Citrus Sinensis ID: 011786

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-------410-------420-------430-------440-------450-------460-------470-------
MGSPVEATNSTSPPCSPASQSNGSMAKMTPTPVRTAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHKPSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQSKTPKDGGIKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLSKHKGKNRENYKSIDAFYNKYSF
ccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccccccHHHHHccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccHHHHHHHHHcccccccccccEEEccccccccccccccccccccccccccc
ccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHcHHHHHHHHHHHHHHHHHHccccccccHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHcHHHcccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHcccccccEEEEEEEEcccccccccccccccEEEEEEcccc
mgspveatnstsppcspasqsngsmakmtptpvrtaqNTASNWLKTviaplpskpsaELEKFLSLGSVSIANEVESGANIVLEAIfpsiklgeRLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICaseagksssrdlsglltneKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLlaepmpslheismnnHLASGVLAYQHnlhkhkpstgnngmkrlcdengskltkhnsyatamkvdspvvdshqvklqpvtpssqtafmspvqsktpkdggikMDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITdnyvkepqcrsqdfgFVFAGWlskhkgknrenykSIDAFYNKYSF
mgspveatnstsppcspasqsngsmAKMTPTPVRTAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICAseagksssrdlsGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESfirhedslpRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHkpstgnngmkRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPvtpssqtafmspvqsktpkdggIKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWlskhkgknrenyksidafynkysf
MGSPVEATNSTSPPCSPASQSNGSMAKMTPTPVRTAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHKPSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQSKTPKDGGIKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLSKHKGKNRENYKSIDAFYNKYSF
*****************************************NWLKTVIAP********LEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICAS**********SGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIA***********LKLL************NNHLASGVLAYQH*************************************************************************IKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLSKHKG****NYKSIDAFY*****
*********************************RTAQNTASNWLK*********PSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGE***********LMDSLWSGQERTEALKLYYKVLESICASEA***S**DLSGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYN************************************************************************************************************************DAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVF*****************IDAFYNKYS*
**********************************TAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICAS********DLSGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHKPSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQP*******************DGGIKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLSKHKGKNRENYKSIDAFYNKYSF
*************************AKMTPTPVRTAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLG***FNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDL*****RLKLLAEPMPSLHEISMN*HLAS*V********************************************************************************MDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWL*********NYKSIDAFYNKYSF
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SSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGSPVEATNSTSPPCSPASQSNGSMAKMTPTPVRTAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHKPSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQSKTPKDGGIKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLSKHKGKNRENYKSIDAFYNKYSF
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 ?
Query477 2.2.26 [Sep-21-2011]
B9SVG9 1020 Retinoblastoma-related pr N/A no 0.987 0.461 0.521 1e-131
A7P514 1007 Retinoblastoma-related pr yes no 0.981 0.464 0.515 1e-131
B9GLX8 1035 Retinoblastoma-related pr yes no 0.983 0.453 0.523 1e-130
Q4JF75 1006 Retinoblastoma-related pr N/A no 0.968 0.459 0.516 1e-129
Q9SLZ4 1026 Retinoblastoma-related pr N/A no 0.985 0.458 0.514 1e-125
A9UL14 1025 Retinoblastoma-related pr N/A no 0.962 0.447 0.512 1e-125
Q66WV0 1003 Retinoblastoma-related pr N/A no 0.976 0.464 0.504 1e-123
Q8H252 1011 Retinoblastoma-related pr N/A no 0.979 0.461 0.485 1e-122
Q2ABE5 1025 Retinoblastoma-related pr N/A no 0.987 0.459 0.492 1e-122
Q9LKZ3 1013 Retinoblastoma-related pr yes no 0.962 0.453 0.495 1e-120
>sp|B9SVG9|RBR_RICCO Retinoblastoma-related protein OS=Ricinus communis GN=RBR PE=2 SV=1 Back     alignment and function desciption
 Score =  470 bits (1210), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 253/485 (52%), Positives = 325/485 (67%), Gaps = 14/485 (2%)

Query: 1   MGSPVEA-TNSTSPPCSPASQSNGSM----AKMTPTPVRTAQNTASNWLKTVIAPLPSKP 55
           + SP +  T+  SP  SPAS +NG +    ++M  TPV TA  TA  WL+TVI+PLPSKP
Sbjct: 380 ISSPTKTITSPLSPHRSPASHTNGILGSTNSRMAATPVSTAMTTA-KWLRTVISPLPSKP 438

Query: 56  SAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQER 115
           S +LE+FL+     + N+V   A+I+LEAIFPS  LGER    SL + NLMD++W+ Q R
Sbjct: 439 SPQLERFLASCDRDVTNDVIRRAHIILEAIFPSNALGERCVTGSLQSTNLMDNIWAEQRR 498

Query: 116 TEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSILFP 175
            EALKLYY+VLE++C +EA    + +L+ LLTNE+FHRCMLACSAELV      V++LFP
Sbjct: 499 LEALKLYYRVLEAMCTAEAQILHATNLTSLLTNERFHRCMLACSAELVLATHKTVTMLFP 558

Query: 176 LILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIA 235
            +LER GITAFD+ KV ESFIRHE+SLPREL RHLNSLEE +LESMVWEKGSS+YNSL  
Sbjct: 559 AVLERTGITAFDLSKVIESFIRHEESLPRELRRHLNSLEERLLESMVWEKGSSMYNSLTV 618

Query: 236 SRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHKPSTGNNG----MKR 291
           +RP L  EI RL LLAEPMPSL  I+++ + +SG L    ++ KH+ S G NG     KR
Sbjct: 619 ARPSLSAEINRLGLLAEPMPSLDAIAVHINFSSGGLPPLSSVSKHEISPGQNGDIRSPKR 678

Query: 292 LCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQSKTPKDGGIKM 351
            C +  S L + NS+ + +K       + + KL P  P  Q+AF SP +      G    
Sbjct: 679 PCTDYRSVLVERNSFTSPVKDRLLAFTNLKSKLPP--PPLQSAFASPTRPNPGGGGETCA 736

Query: 352 DAAVTFLFNKMTKLGAVRINSMAERLKLSQQ-IREKTYLLFRQILVEKTYLFFNRHIDLI 410
           +  +   F+K+ KL AVRIN M ERL+ SQQ IRE  Y LF+Q+L ++T LFFNRHID I
Sbjct: 737 ETGINIFFSKINKLAAVRINGMVERLQQSQQHIRENVYRLFQQVLSQQTSLFFNRHIDQI 796

