Psyllid ID: psy9484

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------
MGQLADNETAHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFDETAPGSSGPGLDDLSPAPAPGGAPPEVDFGIDFTSFRRNLRQKLVPCI
cccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccccHHHHHHHEEEEEEccccccccccccccccccccHHHHHHHHcccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHccccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccc
ccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHcccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHccccccccccccccccccccccccHHHHHHHHHccccEEEccccccHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHcccccHHHHHHHcccccHcHHcccccHHHHHHHHHHHHHHHHHHcccccccEEEEccHHHccccccccccccccccccccccccccccccccEcHHHHHHHHHHHccccc
MGQLADNETAHQHQELCMALNIDSTTAKEAWNAYKEMshhytlegsqlhwlGCSLYvscrkatvptvnsnrtieGNLVCLTSLLKHCKMSLNQFLNKCrkwadmrklpdsFRSKIARLERNFAVSKVIFTKYLPmfkemfkppdldELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLrdivnpdfegmpsnfldshfaplddppciisilckhhdgckLCVIVRAEASLSRDIVKHLNLTEEQVLDSLawvsnsplwkniedsgqeipgceqKLRGNIEDlsailepenfdyNFKVVNKMYEEYILsvgdfderiflpkfqsfdetapgssgpglddlspapapggappevdfgidfTSFRRNLRQKLVPCI
MGQLADNETAHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVptvnsnrtieGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFDETAPGSSGPGLDDLSPAPAPGGAPPEVDFGIDFTSFRRNLrqklvpci
MGQLADNETAHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFDETAPGSSGPGLDDLSpapapggappEVDFGIDFTSFRRNLRQKLVPCI
***************LCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQ*******************************FGIDFTSFR***********
***********QHQELCMALNIDSTTAKEAWNAYKEM*******GSQLHWLGCSLYVSCRK***************LVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMF***********************STKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDF******************PCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPK*******************************************NLRQKLVPC*
***********QHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFD********PGLDDLSPAPAPGGAPPEVDFGIDFTSFRRNLRQKLVPCI
******NETAHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATV**********GNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPD***************IHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQ*************************APPEVDFGIDFTSFRRNLRQKLVPCI
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MGQLADNETAHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFDETAPGSSGPGLDDLSPAPAPGGAPPEVDFGIDFTSFRRNLRQKLVPCI
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query407 2.2.26 [Sep-21-2011]
Q08999 1139 Retinoblastoma-like prote yes N/A 0.744 0.266 0.439 2e-73
O55081 1135 Retinoblastoma-like prote yes N/A 0.759 0.272 0.426 2e-71
Q64700 1135 Retinoblastoma-like prote yes N/A 0.764 0.274 0.412 3e-70
P28749 1068 Retinoblastoma-like prote no N/A 0.737 0.280 0.420 1e-66
Q64701 1063 Retinoblastoma-like prote no N/A 0.737 0.282 0.417 1e-66
Q24472 845 Retinoblastoma family pro yes N/A 0.805 0.388 0.309 4e-46
P06400 928 Retinoblastoma-associated no N/A 0.147 0.064 0.387 0.0004
P13405 921 Retinoblastoma-associated no N/A 0.147 0.065 0.387 0.0006
P33568 920 Retinoblastoma-associated no N/A 0.147 0.065 0.387 0.0006
Q90600 921 Retinoblastoma-associated no N/A 0.027 0.011 0.4 0.0006
>sp|Q08999|RBL2_HUMAN Retinoblastoma-like protein 2 OS=Homo sapiens GN=RBL2 PE=1 SV=3 Back     alignment and function desciption
 Score =  276 bits (706), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 149/339 (43%), Positives = 204/339 (60%), Gaps = 36/339 (10%)

Query: 15  ELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIE 74
           ELC  LN+D     EAW++Y+ MS  YTLEG+ LHWL C+LYV+CRK +VPTV S  T+E
Sbjct: 51  ELCSRLNMDEAARAEAWDSYRSMSESYTLEGNDLHWLACALYVACRK-SVPTV-SKGTVE 108

Query: 75  GNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLP 134
           GN V LT +LK  + SL +F NK +KW DM  LP  FR +  RLERNF VS VIF KY P
Sbjct: 109 GNYVSLTRILKCSEQSLIEFFNKMKKWEDMANLPPHFRERTERLERNFTVSAVIFKKYEP 168

Query: 135 MFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSFH 194
           +F+++FK P  +E     R  K++   CT +++F F W+LF+  K  +  +S+DLVNS+H
Sbjct: 169 IFQDIFKYPQ-EEQPRQQRGRKQRRQPCTVSEIFHFCWVLFIYAKGNFPMISDDLVNSYH 227

Query: 195 LLIATCDLIYANVIQ-SKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCK 253
           LL+   DL+Y N +Q S  +++VNP+F+G+  +F      P  DPPCII  LC  HDG  
Sbjct: 228 LLLCALDLVYGNALQCSNRKELVNPNFKGLSEDFHAKDSKPSSDPPCIIEKLCSLHDGLV 287

Query: 254 LCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNI 313
           L          ++ I +H             W    P  + + +        ++ L+G  
Sbjct: 288 L---------EAKGIKEHF------------W---KPYIRKLYE--------KKLLKGKE 315

