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Conserved domains on  [gi|30680475|ref|NP_849608|]
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ATP-dependent helicase family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 553-666 6.45e-13

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


:

Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 67.50  E-value: 6.45e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  553 VEIKASGKLHLLDKMLTHIKKNGLKAVVFYQATQTpeglllGNILEDFVGQRFGPKSYEHGIYSSKK-NSAINNFNKESQ 631
Cdd:cd18793    5 IEEVVSGKLEALLELLEELREPGEKVLIFSQFTDT------LDILEEALRERGIKYLRLDGSTSSKErQKLVDRFNEDPD 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 30680475  632 CCVLLLETRACSQTIKLLRADAFILFGSSLNPSHD 666
Cdd:cd18793   79 IRVFLLSTKAGGVGLNLTAANRVILYDPWWNPAVE 113
PLN03142 super family cl33647
Probable chromatin-remodeling complex ATPase chain; Provisional
 523-850 6.08e-12

Probable chromatin-remodeling complex ATPase chain; Provisional


The actual alignment was detected with superfamily member PLN03142:

Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 71.37  E-value: 6.08e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   523 VRKTCDHPYVMD-ASLKQLLTKNLELheildveIKASGKLHLLDKMLTHIKKNGLKAVVFYQATQtpegllLGNILEDFV 601
Cdd:PLN03142  441 LRKCCNHPYLFQgAEPGPPYTTGEHL-------VENSGKMVLLDKLLPKLKERDSRVLIFSQMTR------LLDILEDYL 507

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   602 GQRfgpkSYEH-----GIYSSKKNSAINNFNKE-SQCCVLLLETRACSQTIKLLRADAFILFGSSLNPSHDVKHVEKIKI 675
Cdd:PLN03142  508 MYR----GYQYcridgNTGGEDRDASIDAFNKPgSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHR 583

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   676 ESCSERTKIFRLYSVCTVEEK------------ALILARQNKRQNKAVenlNRSLTHALLMWGASYLFDkldhfhsseTP 743
Cdd:PLN03142  584 IGQKKEVQVFRFCTEYTIEEKvieraykklaldALVIQQGRLAEQKTV---NKDELLQMVRYGAEMVFS---------SK 651

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   744 DSGVSFEQsiMDGVIhefssilsSKGGEENEvklclLLEAKHAQgtyssdstlFGEDHIKLS-------------DEESP 810
Cdd:PLN03142  652 DSTITDED--IDRII--------AKGEEATA-----ELDAKMKK---------FTEDAIKFKmddtaelydfddeDDKDE 707

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*....
gi 30680475   811 NIFWSKLLGGKNpmWKYPsdtPQRNRKR----VQYF-----EGSEASPK 850
Cdd:PLN03142  708 NKLDFKKIVSDN--WIDP---PKRERKRnyseSEYFkqamrQGAPAKPK 751
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 1858-1962 1.26e-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: 50.71  E-value: 1.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1858 PAPALVSAPLQLQQSSFPAPGPAPLQPQASSFPSSVSRPSAlllnfavcpmPQPRQPlisniAPTPSVTPATNPGL---R 1934
Cdd:PHA03247 2758 ARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL----------PSPWDP-----ADPPAAVLAPAAALppaA 2822

                          90       100
                  ....*....|....*....|....*...
gi 30680475  1935 SPAPHLNSyrPSSSTPVATATPTSSVPP 1962
Cdd:PHA03247 2823 SPAGPLPP--PTSAQPTAPPPPPGPPPP 2848
PRK04654 super family cl31366
sec-independent translocase; Provisional
 1740-1969 3.54e-05

sec-independent translocase; Provisional


The actual alignment was detected with superfamily member PRK04654:

Pssm-ID: 135173 [Multi-domain]  Cd Length: 214  Bit Score: 47.11  E-value: 3.54e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1740 LEKLRRESENSKKTFEEKksiLKAE-LERKMAEVQAEFRrkfhevEAEHNTRTTKIEKDKNlvimnkllANAFLSKCT-D 1817
Cdd:PRK04654   36 VRRARMQWDSVKQELERE---LEAEeLKRSLQDVQASLR------EAEDQLRNTQQQVEQG--------ARALHDDVSrD 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1818 KKVSPSGAPRGKIQQLAQraAQVSALRNYIAPQQLQASSFPAPAlvsaplqlqqssfPAPGPAPLQPQAssfpssvsRPS 1897
Cdd:PRK04654   99 IDIRTSATPVATPLELAH--ADLSASAQVDAAAGAEPGAGQAHT-------------PVPAPAPVIAQA--------QPI 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680475  1898 AlllnfavcpmPQPRQPLISniAPTPSVTPATNpglrspAPHLNSyrpSSSTPVATAtPTSSVPPQALTYSA 1969
Cdd:PRK04654  156 A----------PAPHQTLVP--APHDTIVPAPH------AAHLPS---APATPVSVA-PVDAGTSASPTPSE 205
 
