Psyllid ID: psy13810

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Local Sequence Feature Prediction

Residue Number Marker
--------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------
Protein Sequence
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELRRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGSQHS
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHcccccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccccccccccHHHccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHcccEEEcccccccEEEcHHHHHHHHcccccccccccEEEEEEccEEccccccHHHHHHHHHHHHHHHcccccEEEEEcHHHHHHHHHccccHHHHHHHHHHcccccccccccccHHHHHHHHHHHcccEEEcccEEEcccccHHHHHHHHHHHHHHcEEEEEccccEEEEEEccccHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHccccccHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHccccccHHcHHHHHHHHccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccEEEEEccccccEcccEEEEEEcccccccccccccEEEEEEcEEEEEEcccHHHHHHHHHHHHHHHHccccEEEEEcHHHHHHHHHccccHHHHHHHHHHcccccccccccccHHHHHHHHHHHHccEEEcccEEEcccccHHHHHHHHHHHHHccEEEEEccccEEEEEccccHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELRRNAKVALlgggkpwsmsaklevdskardlDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFnegaenpvitkdgfqfllleTPAQVWYFILKYLETVESKGLDLVECLTFLFQLKfstfgtdystegmSDKLQVFLQHLREFGLVYQRkrkagrfyptkLALNMATrgtlkqirepgflivetNFRVYAYTDSNLKVALIGLFCELmyrfpnltvgvLTRDSVRAALRSGITAAQIIGFLRlhalpsvscplppvvsdqirlwegererlttsegvlySQFVSQADFEKLRDYAQDLGvltwqnekkRTVVVTKQGHSDIKKFWVNHQKGSQHS
Flexible Loop (DISEMBL)
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELRRNAKVAllgggkpwsmsAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVyqrkrkagrfyptklalnmatrgtlkqirepgfLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERErlttsegvlySQFVSQADFEKLRDYAQDLgvltwqnekkrtVVVTkqghsdikkfwvnhqkgsqhs
Low Complexity Region (SEG)
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELRRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHAlpsvscplppvvsDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGSQHS
Disordered region (IsUnstruct)
****IAKHYVIRLLFVEQPVPQAVIASWLSKTH***********TELRRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVN********
Disordered Region (DISOPRED)
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHA*E****TDTLTELRRNAKV****************************QYALERWECILRFM**************************ITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLAL*****************IVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF***********
Disordered Region (DISEMBL)
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELRRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGSQHS
Disordered Region (DISPRO)
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELRRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRGTLK**REPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQK*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELRRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGSQHS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	386	2.2.26 [Sep-21-2011]
P60027	462	General transcription fac	yes	N/A	0.989	0.826	0.517	1e-118
Q92759	462	General transcription fac	yes	N/A	0.989	0.826	0.517	1e-118
O70422	463	General transcription fac	yes	N/A	0.989	0.825	0.517	1e-118
P87303	447	RNA polymerase II transcr	yes	N/A	0.950	0.821	0.394	3e-70
Q6BZX4	467	RNA polymerase II transcr	yes	N/A	0.849	0.702	0.385	5e-64
Q6CLR2	496	RNA polymerase II transcr	yes	N/A	0.968	0.754	0.317	4e-60
Q6BGW8	515	RNA polymerase II transcr	yes	N/A	0.984	0.737	0.32	1e-59
Q02939	513	RNA polymerase II transcr	yes	N/A	0.966	0.727	0.319	6e-59
Q75B51	514	RNA polymerase II transcr	yes	N/A	0.968	0.727	0.298	6e-57
Q6FP41	504	RNA polymerase II transcr	yes	N/A	0.963	0.738	0.312	5e-56

>sp|P60027|TF2H4_PANTR General transcription factor IIH subunit 4 OS=Pan troglodytes GN=GTF2H4 PE=3 SV=1

 Score =  426 bits (1095), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 216/417 (51%), Positives = 292/417 (70%), Gaps = 35/417 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR------------ 48
           EL  +AK++V+R+LF+EQP+PQA +A W+ K  +K  +E+T  L+ LR            
Sbjct: 47  ELPSLAKNWVMRMLFLEQPLPQAAVALWVKKEFSKAQEESTGLLSGLRIWHTQLLPGGLQ 106

Query: 49  ---------RNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGS 98
                    +N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS
Sbjct: 107 GLILNPIFRQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGS 166

Query: 99  QQTEGISADAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVES 151
             +  +S D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S
Sbjct: 167 P-SAAVSQDLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQS 225

Query: 152 KGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTK 211
           +G+DLVE L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+
Sbjct: 226 RGMDLVEILSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTR 285

Query: 212 LALNMAT--RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           LA+N+++   G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  
Sbjct: 286 LAINLSSGVSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQ 345

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHALPSV---SCPLPPVVSDQIRLWEGERERLTTSE 326
           +TR+SV+ A+ SGITA QII FLR  A P +   +  LPP ++DQIRLWE ER+RL  +E
Sbjct: 346 VTRESVQQAIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTE 405

Query: 327 GVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           GVLY+QF+SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   +  S
Sbjct: 406 GVLYNQFLSQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFWKRQKHSS 462

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II.
Pan troglodytes (taxid: 9598)

>sp|Q92759|TF2H4_HUMAN General transcription factor IIH subunit 4 OS=Homo sapiens GN=GTF2H4 PE=2 SV=1

 Score =  426 bits (1095), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 216/417 (51%), Positives = 292/417 (70%), Gaps = 35/417 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR------------ 48
           EL  +AK++V+R+LF+EQP+PQA +A W+ K  +K  +E+T  L+ LR            
Sbjct: 47  ELPSLAKNWVMRMLFLEQPLPQAAVALWVKKEFSKAQEESTGLLSGLRIWHTQLLPGGLQ 106

Query: 49  ---------RNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGS 98
                    +N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS
Sbjct: 107 GLILNPIFRQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGS 166

Query: 99  QQTEGISADAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVES 151
             +  +S D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S
Sbjct: 167 P-SAAVSQDLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQS 225

Query: 152 KGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTK 211
           +G+DLVE L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+
Sbjct: 226 RGMDLVEILSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTR 285

Query: 212 LALNMAT--RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           LA+N+++   G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  
Sbjct: 286 LAINLSSGVSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQ 345

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHALPSV---SCPLPPVVSDQIRLWEGERERLTTSE 326
           +TR+SV+ A+ SGITA QII FLR  A P +   +  LPP ++DQIRLWE ER+RL  +E
Sbjct: 346 VTRESVQQAIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTE 405

Query: 327 GVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           GVLY+QF+SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   +  S
Sbjct: 406 GVLYNQFLSQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFWKRQKHSS 462

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II.

Homo sapiens (taxid: 9606)

>sp|O70422|TF2H4_MOUSE General transcription factor IIH subunit 4 OS=Mus musculus GN=Gtf2h4 PE=2 SV=1

 Score =  426 bits (1094), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 216/417 (51%), Positives = 292/417 (70%), Gaps = 35/417 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR------------ 48
           EL  +AK++V+R+LF+EQP+PQA +A W+ K  +K  +E+T  L+ LR            
Sbjct: 48  ELPSLAKNWVMRMLFLEQPLPQAAVALWVKKEFSKAQEESTGLLSGLRIWHTQLLPGGLQ 107

Query: 49  ---------RNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGS 98
                    +N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS
Sbjct: 108 GLILNPVFRQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGS 167

Query: 99  QQTEGISADAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVES 151
             +  +S D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S
Sbjct: 168 P-SAAVSQDLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQS 226

Query: 152 KGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTK 211
           +G+DLVE L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+
Sbjct: 227 RGMDLVEILSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTR 286

Query: 212 LALNMAT--RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           LA+N+++   G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  
Sbjct: 287 LAINLSSGVSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQ 346

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHALPSV---SCPLPPVVSDQIRLWEGERERLTTSE 326
           +TR+SV+ A+ SGITA QII FLR  A P +   +  LPP ++DQIRLWE ER+RL  +E
Sbjct: 347 VTRESVQQAIASGITAQQIIHFLRTRAHPVMLKQNPVLPPTITDQIRLWELERDRLRFTE 406

Query: 327 GVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           GVLY+QF+SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   +  S
Sbjct: 407 GVLYNQFLSQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFWKRQKHSS 463

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II.

Mus musculus (taxid: 10090)

>sp|P87303|TFB2_SCHPO RNA polymerase II transcription factor B subunit 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tfb2 PE=1 SV=2

 Score =  265 bits (678), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 157/398 (39%), Positives = 222/398 (55%), Gaps = 31/398 (7%)

Query: 2   LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTL----------------T 45
           L  +A+ YV+ +LF   PV  +    W+  +      E+ + L                +
Sbjct: 36  LPILARQYVMSMLFNPMPVALSDFDLWIKLSSKVYQSESFNKLVRMHIFQFDGQYITLNS 95

Query: 46  ELRRNAKVALLGGGKPWSMSAKL-EVDSKARDLDFLNQYALERWECILRFMVGSQQT--- 101
           E R+    AL GGG   S      + D     +DFL+ YA E WE IL FMVG+ +    
Sbjct: 96  EFRKQFITALTGGGNHNSFGVPCTDEDKHLVTVDFLDAYAKETWETILHFMVGTPEAKFP 155

Query: 102 -EGISADAVRTLFNEGAENPV-ITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
            EG+ +   R     G +N + IT+ GFQFLL +  AQ+W  +L YL+  E   +D V+ 
Sbjct: 156 GEGVLSLLKRGGLMSGPKNQLRITRAGFQFLLQDINAQIWTLLLDYLKLSEDTHMDPVQV 215

Query: 160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATR 219
           L FLF L     G  YS + ++D  Q+ L+ LRE+GLVYQRK  + RFYPT+LA  + T 
Sbjct: 216 LHFLFMLGSLDLGRAYSVDFLTDTQQIMLEDLREYGLVYQRKITSKRFYPTRLATGLTTD 275

Query: 220 ------GTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRD 273
                    +   + GF+IVETN+R+YAYT S L++A+IGLF  L  RF NL VGV+TRD
Sbjct: 276 YRSLHGKQSENDDDKGFIIVETNYRLYAYTSSPLQIAIIGLFANLRARFSNLVVGVITRD 335

Query: 274 SVRAALRSGITAAQIIGFLRLHALPSV--SCP-LPPVVSDQIRLWEGERERLTTSEGVLY 330
           S+R AL +GI A QII +L  HA P +  + P LPP + DQI LWE E+ RL  + G+L+
Sbjct: 336 SIRRALMNGIAAEQIITYLTTHAHPQMRSNVPLLPPTLVDQIYLWELEKNRLRATPGILF 395

Query: 331 SQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQG 368
             F++ + F++  +YA++LGVL W +  KR   +T  G
Sbjct: 396 RDFLTDSGFDQAVEYAKELGVLVWDSSLKRMFFITTTG 433

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q6BZX4|TFB2_YARLI RNA polymerase II transcription factor B subunit 2 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=TFB2 PE=3 SV=1

 Score =  245 bits (625), Expect = 5e-64,   Method: Compositional matrix adjust.
 Identities = 137/355 (38%), Positives = 205/355 (57%), Gaps = 27/355 (7%)

Query: 48  RRNAKVALLGGGKPWSMSAKLEVDSKAR-DLDFLNQYALERWECILRFMVGSQQTEGISA 106
           ++N + AL+GG +  S     + + K + D+ FL+ +A+ +WE IL FMVG+      S 
Sbjct: 100 KKNLRAALVGGDQNISFGVPCDTEDKHKVDVAFLDAHAVSQWEMILHFMVGTSIGRTPSD 159

Query: 107 DAVRTLFNEGAENPV-----ITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLT 161
             +  L + G   P      IT  GFQFLL +  AQ+W  +L+YL   E   +D V+ L 
Sbjct: 160 GVLNLLKHSGLMEPERGGLRITNAGFQFLLQDVNAQIWTLLLQYLNMSEYLQMDPVDVLN 219

Query: 162 FLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLA-------- 213
           F+F L     G DYS   +S+  +  L+ LR++G+VYQRK  + RFYPT+LA        
Sbjct: 220 FIFMLGSLELGQDYSLSALSETQKHMLEDLRDYGIVYQRKASSRRFYPTRLATTLTSETA 279

Query: 214 --------LNMATRGTLKQ--IREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFP 263
                   +  AT+ T+      + GF+I+ETNFR+YAYT+S L++A++ LF  L  RF 
Sbjct: 280 ALRTASQSMEAATQDTISSSVAADSGFIILETNFRLYAYTESPLQIAVLNLFVNLKTRFA 339

Query: 264 NLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALP---SVSCPLPPVVSDQIRLWEGERE 320
           N+  G + RDSVR AL +GITA QII +L +HA P    +   LPP V DQI+LW+ E +
Sbjct: 340 NMVTGQINRDSVRFALSNGITAEQIITYLSVHAHPRMKGMEHVLPPTVVDQIKLWQLEMD 399

Query: 321 RLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF 375
           R+  ++G L+S+F +  +++ +  YA++LGVL ++N  KR  V T  G   I +F
Sbjct: 400 RIRATDGYLFSEFKNFDEYKDVSTYAKELGVLLYENPGKRKFVSTLAGSQQIVEF 454

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

>sp|Q6CLR2|TFB2_KLULA RNA polymerase II transcription factor B subunit 2 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=TFB2 PE=3 SV=1

 Score =  232 bits (591), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 143/451 (31%), Positives = 221/451 (49%), Gaps = 77/451 (17%)

Query: 2   LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL-------------- 47
           LS +AK +++ +LF +  V    +  W+      + + +  ++  L              
Sbjct: 39  LSPMAKFFIMSMLFQDHDVSLRDLDKWVKPDAKYQLQYSIKSMKSLNLIIEGESKQPLLI 98

Query: 48  ------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQT 101
                 +++ K  L GG    S     + D+       L+QY+ E+WE IL +MVG+  T
Sbjct: 99  RLNPIFKKSFKNVLTGGEINNSFGDVADDDTNPVSTATLDQYSAEKWETILHYMVGTPNT 158

Query: 102 EGISADAVRTLFNEGAENPV------ITKDGFQFLLLETPAQVWYFILKYLETVESKGLD 155
                  +  L + G           IT  GFQFLL +  AQ+W  +L+YL+  ES  +D
Sbjct: 159 NTPGGKVLDLLQHSGLMEEAEYGELKITNQGFQFLLQDVNAQMWTLLLQYLKMAESLQMD 218

Query: 156 LVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLA-- 213
            V+ L F+F L     G  Y  + +S+  +  LQ +R++GL+YQ +    +FYPT+LA  
Sbjct: 219 PVDVLNFIFMLGALQLGKAYKCDQLSNTQRTMLQDMRDYGLIYQNQSDYAKFYPTRLATL 278

Query: 214 ------------------LNMATRGT----------LKQIREPGFLIVETNFRVYAYTDS 245
                             LN A   T            +  + G LI+ETNF++Y+Y++S
Sbjct: 279 LTSDTKAFRSASVALDSVLNKANETTAVEGDSGQDETTERTQDGALIIETNFKLYSYSNS 338

Query: 246 NLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVS---- 301
            L++A++ LF  L  RF N+  G LTR+SVR AL +GITA QII +L  HA P +     
Sbjct: 339 PLQIAILSLFVHLKSRFANMVTGQLTRESVRNALLNGITAEQIIAYLETHAHPRMRRLAE 398

Query: 302 -----------------CPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRD 344
                              LPP V DQIRLW+ E +R+ + +G LY+ F S  +++ + D
Sbjct: 399 ENLSKKLELDPTVKETLQVLPPTVVDQIRLWQLELDRIISYDGYLYTDFESYQEYQTVAD 458

Query: 345 YAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF 375
           YA+D+GVL WQNEKK+   V+ +G+S +  F
Sbjct: 459 YAKDIGVLLWQNEKKKMFFVSTEGNSQVLDF 489

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA.