Query: 314 EDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFL 352
           E+L+  LEP NF  +FK +NK YEEY+LSVG+ DERIFL
Sbjct: 316 ENLTGFLEPGNFGESFKAINKAYEEYVLSVGNLDERIFL 354
Key regulator of entry into cell division. Directly involved in heterochromatin formation by maintaining overall chromatin structure and, in particular, that of constitutive heterochromatin by stabilizing histone methylation. Recruits and targets histone methyltransferases SUV420H1 and SUV420H2, leading to epigenetic transcriptional repression. Controls histone H4 'Lys-20' trimethylation. Probably acts as a transcription repressor by recruiting chromatin-modifying enzymes to promoters. Potent inhibitor of E2F-mediated trans-activation, associates preferentially with E2F5. Binds to cyclins A and E. Binds to and may be involved in the transforming capacity of the adenovirus E1A protein. May act as a tumor suppressor.
Homo sapiens (taxid: 9606)
>sp|O55081|RBL2_RAT Retinoblastoma-like protein 2 OS=Rattus norvegicus GN=Rbl2 PE=1 SV=1 Back     alignment and function description
>sp|Q64700|RBL2_MOUSE Retinoblastoma-like protein 2 OS=Mus musculus GN=Rbl2 PE=1 SV=3 Back     alignment and function description
>sp|P28749|RBL1_HUMAN Retinoblastoma-like protein 1 OS=Homo sapiens GN=RBL1 PE=1 SV=3 Back     alignment and function description
>sp|Q64701|RBL1_MOUSE Retinoblastoma-like protein 1 OS=Mus musculus GN=Rbl1 PE=1 SV=3 Back     alignment and function description
>sp|Q24472|RBF_DROME Retinoblastoma family protein OS=Drosophila melanogaster GN=Rbf PE=1 SV=2 Back     alignment and function description
>sp|P06400|RB_HUMAN Retinoblastoma-associated protein OS=Homo sapiens GN=RB1 PE=1 SV=2 Back     alignment and function description
>sp|P13405|RB_MOUSE Retinoblastoma-associated protein OS=Mus musculus GN=Rb1 PE=1 SV=2 Back     alignment and function description
>sp|P33568|RB_RAT Retinoblastoma-associated protein OS=Rattus norvegicus GN=Rb1 PE=1 SV=3 Back     alignment and function description
>sp|Q90600|RB_CHICK Retinoblastoma-associated protein OS=Gallus gallus GN=RB1 PE=1 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query407
328791078 1040 PREDICTED: retinoblastoma-family protein 0.783 0.306 0.450 4e-84
380025341 1039 PREDICTED: LOW QUALITY PROTEIN: retinobl 0.783 0.307 0.450 4e-84
340722761 1007 PREDICTED: retinoblastoma-like protein 1 0.783 0.316 0.445 3e-82
340722763 1041 PREDICTED: retinoblastoma-like protein 1 0.783 0.306 0.445 3e-82
350424140 1007 PREDICTED: retinoblastoma-like protein 1 0.783 0.316 0.445 4e-82
350424134 1041 PREDICTED: retinoblastoma-like protein 1 0.783 0.306 0.445 5e-82
383857279 1039 PREDICTED: retinoblastoma-like protein 1 0.783 0.307 0.445 7e-82
307182540 1039 Retinoblastoma-like protein 1 [Camponotu 0.783 0.307 0.453 2e-81
332017056 1042 Retinoblastoma-like protein 1 [Acromyrme 0.793 0.309 0.428 6e-79
345490209 1030 PREDICTED: retinoblastoma-like protein 1 0.793 0.313 0.417 6e-78
>gi|328791078|ref|XP_395096.4| PREDICTED: retinoblastoma-family protein [Apis mellifera] Back     alignment and taxonomy information
 Score =  318 bits (814), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 160/355 (45%), Positives = 219/355 (61%), Gaps = 36/355 (10%)

Query: 1   MGQLADNE--TAHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVS 58
           MGQ  D E  T  +HQ+LC  LN+D+T A EAW +Y+ +  +YTLEG QLHW+GC+LYV+
Sbjct: 1   MGQSDDVEDSTYSRHQDLCQKLNMDATAASEAWKSYETIRQNYTLEGDQLHWIGCALYVA 60

Query: 59  CRKATVPTVNSNRT-IEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIAR 117
           CRK+++PTV    T +EGN V LT LL+ C + L QF  K + WADM  +P  FRSKI +
Sbjct: 61  CRKSSIPTVGKTGTNVEGNCVSLTRLLQLCNLPLIQFFTKSKSWADMANMPQDFRSKIEK 120

Query: 118 LERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVL 177
           LE NFAVS VIF KY P+F ++FK P +D++    R  + K + CT  +VFEF W LF+ 
Sbjct: 121 LEGNFAVSMVIFKKYQPIFTDIFKDP-VDDISRPPRSRRHKAMPCTPARVFEFCWTLFIC 179

Query: 178 TKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDD 237
            K  + D+S+DLVNS+HLL+  CDLIY+N + +  +D++NP+F G+PSNF D ++ P   
Sbjct: 180 IKGAFPDISDDLVNSYHLLLVCCDLIYSNALLANRKDLLNPNFPGLPSNFNDENYTPPQT 239