Query: 411 ILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLS-KHKGKNRENYKSID 469
           ILCCF GVAKI+K+ L F EI  NY K+PQC+ Q F  VF  W S +H G+  +++  I 
Sbjct: 797 ILCCFYGVAKISKVNLTFREIIYNYRKQPQCKPQVFRSVFVDWSSARHNGRTGQDHVDII 856

Query: 470 AFYNK 474
            FYN+
Sbjct: 857 TFYNE 861
Regulator of biological processes that recruits a histone deacetylase to control gene transcription. May play a role in the entry into mitosis, negatively regulating the cell proliferation. Formation of stable complexes with geminiviridae replication-associated proteins may create a cellular environment which favors viral DNA replication.
Ricinus communis (taxid: 3988)
>sp|A7P514|RBR_VITVI Retinoblastoma-related protein OS=Vitis vinifera GN=RBR PE=2 SV=1 Back     alignment and function description
>sp|B9GLX8|RBR_POPTR Retinoblastoma-related protein OS=Populus trichocarpa GN=RBL901 PE=2 SV=1 Back     alignment and function description
>sp|Q4JF75|RBR_SCUBA Retinoblastoma-related protein OS=Scutellaria baicalensis GN=RB PE=2 SV=1 Back     alignment and function description
>sp|Q9SLZ4|RBR1_PEA Retinoblastoma-related protein 1 OS=Pisum sativum GN=RBR1 PE=2 SV=1 Back     alignment and function description
>sp|A9UL14|RBR_MEDSA Retinoblastoma-related protein OS=Medicago sativa GN=RBR PE=2 SV=1 Back     alignment and function description
>sp|Q66WV0|RBR1_NICBE Retinoblastoma-related protein 1 OS=Nicotiana benthamiana GN=RBR1 PE=2 SV=1 Back     alignment and function description
>sp|Q8H252|RBR_COCNU Retinoblastoma-related protein OS=Cocos nucifera GN=Rb1 PE=2 SV=1 Back     alignment and function description
>sp|Q2ABE5|RBR_CAMSI Retinoblastoma-related protein OS=Camellia sinensis GN=pRB PE=2 SV=1 Back     alignment and function description
>sp|Q9LKZ3|RBR1_ARATH Retinoblastoma-related protein 1 OS=Arabidopsis thaliana GN=RBR1 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 ?
Query477
255578241 1020 conserved hypothetical protein [Ricinus 0.987 0.461 0.521 1e-130
359476005 1007 PREDICTED: retinoblastoma-related protei 0.981 0.464 0.515 1e-129
296081790 1006 unnamed protein product [Vitis vinifera] 0.981 0.465 0.515 1e-129
449449453 1024 PREDICTED: retinoblastoma-related protei 0.987 0.459 0.512 1e-128
449487265 1125 PREDICTED: retinoblastoma-related protei 0.987 0.418 0.512 1e-128
224053236 1035 hypothetical protein POPTRDRAFT_547794 [ 0.983 0.453 0.523 1e-128
122233627 1006 RecName: Full=Retinoblastoma-related pro 0.968 0.459 0.516 1e-127
7381060 1035 retinoblastoma-related protein 1 [Populu 0.983 0.453 0.519 1e-126
356556778 1002 PREDICTED: retinoblastoma-related protei 0.983 0.468 0.520 1e-126
357515345 1052 Retinoblastoma-related protein [Medicago 0.985 0.446 0.512 1e-124
>gi|255578241|ref|XP_002529988.1| conserved hypothetical protein [Ricinus communis] gi|254789790|sp|B9SVG9.1|RBR_RICCO RecName: Full=Retinoblastoma-related protein gi|223530511|gb|EEF32393.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
 Score =  470 bits (1210), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 253/485 (52%), Positives = 325/485 (67%), Gaps = 14/485 (2%)

Query: 1   MGSPVEA-TNSTSPPCSPASQSNGSM----AKMTPTPVRTAQNTASNWLKTVIAPLPSKP 55
           + SP +  T+  SP  SPAS +NG +    ++M  TPV TA  TA  WL+TVI+PLPSKP
Sbjct: 380 ISSPTKTITSPLSPHRSPASHTNGILGSTNSRMAATPVSTAMTTA-KWLRTVISPLPSKP 438

Query: 56  SAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQER 115
           S +LE+FL+     + N+V   A+I+LEAIFPS  LGER    SL + NLMD++W+ Q R
Sbjct: 439 SPQLERFLASCDRDVTNDVIRRAHIILEAIFPSNALGERCVTGSLQSTNLMDNIWAEQRR 498

Query: 116 TEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSILFP 175
            EALKLYY+VLE++C +EA    + +L+ LLTNE+FHRCMLACSAELV      V++LFP
Sbjct: 499 LEALKLYYRVLEAMCTAEAQILHATNLTSLLTNERFHRCMLACSAELVLATHKTVTMLFP 558

Query: 176 LILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIA 235
            +LER GITAFD+ KV ESFIRHE+SLPREL RHLNSLEE +LESMVWEKGSS+YNSL  
Sbjct: 559 AVLERTGITAFDLSKVIESFIRHEESLPRELRRHLNSLEERLLESMVWEKGSSMYNSLTV 618

Query: 236 SRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHKPSTGNNG----MKR 291
           +RP L  EI RL LLAEPMPSL  I+++ + +SG L    ++ KH+ S G NG     KR
Sbjct: 619 ARPSLSAEINRLGLLAEPMPSLDAIAVHINFSSGGLPPLSSVSKHEISPGQNGDIRSPKR 678

Query: 292 LCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQSKTPKDGGIKM 351
            C +  S L + NS+ + +K       + + KL P  P  Q+AF SP +      G    
Sbjct: 679 PCTDYRSVLVERNSFTSPVKDRLLAFTNLKSKLPP--PPLQSAFASPTRPNPGGGGETCA 736

Query: 352 DAAVTFLFNKMTKLGAVRINSMAERLKLSQQ-IREKTYLLFRQILVEKTYLFFNRHIDLI 410
           +  +   F+K+ KL AVRIN M ERL+ SQQ IRE  Y LF+Q+L ++T LFFNRHID I
Sbjct: 737 ETGINIFFSKINKLAAVRINGMVERLQQSQQHIRENVYRLFQQVLSQQTSLFFNRHIDQI 796

Query: 411 ILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLS-KHKGKNRENYKSID 469
           ILCCF GVAKI+K+ L F EI  NY K+PQC+ Q F  VF  W S +H G+  +++  I 
Sbjct: 797 ILCCFYGVAKISKVNLTFREIIYNYRKQPQCKPQVFRSVFVDWSSARHNGRTGQDHVDII 856

