|
Name |
Accession |
Description |
Interval |
E-value |
| Mcl1_mid |
pfam12341 |
Minichromosome loss protein, Mcl1, middle region; Mcl1_mid, or the middle domain of ... |
431-714 |
2.24e-128 |
|
Minichromosome loss protein, Mcl1, middle region; Mcl1_mid, or the middle domain of minichromosome loss protein 1, is the domain that lies between a 7-bladed beta-propeller at the N-terminus, family WD40 pfam00400 etc, and a Homeobox (HMG) domain, pfam00505, at the C-terminus. The full length proteins with all three domains are referred to as DNA polymerase alpha accessory factor Mcl1, but the exact function of this domain is not known. :
Pssm-ID: 463539 Cd Length: 288 Bit Score: 393.09 E-value: 2.24e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 431 KPFQSGSTPMHLT-HRFMVWNSVGIIRCY-NDEQDNAIDVEFHDTSIHHATHLSNSLNYTVADLSYEAVLLACESTDELA 508
Cdd:pfam12341 1 KPFQPGSTPWHLGdRRYLCWNLIGYVWTVkQDTDSNSITVEFHDTSRHREYHFTDYFGYDLASLNEEGALLASPAKQSKP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 509 SKLHCLHFSSWDSSKEWIVDMPQNEDIEAICLGLGWAAAATSAMLLRLFTIGGVQKELFSLPGPVVSMAGHGEQLFIAYH 588
Cdd:pfam12341 81 STLYYRPHESWGSNSEWSVTLPLGEEITAVALGSSWVAVATSLGYLRIFSLGGVQRRVFSLPGPVVTMAASEDYLFVVYH 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 589 RGAGFDGDQCLGVQLLELGKKKKQilHGEPLPLTRKSYLVWVGFSAEGTPCYTDSEGIVRMLNRG---LGNTWTPICNTR 665
Cdd:pfam12341 161 NGGPLDGDQNLSYSLLDVSRDELQ--REGPLPLSPGSTLKWLGFSEEGDPCIYDSDGVLRVLSKWrspGQARWVPVLDTK 238
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 585168923 666 EHCK--GKSDHYWVVGIHEnpQQLRCIPCKGS-RFPPTLPRPAVAILSFKLP 714
Cdd:pfam12341 239 LLLRkgGKSDTYWPVGVSE--DKLRCIICKGGeKYPGFLPRPLLSELPLKLP 288
|
|
| WD40 |
cd00200 |
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ... |
11-289 |
4.47e-40 |
|
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment. :
Pssm-ID: 238121 [Multi-domain] Cd Length: 289 Bit Score: 150.18 E-value: 4.47e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWeDLDDDDPKSINVGEK----AYSCALKNGKLVTAVSNNTIQVHTFPEGVP 86
Cdd:cd00200 7 GHTGGVTCVAFSPDGKLLATGSGDGTIKVW-DLETGELLRTLKGHTgpvrDVAASADGTYLASGSSDKTIRLWDLETGEC 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 87 DGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQIS 166
Cdd:cd00200 86 VRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLR 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 167 DqtctvswpllQKCNDVINA--KSICRLAWQPKSGKLLAVPVEKSVKLYRRETWNNQHDLSDNfiSQALNVVTWSPCGQY 244
Cdd:cd00200 166 T----------GKCVATLTGhtGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH--ENGVNSVAFSPDGYL 233
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 585168923 245 LAAGSINGLIIVWNVETKDCMERVK-HEKGyaICGLAWHPTCGRIA 289
Cdd:cd00200 234 LASGSEDGTIRVWDLRTGECVQTLSgHTNS--VTSLAWSPDGKRLA 277
|
|
| HMG-box_WDHD1 |
cd21993 |
high mobility group (HMG)-box found in WD repeat and HMG-box DNA-binding protein 1 (WDHD1) and ... |
1014-1076 |
9.29e-25 |
|
high mobility group (HMG)-box found in WD repeat and HMG-box DNA-binding protein 1 (WDHD1) and similar proteins; WDHD1, also called acidic nucleoplasmic DNA-binding protein 1 (And-1), acts as a replication initiation factor that brings together the MCM2-7 helicase and the DNA polymerase alpha/primase complex in order to initiate DNA replication. :
Pssm-ID: 438809 [Multi-domain] Cd Length: 62 Bit Score: 98.10 E-value: 9.29e-25