Query: 238 PPCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIED 297
             CI+S+LC+ H+   +   V  E  L   I K  N                        
Sbjct: 240 ANCIVSLLCERHEAIAVEAKVIKEYYLKNHINKLFN------------------------ 275

Query: 298 SGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFL 352
                   E+ LRG+  + S ILE  NFD N K +N++YE+++LSVGDFDERIFL
Sbjct: 276 --------ERVLRGDQSNFSGILEALNFDGNSKAINRVYEQHVLSVGDFDERIFL 322

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|380025341|ref|XP_003696433.1| PREDICTED: LOW QUALITY PROTEIN: retinoblastoma-like protein 1-like [Apis florea] Back     alignment and taxonomy information
>gi|340722761|ref|XP_003399770.1| PREDICTED: retinoblastoma-like protein 1-like isoform 1 [Bombus terrestris] Back     alignment and taxonomy information
>gi|340722763|ref|XP_003399771.1| PREDICTED: retinoblastoma-like protein 1-like isoform 2 [Bombus terrestris] Back     alignment and taxonomy information
>gi|350424140|ref|XP_003493700.1| PREDICTED: retinoblastoma-like protein 1-like isoform 2 [Bombus impatiens] Back     alignment and taxonomy information
>gi|350424134|ref|XP_003493699.1| PREDICTED: retinoblastoma-like protein 1-like isoform 1 [Bombus impatiens] Back     alignment and taxonomy information
>gi|383857279|ref|XP_003704132.1| PREDICTED: retinoblastoma-like protein 1 [Megachile rotundata] Back     alignment and taxonomy information
>gi|307182540|gb|EFN69736.1| Retinoblastoma-like protein 1 [Camponotus floridanus] Back     alignment and taxonomy information
>gi|332017056|gb|EGI57855.1| Retinoblastoma-like protein 1 [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|345490209|ref|XP_003426328.1| PREDICTED: retinoblastoma-like protein 1-like isoform 2 [Nasonia vitripennis] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query407
UNIPROTKB|E2RIG3 1139 RBL2 "Uncharacterized protein" 0.599 0.214 0.475 3.2e-73
UNIPROTKB|A5D7M0 1140 RBL2 "Uncharacterized protein" 0.599 0.214 0.475 4.2e-73
UNIPROTKB|Q08999 1139 RBL2 "Retinoblastoma-like prot 0.582 0.208 0.489 4.2e-73
RGD|3541 1135 Rbl2 "retinoblastoma-like 2" [ 0.597 0.214 0.470 1.9e-72
UNIPROTKB|O55081 1135 Rbl2 "Retinoblastoma-like prot 0.597 0.214 0.470 1.9e-72
MGI|MGI:105085 1135 Rbl2 "retinoblastoma-like 2" [ 0.601 0.215 0.457 1.4e-71
RGD|1595511 1063 Rbl1 "retinoblastoma-like 1 (p 0.579 0.222 0.472 2.5e-71
MGI|MGI:103300 1063 Rbl1 "retinoblastoma-like 1 (p 0.579 0.222 0.468 2.4e-70
UNIPROTKB|E2RQ78 1068 RBL1 "Uncharacterized protein" 0.579 0.220 0.464 6.4e-70
UNIPROTKB|F1PBK3 1068 RBL1 "Uncharacterized protein" 0.579 0.220 0.464 6.4e-70
UNIPROTKB|E2RIG3 RBL2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
 Score = 619 (223.0 bits), Expect = 3.2e-73, Sum P(2) = 3.2e-73
 Identities = 118/248 (47%), Positives = 161/248 (64%)

Query:     8 ETAHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTV 67
             +T  +  ELC  LN+D     EAW++Y+ MS  YTLEG+ LHWL C+LYV+CRK+ VPTV
Sbjct:    44 QTQQRFDELCSRLNMDEAARAEAWDSYRNMSESYTLEGNDLHWLACALYVACRKS-VPTV 102

Query:    68 NSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKV 127
              S  T+EGN V LT +L+  + SL +F NK +KW DM  LP  FR +  RLERNF VS V
Sbjct:   103 -SKGTVEGNYVSLTRILRCSEQSLIEFFNKMKKWEDMANLPPHFRERTERLERNFTVSAV 161

Query:   128 IFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSN 187
             IF KY P+F+++FK P  +E     R  K++   CT ++VF F W+LF+  K  +  +S+
Sbjct:   162 IFKKYEPIFQDIFKYPQ-EEQPRQQRGRKQRRQPCTVSEVFHFCWVLFIYAKGNFPMISD 220

Query:   188 DLVNSFHLLIATCDLIYANVIQ-SKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILC 246
             DLVNS+HLL+   DL+Y N +Q S  +++VNP+F+G+  +F      P  DPPC+I  LC
Sbjct:   221 DLVNSYHLLLCALDLVYGNALQCSNRKELVNPNFKGLSEDFHAKDSKPSSDPPCVIEKLC 280