Query: 470 AFYNK 474
            FYN+
Sbjct: 857 TFYNE 861

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359476005|ref|XP_002280874.2| PREDICTED: retinoblastoma-related protein-like [Vitis vinifera] gi|254789791|sp|A7P514.1|RBR_VITVI RecName: Full=Retinoblastoma-related protein gi|359392418|gb|AEV45768.1| RBR protein [Vitis pseudoreticulata] Back     alignment and taxonomy information
>gi|296081790|emb|CBI20795.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449449453|ref|XP_004142479.1| PREDICTED: retinoblastoma-related protein-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449487265|ref|XP_004157544.1| PREDICTED: retinoblastoma-related protein-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224053236|ref|XP_002297730.1| hypothetical protein POPTRDRAFT_547794 [Populus trichocarpa] gi|254789789|sp|B9GLX8.1|RBR_POPTR RecName: Full=Retinoblastoma-related protein gi|222844988|gb|EEE82535.1| hypothetical protein POPTRDRAFT_547794 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|122233627|sp|Q4JF75.1|RBR_SCUBA RecName: Full=Retinoblastoma-related protein gi|70568829|dbj|BAE06273.1| retinoblastoma [Scutellaria baicalensis] Back     alignment and taxonomy information
>gi|7381060|gb|AAF61377.1|AF133675_1 retinoblastoma-related protein 1 [Populus tremula x Populus tremuloides] Back     alignment and taxonomy information
>gi|356556778|ref|XP_003546699.1| PREDICTED: retinoblastoma-related protein 1-like [Glycine max] Back     alignment and taxonomy information
>gi|357515345|ref|XP_003627961.1| Retinoblastoma-related protein [Medicago truncatula] gi|355521983|gb|AET02437.1| Retinoblastoma-related protein [Medicago truncatula] 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 ?
Query477
UNIPROTKB|Q66WV0 1003 RBR1 "Retinoblastoma-related p 0.981 0.466 0.506 2.9e-112
TAIR|locus:2082194 1013 RBR1 "retinoblastoma-related 1 0.985 0.463 0.489 2.6e-109
UNIPROTKB|H9L1Q3 939 RBL2 "Uncharacterized protein" 0.618 0.314 0.303 1.1e-29
UNIPROTKB|H9KZ75 981 RBL2 "Uncharacterized protein" 0.618 0.300 0.303 1.2e-29
UNIPROTKB|Q08999 1139 RBL2 "Retinoblastoma-like prot 0.404 0.169 0.330 2e-29
MGI|MGI:105085 1135 Rbl2 "retinoblastoma-like 2" [ 0.404 0.170 0.330 8.1e-29
UNIPROTKB|A5D7M0 1140 RBL2 "Uncharacterized protein" 0.404 0.169 0.339 1.2e-27
RGD|3541 1135 Rbl2 "retinoblastoma-like 2" [ 0.404 0.170 0.325 2.7e-27
UNIPROTKB|O55081 1135 Rbl2 "Retinoblastoma-like prot 0.404 0.170 0.325 2.7e-27
UNIPROTKB|E2RIG3 1139 RBL2 "Uncharacterized protein" 0.402 0.168 0.325 5.8e-27
UNIPROTKB|Q66WV0 RBR1 "Retinoblastoma-related protein 1" [Nicotiana benthamiana (taxid:4100)] Back     alignment and assigned GO terms
 Score = 1108 (395.1 bits), Expect = 2.9e-112, P = 2.9e-112
 Identities = 244/482 (50%), Positives = 317/482 (65%)

Query:     1 MGSPVEATNSTSPPCSPASQSNGSMAKMTP-TPVRTAQNTASNWLKTVIAPLPSKPSAEL 59
             M SP +   ST    SP    N + +KMT  TPV TA  TA  WL+TVIAPL  KPSAEL
Sbjct:   377 MASPAKTVTST---LSPYRSPNCANSKMTAATPVSTAMTTA-RWLRTVIAPLQPKPSAEL 432

Query:    60 EKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLF-NWSLLNVNLMDSLWSGQERTEA 118
             E+FLS     +  +V   A I+LEAIFPS    E      SL + +LMD++W+ Q R+EA
Sbjct:   433 ERFLSSCDRDVTADVIRRAQIILEAIFPSSGPAEHCAAGGSLQSTSLMDNIWAEQRRSEA 492

Query:   119 LKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSILFPLIL 178
             LKLYY+VL+++C +E+   +  +L+ LLTNE+FHRCMLACSAELV      V++LFP +L
Sbjct:   493 LKLYYRVLQTMCTAESQILNGNNLTSLLTNERFHRCMLACSAELVLATHKTVTMLFPAVL 552

Query:   179 ERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRP 238
             ER GITAFD+ KV ESFIRHE+SLPREL RHLNSLEE +LESMVWEKGSS+YNSL  ++P
Sbjct:   553 ERTGITAFDLSKVIESFIRHEESLPRELRRHLNSLEERLLESMVWEKGSSMYNSLAVAKP 612

Query:   239 DLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHKPS-TGNNG----MKRLC 293
              L  EI R+ LLAEPMPSL  I+M+ +L+SG L    +LHK+  +  G  G     K++C
Sbjct:   613 SLAAEINRMGLLAEPMPSLDAIAMHINLSSGSLPPLPSLHKNNLAPNGQIGDIRSPKKVC 672

Query:   294 DENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQSKTPKDGGIKMDA 353
              E  S L + NS+ + +K     +++ + K  P  P+  +AF SP +      G    + 
Sbjct:   673 SEYRSVLVERNSFTSPVKDRFLALNNIKSKFPP--PALHSAFASPTRPNPGGGGETCAET 730

Query:   354 AVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRHIDLIILC 413
             A+   F K+ KL AVRIN M ERL+LSQQIRE  Y LF++IL ++T LFFNRHID IILC
Sbjct:   731 AINVFFGKIVKLAAVRINGMIERLQLSQQIRETVYCLFQKILSQRTSLFFNRHIDQIILC 790

Query:   414 CFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGW-LSKHKGKNRENYKSIDAFY 472
              F GVAKI++L L F+EI  NY K+PQC+ Q F  VF  W L++H  +   ++  I  FY
Sbjct:   791 SFYGVAKISQLNLTFKEIICNYRKQPQCKPQVFRSVFVDWTLARHNVRTGADHVDIITFY 850