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 585168923 1014 ENQRPKTGFQMWLEENRSSILSDNPDFsDEADIIKEGMIRFRVLSAEERKAWASKAKGGTTSD 1076
Cdd:cd21993 1 ENKKKKSGFQLWLEENRSSIEEENPEL-SEAEIIKLAMQRFRALPKEEKQKWNEKAKGDSDEE 62
|
|
| PTZ00121 super family |
cl31754 |
MAEBL; Provisional |
797-1111 |
2.12e-03 |
|
MAEBL; Provisional The actual alignment was detected with superfamily member PTZ00121:
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 42.44 E-value: 2.12e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 797 IKYASRSRRLILAQRLSElaVEKAAELATTQVEEEEEEDFRKELNAGYSNTATEwsQPRLRNQVEEDAEDTREADDKEEK 876
Cdd:PTZ00121 1217 ARKAEDAKKAEAVKKAEE--AKKDAEEAKKAEEERNNEEIRKFEEARMAHFARR--QAAIKAEEARKADELKKAEEKKKA 1292
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 877 PELHK-----HGQNLFSKSTNPSDVPAVKSGAvtSSNQGRVNPFKVSSNSKEPATSMNSARSSNILDSMNKSSKKSTALN 951
Cdd:PTZ00121 1293 DEAKKaeekkKADEAKKKAEEAKKADEAKKKA--EEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAE 1370
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 952 RATNNEKSpviKPLVPKPKSKQASAASYFQKRTSQTDKTED--VKEEHPKNSSSETPamcpQNTENQRPKTGFQMWLEEN 1029
Cdd:PTZ00121 1371 KKKEEAKK---KADAAKKKAEEKKKADEAKKKAEEDKKKADelKKAAAAKKKADEAK----KKAEEKKKADEAKKKAEEA 1443
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 1030 RSSilSDNPDFSDEADIIKEGMIRfrvlSAEERKAWASKAKGGTTSDGAEAKKR----KHVVDESHETENEKEKAKENLN 1105
Cdd:PTZ00121 1444 KKA--DEAKKKAEEAKKAEEAKKK----AEEAKKADEAKKKAEEAKKADEAKKKaeeaKKKADEAKKAAEAKKKADEAKK 1517
|
....*.
gi 585168923 1106 LPKKQK 1111
Cdd:PTZ00121 1518 AEEAKK 1523
|
|
|
|
Name |
Accession |
Description |
Interval |
E-value |
| Mcl1_mid |
pfam12341 |
Minichromosome loss protein, Mcl1, middle region; Mcl1_mid, or the middle domain of ... |
431-714 |
2.24e-128 |
|
Minichromosome loss protein, Mcl1, middle region; Mcl1_mid, or the middle domain of minichromosome loss protein 1, is the domain that lies between a 7-bladed beta-propeller at the N-terminus, family WD40 pfam00400 etc, and a Homeobox (HMG) domain, pfam00505, at the C-terminus. The full length proteins with all three domains are referred to as DNA polymerase alpha accessory factor Mcl1, but the exact function of this domain is not known.
Pssm-ID: 463539 Cd Length: 288 Bit Score: 393.09 E-value: 2.24e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 431 KPFQSGSTPMHLT-HRFMVWNSVGIIRCY-NDEQDNAIDVEFHDTSIHHATHLSNSLNYTVADLSYEAVLLACESTDELA 508
Cdd:pfam12341 1 KPFQPGSTPWHLGdRRYLCWNLIGYVWTVkQDTDSNSITVEFHDTSRHREYHFTDYFGYDLASLNEEGALLASPAKQSKP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 509 SKLHCLHFSSWDSSKEWIVDMPQNEDIEAICLGLGWAAAATSAMLLRLFTIGGVQKELFSLPGPVVSMAGHGEQLFIAYH 588
Cdd:pfam12341 81 STLYYRPHESWGSNSEWSVTLPLGEEITAVALGSSWVAVATSLGYLRIFSLGGVQRRVFSLPGPVVTMAASEDYLFVVYH 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 589 RGAGFDGDQCLGVQLLELGKKKKQilHGEPLPLTRKSYLVWVGFSAEGTPCYTDSEGIVRMLNRG---LGNTWTPICNTR 665
Cdd:pfam12341 161 NGGPLDGDQNLSYSLLDVSRDELQ--REGPLPLSPGSTLKWLGFSEEGDPCIYDSDGVLRVLSKWrspGQARWVPVLDTK 238
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 585168923 666 EHCK--GKSDHYWVVGIHEnpQQLRCIPCKGS-RFPPTLPRPAVAILSFKLP 714
Cdd:pfam12341 239 LLLRkgGKSDTYWPVGVSE--DKLRCIICKGGeKYPGFLPRPLLSELPLKLP 288
|
|
| WD40 |
cd00200 |
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ... |
11-289 |
4.47e-40 |
|
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.