Query:   247 KHHDGCKL 254
               HDG  L
Sbjct:   281 SLHDGLVL 288
GO:0043550 "regulation of lipid kinase activity" evidence=IEA
GO:0005737 "cytoplasm" evidence=IEA
GO:0005730 "nucleolus" evidence=IEA
GO:0005667 "transcription factor complex" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=IEA
UNIPROTKB|A5D7M0 RBL2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q08999 RBL2 "Retinoblastoma-like protein 2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|3541 Rbl2 "retinoblastoma-like 2" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|O55081 Rbl2 "Retinoblastoma-like protein 2" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:105085 Rbl2 "retinoblastoma-like 2" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1595511 Rbl1 "retinoblastoma-like 1 (p107)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:103300 Rbl1 "retinoblastoma-like 1 (p107)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|E2RQ78 RBL1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1PBK3 RBL1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query407
pfam11934138 pfam11934, DUF3452, Domain of unknown function (DU 5e-33
pfam01858192 pfam01858, RB_A, Retinoblastoma-associated protein 5e-11
>gnl|CDD|221325 pfam11934, DUF3452, Domain of unknown function (DUF3452) Back     alignment and domain information 
 Score =  120 bits (303), Expect = 5e-33
 Identities = 52/146 (35%), Positives = 83/146 (56%), Gaps = 10/146 (6%)

Query: 63  TVPTVNSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWA-DMRKLPDS-FRSKIARLER 120
             P V    T EGN V LT +L+ CK++L +F  K +++   M  + ++ F +++  LER
Sbjct: 1   LSPPVGGKGTAEGNGVSLTQILRACKLNLVEFFKKLKQFDVKMDSILENRFGAEVKELER 60

Query: 121 NFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKA 180
           NF V  V++ KY  +F+E+F  P  +               C+S+ +F F W+LF+L K 
Sbjct: 61  NFVVLSVLYKKYKRIFREIFLEPPEEPPSRSSP--------CSSSDLFRFGWLLFLLAKG 112

Query: 181 EYLDVSNDLVNSFHLLIATCDLIYAN 206
           E L + +DLV+S+HLL+   DL+Y N
Sbjct: 113 EALSMFDDLVSSYHLLLCVLDLLYIN 138

This presumed domain is functionally uncharacterized. This domain is found in bacteria and eukaryotes. This domain is typically between 124 to 150 amino acids in length. This domain is found associated with pfam01858, pfam01857. This domain has a single completely conserved residue W that may be functionally important. Length = 138
>gnl|CDD|202014 pfam01858, RB_A, Retinoblastoma-associated protein A domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 407
KOG1010|consensus 920 100.0
PF11934136 DUF3452: Domain of unknown function (DUF3452); Int 100.0
KOG1010|consensus 920 99.71
PF01858194 RB_A: Retinoblastoma-associated protein A domain; 99.68
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 97.24
PRK00423310 tfb transcription initiation factor IIB; Reviewed 96.57
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 96.36
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 96.07
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 94.02
KOG1597|consensus308 93.1
PRK00423310 tfb transcription initiation factor IIB; Reviewed 92.73
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 82.77
>KOG1010|consensus Back     alignment and domain information 
Probab=100.00  E-value=1.4e-75  Score=621.23  Aligned_cols=330  Identities=39%  Similarity=0.737  Sum_probs=311.4

Q ss_pred             HHHHHHHhhhcCCCHHHHHHHHHHHHHhhcccCccccchhhhHHHHhhhhhccccCccCCCccccC-CcccHHHHHhhhC
Q psy9484          10 AHQHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIEG-NLVCLTSLLKHCK   88 (407)
Q Consensus        10 ~~~f~~lC~~LnlD~~t~~~Aw~~~~~~~~~~tlEg~~~~W~aCaLY~a~r~~~~~tv~~~~~~~~-n~vsLt~LLr~~~   88 (407)
                      .+.|.++|+.||+|++++.+||++|.++++.+++||++.||+|||+|++||++++||||+ +.++| |+||||+|||+++
T Consensus        35 ~q~~~~~c~~lnld~~~~~ea~d~yta~~q~~slegs~~hW~~cAlY~~~r~S~~~~v~~-~~~~~~n~vsL~~Ilrs~k  113 (920)
T KOG1010|consen   35 EQDSDELCRPLNLDEQTETEAWDTYTAVSQRLSLEGSESHWLACALYTACRRSSVPTVGG-GIVEGKNEVSLTRILRSFK  113 (920)
T ss_pred             hhhhhhhhhhhcccchhhhhhHHHHHHHHhHhCCCccHHHHHHHHHHHHHHhccCCccCc-ceeeecceehHHHHHHHHH
Confidence            789999999999999999999999999999999999999999999999999999999998 77777 9999999999999


Q ss_pred             CChHHHHHHHHHHHHhcCCChHHHHHHHHHHHhhhHHHHHHHHhHHHHhccCCCCCCchhhhhhhcccccccccchhhHH
Q psy9484          89 MSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVF  168 (407)
Q Consensus        89 lsi~~Ff~kl~kw~~~~~L~~e~~~~i~~Le~~f~v~~vLfkky~~iF~~iF~~p~~~~~~~~~r~~k~~~~~c~~~~lf  168 (407)
                      +|++|||+||+||++|++++.+||+++++||++|.|+++|||||++||..||+.|. ++....++.+++++.+|++.++|
T Consensus       114 ~sv~eff~km~~w~~ma~s~~~f~~~ieel~~~f~vssvl~KkY~~iF~~iF~~p~-~e~~~~~~~~n~~~~~~~~~~l~  192 (920)
T KOG1010|consen  114 MSVIEFFTKMKQWVDMANSPQEFREEIEELQRNFKVSSVLFKKYKRIFRDIFKLPR-EELGYLNRPSNHARTPCSYAELF  192 (920)
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhccceehhHHHHHHHHHHHHHhCcc-cccccCCCcccccCCcccHHHHH
Confidence            99999999999999999999999999999999999999999999999999999998 66677888889999999999999