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|Q6BGW8|TFB2_DEBHA RNA polymerase II transcription factor B subunit 2 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=TFB2 PE=3 SV=2

 Score =  230 bits (586), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 152/475 (32%), Positives = 220/475 (46%), Gaps = 95/475 (20%)

Query: 2   LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL-------------- 47
           L  IAK Y++ +LF E PV    +  W   T  K   ++   L  L              
Sbjct: 40  LPPIAKFYIMTMLFYETPVALKDLDKWCKPTSRKFQFDSLKRLRALHLIEEDSSGSHIRL 99

Query: 48  ----RRNAKVALLGG-GKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTE 102
               R+N +  L G   +    +     D ++  + FL+ +AL++WE IL FMVG++ + 
Sbjct: 100 HPTFRQNFRDCLTGSQARNAFGNLSTTPDEQSVSIKFLDSFALQKWESILHFMVGTELSV 159

Query: 103 GISADAVRTL--------FNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGL 154
             S   +  L         N+G     IT  GFQFLL +  AQ+W  +L+YL   +   +
Sbjct: 160 TPSNSVLSLLKSGGLMEGTNKGGNRLNITNSGFQFLLQDINAQIWTLLLQYLNLTQDLNM 219

Query: 155 DLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLAL 214
           D V+ L F+F L     G  Y+   +S+     L  LR++GL+YQR   + RFYPT+LA 
Sbjct: 220 DPVDVLNFIFILGSLELGKGYTVSSLSETQISMLADLRDYGLIYQRSENSERFYPTRLAT 279

Query: 215 ------------NMATRGTLKQIREP------------GFLIVETNFRVYAYTDSNLKVA 250
                       +MA    L+   E             G +I+ETNF++YAYT+S L++A
Sbjct: 280 TLTSDSAALKSPSMAMEQALESTTETEEQQNLASNSNQGTIILETNFKIYAYTNSPLEIA 339

Query: 251 LIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSV---------- 300
           ++ LF  L  RF N+  G +TR+S+R AL +GITA QII FL  HA   +          
Sbjct: 340 ILNLFVHLKTRFSNMVCGQITRESIRNALYNGITADQIIKFLETHAHSQMKILAKERLDK 399

Query: 301 --------------SCP--------------------LPPVVSDQIRLWEGERERLTTSE 326
                           P                    LPP V DQI+LW+ E +R+ T E
Sbjct: 400 KIEFDTSNNINTAGGAPQSQMMTNENGTTVAQHKLEVLPPTVVDQIKLWQLELDRIQTFE 459

Query: 327 GVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQK 381
           G L+  F SQ +FE L +YA ++GVL W N+ K    VTK G S +  F   +Q+
Sbjct: 460 GYLFKDFASQQEFEALSNYASEIGVLLWSNKSKMKFFVTKDGISQVADFASRNQR 514

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|Q02939|TFB2_YEAST RNA polymerase II transcription factor B subunit 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TFB2 PE=1 SV=1

 Score =  228 bits (581), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 149/467 (31%), Positives = 233/467 (49%), Gaps = 94/467 (20%)

Query: 2   LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTL----------------T 45
           L  +AK +++ ++F E  VP   +  W++     + + A  ++                 
Sbjct: 39  LPPLAKFFIMAMVFNENEVPLLDLDKWVNSNGKLQFQNAIKSMKSLHLLIPNKSSGTLMI 98

Query: 46  ELRRNAKVAL---LGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTE 102
            L    K++L   L GG+  + S  + V+     LD L++Y+  +WE IL FMVG+   +
Sbjct: 99  NLNPTFKISLRNALTGGEVQN-SFGVVVEENVVSLDLLDEYSANKWETILHFMVGTPLAK 157

Query: 103 GISADAVRTLFNEGAENPV-------ITKDGFQFLLLETPAQVWYFILKYLETVESKGLD 155
             S   +  L +      V       IT +GFQFLL E  +Q+W  +L+YL+ +E+  +D
Sbjct: 158 IPSEKVLNLLKHSKLMEEVNSTGEFKITNEGFQFLLQEINSQLWTLLLQYLKMIETSKMD 217

Query: 156 LVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALN 215
           LV+ L F+F L     G  Y  + +S+  ++ LQ +R++GLV+Q+      FYPTKLAL 
Sbjct: 218 LVDVLHFIFMLGALEVGKAYKIDALSETQRIMLQDMRDYGLVFQKHSNDSIFYPTKLALM 277

Query: 216 M------------ATRGTLKQIRE----------------------------------PG 229
           +            A    L+Q RE                                   G
Sbjct: 278 LTSDTKTIRSASNAMDSVLRQNREEPSVNEDGANGKSTTDITTSDDLNKAGLKNQDIPDG 337

Query: 230 FLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQII 289
            LIVETNF++Y+Y++S L++A++ LF  L  RF N+ +G +TR+S+R AL +GITA QII
Sbjct: 338 SLIVETNFKIYSYSNSPLQIAVLSLFVHLKARFVNMVLGQITRESIRRALTNGITADQII 397

Query: 290 GFLRLHALPSV----------------SCP-----LPPVVSDQIRLWEGERERLTTSEGV 328
            +L  HA P +                +C      LPP V DQIRLW+ E +R+ T EG 
Sbjct: 398 AYLETHAHPQMRRLAEEKLEKKLELDPNCKEPLQVLPPTVVDQIRLWQLELDRVITYEGS 457

Query: 329 LYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF 375
           LYS F +  ++  L  YAQD+GVL W+++KK+   ++K+G+S +  F
Sbjct: 458 LYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFISKEGNSQVLDF 504

Acts as component of the general transcription and DNA repair factor IIH (TFIIH) core, which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH has CTD kinase and DNA-dependent ATPase activity, and is essential for polymerase II transcription in vitro.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q75B51|TFB2_ASHGO RNA polymerase II transcription factor B subunit 2 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=TFB2 PE=3 SV=1

 Score =  221 bits (563), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 137/459 (29%), Positives = 228/459 (49%), Gaps = 85/459 (18%)

Query: 2   LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL-------------- 47
           LS +AK +++ ++F ++ V    +  W+      +  +A  ++  L              
Sbjct: 48  LSPMAKFFIMSMIFQDEEVSLRDLDRWVKPDAKFQLHDAIKSMKLLHLITEGRSGQPLMV 107

Query: 48  ------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQT 101
                 + + K AL GG    S    +E ++    +  L+ YA ++WE IL FMVG+  T
Sbjct: 108 QLNSIFKESFKNALTGGEVKNSFGNVVEEENDPVTMAMLDSYAADKWETILHFMVGTPLT 167

Query: 102 EGISADAVRTL-------FNEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGL 154
           +    + +  L        +E ++   IT +GFQFLL +  AQ+W  +L+YL   E+  +
Sbjct: 168 KSPGKNVLSLLRHSKLMEVDESSKELKITNEGFQFLLQDANAQIWTLLLQYLTMAETFQM 227

Query: 155 DLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLAL 214
           D V+ L  +F +     G  YS  G+S+  +  LQ LR++GLV+Q++    +FYPT+LA 
Sbjct: 228 DPVDVLNLIFMIGALELGKAYSVVGLSETQKTMLQDLRDYGLVFQKQSNLSKFYPTRLAT 287

Query: 215 NM------------ATRGTLKQIRE-------------------------PGFLIVETNF 237
            +            A    L+Q  E                          G LIVETNF
Sbjct: 288 MLTSDVVSIRSASGAVNSVLRQRAEGVDGKVLNGTALGDDDLQAGGEGALDGALIVETNF 347

Query: 238 RVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHAL 297
           ++Y+Y++S L++A++ LF  L  RF N+  G +TR+S+R AL +GITA QII ++  HA 
Sbjct: 348 KLYSYSNSPLQIAILSLFIHLKTRFQNMVTGQITRESIRRALHNGITADQIIAYMETHAH 407

Query: 298 PSV----------------SC-----PLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQ 336
           P +                +C      LPP V DQI+LW+ E +R+ + +G L+  F + 
Sbjct: 408 PQMRRLAGDNLEKKLELDPNCRDTLQVLPPTVVDQIKLWQLELDRIISYDGYLFRDFDNL 467

Query: 337 ADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF 375
            +++ L  YA+D+GVL W ++KK+   V+K+G++ +  F
Sbjct: 468 QEYQVLAQYARDIGVLLWSDDKKKMFFVSKEGNAQVIDF 506

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA.

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

>sp|Q6FP41|TFB2_CANGA RNA polymerase II transcription factor B subunit 2 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=TFB2 PE=3 SV=1

 Score =  218 bits (556), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 143/458 (31%), Positives = 227/458 (49%), Gaps = 86/458 (18%)

Query: 2   LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL-------------- 47
           L  +AK +++ ++F ++ +    +  W+      + +EA  ++  L              
Sbjct: 39  LPTLAKFFIMTVIFNDKDISLRDLDRWVKSNGKLQFQEAIKSMKSLHLLIPTRVNGQLLI 98

Query: 48  ------RRNAKVALLGGGKPWSMSAKLEVD--SKARDLDFLNQYALERWECILRFMVGSQ 99
                 R + + AL GG    S    ++ D      +L  L++YA  +WE IL FMVG+ 
Sbjct: 99  NLNPTFRESFRNALTGGEVNNSFGIVVDEDRLDTVVNLAVLDEYAATKWETILHFMVGTP 158

Query: 100 QTEGISADAVRTLFNEG--AENP-----VITKDGFQFLLLETPAQVWYFILKYLETVESK 152
             +  S + +  L +     E P     +IT +GFQFLL E  +Q+W  +L+YL+  ES 
Sbjct: 159 MAKMPSENVLNLLKHSKLMEEVPDSSEFMITNEGFQFLLQEVNSQIWSLLLQYLKLAESL 218

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
            +D V  L F+F L     G  YSTE +S+     L  +R++GLV+Q+      FYPT+L
Sbjct: 219 HMDPVHVLNFIFMLGALETGKAYSTENLSETQLKMLLDMRDYGLVFQKTSNPNIFYPTRL 278

Query: 213 ALNMATRGTLKQIR----------------------------------EPGFLIVETNFR 238
           A  M T  T K +R                                  + G LI+ETNF+
Sbjct: 279 A-QMLTSDT-KSMRTASGAMESVLNKPDDAAKSTDDKYDSLEGKAEDIQDGALIIETNFK 336

Query: 239 VYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALP 298
           +Y+Y +S L++A++ LF  L  RF N+  G +TR+S+R AL +GITA Q+I +L  HA P
Sbjct: 337 LYSYCNSPLQIAILSLFVHLKSRFANMVAGQITRESIRRALINGITADQVIAYLESHAHP 396

Query: 299 SV----------------SCP-----LPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQA 337
            +                +C      LPP V DQI+LW+ E +R+ T EG LY  F +  
Sbjct: 397 QMRRLAEEKLQKKLELDPNCKDPLQVLPPTVVDQIKLWQLELDRVLTYEGSLYIDFDTAQ 456

Query: 338 DFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF 375
           DF  L  YAQD+G L W++++KR + V+++G++ + ++
Sbjct: 457 DFNMLCKYAQDIGALLWKDDRKRKLFVSREGNAQVLEY 494

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA.

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	386
350413829	467	PREDICTED: general transcription factor	0.992	0.820	0.641	1e-151
242021693	467	TFIIH basal transcription factor complex	0.992	0.820	0.628	1e-151
340710070	467	PREDICTED: general transcription factor	0.992	0.820	0.638	1e-151
345492819	428	PREDICTED: general transcription factor	0.994	0.897	0.632	1e-150
383852611	467	PREDICTED: general transcription factor	0.992	0.820	0.636	1e-150
48102983	467	PREDICTED: general transcription factor	0.992	0.820	0.636	1e-150
380014187	467	PREDICTED: general transcription factor	0.992	0.820	0.636	1e-150
307212060	467	General transcription factor IIH subunit	0.992	0.820	0.626	1e-148
307177222	467	General transcription factor IIH subunit	0.992	0.820	0.617	1e-147
91094191	472	PREDICTED: similar to TFIIH basal transc	0.992	0.811	0.619	1e-145

>gi|350413829|ref|XP_003490125.1| PREDICTED: general transcription factor IIH subunit 4-like [Bombus impatiens]

 Score =  540 bits (1392), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 268/418 (64%), Positives = 317/418 (75%), Gaps = 35/418 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  IAKHYV+RLLFVEQPVPQAVIASW SK H +EH++    L EL             
Sbjct: 49  ELPVIAKHYVMRLLFVEQPVPQAVIASWCSKLHFEEHQKVVLILNELNVWKEASIPGGLP 108

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ LLGGGKPW+MS +LE DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 109 GWILNTTFKKNLKIVLLGGGKPWTMSNQLETDSKPRDVAFLDSYALERWECVLHYMVGSQ 168

Query: 100 QTEGISADAVRTLF-------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L        +E   +PVIT+ GFQFLLLET +QVWYFIL+YL+T+E++
Sbjct: 169 QQEGISADAVRILLHAGLMKRDEADGSPVITQAGFQFLLLETASQVWYFILQYLDTIEAR 228

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDLVECLTFLFQL FST G DYSTEGMS+ L  FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 229 GLDLVECLTFLFQLNFSTLGKDYSTEGMSEGLSTFLQHLREFGLVYQRKRKAGRFYPTRL 288

Query: 213 ALNMATRGTLKQIREP---GFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT       R+P   G+++VETN+RVYAYT+SNL+VAL+GLFCE++YRFPNL V +
Sbjct: 289 ALNIATGQNKPLSRDPEKEGYIVVETNYRVYAYTNSNLQVALLGLFCEMLYRFPNLVVSI 348

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHA---LPSVSCP-LPPVVSDQIRLWEGERERLTTS 325
           LTRDSVR AL+SGITAAQI+G+L+ HA   +     P LPP + DQI+LWE ER R   S
Sbjct: 349 LTRDSVRQALKSGITAAQIVGYLQQHAHGKMIEAGPPVLPPTIVDQIKLWENERNRFIFS 408

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           EGVLYSQF+SQ DFE LRD+A   GVL WQNE+KRT+VVTK GH D+KKFW  + KGS
Sbjct: 409 EGVLYSQFLSQTDFEVLRDHALSTGVLIWQNERKRTIVVTKAGHDDVKKFWKRYSKGS 466

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242021693|ref|XP_002431278.1| TFIIH basal transcription factor complex p52 subunit, putative [Pediculus humanus corporis] gi|212516535|gb|EEB18540.1| TFIIH basal transcription factor complex p52 subunit, putative [Pediculus humanus corporis]

 Score =  540 bits (1390), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 262/417 (62%), Positives = 326/417 (78%), Gaps = 34/417 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR------------ 48
           EL +IA+HYV RLLFVEQPVPQAVIASW+S+TH+KEH  AT  LT+LR            
Sbjct: 50  ELPQIARHYVSRLLFVEQPVPQAVIASWISQTHSKEHLTATKVLTDLRVWQEAAIPGGLP 109

Query: 49  ---------RNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                    +N K++LLGGG+PW+MSA+LE D+K RD+ +L+ YA+ERWEC+L +MVGSQ
Sbjct: 110 GWILNSVFKKNMKISLLGGGRPWTMSAQLEPDTKPRDIPYLDNYAMERWECVLHYMVGSQ 169

Query: 100 QTEGISADAVRTLF-------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
             EGISADAVR L        +E   + VIT++GFQFLLL+T +QVWYF+L+YL+TV ++
Sbjct: 170 AQEGISADAVRILLHANLMKRDEEDGSCVITREGFQFLLLDTASQVWYFMLQYLDTVSAR 229

