Citrus Sinensis ID: 011262

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-------480-------490
MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTTQTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
cHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcccccccccHHHHccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHcccccccccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHccccccccHHHHHHHHccccccccccEEEEcccccccccc
cHHHHHHccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccEEEEEHHHHHHHcHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHccHHHccccccccccHHHHHHHHHHHHHHHHcccccHHccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHcccHHHHcccccHHHHcccccccccHccHHcccccccccccccHcccccccccccccccccccccccccHHHHHHHcccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHcHccccccHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHccccEEEEEEEEEEEcccccccccc
MRQMKNalnigesdEIVHVAKRFYGIAVARnftkgrrtEQVQASCLYLACrqkskpfllidfsnylniNVYELGAVYLQLCQVLYIadesnvlkqvdpsiflhkftdrllpggnkkvCDTARDILASMKRdwittgrkpsglcGAALYVSALThglkfsksDIVKIVHICEATLMKRLIEFentdsgsltIEDFMARKKELHEGvaanlpnngpkvsgmnevlckhkdtgkpfacglcrSCYEEFMTIsegleggadppafQVAERERMVKASAeenssferesdspfmsrvdkvqspepesigvpkncttqtasnegegdhtktpgvdatteasdgsdnfsdiddfevdgylhneeeKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISIClydldfscftps
mrqmknalnigesdeivHVAKRFYGIAVarnftkgrrTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHkftdrllpggnkkVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHglkfsksdIVKIVHICEATLMKRLIEfentdsgslTIEDFMARKKELHEGvaanlpnngpkVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASaeenssferesdspfmsrVDKVQspepesigvpkncttqtasnegegdhtktpgVDATteasdgsdnfsdiDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRaaeaknsgpaqtaleATRRMLtkkrlsskinYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTTQTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYleeqaakeaaaaaakaaleaSYKNCPEGlqaaqelaaaaaaavaKSrkekqqkraaeakNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
************SDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMA**********************MNEVLCKHKDTGKPFACGLCRSCYEEFMTISEG*********************************************************************************************DDFEVDGYLHNEEEKHYKKIIWEEMNREYL*******************************************************************************SSKINYDVLEKLFDDSVCLYSISICLYDLDFSCF***
**QMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFM**************************************************************************************************************************************************SDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQA*************************************************************************RLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTP*
MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERE************************************GVPKNCTTQ**************GVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEE***************EASYKNCPEGLQAAQ********************************TALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVA*NLPNNGPKVS*MNEVLCKHKDTGKPFACGLCRSCYEEFMTI**********************K*********************************************************************FSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAK*R*****************QTALEA*RRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTP*
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MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTTQTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAxxxxxxxxxxxxxxxxxxxxxGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
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 ?
Query490 2.2.26 [Sep-21-2011]
Q8CFK2 676 Transcription factor IIIB yes no 0.822 0.596 0.319 7e-51
Q92994 677 Transcription factor IIIB yes no 0.867 0.627 0.309 4e-50
Q9P6R0492 Transcription factor IIIB yes no 0.755 0.752 0.268 2e-37
P46070556 Transcription factor IIIB yes no 0.404 0.356 0.380 5e-36
P29056596 Transcription factor IIIB yes no 0.404 0.332 0.362 1e-34
P43072553 Transcription factor IIIB N/A no 0.838 0.743 0.263 5e-34
O59151300 Transcription initiation yes no 0.314 0.513 0.321 4e-15
P61999300 Transcription initiation N/A no 0.314 0.513 0.309 7e-15
P61998300 Transcription initiation yes no 0.314 0.513 0.309 7e-15
Q9V0V5300 Transcription initiation yes no 0.314 0.513 0.315 1e-14
>sp|Q8CFK2|TF3B_MOUSE Transcription factor IIIB 90 kDa subunit OS=Mus musculus GN=Brf1 PE=1 SV=1 Back     alignment and function desciption
 Score =  202 bits (513), Expect = 7e-51,   Method: Compositional matrix adjust.
 Identities = 151/473 (31%), Positives = 228/473 (48%), Gaps = 70/473 (14%)

Query: 23  FYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQ 82
           F+ +AV+++ T+GR+   V A+CLYL CR +  P +L+D S+ L +NVY LG  +L L +
Sbjct: 113 FFKMAVSKHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGKTFLLLAR 172

Query: 83  VLYIADESNVLKQVDPSIFLHKFTDRLLPG-GNKKVCDTARDILASMKRDWITTGRKPSG 141
            L I   +     +DP +++ +F   L  G  N +V  TA  +L  MKRDW+ TGR+PSG
Sbjct: 173 ELCINAPA-----IDPCLYIPRFAHLLEFGEKNHEVSMTALRLLQRMKRDWMHTGRRPSG 227

Query: 142 LCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMA----- 196
           LCGAAL V+A  H  + +  +++ +V +CE+TL KRL EFE+T +  LTI++FM      
Sbjct: 228 LCGAALLVAARMHDFRRTVKEVISVVKVCESTLRKRLTEFEDTPTSQLTIDEFMKIDLEE 287

Query: 197 --------------RKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCY 242
                         R K+L + ++  L     ++S   + +    +  +P A G   +  
Sbjct: 288 ECDPPSYTAGQRKLRMKQLEQVLSKKLEEVEGEISSYQDAIEIELENSRPKAKGALANLS 347

Query: 243 EEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERE---SDSPFMSRVDKVQSPE 299
           ++      G +  + P   +  E E +  A++  N  F RE    D    +  D      
Sbjct: 348 KD----GSGEDATSSPRCEEDTEDEELEAAASHMNKDFYRELLGDDDGSEAAGDPDGGSR 403

Query: 300 P---ESIGVPKNCTTQTASNEGEGDHTK----TPGVDATTEASDGSDNFSDIDDFEVDGY 352
           P   ES+  P      TA++ G  D  +    +P  D    + DG  + S IDD E+D Y
Sbjct: 404 PLALESLLGP----LPTAASLGISDSIRECISSPSGDPKDSSGDGELDLSGIDDLEIDRY 459