Q ss_pred             HHHHHHHHHHHhhccccccchhhhhhHHHHHHHHHHHhhhhcccccccCCCCCCCCCCCCCCCCCCCCCCchHHHHhhhc
Q psy9484         169 EFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKH  248 (407)
Q Consensus       169 ~f~WlLFL~~K~~~~~~~~DLV~s~~LLlC~Ldlvi~n~~~~~~~~lln~~F~~~~~~~~~~~f~~~~~~~~ILe~LC~~  248 (407)
                      +|||+|||++||++|++.||||+|||||+||||++|+|++.+.|.+++||+|.|++++|+..+|.+...++|||+.||+.
T Consensus       193 ~f~W~lFL~~Kn~~~~~~dDLV~syqlllc~LDlv~~n~lc~~R~~~v~p~f~gl~~n~~~~d~~~s~n~~cii~~lce~  272 (920)
T KOG1010|consen  193 KFCWLLFLVAKNEFPSIEDDLVNSYQLLLCILDLVYKNLLCSPRKDLVNPSFKGLPKNWTARDFKPSENPPCIIEVLCEL  272 (920)
T ss_pred             HHHHHHHHHHhcccchhhhhHHhhhhHHHHHHHHHHHHhccccccccccccccCCCCCCchhhccccCCCcchhHHhhhh
Confidence            99999999999999999999999999999999999999988999999999999999999999999889999999999999


Q ss_pred             CCCccchhhhhhhhhhhHHHHHHHHHHHHHHHhhhhhccCCchhhhhhhcCCCCCchhhhccCcccccccccCCCchhhh
Q psy9484         249 HDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYN  328 (407)
Q Consensus       249 ~~~~vie~~~~~E~~L~r~~~Khln~IEe~ile~l~w~~~s~l~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~~~l~~n  328 (407)
                      |++++.|+++..|                            +.|.++.++..    ..+.+.||...++|++++++|.+|
T Consensus       273 h~~li~eak~~k~----------------------------~~fk~~~~~l~----~~ktl~g~~~~~~gll~~~~f~~~  320 (920)
T KOG1010|consen  273 HEGLIDEAKNMKE----------------------------TNFKPFMSSLY----EVKTLKGDYLLMRGLLDEGNFLPN  320 (920)
T ss_pred             hhhHHHhhcchHH----------------------------HhHHHHHHHHH----hhhhhhcccccccccccccccchh
Confidence            9999999999999                            88888887766    336888999999999999999999


Q ss_pred             HHHHHHHHHHHhhccCCcccccccCCCCCCCC---------CCCCCCCCCCCCC
Q psy9484         329 FKVVNKMYEEYILSVGDFDERIFLPKFQSFDE---------TAPGSSGPGLDDL  373 (407)
Q Consensus       329 ~~~Lnk~Yee~~l~~Gd~DERiFL~~d~~e~~---------~tp~~~~~~~~~~  373 (407)
                      +++|||.||+||+++||+|||||++.|+.+++         .+|-++++.-..+
T Consensus       321 ~~~lnk~yeeyvl~vgelDeRifl~~Da~~~t~~~~s~~~~r~~~~~~~~~~~~  374 (920)
T KOG1010|consen  321 VKNLNKSYEEYVLDVGELDERIFLGEDAEEETKSSDSFESERLAVKSSLAQEFL  374 (920)
T ss_pred             HHHHhhhHHHHhccccchhhhhhcccchhhhhccCCccchhccccccccchhhc
Confidence            99999999999999999999999999998775         3555666655555

>PF11934 DUF3452: Domain of unknown function (DUF3452); InterPro: IPR024599 This domain is found in proteins of the retinoblastoma protein family Back     alignment and domain information
>KOG1010|consensus Back     alignment and domain information
>PF01858 RB_A: Retinoblastoma-associated protein A domain; InterPro: IPR002720 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG1597|consensus Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query407
1gh6_B333 Retinoblastoma Pocket Complexed With Sv40 Large T A 2e-05
1n4m_A345 Structure Of Rb Tumor Suppressor Bound To The Trans 2e-05
3pom_A352 Crystal Structure Of The Unliganded Retinoblastoma 2e-05
2r7g_A347 Structure Of The Retinoblastoma Protein Pocket Doma 2e-05
1gux_A218 Rb Pocket Bound To E7 Lxcxe Motif Length = 218 3e-05
4elj_A656 Crystal Structure Of The Inactive Retinoblastoma Pr 4e-05
4ell_A 411 Structure Of The Inactive Retinoblastoma Protein Po 8e-05
>pdb|1GH6|B Chain B, Retinoblastoma Pocket Complexed With Sv40 Large T Antigen Length = 333 Back     alignment and structure 
Iteration: 1