Name Accession Description Interval E-value
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 553-666 6.45e-13

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 67.50  E-value: 6.45e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  553 VEIKASGKLHLLDKMLTHIKKNGLKAVVFYQATQTpeglllGNILEDFVGQRFGPKSYEHGIYSSKK-NSAINNFNKESQ 631
Cdd:cd18793    5 IEEVVSGKLEALLELLEELREPGEKVLIFSQFTDT------LDILEEALRERGIKYLRLDGSTSSKErQKLVDRFNEDPD 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 30680475  632 CCVLLLETRACSQTIKLLRADAFILFGSSLNPSHD 666
Cdd:cd18793   79 IRVFLLSTKAGGVGLNLTAANRVILYDPWWNPAVE 113
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 523-850 6.08e-12

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 71.37  E-value: 6.08e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   523 VRKTCDHPYVMD-ASLKQLLTKNLELheildveIKASGKLHLLDKMLTHIKKNGLKAVVFYQATQtpegllLGNILEDFV 601
Cdd:PLN03142  441 LRKCCNHPYLFQgAEPGPPYTTGEHL-------VENSGKMVLLDKLLPKLKERDSRVLIFSQMTR------LLDILEDYL 507

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   602 GQRfgpkSYEH-----GIYSSKKNSAINNFNKE-SQCCVLLLETRACSQTIKLLRADAFILFGSSLNPSHDVKHVEKIKI 675
Cdd:PLN03142  508 MYR----GYQYcridgNTGGEDRDASIDAFNKPgSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHR 583

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   676 ESCSERTKIFRLYSVCTVEEK------------ALILARQNKRQNKAVenlNRSLTHALLMWGASYLFDkldhfhsseTP 743
Cdd:PLN03142  584 IGQKKEVQVFRFCTEYTIEEKvieraykklaldALVIQQGRLAEQKTV---NKDELLQMVRYGAEMVFS---------SK 651

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   744 DSGVSFEQsiMDGVIhefssilsSKGGEENEvklclLLEAKHAQgtyssdstlFGEDHIKLS-------------DEESP 810
Cdd:PLN03142  652 DSTITDED--IDRII--------AKGEEATA-----ELDAKMKK---------FTEDAIKFKmddtaelydfddeDDKDE 707

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*....
gi 30680475   811 NIFWSKLLGGKNpmWKYPsdtPQRNRKR----VQYF-----EGSEASPK 850
Cdd:PLN03142  708 NKLDFKKIVSDN--WIDP---PKRERKRnyseSEYFkqamrQGAPAKPK 751
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 524-708 2.22e-06

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 52.92  E-value: 2.22e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  524 RKTCDHPyvmdaslkQLLTKNLELHEIldveikASGKLHLLDKMLTHIKKNGLKAVVFYQATQTpeglllGNILEDFVGQ 603
Cdd:COG0553  512 RQICSHP--------ALLLEEGAELSG------RSAKLEALLELLEELLAEGEKVLVFSQFTDT------LDLLEERLEE 571

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  604 RFGPKSYEHG-IYSSKKNSAINNFNKESQCCVLLLETRACSQTIKLLRADAFILFGSSLNPSHdvkhvekikIESCSER- 681
Cdd:COG0553  572 RGIEYAYLHGgTSAEERDELVDRFQEGPEAPVFLISLKAGGEGLNLTAADHVIHYDLWWNPAV---------EEQAIDRa 642

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 30680475  682 -----TK---IFRLYSVCTVEEKalILARQNKRQN 708
Cdd:COG0553  643 hrigqTRdvqVYKLVAEGTIEEK--ILELLEEKRA 675
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1858-1962 1.26e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 50.71  E-value: 1.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1858 PAPALVSAPLQLQQSSFPAPGPAPLQPQASSFPSSVSRPSAlllnfavcpmPQPRQPlisniAPTPSVTPATNPGL---R 1934
Cdd:PHA03247 2758 ARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL----------PSPWDP-----ADPPAAVLAPAAALppaA 2822