Pssm-ID: 238121 [Multi-domain] Cd Length: 289 Bit Score: 150.18 E-value: 4.47e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWeDLDDDDPKSINVGEK----AYSCALKNGKLVTAVSNNTIQVHTFPEGVP 86
Cdd:cd00200 7 GHTGGVTCVAFSPDGKLLATGSGDGTIKVW-DLETGELLRTLKGHTgpvrDVAASADGTYLASGSSDKTIRLWDLETGEC 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 87 DGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQIS 166
Cdd:cd00200 86 VRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLR 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 167 DqtctvswpllQKCNDVINA--KSICRLAWQPKSGKLLAVPVEKSVKLYRRETWNNQHDLSDNfiSQALNVVTWSPCGQY 244
Cdd:cd00200 166 T----------GKCVATLTGhtGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH--ENGVNSVAFSPDGYL 233
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 585168923 245 LAAGSINGLIIVWNVETKDCMERVK-HEKGyaICGLAWHPTCGRIA 289
Cdd:cd00200 234 LASGSEDGTIRVWDLRTGECVQTLSgHTNS--VTSLAWSPDGKRLA 277
|
|
| WD40 |
COG2319 |
WD40 repeat [General function prediction only]; |
11-295 |
4.97e-37 |
|
WD40 repeat [General function prediction only];
Pssm-ID: 441893 [Multi-domain] Cd Length: 403 Bit Score: 144.67 E-value: 4.97e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWedlDDDDPKSINV----GEKAYSCAL-KNGK-LVTAVSNNTIQVHTFPEG 84
Cdd:COG2319 118 GHTGAVRSVAFSPDGKTLASGSADGTVRLW---DLATGKLLRTltghSGAVTSVAFsPDGKlLASGSDDGTVRLWDLATG 194
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 85 VPDGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQ 164
Cdd:COG2319 195 KLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWD 274
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 165 ISDQTCTVswpLLQKCNDVINAksicrLAWQPkSGKLLAVPVE-KSVKLYRRETWNNQHDLSDNfiSQALNVVTWSPCGQ 243
Cdd:COG2319 275 LATGELLR---TLTGHSGGVNS-----VAFSP-DGKLLASGSDdGTVRLWDLATGKLLRTLTGH--TGAVRSVAFSPDGK 343
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|...
gi 585168923 244 YLAAGSINGLIIVWNVETKDCMERVK-HEKgyAICGLAWHPTCGRIAYTDAEG 295
Cdd:COG2319 344 TLASGSDDGTVRLWDLATGELLRTLTgHTG--AVTSVAFSPDGRTLASGSADG 394
|
|
| HMG-box_WDHD1 |
cd21993 |
high mobility group (HMG)-box found in WD repeat and HMG-box DNA-binding protein 1 (WDHD1) and ... |
1014-1076 |
9.29e-25 |
|
high mobility group (HMG)-box found in WD repeat and HMG-box DNA-binding protein 1 (WDHD1) and similar proteins; WDHD1, also called acidic nucleoplasmic DNA-binding protein 1 (And-1), acts as a replication initiation factor that brings together the MCM2-7 helicase and the DNA polymerase alpha/primase complex in order to initiate DNA replication.
Pssm-ID: 438809 [Multi-domain] Cd Length: 62 Bit Score: 98.10 E-value: 9.29e-25
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 585168923 1014 ENQRPKTGFQMWLEENRSSILSDNPDFsDEADIIKEGMIRFRVLSAEERKAWASKAKGGTTSD 1076
Cdd:cd21993 1 ENKKKKSGFQLWLEENRSSIEEENPEL-SEAEIIKLAMQRFRALPKEEKQKWNEKAKGDSDEE 62
|
|
| HMG |
smart00398 |
high mobility group; |
1017-1070 |
4.34e-09 |
|
high mobility group;
Pssm-ID: 197700 [Multi-domain] Cd Length: 70 Bit Score: 53.86 E-value: 4.34e-09
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 585168923 1017 RPKTGFQMWLEENRSSILSDNPDFSdEADIIKEGMIRFRVLSAEERKAWASKAK 1070
Cdd:smart00398 4 RPMSAFMLFSQENRAKIKAENPDLS-NAEISKKLGERWKLLSEEEKAPYEEKAK 56
|
|
| WD40 |
smart00320 |
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ... |
130-163 |
2.25e-08 |
|
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.
Pssm-ID: 197651 [Multi-domain] Cd Length: 40 Bit Score: 50.77 E-value: 2.25e-08
10 20 30
....*....|....*....|....*....|....
gi 585168923 130 KTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVW 163
Cdd:smart00320 6 KTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
|
|
| WD40 |
pfam00400 |
WD domain, G-beta repeat; |
127-163 |
2.49e-08 |
|
WD domain, G-beta repeat;
Pssm-ID: 459801 [Multi-domain] Cd Length: 39 Bit Score: 50.81 E-value: 2.49e-08
10 20 30
....*....|....*....|....*....|....*..
gi 585168923 127 SQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVW 163
Cdd:pfam00400 2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVW 38
|
|
| NHP6B |
COG5648 |
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]; |
1016-1103 |
8.13e-06 |
|
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];
Pssm-ID: 227935 [Multi-domain] Cd Length: 211 Bit Score: 47.93 E-value: 8.13e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 1016 QRPKTGFQMWLEENRSSILSDNPDFSdEADIIKEGMIRFRVLSAEERKAWASKAKggttSDGAEAKKRKHVVDESHETEN 1095
Cdd:COG5648 72 KRPLSAYFLYSAENRDEIRKENPKLT-FGEVGKLLSEKWKELTDEEKEPYYKEAN----SDRERYQREKEEYNKKLPNKA 146
|
....*...