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
            LDLVECLTFLFQL FST G DYST GMS+ L VFLQHLREFGL+YQRKR+ GRFYPT+L
Sbjct: 230 NLDLVECLTFLFQLSFSTLGKDYSTIGMSEGLLVFLQHLREFGLIYQRKRRGGRFYPTRL 289

Query: 213 ALNMAT--RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVL 270
           ALN+A     +L+Q+ + G++I+ETN+RVYAYTDSNL+VAL+GLFCE++YRFPNL+VG++
Sbjct: 290 ALNIACGENKSLQQMNKEGYIIIETNYRVYAYTDSNLQVALLGLFCEMLYRFPNLSVGLI 349

Query: 271 TRDSVRAALRSGITAAQIIGFLRLHALP---SVSCP-LPPVVSDQIRLWEGERERLTTSE 326
           TRDSVR A +SGITA QI+GFLRLHA P   +V  P LPP V DQI+LWE E  RL  S+
Sbjct: 350 TRDSVRQAFKSGITAEQIVGFLRLHAHPRMIAVGPPTLPPTVVDQIKLWENELNRLVYSD 409

Query: 327 GVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           GVLYSQF+SQADFE LRD A +LGVL W+N+KKRT+VVTK GH D+KKFW ++ K +
Sbjct: 410 GVLYSQFLSQADFEALRDRANELGVLVWENDKKRTMVVTKSGHDDVKKFWKSYSKAN 466

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340710070|ref|XP_003393621.1| PREDICTED: general transcription factor IIH subunit 4-like [Bombus terrestris]

 Score =  539 bits (1389), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 267/418 (63%), Positives = 317/418 (75%), Gaps = 35/418 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  IAKHYV+RLLFVEQPVPQAVIASW SK H +EH++    L EL             
Sbjct: 49  ELPVIAKHYVMRLLFVEQPVPQAVIASWCSKLHFEEHQKVVLILNELNVWKEASIPGGLP 108

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ LLGGGKPW+MS +LE DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 109 GWILNTTFKKNLKIVLLGGGKPWTMSNQLETDSKPRDVAFLDSYALERWECVLHYMVGSQ 168

Query: 100 QTEGISADAVRTLF-------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L        +E   +PVIT+ GFQFLLLET +QVWYFIL+YL+T+E++
Sbjct: 169 QQEGISADAVRILLHAGLMKRDEADGSPVITQAGFQFLLLETASQVWYFILQYLDTIEAR 228

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDLVECLTFLFQL FST G DYSTEGMS+ L  FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 229 GLDLVECLTFLFQLNFSTLGKDYSTEGMSEGLSTFLQHLREFGLVYQRKRKAGRFYPTRL 288

Query: 213 ALNMATRGTLKQIREP---GFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT       R+P   G+++VETN+RVYAYT+SNL+VAL+GLFCE++YRFPNL V +
Sbjct: 289 ALNIATGQNKPLSRDPEKEGYIVVETNYRVYAYTNSNLQVALLGLFCEMLYRFPNLVVSI 348

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHA---LPSVSCP-LPPVVSDQIRLWEGERERLTTS 325
           LTRDSVR AL+SGITAAQI+G+L+ HA   +     P LPP + DQI+LWE ER R   +
Sbjct: 349 LTRDSVRQALKSGITAAQIVGYLQQHAHGKMIEAGPPVLPPTIVDQIKLWENERNRFIFN 408

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           EGVLYSQF+SQ DFE LRD+A   GVL WQNE+KRT+VVTK GH D+KKFW  + KGS
Sbjct: 409 EGVLYSQFLSQTDFEVLRDHALSTGVLIWQNERKRTIVVTKAGHDDVKKFWKRYSKGS 466

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345492819|ref|XP_001602702.2| PREDICTED: general transcription factor IIH subunit 4-like [Nasonia vitripennis]

 Score =  538 bits (1386), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 265/419 (63%), Positives = 315/419 (75%), Gaps = 35/419 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL EIA+HYV+RLLFVEQPVPQAVIASW SK H + H      + EL             
Sbjct: 10  ELPEIARHYVMRLLFVEQPVPQAVIASWCSKLHVENHLNVVQVMNELNIWKEAAIPGGLP 69

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   R+N K+ LLGGG PW+MS +LE+DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 70  GWILNATFRKNLKIVLLGGGAPWTMSKQLEIDSKPRDIAFLDSYALERWECVLHYMVGSQ 129

Query: 100 QTEGISADAVRTLFNEGAE-------NPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L + G         +PVIT+ GFQFLLL+T AQVWYFIL+YL+TVE++
Sbjct: 130 QQEGISADAVRILLHAGLMKRDEEDGSPVITQAGFQFLLLDTSAQVWYFILQYLDTVEAR 189

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDLVECLTFLFQL FST G DYST+GMSD L +FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 190 GLDLVECLTFLFQLNFSTLGKDYSTQGMSDGLLMFLQHLREFGLVYQRKRKAGRFYPTRL 249

Query: 213 ALNMAT---RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT   +   + + +  F+IVETN+RVYAYT+SNL+VALIGLFCEL+YRFPNL V +
Sbjct: 250 ALNIATGQDKPISRDLEKERFVIVETNYRVYAYTNSNLQVALIGLFCELLYRFPNLVVAI 309

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHALPSVSCP----LPPVVSDQIRLWEGERERLTTS 325
           LTRDSVRAAL+SGITA QI+G+L  HA   +  P    LPP + DQI+LWE ER R   S
Sbjct: 310 LTRDSVRAALKSGITAVQIVGYLNQHAHNKMIDPGPPTLPPTIVDQIKLWENERNRFIFS 369

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGSQ 384
           EGVLYSQF SQ DFE LRD+A  LGV+ WQ+++KRT+VVTK GH D+KKFW  + KG+ 
Sbjct: 370 EGVLYSQFHSQIDFEVLRDHAVSLGVMIWQSDRKRTMVVTKTGHDDVKKFWKRYSKGAN 428

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383852611|ref|XP_003701820.1| PREDICTED: general transcription factor IIH subunit 4-like [Megachile rotundata]

 Score =  537 bits (1384), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 266/418 (63%), Positives = 317/418 (75%), Gaps = 35/418 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  IAKHYV+RLLFVEQPVPQAVIASW SK H +EH++    L EL             
Sbjct: 49  ELPVIAKHYVMRLLFVEQPVPQAVIASWCSKLHFEEHQKVVSILNELNVWKEASIPGGLP 108

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ LLGGGKPW+MS +LE DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 109 GWILNTTFKKNLKIVLLGGGKPWTMSNQLETDSKPRDVAFLDSYALERWECVLHYMVGSQ 168

Query: 100 QTEGISADAVRTLF-------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L        +E   +PVIT+ GFQFLLLET +QVWYFIL+YL+T+E++
Sbjct: 169 QQEGISADAVRILLHAGLMKRDEADGSPVITQAGFQFLLLETASQVWYFILQYLDTIEAR 228

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDLVECLTFLFQL FST G DYSTEGMS+ L  FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 229 GLDLVECLTFLFQLNFSTLGKDYSTEGMSEGLLTFLQHLREFGLVYQRKRKAGRFYPTRL 288

Query: 213 ALNMATRGTLKQIREP---GFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT       R+P   G+++VETN+RVYAYT+SNL+VAL+GLFCE++YRFPNL V +
Sbjct: 289 ALNIATGQNKPLSRDPDKEGYIVVETNYRVYAYTNSNLQVALLGLFCEMLYRFPNLVVSI 348

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHA---LPSVSCP-LPPVVSDQIRLWEGERERLTTS 325
           LTRDSVR AL+SGITA+QI+G+L+ HA   +     P LPP + DQI+LWE ER R   S
Sbjct: 349 LTRDSVRQALKSGITASQIVGYLQQHAHSKMIEAGPPVLPPTIVDQIKLWENERNRFIFS 408

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           EGVLYSQF+SQ DFE LRD+A   GVL WQ+E+KRT+VVTK GH D+KKFW  + KGS
Sbjct: 409 EGVLYSQFLSQTDFEVLRDHALSTGVLIWQSERKRTMVVTKAGHDDVKKFWKRYSKGS 466

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|48102983|ref|XP_395476.1| PREDICTED: general transcription factor IIH subunit 4 [Apis mellifera]

 Score =  536 bits (1380), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 266/418 (63%), Positives = 316/418 (75%), Gaps = 35/418 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  IAKHYV+RLLFVEQPVPQAVIASW SK H +EH++    L EL             
Sbjct: 49  ELPVIAKHYVMRLLFVEQPVPQAVIASWCSKLHFEEHQKVVLVLNELNVWNEASIPGGLP 108

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ LLGGGKPW+MS +LE DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 109 GWILNTTFKKNLKIVLLGGGKPWTMSNQLETDSKPRDVAFLDSYALERWECVLHYMVGSQ 168

Query: 100 QTEGISADAVRTLF-------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L        +E   +PVIT+ GFQFLLLET +QVWYFIL+YL+T+E++
Sbjct: 169 QQEGISADAVRILLHAGLMKRDEADGSPVITQAGFQFLLLETASQVWYFILQYLDTIEAR 228

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDLVECLTFLFQL FST G DYSTEGMS+ L  FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 229 GLDLVECLTFLFQLNFSTLGKDYSTEGMSEGLLTFLQHLREFGLVYQRKRKAGRFYPTRL 288

Query: 213 ALNMATRGTLKQIREP---GFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT       R+P   G+++VETN+RVYAYT+SNL+VAL+GLFCE++YRFPNL V +
Sbjct: 289 ALNIATGQNKPLSRDPEKEGYIVVETNYRVYAYTNSNLQVALLGLFCEMLYRFPNLVVSI 348

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHA---LPSVSCP-LPPVVSDQIRLWEGERERLTTS 325
           LTRDSVR AL+SGITA QI+G+L+ HA   +     P LPP + DQI+LWE ER R   S
Sbjct: 349 LTRDSVRQALKSGITATQIVGYLQQHAHSKMIEAGPPILPPTIVDQIKLWENERNRFIFS 408

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           EGVLYSQF+SQ DFE LRD+A   GVL WQ+E+KRT+VVTK GH D+KKFW  + KGS
Sbjct: 409 EGVLYSQFLSQTDFEVLRDHALSTGVLIWQSERKRTMVVTKAGHDDVKKFWKRYSKGS 466

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380014187|ref|XP_003691121.1| PREDICTED: general transcription factor IIH subunit 4-like [Apis florea]

 Score =  536 bits (1380), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 266/418 (63%), Positives = 316/418 (75%), Gaps = 35/418 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  IAKHYV+RLLFVEQPVPQAVIASW SK H +EH++    L EL             
Sbjct: 49  ELPVIAKHYVMRLLFVEQPVPQAVIASWCSKLHFEEHQKVVLILNELNVWNEASIPGGLP 108

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ LLGGGKPW+MS +LE DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 109 GWILNTTFKKNLKIVLLGGGKPWTMSNQLETDSKPRDVAFLDSYALERWECVLHYMVGSQ 168

Query: 100 QTEGISADAVRTLF-------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L        +E   +PVIT+ GFQFLLLET +QVWYFIL+YL+T+E++
Sbjct: 169 QQEGISADAVRILLHAGLMKRDEADGSPVITQAGFQFLLLETASQVWYFILQYLDTIEAR 228

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDLVECLTFLFQL FST G DYSTEGMS+ L  FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 229 GLDLVECLTFLFQLNFSTLGKDYSTEGMSEGLLTFLQHLREFGLVYQRKRKAGRFYPTRL 288

Query: 213 ALNMATRGTLKQIREP---GFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT       R+P   G+++VETN+RVYAYT+SNL+VAL+GLFCE++YRFPNL V +
Sbjct: 289 ALNIATGQNKPLSRDPEKEGYIVVETNYRVYAYTNSNLQVALLGLFCEMLYRFPNLVVSI 348

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHA---LPSVSCP-LPPVVSDQIRLWEGERERLTTS 325
           LTRDSVR AL+SGITA QI+G+L+ HA   +     P LPP + DQI+LWE ER R   S
Sbjct: 349 LTRDSVRQALKSGITATQIVGYLQQHAHSKMIEAGPPILPPTIVDQIKLWENERNRFIFS 408

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           EGVLYSQF+SQ DFE LRD+A   GVL WQ+E+KRT+VVTK GH D+KKFW  + KGS
Sbjct: 409 EGVLYSQFLSQTDFEVLRDHALSTGVLIWQSERKRTMVVTKAGHDDVKKFWKRYSKGS 466

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307212060|gb|EFN87943.1| General transcription factor IIH subunit 4 [Harpegnathos saltator]

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 262/418 (62%), Positives = 315/418 (75%), Gaps = 35/418 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  IAKHYV+RLLFVEQPVPQAVIASW SK + +EH++    L EL             
Sbjct: 49  ELPIIAKHYVMRLLFVEQPVPQAVIASWCSKLYFEEHQKVVQILNELYVWKEASIPGGLP 108

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ LLGGG+PW+MS +LE DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 109 GWILNNTFKKNLKIVLLGGGRPWTMSNQLETDSKPRDVAFLDSYALERWECVLHYMVGSQ 168

Query: 100 QTEGISADAVRTLFNEGAE-------NPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L + G         +P+IT+ GFQFLLL+T +QVWYFIL+YL+T+E++
Sbjct: 169 QQEGISADAVRILLHAGLMKRDETDGSPIITQAGFQFLLLDTASQVWYFILQYLDTIEAR 228

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDL+ECLTFLFQL FST G DYSTEGMS+ L  FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 229 GLDLIECLTFLFQLNFSTLGKDYSTEGMSEGLLTFLQHLREFGLVYQRKRKAGRFYPTRL 288

Query: 213 ALNMATRGTLKQIREP---GFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT  T    R+    G+++VETN+RVYAYT+SNL+VAL+GLFCE++YRFPNL V +
Sbjct: 289 ALNIATGETKPLTRDTDKEGYIVVETNYRVYAYTNSNLQVALLGLFCEMIYRFPNLVVSI 348

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHA----LPSVSCPLPPVVSDQIRLWEGERERLTTS 325
           LTRDSVR AL+SGITA QI+G+L+ HA    + +    LPP + DQI LWE ER R   S
Sbjct: 349 LTRDSVRQALKSGITATQIVGYLQQHAHSKTIEAGPPILPPTIVDQIMLWENERNRFLFS 408

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           EGVLYSQF+SQ DFE LRD+A   GVL WQNE+KRT+VVTK GH DIKKFW  + KGS
Sbjct: 409 EGVLYSQFLSQTDFEVLRDHALTTGVLIWQNERKRTIVVTKAGHDDIKKFWKRYSKGS 466

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307177222|gb|EFN66420.1| General transcription factor IIH subunit 4 [Camponotus floridanus]

 Score =  526 bits (1354), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 258/418 (61%), Positives = 316/418 (75%), Gaps = 35/418 (8%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  IAKHYV+RLLFVEQPVPQAVIASW SK + +EH++    L +L             
Sbjct: 49  ELPIIAKHYVMRLLFVEQPVPQAVIASWCSKLYFEEHQKVVQVLNDLYVWKEASIPGGLP 108

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ LLGGGKPW+MS +LE DSK RD+ FL+ YALERWEC+L +MVGSQ
Sbjct: 109 GWILNNIFKKNLKIVLLGGGKPWTMSNQLETDSKPRDVAFLDSYALERWECVLHYMVGSQ 168

Query: 100 QTEGISADAVRTLF-------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L        +E   +P+IT+ GFQFLLL+T +QVWYFIL+YL+T+E++
Sbjct: 169 QQEGISADAVRILLHAGLMKRDEADGSPIITQAGFQFLLLDTASQVWYFILQYLDTIEAR 228

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GLDLVECLTFLFQL FST G DYSTEGMS+ L  FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 229 GLDLVECLTFLFQLNFSTLGKDYSTEGMSEGLLTFLQHLREFGLVYQRKRKAGRFYPTRL 288