Query:   473 NK 474
             N+
Sbjct:   851 NE 852
GO:0032875 "regulation of DNA endoreduplication" evidence=IMP
GO:0051782 "negative regulation of cell division" evidence=IMP
TAIR|locus:2082194 RBR1 "retinoblastoma-related 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|H9L1Q3 RBL2 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|H9KZ75 RBL2 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q08999 RBL2 "Retinoblastoma-like protein 2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:105085 Rbl2 "retinoblastoma-like 2" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|A5D7M0 RBL2 "Uncharacterized protein" [Bos taurus (taxid:9913)] 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
UNIPROTKB|E2RIG3 RBL2 "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 Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query477
pfam01858192 pfam01858, RB_A, Retinoblastoma-associated protein 2e-63
pfam01857130 pfam01857, RB_B, Retinoblastoma-associated protein 3e-33
>gnl|CDD|202014 pfam01858, RB_A, Retinoblastoma-associated protein A domain Back     alignment and domain information 
 Score =  203 bits (518), Expect = 2e-63
 Identities = 84/203 (41%), Positives = 109/203 (53%), Gaps = 11/203 (5%)

Query: 31  TPVRTAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIK 90
           TPVRTA NT S  L+ V++ L   PS  L ++L+    +    +     I+ E IF +  
Sbjct: 1   TPVRTAMNTVS-QLREVLSSLSDAPSETLLQYLNSCDRNPTEAIIKRVKIIGEEIFETFA 59

Query: 91  LGERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEK 150
             E                 + Q    ALKLYY+VLESI  +E  +    DLS LL  E 
Sbjct: 60  EAEDQ----------SPKEIASQRFKLALKLYYRVLESILKAEEKRLHDMDLSNLLEQEA 109

Query: 151 FHRCMLACSAELVSMARTRVSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHL 210
           FHR +LAC  ELV        + FP ILE  GITAFD  KV ESFIRHE  L RE+++HL
Sbjct: 110 FHRSLLACCLELVLATYKTTDLSFPWILEVFGITAFDFYKVIESFIRHEGGLSREMVKHL 169

Query: 211 NSLEETMLESMVWEKGSSLYNSL 233
           NS+EE +LES+ W+  S L+  +
Sbjct: 170 NSIEEQILESLAWKSDSPLWEMI 192

This domain has the cyclin fold as predicted. Length = 192
>gnl|CDD|216744 pfam01857, RB_B, Retinoblastoma-associated protein B 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 477
KOG1010 920 consensus Rb (Retinoblastoma tumor suppressor)-rel 100.0
PF01858194 RB_A: Retinoblastoma-associated protein A domain; 100.0
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 100.0
PRK00423310 tfb transcription initiation factor IIB; Reviewed 97.67
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 97.59
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 96.92
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 96.69
KOG1597308 consensus Transcription initiation factor TFIIB [T 96.14
PRK00423310 tfb transcription initiation factor IIB; Reviewed 95.68
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 91.96
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 87.32
>KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=1.9e-116  Score=949.80  Aligned_cols=402  Identities=33%  Similarity=0.502  Sum_probs=341.0

Q ss_pred             CCCCCCCCC----CCCCCCchHHHHHHHHHHHHHHhCCCCCCCcHHHHHHHhhCCCChHHHHHHHHHHHHhhhccccccc
Q 011786           17 PASQSNGSM----AKMTPTPVRTAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLG   92 (477)
Q Consensus        17 p~tp~~g~~----~~~~~TPVs~A~~s~~~~L~~~l~~~~~~PS~~L~~~f~sC~~dp~~~i~~rv~~i~e~~f~~~~~~   92 (477)
                      +++|+||++    .+...|||++||+++ +||++++.|++++||++|++||++|++||+++|++|+++|++.|+++...+
T Consensus       380 ~~p~~~~~~y~~e~~~~~tPvsta~~si-k~l~t~i~g~~~~psdkLe~~~~tc~r~p~e~Il~r~~~i~e~~~q~f~~~  458 (920)
T KOG1010|consen  380 KSPPHTGVRYNLELGNYPTPVSTATNSI-KQLMTILNGLKKEPSDKLEQYLNTCSRDPTESILKRLKEIFEIFEQKFSAA  458 (920)
T ss_pred             cCCCCcccccccccccCCCcchhHHHHH-HHHHHHHhccccCCcHHHHHHHhhcccChHHHHHHHHHHHHHHHHHHhhhh
Confidence            567899975    677789999999999 999999999999999999999999999999999999999999999987654


Q ss_pred             ccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhcccCCCchhhhccchHHHHHHHHHHHHHHHHHhcCCCc
Q 011786           93 ERLFNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTRVSI  172 (477)
Q Consensus        93 ~~~~~~~~~~~~~~d~~~a~~R~~~a~~LYYkvLE~Il~~E~~rl~~~~ls~LL~~e~FhrsLlACclEiVl~~y~~~~~  172 (477)
                      ..++      .++++  .+.||+++|++|||||||+||++|.+|++..||+.||+|++||+||||||+|+||++|+ .++
T Consensus       459 ~~~g------~~~~e--~~~~r~k~a~~LYykvLE~il~aE~~rl~~~dl~~LL~q~~Fh~sLlACclElVL~ty~-~~l  529 (920)
T KOG1010|consen  459 EGSG------NSCIE--IASQRFKLAERLYYKVLEKILKAELKRLPDMDLSKLLEQEIFHRSLLACCLELVLATYK-TDL  529 (920)
T ss_pred             ccCC------ccchH--HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCC
Confidence            3221      34566  79999999999999999999999999999999999999999999999999999999998 558


Q ss_pred             chhHHHHhhCCCceehhhhhhHhhhcCCCCCHHHHHHHHHHHHHHHhhhhccCCCcchHHHHhcCCChHHHHHHhhhhcC
Q 011786          173 LFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAE  252 (477)
Q Consensus       173 ~FPwiL~~~~i~afdf~KVIE~fIR~e~~LpRelvkHLn~IEE~ILEslAW~~~S~L~~~L~~a~~~~~~ei~r~g~~~~  252 (477)
                      .|||||++|||+|||||||||+|||||++|+||||||||+|||+|||||||++|||||++|+++++              
T Consensus       530 ~FPwvle~~~l~aFdF~KVIE~~IRhE~~L~RemiKHLn~iEE~iLEslaW~~dS~Lw~~i~~~~~--------------  595 (920)
T KOG1010|consen  530 SFPWVLECFGLKAFDFYKVIESFIRHEGGLSREMIKHLNSIEERILESLAWKSDSPLWEMIKQAKP--------------  595 (920)
T ss_pred             CCchhhhhcCCcHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHhhccCCcHHHHHHhccc--------------
Confidence            999999999999999999999999999999999999999999999999999999999999998774              