Query: 353 LHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAA 412
           + NE E   K  +W   N EYL EQ  KEA  A  K                  EL    
Sbjct: 460 ILNESEARVKAELWMRENAEYLREQKEKEARIAKEK------------------ELGIY- 500

Query: 413 AAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKL 465
                   KE + K++ + +    A TA EA  +ML +K++SSKINY VL  L
Sbjct: 501 --------KEHKPKKSCKRREPILASTAGEAIEKMLEQKKISSKINYSVLRDL 545
General activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters.
Mus musculus (taxid: 10090)
>sp|Q92994|TF3B_HUMAN Transcription factor IIIB 90 kDa subunit OS=Homo sapiens GN=BRF1 PE=1 SV=1 Back     alignment and function description
>sp|Q9P6R0|TF3B_SCHPO Transcription factor IIIB 60 kDa subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=brf1 PE=1 SV=2 Back     alignment and function description
>sp|P46070|TF3B_KLULA Transcription factor IIIB 70 kDa subunit OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=TDS4 PE=3 SV=2 Back     alignment and function description
>sp|P29056|TF3B_YEAST Transcription factor IIIB 70 kDa subunit OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BRF1 PE=1 SV=1 Back     alignment and function description
>sp|P43072|TF3B_CANAL Transcription factor IIIB 70 kDa subunit OS=Candida albicans (strain SC5314 / ATCC MYA-2876) GN=TDS4 PE=3 SV=1 Back     alignment and function description
>sp|O59151|TF2B_PYRHO Transcription initiation factor IIB OS=Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) GN=tfb PE=3 SV=1 Back     alignment and function description
>sp|P61999|TF2B_PYRWO Transcription initiation factor IIB OS=Pyrococcus woesei GN=tfb PE=1 SV=1 Back     alignment and function description
>sp|P61998|TF2B_PYRFU Transcription initiation factor IIB OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) GN=tfb PE=1 SV=1 Back     alignment and function description
>sp|Q9V0V5|TF2B_PYRAB Transcription initiation factor IIB OS=Pyrococcus abyssi (strain GE5 / Orsay) GN=tfb PE=3 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 ?
Query490
296085890 622 unnamed protein product [Vitis vinifera] 0.944 0.744 0.621 1e-139
449436026 643 PREDICTED: transcription factor IIIB 60 0.948 0.723 0.564 1e-138
449485890 663 PREDICTED: transcription factor IIIB 60 0.948 0.701 0.566 1e-138
224106357541 predicted protein [Populus trichocarpa] 0.875 0.792 0.561 1e-130
255569418 625 transcription initiation factor brf1, pu 0.936 0.734 0.585 1e-129
297829466 600 RNA polymerase II transcription factor [ 0.887 0.725 0.561 1e-125
145338292 604 Cyclin/Brf1-like TBP-binding protein [Ar 0.908 0.736 0.554 1e-125
6478939 600 putative transcription factor [Arabidops 0.9 0.735 0.547 1e-124
297829468 1245 hypothetical protein ARALYDRAFT_317739 [ 0.910 0.358 0.536 1e-122
115463095574 Os05g0305100 [Oryza sativa Japonica Grou 0.889 0.759 0.494 1e-116
>gi|296085890|emb|CBI31214.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  502 bits (1293), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 296/476 (62%), Positives = 359/476 (75%), Gaps = 13/476 (2%)

Query: 3   QMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDF 62
            + NA+ +   D I+  A  FY IA+ RNFT+GRR EQV A+CLY+ACR+  KPFLLIDF
Sbjct: 80  HIANAIGVSGGDSIIRPALAFYTIALERNFTRGRRKEQVAAACLYIACRENKKPFLLIDF 139

Query: 63  SNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTAR 122
           S +L INVY LGAV+LQLC++L + +   V K VDPS+F+H+F   L    N  V  TA 
Sbjct: 140 SEHLRINVYVLGAVFLQLCKLLSLEEHPIVQKPVDPSLFIHRFAAGLPGETNMGVSKTAL 199

Query: 123 DILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFE 182
            I+ASMKRDW+ TGRKPSGLCGAALY+SAL++GLK SK+DIVKIVHICEATL KRLIEFE
Sbjct: 200 RIIASMKRDWLQTGRKPSGLCGAALYISALSYGLKCSKTDIVKIVHICEATLTKRLIEFE 259

Query: 183 NTDSGSLTIEDFMARKKELHEGVAANLPNN-GPKVSGMNEVLCKHKDTGK-PFACGLCRS 240
           NT+SGSLTIE+F  + +EL +  ++   +N G  V G  E+LC+HK +GK PFA GLC  
Sbjct: 260 NTESGSLTIEEFNMKAEELEKEYSSTKQSNIGSTVPGKGELLCEHKGSGKPPFAHGLCEI 319

Query: 241 CYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENS-----SFERESDSPFMSRVDKV 295
           CY EF+ +S GLEGG++PPAFQ AER+RM KA+AEEN+       ++ S SP +   +  
Sbjct: 320 CYGEFIKLSGGLEGGSEPPAFQRAERDRMAKAAAEENADSNQIQLDKGSSSPDVCGNESS 379

Query: 296 QSPEPESIGVPKNCTTQTASNEGEGDHTKTPGV-DATTEASDGSDNFSDIDDFEVDGYLH 354
           +  EP+SIG     + + AS + EG  +   G  D    A D S++ SDIDD EVDGYLH
Sbjct: 380 KLAEPKSIGA----SDKQASID-EGAPSDLHGADDENANAGDESESLSDIDDVEVDGYLH 434

Query: 355 NEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAA 414
           NE+EK +KKIIWE MN+EYLEEQAAKEAAAAAAK A EAS+K+ PEGL+AAQELAAA AA
Sbjct: 435 NEKEKQFKKIIWEAMNKEYLEEQAAKEAAAAAAKEAYEASFKDNPEGLKAAQELAAATAA 494

Query: 415 AVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSV 470
           AVAKSRKE+QQKRAAEAKN+ PAQTA EATR+MLTKKRLSSKINYDVLEKLFDDSV
Sbjct: 495 AVAKSRKERQQKRAAEAKNTVPAQTAAEATRQMLTKKRLSSKINYDVLEKLFDDSV 550

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449436026|ref|XP_004135795.1| PREDICTED: transcription factor IIIB 60 kDa subunit-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449485890|ref|XP_004157302.1| PREDICTED: transcription factor IIIB 60 kDa subunit-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224106357|ref|XP_002314140.1| predicted protein [Populus trichocarpa] gi|222850548|gb|EEE88095.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255569418|ref|XP_002525676.1| transcription initiation factor brf1, putative [Ricinus communis] gi|223534976|gb|EEF36659.1| transcription initiation factor brf1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|297829466|ref|XP_002882615.1| RNA polymerase II transcription factor [Arabidopsis lyrata subsp. lyrata] gi|297328455|gb|EFH58874.1| RNA polymerase II transcription factor [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|145338292|ref|NP_187547.2| Cyclin/Brf1-like TBP-binding protein [Arabidopsis thaliana] gi|110741698|dbj|BAE98795.1| putative transcription factor [Arabidopsis thaliana] gi|332641235|gb|AEE74756.1| Cyclin/Brf1-like TBP-binding protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|6478939|gb|AAF14044.1|AC011436_28 putative transcription factor [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297829468|ref|XP_002882616.1| hypothetical protein ARALYDRAFT_317739 [Arabidopsis lyrata subsp. lyrata] gi|297328456|gb|EFH58875.1| hypothetical protein ARALYDRAFT_317739 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|115463095|ref|NP_001055147.1| Os05g0305100 [Oryza sativa Japonica Group] gi|113578698|dbj|BAF17061.1| Os05g0305100 [Oryza sativa Japonica Group] gi|222631042|gb|EEE63174.1| hypothetical protein OsJ_17983 [Oryza sativa Japonica Group] 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 ?
Query490
TAIR|locus:2055600557 AT2G45100 [Arabidopsis thalian 0.591 0.520 0.543 1.8e-88
TAIR|locus:2083579604 AT3G09360 [Arabidopsis thalian 0.663 0.538 0.504 1.2e-81
MGI|MGI:1919558 676 Brf1 "BRF1 homolog, subunit of 0.359 0.260 0.435 2.6e-51
UNIPROTKB|Q92994 677 BRF1 "Transcription factor III 0.393 0.285 0.409 3.3e-50
POMBASE|SPBC13E7.10c492 brf1 "transcription factor TFI 0.369 0.367 0.402 1.3e-49
UNIPROTKB|F1NQ85593 BRF1 "Uncharacterized protein" 0.383 0.317 0.403 2.9e-49
UNIPROTKB|F1PRK4 616 BRF1 "Uncharacterized protein" 0.381 0.303 0.401 2.9e-49
UNIPROTKB|J9PB52 562 BRF1 "Uncharacterized protein" 0.334 0.291 0.436 8.1e-49
ZFIN|ZDB-GENE-030131-6334661 brf1a "BRF1 homolog, subunit o 0.687 0.509 0.329 2.6e-46
ZFIN|ZDB-GENE-030131-6248 693 brf1b "BRF1 homolog, subunit o 0.383 0.271 0.411 1.3e-45
TAIR|locus:2055600 AT2G45100 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 771 (276.5 bits), Expect = 1.8e-88, Sum P(3) = 1.8e-88
 Identities = 163/300 (54%), Positives = 209/300 (69%)

Query:     1 MRQMKNALNIGES-DEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLL 59
             +  +++AL IG+  D+++ +A  F+ IA+  NFTKGR  E V +SCLYL CRQ     LL
Sbjct:    78 LMNLRDALGIGDDRDDVIVMASNFFRIALDHNFTKGRSKELVFSSCLYLTCRQFKLAVLL 137

Query:    60 IDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGG-NKKVC 118
             IDFS+YL ++VY+LG+VYLQLC +LYI +  N  K VDPSIF+ +F++ LL G  N K+ 
Sbjct:   138 IDFSSYLRVSVYDLGSVYLQLCDMLYITENHNYEKLVDPSIFIPRFSNMLLKGAHNNKLV 197

Query:   119 DTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRL 178
              TA  I+ASMKRDW+ TGRKPSG+CGAALY +AL+HG+K SK+DIV IVHICEATL KRL
Sbjct:   198 LTATHIIASMKRDWMQTGRKPSGICGAALYTAALSHGIKCSKTDIVNIVHICEATLTKRL 257

Query:   179 IEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLC 238
             IEF +T++ SLT ++    K E  +  AA      P       VLC H+D  KP   GLC
Sbjct:   258 IEFGDTEAASLTADELS--KTEREKETAALRSKRKPNFYKEGVVLCMHQDC-KPVDYGLC 314

Query:   239 RSCYEEFMTISEGLEGGADPPAFQVAERERMV-KASAEENS---SFERESD-SPFMSRVD 293
              SCY+EFMT+S GLEGG+DPPAFQ AE+ERM  KAS+EEN    + +  SD S  +S VD
Sbjct:   315 ESCYDEFMTVSGGLEGGSDPPAFQRAEKERMEEKASSEENDKQVNLDGHSDESSTLSDVD 374
GO:0003743 "translation initiation factor activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA
GO:0006352 "DNA-dependent transcription, initiation" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS
GO:0006413 "translational initiation" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA
GO:0010440 "stomatal lineage progression" evidence=RCA
TAIR|locus:2083579 AT3G09360 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
MGI|MGI:1919558 Brf1 "BRF1 homolog, subunit of RNA polymerase III transcription initiation factor IIIB (S. cerevisiae)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q92994 BRF1 "Transcription factor IIIB 90 kDa subunit" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
POMBASE|SPBC13E7.10c brf1 "transcription factor TFIIIB complex subunit Brf1" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
UNIPROTKB|F1NQ85 BRF1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1PRK4 BRF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|J9PB52 BRF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-6334 brf1a "BRF1 homolog, subunit of RNA polymerase III transcription initiation factor IIIBa" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-6248 brf1b "BRF1 homolog, subunit of RNA polymerase III transcription initiation factor IIIBb" [Danio rerio (taxid:7955)] 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

Your Input:
gw1.IX.3993.1
hypothetical protein (485 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query490
COG1405285 COG1405, SUA7, Transcription initiation factor TFI 2e-31
pfam0774195 pfam07741, BRF1, Brf1-like TBP-binding domain 2e-25
PRK00423310 PRK00423, tfb, transcription initiation factor IIB 4e-15
pfam0038271 pfam00382, TFIIB, Transcription factor TFIIB repea 1e-07
pfam0038271 pfam00382, TFIIB, Transcription factor TFIIB repea 2e-06
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-05
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-05
PRK09510387 PRK09510, tolA, cell envelope integrity inner memb 4e-05
TIGR02794346 TIGR02794, tolA_full, TolA protein 1e-04
PRK09510 387 PRK09510, tolA, cell envelope integrity inner memb 3e-04
PRK09510 387 PRK09510, tolA, cell envelope integrity inner memb 4e-04
PRK09510 387 PRK09510, tolA, cell envelope integrity inner memb 0.001
TIGR02794 346 TIGR02794, tolA_full, TolA protein 0.001
PRK09510387 PRK09510, tolA, cell envelope integrity inner memb 0.002
PRK09510387 PRK09510, tolA, cell envelope integrity inner memb 0.002
TIGR02794 346 TIGR02794, tolA_full, TolA protein 0.002
COG3064 387 COG3064, TolA, Membrane protein involved in colici 0.002
>gnl|CDD|224323 COG1405, SUA7, Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information 
 Score =  122 bits (307), Expect = 2e-31
 Identities = 54/178 (30%), Positives = 92/178 (51%), Gaps = 11/178 (6%)

Query: 4   MKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFS 63
           + +AL + ES  +   A R Y  AV +   +GR  E V A+C+Y ACR    P  L + +
Sbjct: 107 IASALGLPES--VRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIA 164

Query: 64  NYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRL-LPGGNKKVCDTAR 122
             L ++  E+G  Y  L + L +      +  VDPS ++ +F  +L L     +V   A 
Sbjct: 165 KALGVSKKEIGRTYRLLVRELKLK-----IPPVDPSDYIPRFASKLGLSD---EVRRKAI 216

Query: 123 DILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIE 180
           +I+   KR  +T G+ P+GL  AA+Y+++L  G + ++ ++ K+  + E T+  R  E
Sbjct: 217 EIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAGVTEVTIRNRYKE 274

Length = 285
>gnl|CDD|219547 pfam07741, BRF1, Brf1-like TBP-binding domain Back     alignment and domain information
>gnl|CDD|234758 PRK00423, tfb, transcription initiation factor IIB; Reviewed Back     alignment and domain information
>gnl|CDD|109440 pfam00382, TFIIB, Transcription factor TFIIB repeat Back     alignment and domain information
>gnl|CDD|109440 pfam00382, TFIIB, Transcription factor TFIIB repeat Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional Back     alignment and domain information
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein Back     alignment and domain information
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional Back     alignment and domain information
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional Back     alignment and domain information
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional Back     alignment and domain information
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein Back     alignment and domain information
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional Back     alignment and domain information
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional Back     alignment and domain information
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein Back     alignment and domain information
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 490
KOG1598521 consensus Transcription initiation factor TFIIIB, 100.0
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 100.0
PRK00423310 tfb transcription initiation factor IIB; Reviewed 100.0
KOG1597308 consensus Transcription initiation factor TFIIB [T 100.0
PF0774197 BRF1: Brf1-like TBP-binding domain; InterPro: IPR0 99.95
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 99.74
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 99.64
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.43
TIGR00569305 ccl1 cyclin ccl1. University). 99.32
KOG0835367 consensus Cyclin L [General function prediction on 99.31
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.16
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.1
KOG1597308 consensus Transcription initiation factor TFIIB [T 99.06
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 98.99
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.89
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.88
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.88
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.85
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 98.58
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 98.29
KOG1598521 consensus Transcription initiation factor TFIIIB, 98.24
KOG4557262 consensus Origin recognition complex, subunit 6 [R 97.69
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 97.44
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 97.39
KOG0653391 consensus Cyclin B and related kinase-activating p 97.22
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 97.18
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 96.95
COG5024440 Cyclin [Cell division and chromosome partitioning] 96.69
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 94.12
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 93.92
KOG0835367 consensus Cyclin L [General function prediction on 93.52
TIGR00569305 ccl1 cyclin ccl1. University). 92.93
PF1340442 HTH_AsnC-type: AsnC-type helix-turn-helix domain; 90.99
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 90.92
PF05460353 ORC6: Origin recognition complex subunit 6 (ORC6); 89.54
smart0034284 HTH_ARAC helix_turn_helix, arabinose operon contro 89.24
smart0034284 HTH_ARAC helix_turn_helix, arabinose operon contro 87.36
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 86.46
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 86.4
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 86.26
PF1341248 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 85.68
PF1338450 HTH_23: Homeodomain-like domain; PDB: 2X48_C. 85.44
PRK05657325 RNA polymerase sigma factor RpoS; Validated 84.62
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 84.45
PRK11169164 leucine-responsive transcriptional regulator; Prov 83.64
KOG4557262 consensus Origin recognition complex, subunit 6 [R 82.92
PF1373055 HTH_36: Helix-turn-helix domain 82.65
PF1393644 HTH_38: Helix-turn-helix domain; PDB: 2W48_A. 81.9
PRK00135188 scpB segregation and condensation protein B; Revie 81.48
PRK11179153 DNA-binding transcriptional regulator AsnC; Provis 81.45
PF0827955 HTH_11: HTH domain; InterPro: IPR013196 Winged hel 81.38
PRK09210367 RNA polymerase sigma factor RpoD; Validated 81.06
PF1354252 HTH_Tnp_ISL3: Helix-turn-helix domain of transposa 80.39
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=2e-66  Score=543.34  Aligned_cols=410  Identities=32%  Similarity=0.448  Sum_probs=326.4

Q ss_pred             CHHHHHhcCCCCchHHHHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHHHhcCCCcCHHHHHHHhCcCHHHHHHHHHHH
Q 011262            1 MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQL   80 (490)
Q Consensus         1 I~~ia~~L~Lp~~~~v~d~A~~iyk~A~~~~~~rGR~~~~VaAACLYiACR~~~~prtL~DIa~v~~vsv~~Lgr~yk~L   80 (490)
                      |..++.+|+|+  . +++.|++||++|.++||++||+...|+|||+|++||+++++++|+||+++++|+||.||.+|++|
T Consensus        74 i~~~~~~l~l~--~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~Vy~LG~~~l~l  150 (521)
T KOG1598|consen   74 IEELTERLNLG--N-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQVSVYDLGSNFLEV  150 (521)
T ss_pred             HHHHHHhcCcc--h-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEEehhhhhHHHHHH
Confidence            56789999999  7 99999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcccccccccccCCccchHHHHHhhhC-CCCcHHHHHHHHHHHHHhhccccccCCChhHHHHHHHHHHHHhcCCCCC
Q 011262           81 CQVLYIADESNVLKQVDPSIFLHKFTDRLL-PGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFS  159 (490)
Q Consensus        81 ~~~L~i~~~~~~~~~vdP~~~I~Rf~s~L~-~~l~~~V~~~A~~Iv~~~~~~~l~~GR~PsgIaaAALylAar~~g~~~t  159 (490)
                      ++.|.++..  +.+++||+.||+||++.|. |+.+++|+.+|.+|+++|++|||++||+|+||||||||+|||+||+++|
T Consensus       151 ~~~L~i~en--~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rs  228 (521)
T KOG1598|consen  151 TDSLSIGEN--VSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRT  228 (521)
T ss_pred             HHHhccccc--cccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCcccc
Confidence            999999842  3457999999999999997 8888999999999999999999999999999999999999999999999


Q ss_pred             HhhHHhHhccCHHHHHHHHHHHhcCCCCCCCHHHHHHhHHHhhhcccCCCCCCCCCCCCchh--------hhhhcccCCC
Q 011262          160 KSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNE--------VLCKHKDTGK  231 (490)
Q Consensus       160 ~~dIa~v~~Vse~TIrkR~kE~~~t~s~~Lt~~ef~~~~~~le~e~~~~~p~~~~~~~~~~e--------~~~~~k~~~~  231 (490)
                      +.||+.++|||+.||++||+||.+|+++.||+++|+++  |+|.+  .|||+|+....+..+        +.|.|.... 
T Consensus       229 i~dIv~vvhV~e~Tl~kRl~Ef~~T~s~~Lti~ef~~~--d~e~~--~~ppsft~~~~~~~k~~~~~k~~l~~~~~~~e-  303 (521)
T KOG1598|consen  229 IGDIAKVVHVCESTLSKRLKEFSDTLSGDLTIDELAEI--DLEYE--SDPPSFTASPSKEAKYVEDKKKMLSRTMQLVE-  303 (521)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHhccccccccHHHHHhh--hhhhc--cCcchhhcccchhhhhhhhhhhhhhhhhhhhh-
Confidence            99999999999999999999999999999999999999  99998  999999976432222        222222222 


Q ss_pred             CcccCchhhhhhhhhhcccCCCCCCCCchhHHHHHHHHHHhhhhhcchhhhccCCcccccccccCCCCCCCCCCCCCCCc
Q 011262          232 PFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTT  311 (490)
Q Consensus       232 ~~~~g~~~~~~~~~~~~~~~~~~~~~ppa~~~~e~~r~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  311 (490)
                      .+..+.|..||..+..+++|+.++..++.++..+.++-..... +     ..+.+.    ..+...+........  .  
T Consensus       304 ~~~~~~~~~~~~~~~~~~~~l~~~~q~~~~~~~~~e~~~~~~~-e-----~~~ssE----~~dk~~~g~~~~~~~--~--  369 (521)
T KOG1598|consen  304 LANETWLVTLRHSLPVITGGLFLAWQDLQPRDRLVESYDDLAS-E-----CPLSSE----DEDKPASGRLAELLA--V--  369 (521)
T ss_pred             cccchhhhccccCCcccchhhhcccccchhhhhhhhhhhhhhh-c-----Cccccc----ccCCcCccccchhhh--c--
Confidence            6778899999999999999999999999998776654100000 0     001110    000000000000000  0  


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCChHHHhhcCCCHHHHHHHHHHHhhhCHHHHHHHHHHHHHHHHHHHHH
Q 011262          312 QTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAAL  391 (490)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lsdiDD~Eid~~il~eeE~~~K~~iW~~~N~dyl~eq~~Ke~~~~~~~~~~  391 (490)
                         ..+.   ..............+....++++||.+++.++|++++.+.++.+ | +|++||.|+..+.++++++++. 
T Consensus       370 ---~sd~---~~~~~~~~~~~~~~d~~~~~~~~~~~~l~r~~l~~~a~~~a~~~-~-~n~e~l~E~~~~~~~~ak~~~~-  440 (521)
T KOG1598|consen  370 ---LSDM---AEQLASVWLRVLTLDKRSGVKHIDDLLLERQLLEESAGRDATEP-M-ENAETLVEERPGKAKAAKEREE-  440 (521)
T ss_pred             ---cccc---chhhhhcchhhhhccccccccccCHHHHHHHHhhhHHhhhcchh-h-hhHHHHHhhchhhhhhhHhhhh-
Confidence               0000   00000001112345677889999999999999999999999999 7 9999999999988766543221 


Q ss_pred             HHhhcCCCcchHHHHHHHHHHHHHHhhhhhHHHhhhhhhhcCCCCCCCHHHHHHHHHHhcCCCccCCHHHHhhhhCCCCc
Q 011262          392 EASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVC  471 (490)
Q Consensus       392 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~rk~kk~k~~~~~~~~~~a~ta~EA~~~ml~~k~~S~KINYdvl~~L~~~~~~  471 (490)
                                             ++ .+    ++++..+.++.+++.||.||++.|++.+.+|++|||++|++|||....
T Consensus       441 -----------------------g~-~~----~~~k~~~r~~s~~~~t~~eavk~~~~i~~~s~~in~~~L~~i~d~~~e  492 (521)
T KOG1598|consen  441 -----------------------GI-NS----LSKKVGERRNSPELLTAPEAVKSMKEIKPVSSVINYSVLENISDAEIE  492 (521)
T ss_pred             -----------------------cc-cc----cccccccccCCCcccccHHHHHHHHhccccccchHHHHHHHHhhhhcc
Confidence                                   11 11    123344567899999999999999999999999999999999986544

>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PF07741 BRF1: Brf1-like TBP-binding domain; InterPro: IPR011665 The Vaccinia virus has an infection-induced host cell cycle control mechanism 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
>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
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] Back     alignment and domain information
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair] Back     alignment and domain information
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair] 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
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 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
>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
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 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
>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
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B Back     alignment and domain information
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PF05460 ORC6: Origin recognition complex subunit 6 (ORC6); InterPro: IPR008721 The Origin Recognition Complex (ORC) is a six-subunit ATP-dependent DNA-binding complex encoded in yeast by ORC1-6 [] Back     alignment and domain information
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein Back     alignment and domain information
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein Back     alignment and domain information
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair] 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
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A Back     alignment and domain information
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C Back     alignment and domain information
>PRK05657 RNA polymerase sigma factor RpoS; Validated Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 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
>PRK11169 leucine-responsive transcriptional regulator; Provisional Back     alignment and domain information
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair] Back     alignment and domain information
>PF13730 HTH_36: Helix-turn-helix domain Back     alignment and domain information
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A Back     alignment and domain information
>PRK00135 scpB segregation and condensation protein B; Reviewed Back     alignment and domain information
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional Back     alignment and domain information
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets Back     alignment and domain information
>PRK09210 RNA polymerase sigma factor RpoD; Validated Back     alignment and domain information
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3 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 ?
Query490
1ais_B200 Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA- 4e-16
1d3u_B201 Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+T 4e-16
1vol_A204 Tfiib (Human Core Domain)TBP (A.THALIANA)TATA ELEME 2e-04
1c9b_A207 Crystal Structure Of A Human Tbp Core Domain-Human 2e-04
2phg_A206 Model For Vp16 Binding To Tfiib Length = 206 2e-04
1tfb_A208 Nmr Studies Of Human General Transcription Factor T 2e-04
>pdb|1AIS|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box Complex From Pyrococcus Woesei Length = 200 Back     alignment and structure 
Iteration: 1

 Score = 82.8 bits (203), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 51/165 (30%), Positives = 87/165 (52%), Gaps = 11/165 (6%)
Query: 20  AKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQ 79
           A R Y  AV +   +GR  E V A+C+Y ACR    P  L + ++   ++  E+G  Y  
Sbjct: 33  AARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLDEIADIARVDKKEIGRSYR- 91
Query: 80  LCQVLYIADESNVLKQ---VDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTG 136
                +IA   N+  +   V P+ +++KF D L  G ++KV   A +IL    +  +T+G
Sbjct: 92  -----FIARNLNLTPKKLFVKPTDYVNKFADEL--GLSEKVRRRAIEILDEAYKRGLTSG 144
Query: 137 RKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEF 181
           + P+GL  AALY+++L  G K ++ ++ ++  + E T+  R  E 
Sbjct: 145 KSPAGLVAAALYIASLLEGEKRTQREVAEVARVTEVTVRNRYKEL 189
>pdb|1D3U|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA- Box Complex From Pyrococcus Woesei Length = 201 Back     alignment and structure
>pdb|1VOL|A Chain A, Tfiib (Human Core Domain)TBP (A.THALIANA)TATA ELEMENT Ternary Complex Length = 204 Back     alignment and structure
>pdb|1C9B|A Chain A, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib Core Domain Complex Bound To An Extended, Modified Adenoviral Major Late Promoter (Admlp) Length = 207 Back     alignment and structure
>pdb|2PHG|A Chain A, Model For Vp16 Binding To Tfiib Length = 206 Back     alignment and structure
>pdb|1TFB|A Chain A, Nmr Studies Of Human General Transcription Factor Tfiib: Dynamics And Interaction With Vp16 Activation Domain, 20 Structures Length = 208 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 ?
Query490
1ais_B200 TFB TFIIB, protein (transcription initiation facto 3e-44
1c9b_A207 General transcription factor IIB; protein-DNA comp 2e-38
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 4e-28
1ngm_B72 Transcription factor IIIB BRF1 subunit; TFIIIB, TB 5e-15
3lvg_D190 LCB, clathrin light chain B; SELF assembly, coated 8e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
>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* Length = 200 Back     alignment and structure
 Score =  153 bits (388), Expect = 3e-44
 Identities = 51/191 (26%), Positives = 94/191 (49%), Gaps = 7/191 (3%)

Query: 1   MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLI 60
           + ++   L +     +   A R Y  AV +   +GR  E V A+C+Y ACR    P  L 
Sbjct: 16  LDRITAQLKL--PRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLD 73

Query: 61  DFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDT 120
           + ++   ++  E+G  Y  + + L +  +      V P+ +++KF D L  G ++KV   
Sbjct: 74  EIADIARVDKKEIGRSYRFIARNLNLTPKKLF---VKPTDYVNKFADEL--GLSEKVRRR 128

Query: 121 ARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIE 180
           A +IL    +  +T+G+ P+GL  AALY+++L  G K ++ ++ ++  + E T+  R  E
Sbjct: 129 AIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVAEVARVTEVTVRNRYKE 188

Query: 181 FENTDSGSLTI 191
                   + I
Sbjct: 189 LVEKLKIKVPI 199
>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* Length = 207 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} Length = 345 Back     alignment and structure
>1ngm_B Transcription factor IIIB BRF1 subunit; TFIIIB, TBP, TAF, protein-DNA complex, transcription/DNA complex; 2.95A {Saccharomyces cerevisiae} SCOP: j.104.1.1 Length = 72 Back     alignment and structure
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 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 ?
Query490
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 100.0
1ais_B200 TFB TFIIB, protein (transcription initiation facto 100.0
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 100.0
1c9b_A207 General transcription factor IIB; protein-DNA comp 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.9
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 99.84
2ivx_A257 Cyclin-T2; transcription regulation, cell division 99.82
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.8
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 99.8
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 99.77
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.75
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 99.75
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.71
1ngm_B72 Transcription factor IIIB BRF1 subunit; TFIIIB, TB 99.71
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 99.69
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 99.69
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.63
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 99.57
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.45
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.22
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 98.96
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 98.91
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 98.71
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 97.59
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 96.96
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 96.89
2ivx_A257 Cyclin-T2; transcription regulation, cell division 96.86
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 96.85
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 96.66
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 96.64
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 96.49
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 96.46
3m03_A95 ORC6, origin recognition complex subunit 6; helix 96.12
3h4c_A260 Transcription factor TFIIB-like; cyclin, transcrip 96.06
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 95.93
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 95.85
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 95.0
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 94.96
2qdj_A304 Retinoblastoma-associated protein; cyclin fold, cy 94.84
4ell_A411 Retinoblastoma-associated protein; cyclin fold, tu 94.18
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 93.74
4elj_A656 Retinoblastoma-associated protein; cyclin fold, tu 92.76
3m03_A95 ORC6, origin recognition complex subunit 6; helix 91.15
4elj_A 656 Retinoblastoma-associated protein; cyclin fold, tu 89.23
1tc3_C51 Protein (TC3 transposase); DNA binding, helix-turn 88.13
3mn2_A108 Probable ARAC family transcriptional regulator; st 87.44
2jt1_A77 PEFI protein; solution structure, winged helix-tur 86.91
2qdj_A304 Retinoblastoma-associated protein; cyclin fold, cy 86.65
3oou_A108 LIN2118 protein; protein structure initiative, PSI 84.35
2x48_A55 CAG38821; archeal virus, viral protein; 2.60A {Sul 81.25
2lnb_A80 Z-DNA-binding protein 1; structural genomics, nort 80.15
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
Probab=100.00  E-value=1.6e-42  Score=356.73  Aligned_cols=189  Identities=14%  Similarity=0.227  Sum_probs=80.9

Q ss_pred             CHHHHHhcCCCCchHHHHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHHHhcCCCcCHHHHHHHhCcCHHHHHHHHHHH
Q 011262            1 MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQL   80 (490)
Q Consensus         1 I~~ia~~L~Lp~~~~v~d~A~~iyk~A~~~~~~rGR~~~~VaAACLYiACR~~~~prtL~DIa~v~~vsv~~Lgr~yk~L   80 (490)
                      |++||++|+||  ++|+++|..||++++++++++||+.++|+|||||+|||++++||||+||+++++|++++||++|+.|
T Consensus       133 I~~~~~~L~Lp--~~v~d~A~~lyk~a~~~~~~rGrs~e~vaAAclYiACR~~~~prtl~eI~~~~~v~~keigr~~k~l  210 (345)
T 4bbr_M          133 ITMLCDAAELP--KIVKDCAKEAYKLCHDEKTLKGKSMESIMAASILIGCRRAEVARTFKEIQSLIHVKTKEFGKTLNIM  210 (345)
T ss_dssp             HHHHHHHTTCC--HHHHHHHHHHHHHHTTCTTTTTCCHHHHHHHHHHHHHHHTCCBCCHHHHHHHHTCCTTHHHHHHHHH
T ss_pred             HHHHHHHcCCC--HHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHhcCCCccHHHHHHHhCCCHHHHHHHHHHH
Confidence            67899999999  9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhccccccc-------ccccCCccchHHHHHhhhCCCCcHHHHHHHHHHHHHhhccccccCCChhHHHHHHHHHHHHh
Q 011262           81 CQVLYIADESN-------VLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALT  153 (490)
Q Consensus        81 ~~~L~i~~~~~-------~~~~vdP~~~I~Rf~s~L~~~l~~~V~~~A~~Iv~~~~~~~l~~GR~PsgIaaAALylAar~  153 (490)
                      .+.|++...+.       ....++|+.||+|||++|+  ++++|.+.|.+|+++|.++|+++||+|.|||||||||||++
T Consensus       211 ~~~L~l~~~~~~~~~~~~~~~~~~p~~~i~Rf~s~L~--l~~~v~~~A~~i~~~~~~~~i~~GR~P~~IAAAaIylAa~l  288 (345)
T 4bbr_M          211 KNILRGKSEDGFLKIDTDNMSGAQNLTYIPRFCSHLG--LPMQVTTSAEYTAKKCKEIKEIAGKSPITIAVVSIYLNILL  288 (345)
T ss_dssp             HHCC----------------------------------------------------------------------------
T ss_pred             HHHhCccccccccccccccCCCCCHHHHHHHHHHHcC--CcHHHHHHHHHHHHHHHhcccccCCChHHHHHHHHHHHHHH
Confidence            99999752110       0224899999999999999  78999999999999999999999999999999999999999


Q ss_pred             cCCCCCHhhHHhHhccCHHHHHHHHHHHhcCCCCCCCHHHH
Q 011262          154 HGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDF  194 (490)
Q Consensus       154 ~g~~~t~~dIa~v~~Vse~TIrkR~kE~~~t~s~~Lt~~ef  194 (490)
                      +|+++|+++|++++|||++|||+||+||.+.. ..|.+.+|
T Consensus       289 ~g~~~t~~eIa~v~~Vse~TIr~rykel~~~~-~~l~~~~~  328 (345)
T 4bbr_M          289 FQIPITAAKVGQTLQVTEGTIKSGYKILYEHR-DKLVDPQL  328 (345)
T ss_dssp             -----------------------------------------
T ss_pred             hCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHH-HhhcCHHH
Confidence            99999999999999999999999999998765 55555555
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... 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
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A 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
>1ngm_B Transcription factor IIIB BRF1 subunit; TFIIIB, TBP, TAF, protein-DNA complex, transcription/DNA complex; 2.95A {Saccharomyces cerevisiae} SCOP: j.104.1.1 Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {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
>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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* 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
>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
>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
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_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
>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
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Back     alignment and structure
>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
>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
>4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens} Back     alignment and structure
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2 Back     alignment and structure
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris} Back     alignment and structure
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2} Back     alignment and structure
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens} Back     alignment and structure
>3oou_A LIN2118 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; HET: BTB; 1.57A {Listeria innocua} Back     alignment and structure
>2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} Back     alignment and structure
>2lnb_A Z-DNA-binding protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, immune system; NMR {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 490
d1aisb295 a.74.1.2 (B:1206-1300) Transcription factor IIB (T 2e-17
d1aisb295 a.74.1.2 (B:1206-1300) Transcription factor IIB (T 3e-13
d1vola2109 a.74.1.2 (A:208-316) Transcription factor IIB (TFI 4e-15
d1vola2109 a.74.1.2 (A:208-316) Transcription factor IIB (TFI 3e-11
d1aisb198 a.74.1.2 (B:1108-1205) Transcription factor IIB (T 2e-13
d1aisb198 a.74.1.2 (B:1108-1205) Transcription factor IIB (T 7e-10
d1vola195 a.74.1.2 (A:113-207) Transcription factor IIB (TFI 8e-12
d1vola195 a.74.1.2 (A:113-207) Transcription factor IIB (TFI 1e-07
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 95 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Transcription factor IIB (TFIIB), core domain
domain: Transcription factor IIB (TFIIB), core domain
species: Archaeon Pyrococcus woesei [TaxId: 2262]

 Score = 75.2 bits (185), Expect = 2e-17
 Identities = 28/89 (31%), Positives = 51/89 (57%), Gaps = 2/89 (2%)

Query: 96  VDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHG 155
           V P+ +++KF D L  G ++KV   A +IL    +  +T+G+ P+GL  AALY+++L  G
Sbjct: 1   VKPTDYVNKFADEL--GLSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEG 58

Query: 156 LKFSKSDIVKIVHICEATLMKRLIEFENT 184
            K ++ ++ ++  + E T+  R  E    
Sbjct: 59  EKRTQREVAEVARVTEVTVRNRYKELVEK 87
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 95 Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 109 Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 109 Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 98 Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 98 Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 95 Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 95 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 ?
Query490
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 99.83
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 99.81
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 99.81
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 99.8
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 99.79
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 99.78
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 99.63
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 99.61
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.12
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.11
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 97.93
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 97.31
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 97.03
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 96.91
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 96.87
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.63
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 96.59
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 96.58
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 96.54
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 96.46
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 96.27
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 95.53
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 95.45
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 94.25
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 90.86
d2cfxa163 Transcriptional regulator LrpC {Bacillus subtilis 89.35
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 89.11
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 88.96
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 88.46
d1i1ga160 LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} 88.12
d2cyya160 Putative transcriptional regulator PH1519 {Archaeo 86.85
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 86.3
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 84.94
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 84.79
d2cg4a163 Regulatory protein AsnC {Escherichia coli [TaxId: 84.49
d1biaa163 Biotin repressor, N-terminal domain {Escherichia c 84.22
d1bl0a154 MarA {Escherichia coli [TaxId: 562]} 81.52
d2hsga157 Glucose-resistance amylase regulator CcpA, N-termi 81.36
d3e5ua180 Chlorophenol reduction protein CprK {Desulfitobact 80.14
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Transcription factor IIB (TFIIB), core domain
domain: Transcription factor IIB (TFIIB), core domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.2e-20  Score=157.23  Aligned_cols=86  Identities=22%  Similarity=0.431  Sum_probs=83.5

Q ss_pred             CHHHHHhcCCCCchHHHHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHHHhcCCCcCHHHHHHHhCcCHHHHHHHHHHH
Q 011262            1 MRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQL   80 (490)
Q Consensus         1 I~~ia~~L~Lp~~~~v~d~A~~iyk~A~~~~~~rGR~~~~VaAACLYiACR~~~~prtL~DIa~v~~vsv~~Lgr~yk~L   80 (490)
                      |+++|+.||||  +.++++|..+|+.+.+.++++||++.+++|||||+|||++++|+|++||++++++++++|+++|+.|
T Consensus         9 I~~~~~~L~L~--~~i~~~A~~i~~~~~~~~~~~Gr~~~~i~AA~iY~acr~~~~p~t~~eIa~~~~i~~~~i~k~~k~i   86 (95)
T d1vola1           9 ITTMADRINLP--RNKVDRTNNLFRQAYEQKSLKGRANDAIASACLYIACRQEGVPRTFKEICAVSRISKKEIGRCFKLI   86 (95)
T ss_dssp             HHHHHHHTTCC--HHHHHHHHHHHHHHHHTCCCTTSCHHHHHHHHHHHHHHHTTCCCCHHHHHTTTCSCHHHHHHHHHHH
T ss_pred             HHHHHHHcCcC--HHHHHHHHHHHHHHHHhhhhcCCChHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHH
Confidence            57899999999  9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcccc
Q 011262           81 CQVLYIAD   88 (490)
Q Consensus        81 ~~~L~i~~   88 (490)
                      .+.|+++.
T Consensus        87 ~~~L~~~v   94 (95)
T d1vola1          87 LKALETSV   94 (95)
T ss_dssp             HHHTTCCC
T ss_pred             HHHHCCcC
Confidence            99998753
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} 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
>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
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {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
>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
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 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
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} 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
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1biaa1 a.4.5.1 (A:1-63) Biotin repressor, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1bl0a1 a.4.1.8 (A:9-62) MarA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2hsga1 a.35.1.5 (A:2-58) Glucose-resistance amylase regulator CcpA, N-terminal domain {Bacillus megaterium [TaxId: 1404]} Back     information, alignment and structure
>d3e5ua1 a.4.5.4 (A:148-227) Chlorophenol reduction protein CprK {Desulfitobacterium hafniense [TaxId: 49338]} Back     information, alignment and structure