                          90       100
                  ....*....|....*....|....*...
gi 30680475  1935 SPAPHLNSyrPSSSTPVATATPTSSVPP 1962
Cdd:PHA03247 2823 SPAGPLPP--PTSAQPTAPPPPPGPPPP 2848
PRK04654 PRK04654
sec-independent translocase; Provisional
 1740-1969 3.54e-05

sec-independent translocase; Provisional


Pssm-ID: 135173 [Multi-domain]  Cd Length: 214  Bit Score: 47.11  E-value: 3.54e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1740 LEKLRRESENSKKTFEEKksiLKAE-LERKMAEVQAEFRrkfhevEAEHNTRTTKIEKDKNlvimnkllANAFLSKCT-D 1817
Cdd:PRK04654   36 VRRARMQWDSVKQELERE---LEAEeLKRSLQDVQASLR------EAEDQLRNTQQQVEQG--------ARALHDDVSrD 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1818 KKVSPSGAPRGKIQQLAQraAQVSALRNYIAPQQLQASSFPAPAlvsaplqlqqssfPAPGPAPLQPQAssfpssvsRPS 1897
Cdd:PRK04654   99 IDIRTSATPVATPLELAH--ADLSASAQVDAAAGAEPGAGQAHT-------------PVPAPAPVIAQA--------QPI 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680475  1898 AlllnfavcpmPQPRQPLISniAPTPSVTPATNpglrspAPHLNSyrpSSSTPVATAtPTSSVPPQALTYSA 1969
Cdd:PRK04654  156 A----------PAPHQTLVP--APHDTIVPAPH------AAHLPS---APATPVSVA-PVDAGTSASPTPSE 205
HDA2-3 pfam11496
Class II histone deacetylase complex subunits 2 and 3; This family of class II histone ...
 479-694 8.19e-04

Class II histone deacetylase complex subunits 2 and 3; This family of class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi, The member from S. pombe is referred to as Ccq1 in Swiss:Q10432. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C-terminus.


Pssm-ID: 402894  Cd Length: 281  Bit Score: 43.47  E-value: 8.19e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475    479 EYWVPVQLSDVQLEQYCQTL----------FSKSLSLSSLSKIDLgaLEETLNSVRKTCDHPYV-----MDaslKQLLTK 543
Cdd:pfam11496    5 DYYLPTPMTSYQKELTEQIVslhysdilkyCETSDSKEDISLIKS--MTLCLENLSLVATHPYLlvdhyMP---KSLLLK 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475    544 nlELHEILdveIKASGKLHLLDKMLTHI----KKNGLKAVVFYQATQTP---EGLLLGNileDFVGQRF-GPKSYEhgiy 615
Cdd:pfam11496   80 --DEPEKL---AYTSGKFLVLNDLVNLLierdRKEPINVAIVARSGKTLdlvEALLLGK---GLSYKRYsGEMLYG---- 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475    616 SSKKNSAINNFNKESQCCVLLLETRACSQTIKLL---RADAFILFGSSLNPSHDvkHVEKIKIESCSERTK--IFRLYSV 690
Cdd:pfam11496  148 ENKKVSDSGNKKIHSTTCHLLSSTGQLTNDDSLLenyKFDLIIAFDSSVDTSSP--SVEHLRTQNRRKGNLapIIRLVVI 225


                   ....
gi 30680475    691 CTVE 694
Cdd:pfam11496  226 NSIE 229
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1849-1965 9.72e-04

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 44.37  E-value: 9.72e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   1849 PQQLQASSFPAPALVSAPLQLQQSSFPAPGPAplqpqASSFPSSVSRPSALLLNfavcpMPQPRQPLISNIAPTPSVTPA 1928
Cdd:pfam03154  171 PPVLQAQSGAASPPSPPPPGTTQAATAGPTPS-----APSVPPQGSPATSQPPN-----QTQSTAAPHTLIQQTPTLHPQ 240

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 30680475   1929 tnpglRSPAPHlnsyrpSSSTPVATATPTSSVPPQAL 1965
Cdd:pfam03154  241 -----RLPSPH------PPLQPMTQPPPPSQVSPQPL 266
 
Name Accession Description Interval E-value
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 553-666 6.45e-13

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 67.50  E-value: 6.45e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  553 VEIKASGKLHLLDKMLTHIKKNGLKAVVFYQATQTpeglllGNILEDFVGQRFGPKSYEHGIYSSKK-NSAINNFNKESQ 631
Cdd:cd18793    5 IEEVVSGKLEALLELLEELREPGEKVLIFSQFTDT------LDILEEALRERGIKYLRLDGSTSSKErQKLVDRFNEDPD 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 30680475  632 CCVLLLETRACSQTIKLLRADAFILFGSSLNPSHD 666
Cdd:cd18793   79 IRVFLLSTKAGGVGLNLTAANRVILYDPWWNPAVE 113
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 523-850 6.08e-12