Query: 213 ALNMAT---RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGV 269
           ALN+AT   +   K   + G+++VETN+RVYAYT+SNL+VAL+GLFCE++YRFPN+ V +
Sbjct: 289 ALNIATGENKPLAKDTDKEGYIVVETNYRVYAYTNSNLQVALLGLFCEMLYRFPNVVVSI 348

Query: 270 LTRDSVRAALRSGITAAQIIGFLRLHALPSV---SCP-LPPVVSDQIRLWEGERERLTTS 325
           LTRDS+R AL+SGITA+QI+G+L+ H    +     P LPP + DQI+LWE ER R   S
Sbjct: 349 LTRDSIRQALKSGITASQIVGYLQQHVHSKMIERGPPILPPTIVDQIKLWENERNRFLFS 408

Query: 326 EGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
           EGVLYSQF+SQ DFE LRD+A   GVL WQ+E+KRT+VVTK GH D+KKFW  + KGS
Sbjct: 409 EGVLYSQFLSQTDFEVLRDHALSTGVLIWQSERKRTMVVTKTGHDDVKKFWKRYSKGS 466

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91094191|ref|XP_971121.1| PREDICTED: similar to TFIIH basal transcription factor complex p52 subunit [Tribolium castaneum] gi|270010854|gb|EFA07302.1| hypothetical protein TcasGA2_TC015892 [Tribolium castaneum]

 Score =  522 bits (1344), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 261/421 (61%), Positives = 316/421 (75%), Gaps = 38/421 (9%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL E+A+ YVIR+LFVEQPVPQAV+ASW ++  +KEH   +  L+EL             
Sbjct: 52  ELPELARQYVIRILFVEQPVPQAVVASWGAQAFSKEHVYVSKVLSELSVWQEAAIPGGLL 111

Query: 48  --------RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                   ++N K+ALLGGGKPWSMS+ LEVDSKARD+ FL+ Y+LERWEC+L +MVGSQ
Sbjct: 112 GWILSVTFKKNLKIALLGGGKPWSMSSALEVDSKARDVSFLDAYSLERWECVLHYMVGSQ 171

Query: 100 QTEGISADAVRTLFNEGA-------ENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
           Q EGISADAVR L + G         +PVIT+ GFQFLLL+  AQVW+F+L+YL+TVE +
Sbjct: 172 QQEGISADAVRILLHAGLMKRDEEDGSPVITRQGFQFLLLDRQAQVWHFLLQYLDTVEQR 231

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           GL LVECLTFLFQL FST G DYSTEGMS  L +FLQHLREFGLVYQRKRKAGRFYPT+L
Sbjct: 232 GLSLVECLTFLFQLSFSTLGKDYSTEGMSPGLLIFLQHLREFGLVYQRKRKAGRFYPTRL 291

Query: 213 ALNM-ATRGTLKQIRE----PGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTV 267
           ALN+  ++G   +I E     G++IVETN+RVYAYTDSNL+VALIGLF ELMYRFPNL V
Sbjct: 292 ALNITCSQGPETRILEEDTPKGYIIVETNYRVYAYTDSNLQVALIGLFTELMYRFPNLVV 351

Query: 268 GVLTRDSVRAALRSGITAAQIIGFLRLHALPSV-----SCPLPPVVSDQIRLWEGERERL 322
           GV+TRDS+R AL+ GITA QIIG+L+ HA P +       PLPP V DQI+LWE ER RL
Sbjct: 352 GVITRDSIRQALKGGITADQIIGYLKQHAHPQMLEGEAKHPLPPTVVDQIKLWEIERNRL 411

Query: 323 TTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKG 382
           T SEGVLYSQF+SQADF  L++YAQ  G L W N++KRT+++ K  H D+KKFW  + KG
Sbjct: 412 TYSEGVLYSQFLSQADFNILKEYAQSNGHLIWCNKEKRTLIINKSAHDDVKKFWKRYSKG 471

Query: 383 S 383
           +
Sbjct: 472 N 472

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	386
UNIPROTKB|Q92759	462	GTF2H4 "General transcription	0.865	0.722	0.550	6.5e-106
UNIPROTKB|P60027	462	GTF2H4 "General transcription	0.865	0.722	0.550	6.5e-106
RGD|1303309	463	Gtf2h4 "general transcription	0.865	0.721	0.550	6.5e-106
MGI|MGI:1338799	463	Gtf2h4 "general transcription	0.865	0.721	0.550	8.2e-106
UNIPROTKB|F1PGI3	463	GTF2H4 "Uncharacterized protei	0.865	0.721	0.553	2.8e-105
UNIPROTKB|Q767M2	463	TFIIH "Uncharacterized protein	0.865	0.721	0.547	2.8e-105
UNIPROTKB|A6H7G8	463	GTF2H4 "Uncharacterized protei	0.867	0.723	0.544	5.8e-105
FB|FBgn0261109	499	mrn "marionette" [Drosophila m	0.645	0.498	0.546	3.5e-88
ZFIN|ZDB-GENE-030131-6779	466	gtf2h4 "general transcription	0.637	0.527	0.533	2.8e-80
POMBASE|SPBC13G1.13	447	tfb2 "transcription factor TFI	0.839	0.724	0.424	4.2e-63

UNIPROTKB|Q92759 GTF2H4 "General transcription factor IIH subunit 4" [Homo sapiens (taxid:9606)]

 Score = 941 (336.3 bits), Expect = 6.5e-106, Sum P(2) = 6.5e-106
 Identities = 192/349 (55%), Positives = 249/349 (71%)

Query:    48 RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISA 106
             R+N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS     +S 
Sbjct:   115 RQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGSPSA-AVSQ 173

Query:   107 DAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
             D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S+G+DLVE 
Sbjct:   174 DLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEI 233

Query:   160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT- 218
             L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+LA+N+++ 
Sbjct:   234 LSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTRLAINLSSG 293

Query:   219 -RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRA 277
               G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  +TR+SV+ 
Sbjct:   294 VSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQVTRESVQQ 353

Query:   278 ALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVLYSQFV 334
             A+ SGITA QII FLR  A                DQIRLWE ER+RL  +EGVLY+QF+
Sbjct:   354 AIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTEGVLYNQFL 413

Query:   335 SQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
             SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   QK S
Sbjct:   414 SQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFW-KRQKHS 461

GO:0000439 "core TFIIH complex" evidence=IEA

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IDA;TAS

GO:0004672 "protein kinase activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005675 "holo TFIIH complex" evidence=IDA

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IDA

GO:0008094 "DNA-dependent ATPase activity" evidence=IDA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=TAS

GO:0000718 "nucleotide-excision repair, DNA damage removal" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0006289 "nucleotide-excision repair" evidence=TAS

GO:0006360 "transcription from RNA polymerase I promoter" evidence=TAS

GO:0006361 "transcription initiation from RNA polymerase I promoter" evidence=TAS

GO:0006362 "transcription elongation from RNA polymerase I promoter" evidence=TAS

GO:0006363 "termination of RNA polymerase I transcription" evidence=TAS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=TAS

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=TAS

GO:0006370 "7-methylguanosine mRNA capping" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0050434 "positive regulation of viral transcription" evidence=TAS

GO:0006468 "protein phosphorylation" evidence=IDA

UNIPROTKB|P60027 GTF2H4 "General transcription factor IIH subunit 4" [Pan troglodytes (taxid:9598)]

 Score = 941 (336.3 bits), Expect = 6.5e-106, Sum P(2) = 6.5e-106
 Identities = 192/349 (55%), Positives = 249/349 (71%)

Query:    48 RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISA 106
             R+N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS     +S 
Sbjct:   115 RQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGSPSA-AVSQ 173

Query:   107 DAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
             D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S+G+DLVE 
Sbjct:   174 DLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEI 233

Query:   160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT- 218
             L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+LA+N+++ 
Sbjct:   234 LSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTRLAINLSSG 293

Query:   219 -RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRA 277
               G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  +TR+SV+ 
Sbjct:   294 VSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQVTRESVQQ 353

Query:   278 ALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVLYSQFV 334
             A+ SGITA QII FLR  A                DQIRLWE ER+RL  +EGVLY+QF+
Sbjct:   354 AIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTEGVLYNQFL 413

Query:   335 SQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
             SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   QK S
Sbjct:   414 SQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFW-KRQKHS 461

GO:0005675 "holo TFIIH complex" evidence=ISS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISS

GO:0004672 "protein kinase activity" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=ISS

RGD|1303309 Gtf2h4 "general transcription factor II H, polypeptide 4" [Rattus norvegicus (taxid:10116)]

 Score = 941 (336.3 bits), Expect = 6.5e-106, Sum P(2) = 6.5e-106
 Identities = 192/349 (55%), Positives = 249/349 (71%)

Query:    48 RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISA 106
             R+N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS     +S 
Sbjct:   116 RQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGSPSA-AVSQ 174

Query:   107 DAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
             D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S+G+DLVE 
Sbjct:   175 DLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEI 234

Query:   160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT- 218
             L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+LA+N+++ 
Sbjct:   235 LSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTRLAINLSSG 294

Query:   219 -RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRA 277
               G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  +TR+SV+ 
Sbjct:   295 VSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQVTRESVQQ 354

Query:   278 ALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVLYSQFV 334
             A+ SGITA QII FLR  A                DQIRLWE ER+RL  +EGVLY+QF+
Sbjct:   355 AIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTEGVLYNQFL 414

Query:   335 SQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
             SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   QK S
Sbjct:   415 SQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFW-KRQKHS 462

GO:0000439 "core TFIIH complex" evidence=IEA

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA;ISO

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA;ISO

GO:0006468 "protein phosphorylation" evidence=ISO

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA;ISO

GO:0004672 "protein kinase activity" evidence=ISO

GO:0008094 "DNA-dependent ATPase activity" evidence=ISO

MGI|MGI:1338799 Gtf2h4 "general transcription factor II H, polypeptide 4" [Mus musculus (taxid:10090)]

 Score = 940 (336.0 bits), Expect = 8.2e-106, Sum P(2) = 8.2e-106
 Identities = 192/349 (55%), Positives = 249/349 (71%)

Query:    48 RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISA 106
             R+N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS     +S 
Sbjct:   116 RQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGSPSA-AVSQ 174

Query:   107 DAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
             D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S+G+DLVE 
Sbjct:   175 DLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEI 234

Query:   160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT- 218
             L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+LA+N+++ 
Sbjct:   235 LSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTRLAINLSSG 294

Query:   219 -RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRA 277
               G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  +TR+SV+ 
Sbjct:   295 VSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQVTRESVQQ 354

Query:   278 ALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVLYSQFV 334
             A+ SGITA QII FLR  A                DQIRLWE ER+RL  +EGVLY+QF+
Sbjct:   355 AIASGITAQQIIHFLRTRAHPVMLKQNPVLPPTITDQIRLWELERDRLRFTEGVLYNQFL 414

Query:   335 SQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
             SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   QK S
Sbjct:   415 SQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFW-KRQKHS 462

GO:0000439 "core TFIIH complex" evidence=IEA

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISO

GO:0006468 "protein phosphorylation" evidence=ISO

GO:0006974 "response to DNA damage stimulus" evidence=IEA

UNIPROTKB|F1PGI3 GTF2H4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 938 (335.3 bits), Expect = 2.8e-105, Sum P(2) = 2.8e-105
 Identities = 193/349 (55%), Positives = 248/349 (71%)

Query:    48 RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISA 106
             R+N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS     +S 
Sbjct:   116 RQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGSPSA-AVSQ 174

Query:   107 DAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
             D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S+G+DLVE 
Sbjct:   175 DLAQLLSQAGLMKSTEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEI 234

Query:   160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT- 218
             L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+LA+N+++ 
Sbjct:   235 LSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTRLAINLSSG 294

Query:   219 -RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRA 277
               G      +PGF+IVETN+R+YAYT+S L++ALI LF E++YRFPN+ V  +TR+SV+ 
Sbjct:   295 VSGAGGTAHQPGFIIVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQVTRESVQQ 354

Query:   278 ALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVLYSQFV 334
             A+ SGITA QII FLR  A                DQIRLWE ER+RL  +EGVLY+QF+
Sbjct:   355 AIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTEGVLYNQFL 414

Query:   335 SQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
             SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   QK S
Sbjct:   415 SQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFW-KRQKHS 462

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0000439 "core TFIIH complex" evidence=IEA

UNIPROTKB|Q767M2 TFIIH "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 935 (334.2 bits), Expect = 2.8e-105, Sum P(2) = 2.8e-105
 Identities = 191/349 (54%), Positives = 248/349 (71%)

Query:    48 RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISA 106
             R+N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS     +S 
Sbjct:   116 RQNLRIALLGGGKAWSDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGSPSA-AVSQ 174

Query:   107 DAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
             D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S+G+DLVE 
Sbjct:   175 DLAQLLSQAGLMKSAEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEI 234

Query:   160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT- 218
             L+FLFQL FST G DYS EGMSD L  FLQHLRE GLV+QRKRK+ R+YPT+LA+N+++ 
Sbjct:   235 LSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLRELGLVFQRKRKSRRYYPTRLAINLSSG 294

Query:   219 -RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRA 277
               G    + +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  +TR+SV+ 
Sbjct:   295 VSGAGGTVHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQVTRESVQQ 354

Query:   278 ALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVLYSQFV 334
             A+ SGITA QII FLR  A                DQIRLWE ER+RL  +EGVLY+QF+
Sbjct:   355 AIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTEGVLYNQFL 414

Query:   335 SQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
             SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   QK S
Sbjct:   415 SQVDFELLLAHARELGVLVFENSAKRLMVVTPAGHSDVKRFW-KRQKHS 462

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0000439 "core TFIIH complex" evidence=IEA

UNIPROTKB|A6H7G8 GTF2H4 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 932 (333.1 bits), Expect = 5.8e-105, Sum P(2) = 5.8e-105
 Identities = 190/349 (54%), Positives = 247/349 (70%)

Query:    48 RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISA 106
             R+N ++ALLGGGK WS  +++L  D  ARD+  L++YA ERWE +L FMVGS     +S 
Sbjct:   116 RQNLRIALLGGGKAWSDDTSQLGPDKHARDVLSLDKYAEERWEVVLHFMVGSPSA-AVSQ 174

Query:   107 DAVRTLFNEG-------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVEC 159
             D  + L   G        E P IT  GFQFLLL+TPAQ+WYF+L+YL+T +S+G+DLVE 
Sbjct:   175 DLAQLLSQAGLMKSAEPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEI 234

Query:   160 LTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT- 218
             L+FLFQL FST G DYS EGMSD L  FLQHLREFGLV+QRKRK+ R+YPT+LA+N+++ 
Sbjct:   235 LSFLFQLSFSTLGKDYSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTRLAINLSSG 294

Query:   219 -RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRA 277
               G      +PGF++VETN+R+YAYT+S L++ALI LF E++YRFPN+ V  +TR+SV+ 
Sbjct:   295 VSGAGGTAHQPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPNMVVAQVTRESVQQ 354

Query:   278 ALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVLYSQFV 334
             A+ SGITA QII FLR  A                DQIRLWE ER+RL  +EGVLY+QF+
Sbjct:   355 AIASGITAQQIIHFLRTRAHPVMLKQTPVLPPTITDQIRLWELERDRLRFTEGVLYNQFL 414

Query:   335 SQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS 383
             SQ DFE L  +A++LGVL ++N  KR +VVT  GHSD+K+FW   +  S
Sbjct:   415 SQVDFELLLAHARELGVLMFENSAKRLMVVTPAGHSDVKRFWKRQKHNS 463

GO:0008353 "RNA polymerase II carboxy-terminal domain kinase activity" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0000439 "core TFIIH complex" evidence=IEA

FB|FBgn0261109 mrn "marionette" [Drosophila melanogaster (taxid:7227)]

 Score = 741 (265.9 bits), Expect = 3.5e-88, Sum P(2) = 3.5e-88
 Identities = 147/269 (54%), Positives = 194/269 (72%)

Query:    48 RRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGS-----QQTE 102
             +++ +  LLGGGKPW M+  L+ DSK RD+ FL+ YA+ RW C+L +MVG+        E
Sbjct:   134 KKSVRQVLLGGGKPWPMTNTLDKDSKPRDIAFLDTYAMSRWRCVLHYMVGTGNRNGTDAE 193

Query:   103 GISADAVRTLFN------EGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDL 156
              IS DAVR L +      +  +   IT+ GFQFLLL+T AQVW+F+L+YL+T E +G+ L
Sbjct:   194 AISPDAVRILLHANLMKRDERDGITITRQGFQFLLLDTRAQVWHFMLQYLDTCEERGISL 253

Query:   157 VECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNM 216
              ECL+ LFQL FST G DYS+EGM+ ++  FLQHLREFGLV+QRKRK GRFYPT+LALN+
Sbjct:   254 PECLSMLFQLSFSTLGRDYSSEGMNSQMLTFLQHLREFGLVFQRKRKEGRFYPTRLALNV 313

Query:   217 ATRGTL---------KQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTV 267
              ++            +  ++ G+++VETN+RVYAYTDS L+VA++GLF EL+YRFPNL V
Sbjct:   314 TSKEAAATASVAMDEEATQDCGYIVVETNYRVYAYTDSPLQVAVLGLFTELLYRFPNLVV 373

Query:   268 GVLTRDSVRAALRSGITAAQIIGFLRLHA 296
             GVLTRDSVR ALR GITA QI+ +L  +A
Sbjct:   374 GVLTRDSVRQALRGGITAEQIVSYLEQYA 402

GO:0005675 "holo TFIIH complex" evidence=ISS;IDA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISS

GO:0000439 "core TFIIH complex" evidence=ISS;IPI

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0001671 "ATPase activator activity" evidence=IDA

GO:0001111 "promoter clearance from RNA polymerase II promoter" evidence=ISS

GO:0006289 "nucleotide-excision repair" evidence=IDA;IMP

GO:0010224 "response to UV-B" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0001113 "transcriptional open complex formation at RNA polymerase II promoter" evidence=ISS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IDA

ZFIN|ZDB-GENE-030131-6779 gtf2h4 "general transcription factor IIH, polypeptide 4" [Danio rerio (taxid:7955)]

 Score = 698 (250.8 bits), Expect = 2.8e-80, Sum P(2) = 2.8e-80
 Identities = 143/268 (53%), Positives = 186/268 (69%)

Query:    50 NAKVALLGGGKPWS-MSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADA 108
             N ++ALLGGGKPW+   A L  D  ARD++ L++YA+ERWE IL FMVGS     +S D 
Sbjct:   110 NLRIALLGGGKPWADEGANLGPDRHARDVESLDRYAMERWEVILHFMVGSPSA-AVSQDL 168

Query:   109 VRTLFNEG------AENPVITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECLTF 162
              + L   G       E P IT  GFQFLLL+T +Q+WYF L+YL+T +S+G+DLVE L+F
Sbjct:   169 AQLLIQAGLMKSETGEAPCITSAGFQFLLLDTASQLWYFTLQYLKTAQSRGMDLVEILSF 228

Query:   163 LFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATR--- 219
             LFQL FST G DYS EGMS+ L  FLQHLREFGLV+QRKRK+ R+YPT+LA+ +A     
Sbjct:   229 LFQLSFSTLGRDYSVEGMSESLLTFLQHLREFGLVFQRKRKSRRYYPTRLAITLAAGVTA 288

Query:   220 -----------GTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVG 268
                        G +    + GF++VETN+R+YAYT+S L++AL+ LF E++YRFPNL V 
Sbjct:   289 NPASGSASSALGAIPGTGDTGFIVVETNYRIYAYTNSELQIALVALFSEMLYRFPNLVVA 348

Query:   269 VLTRDSVRAALRSGITAAQIIGFLRLHA 296
              +TR+SV+ A+ +GITA QII FLR  A
Sbjct:   349 QVTRESVQQAISNGITAQQIIHFLRTRA 376

GO:0005634 "nucleus" evidence=IEA

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0000439 "core TFIIH complex" evidence=IEA

POMBASE|SPBC13G1.13 tfb2 "transcription factor TFIIH complex subunit Tfb2" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 617 (222.3 bits), Expect = 4.2e-63, Sum P(2) = 4.2e-63
 Identities = 144/339 (42%), Positives = 197/339 (58%)

Query:    45 TELRRNAKVALLGGGKPWSMSAKL-EVDSKARDLDFLNQYALERWECILRFMVGSQQT-- 101
             +E R+    AL GGG   S      + D     +DFL+ YA E WE IL FMVG+ +   
Sbjct:    95 SEFRKQFITALTGGGNHNSFGVPCTDEDKHLVTVDFLDAYAKETWETILHFMVGTPEAKF 154

Query:   102 --EGISADAVRTLFNEGAENPV-ITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVE 158
               EG+ +   R     G +N + IT+ GFQFLL +  AQ+W  +L YL+  E   +D V+
Sbjct:   155 PGEGVLSLLKRGGLMSGPKNQLRITRAGFQFLLQDINAQIWTLLLDYLKLSEDTHMDPVQ 214

Query:   159 CLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMAT 218
              L FLF L     G  YS + ++D  Q+ L+ LRE+GLVYQRK  + RFYPT+LA  + T
Sbjct:   215 VLHFLFMLGSLDLGRAYSVDFLTDTQQIMLEDLREYGLVYQRKITSKRFYPTRLATGLTT 274

Query:   219 R-GTL--KQIR---EPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTR 272
                +L  KQ     + GF+IVETN+R+YAYT S L++A+IGLF  L  RF NL VGV+TR
Sbjct:   275 DYRSLHGKQSENDDDKGFIIVETNYRLYAYTSSPLQIAIIGLFANLRARFSNLVVGVITR 334

Query:   273 DSVRAALRSGITAAQIIGFLRLHAXXXXXXXXXX---XXXDQIRLWEGERERLTTSEGVL 329
             DS+R AL +GI A QII +L  HA                DQI LWE E+ RL  + G+L
Sbjct:   335 DSIRRALMNGIAAEQIITYLTTHAHPQMRSNVPLLPPTLVDQIYLWELEKNRLRATPGIL 394

Query:   330 YSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQG 368
             +  F++ + F++  +YA++LGVL W +  KR   +T  G
Sbjct:   395 FRDFLTDSGFDQAVEYAKELGVLVWDSSLKRMFFITTTG 433

GO:0000112 "nucleotide-excision repair factor 3 complex" evidence=ISO

GO:0000439 "core TFIIH complex" evidence=ISO

GO:0000717 "nucleotide-excision repair, DNA duplex unwinding" evidence=ISO

GO:0000991 "core RNA polymerase II binding transcription factor activity" evidence=ISO

GO:0004003 "ATP-dependent DNA helicase activity" evidence=IEA

GO:0005675 "holo TFIIH complex" evidence=ISO

GO:0005737 "cytoplasm" evidence=IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P60027	TF2H4_PANTR	No assigned EC number	0.5179	0.9896	0.8268	yes	N/A
Q6BGW8	TFB2_DEBHA	No assigned EC number	0.32	0.9844	0.7378	yes	N/A
Q6FP41	TFB2_CANGA	No assigned EC number	0.3122	0.9637	0.7380	yes	N/A
Q54C29	TF2H4_DICDI	No assigned EC number	0.3402	0.8134	0.6501	yes	N/A
Q6CLR2	TFB2_KLULA	No assigned EC number	0.3170	0.9689	0.7540	yes	N/A
P87303	TFB2_SCHPO	No assigned EC number	0.3944	0.9507	0.8210	yes	N/A
Q92759	TF2H4_HUMAN	No assigned EC number	0.5179	0.9896	0.8268	yes	N/A
O70422	TF2H4_MOUSE	No assigned EC number	0.5179	0.9896	0.8250	yes	N/A
Q02939	TFB2_YEAST	No assigned EC number	0.3190	0.9663	0.7270	yes	N/A
Q6BZX4	TFB2_YARLI	No assigned EC number	0.3859	0.8497	0.7023	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	386
TIGR00625	448	TIGR00625, tfb2, Transcription factor tfb2	1e-144
pfam03849	365	pfam03849, Tfb2, Transcription factor Tfb2	1e-129
COG5144	447	COG5144, TFB2, RNA polymerase II transcription ini	6e-93
pfam13625	128	pfam13625, Helicase_C_3, Helicase conserved C-term	5e-04

>gnl|CDD|233058 TIGR00625, tfb2, Transcription factor tfb2

 Score =  415 bits (1068), Expect = e-144
 Identities = 197/415 (47%), Positives = 266/415 (64%), Gaps = 40/415 (9%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
           EL  +AK++V+R+LF EQPVP A +  W+ K   K  +E+T  L+ L             
Sbjct: 30  ELPSLAKNWVMRMLFNEQPVPLADVDLWVKKEFKKAQEESTGLLSGLHIWHTQLLPGLQG 89

Query: 48  -------RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGSQ 99
                  R+N ++AL GGGK  S   ++L  D  A D+D L++YA ERWE IL FMVG+ 
Sbjct: 90  IILNPIFRQNLRIALTGGGKANSFGVSQLGPDKHAVDVDSLDKYAEERWETILHFMVGTP 149

Query: 100 QTEGISADAVRTLFNEGA--------ENPVITKDGFQFLLLETPAQVWYFILKYLETVES 151
             + + ++ V  L  +          E P IT  GFQFLL +  AQ+W  +L+YL+T ES
Sbjct: 150 SAK-VPSEDVLQLLKQAGLMKSTEPGEPPCITSAGFQFLLQDINAQLWTLLLQYLKTAES 208

Query: 152 KGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTK 211
           +G+DLVE L FLF L F T G  YS +G+SD   + LQ LRE+GLV+QRKRK+ RFYPT+
Sbjct: 209 RGMDLVEVLHFLFMLGFLTLGKAYSVDGLSDTQLIMLQDLREYGLVFQRKRKSRRFYPTR 268

Query: 212 LALNMAT-----RGTLKQIREP-GFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNL 265
           LA+N+ +      G    + +  GF+IVETN+R+YAYT+S L++ALI LF EL+ RFPN+
Sbjct: 269 LAINLTSDTKTVSGAGGTVDDDLGFIIVETNYRLYAYTESPLQIALIALFSELLARFPNM 328

Query: 266 TVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCP----LPPVVSDQIRLWEGERER 321
            VG +TR+S+R AL +GITA QII +LR HA P +       LPP + DQIRLWE ER+R
Sbjct: 329 VVGQITRESIRRALANGITAQQIIHYLRTHAHPQMRKEQTPVLPPTIVDQIRLWELERDR 388

Query: 322 LTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFW 376
           L  +EGVLY+ F++Q DFE L  YA++LGVL W+N  KR   +T  GHSD+K+FW
Sbjct: 389 LRFTEGVLYNDFLTQVDFELLLAYARELGVLVWENSAKRLFFITPAGHSDVKRFW 443

All proteins in this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 448

>gnl|CDD|217760 pfam03849, Tfb2, Transcription factor Tfb2

 Score =  376 bits (968), Expect = e-129
 Identities = 141/339 (41%), Positives = 194/339 (57%), Gaps = 41/339 (12%)

Query: 1   ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTEL------------- 47
            L  +AK +++R+LFV+QPVP A +  W+     K+H+EA   L  L             
Sbjct: 27  LLPPLAKQFIMRMLFVDQPVPAADLDKWVKPESKKQHEEAIKRLKSLHIITETPSGGKKQ 86

Query: 48  --------RRNAKVALLGGGKPWSM-SAKLEVDSKARDLDFLNQYALERWECILRFMVGS 98
                   ++N + AL GGG   S      E D K  D+ FL+ YA E+WE IL +MVGS
Sbjct: 87  SIRLNPTFKKNLRRALTGGGVNNSFGVPSDEPDKKLVDVAFLDSYAREKWETILHYMVGS 146

Query: 99  QQTEGISADAVRTLF------NEGAENPVITKDGFQFLLLETPAQVWYFILKYLETVESK 152
            + +   + +V  L               IT +GFQFLL +  AQ+W  +L+YL+  E +
Sbjct: 147 SEAKTQPSKSVLNLLKHGGLMERSDGGLRITNEGFQFLLQDVNAQIWTLLLQYLKLAEER 206

Query: 153 GLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL 212
           G+D V+ L+FLF L F   G  YST+G+S+  +  LQ LR++GLVYQRKRK+ RFYPT+L
Sbjct: 207 GMDPVDVLSFLFMLGFLELGKAYSTDGLSETQRNMLQDLRDYGLVYQRKRKSRRFYPTRL 266

Query: 213 ALNMAT-------------RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELM 259
           A  + +               T  +    GF+IVETNFR+YAYT S L++A++ LF EL 
Sbjct: 267 ATTLTSDSSALRTASSAMEAATSSEAASKGFIIVETNFRLYAYTSSPLQIAILALFVELK 326

Query: 260 YRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALP 298
           YRFPNL VG +TR+S+R AL +GITA QII +L  HA P
Sbjct: 327 YRFPNLVVGQITRESIRNALENGITADQIISYLETHAHP 365

Length = 365

>gnl|CDD|227473 COG5144, TFB2, RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2 [Transcription / DNA replication, recombination, and repair]

 Score =  285 bits (731), Expect = 6e-93
 Identities = 145/404 (35%), Positives = 201/404 (49%), Gaps = 32/404 (7%)

Query: 2   LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTL----------------T 45
           L E+A  +V+ +LF    V       W+ +T     +                       
Sbjct: 39  LPELATKFVMDMLFNSHSVSLLDEDEWIKETLKILLRIQVIGKKGNHIYLDEGLMIRLNP 98

Query: 46  ELRRNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQ----T 101
           E + +   AL GG      S  + +  K   +D L+ Y+  +WE IL FMVG+ +     
Sbjct: 99  EFKISLMDALTGGTM--ENSFGVCIGEKLVSVDMLDSYSSRKWETILHFMVGTPEAKIPA 156

Query: 102 EGISADAVRTLFNEGAENPV-ITKDGFQFLLLETPAQVWYFILKYLETVESKGLDLVECL 160
           EG+              N   IT  GFQFLL     Q+W  +L YL+  E   +D V  L
Sbjct: 157 EGVLELLKFGGLMGRDRNEFKITNRGFQFLLQTINEQLWTLLLLYLKYFEGSVMDEVAVL 216

Query: 161 TFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRG 220
            FLF L     GT Y  + +SD  Q+ L   R +GLV Q       FYPT LA+ +    
Sbjct: 217 HFLFMLGALAVGTAYKIDALSDTQQIMLMDRRLYGLVEQLGILRKIFYPTGLAIGLTFDQ 276

Query: 221 TL---KQIRE---PGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDS 274
                +Q R     GF+IVETN ++YAYT+S L++A+I LFC L  RFPNL  G++TR+S
Sbjct: 277 LFEASEQNRREDDKGFIIVETNNKIYAYTNSPLQIAVIHLFCNLTARFPNLVKGIITRES 336

Query: 275 VRAALRSGITAAQIIGFLRLHALP---SVSCPLPPVVSDQIRLWEGERERLTTSEGVLYS 331
           +R AL +GITA QII +L  HA P        LPP + DQI LWE ER R+    G LYS
Sbjct: 337 IRRALDNGITAKQIIHYLETHAHPQMRKKLELLPPTIVDQIVLWELERNRIFMVPGYLYS 396

Query: 332 QFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF 375
            F++ +D++K+ +YA   GVL W +  KR   +  +GHS +K+F
Sbjct: 397 DFLTLSDYQKVLEYAIRGGVLVWSDVDKRMFFIKLEGHSLVKEF 440

Length = 447

>gnl|CDD|205803 pfam13625, Helicase_C_3, Helicase conserved C-terminal domain

 Score = 39.4 bits (93), Expect = 5e-04
 Identities = 22/66 (33%), Positives = 30/66 (45%), Gaps = 4/66 (6%)

Query: 265 LTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVVSDQIRLWEGERERLTT 324
                LT  S+R AL +G+TA +II FL  H+      P+P  +   IR       RL  
Sbjct: 36  AHTYRLTPLSLRRALDAGLTAEEIIEFLERHS----RTPVPQSLLYLIRDVARRHGRLRL 91

Query: 325 SEGVLY 330
            +  LY
Sbjct: 92  GKAGLY 97

This domain family is found in a wide variety of helicases and helicase-related proteins. Length = 128

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	386
KOG3471|consensus	465		100.0
TIGR00625	448	tfb2 Transcription factor tfb2. This family is bas	100.0
COG5144	447	TFB2 RNA polymerase II transcription initiation/nu	100.0
PF03849	366	Tfb2: Transcription factor Tfb2; InterPro: IPR0045	100.0
PF13625	129	Helicase_C_3: Helicase conserved C-terminal domain	99.64
TIGR00603	732	rad25 DNA repair helicase rad25. All proteins in t	97.23
PF08671	30	SinI: Anti-repressor SinI; InterPro: IPR010981 The	91.6
PRK06015	201	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	86.73

>KOG3471|consensus

Probab=100.00  E-value=2.7e-134  Score=999.91  Aligned_cols=381  Identities=51%  Similarity=0.893  Sum_probs=365.4

Q ss_pred             CCchhHHHHHHHHhccCCCccHHHHHhhhccchhHHHHHHHHHHHHHH-------------------HHHHHHHhCCCCC
Q psy13810          1 ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR-------------------RNAKVALLGGGKP   61 (386)
Q Consensus         1 eLp~lak~~vmrlL~~~~~v~~~~~~~Wv~~~~~~~~~~a~~~L~~L~-------------------~~lr~aL~ggg~~   61 (386)
                      +||||||+|||+|||.++|||.++++.||+.+..+++++|++.|.+||                   +|+|.||+|||++
T Consensus        45 ~LPpLAkqfVm~MLf~~~pVP~a~~~~Wv~~~~tk~q~eaik~L~~L~I~~~~~~~g~~i~Lnp~fr~s~~~al~gg~~~  124 (465)
T KOG3471|consen   45 ELPPLAKQFVMQMLFKDQPVPLADVDLWVKVEETKEQEEAIKLLKRLRIFHKQGTPGQAINLNPTFRRSLRDALTGGGKQ  124 (465)
T ss_pred             hCcHHHHHHHHHHHhcCCCccHHHHHHHhhhhhHHHHHHHHHHHhheeeEeecCCCCceEEeCHHHHHHHHHHHhcCCCc
Confidence            699999999999999999999999999999999999999999999999                   8999999999999


Q ss_pred             CCCCc-ccccCCCCCChhHHHHHHHHhHHHHHHhHcCCCCCCCCcHHHHHHHHhcC-----CCCCccccccchhhccccc
Q psy13810         62 WSMSA-KLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEG-----AENPVITKDGFQFLLLETP  135 (386)
Q Consensus        62 ~~~~~-~~~~d~~~~~~~~Ld~ya~~~WE~iL~~mv~s~~~~~~s~~v~~lL~~~g-----~~~~~IT~~GFqFLL~d~~  135 (386)
                      |++++ .+++|++.+++++||+||.+|||||||||||++.+..+|.++.++|+++|     +..+.||+.||||||+|++
T Consensus       125 ~s~~s~~l~~~~~~r~v~~ld~ya~~rwe~ILh~mvgt~~a~~~se~v~~ll~~a~lm~~~~~~~~IT~~GFQFLL~~~~  204 (465)
T KOG3471|consen  125 NSFGSLVLGEDKHNRDVDFLDKYASERWECILHFMVGTPEAKAVSEGVLNLLKHAGLMSRDENQIEITNAGFQFLLLDIN  204 (465)
T ss_pred             ccCCCcccCCCcCcccchhhHHHHHHHHHHHHHHHhCCccccccChhHHHHHHhcCccCCCCCCceEeecchhhhhcCcH
Confidence            98744 68889999999999999999999999999999888899999999999999     3467899999999999999


Q ss_pred             hhHHHHHHHHHHHHHhcCCChhhHHHHHHhhccCCCCccccCCCCCHHHHHHHHHHhHcCceeeecCCCcceeechhhhh
Q psy13810        136 AQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALN  215 (386)
Q Consensus       136 ~QvW~lll~yl~~~e~~g~~~~~~L~flf~L~~~~~G~~Y~~~~ls~~q~~~L~~L~~~GLvy~~~~~~~~fypT~La~~  215 (386)
                      +|+|+++++||+++|.+|||++|||+||||||++++|++|++++||++|+.||+||||+|||||||+|..+||||+||++
T Consensus       205 aQlW~~~LqyLk~~~~~~~dlvevL~~LfqL~~~~~G~~Ysvd~~~~~~~~~lq~Lre~GlvfQrk~k~~rfyptrla~~  284 (465)
T KOG3471|consen  205 AQLWTLVLQYLKLFESSGMDLVEVLEFLFQLSALALGRAYSVDALTETQRILLQHLRELGLVFQRKIKILRFYPTRLAIG  284 (465)
T ss_pred             HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccceeehhhHHHHHHHHHHHHhhHHHHhhhhhheecchhhhhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCCcc--------cccCCCceEEEeeceeEEEecCChHHHHHHHHHHHHHhccCceEEEEeCHHHHHHHHHcCCCHHH
Q psy13810        216 MATRGTL--------KQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQ  287 (386)
Q Consensus       216 l~s~~~~--------~~~~~~g~iIvETNfrvYAYT~S~LqiaiL~lF~~l~~rfPNlvvg~iTReSVr~Al~~GITA~Q  287 (386)
                      ++++...        ...++.|||||||||||||||+||||+|+|+|||++.|||||||||+|||||||+|+++||||+|
T Consensus       285 ~ss~~~~~~~~~~~~~~edd~G~iIVETN~riYAYT~S~lQiAvi~LF~~l~~rf~nlvvG~iTreSVr~Al~~GITa~Q  364 (465)
T KOG3471|consen  285 LSSDQLGAASLVHQNRNEDDVGFIIVETNYRIYAYTNSPLQIAVIALFTELTYRFPNLVVGVITRESVRRALDNGITAEQ  364 (465)
T ss_pred             cchhhhhhhhhhhcccccccCceEEEEeccEEEEecCCHHHHHHHHHHHHHHhhccccceeeeeHHHHHHHHhcCCcHHH
Confidence            9886543        12344599999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCC------CCCCCChhHHHHHHHhHhhcCceeeecceeeccCCCHHHHHHHHHHHHHcCeEEEeeCCcce
Q psy13810        288 IIGFLRLHALPS------VSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRT  361 (386)
Q Consensus       288 II~fL~~hAHp~------~~~~lP~tV~dQIrLWe~Er~R~~~~~g~Ly~~f~s~~~~~~v~~ya~~~g~llw~~~~kr~  361 (386)
                      ||+||++|||||      .|+ +||||+|||||||.||||+.++||+||++|.|..||+.+++||+++|+|+|+|..||+
T Consensus       365 II~fLet~ahpqm~~~~~~~~-LPpTv~dQIrLWElernR~~~~~g~LYs~Fls~~df~~l~eya~~~~vLvw~d~~kr~  443 (465)
T KOG3471|consen  365 IIHFLETHAHPQMRMLSPVPC-LPPTVVDQIRLWELERNRLRMTEGYLYSDFLSLSDFQLLLEYAREIGVLVWSDSDKRM  443 (465)
T ss_pred             HHHHHHhccCchhhhcCCCCC-CCchHHhHHHHHHHhhcceecccchhHHhhhhhhhHHHHHHHHHHcCeEEEecCcceE
Confidence            999999999998      467 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCCchHHHHHHHhhhcC
Q psy13810        362 VVVTKQGHSDIKKFWVNHQKG  382 (386)
Q Consensus       362 ~~V~~~~h~~vr~f~k~~~~~  382 (386)
                      |||+++||++||+||||++|.
T Consensus       444 ~vV~~~Ghs~Vk~f~Kr~~k~  464 (465)
T KOG3471|consen  444 FVVTKEGHSLVKRFWKRKSKK  464 (465)
T ss_pred             EEEecCccHHHHHHHHHhhcC
Confidence            999999999999999997654

>TIGR00625 tfb2 Transcription factor tfb2

Probab=100.00  E-value=4.2e-131  Score=1001.23  Aligned_cols=380  Identities=52%  Similarity=0.892  Sum_probs=361.9

Q ss_pred             CCchhHHHHHHHHhccCCCccHHHHHhhhccchhHHHHHHHHHHHHHH--------------------HHHHHHHhCCCC
Q psy13810          1 ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR--------------------RNAKVALLGGGK   60 (386)
Q Consensus         1 eLp~lak~~vmrlL~~~~~v~~~~~~~Wv~~~~~~~~~~a~~~L~~L~--------------------~~lr~aL~ggg~   60 (386)
                      +||||||||||||||+++|||.++++.|+++++++++++|+++|++||                    +|||.||+|||+
T Consensus        30 ~Lp~lAK~~vmrlL~~~~pv~~~~l~~Wv~~~~~~~~~~al~~L~~L~I~~~~~~~~~~~~~Ln~~F~~~lr~aL~g~~~  109 (448)
T TIGR00625        30 ELPSLAKNWVMRMLFNEQPVPLADVDLWVKKEFKKAQEESTGLLSGLHIWHTQLLPGLQGIILNPIFRQNLRIALTGGGK  109 (448)
T ss_pred             cCcHHHHHHHHHHHcCCCCCCHHHHHHHhCccchHHHHHHHHHHHhCEeEEecCCCCceeEEECHHHHHHHHHHhcCCCC
Confidence            599999999999999999999999999999999999999999999999                    799999999999


Q ss_pred             CCCCCc-ccccCCCCCChhHHHHHHHHhHHHHHHhHcCCCCCCCCcHHHHHHHHhcC---C----CCCccccccchhhcc
Q psy13810         61 PWSMSA-KLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEG---A----ENPVITKDGFQFLLL  132 (386)
Q Consensus        61 ~~~~~~-~~~~d~~~~~~~~Ld~ya~~~WE~iL~~mv~s~~~~~~s~~v~~lL~~~g---~----~~~~IT~~GFqFLL~  132 (386)
                      +++++. ...+|++.+++++||+||.+|||+|||||||++....+|++|+++|+++|   +    +++.||++|||||||
T Consensus       110 ~~s~~v~~~~~d~~~~~~~~Ld~yA~~~WE~IL~fmVgs~~~~~~s~~v~~lL~~~~Lm~~~~~~~~~~IT~~GFqFLLq  189 (448)
T TIGR00625       110 ANSFGVSQLGPDKHAVDVDSLDKYAEERWETILHFMVGTPSAKVPSEDVLQLLKQAGLMKSTEPGEPPCITSAGFQFLLQ  189 (448)
T ss_pred             CCCCCCcccCCCCCCCCHHHHHHHHHHHHHHHHHHHcCCCCcCCCchHHHHHHHhCCCCcccCCCCCccCchhhHHHHcC
Confidence            997653 35567789999999999999999999999998766679999999999999   2    248999999999999


Q ss_pred             ccchhHHHHHHHHHHHHHhcCCChhhHHHHHHhhccCCCCccccCCCCCHHHHHHHHHHhHcCceeeecCCCcceeechh
Q psy13810        133 ETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKL  212 (386)
Q Consensus       133 d~~~QvW~lll~yl~~~e~~g~~~~~~L~flf~L~~~~~G~~Y~~~~ls~~q~~~L~~L~~~GLvy~~~~~~~~fypT~L  212 (386)
                      |+|+|+|+||++||+++|++|||++|+|+|||+||++++|++|++++||++|++||+||+|+||||++++++++||||||
T Consensus       190 d~n~QvW~lll~YL~~~e~~g~d~vevLsFLf~Ls~l~lG~~Y~~~~Lt~tq~~~L~dL~dlGLVy~~~~~~~~fYPTrL  269 (448)
T TIGR00625       190 DINAQLWTLLLQYLKTAESRGMDLVEVLHFLFMLGFLTLGKAYSVDGLSDTQLIMLQDLREYGLVFQRKRKSRRFYPTRL  269 (448)
T ss_pred             ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHhccccCCccCCCCCCHHHHHHHHHHHHcCeEEEecCCCCcccchHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhccCCcccc------cCCCceEEEeeceeEEEecCChHHHHHHHHHHHHHhccCceEEEEeCHHHHHHHHHcCCCHH
Q psy13810        213 ALNMATRGTLKQ------IREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAA  286 (386)
Q Consensus       213 a~~l~s~~~~~~------~~~~g~iIvETNfrvYAYT~S~LqiaiL~lF~~l~~rfPNlvvg~iTReSVr~Al~~GITA~  286 (386)
                      |++|+++.++.+      ..++|+|||||||||||||+||||+|||++||++.|||||||||+||||||++|+++|||||
T Consensus       270 At~Lts~~~~l~~~~~~~~~~~g~iivEtNfrvYaYt~s~l~~~il~lF~~~~~r~pnlvvg~iTr~Sv~~A~~~GITa~  349 (448)
T TIGR00625       270 AINLTSDTKTVSGAGGTVDDDLGFIIVETNYRLYAYTESPLQIALIALFSELLARFPNMVVGQITRESIRRALANGITAQ  349 (448)
T ss_pred             HHHHhcCccccccccccccCCCceEEEEecceEEEecCCHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHcCCCHH
Confidence            999998765311      25679999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCC-----CCCCCChhHHHHHHHhHhhcCceeeecceeeccCCCHHHHHHHHHHHHHcCeEEEeeCCcce
Q psy13810        287 QIIGFLRLHALPS-----VSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRT  361 (386)
Q Consensus       287 QII~fL~~hAHp~-----~~~~lP~tV~dQIrLWe~Er~R~~~~~g~Ly~~f~s~~~~~~v~~ya~~~g~llw~~~~kr~  361 (386)
                      |||+||++||||+     .|+ |||||+|||||||.||||+++++||||++|.|++||+++++||+++|||+|+|++||+
T Consensus       350 qIi~fl~~~ahp~~~~~~~~~-lP~tv~dQi~lWe~e~~R~~~~~~~l~~~f~s~~~y~~~~~ya~~~~~l~w~~~~kr~  428 (448)
T TIGR00625       350 QIIHYLRTHAHPQMRKEQTPV-LPPTIVDQIRLWELERDRLRFTEGVLYNDFLTQVDFELLLAYARELGVLVWENSAKRL  428 (448)
T ss_pred             HHHHHHHhcCChhhhccCCCC-CChHHHHHHHHHHHHhcceEeecceeeeecCCHHHHHHHHHHHHHcCEEEEecCCceE
Confidence            9999999999999     367 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCCchHHHHHHHhhhc
Q psy13810        362 VVVTKQGHSDIKKFWVNHQK  381 (386)
Q Consensus       362 ~~V~~~~h~~vr~f~k~~~~  381 (386)
                      |||+++||++||+|||++|+
T Consensus       429 ~~V~~~gh~~v~~f~k~~~~  448 (448)
T TIGR00625       429 FFITPAGHSDVKRFWKRQKH  448 (448)
T ss_pred             EEEeccchHHHHHHHHhhcC
Confidence            99999999999999999875

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG5144 TFB2 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2 [Transcription / DNA replication, recombination, and repair]

Probab=100.00  E-value=6.8e-113  Score=826.37  Aligned_cols=377  Identities=38%  Similarity=0.599  Sum_probs=358.9

Q ss_pred             CchhHHHHHHHHhccCCCccHHHHHhhhccchhHHHHHHHHHHHHHH----------------HHHHHHHhCCCCCCCCC
Q psy13810          2 LSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR----------------RNAKVALLGGGKPWSMS   65 (386)
Q Consensus         2 Lp~lak~~vmrlL~~~~~v~~~~~~~Wv~~~~~~~~~~a~~~L~~L~----------------~~lr~aL~ggg~~~~~~   65 (386)
                      ||++|++|||.|||.+.|||..+.+.|++...+-...+++..++++|                .+|+.|||||+.+++++
T Consensus        39 lp~la~~fvm~mlfn~~~v~lld~d~wik~~~Ki~~~~~v~~~k~~hi~~~~g~~i~ln~~fk~sl~~altgg~~~nsfg  118 (447)
T COG5144          39 LPELATKFVMDMLFNSHSVSLLDEDEWIKETLKILLRIQVIGKKGNHIYLDEGLMIRLNPEFKISLMDALTGGTMENSFG  118 (447)
T ss_pred             ccHHHHHHHHHHHcCCCCcchhhHHHHHhhhhHHHHHHHHhhhccceEEecCCceEEeChHHHHHHHHHhhccccccccc
Confidence            89999999999999999999999999999999999999999999999                69999999999999888


Q ss_pred             cccccCCCCCChhHHHHHHHHhHHHHHHhHcCCCCCCCCcHHHHHHHHhcC-----CCCCccccccchhhccccchhHHH
Q psy13810         66 AKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADAVRTLFNEG-----AENPVITKDGFQFLLLETPAQVWY  140 (386)
Q Consensus        66 ~~~~~d~~~~~~~~Ld~ya~~~WE~iL~~mv~s~~~~~~s~~v~~lL~~~g-----~~~~~IT~~GFqFLL~d~~~QvW~  140 (386)
                      ++.++  +.+++++||+||.++||+|||||||++...-|+..|+.+|+++|     ...++||++|||||||+.|+|+|+
T Consensus       119 v~i~E--~lvsvd~ld~ys~~kwEtILhfmVgtpeakip~egVl~lLk~ggLm~~~~ne~kITn~GFqFLLq~in~QlWt  196 (447)
T COG5144         119 VCIGE--KLVSVDMLDSYSSRKWETILHFMVGTPEAKIPAEGVLELLKFGGLMGRDRNEFKITNRGFQFLLQTINEQLWT  196 (447)
T ss_pred             eeecc--ceeeeehhhhhhhhhHHHHHHHHhCCccccCcchhHHHHHHhcccccCCcccceeehhHHHHHHHHHHHHHHH
Confidence            76654  58999999999999999999999999888788999999999999     346789999999999999999999


Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHhhccCCCCccccCCCCCHHHHHHHHHHhHcCceeeecCCCcceeechhhhhhccCC
Q psy13810        141 FILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYPTKLALNMATRG  220 (386)
Q Consensus       141 lll~yl~~~e~~g~~~~~~L~flf~L~~~~~G~~Y~~~~ls~~q~~~L~~L~~~GLvy~~~~~~~~fypT~La~~l~s~~  220 (386)
                      ++++||++.|...||++++|+||||||.+++|++|+++.||++|+-||+|+|++|||||+...+++||||+||+.+++..
T Consensus       197 LlL~yLK~~e~s~md~v~VLhflFmLgal~vG~aY~id~lsdtqqiml~D~R~yglv~q~~i~~~~fYpt~LA~glt~d~  276 (447)
T COG5144         197 LLLLYLKYFEGSVMDEVAVLHFLFMLGALAVGTAYKIDALSDTQQIMLMDRRLYGLVEQLGILRKIFYPTGLAIGLTFDQ  276 (447)
T ss_pred             HHHHHHHHhccccccHHHHHHHHHHhcchhhcceeeecccchHHHHHHHHHHHhhHHHHhccchhhccccccchhhhhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999988754


Q ss_pred             cc------cccCCCceEEEeeceeEEEecCChHHHHHHHHHHHHHhccCceEEEEeCHHHHHHHHHcCCCHHHHHHHHHh
Q psy13810        221 TL------KQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRL  294 (386)
Q Consensus       221 ~~------~~~~~~g~iIvETNfrvYAYT~S~LqiaiL~lF~~l~~rfPNlvvg~iTReSVr~Al~~GITA~QII~fL~~  294 (386)
                      -.      ...++.|||||||||||||||+||||+|+++|||++..||||||+|+|||||||+|+.+||||+|||.||++
T Consensus       277 ~~~~s~qnr~edd~gfiIVETN~kiYaYtnSplqiavi~LF~nl~arf~Nlv~GiITreSirrAl~nGIta~QII~yLet  356 (447)
T COG5144         277 LFEASEQNRREDDKGFIIVETNNKIYAYTNSPLQIAVIHLFCNLTARFPNLVKGIITRESIRRALDNGITAKQIIHYLET  356 (447)
T ss_pred             HHHhhhhccccccCceEEEEecceEEEecCChHHHHHHHHhhhhhcccchhhhhhccHHHHHHHHhcCccHHHHHHHHHh
Confidence            21      334557999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCC----CCCCCChhHHHHHHHhHhhcCceeeecceeeccCCCHHHHHHHHHHHHHcCeEEEeeCCcceEEEeCCCch
Q psy13810        295 HALPS----VSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHS  370 (386)
Q Consensus       295 hAHp~----~~~~lP~tV~dQIrLWe~Er~R~~~~~g~Ly~~f~s~~~~~~v~~ya~~~g~llw~~~~kr~~~V~~~~h~  370 (386)
                      |||||    .+. +||||+|||+|||.|+||+.+.+|+||+||.+..+|+.+.+||.+.|||+|++..||||||+.+||.
T Consensus       357 hahpqmr~~l~l-lPPtivdQI~lWele~nRi~~~pG~LysdFlt~s~y~~~~eya~~~gvLvw~d~~Krmffi~~eG~s  435 (447)
T COG5144         357 HAHPQMRKKLEL-LPPTIVDQIVLWELERNRIFMVPGYLYSDFLTLSDYQKVLEYAIRGGVLVWSDVDKRMFFIKLEGHS  435 (447)
T ss_pred             ccChhhhhcCCC-CChhhhhheeeeeeccCcEEeecchHHhhhhchhhHHHHHHHHHhcCeEEeecccceEEEEEccCcH
Confidence            99999    567 9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhc
Q psy13810        371 DIKKFWVNHQK  381 (386)
Q Consensus       371 ~vr~f~k~~~~  381 (386)
                      .|++|.||+-+
T Consensus       436 ~v~~f~Kr~l~  446 (447)
T COG5144         436 LVKEFVKRILK  446 (447)
T ss_pred             HHHHHHHHHhc
Confidence            99999999754

>PF03849 Tfb2: Transcription factor Tfb2; InterPro: IPR004598 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=100.00  E-value=1.3e-101  Score=775.82  Aligned_cols=298  Identities=56%  Similarity=0.933  Sum_probs=283.8

Q ss_pred             CCchhHHHHHHHHhccCCCccHHHHHhhhccchhHHHHHHHHHHHHHH---------------------HHHHHHHhCCC
Q psy13810          1 ELSEIAKHYVIRLLFVEQPVPQAVIASWLSKTHAKEHKEATDTLTELR---------------------RNAKVALLGGG   59 (386)
Q Consensus         1 eLp~lak~~vmrlL~~~~~v~~~~~~~Wv~~~~~~~~~~a~~~L~~L~---------------------~~lr~aL~ggg   59 (386)
                      +||+|||||||||||+++|||++++++||++++++++++|+++|++||                     +|||.||+|||
T Consensus        27 ~LP~LAK~~VmrLL~~~~pv~~~~l~~Wv~~~~~~~~~~al~~L~~L~Ii~~~~~~~~~~~~~Ln~~F~~~Lr~aL~ggg  106 (366)
T PF03849_consen   27 SLPPLAKQYVMRLLFVEQPVPQADLESWVKPESKKEHDEALKRLRSLHIIQESESPGGKQQYQLNPIFRKNLRNALTGGG  106 (366)
T ss_pred             hccHHHHHHHHHHHhcCCCcCHHHHHHHhCccchHHHHHHHHHHhhCeeEeeccCCCCceeEEeCHHHHHHHHHHHhCCC
Confidence            599999999999999999999999999999999999999999999999                     89999999999


Q ss_pred             CCCCCCcc-cccCCCCCChhHHHHHHHHhHHHHHHhHcCCCCCCC--CcHHHHHHHHhcC-------CCCCccccccchh
Q psy13810         60 KPWSMSAK-LEVDSKARDLDFLNQYALERWECILRFMVGSQQTEG--ISADAVRTLFNEG-------AENPVITKDGFQF  129 (386)
Q Consensus        60 ~~~~~~~~-~~~d~~~~~~~~Ld~ya~~~WE~iL~~mv~s~~~~~--~s~~v~~lL~~~g-------~~~~~IT~~GFqF  129 (386)
                      ++|.++.+ ..+|++.+++++||+||++|||+|||||||+.....  ||++|+++|+++|       +++..||++||||
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~Ld~yA~~rWE~IL~~mVgs~~~~~~~~s~~v~~lL~~sgLm~~~~~~~~~~IT~~GFqF  186 (366)
T PF03849_consen  107 KPWSFGVPSEEPDKKAPDVEFLDEYARERWESILHYMVGSSSSSNSSPSQDVKQLLKRSGLMKRSESGGSLKITSKGFQF  186 (366)
T ss_pred             CCcccCcccccccCCCCCHHHHHHHHHHHHHHHHHHHhcCcccccCCCCHHHHHHHHHcCCCcCcCCCCCCcEehhheee
Confidence            99965543 445578999999999999999999999999987755  9999999999999       3588999999999


Q ss_pred             hccccchhHHHHHHHHHHHHHhcCCChhhHHHHHHhhccCCCCccccCCCCCHHHHHHHHHHhHcCceeeecCCCcceee
Q psy13810        130 LLLETPAQVWYFILKYLETVESKGLDLVECLTFLFQLKFSTFGTDYSTEGMSDKLQVFLQHLREFGLVYQRKRKAGRFYP  209 (386)
Q Consensus       130 LL~d~~~QvW~lll~yl~~~e~~g~~~~~~L~flf~L~~~~~G~~Y~~~~ls~~q~~~L~~L~~~GLvy~~~~~~~~fyp  209 (386)
                      ||+|+++|+|+||++||+++|++|+|++|+|+|||+||++++|++|++++||++|++||+||+|+||||++++++++|||
T Consensus       187 LL~d~~~QlW~lll~yL~~~e~~~~~~~~~l~flf~L~~~~~g~~Y~~~~ls~~q~~~L~~l~~~GLvy~~~~~~~~fyp  266 (366)
T PF03849_consen  187 LLQDTNAQLWTLLLQYLKMAEARGMDLVEVLSFLFQLSFLELGKAYSTEGLSETQKNMLQDLRELGLVYQRKRKSRRFYP  266 (366)
T ss_pred             ecCChHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhcccccCCcCcCCCCCHHHHHHHHHHHHCCeEEEecCCCCeEec
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhhhhccCCcc-----------cccCCCceEEEeeceeEEEecCChHHHHHHHHHHHHHhccCceEEEEeCHHHHHHH
Q psy13810        210 TKLALNMATRGTL-----------KQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVGVLTRDSVRAA  278 (386)
Q Consensus       210 T~La~~l~s~~~~-----------~~~~~~g~iIvETNfrvYAYT~S~LqiaiL~lF~~l~~rfPNlvvg~iTReSVr~A  278 (386)
                      ||||++|+++++.           ....++|||||||||||||||+||||||||++||++.|||||||||+|||||||+|
T Consensus       267 T~La~~l~~~~~~~~~~~~~~~~~~~~~~~g~iivETNfrvYAYT~s~l~iaiL~lF~~~~~r~pnlvvg~iTr~Sv~~A  346 (366)
T PF03849_consen  267 TRLATNLTSGSSALRSASSALDSSSSSNKEGFIIVETNFRVYAYTNSPLQIAILSLFCELKYRFPNLVVGQITRESVRRA  346 (366)
T ss_pred             hHHHHHHhcCCCcccccccccccccccccCceEEEEecceEEEecCCHHHHHHHHHHHHHHhcCCCeEEEEEcHHHHHHH
Confidence            9999999998864           23467899999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCHHHHHHHHHhcCCC
Q psy13810        279 LRSGITAAQIIGFLRLHALP  298 (386)
Q Consensus       279 l~~GITA~QII~fL~~hAHp  298 (386)
                      +++||||||||+||++||||
T Consensus       347 ~~~GIta~qIi~fL~~~aHp  366 (366)
T PF03849_consen  347 LKNGITADQIISFLRSHAHP  366 (366)
T ss_pred             HHcCCCHHHHHHHHHhcCCC
Confidence            99999999999999999998

The core-TFIIH basal transcription factor complex has six subunits, this is the p52 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>PF13625 Helicase_C_3: Helicase conserved C-terminal domain

Probab=99.64  E-value=2.1e-15  Score=131.05  Aligned_cols=117  Identities=23%  Similarity=0.280  Sum_probs=103.5

Q ss_pred             EEEeeceeEEEecCCh-HH-HHHHHHHHHHHhccCceEEEEeCHHHHHHHHHcCCCHHHHHHHHHhcCCCCCCCCCChhH
Q psy13810        231 LIVETNFRVYAYTDSN-LK-VALIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPLPPVV  308 (386)
Q Consensus       231 iIvETNfrvYAYT~S~-Lq-iaiL~lF~~l~~rfPNlvvg~iTReSVr~Al~~GITA~QII~fL~~hAHp~~~~~lP~tV  308 (386)
                      +||++||.|.+++.+| .. ...|..|+++ .+..+|.+++||+.|+.+|++.|+|+++|+.||+.|+.   .. ||++|
T Consensus         2 liVqpd~~I~v~~~~~~~~~~~~L~~fae~-~s~~~~~~yrlT~~Sl~~A~~~G~~~e~i~~~L~~~S~---~~-lP~~v   76 (129)
T PF13625_consen    2 LIVQPDFEILVEPGHPSPADAWFLARFAEL-KSPDTMHVYRLTPASLWRAASAGLTAEEIIEFLERYSK---NP-LPQNV   76 (129)
T ss_pred             EEECCCCEEEEeCCCCCHHHHHHHHHHhcc-cccCceEEEEECHHHHHHHHHcCCCHHHHHHHHHHHcC---CC-CCHHH
Confidence            6999999999977776 44 4599999999 66799999999999999999999999999999999994   33 99999


Q ss_pred             HHHHHHhHhhcCceeeecceeeccCCCHHHHHHHHHHHHHcCeE
Q psy13810        309 SDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVL  352 (386)
Q Consensus       309 ~dQIrLWe~Er~R~~~~~g~Ly~~f~s~~~~~~v~~ya~~~g~l  352 (386)
                      ..+|+-|+...+|+++.++.+|-.+.+.+..+.+.+..+-.++.
T Consensus        77 ~~~i~~w~~~~g~v~l~~~~~~l~~~d~~~l~~l~~~~~~~~~~  120 (129)
T PF13625_consen   77 EQSIEDWARRYGRVRLYKGAYLLECDDPELLDELLADPELAKLI  120 (129)
T ss_pred             HHHHHHHHHhcCCEEEecCeEEEEECCHHHHHHHHhChhhhhhh
Confidence            99999999999999999966666699999999988877655544

>TIGR00603 rad25 DNA repair helicase rad25

Probab=97.23  E-value=0.0028  Score=70.04  Aligned_cols=105  Identities=19%  Similarity=0.210  Sum_probs=83.4

Q ss_pred             CceEEEeeceeEEEecCChH--HHH-HHHHHHHHHhccCceEEEEeCHHHHHHHHHcCCCHHHHHHHHHhcCCCCCCCCC
Q psy13810        228 PGFLIVETNFRVYAYTDSNL--KVA-LIGLFCELMYRFPNLTVGVLTRDSVRAALRSGITAAQIIGFLRLHALPSVSCPL  304 (386)
Q Consensus       228 ~g~iIvETNfrvYAYT~S~L--qia-iL~lF~~l~~rfPNlvvg~iTReSVr~Al~~GITA~QII~fL~~hAHp~~~~~l  304 (386)
                      +|.|++||        .+|+  |.. -|.-|+|+.+|--+|-.++||-=|+-.|...|+++++||++|..++.   .- |
T Consensus        22 d~~i~lE~--------~~p~~~~a~~fl~~~aEp~~rp~~iHeY~lT~~sl~~A~s~g~~~~~ii~~L~~~sk---~~-~   89 (732)
T TIGR00603        22 DGHIFLES--------FSPLYKQAQDFLVAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETEDIIEVLGRLSK---TP-I   89 (732)
T ss_pred             CCeEEEEe--------CCccHHHHHHHHHHhcccccChhheEEEeccHHHHHHHHHcCCCHHHHHHHHHHHhC---CC-C
Confidence            46666666        3553  222 89999999999999999999999999999999999999999999995   44 9


Q ss_pred             ChhHHHHHHHhHhhcCceeee---cceeeccCCCHHHHHHHHHH
Q psy13810        305 PPVVSDQIRLWEGERERLTTS---EGVLYSQFVSQADFEKLRDY  345 (386)
Q Consensus       305 P~tV~dQIrLWe~Er~R~~~~---~g~Ly~~f~s~~~~~~v~~y  345 (386)
                      |++|.+.|+.+-.-.+++++.   +.+ |-+-.+.+-.+.+.+.
T Consensus        90 p~~i~~~i~~~~~~ygk~klv~~~~~~-~~es~~~~~l~~l~~~  132 (732)
T TIGR00603        90 PKGIIEFIRLCTQSYGKVKLVLKHNRY-FVESPHPEVLQRLLKD  132 (732)
T ss_pred             CHHHHHHHHHHHHhcCcEEEEEcCCce-EEecCCHHHHHHHHhc
Confidence            999999999999999999882   222 3234555555555543

All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []

Probab=91.60  E-value=0.19  Score=33.79  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=17.7

Q ss_pred             HHHHHHHcCCCHHHHHHHHHhc
Q psy13810        274 SVRAALRSGITAAQIIGFLRLH  295 (386)
Q Consensus       274 SVr~Al~~GITA~QII~fL~~h  295 (386)
                      =|++|...|||.+||-.||+.+
T Consensus         8 Li~eA~~~Gls~eeir~FL~~~   29 (30)
T PF08671_consen    8 LIKEAKESGLSKEEIREFLEFN   29 (30)
T ss_dssp             HHHHHHHTT--HHHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHhC
Confidence            3789999999999999999864

SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.

>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=86.73  E-value=6.2  Score=37.42  Aligned_cols=125  Identities=14%  Similarity=0.148  Sum_probs=87.8

Q ss_pred             CceEEEeeceeEEEecCChHHHHHHHHHHHHHhccCceEEE---EeCHHHHHHHHHcCC-------CHHHHHHHHHhcCC
Q psy13810        228 PGFLIVETNFRVYAYTDSNLKVALIGLFCELMYRFPNLTVG---VLTRDSVRAALRSGI-------TAAQIIGFLRLHAL  297 (386)
Q Consensus       228 ~g~iIvETNfrvYAYT~S~LqiaiL~lF~~l~~rfPNlvvg---~iTReSVr~Al~~GI-------TA~QII~fL~~hAH  297 (386)
                      .|.=+||-.|+      +|--   +..+.++..++|++.||   ++|.|.+++|.+.|-       .-+.++.+-+.+-.
T Consensus        28 gGi~~iEit~~------tp~a---~~~I~~l~~~~~~~~vGAGTVl~~e~a~~ai~aGA~FivSP~~~~~vi~~a~~~~i   98 (201)
T PRK06015         28 GGLPAIEITLR------TPAA---LDAIRAVAAEVEEAIVGAGTILNAKQFEDAAKAGSRFIVSPGTTQELLAAANDSDV   98 (201)
T ss_pred             CCCCEEEEeCC------CccH---HHHHHHHHHHCCCCEEeeEeCcCHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCC
Confidence            46667887775      3332   34445567778999999   899999999999994       46899999998887


Q ss_pred             CCCCCCCCh--hHHHHHHHhHhhcCceeeecceeeccCCCHHHHHHHHHHHHHcCeEEEeeCCcceEEEeCCCchHHHHH
Q psy13810        298 PSVSCPLPP--VVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKF  375 (386)
Q Consensus       298 p~~~~~lP~--tV~dQIrLWe~Er~R~~~~~g~Ly~~f~s~~~~~~v~~ya~~~g~llw~~~~kr~~~V~~~~h~~vr~f  375 (386)
                      |-    +|=  |..+=..-|+.=-+-+|+.++-++-.          .+|.+.+...+   +.-++|-+.-=.-+++.+|
T Consensus        99 ~~----iPG~~TptEi~~A~~~Ga~~vK~FPa~~~GG----------~~yikal~~pl---p~~~l~ptGGV~~~n~~~~  161 (201)
T PRK06015         99 PL----LPGAATPSEVMALREEGYTVLKFFPAEQAGG----------AAFLKALSSPL---AGTFFCPTGGISLKNARDY  161 (201)
T ss_pred             CE----eCCCCCHHHHHHHHHCCCCEEEECCchhhCC----------HHHHHHHHhhC---CCCcEEecCCCCHHHHHHH
Confidence            43    553  77777888999899999988765510          45666655444   3444443323333789999


Q ss_pred             HHh
Q psy13810        376 WVN  378 (386)
Q Consensus       376 ~k~  378 (386)
                      ++.
T Consensus       162 l~a  164 (201)
T PRK06015        162 LSL  164 (201)
T ss_pred             HhC
Confidence            875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	386
3dom_A	108	Crystal Structure Of The Complex Between Tfb5 And T		2e-09
3dgp_A	80	Crystal Structure Of The Complex Between Tfb5 And T		3e-09

>pdb|3DOM|A Chain A, Crystal Structure Of The Complex Between Tfb5 And The C-Terminal Domain Of Tfb2 Length = 108

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 46/66 (69%)
Query: 310 DQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGH 369
           DQIRLW+ E +R+ T EG LYS F +  ++  L  YAQD+GVL W+++KK+   ++K+G+
Sbjct: 34  DQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFISKEGN 93
Query: 370 SDIKKF 375
           S +  F
Sbjct: 94  SQVLDF 99

>pdb|3DGP|A Chain A, Crystal Structure Of The Complex Between Tfb5 And The C-Terminal Domain Of Tfb2 Length = 80

Iteration: 1
 Score = 59.3 bits (142), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 46/66 (69%)
Query: 310 DQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGH 369
           DQIRLW+ E +R+ T EG LYS F +  ++  L  YAQD+GVL W+++KK+   ++K+G+
Sbjct: 6   DQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFISKEGN 65
Query: 370 SDIKKF 375
           S +  F
Sbjct: 66  SQVLDF 71

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	386
3dom_A	108	RNA polymerase II transcription factor B subunit;	6e-34
3dgp_A	80	RNA polymerase II transcription factor B subunit;	6e-32
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08

>3dom_A RNA polymerase II transcription factor B subunit; protein-protein complex, heterodimer, beta-alpha-beta split, strand addition; 2.60A {Saccharomyces cerevisiae} Length = 108

 Score =  121 bits (304), Expect = 6e-34
 Identities = 40/103 (38%), Positives = 60/103 (58%), Gaps = 4/103 (3%)

Query: 285 AAQIIGFLRLHALPSVSCP---LPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEK 341
           A + +   +L   P+   P   LPP V DQIRLW+ E +R+ T EG LYS F +  ++  
Sbjct: 7   AEEKLEK-KLELDPNCKEPLQVLPPTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNL 65

Query: 342 LRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGSQ 384
           L  YAQD+GVL W+++KK+   ++K+G+S +  F     K  Q
Sbjct: 66  LSKYAQDIGVLLWKDDKKKKFFISKEGNSQVLDFAKRKLKKKQ 108

>3dgp_A RNA polymerase II transcription factor B subunit; protein-protein complex, beta-alpha-beta spilt, heterodimer, damage, DNA excision; 1.80A {Saccharomyces cerevisiae} Length = 80

 Score =  114 bits (288), Expect = 6e-32
 Identities = 34/79 (43%), Positives = 50/79 (63%)

Query: 306 PVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVT 365
           P V DQIRLW+ E +R+ T EG LYS F +  ++  L  YAQD+GVL W+++KK+   ++
Sbjct: 2   PTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFIS 61

Query: 366 KQGHSDIKKFWVNHQKGSQ 384
           K+G+S +  F     K  Q
Sbjct: 62  KEGNSQVLDFAKRKLKKKQ 80

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 55.6 bits (133), Expect = 2e-08
 Identities = 83/475 (17%), Positives = 134/475 (28%), Gaps = 146/475 (30%)

Query: 1   ELSEIAKHY-----VIRLLFVE-------QPVPQAVIASWLSKTHAKEHKEATDTLTELR 48
           E  E    Y     V    FV+       Q +P+++    LSK        + D ++   
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSI----LSKEEIDHIIMSKDAVSGTL 65

Query: 49  RNAKVALLGGGKPWSMSAKLEVDSKARDLDFLNQYALERWECILRFMVGSQQTEGISADA 108
           R     L    K   M  K   +    +  FL    +              +TE      
Sbjct: 66  RLFWTLLS---KQEEMVQKFVEEVLRINYKFL----MSPI-----------KTEQRQPSM 107

Query: 109 VRTLFNEGAE-----NPVITKDG---------FQFLLLE-TPAQVWYFIL-------KYL 146
           +  ++ E  +     N V  K            +  LLE  PA+    ++       K  
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK--NVLIDGVLGSGK-- 163

Query: 147 ETVESKGLDLVECLTFLFQLKFS------TFGTDYSTEGMSDKLQVFLQHLREFGLVYQR 200
            T     + L  CL++  Q K              S E + + LQ  L  +         
Sbjct: 164 -TW----VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP-----NW 213

Query: 201 KRKAGRFYPTKLALNMAT---RGTLKQIREPGFLIVETNFRVYAYTDSNLKVALIGLFCE 257
             ++      KL ++      R  LK       L+V  N  V    ++        L C+
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN--VQ---NAKA-WNAFNLSCK 267

Query: 258 LMYRFPNLTVGVLTRD-SVRAAL-------------RSGITAAQIIGFL------RLHAL 297
           ++         + TR   V   L                +T  ++   L      R   L
Sbjct: 268 IL---------LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318

Query: 298 PSVSCPLPPVVSDQIRLWEGERERLTTSEGVLY----------SQFVSQADFEKLRDYAQ 347
           P       P     I   E  R+ L T +   +             ++  +  + R    
Sbjct: 319 PREVLTTNPRRLSII--AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376

Query: 348 DLGV-------------LTWQNEKKRTV--VVTK-QGHSDIKKFWVNHQKGSQHS 386
            L V             L W +  K  V  VV K   +S ++K      K S  S
Sbjct: 377 RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK----QPKESTIS 427

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	386
3dom_A	108	RNA polymerase II transcription factor B subunit;	99.98
3dgp_A	80	RNA polymerase II transcription factor B subunit;	99.97

>3dom_A RNA polymerase II transcription factor B subunit; protein-protein complex, heterodimer, beta-alpha-beta split, strand addition; 2.60A {Saccharomyces cerevisiae}

Probab=99.98  E-value=2.9e-33  Score=234.96  Aligned_cols=83  Identities=42%  Similarity=0.785  Sum_probs=72.7

Q ss_pred             CCCCCChhHHHHHHHhHhhcCceeeecceeeccCCCHHHHHHHHHHHHHcCeEEEeeCCcceEEEeCCCchHHHHHHHhh
Q psy13810        300 VSCPLPPVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNH  379 (386)
Q Consensus       300 ~~~~lP~tV~dQIrLWe~Er~R~~~~~g~Ly~~f~s~~~~~~v~~ya~~~g~llw~~~~kr~~~V~~~~h~~vr~f~k~~  379 (386)
                      .|+ |||||+|||||||.|||||++++||||++|.|+++|+.+++||+++|||||+|+.+|+|||+.+||++||+|||++
T Consensus        25 ~p~-lPpTVvDQIrLWE~ErnRl~~~~G~LY~dF~s~~efe~v~~yA~e~gvLlW~d~~kr~~~Vs~egh~~vk~f~Kr~  103 (108)
T 3dom_A           25 LQV-LPPTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFISKEGNSQVLDFAKRK  103 (108)
T ss_dssp             --------CCCHHHHHHHHHTTCEEEEEEEEECCSCHHHHHHHHHHHHHHTCEEEEEGGGTEEEEEGGGHHHHHHHHHHH
T ss_pred             CCC-CCCcHHHHHHHHHHhhCceeccceEEEecCCCHHHHHHHHHHHHHcCeEEEecCCccEEEEeccchHHHHHHHHHH
Confidence            478 9999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCC
Q psy13810        380 QKGS  383 (386)
Q Consensus       380 ~~~~  383 (386)
                      +++.
T Consensus       104 ~~~~  107 (108)
T 3dom_A          104 LKKK  107 (108)
T ss_dssp             C---
T ss_pred             Hhcc
Confidence            8764

>3dgp_A RNA polymerase II transcription factor B subunit; protein-protein complex, beta-alpha-beta spilt, heterodimer, damage, DNA excision; 1.80A {Saccharomyces cerevisiae}

Probab=99.97  E-value=2e-32  Score=219.27  Aligned_cols=78  Identities=42%  Similarity=0.778  Sum_probs=61.8

Q ss_pred             hhHHHHHHHhHhhcCceeeecceeeccCCCHHHHHHHHHHHHHcCeEEEeeCCcceEEEeCCCchHHHHHHHhhhcCC
Q psy13810        306 PVVSDQIRLWEGERERLTTSEGVLYSQFVSQADFEKLRDYAQDLGVLTWQNEKKRTVVVTKQGHSDIKKFWVNHQKGS  383 (386)
Q Consensus       306 ~tV~dQIrLWe~Er~R~~~~~g~Ly~~f~s~~~~~~v~~ya~~~g~llw~~~~kr~~~V~~~~h~~vr~f~k~~~~~~  383 (386)
                      |||+|||||||+|||||++++||||++|+|+++|+.+++||+++|||||+|+.+|+|||+++||++||+|||+++++.
T Consensus         2 pTV~DQIrLWe~ErnRl~~~~g~Ly~~F~s~~efe~~~~yA~e~gvLlW~~~~kr~~~V~~~gh~~vk~f~k~~~~~~   79 (80)
T 3dgp_A            2 PTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFISKEGNSQVLDFAKRKLKKK   79 (80)
T ss_dssp             ------------CGGGCEEEEEEEEECCSCHHHHHHHHHHHHHTTCEEEEETTTTEEEEEGGGHHHHHHHHTTC----
T ss_pred             CchHHHHHHHHHhhCceeccceEEEecCCCHHHHHHHHHHHHHcCeEEEecCCccEEEEeccchHHHHHHHHHHHhcc
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999998764

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00