Q ss_pred             CCCchhhhhccccccC----Cccccc-ccccCCCCCCCCCCCccccccCCCccccccccccccccCCCccccccccCCCC
Q 011786          253 PMPSLHEISMNNHLAS----GVLAYQ-HNLHKHKPSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPV  327 (477)
Q Consensus       253 ~~Ps~~~v~~~~~~~~----~~~p~~-p~~~~~~~sp~~~~~kr~~~~~~~~~~~~~s~~~p~~~~sp~k~~~~~~~~~~  327 (477)
                      ++|.++++..+.++.+    |.+|+. ....+++.+|+. +||+.++                  ++|+++.....    
T Consensus       596 ~~~~~~~~~~~~~le~~~~~~~~p~~~~~~~~~~~sp~~-~Pk~~~~------------------t~pv~~~an~~----  652 (920)
T KOG1010|consen  596 RLPTEEGVDPPDNLESACIAGLLPLRVNHVRARYSSPVL-EPKDKGT------------------TIPVNGTANAG----  652 (920)
T ss_pred             ccccccccccccccccccccccCCccccccccccCCCCC-Ccccccc------------------ccccccccccc----
Confidence            4455555544444322    112211 012234556665 4665443                  55666544211    


Q ss_pred             CCCccccccCCCCCCCCCCCCCc-hhhHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhhhhhccccCc
Q 011786          328 TPSSQTAFMSPVQSKTPKDGGIK-MDAAVTFLFNKMTKLGAVRINSMAERLKLSQQIREKTYLLFRQILVEKTYLFFNRH  406 (477)
Q Consensus       328 ~~~~qs~~~sp~~~~~p~~~~~~-~~~sl~lFfrKvy~LAa~RL~~LC~~L~ls~~l~~kIWt~fe~~L~~~t~Lm~dRH  406 (477)
                                  +..++.+++++ +.++|+|||||||+||++||++||+||+++++++++|||||||+|+|+|+||+|||
T Consensus       653 ------------qe~~~~~~~~~~~stsLsIF~rKvY~LAavRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRH  720 (920)
T KOG1010|consen  653 ------------QEVTAFGVNKPRKSTSLSIFLRKVYHLAAVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRH  720 (920)
T ss_pred             ------------ccCCcccCCCcccccchHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhh
Confidence                        11113334444 67799999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcCCCcCHHHHHHHHhcCCCCCCcceeeEEeccc-cccCCCc--cccccccccccccccC
Q 011786          407 IDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWL-SKHKGKN--RENYKSIDAFYNKYSF  477 (477)
Q Consensus       407 LDQiiLCaiY~icKv~k~~~tFk~Ii~~Yr~QPqa~~~Vyr~Vli~~~-~~~~g~~--~~e~~DII~FYN~VFv  477 (477)
                      |||||||||||||||++++++|++||++||+||||+++|||+|+|+.. ....|..  .++++|||.|||.+||
T Consensus       721 LDQillCaiy~i~KV~~~~ltF~eIm~~YR~QPqa~~~vyRsV~i~~~~~~~~~~~~P~~~~~diI~fyN~iyV  794 (920)
T KOG1010|consen  721 LDQILLCAIYGIAKVKKEDLTFSEIMRAYRRQPQAVSLVYRSVLIKDKTNRDQGPSGPKEERSDIITFYNNIYV  794 (920)
T ss_pred             HHHHHHHHHHhheehhcccchHHHHHHHHhcCchhhhhhhhheeecccccccccCCCCcccccceeccccceeh
Confidence            999999999999999999999999999999999999999999999722 2222222  4589999999999997

>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
>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
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] 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
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query477
4ell_A411 Structure Of The Inactive Retinoblastoma Protein Po 9e-28
1gux_A218 Rb Pocket Bound To E7 Lxcxe Motif Length = 218 3e-18
4elj_A656 Crystal Structure Of The Inactive Retinoblastoma Pr 1e-17
4elj_A656 Crystal Structure Of The Inactive Retinoblastoma Pr 6e-09
2r7g_A347 Structure Of The Retinoblastoma Protein Pocket Doma 2e-17
2r7g_A347 Structure Of The Retinoblastoma Protein Pocket Doma 3e-08
3pom_A352 Crystal Structure Of The Unliganded Retinoblastoma 4e-17
3pom_A352 Crystal Structure Of The Unliganded Retinoblastoma 2e-08
1n4m_A345 Structure Of Rb Tumor Suppressor Bound To The Trans 4e-17
1n4m_A345 Structure Of Rb Tumor Suppressor Bound To The Trans 1e-08
1gh6_B333 Retinoblastoma Pocket Complexed With Sv40 Large T A 5e-17
1gh6_B333 Retinoblastoma Pocket Complexed With Sv40 Large T A 4e-08
1ad6_A185 Domain A Of Human Retinoblastoma Tumor Suppressor L 7e-15
1gux_B152 Rb Pocket Bound To E7 Lxcxe Motif Length = 152 3e-08
>pdb|4ELL|A Chain A, Structure Of The Inactive Retinoblastoma Protein Pocket Domain Length = 411 Back     alignment and structure 
Iteration: 1