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 71.37  E-value: 6.08e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   523 VRKTCDHPYVMD-ASLKQLLTKNLELheildveIKASGKLHLLDKMLTHIKKNGLKAVVFYQATQtpegllLGNILEDFV 601
Cdd:PLN03142  441 LRKCCNHPYLFQgAEPGPPYTTGEHL-------VENSGKMVLLDKLLPKLKERDSRVLIFSQMTR------LLDILEDYL 507

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   602 GQRfgpkSYEH-----GIYSSKKNSAINNFNKE-SQCCVLLLETRACSQTIKLLRADAFILFGSSLNPSHDVKHVEKIKI 675
Cdd:PLN03142  508 MYR----GYQYcridgNTGGEDRDASIDAFNKPgSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHR 583

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   676 ESCSERTKIFRLYSVCTVEEK------------ALILARQNKRQNKAVenlNRSLTHALLMWGASYLFDkldhfhsseTP 743
Cdd:PLN03142  584 IGQKKEVQVFRFCTEYTIEEKvieraykklaldALVIQQGRLAEQKTV---NKDELLQMVRYGAEMVFS---------SK 651

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   744 DSGVSFEQsiMDGVIhefssilsSKGGEENEvklclLLEAKHAQgtyssdstlFGEDHIKLS-------------DEESP 810
Cdd:PLN03142  652 DSTITDED--IDRII--------AKGEEATA-----ELDAKMKK---------FTEDAIKFKmddtaelydfddeDDKDE 707

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*....
gi 30680475   811 NIFWSKLLGGKNpmWKYPsdtPQRNRKR----VQYF-----EGSEASPK 850
Cdd:PLN03142  708 NKLDFKKIVSDN--WIDP---PKRERKRnyseSEYFkqamrQGAPAKPK 751
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 524-708 2.22e-06

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 52.92  E-value: 2.22e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  524 RKTCDHPyvmdaslkQLLTKNLELHEIldveikASGKLHLLDKMLTHIKKNGLKAVVFYQATQTpeglllGNILEDFVGQ 603
Cdd:COG0553  512 RQICSHP--------ALLLEEGAELSG------RSAKLEALLELLEELLAEGEKVLVFSQFTDT------LDLLEERLEE 571

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  604 RFGPKSYEHG-IYSSKKNSAINNFNKESQCCVLLLETRACSQTIKLLRADAFILFGSSLNPSHdvkhvekikIESCSER- 681
Cdd:COG0553  572 RGIEYAYLHGgTSAEERDELVDRFQEGPEAPVFLISLKAGGEGLNLTAADHVIHYDLWWNPAV---------EEQAIDRa 642

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 30680475  682 -----TK---IFRLYSVCTVEEKalILARQNKRQN 708
Cdd:COG0553  643 hrigqTRdvqVYKLVAEGTIEEK--ILELLEEKRA 675
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1858-1962 1.26e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 50.71  E-value: 1.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1858 PAPALVSAPLQLQQSSFPAPGPAPLQPQASSFPSSVSRPSAlllnfavcpmPQPRQPlisniAPTPSVTPATNPGL---R 1934
Cdd:PHA03247 2758 ARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL----------PSPWDP-----ADPPAAVLAPAAALppaA 2822

                          90       100
                  ....*....|....*....|....*...
gi 30680475  1935 SPAPHLNSyrPSSSTPVATATPTSSVPP 1962
Cdd:PHA03247 2823 SPAGPLPP--PTSAQPTAPPPPPGPPPP 2848
PRK04654 PRK04654
sec-independent translocase; Provisional
 1740-1969 3.54e-05