 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 56/109 (51%), Gaps = 13/109 (11%)
Query: 191 NSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHD 250
           N FH+ +  C L           ++V   +    S  LDS    L  P  +  +  K  D
Sbjct: 102 NIFHMSLLACAL-----------EVVMATYSRSTSQNLDSG-TDLSFPWILNVLNLKAFD 149
Query: 251 GCKLC-VIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDS 298
             K+    ++AE +L+R+++KHL   E ++++SLAW+S+SPL+  I+ S
Sbjct: 150 FYKVIESFIKAEGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQS 198
>pdb|1N4M|A Chain A, Structure Of Rb Tumor Suppressor Bound To The Transactivation Domain Of E2f-2 Length = 345 Back     alignment and structure
>pdb|3POM|A Chain A, Crystal Structure Of The Unliganded Retinoblastoma Protein Pocket Domain Length = 352 Back     alignment and structure
>pdb|2R7G|A Chain A, Structure Of The Retinoblastoma Protein Pocket Domain In Complex With Adenovirus E1a Cr1 Domain Length = 347 Back     alignment and structure
>pdb|1GUX|A Chain A, Rb Pocket Bound To E7 Lxcxe Motif Length = 218 Back     alignment and structure
>pdb|4ELJ|A Chain A, Crystal Structure Of The Inactive Retinoblastoma Protein Phosphorylated At T373 Length = 656 Back     alignment and structure
>pdb|4ELL|A Chain A, Structure Of The Inactive Retinoblastoma Protein Pocket Domain Length = 411 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query407
2qdj_A304 Retinoblastoma-associated protein; cyclin fold, cy 2e-64
4elj_A 656 Retinoblastoma-associated protein; cyclin fold, tu 7e-57
4elj_A656 Retinoblastoma-associated protein; cyclin fold, tu 5e-11
4ell_A 411 Retinoblastoma-associated protein; cyclin fold, tu 1e-11
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 2e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-07
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens} Length = 304 Back     alignment and structure
 Score =  207 bits (528), Expect = 2e-64
 Identities = 65/367 (17%), Positives = 119/367 (32%), Gaps = 87/367 (23%)

Query: 14  QELCMALNIDSTTAKEAWNAYKEMSHHYTLEGS-----QLHWLGCSLYVSCRKATVPTVN 68
             LC  L I     + AW  ++++S    + G      +  W  C    +          
Sbjct: 7   TALCQKLKIPDHVRERAWLTWEKVSSVDGVLGGYIQKKKELWGICIFIAAVD-------- 58

Query: 69  SNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVI 128
               ++      T L K+ ++S+++F N  ++     K      + ++RL + + V   +
Sbjct: 59  ----LDEMSFTFTELQKNIEISVHKFFNLLKEIDTSTK----VDNAMSRLLKKYDVLFAL 110

Query: 129 FTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSND 188
           F+K     + ++              +        S  V + +WI F+L K E L + +D
Sbjct: 111 FSKLERTCELIYLTQP----------SSSISTEINSALVLKVSWITFLLAKGEVLQMEDD 160

Query: 189 LVNSFHLLIATCDLIYANVIQSKLRDIV---------NPDFEGMPSNFLDSHFAPLDDPP 239
           LV SF L++   D          L++           +P       N        L++  
Sbjct: 161 LVISFQLMLCVLDYFIKLSPPMLLKEPYKTAVIPINGSPRTPRRGQNRSARIAKQLENDT 220

Query: 240 CIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSG 299
            II +LCK H+              + D VK++                           
Sbjct: 221 RIIEVLCKEHEC-------------NIDEVKNVYFK------------------------ 243

Query: 300 QEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFD 359
                        +  L   L   N     + ++K YEE  L   D D R+FL   ++  
Sbjct: 244 --------NFIPFMNSLG--LVTSNGLPEVENLSKRYEEIYLKNKDLDARLFLDHDKTLQ 293

Query: 360 ETAPGSS 366
             +  S 
Sbjct: 294 TDSIDSF 300
>4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens} Length = 656 Back     alignment and structure
>4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens} Length = 656 Back     alignment and structure
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {Homo sapiens} Length = 411 Back     alignment and structure
>2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB; retinoblastoma protein, E2F displacement, transcription repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3 PDB: 1n4m_A 3pom_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B 1o9k_B Length = 347 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query407
4elj_A 656 Retinoblastoma-associated protein; cyclin fold, tu 100.0
2qdj_A304 Retinoblastoma-associated protein; cyclin fold, cy 100.0
4ell_A 411 Retinoblastoma-associated protein; cyclin fold, tu 99.62
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 99.49
4elj_A656 Retinoblastoma-associated protein; cyclin fold, tu 99.43
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 96.01
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.37
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.15
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 95.03
1c9b_A207 General transcription factor IIB; protein-DNA comp 94.91
1c9b_A207 General transcription factor IIB; protein-DNA comp 90.74
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 90.29
4ell_A411 Retinoblastoma-associated protein; cyclin fold, tu 89.34
3m03_A95 ORC6, origin recognition complex subunit 6; helix 86.63
>4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.4e-73  Score=606.46  Aligned_cols=284  Identities=21%  Similarity=0.342  Sum_probs=232.9