 Score =  121 bits (303), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 105/374 (28%), Positives = 164/374 (43%), Gaps = 70/374 (18%)
Query: 112 GQERTE-ALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTR- 169
           G +R +  ++LYY+V+ES+  SE  + S ++ S LL +  FH  +LAC+ E+V    +R 
Sbjct: 66  GSQRYKLGVRLYYRVMESMLKSEEERLSIQNFSKLLNDNIFHMSLLACALEVVMATYSRS 125
Query: 170 --------VSILFPLILERAGITAFDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESM 221
                     + FP IL    + AFD  KV ESFI+ E +L RE+++HL   E  ++ES 
Sbjct: 126 TSQNLDSGTDLSFPWILNVLNLKAFDFYKVIESFIKAEGNLTREMIKHLERCEHRIMESF 185
Query: 222 VWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNHLASGVLAYQHNLHKHK 281
            W   S L++ LI    D +     L    E    L+    NNH A+ +        K K
Sbjct: 186 AWLSDSPLFD-LIKQSKDREGPTDHL----ESACPLNLPLQNNHTAADMYLEPVRAPKKK 240
Query: 282 PSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQS 341
            ST                T+ NS A A                      +T   S  Q+
Sbjct: 241 GST----------------TRVNSTANA----------------------ETQATSAFQT 262
Query: 342 KTPKDGGIKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQ--QIREKTYLLFRQILVEKT 399
           + P         +++  + K+ +L  +R+N++ ERL LS+  ++    + LF+  L  + 
Sbjct: 263 QKPLKS-----TSLSLFYKKVYRLAYLRLNTLCERL-LSEHPELEHIIWTLFQHTLQNEY 316
Query: 400 YLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLSKHKG 459
            L  +RH+D I++C   G+ K+  + LKF+ I   Y   P    + F  V          
Sbjct: 317 ELMRDRHLDQIMMCSMYGICKVKNIDLKFKIIVTAYKDLPHAVQETFKRVLI-------- 368
Query: 460 KNRENYKSIDAFYN 473
              E Y SI  FYN
Sbjct: 369 -KEEEYDSIIVFYN 381
>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|4ELJ|A Chain A, Crystal Structure Of The Inactive Retinoblastoma Protein Phosphorylated At T373 Length = 656 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|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|3POM|A Chain A, Crystal Structure Of The Unliganded Retinoblastoma Protein Pocket Domain Length = 352 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|1N4M|A Chain A, Structure Of Rb Tumor Suppressor Bound To The Transactivation Domain Of E2f-2 Length = 345 Back     alignment and structure
>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|1GH6|B Chain B, Retinoblastoma Pocket Complexed With Sv40 Large T Antigen Length = 333 Back     alignment and structure
>pdb|1GH6|B Chain B, Retinoblastoma Pocket Complexed With Sv40 Large T Antigen Length = 333 Back     alignment and structure
>pdb|1AD6|A Chain A, Domain A Of Human Retinoblastoma Tumor Suppressor Length = 185 Back     alignment and structure
>pdb|1GUX|B Chain B, Rb Pocket Bound To E7 Lxcxe Motif Length = 152 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 ?
Query477
4ell_A411 Retinoblastoma-associated protein; cyclin fold, tu 3e-78
4elj_A656 Retinoblastoma-associated protein; cyclin fold, tu 3e-48
4elj_A656 Retinoblastoma-associated protein; cyclin fold, tu 1e-22
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 2e-46
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 2e-23
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-07
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {Homo sapiens} Length = 411 Back     alignment and structure
 Score =  248 bits (635), Expect = 3e-78
 Identities = 102/449 (22%), Positives = 168/449 (37%), Gaps = 78/449 (17%)

Query: 36  AQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERL 95
             NT    L  ++     +PS  L  + +  +V+    +      +   IF   K  +  
Sbjct: 2   EFNTIQ-QLMMILNSASDQPSENLISYFNNCTVNPKESILKRVKDIGY-IFKE-KFAKA- 57

Query: 96  FNWSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCM 155
                  V         Q     ++LYY+V+ES+  SE  + S ++ S LL +  FH  +
Sbjct: 58  -------VGQGCVEIGSQRYKLGVRLYYRVMESMLKSEEERLSIQNFSKLLNDNIFHMSL 110

Query: 156 LACSAELVSMARTRVS---------ILFPLILERAGITAFDMCKVTESFIRHEDSLPREL 206
           LAC+ E+V    +R +         + FP IL    + AFD  KV ESFI+ E +L RE+
Sbjct: 111 LACALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKAFDFYKVIESFIKAEGNLTREM 170

Query: 207 MRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNHL 266
           ++HL   E  ++ES  W   S L++ +  S+            L    P    +  N+  
Sbjct: 171 IKHLERCEHRIMESFAWLSDSPLFDLIKQSKDREGPT----DHLESACPLNLPLQNNHTA 226

Query: 267 ASGVLAYQHNLHKHKPSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQP 326
           A   L                                           PV      K   
Sbjct: 227 ADMYL------------------------------------------EPVR--APKKKGS 242

Query: 327 VTPSSQTAFMSPVQSKTPKDGGIKMDAAVTFLFNKMTKLGAVRINSMAERLKLSQ-QIRE 385
            T  + TA      +   +        +++  + K+ +L  +R+N++ ERL     ++  
Sbjct: 243 TTRVNSTANAETQATSAFQTQKPLKSTSLSLFYKKVYRLAYLRLNTLCERLLSEHPELEH 302

Query: 386 KTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKINKLKLKFEEITDNYVKEPQCRSQD 445
             + LF+  L  +  L  +RH+D I++C   G+ K+  + LKF+ I   Y   P    + 
Sbjct: 303 IIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICKVKNIDLKFKIIVTAYKDLPHAVQET 362

Query: 446 FGFVFAGWLSKHKGKNRENYKSIDAFYNK 474
           F  V             E Y SI  FYN 
Sbjct: 363 FKRVLIK---------EEEYDSIIVFYNS 382
>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
>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
>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 ?
Query477
4ell_A411 Retinoblastoma-associated protein; cyclin fold, tu 100.0
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 100.0
4elj_A656 Retinoblastoma-associated protein; cyclin fold, tu 100.0
1ais_B200 TFB TFIIB, protein (transcription initiation facto 97.31
4bbr_M 345 Transcription initiation factor IIB; RNA polymeras 97.3
1c9b_A207 General transcription factor IIB; protein-DNA comp 97.29
3k7a_M 345 Transcription initiation factor IIB; RNA polymeras 96.57
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.68
1c9b_A207 General transcription factor IIB; protein-DNA comp 94.85
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 93.83
2qdj_A 304 Retinoblastoma-associated protein; cyclin fold, cy 93.03
2i53_A 258 Cyclin K; cell cycle, transcription, cyclin BOX, C 92.58
4elj_A 656 Retinoblastoma-associated protein; cyclin fold, tu 92.16
2ivx_A 257 Cyclin-T2; transcription regulation, cell division 91.75
3rgf_B 285 Cyclin-C; protein kinase complex, transferase,tran 91.3
1jkw_A 323 Cyclin H; cell cycle, cell division, nuclear prote 91.21
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 88.91
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=3.4e-116  Score=910.68  Aligned_cols=373  Identities=25%  Similarity=0.421  Sum_probs=282.7