sec-independent translocase; Provisional


Pssm-ID: 135173 [Multi-domain]  Cd Length: 214  Bit Score: 47.11  E-value: 3.54e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1740 LEKLRRESENSKKTFEEKksiLKAE-LERKMAEVQAEFRrkfhevEAEHNTRTTKIEKDKNlvimnkllANAFLSKCT-D 1817
Cdd:PRK04654   36 VRRARMQWDSVKQELERE---LEAEeLKRSLQDVQASLR------EAEDQLRNTQQQVEQG--------ARALHDDVSrD 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1818 KKVSPSGAPRGKIQQLAQraAQVSALRNYIAPQQLQASSFPAPAlvsaplqlqqssfPAPGPAPLQPQAssfpssvsRPS 1897
Cdd:PRK04654   99 IDIRTSATPVATPLELAH--ADLSASAQVDAAAGAEPGAGQAHT-------------PVPAPAPVIAQA--------QPI 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680475  1898 AlllnfavcpmPQPRQPLISniAPTPSVTPATNpglrspAPHLNSyrpSSSTPVATAtPTSSVPPQALTYSA 1969
Cdd:PRK04654  156 A----------PAPHQTLVP--APHDTIVPAPH------AAHLPS---APATPVSVA-PVDAGTSASPTPSE 205
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1822-1960 3.57e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 49.17  E-value: 3.57e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1822 PSGAPRGKIQQLAQRAAQVSALRNYIAPQQLQ---ASSFPAPALVSAPLQLQQSSFPAPGP-----APLQPQASsfPSSV 1893
Cdd:PHA03247 2875 PAAPARPPVRRLARPAVSRSTESFALPPDQPErppQPQAPPPPQPQPQPPPPPQPQPPPPPpprpqPPLAPTTD--PAGA 2952

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680475  1894 SRPSALLLNF---AVCP--MPQPRQPLISNIAPTPSVTPATNPGLRSPAPHLNSYRPSSSTPVATATPTSSV 1960
Cdd:PHA03247 2953 GEPSGAVPQPwlgALVPgrVAVPRFRVPQPAPSREAPASSTPPLTGHSLSRVSSWASSLALHEETDPPPVSL 3024
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1825-1972 4.22e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 49.17  E-value: 4.22e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1825 APRGkiqQLAQRAAQVSALRNYIAPQQLQASSFPAPALVSAPLQLQQssfPAPGPAPL-QPQASSFPSSVSRPSAlllnf 1903
Cdd:PHA03247 2857 APGG---DVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFAL---PPDQPERPpQPQAPPPPQPQPQPPP----- 2925

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1904 AVCPMPQPRQPLISN--IAPTPSVTPATNPGLRSPAPHLN---------------SYRPSSSTPVATATPTSSVPPQALT 1966
Cdd:PHA03247 2926 PPQPQPPPPPPPRPQppLAPTTDPAGAGEPSGAVPQPWLGalvpgrvavprfrvpQPAPSREAPASSTPPLTGHSLSRVS 3005


                  ....*.
gi 30680475  1967 YSAVSI 1972
Cdd:PHA03247 3006 SWASSL 3011
PHA03379 PHA03379
EBNA-3A; Provisional
 1821-1965 1.34e-04

EBNA-3A; Provisional


Pssm-ID: 223066 [Multi-domain]  Cd Length: 935  Bit Score: 46.98  E-value: 1.34e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1821 SPSGAPRGKIQQLAQRAAQVSALRNYIAPQQlqaSSFPAPALVSAPLQLQQSSFPAPGP------APLQPQASS--FPSS 1892
Cdd:PHA03379  411 PTYGTPRPPVEKPRPEVPQSLETATSHGSAQ---VPEPPPVHDLEPGPLHDQHSMAPCPvaqlppGPLQDLEPGdqLPGV 487

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30680475  1893 VSRPSAlllnfAVCPMPQPRQPLISNIAPTPSVTPAtnpglRSPAPHLNSYRPSSSTPVATAT---PTSSVPPQAL 1965
Cdd:PHA03379  488 VQDGRP-----ACAPVPAPAGPIVRPWEASLSQVPG-----VAFAPVMPQPMPVEPVPVPTVAlerPVCPAPPLIA 553
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1822-1971 3.47e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 46.08  E-value: 3.47e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1822 PSGAPRGKiQQLAQRAAqVSALRNYIAPQQLQASSFPAP-ALVSA-PL----QLQQSSFPAPGPAPLQPQASSFPSSvsr 1895
Cdd:PHA03247 2676 ASSPPQRP-RRRAARPT-VGSLTSLADPPPPPPTPEPAPhALVSAtPLppgpAAARQASPALPAAPAPPAVPAGPAT--- 2750

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1896 PSAlllnfavcPMPQPRQPLISN-IAPTPSVTPATNPGLRSPAPHLNSY---RPSSSTPVATATPTSSVPPQALTYSAVS 1971
Cdd:PHA03247 2751 PGG--------PARPARPPTTAGpPAPAPPAAPAAGPPRRLTRPAVASLsesRESLPSPWDPADPPAAVLAPAAALPPAA 2822
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1820-1971 4.32e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 45.70  E-value: 4.32e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1820 VSPSGAPRGKIQQLAQRAAQVSALRNYIAPQQLQASSFPAPALVSAPLQLQQSSFPAPGPAPLQPQASSFPSSvSRPSAL 1899
Cdd:PHA03247 2749 ATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPA-ASPAGP 2827