gi 585168923 1096 EKEKAKEN 1103
Cdd:COG5648 147 PIGPFIEN 154
|
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
797-1111 |
2.12e-03 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 42.44 E-value: 2.12e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 797 IKYASRSRRLILAQRLSElaVEKAAELATTQVEEEEEEDFRKELNAGYSNTATEwsQPRLRNQVEEDAEDTREADDKEEK 876
Cdd:PTZ00121 1217 ARKAEDAKKAEAVKKAEE--AKKDAEEAKKAEEERNNEEIRKFEEARMAHFARR--QAAIKAEEARKADELKKAEEKKKA 1292
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 877 PELHK-----HGQNLFSKSTNPSDVPAVKSGAvtSSNQGRVNPFKVSSNSKEPATSMNSARSSNILDSMNKSSKKSTALN 951
Cdd:PTZ00121 1293 DEAKKaeekkKADEAKKKAEEAKKADEAKKKA--EEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAE 1370
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 952 RATNNEKSpviKPLVPKPKSKQASAASYFQKRTSQTDKTED--VKEEHPKNSSSETPamcpQNTENQRPKTGFQMWLEEN 1029
Cdd:PTZ00121 1371 KKKEEAKK---KADAAKKKAEEKKKADEAKKKAEEDKKKADelKKAAAAKKKADEAK----KKAEEKKKADEAKKKAEEA 1443
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 1030 RSSilSDNPDFSDEADIIKEGMIRfrvlSAEERKAWASKAKGGTTSDGAEAKKR----KHVVDESHETENEKEKAKENLN 1105
Cdd:PTZ00121 1444 KKA--DEAKKKAEEAKKAEEAKKK----AEEAKKADEAKKKAEEAKKADEAKKKaeeaKKKADEAKKAAEAKKKADEAKK 1517
|
....*.
gi 585168923 1106 LPKKQK 1111
Cdd:PTZ00121 1518 AEEAKK 1523
|
|
| HMG_box |
pfam00505 |
HMG (high mobility group) box; |
1017-1070 |
7.54e-03 |
|
HMG (high mobility group) box;
Pssm-ID: 459837 [Multi-domain] Cd Length: 68 Bit Score: 36.05 E-value: 7.54e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 585168923 1017 RPKTGFQMWLEENRSSILSDNPDFSDeADIIKEGMIRFRVLSAEERKAWASKAK 1070
Cdd:pfam00505 3 RPMSAFFLFSKEQRAKLKAENPGLKN-AEISKILGEKWKALSEEEKKPYEEKAE 55
|
|
|
|
Name |
Accession |
Description |
Interval |
E-value |
| Mcl1_mid |
pfam12341 |
Minichromosome loss protein, Mcl1, middle region; Mcl1_mid, or the middle domain of ... |
431-714 |
2.24e-128 |
|
Minichromosome loss protein, Mcl1, middle region; Mcl1_mid, or the middle domain of minichromosome loss protein 1, is the domain that lies between a 7-bladed beta-propeller at the N-terminus, family WD40 pfam00400 etc, and a Homeobox (HMG) domain, pfam00505, at the C-terminus. The full length proteins with all three domains are referred to as DNA polymerase alpha accessory factor Mcl1, but the exact function of this domain is not known.
Pssm-ID: 463539 Cd Length: 288 Bit Score: 393.09 E-value: 2.24e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 431 KPFQSGSTPMHLT-HRFMVWNSVGIIRCY-NDEQDNAIDVEFHDTSIHHATHLSNSLNYTVADLSYEAVLLACESTDELA 508
Cdd:pfam12341 1 KPFQPGSTPWHLGdRRYLCWNLIGYVWTVkQDTDSNSITVEFHDTSRHREYHFTDYFGYDLASLNEEGALLASPAKQSKP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 509 SKLHCLHFSSWDSSKEWIVDMPQNEDIEAICLGLGWAAAATSAMLLRLFTIGGVQKELFSLPGPVVSMAGHGEQLFIAYH 588
Cdd:pfam12341 81 STLYYRPHESWGSNSEWSVTLPLGEEITAVALGSSWVAVATSLGYLRIFSLGGVQRRVFSLPGPVVTMAASEDYLFVVYH 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 589 RGAGFDGDQCLGVQLLELGKKKKQilHGEPLPLTRKSYLVWVGFSAEGTPCYTDSEGIVRMLNRG---LGNTWTPICNTR 665
Cdd:pfam12341 161 NGGPLDGDQNLSYSLLDVSRDELQ--REGPLPLSPGSTLKWLGFSEEGDPCIYDSDGVLRVLSKWrspGQARWVPVLDTK 238
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 585168923 666 EHCK--GKSDHYWVVGIHEnpQQLRCIPCKGS-RFPPTLPRPAVAILSFKLP 714
Cdd:pfam12341 239 LLLRkgGKSDTYWPVGVSE--DKLRCIICKGGeKYPGFLPRPLLSELPLKLP 288
|
|
| WD40 |
cd00200 |
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ... |
11-289 |
4.47e-40 |
|
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.
Pssm-ID: 238121 [Multi-domain] Cd Length: 289 Bit Score: 150.18 E-value: 4.47e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWeDLDDDDPKSINVGEK----AYSCALKNGKLVTAVSNNTIQVHTFPEGVP 86
Cdd:cd00200 7 GHTGGVTCVAFSPDGKLLATGSGDGTIKVW-DLETGELLRTLKGHTgpvrDVAASADGTYLASGSSDKTIRLWDLETGEC 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 87 DGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQIS 166
Cdd:cd00200 86 VRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLR 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 167 DqtctvswpllQKCNDVINA--KSICRLAWQPKSGKLLAVPVEKSVKLYRRETWNNQHDLSDNfiSQALNVVTWSPCGQY 244
Cdd:cd00200 166 T----------GKCVATLTGhtGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH--ENGVNSVAFSPDGYL 233
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 585168923 245 LAAGSINGLIIVWNVETKDCMERVK-HEKGyaICGLAWHPTCGRIA 289
Cdd:cd00200 234 LASGSEDGTIRVWDLRTGECVQTLSgHTNS--VTSLAWSPDGKRLA 277
|
|
| WD40 |
COG2319 |
WD40 repeat [General function prediction only]; |
11-295 |
4.97e-37 |
|
WD40 repeat [General function prediction only];
Pssm-ID: 441893 [Multi-domain] Cd Length: 403 Bit Score: 144.67 E-value: 4.97e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWedlDDDDPKSINV----GEKAYSCAL-KNGK-LVTAVSNNTIQVHTFPEG 84
Cdd:COG2319 118 GHTGAVRSVAFSPDGKTLASGSADGTVRLW---DLATGKLLRTltghSGAVTSVAFsPDGKlLASGSDDGTVRLWDLATG 194
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 85 VPDGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQ 164
Cdd:COG2319 195 KLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWD 274
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 165 ISDQTCTVswpLLQKCNDVINAksicrLAWQPkSGKLLAVPVE-KSVKLYRRETWNNQHDLSDNfiSQALNVVTWSPCGQ 243
Cdd:COG2319 275 LATGELLR---TLTGHSGGVNS-----VAFSP-DGKLLASGSDdGTVRLWDLATGKLLRTLTGH--TGAVRSVAFSPDGK 343
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|...
gi 585168923 244 YLAAGSINGLIIVWNVETKDCMERVK-HEKgyAICGLAWHPTCGRIAYTDAEG 295
Cdd:COG2319 344 TLASGSDDGTVRLWDLATGELLRTLTgHTG--AVTSVAFSPDGRTLASGSADG 394
|
|
| WD40 |
cd00200 |
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ... |
11-258 |
1.32e-32 |
|
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.
Pssm-ID: 238121 [Multi-domain] Cd Length: 289 Bit Score: 128.61 E-value: 1.32e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWeDLDDDDPKSINVGEKAY--SCA-LKNGKLVTAVS-NNTIQVHTFPEGVP 86
Cdd:cd00200 49 GHTGPVRDVAASADGTYLASGSSDKTIRLW-DLETGECVRTLTGHTSYvsSVAfSPDGRILSSSSrDKTIKVWDVETGKC 127
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 87 DGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQIS 166
Cdd:cd00200 128 LTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLS 207
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 167 DQTCTVSwplLQKCNDVINAksicrLAWQPKSGKLLAVPVEKSVKLYRRETWNNQHDLS--DNFISQalnvVTWSPCGQY 244
Cdd:cd00200 208 TGKCLGT---LRGHENGVNS-----VAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSghTNSVTS----LAWSPDGKR 275
|
250
....*....|....
gi 585168923 245 LAAGSINGLIIVWN 258
Cdd:cd00200 276 LASGSADGTIRIWD 289
|
|
| WD40 |
COG2319 |
WD40 repeat [General function prediction only]; |
11-261 |
5.19e-32 |
|
WD40 repeat [General function prediction only];
Pssm-ID: 441893 [Multi-domain] Cd Length: 403 Bit Score: 130.03 E-value: 5.19e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWEDLDDDDPKSINVGEKA-YSCAL-KNGK-LVTAVSNNTIQVHTFPEGVPD 87
Cdd:COG2319 160 GHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAvRSVAFsPDGKlLASGSADGTVRLWDLATGKLL 239
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 88 GILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQISD 167
Cdd:COG2319 240 RTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLAT 319
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 168 QTCTVSWPllqkcndvINAKSICRLAWQPKSGKLLAVPVEKSVKLYRRETWNNQHDLSDNfiSQALNVVTWSPCGQYLAA 247
Cdd:COG2319 320 GKLLRTLT--------GHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGH--TGAVTSVAFSPDGRTLAS 389
|
250
....*....|....
gi 585168923 248 GSINGLIIVWNVET 261
Cdd:COG2319 390 GSADGTVRLWDLAT 403
|
|
| WD40 |
COG2319 |
WD40 repeat [General function prediction only]; |
9-283 |
1.12e-31 |
|
WD40 repeat [General function prediction only];
Pssm-ID: 441893 [Multi-domain] Cd Length: 403 Bit Score: 128.88 E-value: 1.12e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 9 RFGHTEGHTDVCFDDLGSYIVTCGSDGDVRIWEDLDDDDPKSINVGEK---AYSCALKNGKLVTAVSNNTIQVHTFPEGV 85
Cdd:COG2319 32 LLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAavlSVAFSPDGRLLASASADGTVRLWDLATGL 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 86 PDGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQI 165
Cdd:COG2319 112 LLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLWDL 191
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 166 SDQTCTVSwplLQKCNDVINAksicrLAWQPkSGKLLAVPVE-KSVKLYRRETWNNQHDLSDNfiSQALNVVTWSPCGQY 244
Cdd:COG2319 192 ATGKLLRT---LTGHTGAVRS-----VAFSP-DGKLLASGSAdGTVRLWDLATGKLLRTLTGH--SGSVRSVAFSPDGRL 260
|
250 260 270
....*....|....*....|....*....|....*....
gi 585168923 245 LAAGSINGLIIVWNVETKDCMERVKHEKGyAICGLAWHP 283
Cdd:COG2319 261 LASGSADGTVRLWDLATGELLRTLTGHSG-GVNSVAFSP 298
|
|
| HMG-box_WDHD1 |
cd21993 |
high mobility group (HMG)-box found in WD repeat and HMG-box DNA-binding protein 1 (WDHD1) and ... |
1014-1076 |
9.29e-25 |
|
high mobility group (HMG)-box found in WD repeat and HMG-box DNA-binding protein 1 (WDHD1) and similar proteins; WDHD1, also called acidic nucleoplasmic DNA-binding protein 1 (And-1), acts as a replication initiation factor that brings together the MCM2-7 helicase and the DNA polymerase alpha/primase complex in order to initiate DNA replication.
Pssm-ID: 438809 [Multi-domain] Cd Length: 62 Bit Score: 98.10 E-value: 9.29e-25
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 585168923 1014 ENQRPKTGFQMWLEENRSSILSDNPDFsDEADIIKEGMIRFRVLSAEERKAWASKAKGGTTSD 1076
Cdd:cd21993 1 ENKKKKSGFQLWLEENRSSIEEENPEL-SEAEIIKLAMQRFRALPKEEKQKWNEKAKGDSDEE 62
|
|
| WD40 |
COG2319 |
WD40 repeat [General function prediction only]; |
67-299 |
1.17e-19 |
|
WD40 repeat [General function prediction only];
Pssm-ID: 441893 [Multi-domain] Cd Length: 403 Bit Score: 92.67 E-value: 1.17e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 67 LVTAVSNNTIQVHTFPEGVPDGILTRFTTNANHVVFNGDGAKIAAGSSDFLVKVVDVMDCSQQKTFRGHDAPVLSLSFDP 146
Cdd:COG2319 9 LAAASADLALALLAAALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSP 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 147 KDIFLASASCDGTVKVWQISDQTCTVswpLLQKCNDVINAksicrLAWQPKSGKLLAVPVEKSVKLYRRETWNNQHDLSD 226
Cdd:COG2319 89 DGRLLASASADGTVRLWDLATGLLLR---TLTGHTGAVRS-----VAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTG 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 585168923 227 NfiSQALNVVTWSPCGQYLAAGSINGLIIVWNVETKDCMERVKHEKGyAICGLAWHPTCGRIAYTDAEGNLGL 299
Cdd:COG2319 161 H--SGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTG-AVRSVAFSPDGKLLASGSADGTVRL 230
|
|
| WD40 |
cd00200 |
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ... |
130-289 |
9.92e-15 |
|
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.
Pssm-ID: 238121 [Multi-domain] Cd Length: 289 Bit Score: 76.22 E-value: 9.92e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 130 KTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVWQI--------------------------------SDQTCTVsWPL- 176
Cdd:cd00200 3 RTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLetgellrtlkghtgpvrdvaasadgtylasgsSDKTIRL-WDLe 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 177 LQKCNDVIN--AKSICRLAWQPKSGKLLAVPVEKSVKLYRRETWNNQHDLSDnfISQALNVVTWSPCGQYLAAGSINGLI 254
Cdd:cd00200 82 TGECVRTLTghTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRG--HTDWVNSVAFSPDGTFVASSSQDGTI 159
|
170 180 190
....*....|....*....|....*....|....*
gi 585168923 255 IVWNVETKDCMERVKHEKGYaICGLAWHPTCGRIA 289
Cdd:cd00200 160 KLWDLRTGKCVATLTGHTGE-VNSVAFSPDGEKLL 193
|
|
| HMG |
smart00398 |
high mobility group; |
1017-1070 |
4.34e-09 |
|
high mobility group;
Pssm-ID: 197700 [Multi-domain] Cd Length: 70 Bit Score: 53.86 E-value: 4.34e-09
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 585168923 1017 RPKTGFQMWLEENRSSILSDNPDFSdEADIIKEGMIRFRVLSAEERKAWASKAK 1070
Cdd:smart00398 4 RPMSAFMLFSQENRAKIKAENPDLS-NAEISKKLGERWKLLSEEEKAPYEEKAK 56
|
|
| HMG-box_SSRP1-like |
cd21994 |
high mobility group (HMG)-box found in structure-specific recognition protein 1 (SSRP1) and ... |
1017-1083 |
1.52e-08 |
|
high mobility group (HMG)-box found in structure-specific recognition protein 1 (SSRP1) and similar proteins; SSRP1, also called FACT complex subunit SSRP1, chromatin-specific transcription elongation factor 80 kDa subunit, facilitates chromatin transcription complex 80 kDa subunit (FACT 80 kDa subunit or FACTp80), facilitates chromatin transcription complex subunit SSRP1, recombination signal sequence recognition protein 1, or T160, is a factor that facilitates transcript elongation through nucleosomes. It is a component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication, and DNA repair.
Pssm-ID: 438810 [Multi-domain] Cd Length: 67 Bit Score: 52.30 E-value: 1.52e-08
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 585168923 1017 RPKTGFQMWLEENRSSILSDNPDFSdEADIIKEGMIRFRVLSAEERKAWASKAKggttsdgaEAKKR 1083
Cdd:cd21994 1 RPMSAYMLWLNENREKIKKENPGIS-VTEISKKAGEIWKELDEEDKEKWEQKAE--------KAKER 58
|
|
| WD40 |
smart00320 |
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ... |
130-163 |
2.25e-08 |
|
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.
Pssm-ID: 197651 [Multi-domain] Cd Length: 40 Bit Score: 50.77 E-value: 2.25e-08
10 20 30
....*....|....*....|....*....|....
gi 585168923 130 KTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVW 163
Cdd:smart00320 6 KTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
|
|
| WD40 |
pfam00400 |
WD domain, G-beta repeat; |
127-163 |
2.49e-08 |
|
WD domain, G-beta repeat;
Pssm-ID: 459801 [Multi-domain] Cd Length: 39 Bit Score: 50.81 E-value: 2.49e-08
10 20 30
....*....|....*....|....*....|....*..
gi 585168923 127 SQQKTFRGHDAPVLSLSFDPKDIFLASASCDGTVKVW 163
Cdd:pfam00400 2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVW 38
|
|
| HMG-box_SF |
cd00084 |
high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found ... |
1017-1070 |
9.50e-07 |
|
high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenetically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4, and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Pssm-ID: 438789 [Multi-domain] Cd Length: 59 Bit Score: 46.74 E-value: 9.50e-07
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 585168923 1017 RPKTGFQMWLEENRSSILSDNPDFSdEADIIKEGMIRFRVLSAEERKAWASKAK 1070
Cdd:cd00084 1 RPLSAYLLFSKEKRPKLKKENPDLS-FTEISKLLGERWKELSEEEKQPYEEKAK 53
|
|
| NHP6B |
COG5648 |
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]; |
1016-1103 |
8.13e-06 |
|
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];
Pssm-ID: 227935 [Multi-domain] Cd Length: 211 Bit Score: 47.93 E-value: 8.13e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 1016 QRPKTGFQMWLEENRSSILSDNPDFSdEADIIKEGMIRFRVLSAEERKAWASKAKggttSDGAEAKKRKHVVDESHETEN 1095
Cdd:COG5648 72 KRPLSAYFLYSAENRDEIRKENPKLT-FGEVGKLLSEKWKELTDEEKEPYYKEAN----SDRERYQREKEEYNKKLPNKA 146
|
....*...
gi 585168923 1096 EKEKAKEN 1103
Cdd:COG5648 147 PIGPFIEN 154
|
|
| WD40 |
smart00320 |
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ... |
11-41 |
8.80e-06 |
|
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.
Pssm-ID: 197651 [Multi-domain] Cd Length: 40 Bit Score: 43.46 E-value: 8.80e-06
10 20 30
....*....|....*....|....*....|.
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWE 41
Cdd:smart00320 10 GHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
|
|
| HMG-box_AtHMGB6-like_rpt1 |
cd22006 |
first high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ... |
1016-1089 |
8.28e-05 |
|
first high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B protein 6 (HMGB6) and similar proteins; HMGB6, also called nucleosome/chromatin assembly factor group D 06 (or D 6), WRKY transcription factor 53 (WRKY53), or WRKY DNA-binding protein 53, is a master regulator of age-induced leaf senescence. It acts in a complex transcription factor signaling network regulating senescence specific gene expression; hydrogen peroxide might be involved in signal transduction. The subfamily also includes Arabidopsis thaliana HMGB13 (also known as nucleosome/chromatin assembly factor group D 13). Both HMGB6 and HMGB13 contain three HMG-box domains. This model corresponds to the first one.
Pssm-ID: 438822 [Multi-domain] Cd Length: 68 Bit Score: 41.67 E-value: 8.28e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 585168923 1016 QRPKTGFQMWLEENRSSILSDNP--DFSDEADIIKEgmiRFRVLSAEERKAWASKAKggttsdgAEAKKRKHVVDE 1089
Cdd:cd22006 1 KKPKTAYFLWCKDQREEVKKENPnaDFSEVSKILGA---KWKNLSEEEKKPYEEKYK-------EEKEKYLKVVGE 66
|
|
| WD40 |
pfam00400 |
WD domain, G-beta repeat; |
11-41 |
2.35e-04 |
|
WD domain, G-beta repeat;
Pssm-ID: 459801 [Multi-domain] Cd Length: 39 Bit Score: 39.64 E-value: 2.35e-04
10 20 30
....*....|....*....|....*....|.
gi 585168923 11 GHTEGHTDVCFDDLGSYIVTCGSDGDVRIWE 41
Cdd:pfam00400 9 GHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
|
|
| eIF2A |
pfam08662 |
Eukaryotic translation initiation factor eIF2A; This is a family of eukaryotic translation ... |
193-284 |
1.77e-03 |
|
Eukaryotic translation initiation factor eIF2A; This is a family of eukaryotic translation initiation factors.
Pssm-ID: 462552 [Multi-domain] Cd Length: 194 Bit Score: 40.72 E-value: 1.77e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 193 AWQPKSGKLLAV--PVEKSVKLYrretwNNQHDLSDNFISQALNVVTWSPCGQYLAA---GSINGLIIVWNVETKDCMER 267
Cdd:pfam08662 66 AWSPNGKEFAVIygYMPAKVSFF-----DLKGNVIHSFGEQPRNTIFWSPFGRLVLLagfGNLAGDIEFWDVVNKKKIAT 140
|
90
....*....|....*..
gi 585168923 268 VKHEKGyaiCGLAWHPT 284
Cdd:pfam08662 141 AEASNA---TLCEWSPD 154
|
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
797-1111 |
2.12e-03 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 42.44 E-value: 2.12e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 797 IKYASRSRRLILAQRLSElaVEKAAELATTQVEEEEEEDFRKELNAGYSNTATEwsQPRLRNQVEEDAEDTREADDKEEK 876
Cdd:PTZ00121 1217 ARKAEDAKKAEAVKKAEE--AKKDAEEAKKAEEERNNEEIRKFEEARMAHFARR--QAAIKAEEARKADELKKAEEKKKA 1292
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 877 PELHK-----HGQNLFSKSTNPSDVPAVKSGAvtSSNQGRVNPFKVSSNSKEPATSMNSARSSNILDSMNKSSKKSTALN 951
Cdd:PTZ00121 1293 DEAKKaeekkKADEAKKKAEEAKKADEAKKKA--EEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAE 1370
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 952 RATNNEKSpviKPLVPKPKSKQASAASYFQKRTSQTDKTED--VKEEHPKNSSSETPamcpQNTENQRPKTGFQMWLEEN 1029
Cdd:PTZ00121 1371 KKKEEAKK---KADAAKKKAEEKKKADEAKKKAEEDKKKADelKKAAAAKKKADEAK----KKAEEKKKADEAKKKAEEA 1443
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 585168923 1030 RSSilSDNPDFSDEADIIKEGMIRfrvlSAEERKAWASKAKGGTTSDGAEAKKR----KHVVDESHETENEKEKAKENLN 1105
Cdd:PTZ00121 1444 KKA--DEAKKKAEEAKKAEEAKKK----AEEAKKADEAKKKAEEAKKADEAKKKaeeaKKKADEAKKAAEAKKKADEAKK 1517
|
....*.
gi 585168923 1106 LPKKQK 1111
Cdd:PTZ00121 1518 AEEAKK 1523
|
|
| HMG_box |
pfam00505 |
HMG (high mobility group) box; |
1017-1070 |
7.54e-03 |
|
HMG (high mobility group) box;
Pssm-ID: 459837 [Multi-domain] Cd Length: 68 Bit Score: 36.05 E-value: 7.54e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 585168923 1017 RPKTGFQMWLEENRSSILSDNPDFSDeADIIKEGMIRFRVLSAEERKAWASKAK 1070
Cdd:pfam00505 3 RPMSAFFLFSKEQRAKLKAENPGLKN-AEISKILGEKWKALSEEEKKPYEEKAE 55
|
|
| HMG-box_ABF2-like_rpt1 |
cd22010 |
first high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ... |
1016-1070 |
9.02e-03 |
|
first high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ARS-binding factor 2 (ABF2) and similar proteins; ABF2 is a close relative of the nuclear, chromosomal high-mobility group protein HMG1 in yeast mitochondria. It specifically binds to the autonomously replicating sequence 1 (ARS1). It might play a positive role in gene expression and replication. ABF2 contains two HMG-box domains. This model corresponds to the first one.
Pssm-ID: 438826 [Multi-domain] Cd Length: 68 Bit Score: 35.97 E-value: 9.02e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*
gi 585168923 1016 QRPKTGFQMWLEENRSSILSDNPDFSDeADIIKEGMIRFRVLSAEERKAWASKAK 1070
Cdd:cd22010 2 KRPLSAYFLYFQEHRSDFVKENPDAKM-TEISKIGGDKWKNLSADDKKKYEDDFQ 55
|
|
|