPRPPTISnPPPLISSAKHPSVLERQIGAISQGMSvqlhvPYSEHAK 1050
Cdd:PHA03247  2830 PPTSAQPTAPPPPPGPPppslplgGSVAPGGDVRRRPPSRS-PAAKPAAPARPPVRRLARPAVSRSTE-----SFALPPD 2903
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1051 APVGPVTMGLPLPMDPKKLAPFSGVKQEQLSPRGQAGPPESlgvPTAQEASVlrGTALGSVPG---GSITKG---IPSTR 1124
Cdd:PHA03247  2904 QPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLA---PTTDPAGA--GEPSGAVPQpwlGALVPGrvaVPRFR 2978

                   ...
gi 1622847433 1125 VPS 1127
Cdd:PHA03247  2979 VPQ 2981
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
357-396 2.73e-06

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 45.96  E-value: 2.73e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 1622847433  357 WSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYY 396
Cdd:pfam00249    4 WTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQ 43
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
761-1035 5.51e-06

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 52.00  E-value: 5.51e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  761 PIKSECTEQaEEGPAKGKDAEASEATAEGalkaeKKEGGSGRATTAKGSGAPQDSDSSATCSADEVDEPEGGDKNRLLSP 840
Cdd:PTZ00449   498 PIEEEDSDK-HDEPPEGPEASGLPPKAPG-----DKEGEEGEHEDSKESDEPKEGGKPGETKEGEVGKKPGPAKEHKPSK 571
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  841 RPSLLTPTGDPRANASPQKPLDLKQLKQRAAAIPPIQVTKVHEPPREDAAPTKPAPPAPPPPQHLQPesdaPQQPGSSPR 920
Cdd:PTZ00449   572 IPTLSKKPEFPKDPKHPKDPEEPKKPKRPRSAQRPTRPKSPKLPELLDIPKSPKRPESPKSPKRPPP----PQRPSSPER 647
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  921 GKS-RSPAPAADKEAEKPVFFPAFAAE--------AQKLPGDPPCWTSGLPFPVPPREVIKASPHAPDPSAfsyappgHP 991
Cdd:PTZ00449   648 PEGpKIIKSPKPPKSPKPPFDPKFKEKfyddyldaAAKSKETKTTVVLDESFESILKETLPETPGTPFTTP-------RP 720
                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....
gi 1622847433  992 LPlglhdtarPVLPRPPTISNPPPLISSAKHPSVLERQIGAISQ 1035
Cdd:PTZ00449   721 LP--------PKLPRDEEFPFEPIGDPDAEQPDDIEFFTPPEEE 756
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
25-383 9.09e-06

chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274009 [Multi-domain]  Cd Length: 1164  Bit Score: 51.22  E-value: 9.09e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   25 MEFIESKRP-----RLELLPDPLLRPSPLLAAGQPAGSEDLTKDRSLTGKLEPVSppsppHTDPELELVPPRLSKE--EL 97
Cdd:TIGR02169  626 VEDIEAARRlmgkyRMVTLEGELFEKSGAMTGGSRAPRGGILFSRSEPAELQRLR-----ERLEGLKRELSSLQSElrRI 700
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   98 IQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPvspppIESKHRSLVQIIYDENRKKAEAAHRI--LEGLGP 175
Cdd:TIGR02169  701 ENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEE-----LEEDLSSLEQEIENVKSELKELEARIeeLEEDLH 775
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  176 QVELPLyNQPSDtRQYHENIKINQAMRKKLILYFKR-------------RNHARKQWEQKFCQRYDQLMEAWEKKV---- 238
Cdd:TIGR02169  776 KLEEAL-NDLEA-RLSHSRIPEIQAELSKLEEEVSRiearlreieqklnRLTLEKEYLEKEIQELQEQRIDLKEQIksie 853
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  239 ERIEN-NPRRRAKESKVREY------YEKQFPEIRKQR-ELQERM---QSRVGQrgsgLSMSAARSEHEVSEIIDGLSEQ 307
Cdd:TIGR02169  854 KEIENlNGKKEELEEELEELeaalrdLESRLGDLKKERdELEAQLrelERKIEE----LEAQIEKKRKRLSELKAKLEAL 929
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  308 EN----LEKQMRQLAVIPPMLYDADQ------------QRIKFINM-------------NGLMADPMKVYKDR----QVM 354
Cdd:TIGR02169  930 EEelseIEDPKGEDEEIPEEELSLEDvqaelqrveeeiRALEPVNMlaiqeyeevlkrlDELKEKRAKLEEERkailERI 1009
                          410       420
                   ....*....|....*....|....*....
gi 1622847433  355 NMWSEQEKETFREKFMQHPKNFGLIASFL 383
Cdd:TIGR02169 1010 EEYEKKKREVFMEAFEAINENFNEIFAEL 1038
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
357-399 2.38e-05

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 43.33  E-value: 2.38e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1622847433  357 WSEQEKETFREKFMQHP-KNFGLIASFLERKTVAECVLYYYLTK 399
Cdd:cd00167      2 WTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
357-400 7.87e-05

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 42.21  E-value: 7.87e-05
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*
gi 1622847433   357 WSEQEKETFREKFMQHP-KNFGLIASFLERKTVAECVLYYYLTKK 400
Cdd:smart00717    4 WTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLK 48
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
532-573 5.45e-04

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 39.99  E-value: 5.45e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1622847433  532 WTEEEMETAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNY 573
Cdd:pfam13921    1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRK 42
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
91-336 5.77e-04

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 45.43  E-value: 5.77e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433   91 RLSKEELIQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKppepekpvspppIESKHRSLVQIIYDENRKKAEAAHRIl 170
Cdd:TIGR02168  245 QEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEE------------LQKELYALANEISRLEQQKQILRERL- 311
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  171 eglgpqvelplynqpsdtRQYHENIKINQAMRKKLilyFKRRNHARK---QWEQKFCQ---RYDQLMEAWEKKVERIENN 244
Cdd:TIGR02168  312 ------------------ANLERQLEELEAQLEEL---ESKLDELAEelaELEEKLEElkeELESLEAELEELEAELEEL 370
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  245 PRRRAKESKVREYYEKQFPEIRKQRELQERMQSRVGQRGSGLSMSAARSEHEVSEIIDGLSEQEnLEKQMRQLAVIPPML 324
Cdd:TIGR02168  371 ESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAE-LKELQAELEELEEEL 449
                          250
                   ....*....|..
gi 1622847433  325 YDADQQRIKFIN 336
Cdd:TIGR02168  450 EELQEELERLEE 461
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
458-566 6.56e-04

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 44.88  E-value: 6.56e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  458 DKEDLLKEKTDDTSGEDNDEKEAVASKGRKTANSQGRrKGRITRSMANEANS--------EEAITPQ--QSAELASMELN 527
Cdd:COG5259    196 ENYSPSLKSPKKESQGKVDELKDHSEKHPSSCSCCGN-KSFNTRYHNLRAEKynscsecyDQGRFPSefTSSDFKPVTIS 274
                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1622847433  528 ESSR---WTEEEMETAKKGLLEHGRNWSAIARMVGSKTVSQC 566
Cdd:COG5259    275 LLIRdknWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQC 316
PHA03247 PHA03247
large tegument protein UL36; Provisional
1656-2173 6.90e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 45.31  E-value: 6.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1656 PGTPATAMDRLAYLPTAPQPFSSRHSSSPLSPGGPTHLTKPTTTsssererdrdrerdrdrereksILTSSTTVEHAP-- 1733
Cdd:PHA03247  2475 PGAPVYRRPAEARFPFAAGAAPDPGGGGPPDPDAPPAPSRLAPA----------------------ILPDEPVGEPVHpr 2532
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1734 --IWRPGTEQ-SSGSSGSSGGGGGSSSRPASHSHAHQHSPISPRTQD----ALQQRPSVLHNTGMKGiiTAVEPSTPTVL 1806
Cdd:PHA03247  2533 mlTWIRGLEElASDDAGDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEpavtSRARRPDAPPQSARPR--APVDDRGDPRG 2610
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1807 RSTSTSSPVRPAATFPPA-THCPLGGTLDGVYPTLMEPVLLPKEAPRVARPERPRAdtghaflAKPPARSGlePASSPSK 1885
Cdd:PHA03247  2611 PAPPSPLPPDTHAPDPPPpSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRR-------ARRLGRAA--QASSPPQ 2681
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1886 GSEPRPLAPPVSGHATIARTPAKNLAPHHASPDPPAPPASASDPHREKTQSKPFSIQEL-------------ELRSLGYH 1952
Cdd:PHA03247  2682 RPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAppavpagpatpggPARPARPP 2761
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1953 GSSYSPEGVEPVSPVSSPSLTHDKGLPKHLEELDKShLEGELRPKQPGPVKLGGEAAHLPHLRPLPENQPSSSPlLQTAP 2032
Cdd:PHA03247  2762 TTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRES-LPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSA-QPTAP 2839
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 2033 GVKGHQRVVTLAQHISEVITQDYTRHHPQQLSAPLPAPLYSFPGASCPVLDLRRPPSDLYLPP--------PDHGAPARG 2104
Cdd:PHA03247  2840 PPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPdqperppqPQAPPPPQP 2919
                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622847433 2105 SPNSEGGKRSPEPSKTSvlGGGEDGIEPVSPPEGVTEP---------GHSRSAVYPLLYRDGEQTEPSRMGSKSPGNT 2173
Cdd:PHA03247  2920 QPQPPPPPQPQPPPPPP--PRPQPPLAPTTDPAGAGEPsgavpqpwlGALVPGRVAVPRFRVPQPAPSREAPASSTPP 2995
PHA03247 PHA03247
large tegument protein UL36; Provisional
666-1089 1.04e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.54  E-value: 1.04e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  666 GPQPPATQSTDGPPPE---PPTPPPEDIPAPTEPTPASEATgpptpppappspsvpppvvpkeEKEEEAAAVSPVEEGEE 742
Cdd:PHA03247  2682 RPRRRAARPTVGSLTSladPPPPPPTPEPAPHALVSATPLP----------------------PGPAAARQASPALPAAP 2739
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  743 QKPPAAEELAVDTGKAEEPiksecTEQAEEGPAKGKDAEASEATAEGALKAekKEGGSGRATTAKGSGAPQDSDSSATCS 822
Cdd:PHA03247  2740 APPAVPAGPATPGGPARPA-----RPPTTAGPPAPAPPAAPAAGPPRRLTR--PAVASLSESRESLPSPWDPADPPAAVL 2812
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  823 ADEVDEPEGGDKNRLLSPrPSLLTPTGDPRANASPQKPLDLK-------QLKQRAAAIPPiqVTKVHEPPREDAAPTKPA 895
Cdd:PHA03247  2813 APAAALPPAASPAGPLPP-PTSAQPTAPPPPPGPPPPSLPLGgsvapggDVRRRPPSRSP--AAKPAAPARPPVRRLARP 2889
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  896 PPAPpppqhlQPESDAPQQPGSSPRGKSRSPAPAADKEAEKPVFFPAFAAEAQKLPGDPPCWTSGlpfpvpPREVIKASP 975
Cdd:PHA03247  2890 AVSR------STESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTD------PAGAGEPSG 2957
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433  976 HAPDPSAFSYAPPGHPLPLGLHDTARPVLPRPPTISNPP-----PLISSAKHPSVLERQIGAISQGMSVQLHVP------ 1044
Cdd:PHA03247  2958 AVPQPWLGALVPGRVAVPRFRVPQPAPSREAPASSTPPLtghslSRVSSWASSLALHEETDPPPVSLKQTLWPPddteds 3037
                          410       420       430       440       450
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1622847433 1045 ------YSEHAKAPVGPVTMGLPLPMDPKKLAPFSGVKQ--EQLSPRGQAGPP 1089
Cdd:PHA03247  3038 dadslfDSDSERSDLEALDPLPPEPHDPFAHEPDPATPEagARESPSSQFGPP 3090
PHA03247 PHA03247
large tegument protein UL36; Provisional
1646-1912 2.69e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.39  E-value: 2.69e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1646 PHLPVLVPPTPGTPATAMDRLAYLPTAPQPFSSRHSSSPLSPGGPTHLTKPTTTSSSERERDRDRERDRDREreksilts 1725
Cdd:PHA03247  2710 PAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPR-------- 2781
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1726 STTVEHAPIWRPGTEQSSGSSGSSGGGGGSSSRPASHSHAHQHSPISPRTQDALQQRPS-----VLHNTGMKGiitAVEP 1800
Cdd:PHA03247  2782 RLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPpppgpPPPSLPLGG---SVAP 2858
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622847433 1801 STPTVLRSTSTSSPVRPAA-TFPPATHCPLGGTldgvyPTLMEPVLLPKEAPrvARPERPRADTGhaflAKPPARSGLEP 1879
Cdd:PHA03247  2859 GGDVRRRPPSRSPAAKPAApARPPVRRLARPAV-----SRSTESFALPPDQP--ERPPQPQAPPP----PQPQPQPPPPP 2927
                          250       260       270
                   ....*....|....*....|....*....|...
gi 1622847433 1880 ASSPSKGSEPRPLAPPVSGHATIARTPAKNLAP 1912
Cdd:PHA03247  2928 QPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960
 
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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