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680475  1900 LlnfavcPMPQPRQPLISNIAPTPSVTPATNPGLRSPAPHLNSYRPSSSTPVATATPTsSVPPQALTYSAVS 1971
Cdd:PHA03247 2828 L------PPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPA-RPPVRRLARPAVS 2892
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1822-1971 8.10e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.93  E-value: 8.10e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1822 PSGAPRGKIQQLAQRAAQVSALRNYIAP------QQLQASSFPAPALVSAPLQLQQ-----------SSFPAPGPAPLQP 1884
Cdd:PHA03247 2629 PSPSPAANEPDPHPPPTVPPPERPRDDPapgrvsRPRRARRLGRAAQASSPPQRPRrraarptvgslTSLADPPPPPPTP 2708

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1885 QASSFPSSVSRPSALLLNFAVCPMPQPRQPLISNIAPTPSVTPATNPglRSPAPHLNSYRPSSSTPVATATPtssvPPQA 1964
Cdd:PHA03247 2709 EPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPA--RPARPPTTAGPPAPAPPAAPAAG----PPRR 2782


                  ....*..
gi 30680475  1965 LTYSAVS 1971
Cdd:PHA03247 2783 LTRPAVA 2789
HDA2-3 pfam11496
Class II histone deacetylase complex subunits 2 and 3; This family of class II histone ...
 479-694 8.19e-04

Class II histone deacetylase complex subunits 2 and 3; This family of class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi, The member from S. pombe is referred to as Ccq1 in Swiss:Q10432. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C-terminus.


Pssm-ID: 402894  Cd Length: 281  Bit Score: 43.47  E-value: 8.19e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475    479 EYWVPVQLSDVQLEQYCQTL----------FSKSLSLSSLSKIDLgaLEETLNSVRKTCDHPYV-----MDaslKQLLTK 543
Cdd:pfam11496    5 DYYLPTPMTSYQKELTEQIVslhysdilkyCETSDSKEDISLIKS--MTLCLENLSLVATHPYLlvdhyMP---KSLLLK 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475    544 nlELHEILdveIKASGKLHLLDKMLTHI----KKNGLKAVVFYQATQTP---EGLLLGNileDFVGQRF-GPKSYEhgiy 615
Cdd:pfam11496   80 --DEPEKL---AYTSGKFLVLNDLVNLLierdRKEPINVAIVARSGKTLdlvEALLLGK---GLSYKRYsGEMLYG---- 147

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475    616 SSKKNSAINNFNKESQCCVLLLETRACSQTIKLL---RADAFILFGSSLNPSHDvkHVEKIKIESCSERTK--IFRLYSV 690
Cdd:pfam11496  148 ENKKVSDSGNKKIHSTTCHLLSSTGQLTNDDSLLenyKFDLIIAFDSSVDTSSP--SVEHLRTQNRRKGNLapIIRLVVI 225


                   ....
gi 30680475    691 CTVE 694
Cdd:pfam11496  226 NSIE 229
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1849-1965 9.72e-04

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 44.37  E-value: 9.72e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   1849 PQQLQASSFPAPALVSAPLQLQQSSFPAPGPAplqpqASSFPSSVSRPSALLLNfavcpMPQPRQPLISNIAPTPSVTPA 1928
Cdd:pfam03154  171 PPVLQAQSGAASPPSPPPPGTTQAATAGPTPS-----APSVPPQGSPATSQPPN-----QTQSTAAPHTLIQQTPTLHPQ 240

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 30680475   1929 tnpglRSPAPHlnsyrpSSSTPVATATPTSSVPPQAL 1965
Cdd:pfam03154  241 -----RLPSPH------PPLQPMTQPPPPSQVSPQPL 266
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1821-1965 9.83e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.54  E-value: 9.83e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1821 SPSGAPRGKIQQLAQRAAQVSALRNY-IAPQQLQASSFPAPALVSAPlQLQQSSFPAPGPAP---LQPQASSFPSSVSRP 1896
Cdd:PHA03247 2770 APPAAPAAGPPRRLTRPAVASLSESReSLPSPWDPADPPAAVLAPAA-ALPPAASPAGPLPPptsAQPTAPPPPPGPPPP 2848

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1897 SaLLLNFAVCP------MPQPRQPLISNIAPT---------PSVTPATNPglrSPAPHLNSYRPSSSTPVATATPTSSVP 1961
Cdd:PHA03247 2849 S-LPLGGSVAPggdvrrRPPSRSPAAKPAAPArppvrrlarPAVSRSTES---FALPPDQPERPPQPQAPPPPQPQPQPP 2924