Q ss_pred             HHHHHHHHHHHHHhCCCCCCCcHHHHHHHhhCCCChHHHHHHHHHHHHhhhcccccccccccccccccccccchhhHHHH
Q 011786           35 TAQNTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQE  114 (477)
Q Consensus        35 ~A~~s~~~~L~~~l~~~~~~PS~~L~~~f~sC~~dp~~~i~~rv~~i~e~~f~~~~~~~~~~~~~~~~~~~~d~~~a~~R  114 (477)
                      .||+|+ +|||++|+|++++||++|++||++|++||+++|.+||++|++.|.+.+  ++.   .|.   ...|  ++++|
T Consensus         1 ~~~~s~-~~L~~~l~~~~~~PS~~L~~~f~sC~~dp~~~I~~rv~~l~~~F~~~~--~~~---~~~---~~~~--~a~~R   69 (411)
T 4ell_A            1 GEFNTI-QQLMMILNSASDQPSENLISYFNNCTVNPKESILKRVKDIGYIFKEKF--AKA---VGQ---GCVE--IGSQR   69 (411)
T ss_dssp             -------CHHHHHHHHSCSSCCHHHHHHHHTSSSCCHHHHHHHHHHHHHHHHHHH--HHH---HCC---C--C--HHHHH
T ss_pred             CcchHH-HHHHHHhcCCCCCCCHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHh--hcc---cCc---cchh--HHHHH
Confidence            489999 999999999999999999999999999999999999999887666443  321   111   1234  89999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhcccCCCchhhhccchHHHHHHHHHHHHHHHHHhcC---------CCcchhHHHHhhCCCc
Q 011786          115 RTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTR---------VSILFPLILERAGITA  185 (477)
Q Consensus       115 ~~~a~~LYYkvLE~Il~~E~~rl~~~~ls~LL~~e~FhrsLlACclEiVl~~y~~---------~~~~FPwiL~~~~i~a  185 (477)
                      +++|++||||+||+||.+|.+|++..|++.||+||.||+||+|||+|||+|+|++         .++.|||||++|+|+|
T Consensus        70 ~~la~~LYY~~LE~Il~~E~~rl~~~~~s~LL~~~~Fh~sLlACclEvVl~~y~~~~~~~~~~~~~~~FPwiL~~~~i~a  149 (411)
T 4ell_A           70 YKLGVRLYYRVMESMLKSEEERLSIQNFSKLLNDNIFHMSLLACALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKA  149 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC------------CCTTHHHHHTTCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcccchHHHHhhhHHHHHHHHHHHHHHHHHHhccccccccccccCcCChHHHHhcCCCh
Confidence            9999999999999999999999999999999999999999999999999999986         3689999999999999


Q ss_pred             eehhhhhhHhhhcCCCCCHHHHHHHHHHHHHHHhhhhccCCCcchHHHHhcCCChHHHHHHhhhhcCCCCchhhhhcccc
Q 011786          186 FDMCKVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIASRPDLQEEIKRLKLLAEPMPSLHEISMNNH  265 (477)
Q Consensus       186 fdf~KVIE~fIR~e~~LpRelvkHLn~IEE~ILEslAW~~~S~L~~~L~~a~~~~~~ei~r~g~~~~~~Ps~~~v~~~~~  265 (477)
                      ||||||||+|||||++||||||||||+|||+|||||||++|||||++|+.++              +.+|.++++..+..
T Consensus       150 fdf~KVIE~fvr~e~~L~r~lvkHL~~iEe~iLEslaW~~~S~Lw~~l~~~~--------------~~~~~~~~~~~~~~  215 (411)
T 4ell_A          150 FDFYKVIESFIKAEGNLTREMIKHLERCEHRIMESFAWLSDSPLFDLIKQSK--------------DREGPTDHLESACP  215 (411)
T ss_dssp             HHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTGGGSTTCHHHHHHHHC-----------------------------
T ss_pred             hhhhhhhHHhhhccCCCCHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHhcc--------------ccCCcccccCCccc
Confidence            9999999999999999999999999999999999999999999999998653              12344444332221


Q ss_pred             ccCCcccccccccCCCCCCCCCCCccccccCCCccccccccccccccCCCccccccccCCCCCCCccccccCCCCC-CCC
Q 011786          266 LASGVLAYQHNLHKHKPSTGNNGMKRLCDENGSKLTKHNSYATAMKVDSPVVDSHQVKLQPVTPSSQTAFMSPVQS-KTP  344 (477)
Q Consensus       266 ~~~~~~p~~p~~~~~~~sp~~~~~kr~~~~~~~~~~~~~s~~~p~~~~sp~k~~~~~~~~~~~~~~qs~~~sp~~~-~~p  344 (477)
                      +.   .|..+                     ..++.+.+        .+|++++.   .+... ..++++++|..+ ..|
T Consensus       216 ~~---~p~~~---------------------~~t~~~~~--------~SP~~~~~---~~~~~-~~~~~~~~~~~~~~~~  259 (411)
T 4ell_A          216 LN---LPLQN---------------------NHTAADMY--------LEPVRAPK---KKGST-TRVNSTANAETQATSA  259 (411)
T ss_dssp             --------------------------------CCHHHHH--------HCCC-----------------------------
T ss_pred             cc---ccccC---------------------Cccchhcc--------cCCCCccc---ccccC-CccccccCccccCCCC
Confidence            10   11110                     00011111        23333221   01100 012222333211 112


Q ss_pred             CCCCCc-hhhHHHHHHHHHHHHHHHHHHHHHHHcCCCh-HHHHHHHHHHHHHHhhhhhccccCchhHHHHHHHHHHHHhc
Q 011786          345 KDGGIK-MDAAVTFLFNKMTKLGAVRINSMAERLKLSQ-QIREKTYLLFRQILVEKTYLFFNRHIDLIILCCFCGVAKIN  422 (477)
Q Consensus       345 ~~~~~~-~~~sl~lFfrKvy~LAa~RL~~LC~~L~ls~-~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~icKv~  422 (477)
                      .+++++ +.+++++||||||+||++||++||++|++++ +++++|||||||+|+|+|+||+||||||||||||||||||+
T Consensus       260 ~~~~~~~~~~sl~lFfrKvy~LAa~Rl~~LC~~L~~~~~~l~~~IWt~fe~~l~~~teLm~dRHLDQiiLCsiY~i~Kv~  339 (411)
T 4ell_A          260 FQTQKPLKSTSLSLFYKKVYRLAYLRLNTLCERLLSEHPELEHIIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICKVK  339 (411)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHCGGGGTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCCCCCccccHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHhhhHhhccccHHHHHHHHHHHHHhhc
Confidence            223333 6679999999999999999999999999875 79999999999999999999999999999999999999999