Q ss_pred             HHHHHHHhhhcCCCHHHHHHHHHHHHHhhc-c----cCccccchhhhHHHHhhhhhccccCccCCCccccCCcccHHHHH
Q psy9484          10 AHQHQELCMALNIDSTTAKEAWNAYKEMSH-H----YTLEGSQLHWLGCSLYVSCRKATVPTVNSNRTIEGNLVCLTSLL   84 (407)
Q Consensus        10 ~~~f~~lC~~LnlD~~t~~~Aw~~~~~~~~-~----~tlEg~~~~W~aCaLY~a~r~~~~~tv~~~~~~~~n~vsLt~LL   84 (407)
                      +++|+++|++||||++|+++||++|++++. +    ||+||+++||+||++|+||            .++||||||||||
T Consensus         5 ~~~f~~lC~~Ln~d~~~~~~Aw~~~~~~~~~~~~l~~tleg~~~~W~aC~ly~~~------------~~~gn~vsLt~lL   72 (656)
T 4elj_A            5 EPDFTALCQKLKIPDHVRERAWLTWEKVSSVDGVLGGYIQKKKELWGICIFIAAV------------DLDEMSFTFTELQ   72 (656)
T ss_dssp             CHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCSCC-----CCHHHHHHHHHHHHH------------HTTCCCSCHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHhccccccCCcccchHHhhhhhheeee------------eccCCeeeHHHHH
Confidence            389999999999999999999999999996 3    7899999999999999995            3468999999999


Q ss_pred             hhhCCChHHHHHHHHHHHHhcCCChHHHHHHHHHHHhhhHHHHHHHHhHHHHhccCCCCCCchhhhhhhcccccccccch
Q psy9484          85 KHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTS  164 (407)
Q Consensus        85 r~~~lsi~~Ff~kl~kw~~~~~L~~e~~~~i~~Le~~f~v~~vLfkky~~iF~~iF~~p~~~~~~~~~r~~k~~~~~c~~  164 (407)
                      |+++|||+|||+||+|| +|   |++++.++++||+||+|+++|||||+++|++||..|++++ +         +.+|++
T Consensus        73 r~~~lsl~~FF~kikk~-dm---~~~~~~~i~rLE~kF~v~~vlfkky~~if~~iF~~p~~~~-~---------~~~~~~  138 (656)
T 4elj_A           73 KNIEISVHKFFNLLKEI-DT---STKVDNAMSRLLKKYDVLFALFSKLERTCELIYLTQPSSS-I---------STEINS  138 (656)
T ss_dssp             HHHTCCHHHHHHHHHHS-CC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTBCCC------------------CCH
T ss_pred             HHhcCCHHHHHHHhHhc-cC---cHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHhcCCCccc-C---------CCCCCH
Confidence            99999999999999997 55   9999999999999999999999999999999999997332 1         247999


Q ss_pred             hhHHHHHHHHHHHHHhhccccccchhhhhhHHHHHHHHHHHhhhhcccccccCCCCCCCCCCCCCCCCCCCCCCchHHHH
Q psy9484         165 TKVFEFTWILFVLTKAEYLDVSNDLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISI  244 (407)
Q Consensus       165 ~~lf~f~WlLFL~~K~~~~~~~~DLV~s~~LLlC~Ldlvi~n~~~~~~~~lln~~F~~~~~~~~~~~f~~~~~~~~ILe~  244 (407)
                      +++|+|||+|||++||++++++||||+|||||+||||++|.|+    |++++||+|+|+|          ++++++||+.
T Consensus       139 ~~~~~f~W~LFl~~K~~~~~~~~DLV~s~hLLlc~ldl~~~~~----p~dlln~~~~~~~----------~~~~~~il~~  204 (656)
T 4elj_A          139 ALVLKVSWITFLLAKGEVLQMEDDLVISFQLMLCVLDYFIKLS----PPMLLKEPYKTAV----------IENDTRIIEV  204 (656)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSSCCHHHHHHHHHHHHHHHHHHS----CGGGBCHHHHTTC----------C--CTHHHHH
T ss_pred             HHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHhC----CHHHhCCCcCCCC----------CCCCccHHHH
Confidence            9999999999999999999999999999999999999999999    5799999999876          4568999999


Q ss_pred             hhhcCCCccchhhhhhhhhhhHHHHHHHHHHHHHHHhhhhhccCCchhhhhhhcCCCCCchhhhccCcccccccccCCCc
Q psy9484         245 LCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQKLRGNIEDLSAILEPEN  324 (407)
Q Consensus       245 LC~~~~~~vie~~~~~E~~L~r~~~Khln~IEe~ile~l~w~~~s~l~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~~~  324 (407)
                      ||+.|+|+++|++...+                            +.|.++.++..            +.++.++     
T Consensus       205 LC~~~~~~~~E~k~i~~----------------------------~~f~~~i~~l~------------l~~~~~~-----  239 (656)
T 4elj_A          205 LCKEHECNIDEVANVAF----------------------------KNFIPFMNSLG------------LVTSNGL-----  239 (656)
T ss_dssp             HHHHTTCCHHHHHHHHH----------------------------HTHHHHHHTTG------------GGEETTE-----
T ss_pred             HhhhcCCcHHHHHHHHH----------------------------Hhhhhhhcchh------------hhhcCCc-----
Confidence            99999999999999887                            77777776542            5566777     