                  ....
gi 30680475  1962 PQAL 1965
Cdd:PHA03247 2925 PPPQ 2928
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
1823-1962 9.98e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 44.10  E-value: 9.98e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1823 SGAPRGKIQQLAQRAAQVSALRNYIAPQQLQASSFPAPALVSAPLQLQQSSFPAPGPAPLQPQASSFPSSVSRPSALLLN 1902
Cdd:PRK12323  372 AGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAPAPA 451

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1903 FAVCPMPQPRQPlisniAPTPSVTPATNPGLRSPAPhlnsyrpssSTPVATATPTSSVPP 1962
Cdd:PRK12323  452 PAPAAAPAAAAR-----PAAAGPRPVAAAAAAAPAR---------AAPAAAPAPADDDPP 497
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 1822-1936 1.09e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 43.93  E-value: 1.09e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1822 PSGAPRGKIQQLAQRAAQVSAlrnyiAPQQLQASSFPA------PALVSAPLQLQQSSFPAPGPAPLQPQasSFPSSVSR 1895
Cdd:PRK14951  384 PEAAAPAAAPVAQAAAAPAPA-----AAPAAAASAPAAppaaapPAPVAAPAAAAPAAAPAAAPAAVALA--PAPPAQAA 456

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 30680475  1896 PSALLLNFAVCPMPQPRQPlisniAPTPSVTPATNPGLRSP 1936
Cdd:PRK14951  457 PETVAIPVRVAPEPAVASA-----APAPAAAPAAARLTPTE 492
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 1823-1964 1.18e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 43.82  E-value: 1.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1823 SGAPRGKIQQLAQ--RAAQVSALRNYIAPQQlQASSFPAPALVSAPLQLQQSSFPAPGPAPlQPQASSFPSSVSRPSALL 1900
Cdd:PRK07764  368 SDDERGLLARLERleRRLGVAGGAGAPAAAA-PSAAAAAPAAAPAPAAAAPAAAAAPAPAA-APQPAPAPAPAPAPPSPA 445

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 30680475  1901 LNFAVCPMPQPRQPLISNIAPTPSVTPATNPGlRSPAPHLNSYRPSSSTPVATATPTSSVPPQA 1964
Cdd:PRK07764  446 GNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPT-AAPAPAPPAAPAPAAAPAAPAAPAAPAGADD 508
PHA03378 PHA03378
EBNA-3B; Provisional
 1845-1964 1.33e-03

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 43.90  E-value: 1.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1845 NYIAPQQLQASSFPAPALVSAPLQLQQSSF--PAPGPAPLQPQASsfPSSVSRPSALLLNFAVCPMPQPRQPLISNIAPT 1922
Cdd:PHA03378  665 TWTQIGHIPYQPSPTGANTMLPIQWAPGTMqpPPRAPTPMRPPAA--PPGRAQRPAAATGRARPPAAAPGRARPPAAAPG 742

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 30680475  1923 PSVTPATNPG-LRSPAPHLNSYRPSSSTPVAtatPTSSVPPQA 1964
Cdd:PHA03378  743 RARPPAAAPGrARPPAAAPGRARPPAAAPGA---PTPQPPPQA 782
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1849-1996 1.46e-03

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 43.60  E-value: 1.46e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   1849 PQQLQASSFPAPALVSAPLQLQQSSFPAPGPA--PLQPQASSFPSSVSRPSALLLNFAVCPMPQPRQPLISNIAPT--PS 1924
Cdd:pfam03154  364 PQLPNPQSHKHPPHLSGPSPFQMNSNLPPPPAlkPLSSLSTHHPPSAHPPPLQLMPQSQQLPPPPAQPPVLTQSQSlpPP 443

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680475   1925 VTPATNPGLRSPAPhlnSYRPSSSTPVATATPTSSVPPQALTYSAVSIQQQQEQQPQQSLSSGLQSNNEVVC 1996
Cdd:pfam03154  444 AASHPPTSGLHQVP---SQSPFPQHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSC 512
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 1833-1958 2.16e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 43.16  E-value: 2.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1833 LAQRAAQVSALRNYIAPQQLQASSFPAPALVSAPLQLQQSSFPAPGPAPLQPQASSFPSSVSRPSAlllnfavCPMPQPR 1912
Cdd:PRK14951  381 PARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAAAPAAAPAAAPAAVA-------LAPAPPA 453

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 30680475  1913 QPLISNIAPTPSVTPatNPGLRSPAPHlnsyrPSSSTPVATATPTS 1958
Cdd:PRK14951  454 QAAPETVAIPVRVAP--EPAVASAAPA-----PAAAPAAARLTPTE 492
PHA03369 PHA03369
capsid maturational protease; Provisional
 1827-1965 3.44e-03

capsid maturational protease; Provisional


Pssm-ID: 223061 [Multi-domain]  Cd Length: 663  Bit Score: 42.29  E-value: 3.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1827 RGKIQQLAQRAAQVSALRNYIAPQQLQASSFPAPALVSAPLQlqqssfPAPGPAPLQP--QASSFPSSVSRPSAlllnfa 1904
Cdd:PHA03369  332 RKLFSTINGLKAHNEILKTASLTAPSRVLAAAAKVAVIAAPQ------THTGPADRQRpqRPDGIPYSVPARSP------ 399

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 30680475  1905 vcPMPQPRQPLISNIAPTPSVTPATNPGLRSPAPHLNSYRPSSSTPVATATPTSSVPPQAL 1965
Cdd:PHA03369  400 --MTAYPPVPQFCGDPGLVSPYNPQSPGTSYGPEPVGPVPPQPTNPYVMPISMANMVYPGH 458
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 1833-1967 6.15e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 41.61  E-value: 6.15e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1833 LAQRAAQVSALRNYIAPQQLQASSFPAPALVSAPLQLQQSSFPAPGPAPLQPQASSFPSSVSrpsalllnfavcPMPQPR 1912
Cdd:PRK10263  320 VAVAAAATTATQSWAAPVEPVTQTPPVASVDVPPAQPTVAWQPVPGPQTGEPVIAPAPEGYP------------QQSQYA 387

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 30680475  1913 QPLISNIAPtpsvtpatnpgLRSPAPHLNSYRPSSSTPVATATPTSSVPPQALTY 1967
Cdd:PRK10263  388 QPAVQYNEP-----------LQQPVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQ 431
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1834-1993 7.38e-03

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 41.29  E-value: 7.38e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   1834 AQRAAQVSALRNYIAPQQLqASSFPAPALVSAPLQLQqssfPAPGPAPLQPQASSFPSSVSRPSALLL-------NFAVC 1906
Cdd:pfam03154  176 AQSGAASPPSPPPPGTTQA-ATAGPTPSAPSVPPQGS----PATSQPPNQTQSTAAPHTLIQQTPTLHpqrlpspHPPLQ 250

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   1907 PMPQPRQPLISNIAPTPS------VTPATNPgLRSPAPHLNSYRPSSSTPVATATPTSSVPPQALTYSAVSIQQQQEQQP 1980
Cdd:pfam03154  251 PMTQPPPPSQVSPQPLPQpslhgqMPPMPHS-LQTGPSHMQHPVPPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPP 329

                          170
                   ....*....|...
gi 30680475   1981 QQSLSSGLQSNNE 1993
Cdd:pfam03154  330 SQSQLQSQQPPRE 342
PRK14950 PRK14950
DNA polymerase III subunits gamma and tau; Provisional
 1830-1969 7.56e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237864 [Multi-domain]  Cd Length: 585  Bit Score: 41.33  E-value: 7.56e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475  1830 IQQLAQRAAQVSALRNYIAPQQLQASSFPAPaLVSAPLQL---QQSSFPAPGPAPLQPQASSFPSSVSRPSALLLNFAVC 1906
Cdd:PRK14950  315 LQKVSQIANLEALTKWVKAFSQLDFQLRTTS-YGQLPLELaviEALLVPVPAPQPAKPTAAAPSPVRPTPAPSTRPKAAA 393

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 30680475  1907 PMPQPRQPLISNIAPTPSVTPATNPGLRSPAPHLNSYRPSSSTPVATATPTSSVPPQALTYSA 1969
Cdd:PRK14950  394 AANIPPKEPVRETATPPPVPPRPVAPPVPHTPESAPKLTRAAIPVDEKPKYTPPAPPKEEEKA 456
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 1820-1946 9.45e-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: 41.17  E-value: 9.45e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680475   1820 VSPSGAPRGKIQQLAQRAAQVSALRNYIAPQQLQASSFPAPALVSAP---LQLQQSSFPAPGPAPLQPQASSFPSSVSRP 1896
Cdd:pfam09770  216 PAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPvtiLQRPQSPQPDPAQPSIQPQAQQFHQQPPPV 295

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|
gi 30680475   1897 salllnfavcpMPQPRQplisnIAPTPSVTPATNPGLRSPAPHLNSYRPS 1946
Cdd:pfam09770  296 -----------PVQPTQ-----ILQNPNRLSAARVGYPQNPQPGVQPAPA 329
 
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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