Q ss_pred             CCCcCHHHHHHHHhcCCCCCCcceeeEEeccccccCCCccccccccccccccccC
Q 011786          423 KLKLKFEEITDNYVKEPQCRSQDFGFVFAGWLSKHKGKNRENYKSIDAFYNKYSF  477 (477)
Q Consensus       423 k~~~tFk~Ii~~Yr~QPqa~~~Vyr~Vli~~~~~~~g~~~~e~~DII~FYN~VFv  477 (477)
                      +.+++|++||++||+||||+++|||+|+|+         ++++||||+|||+|||
T Consensus       340 ~~~~tFk~Ii~~Yr~qPqa~~~vyr~Vli~---------~g~~gDII~FYN~Vfv  385 (411)
T 4ell_A          340 NIDLKFKIIVTAYKDLPHAVQETFKRVLIK---------EEEYDSIIVFYNSVFM  385 (411)
T ss_dssp             TCCCCHHHHHHHHTTSTTCCTHHHHSEECS---------SSCEECHHHHHHHTHH
T ss_pred             cCCCCHHHHHHHHHhCcCCCCceeEEEEeC---------CCCcccHHHHHHHHHH
Confidence            999999999999999999999999999993         2468999999999996
>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
>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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M 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
>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
>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
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens} Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 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
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C 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 477
d2r7ga1199 a.74.1.3 (A:380-578) Retinoblastoma tumor suppress 2e-57
d2r7ga2142 a.74.1.3 (A:644-785) Retinoblastoma tumor suppress 8e-30
>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 =  186 bits (475), Expect = 2e-57
 Identities = 58/209 (27%), Positives = 95/209 (45%), Gaps = 20/209 (9%)

Query: 38  NTASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFN 97
           NT    L  ++     +PS  L  + +  +V+    +       +  IF   K  +    
Sbjct: 1   NTIQ-QLMMILNSASDQPSENLISYFNNCTVNPKESILKRVKD-IGYIFKE-KFAK---- 53

Query: 98  WSLLNVNLMDSLWSGQERTEALKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLA 157
                V         Q     ++LYY+V+ES+  SE  + S ++ S LL +  FH  +LA
Sbjct: 54  ----AVGQGCVEIGSQRYKLGVRLYYRVMESMLKSEEERLSIQNFSKLLNDNIFHMSLLA 109

Query: 158 CSAELVSMARTRVSI---------LFPLILERAGITAFDMCKVTESFIRHEDSLPRELMR 208
           C+ E+V    +R +           FP IL    + AFD  KV ESFI+ E +L RE+++
Sbjct: 110 CALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKAFDFYKVIESFIKAEGNLTREMIK 169

Query: 209 HLNSLEETMLESMVWEKGSSLYNSLIASR 237
           HL   E  ++ES+ W   S L++ +  S+
Sbjct: 170 HLERCEHRIMESLAWLSDSPLFDLIKQSK 198
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} Length = 142 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query477
d2r7ga1199 Retinoblastoma tumor suppressor domains {Human (Ho 100.0
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 100.0
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.69
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.67
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.96
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.55
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 93.65
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 90.8
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 81.22
>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=100.00  E-value=2.1e-66  Score=487.43  Aligned_cols=187  Identities=28%  Similarity=0.467  Sum_probs=170.0

Q ss_pred             HHHHHHHHHhCCCCCCCcHHHHHHHhhCCCChHHHHHHHHHHHHhhhcccccccccccccccccccccchhhHHHHHHHH
Q 011786           39 TASNWLKTVIAPLPSKPSAELEKFLSLGSVSIANEVESGANIVLEAIFPSIKLGERLFNWSLLNVNLMDSLWSGQERTEA  118 (477)
Q Consensus        39 s~~~~L~~~l~~~~~~PS~~L~~~f~sC~~dp~~~i~~rv~~i~e~~f~~~~~~~~~~~~~~~~~~~~d~~~a~~R~~~a  118 (477)
                      |+ +|||++|+|++++||++|++||++|++||+++|.+||++|++.|.+.+..+    . |   ....+  |++||+++|
T Consensus         2 s~-~~L~~~l~~~~~~PS~~L~~~f~~C~~dp~~~i~~rv~~l~~~F~~~~~~~----~-~---~~~~~--~a~~R~~~a   70 (199)
T d2r7ga1           2 TI-QQLMMILNSASDQPSENLISYFNNCTVNPKESILKRVKDIGYIFKEKFAKA----V-G---QGCVE--IGSQRYKLG   70 (199)
T ss_dssp             CH-HHHHHHHHHSCSSCCHHHHHHHHTSSSCCHHHHHHHHHHHHHHHHHHHHHH----H-C---GGGHH--HHHHHHHHH
T ss_pred             hH-HHHHHHhcCCCCCCCHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHhccc----C-C---chhhH--HHHHHHHHH
Confidence            67 999999999999999999999999999999999999999766554443211    1 1   11233  999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCCchhhhccchHHHHHHHHHHHHHHHHHhcC---------CCcchhHHHHhhCCCceehh
Q 011786          119 LKLYYKVLESICASEAGKSSSRDLSGLLTNEKFHRCMLACSAELVSMARTR---------VSILFPLILERAGITAFDMC  189 (477)
Q Consensus       119 ~~LYYkvLE~Il~~E~~rl~~~~ls~LL~~e~FhrsLlACclEiVl~~y~~---------~~~~FPwiL~~~~i~afdf~  189 (477)
                      ++|||||||+||.+|.+|+++.|++.||++|+||+||||||+|||+++|++         .++.|||||++|||+|||||
T Consensus        71 ~~LYY~~Le~Il~~E~~r~~~~~l~~LL~~~~Fh~sLlACclEvVl~~y~~~~~~~~~~~~~l~FPwIL~~~~i~afdf~  150 (199)
T d2r7ga1          71 VRLYYRVMESMLKSEEERLSIQNFSKLLNDNIFHMSLLACALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKAFDFY  150 (199)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSCCCHHHHTCHHHHHHHHHHHHHHHHHHHHHHC------CCCCCTTHHHHHHTCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhhHHHHHhHhHHHHHHHHHHHHHHHHHhcccccccccccccCCccHHHHHcCCCHHHHH
Confidence            999999999999999999999999999999999999999999999999973         34899999999999999999


Q ss_pred             hhhhHhhhcCCCCCHHHHHHHHHHHHHHHhhhhccCCCcchHHHHhc
Q 011786          190 KVTESFIRHEDSLPRELMRHLNSLEETMLESMVWEKGSSLYNSLIAS  236 (477)
Q Consensus       190 KVIE~fIR~e~~LpRelvkHLn~IEE~ILEslAW~~~S~L~~~L~~a  236 (477)
                      ||||+|||||++||||||||||+|||+|||||||++|||||++|+.+
T Consensus       151 KVIE~fVr~e~~L~RelvKHLn~iEe~iLEslaW~~~Splw~~l~~~  197 (199)
T d2r7ga1         151 KVIESFIKAEGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQS  197 (199)
T ss_dssp             HHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTGGGSTTCTHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHh
Confidence            99999999999999999999999999999999999999999999864
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>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
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure