Citrus Sinensis ID: 008401

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-------500-------510-------520-------530-------540-------550-------560-------
MVWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQSEYGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTTQTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
ccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccccccHHHHHHHccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccccccccccccccccHHHHHHHHccccccccccHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccccHHHHHHHHccccccccccEEEEcccccccccc
cccccccccccEEEccccccEEEccccEEEEcccEEEEEEEEEccccccEEEEcEEccccccccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHcccHHHccHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHcHHHHHccccHHHHcccccccccHcccHcccccccccccccccccccccccccccccccccccccccHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHcHccccccHHHHccccccccHHHHHHHHHHHccccHHHcHHHHHHHccccEEEEEEEEEEEcccccccccc
mvwcsscarhvtghrpydsqlccdrcgkvledhnfsteatfvknaagqsqlsgNFVRTIQSEYGASRERLMEKAFDDMRQMKNAlnigesdeIVHVAKRFYGIAVARnftkgrrtEQVQASCLYLACrqkskpfllidfsnylniNVYELGAVYLQLCQVLYIadesnvlkqvdpsiflhkftdrllpggnkkvCDTARDILASMKRdwittgrkpsglcGAALYVSALThglkfsksDIVKIVHICEATLMKRLIEFentdsgsltIEDFMARKKELHEGvaanlpnngpkvsgmnevlckhkdtgkpfacglcrSCYEEFMTIsegleggadppafQVAERERMVKASAeenssferesdspfmsrvdkvqspepesigvpkncttqtasnegegdhtktpgvdatteasdgsdnfsdiddfevdgylhneeeKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISIClydldfscftps
mvwcsscarhvtghrpydsqLCCDRCGKVLEDHNFSTEATFVKnaagqsqlsgnfVRTIQSEYGASRERLMEKAFDDMRQMKNALnigesdeivHVAKRFYGIAVarnftkgrrTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHkftdrllpggnkkVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHglkfsksdIVKIVHICEATLMKRLIEfentdsgslTIEDFMARKKELHEGvaanlpnngpkVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASaeenssferesdspfmsrVDKVQspepesigvpkncttqtasnegegdhtktpgVDATteasdgsdnfsdiDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRaaeaknsgpaqtaleATRRMLtkkrlsskinYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
MVWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQSEYGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTTQTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYleeqaakeaaaaaakaaleaSYKNCPEGlqaaqelaaaaaaavaKSrkekqqkraaeakNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
*VWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAG***LSGNFVRTI************************ALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMA**********************MNEVLCKHKDTGKPFACGLCRSCYEEFMTISEG*********************************************************************************************DDFEVDGYLHNEEEKHYKKIIWEEMNREYL*******************************************************************************SSKINYDVLEKLFDDSVCLYSISICLYDLDFSCF***
MVWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEAT*********************************AFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTD*L******KVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKK**********************************************************************************************************************************ATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQA*************************************************************************RLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTP*
MVWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQSEYGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERE************************************GVPKNCTTQ**************GVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEE***************EASYKNCPEGLQAAQ********************************TALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
*VWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQ**YGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHE******PNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTI*********************VKASAEE**S************************************************************NFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAA****************************************************QT*LEA*RRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTP*
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MVWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQSEYGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTTQTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQELAAAAAxxxxxxxxxxxxxxxxxxxxxGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVCLYSISICLYDLDFSCFTPS
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 ?
Query567 2.2.26 [Sep-21-2011]
Q8CFK2 676 Transcription factor IIIB yes no 0.843 0.707 0.305 5e-57
Q92994 677 Transcription factor IIIB yes no 0.841 0.704 0.302 2e-54
P29056596 Transcription factor IIIB yes no 0.455 0.432 0.350 3e-42
P46070556 Transcription factor IIIB yes no 0.453 0.462 0.357 3e-42
Q9P6R0492 Transcription factor IIIB yes no 0.777 0.896 0.263 1e-41
P43072553 Transcription factor IIIB N/A no 0.846 0.867 0.259 2e-40
P61999300 Transcription initiation N/A no 0.388 0.733 0.280 2e-16
P61998300 Transcription initiation yes no 0.388 0.733 0.280 2e-16
O59151300 Transcription initiation yes no 0.432 0.816 0.262 2e-16
Q9V0V5300 Transcription initiation yes no 0.432 0.816 0.259 7e-16
>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 =  222 bits (566), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 172/563 (30%), Positives = 264/563 (46%), Gaps = 85/563 (15%)

Query: 23  CDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVR--------TIQSEYGA-----SRER 69
           C  CG VLED+   +E  FV+N+ G S   G FV         T+   +       SR +
Sbjct: 25  CTGCGSVLEDNIIVSEVQFVENSGGGSSAVGQFVSLDGAGKTPTLGGGFHVNLGKESRAQ 84

Query: 70  LMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQ 129
            ++     +  + + L + +    +  A  F+ +AV+++ T+GR+   V A+CLYL CR 
Sbjct: 85  TLQNGRRHIHHLGSQLQLNQ--HCLDTAFNFFKMAVSKHLTRGRKMAHVIAACLYLVCRT 142

Query: 130 KSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDRLLPG 189
           +  P +L+D S+ L +NVY LG  +L L + L I   +     +DP +++ +F   L  G
Sbjct: 143 EGTPHMLLDLSDLLQVNVYVLGKTFLLLARELCINAPA-----IDPCLYIPRFAHLLEFG 197

Query: 190 -GNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICE 248
             N +V  TA  +L  MKRDW+ TGR+PSGLCGAAL V+A  H  + +  +++ +V +CE
Sbjct: 198 EKNHEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCE 257

Query: 249 ATLMKRLIEFENTDSGSLTIEDFMA-------------------RKKELHEGVAANLPNN 289
           +TL KRL EFE+T +  LTI++FM                    R K+L + ++  L   
Sbjct: 258 STLRKRLTEFEDTPTSQLTIDEFMKIDLEEECDPPSYTAGQRKLRMKQLEQVLSKKLEEV 317

Query: 290 GPKVSGMNEVLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKA 349
             ++S   + +    +  +P A G   +  ++      G +  + P   +  E E +  A
Sbjct: 318 EGEISSYQDAIEIELENSRPKAKGALANLSKD----GSGEDATSSPRCEEDTEDEELEAA 373

Query: 350 SAEENSSFERE---SDSPFMSRVDKVQSPEP---ESIGVPKNCTTQTASNEGEGDHTK-- 401
           ++  N  F RE    D    +  D      P   ES+  P      TA++ G  D  +  
Sbjct: 374 ASHMNKDFYRELLGDDDGSEAAGDPDGGSRPLALESLLGP----LPTAASLGISDSIREC 429

Query: 402 --TPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEA 459
             +P  D    + DG  + S IDD E+D Y+ NE E   K  +W   N EYL EQ  KEA
Sbjct: 430 ISSPSGDPKDSSGDGELDLSGIDDLEIDRYILNESEARVKAELWMRENAEYLREQKEKEA 489

Query: 460 AAAAAKAALEASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALE 519
             A  K                  EL            KE + K++ + +    A TA E
Sbjct: 490 RIAKEK------------------ELGIY---------KEHKPKKSCKRREPILASTAGE 522

Query: 520 ATRRMLTKKRLSSKINYDVLEKL 542
           A  +ML +K++SSKINY VL  L
Sbjct: 523 AIEKMLEQKKISSKINYSVLRDL 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|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|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|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|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|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|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|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 ?
Query567
449436026643 PREDICTED: transcription factor IIIB 60 0.947 0.835 0.570 1e-168
449485890663 PREDICTED: transcription factor IIIB 60 0.947 0.809 0.572 1e-168
296085890622 unnamed protein product [Vitis vinifera] 0.955 0.871 0.610 1e-168
255569418625 transcription initiation factor brf1, pu 0.943 0.856 0.583 1e-156
297829466600 RNA polymerase II transcription factor [ 0.908 0.858 0.561 1e-154
145338292604 Cyclin/Brf1-like TBP-binding protein [Ar 0.920 0.864 0.558 1e-154
6478939600 putative transcription factor [Arabidops 0.913 0.863 0.552 1e-153
297829468 1245 hypothetical protein ARALYDRAFT_317739 [ 0.927 0.422 0.540 1e-150
224106357541 predicted protein [Populus trichocarpa] 0.851 0.892 0.561 1e-148
359481012529 PREDICTED: transcription factor IIIB 90 0.869 0.931 0.583 1e-142
>gi|449436026|ref|XP_004135795.1| PREDICTED: transcription factor IIIB 60 kDa subunit-like [Cucumis sativus] Back     alignment and taxonomy information
 Score =  598 bits (1543), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 343/601 (57%), Positives = 420/601 (69%), Gaps = 64/601 (10%)

Query: 1   MVWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQ 60
           MVWCS+C ++V G R     L CD CGKVL+ +NFS E TF K++ GQSQLSGNFVR+IQ
Sbjct: 1   MVWCSNCVKNVAGSRDEAGFLYCDMCGKVLDSYNFSQEPTFTKDSGGQSQLSGNFVRSIQ 60

Query: 61  SEYGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQA 120
           S Y ASRER + KAF+DMR M+N LN+GESDEI+ VA  FY IA+ RNFT+GR  E VQA
Sbjct: 61  SNYSASRERTLNKAFEDMRYMRNGLNMGESDEIIRVAGAFYRIALERNFTRGRNAEFVQA 120

Query: 121 SCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLH 180
           +CLY+ACR+K+KP+LLIDFSNYL INVY LGAV+LQLC+VL + +   V K VDPS+F+ 
Sbjct: 121 ACLYIACREKNKPYLLIDFSNYLRINVYVLGAVFLQLCKVLRLEEHPIVQKPVDPSLFID 180

Query: 181 KFTDRLLPGGN-----KKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKF 235
           KFT  LL G       K+V  TA  I+ SMKRDW+ TGRKPSGLCGAALY+SAL++G+K 
Sbjct: 181 KFTQCLLGGTKDDGMKKEVSKTALKIITSMKRDWMQTGRKPSGLCGAALYISALSNGVKC 240

Query: 236 SKSDIVKIVHICEATLMKRLIEFENTDSGSLT---------------------------- 267
           +KSDI+KIVHIC+ATL KRLIEFENT+SGSLT                            
Sbjct: 241 TKSDIIKIVHICDATLTKRLIEFENTESGSLTNTCLLILVQALQHIDLLEYLPSGHADIS 300

Query: 268 ----IEDFMARKKELHEGVAANLPNNGPKVSGMNEVLCKHKDT-GKPFACGLCRSCYEEF 322
               +E+F+    +L     +N   N    +  +EVLC HK+   KP+A GLCRSCY++F
Sbjct: 301 EKMNMEEFIVMADKLK---GSNSYTNNGSSALSDEVLCVHKNECQKPYALGLCRSCYDDF 357

Query: 323 MTISEGLEGGADPPAFQVAERERMVKASAEENS-----------------SFERESDSPF 365
           + +S GL+GG++PPAFQ AE+ERM KA+ EE S                 + E+ESD+  
Sbjct: 358 VELSGGLDGGSNPPAFQSAEKERMEKATVEEGSDDCSAIGKFSQGLKPCNNTEKESDNVH 417

Query: 366 MSRVDKVQSPEPESIGVPKNCTTQTASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFE 425
           +   +     E E+ G      T       + D  K    D  T ASD S+N+SDIDD E
Sbjct: 418 VDASETASFKEAEAKG------TADEQRGPDDDVNKVGADDLGTCASDDSENWSDIDDVE 471

Query: 426 VDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALEASYKNCPEGLQAAQEL 485
           VDGYLHNEEEKHYKKIIWEEMNREYLEEQAAK+AAAAAAK A EA+++NC E L+AA++L
Sbjct: 472 VDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKDAAAAAAKKAYEANFQNCSEDLKAAKDL 531

Query: 486 AAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDD 545
           A AAAAAVAKSRKE+Q+KRAAEAKN+ PAQTA EATR+ML KKRLSSKINYDVL+KLFD+
Sbjct: 532 AEAAAAAVAKSRKERQRKRAAEAKNATPAQTAAEATRQMLNKKRLSSKINYDVLDKLFDE 591

Query: 546 S 546
           S
Sbjct: 592 S 592

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449485890|ref|XP_004157302.1| PREDICTED: transcription factor IIIB 60 kDa subunit-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|296085890|emb|CBI31214.3| unnamed protein product [Vitis vinifera] 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|224106357|ref|XP_002314140.1| predicted protein [Populus trichocarpa] gi|222850548|gb|EEE88095.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|359481012|ref|XP_002269372.2| PREDICTED: transcription factor IIIB 90 kDa subunit-like [Vitis vinifera] 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 ?
Query567
TAIR|locus:2055600557 AT2G45100 [Arabidopsis thalian 0.647 0.658 0.554 5.1e-116
TAIR|locus:2083579604 AT3G09360 [Arabidopsis thalian 0.708 0.665 0.519 2.1e-107
MGI|MGI:1919558 676 Brf1 "BRF1 homolog, subunit of 0.437 0.366 0.369 1e-56
UNIPROTKB|F1NQ85593 BRF1 "Uncharacterized protein" 0.428 0.409 0.375 4.4e-56
UNIPROTKB|Q92994 677 BRF1 "Transcription factor III 0.437 0.366 0.373 1.6e-55
SGD|S000003478596 BRF1 "TFIIIB B-related factor" 0.455 0.432 0.350 1.4e-53
POMBASE|SPBC13E7.10c492 brf1 "transcription factor TFI 0.463 0.534 0.336 1.8e-53
ZFIN|ZDB-GENE-030131-6248 693 brf1b "BRF1 homolog, subunit o 0.463 0.379 0.365 1.4e-52
ZFIN|ZDB-GENE-030131-6334661 brf1a "BRF1 homolog, subunit o 0.721 0.618 0.315 1.4e-52
UNIPROTKB|F1PRK4 616 BRF1 "Uncharacterized protein" 0.380 0.350 0.378 1.3e-50
TAIR|locus:2055600 AT2G45100 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1033 (368.7 bits), Expect = 5.1e-116, Sum P(3) = 5.1e-116
 Identities = 209/377 (55%), Positives = 269/377 (71%)

Query:     1 MVWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQ 60
             MVWC  C ++V G RPYD+ L CD CG++LE+ NFSTE TFVKNAAGQSQ SGN ++++Q
Sbjct:     1 MVWCKHCGKNVPGIRPYDAALSCDLCGRILENFNFSTEVTFVKNAAGQSQASGNILKSVQ 60

Query:    61 SEYGASRERLMEKAFDDMRQMKNALNIGES-DEIVHVAKRFYGIAVARNFTKGRRTEQVQ 119
             S   +SRER++ KA D++  +++AL IG+  D+++ +A  F+ IA+  NFTKGR  E V 
Sbjct:    61 SGMSSSRERIIRKATDELMNLRDALGIGDDRDDVIVMASNFFRIALDHNFTKGRSKELVF 120

Query:   120 ASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFL 179
             +SCLYL CRQ     LLIDFS+YL ++VY+LG+VYLQLC +LYI +  N  K VDPSIF+
Sbjct:   121 SSCLYLTCRQFKLAVLLIDFSSYLRVSVYDLGSVYLQLCDMLYITENHNYEKLVDPSIFI 180

Query:   180 HKFTDRLLPGG-NKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKS 238
              +F++ LL G  N K+  TA  I+ASMKRDW+ TGRKPSG+CGAALY +AL+HG+K SK+
Sbjct:   181 PRFSNMLLKGAHNNKLVLTATHIIASMKRDWMQTGRKPSGICGAALYTAALSHGIKCSKT 240

Query:   239 DIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGMNE 298
             DIV IVHICEATL KRLIEF +T++ SLT ++    K E  +  AA      P       
Sbjct:   241 DIVNIVHICEATLTKRLIEFGDTEAASLTADELS--KTEREKETAALRSKRKPNFYKEGV 298

Query:   299 VLCKHKDTGKPFACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMV-KASAEENS-- 355
             VLC H+D  KP   GLC SCY+EFMT+S GLEGG+DPPAFQ AE+ERM  KAS+EEN   
Sbjct:   299 VLCMHQDC-KPVDYGLCESCYDEFMTVSGGLEGGSDPPAFQRAEKERMEEKASSEENDKQ 357

Query:   356 -SFERESD-SPFMSRVD 370
              + +  SD S  +S VD
Sbjct:   358 VNLDGHSDESSTLSDVD 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|F1NQ85 BRF1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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
SGD|S000003478 BRF1 "TFIIIB B-related factor" [Saccharomyces cerevisiae (taxid:4932)] 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
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
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
UNIPROTKB|F1PRK4 BRF1 "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

Your Input:
fgenesh1_pm.C_scaffold_3000755
annotation not avaliable (600 aa)
(Arabidopsis lyrata)
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 ?
Query567
COG1405285 COG1405, SUA7, Transcription initiation factor TFI 2e-33
pfam0774195 pfam07741, BRF1, Brf1-like TBP-binding domain 4e-26
PRK00423310 PRK00423, tfb, transcription initiation factor IIB 5e-16
pfam0038271 pfam00382, TFIIB, Transcription factor TFIIB repea 1e-07
pfam0038271 pfam00382, TFIIB, Transcription factor TFIIB repea 2e-06
cd0004388 cd00043, CYCLIN, Cyclin box fold 5e-06
cd0004388 cd00043, CYCLIN, Cyclin box fold 2e-05
PRK09510387 PRK09510, tolA, cell envelope integrity inner memb 2e-05
TIGR02794346 TIGR02794, tolA_full, TolA protein 4e-05
PRK09510 387 PRK09510, tolA, cell envelope integrity inner memb 2e-04
PRK09510 387 PRK09510, tolA, cell envelope integrity inner memb 3e-04
TIGR02794 346 TIGR02794, tolA_full, TolA protein 5e-04
PRK09510 387 PRK09510, tolA, cell envelope integrity inner memb 8e-04
TIGR02794 346 TIGR02794, tolA_full, TolA protein 8e-04
PRK09510387 PRK09510, tolA, cell envelope integrity inner memb 0.001
COG3064 387 COG3064, TolA, Membrane protein involved in colici 0.001
PRK09510387 PRK09510, tolA, cell envelope integrity inner memb 0.002
COG3064 387 COG3064, TolA, Membrane protein involved in colici 0.004
>gnl|CDD|224323 COG1405, SUA7, Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information 
 Score =  128 bits (324), Expect = 2e-33
 Identities = 57/196 (29%), Positives = 103/196 (52%), Gaps = 11/196 (5%)

Query: 63  YGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASC 122
             +++ER +  A +++ ++ +AL + ES  +   A R Y  AV +   +GR  E V A+C
Sbjct: 89  VSSAKERNLITALEELERIASALGLPES--VRETAARIYRKAVDKGLLRGRSIESVAAAC 146

Query: 123 LYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKF 182
           +Y ACR    P  L + +  L ++  E+G  Y  L + L +      +  VDPS ++ +F
Sbjct: 147 IYAACRINGVPRTLDEIAKALGVSKKEIGRTYRLLVRELKLK-----IPPVDPSDYIPRF 201

Query: 183 TDRL-LPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIV 241
             +L L     +V   A +I+   KR  +T G+ P+GL  AA+Y+++L  G + ++ ++ 
Sbjct: 202 ASKLGLSD---EVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVA 258

Query: 242 KIVHICEATLMKRLIE 257
           K+  + E T+  R  E
Sbjct: 259 KVAGVTEVTIRNRYKE 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|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|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|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane] 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|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 567
KOG1598521 consensus Transcription initiation factor TFIIIB, 100.0
PRK00423310 tfb transcription initiation factor IIB; Reviewed 100.0
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 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 99.69
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 99.6
TIGR00569305 ccl1 cyclin ccl1. University). 99.4
KOG0835367 consensus Cyclin L [General function prediction on 99.38
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.34
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 99.26
PF0827143 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013 99.22
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.07
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.02
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.85
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.85
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.78
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 98.77
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.75
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.74
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 98.52
KOG1598521 consensus Transcription initiation factor TFIIIB, 98.25
KOG4557262 consensus Origin recognition complex, subunit 6 [R 97.67
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 97.62
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 97.59
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 97.33
KOG0653391 consensus Cyclin B and related kinase-activating p 97.31
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 96.95
COG5024440 Cyclin [Cell division and chromosome partitioning] 96.61
PF1178136 RRN7: RNA polymerase I-specific transcription init 96.17
KOG0835367 consensus Cyclin L [General function prediction on 95.94
PF09862113 DUF2089: Protein of unknown function (DUF2089); In 95.33
PRK0041559 rps27e 30S ribosomal protein S27e; Reviewed 95.06
COG205167 RPS27A Ribosomal protein S27E [Translation, riboso 94.97
PF0166755 Ribosomal_S27e: Ribosomal protein S27; InterPro: I 94.93
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 94.38
PF1324826 zf-ribbon_3: zinc-ribbon domain 94.33
PLN0020986 ribosomal protein S27; Provisional 94.27
PTZ0008385 40S ribosomal protein S27; Provisional 94.16
PF1324023 zinc_ribbon_2: zinc-ribbon domain 93.99
TIGR0120654 lysW lysine biosynthesis protein LysW. This very s 93.8
PHA0062659 hypothetical protein 93.63
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 93.48
PRK00420112 hypothetical protein; Validated 93.48
PF0215035 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; I 93.26
PF0879233 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: I 93.26
PF1480334 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C. 93.01
TIGR0209838 MJ0042_CXXC MJ0042 family finger-like domain. This 92.86
TIGR00569305 ccl1 cyclin ccl1. University). 92.61
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 92.32
COG1645131 Uncharacterized Zn-finger containing protein [Gene 92.0
PF0827430 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR01 91.98
PF0396668 Trm112p: Trm112p-like protein; InterPro: IPR005651 91.34
PF1340442 HTH_AsnC-type: AsnC-type helix-turn-helix domain; 90.89
smart0034284 HTH_ARAC helix_turn_helix, arabinose operon contro 90.63
COG199789 RPL43A Ribosomal protein L37AE/L43A [Translation, 90.46
PRK0043250 30S ribosomal protein S27ae; Validated 90.42
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 89.41
PRK05657325 RNA polymerase sigma factor RpoS; Validated 89.33
smart0077837 Prim_Zn_Ribbon Zinc-binding domain of primase-heli 89.1
smart0066152 RPOL9 RNA polymerase subunit 9. 89.05
TIGR02393238 RpoD_Cterm RNA polymerase sigma factor RpoD, C-ter 88.87
PF1435461 Lar_restr_allev: Restriction alleviation protein L 88.86
PRK0039846 rpoP DNA-directed RNA polymerase subunit P; Provis 88.83
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 88.62
PRK00464154 nrdR transcriptional regulator NrdR; Validated 88.46
PF1371937 zinc_ribbon_5: zinc-ribbon domain 88.21
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 87.99
PF05460353 ORC6: Origin recognition complex subunit 6 (ORC6); 87.65
PRK1182760 hypothetical protein; Provisional 87.17
PRK09210367 RNA polymerase sigma factor RpoD; Validated 86.65
PF1341248 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 86.45
PF09538108 FYDLN_acid: Protein of unknown function (FYDLN_aci 86.04
smart0034284 HTH_ARAC helix_turn_helix, arabinose operon contro 85.92
KOG177984 consensus 40s ribosomal protein S27 [Translation, 85.78
TIGR0365553 anti_R_Lar restriction alleviation protein, Lar fa 85.67
COG283560 Uncharacterized conserved protein [Function unknow 85.59
PF1057126 UPF0547: Uncharacterised protein family UPF0547; I 85.59
COG199851 RPS31 Ribosomal protein S27AE [Translation, riboso 85.45
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 84.72
COG4888104 Uncharacterized Zn ribbon-containing protein [Gene 84.18
PF0667741 Auto_anti-p27: Sjogren's syndrome/scleroderma auto 83.84
PRK11169164 leucine-responsive transcriptional regulator; Prov 83.69
PF0728269 OrfB_Zn_ribbon: Putative transposase DNA-binding d 83.27
PRK0967872 DNA-binding transcriptional regulator; Provisional 82.89
PRK1489299 putative transcription elongation factor Elf1; Pro 82.55
PF1373055 HTH_36: Helix-turn-helix domain 82.32
TIGR02300129 FYDLN_acid conserved hypothetical protein TIGR0230 82.14
COG4640465 Predicted membrane protein [Function unknown] 82.03
PF0929732 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon do 82.03
PF0496753 HTH_10: HTH DNA binding domain; InterPro: IPR00705 81.38
smart0044040 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo 81.14
PRK12495226 hypothetical protein; Provisional 81.1
COG1594113 RPB9 DNA-directed RNA polymerase, subunit M/Transc 81.04
PF1393644 HTH_38: Helix-turn-helix domain; PDB: 2W48_A. 80.96
PF0519136 ADK_lid: Adenylate kinase, active site lid; InterP 80.92
PRK10219107 DNA-binding transcriptional regulator SoxS; Provis 80.42
PRK11179153 DNA-binding transcriptional regulator AsnC; Provis 80.4
PF1276046 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int 80.35
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=7.5e-84  Score=684.00  Aligned_cols=480  Identities=33%  Similarity=0.461  Sum_probs=393.2

Q ss_pred             CCCCCCCCCCceeecCCCceecCcccceecccccccccccccccCCCccccCccceeecccc---cchHHHHHHHHHHHH
Q 008401            2 VWCSSCARHVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAAGQSQLSGNFVRTIQSEY---GASRERLMEKAFDDM   78 (567)
Q Consensus         2 ~~Cp~Cgs~~iv~D~~~G~~VC~~CG~Vlee~~id~~~ef~e~s~G~s~v~G~~v~~~~~~~---~~srer~l~~a~~~I   78 (567)
                      ++|++||++++..|+++|+++|+.||+|+|+++|+++++|.+.      ++|+||+..|.+.   .++|++++++|++.|
T Consensus         1 ~~C~~C~~s~fe~d~a~g~~~C~~CG~v~E~~~ivsev~F~e~------~~G~~v~~~~~g~~~s~e~r~~t~~n~r~~i   74 (521)
T KOG1598|consen    1 MVCKNCGGSNFERDEATGNLYCTACGTVLEYNNIVAEVTFVEG------AQGQFVRVGQSGAGSSLESREKTIYNARRLI   74 (521)
T ss_pred             CcCCCCCCCCcccccccCCceeccccceeeccceeEEeeeecc------cceeEEeccccCCccchHHHHHHHHHHHhHH
Confidence            5799999999999999999999999999999999999999987      7899998877653   489999999999999


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHHHhCCCccHHHHHhhhccChHHHHHHHHHHH
Q 008401           79 RQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQLC  158 (567)
Q Consensus        79 ~~ia~~L~Lp~~~~i~e~A~~iyk~a~~~~~~rGR~~~~vaAACLYiACR~e~~p~tL~Diad~~~v~v~~Lgr~~~~L~  158 (567)
                      ..++.+|+|+  + +++.|++||++|.++||++||+...|+|+|+|++||+++++++|+||+++++|+||.||++|++|+
T Consensus        75 ~~~~~~l~l~--~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~Vy~LG~~~l~l~  151 (521)
T KOG1598|consen   75 EELTERLNLG--N-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQVSVYDLGSNFLEVT  151 (521)
T ss_pred             HHHHHhcCcc--h-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEEehhhhhHHHHHHH
Confidence            9999999999  7 999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhccccccccccCCchhhHHHHHhhhC-CCCCHHHHHHHHHHHHHhhhccccCCCChhHHHHHHHHHHHHhcCCCCCH
Q 008401          159 QVLYIADESNVLKQVDPSIFLHKFTDRLL-PGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSK  237 (567)
Q Consensus       159 ~~L~i~~~~~~~~~vdP~~~I~Rf~~~L~-~~~~~~V~~~A~~iv~~~~~~~i~~GR~P~~IaaAalylAa~~~g~~~t~  237 (567)
                      +.|.|...  +.+++||+.||+||+.+|. ++++++|+.+|.+|+++|++|||++||+|+||||||||+|||+||+++|+
T Consensus       152 ~~L~i~en--~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi  229 (521)
T KOG1598|consen  152 DSLSIGEN--VSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTI  229 (521)
T ss_pred             HHhccccc--cccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccH
Confidence            99999743  4568999999999999995 88889999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhccCHHHHHHHHHHHHccCCCCCCHHHHHHhHHhhhhcccCCCCCCCCCCCCc--------hhhhhccccCCCC
Q 008401          238 SDIVKIVHICEATLMKRLIEFENTDSGSLTIEDFMARKKELHEGVAANLPNNGPKVSGM--------NEVLCKHKDTGKP  309 (567)
Q Consensus       238 ~eIa~vv~Vse~TIrkR~kE~~~t~s~~Lt~~ef~~~~~~le~e~~~~pp~~~~~~~~~--------~~~~~~~~~~~~~  309 (567)
                      .||+.+||||+.||++||+||.+|+++.||+++|+++  |+|.+  +|||+|+..+.+.        +.+.+.|.... +
T Consensus       230 ~dIv~vvhV~e~Tl~kRl~Ef~~T~s~~Lti~ef~~~--d~e~~--~~ppsft~~~~~~~k~~~~~k~~l~~~~~~~e-~  304 (521)
T KOG1598|consen  230 GDIAKVVHVCESTLSKRLKEFSDTLSGDLTIDELAEI--DLEYE--SDPPSFTASPSKEAKYVEDKKKMLSRTMQLVE-L  304 (521)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHhccccccccHHHHHhh--hhhhc--cCcchhhcccchhhhhhhhhhhhhhhhhhhhh-c
Confidence            9999999999999999999999999999999999999  99998  9999999765322        22233332222 6


Q ss_pred             CCCCchhhhhhhhhhcccCCCCCCCCchhHHHHHHHHHHhhhhhcchhhhccCCcccccccccCCCCCCCCCCCCCCCcc
Q 008401          310 FACGLCRSCYEEFMTISEGLEGGADPPAFQVAERERMVKASAEENSSFERESDSPFMSRVDKVQSPEPESIGVPKNCTTQ  389 (567)
Q Consensus       310 ~~~g~~~~~~~~~~~~~~~~~~~~dppa~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  389 (567)
                      +..+.|..++..+..+++++.++.++|.+++...++-..+.. +.     .+.+....      .+...........+..
T Consensus       305 ~~~~~~~~~~~~~~~~~~~l~~~~q~~~~~~~~~e~~~~~~~-e~-----~~ssE~~d------k~~~g~~~~~~~~~sd  372 (521)
T KOG1598|consen  305 ANETWLVTLRHSLPVITGGLFLAWQDLQPRDRLVESYDDLAS-EC-----PLSSEDED------KPASGRLAELLAVLSD  372 (521)
T ss_pred             ccchhhhccccCCcccchhhhcccccchhhhhhhhhhhhhhh-cC-----cccccccC------CcCccccchhhhcccc
Confidence            788899999999999999999999999999887664111100 00     00000000      0000000000000000


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCChHHHhhcCCCHHHHHHHHHHHhhhCHHHHHHHHHHHHHHHHHHHHHH
Q 008401          390 TASNEGEGDHTKTPGVDATTEASDGSDNFSDIDDFEVDGYLHNEEEKHYKKIIWEEMNREYLEEQAAKEAAAAAAKAALE  469 (567)
Q Consensus       390 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~lsdiDD~Eid~~il~eeE~~~K~~iW~~~N~dyl~eq~~K~~~~~~~~~~~~  469 (567)
                      +..     +..   .........+....++++||.+++.++|++++.+.++.+ | +|++||.|+..+.++++++++.  
T Consensus       373 ~~~-----~~~---~~~~~~~~~d~~~~~~~~~~~~l~r~~l~~~a~~~a~~~-~-~n~e~l~E~~~~~~~~ak~~~~--  440 (521)
T KOG1598|consen  373 MAE-----QLA---SVWLRVLTLDKRSGVKHIDDLLLERQLLEESAGRDATEP-M-ENAETLVEERPGKAKAAKEREE--  440 (521)
T ss_pred             cch-----hhh---hcchhhhhccccccccccCHHHHHHHHhhhHHhhhcchh-h-hhHHHHHhhchhhhhhhHhhhh--
Confidence            000     000   001122345677889999999999999999999999999 7 9999999999988876653221  


Q ss_pred             hhhcCCCcchhHHHHHHHHHHHHHhhhhhHHHhhhhhhhcCCCCCCCHHHHHHHHHHhcCCCccCCHHHHhhhhCCCCc
Q 008401          470 ASYKNCPEGLQAAQELAAAAAAAVAKSRKEKQQKRAAEAKNSGPAQTALEATRRMLTKKRLSSKINYDVLEKLFDDSVC  548 (567)
Q Consensus       470 ~~~~~~~~~~~~~~~~~~~~~~~~~k~~k~k~~k~~~~~~~~~~a~ta~EA~~~ml~~k~~S~kINYd~l~~L~~~~~~  548 (567)
                                            ++ .+    ++++..+.++++++.||.||+++|++.+.+|++|||++|++|||....
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    112333456899999999999999999999999999999999986544

>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
>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
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule 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
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] 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
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] 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
>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
>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
>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
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins Back     alignment and domain information
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed Back     alignment and domain information
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms 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
>PF13248 zf-ribbon_3: zinc-ribbon domain Back     alignment and domain information
>PLN00209 ribosomal protein S27; Provisional Back     alignment and domain information
>PTZ00083 40S ribosomal protein S27; Provisional Back     alignment and domain information
>PF13240 zinc_ribbon_2: zinc-ribbon domain Back     alignment and domain information
>TIGR01206 lysW lysine biosynthesis protein LysW Back     alignment and domain information
>PHA00626 hypothetical 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
>PRK00420 hypothetical protein; Validated Back     alignment and domain information
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2 Back     alignment and domain information
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [] Back     alignment and domain information
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C Back     alignment and domain information
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 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
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only] Back     alignment and domain information
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues Back     alignment and domain information
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function 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
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein Back     alignment and domain information
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK00432 30S ribosomal protein S27ae; 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
>PRK05657 RNA polymerase sigma factor RpoS; Validated Back     alignment and domain information
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase Back     alignment and domain information
>smart00661 RPOL9 RNA polymerase subunit 9 Back     alignment and domain information
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain Back     alignment and domain information
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar Back     alignment and domain information
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PRK00464 nrdR transcriptional regulator NrdR; Validated Back     alignment and domain information
>PF13719 zinc_ribbon_5: zinc-ribbon domain 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
>PRK11827 hypothetical protein; Provisional Back     alignment and domain information
>PRK09210 RNA polymerase sigma factor RpoD; Validated 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
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues Back     alignment and domain information
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein Back     alignment and domain information
>KOG1779 consensus 40s ribosomal protein S27 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family Back     alignment and domain information
>COG2835 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines Back     alignment and domain information
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis] 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
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only] Back     alignment and domain information
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27) Back     alignment and domain information
>PRK11169 leucine-responsive transcriptional regulator; Provisional Back     alignment and domain information
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins Back     alignment and domain information
>PRK09678 DNA-binding transcriptional regulator; Provisional Back     alignment and domain information
>PRK14892 putative transcription elongation factor Elf1; Provisional Back     alignment and domain information
>PF13730 HTH_36: Helix-turn-helix domain Back     alignment and domain information
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300 Back     alignment and domain information
>COG4640 Predicted membrane protein [Function unknown] Back     alignment and domain information
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains Back     alignment and domain information
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif Back     alignment and domain information
>smart00440 ZnF_C2C2 C2C2 Zinc finger Back     alignment and domain information
>PRK12495 hypothetical protein; Provisional Back     alignment and domain information
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription] Back     alignment and domain information
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A Back     alignment and domain information
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2 Back     alignment and domain information
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional Back     alignment and domain information
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional Back     alignment and domain information
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc 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 ?
Query567
1ais_B200 Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA- 5e-16
1d3u_B201 Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+T 6e-16
1c9b_A207 Crystal Structure Of A Human Tbp Core Domain-Human 5e-06
2phg_A206 Model For Vp16 Binding To Tfiib Length = 206 7e-06
1tfb_A208 Nmr Studies Of Human General Transcription Factor T 8e-06
1vol_A204 Tfiib (Human Core Domain)TBP (A.THALIANA)TATA ELEME 3e-05
>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 = 82.4 bits (202), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 51/165 (30%), Positives = 87/165 (52%), Gaps = 11/165 (6%)
Query: 97  AKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYELGAVYLQ 156
           A R Y  AV +   +GR  E V A+C+Y ACR    P  L + ++   ++  E+G  Y  
Sbjct: 33  AARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLDEIADIARVDKKEIGRSYR- 91
Query: 157 LCQVLYIADESNVLKQ---VDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTG 213
                +IA   N+  +   V P+ +++KF D L  G ++KV   A +IL    +  +T+G
Sbjct: 92  -----FIARNLNLTPKKLFVKPTDYVNKFADEL--GLSEKVRRRAIEILDEAYKRGLTSG 144
Query: 214 RKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEF 258
           + 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|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
>pdb|1VOL|A Chain A, Tfiib (Human Core Domain)TBP (A.THALIANA)TATA ELEMENT Ternary Complex Length = 204 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 ?
Query567
1ais_B200 TFB TFIIB, protein (transcription initiation facto 1e-48
1c9b_A207 General transcription factor IIB; protein-DNA comp 1e-41
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 3e-34
1ngm_B72 Transcription factor IIIB BRF1 subunit; TFIIIB, TB 3e-15
3lvg_D190 LCB, clathrin light chain B; SELF assembly, coated 8e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-05
>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 =  167 bits (423), Expect = 1e-48
 Identities = 54/203 (26%), Positives = 100/203 (49%), Gaps = 7/203 (3%)

Query: 66  SRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYL 125
           + ER +  A  ++ ++   L +     +   A R Y  AV +   +GR  E V A+C+Y 
Sbjct: 4   AAERNLAFALSELDRITAQLKL--PRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYA 61

Query: 126 ACRQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESNVLKQVDPSIFLHKFTDR 185
           ACR    P  L + ++   ++  E+G  Y  + + L +  +      V P+ +++KF D 
Sbjct: 62  ACRLLKVPRTLDEIADIARVDKKEIGRSYRFIARNLNLTPKKLF---VKPTDYVNKFADE 118

Query: 186 LLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVH 245
           L  G ++KV   A +IL    +  +T+G+ P+GL  AALY+++L  G K ++ ++ ++  
Sbjct: 119 L--GLSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVAEVAR 176

Query: 246 ICEATLMKRLIEFENTDSGSLTI 268
           + E T+  R  E        + I
Sbjct: 177 VTEVTVRNRYKELVEKLKIKVPI 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 ?
Query567
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 100.0
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 100.0
1ais_B200 TFB TFIIB, protein (transcription initiation facto 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 99.83
2ivx_A257 Cyclin-T2; transcription regulation, cell division 99.82
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 99.79
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.78
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 99.76
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.75
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 99.73
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.72
1ngm_B72 Transcription factor IIIB BRF1 subunit; TFIIIB, TB 99.71
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 99.68
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 99.67
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.63
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 99.58
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.35
1dl6_A58 Transcription factor II B (TFIIB); zinc ribbon, ge 99.17
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.12
1pft_A50 TFIIB, PFTFIIBN; N-terminal domain, transcription 98.97
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 98.96
3k1f_M197 Transcription initiation factor IIB; RNA polymeras 98.89
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 98.77
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 98.52
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 97.3
3h4c_A260 Transcription factor TFIIB-like; cyclin, transcrip 97.29
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 96.85
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 96.82
2ivx_A257 Cyclin-T2; transcription regulation, cell division 96.59
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 96.54
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 96.44
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 96.44
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 96.33
3m03_A95 ORC6, origin recognition complex subunit 6; helix 96.25
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 96.06
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 96.0
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 95.7
1qxf_A66 GR2, 30S ribosomal protein S27E; structural genomi 95.3
4ell_A411 Retinoblastoma-associated protein; cyclin fold, tu 95.18
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 94.98
3j20_W63 30S ribosomal protein S27E; archaea, archaeal, KIN 94.98
2xzm_681 RPS27E; ribosome, translation; 3.93A {Tetrahymena 94.76
3u5c_b82 RP61, YS20, 40S ribosomal protein S27-A; translati 94.5
4elj_A656 Retinoblastoma-associated protein; cyclin fold, tu 94.41
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 94.26
2qdj_A304 Retinoblastoma-associated protein; cyclin fold, cy 94.23
3iz6_X86 40S ribosomal protein S27 (S27E); eukaryotic ribos 94.07
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 93.9
2js4_A70 UPF0434 protein BB2007; NESG, northeast structural 93.66
2pk7_A69 Uncharacterized protein; NESG, PLR1, putative tetr 93.57
2jr6_A68 UPF0434 protein NMA0874; solution, structural geno 93.38
2jny_A67 Uncharacterized BCR; structure, CGR1, NESG, struct 93.19
1vq8_Z83 50S ribosomal protein L37AE; ribosome 50S, protein 93.1
2hf1_A68 Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A 93.04
3j20_Y50 30S ribosomal protein S27AE; archaea, archaeal, KI 92.51
3m03_A95 ORC6, origin recognition complex subunit 6; helix 90.56
2k4x_A55 30S ribosomal protein S27AE; metal-binding, ribonu 90.34
3mn2_A108 Probable ARAC family transcriptional regulator; st 88.23
2jt1_A77 PEFI protein; solution structure, winged helix-tur 87.72
3oou_A108 LIN2118 protein; protein structure initiative, PSI 87.72
4elj_A 656 Retinoblastoma-associated protein; cyclin fold, tu 87.69
1tc3_C51 Protein (TC3 transposase); DNA binding, helix-turn 86.66
3lsg_A103 Two-component response regulator YESN; structural 86.54
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 85.08
1qyp_A57 RNA polymerase II; transcription, RPB9, Zn ribbon, 83.97
2akl_A138 PHNA-like protein PA0128; two domains, Zn binding 81.45
>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=9e-57  Score=471.71  Aligned_cols=264  Identities=16%  Similarity=0.266  Sum_probs=139.4

Q ss_pred             CCCCCCC--CCceeecCCCceecCcccceecccccccccccccccC----C--CccccCc------------cce-----
Q 008401            3 WCSSCAR--HVTGHRPYDSQLCCDRCGKVLEDHNFSTEATFVKNAA----G--QSQLSGN------------FVR-----   57 (567)
Q Consensus         3 ~Cp~Cgs--~~iv~D~~~G~~VC~~CG~Vlee~~id~~~ef~e~s~----G--~s~v~G~------------~v~-----   57 (567)
                      .||+||+  +.+++|+.+|++||++||+||+|++||.++||+.+++    |  ++++++.            .++     
T Consensus        23 ~Cp~C~~~~~~lv~D~~~G~~vC~~CGlVl~e~~iD~g~EWR~f~~d~~~~~d~sRvG~~~~~~~~~~glsT~I~~~~~~  102 (345)
T 4bbr_M           23 TCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLVDTRSEWRTFSNDDHNGDDPSRVGEASNPLLDGNNLSTRIGKGETT  102 (345)
T ss_dssp             CCSSCCCSSCCEEEEGGGTEEEETTTCBEEESCCBCHHHHHTTTSCSCSSSCCSSCCEEEECHHHHCSCCCCEEECCSSC
T ss_pred             cCCCCCCCCCceeEECCCCcEEeCCCCCCccCcccccCccccCCCcccccCCCcCCCCCCCCccccCCCcceeecCCCCc
Confidence            7999997  5889999999999999999999999999999997642    2  3554321            111     


Q ss_pred             ---------eeccc-ccchHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHH
Q 008401           58 ---------TIQSE-YGASRERLMEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLAC  127 (567)
Q Consensus        58 ---------~~~~~-~~~srer~l~~a~~~I~~ia~~L~Lp~~~~i~e~A~~iyk~a~~~~~~rGR~~~~vaAACLYiAC  127 (567)
                               .||.+ ..+++|++|.+|+..|.+||++|+||  ++|+++|..||++++++++++||+.+.++|||||+||
T Consensus       103 ~~~~~~~L~r~q~r~~~~~~er~L~~a~~~I~~~~~~L~Lp--~~v~d~A~~lyk~a~~~~~~rGrs~e~vaAAclYiAC  180 (345)
T 4bbr_M          103 DMRFTKELNKAQGKNVMDKKDNEVQAAFAKITMLCDAAELP--KIVKDCAKEAYKLCHDEKTLKGKSMESIMAASILIGC  180 (345)
T ss_dssp             CHHHHHHHHHHHHHTCCCCSSSSTTHHHHHHHHHHHHTTCC--HHHHHHHHHHHHHHTTCTTTTTCCHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhhhcChHHHHHHHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHH
Confidence                     12222 24778999999999999999999999  9999999999999999999999999999999999999


Q ss_pred             HHhCCCccHHHHHhhhccChHHHHHHHHHHHHHhhcccccc-------ccccCCchhhHHHHHhhhCCCCCHHHHHHHHH
Q 008401          128 RQKSKPFLLIDFSNYLNINVYELGAVYLQLCQVLYIADESN-------VLKQVDPSIFLHKFTDRLLPGGNKKVCDTARD  200 (567)
Q Consensus       128 R~e~~p~tL~Diad~~~v~v~~Lgr~~~~L~~~L~i~~~~~-------~~~~vdP~~~I~Rf~~~L~~~~~~~V~~~A~~  200 (567)
                      |++++|+||+||+++++|++++|+++|+.|.+.|++....+       ..+.++|++||+|||+.|++  +++|.+.|++
T Consensus       181 R~~~~prtl~eI~~~~~v~~keigr~~k~l~~~L~l~~~~~~~~~~~~~~~~~~p~~~i~Rf~s~L~l--~~~v~~~A~~  258 (345)
T 4bbr_M          181 RRAEVARTFKEIQSLIHVKTKEFGKTLNIMKNILRGKSEDGFLKIDTDNMSGAQNLTYIPRFCSHLGL--PMQVTTSAEY  258 (345)
T ss_dssp             HHTCCBCCHHHHHHHHTCCTTHHHHHHHHHHHCC----------------------------------------------
T ss_pred             HhcCCCccHHHHHHHhCCCHHHHHHHHHHHHHHhCccccccccccccccCCCCCHHHHHHHHHHHcCC--cHHHHHHHHH
Confidence            99999999999999999999999999999999999852110       02348999999999999986  7899999999


Q ss_pred             HHHHhhhccccCCCChhHHHHHHHHHHHHhcCCCCCHhhHHHHhccCHHHHHHHHHHHHccCCCCCCHHHH
Q 008401          201 ILASMKRDWITTGRKPSGLCGAALYVSALTHGLKFSKSDIVKIVHICEATLMKRLIEFENTDSGSLTIEDF  271 (567)
Q Consensus       201 iv~~~~~~~i~~GR~P~~IaaAalylAa~~~g~~~t~~eIa~vv~Vse~TIrkR~kE~~~t~s~~Lt~~ef  271 (567)
                      |+++|.++||++||+|.|||||||||||+++|+++|+++|++++|||++|||+||+||.+.-. .|.+.+|
T Consensus       259 i~~~~~~~~i~~GR~P~~IAAAaIylAa~l~g~~~t~~eIa~v~~Vse~TIr~rykel~~~~~-~l~~~~~  328 (345)
T 4bbr_M          259 TAKKCKEIKEIAGKSPITIAVVSIYLNILLFQIPITAAKVGQTLQVTEGTIKSGYKILYEHRD-KLVDPQL  328 (345)
T ss_dssp             -----------------------------------------------------------------------
T ss_pred             HHHHHHhcccccCCChHHHHHHHHHHHHHHhCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH-hhcCHHH
Confidence            999999999999999999999999999999999999999999999999999999999975544 5555555
>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
>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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* 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
>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
>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
>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
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1 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
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} 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
>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
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* 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
>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
>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
>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
>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
>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
>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
>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
>1qxf_A GR2, 30S ribosomal protein S27E; structural genomics, beta sheet, PSI, protein structure initiative; NMR {Archaeoglobus fulgidus} SCOP: g.41.8.4 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
>3j20_W 30S ribosomal protein S27E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>2xzm_6 RPS27E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_6 Back     alignment and structure
>3u5c_b RP61, YS20, 40S ribosomal protein S27-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_X 3u5g_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
>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
>3iz6_X 40S ribosomal protein S27 (S27E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} 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
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50} Back     alignment and structure
>2pk7_A Uncharacterized protein; NESG, PLR1, putative tetraacyldisaccharide-1-P 4-kinase, Q4K structural genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP: b.171.1.1 Back     alignment and structure
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis} Back     alignment and structure
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1 Back     alignment and structure
>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ... Back     alignment and structure
>2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes structural genomics, PSI-2, protein structure initiative; 1.90A {Chromobacterium violaceum} SCOP: b.171.1.1 Back     alignment and structure
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} 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
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8 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
>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
>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
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum} Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1 Back     alignment and structure
>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5 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 567
d1aisb295 a.74.1.2 (B:1206-1300) Transcription factor IIB (T 1e-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 3e-15
d1vola2109 a.74.1.2 (A:208-316) Transcription factor IIB (TFI 2e-11
d1aisb198 a.74.1.2 (B:1108-1205) Transcription factor IIB (T 3e-15
d1aisb198 a.74.1.2 (B:1108-1205) Transcription factor IIB (T 6e-10
d1vola195 a.74.1.2 (A:113-207) Transcription factor IIB (TFI 8e-14
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 = 76.0 bits (187), Expect = 1e-17
 Identities = 28/89 (31%), Positives = 51/89 (57%), Gaps = 2/89 (2%)

Query: 173 VDPSIFLHKFTDRLLPGGNKKVCDTARDILASMKRDWITTGRKPSGLCGAALYVSALTHG 232
           V P+ +++KF D L  G ++KV   A +IL    +  +T+G+ P+GL  AALY+++L  G
Sbjct: 1   VKPTDYVNKFADEL--GLSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEG 58

Query: 233 LKFSKSDIVKIVHICEATLMKRLIEFENT 261
            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 ?
Query567
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 99.83
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 99.83
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 99.78
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 99.77
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 99.75
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 99.71
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 99.59
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 99.57
d1pfta_50 Transcription initiation factor TFIIB, N-terminal 99.36
d1dl6a_58 Transcription initiation factor TFIIB, N-terminal 99.32
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.29
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 98.22
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 98.06
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 97.37
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 97.23
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 97.21
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 97.01
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 97.0
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 96.96
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 96.91
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.23
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 96.15
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 96.06
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 96.05
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 95.58
d1qxfa_58 Ribosomal protein S27e {Archaeon Archaeoglobus ful 95.37
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 95.1
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 93.82
d1vd4a_62 Transcription initiation factor TFIIE-alpha {Human 92.63
d2akla238 Hypothetical protein PA0128, N-terminal domain {Ps 91.74
d2jnya159 Uncharacterized protein Cgl1405/cg1592 {Corynebact 91.64
d2pk7a159 Uncharacterized protein PFL1779 {Pseudomonas fluor 91.19
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 90.03
d2hf1a159 Hypothetical protein CV3345 {Chromobacterium viola 89.84
d2cfxa163 Transcriptional regulator LrpC {Bacillus subtilis 89.62
d1i1ga160 LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} 88.55
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 87.24
d2cyya160 Putative transcriptional regulator PH1519 {Archaeo 86.99
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 86.69
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 85.52
d2cg4a163 Regulatory protein AsnC {Escherichia coli [TaxId: 84.59
d1biaa163 Biotin repressor, N-terminal domain {Escherichia c 83.25
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 82.91
d1bl0a154 MarA {Escherichia coli [TaxId: 562]} 82.57
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 82.53
d1nuia254 Zinc-binding domain of primase-helicase {Bacteriop 81.37
>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=9.6e-21  Score=160.62  Aligned_cols=93  Identities=24%  Similarity=0.455  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHHHhCCCccHHHHHhhhccChHHH
Q 008401           71 MEKAFDDMRQMKNALNIGESDEIVHVAKRFYGIAVARNFTKGRRTEQVQASCLYLACRQKSKPFLLIDFSNYLNINVYEL  150 (567)
Q Consensus        71 l~~a~~~I~~ia~~L~Lp~~~~i~e~A~~iyk~a~~~~~~rGR~~~~vaAACLYiACR~e~~p~tL~Diad~~~v~v~~L  150 (567)
                      |.+|+..|+++|+.||||  +.++++|..+|+.+.+.++++||++..++|||||+|||++++|+|++||++++++++++|
T Consensus         2 L~~a~~~I~~~~~~L~L~--~~i~~~A~~i~~~~~~~~~~~Gr~~~~i~AA~iY~acr~~~~p~t~~eIa~~~~i~~~~i   79 (95)
T d1vola1           2 MMNAFKEITTMADRINLP--RNKVDRTNNLFRQAYEQKSLKGRANDAIASACLYIACRQEGVPRTFKEICAVSRISKKEI   79 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCC--HHHHHHHHHHHHHHHHTCCCTTSCHHHHHHHHHHHHHHHTTCCCCHHHHHTTTCSCHHHH
T ss_pred             hHHHHHHHHHHHHHcCcC--HHHHHHHHHHHHHHHHhhhhcCCChHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCHHHH
Confidence            568999999999999999  999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccc
Q 008401          151 GAVYLQLCQVLYIAD  165 (567)
Q Consensus       151 gr~~~~L~~~L~i~~  165 (567)
                      +++|+.|.+.|+++.
T Consensus        80 ~k~~k~i~~~L~~~v   94 (95)
T d1vola1          80 GRCFKLILKALETSV   94 (95)
T ss_dssp             HHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHHCCcC
Confidence            999999999998753
>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
>d1pfta_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal 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
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} 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
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} 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
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {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
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {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
>d1qxfa_ g.41.8.4 (A:) Ribosomal protein S27e {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} 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
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1vd4a_ g.41.3.1 (A:) Transcription initiation factor TFIIE-alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2jnya1 b.171.1.1 (A:1-59) Uncharacterized protein Cgl1405/cg1592 {Corynebacterium glutamicum [TaxId: 1718]} Back     information, alignment and structure
>d2pk7a1 b.171.1.1 (A:3-61) Uncharacterized protein PFL1779 {Pseudomonas fluorescens [TaxId: 294]} 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
>d2hf1a1 b.171.1.1 (A:2-60) Hypothetical protein CV3345 {Chromobacterium violaceum [TaxId: 536]} 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
>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 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
>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
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1bl0a1 a.4.1.8 (A:9-62) MarA {Escherichia coli [TaxId: 562]} 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
>d1nuia2 g.41.3.2 (A:10-63) Zinc-binding domain of primase-helicase {Bacteriophage T7 [TaxId: 10760]} Back     information, alignment and structure