Q ss_pred             hhhhHHHHHHHHHHHhhccCCcccccccCCCCC---------CCCCCCCCCCC-CCCCCCCCCCCC
Q psy9484         325 FDYNFKVVNKMYEEYILSVGDFDERIFLPKFQS---------FDETAPGSSGP-GLDDLSPAPAPG  380 (407)
Q Consensus       325 l~~n~~~Lnk~Yee~~l~~Gd~DERiFL~~d~~---------e~~~tp~~~~~-~~~~~~~~~~~~  380 (407)
                        .|.++|||+||+||+++|||||||||++|+.         ..++||.|..+ +...++||+||.
T Consensus       240 --~n~k~Lnk~YEe~vl~~Gd~DERiFl~~d~~i~~~~~~~~~~~~tP~k~~~~~~~~~~p~~TPV  303 (656)
T 4elj_A          240 --PEVENLSKRYEEIYLKNKDLDARLFLDHDKTLQTDSIDSFETQRTPRKSNLDEEVNVIPPHTPV  303 (656)
T ss_dssp             --ECHHHHHHHHHHHHHHHTCCCGGGGGGTCGGGCC-------------------------CCCHH
T ss_pred             --ccHHHHHHHHHHHhcccCCcchhhhcCCccccccchhhhhccCCCCCccCCcccccCCCCCCch
Confidence              3899999999999999999999999998754         23468877664 555678888875
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens} Back     alignment and structure
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {Homo sapiens} Back     alignment and structure
>2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB; retinoblastoma protein, E2F displacement, transcription repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3 PDB: 1n4m_A 3pom_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B 1o9k_B Back     alignment and structure
>4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB; retinoblastoma protein, E2F displacement, transcription repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3 PDB: 1n4m_A 3pom_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B 1o9k_B Back     alignment and structure
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {Homo sapiens} Back     alignment and structure
>3m03_A ORC6, origin recognition complex subunit 6; helix turn helix, DNA binding protein, origin recognition CO DNA replication; HET: MES; 2.50A {Homo sapiens} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 407
d2r7ga1199 a.74.1.3 (A:380-578) Retinoblastoma tumor suppress 1e-13
>d2r7ga1 a.74.1.3 (A:380-578) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} Length = 199 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Retinoblastoma tumor suppressor domains
domain: Retinoblastoma tumor suppressor domains
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.1 bits (164), Expect = 1e-13
 Identities = 18/43 (41%), Positives = 33/43 (76%)

Query: 256 VIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDS 298
             ++AE +L+R+++KHL   E ++++SLAW+S+SPL+  I+ S
Sbjct: 155 SFIKAEGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQS 197

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query407
d2r7ga1199 Retinoblastoma tumor suppressor domains {Human (Ho 99.73
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.85
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.41
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.97
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.88
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 93.22
>d2r7ga1 a.74.1.3 (A:380-578) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Retinoblastoma tumor suppressor domains
domain: Retinoblastoma tumor suppressor domains
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=1.4e-19  Score=165.49  Aligned_cols=89  Identities=27%  Similarity=0.440  Sum_probs=72.5

Q ss_pred             hHHHHHHHHHHHhhhh-c--ccccccCCCCCCCCCCCCCCCCCCCCCCchHHHHhhhcCCCccchhhhhhhhhhhHHHHH
Q psy9484         194 HLLIATCDLIYANVIQ-S--KLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVIVRAEASLSRDIVK  270 (407)
Q Consensus       194 ~LLlC~Ldlvi~n~~~-~--~~~~lln~~F~~~~~~~~~~~f~~~~~~~~ILe~LC~~~~~~vie~~~~~E~~L~r~~~K  270 (407)
                      .||+||+|+|+...-. +  ......+..|||+++.|++++|+    +            .+|||+++++|++|+|+|+|
T Consensus       106 sLlACclEvVl~~y~~~~~~~~~~~~~l~FPwIL~~~~i~afd----f------------~KVIE~fVr~e~~L~RelvK  169 (199)
T d2r7ga1         106 SLLACALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKAFD----F------------YKVIESFIKAEGNLTREMIK  169 (199)
T ss_dssp             HHHHHHHHHHHHHHHHHC------CCCCCTTHHHHHHTCCHHH----H------------HHHHHHHHHHCTTCCHHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccccccccCCccHHHHHcCCCHHH----H------------HHHHHHHHhcCCCCCHHHHH
Confidence            4999999999985421 0  01112456788888888888887    4            47788999999999999999


Q ss_pred             HHHHHHHHHHhhhhhccCCchhhhhhhc
Q psy9484         271 HLNLTEEQVLDSLAWVSNSPLWKNIEDS  298 (407)
Q Consensus       271 hln~IEe~ile~l~w~~~s~l~~~~~~~  298 (407)
                      |||.|||+|||++||++|||+|+.+..+
T Consensus       170 HLn~iEe~iLEslaW~~~Splw~~l~~~  197 (199)
T d2r7ga1         170 HLERCEHRIMESLAWLSDSPLFDLIKQS  197 (199)
T ss_dssp             HHHHHHHHHHHTGGGSTTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCChHHHHHHHh
Confidence            9999999999999999999999988754
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure