Citrus Sinensis ID: 023564

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280
MKSSPSTTSLGANRNYHSLLGKIPLSSNQNNTLNVNSNSTDIDICNKIEDTHSAFSRLELKQTNELANHAAQNIARRDKVVNAPSLEPESCASGKSNRKLKGLKSTKSGTQGSNADAPNGLNLSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVARLKAEIESLHAEECRIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYLLN
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccHHHHHHHHcHHHHHHHHHHHHHccccHHHHccccEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHccccccEEEEEEEEEEEEcccccccc
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEHHHHHcccHHHEEEEEHHHHHHHHHHHHHc
mksspsttslganrnyHSLLgkiplssnqnntlnvnsnstdidICNKIEDTHSAFSRLELKQTNELANHAAQNIarrdkvvnapslepescasgksnrklkglkstksgtqgsnadapnglnlsngcrydsslgLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKtsknhirwkgsdslgtskLDDQVARLKAEIESLHAEECRIDDSIREKQELIRTLEENENhqkymflteediaslpcFQVIAVNLRIYLKSIFSYLLN
mksspsttslganrNYHSLLGKIPLSSNQNNTLNVNSNSTDIDICNKIEDTHSAFSRLELKQTNELANHAAQNIARRDKVVNApslepescasgksnrklkglkstksgtqgsnadapnglnlsnGCRYDSSLGLLTRKFINLIQeakdgtldlnrtaevlevqkrriyditnvlegigliektsknhirwkgsdslgtsklDDQVARLKAEIeslhaeecriddsiREKQELIRTLEENENHQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYLLN
MKSSPSTTSLGANRNYHSLLGKIPlssnqnntlnvnsnstDIDICNKIEDTHSAFSRLELKQTNELANHAAQNIARRDKVVNAPSLEPESCASGKSNRKLKGLKSTKSGTQGSNADAPNGLNLSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVARLKAEIESLHAEECRIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYLLN
*****************************************IDICNKIE**************************************************************************SNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWK****************************CRI*********LIRTL****NHQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYLL*
************************************************************************************************************************************LGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSL*******************HAEECRIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYL**
**********GANRNYHSLLGKIPLSSNQNNTLNVNSNSTDIDICNKIEDTHSAFSRLELKQTNELANHAAQNIARRDKVVNAPSLEPESCASGKSNRKLKGLKSTKSGTQGSNADAPNGLNLSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVARLKAEIESLHAEECRIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYLLN
*************R*YHSLLGKIPLSSNQNNTLNVNSNSTDIDICNKIEDTHSAFSRLELK****************************************************************GCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVARLKAEIESLHAEECRIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYLLN
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooo
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MKSSPSTTSLGANRNYHSLLGKIPLSSNQNNTLNVNSNSTDIDICNKIEDTHSAFSRLELKQTNELANHAAQNIARRDKVVNAPSLEPESCASGKSNRKLKGLKSTKSGTQGSNADAPNGLNLSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGxxxxxxxxxxxxxxxxxxxxxECRxxxxxxxxxxxxxxxxxxxxxQKYMFLTEEDIASLPCFQVIAVNLRIYLKSIFSYLLN
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query280 2.2.26 [Sep-21-2011]
Q9FV70396 Transcription factor E2FC yes no 0.589 0.416 0.652 6e-57
Q9FV71 469 Transcription factor E2FB no no 0.635 0.379 0.565 9e-51
Q9FNY0 485 Transcription factor E2FA no no 0.596 0.344 0.596 6e-48
Q16254 413 Transcription factor E2F4 yes no 0.467 0.317 0.518 7e-28
Q8R0K9 410 Transcription factor E2F4 yes no 0.467 0.319 0.518 1e-27
O35261 457 Transcription factor E2F3 no no 0.546 0.334 0.435 4e-27
O00716 465 Transcription factor E2F3 no no 0.546 0.329 0.435 4e-27
Q61502 335 Transcription factor E2F5 no no 0.525 0.438 0.456 8e-27
P56931 443 Transcription factor E2F2 no no 0.521 0.329 0.442 2e-26
Q15329 346 Transcription factor E2F5 no no 0.467 0.378 0.496 2e-26
>sp|Q9FV70|E2FC_ARATH Transcription factor E2FC OS=Arabidopsis thaliana GN=E2FC PE=1 SV=1 Back     alignment and function desciption
 Score =  221 bits (562), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 109/167 (65%), Positives = 135/167 (80%), Gaps = 2/167 (1%)

Query: 97  NRKLKGLKSTKSGTQGSNADAPNG-LN-LSNGCRYDSSLGLLTRKFINLIQEAKDGTLDL 154
           N+   G K  K+G + +N +  NG LN  S  CRYDSSLGLLT+KF+ LIQEA+DGTLDL
Sbjct: 122 NKSKGGTKLLKAGKRMANGEVQNGGLNGASINCRYDSSLGLLTKKFVKLIQEAEDGTLDL 181

Query: 155 NRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVARLKAEIE 214
           N  A VLEVQKRRIYDITNVLEGIGLIEKT+KNHIRWKG+D+LG   L DQ++RLK+E+E
Sbjct: 182 NYCAVVLEVQKRRIYDITNVLEGIGLIEKTTKNHIRWKGADNLGQKDLGDQISRLKSEVE 241

Query: 215 SLHAEECRIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQ 261
           S+ +EE R+DD IRE+QE +R+LEE++  ++YMF+TEEDI SLP FQ
Sbjct: 242 SMQSEESRLDDLIRERQEALRSLEEDDYCRRYMFMTEEDITSLPRFQ 288
Involved in transcriptional repression. May act by repressing E2F-regulated genes in mature differentiated cells, but is not an antagonist of E2FA. Restricts cell division and is involved in the coordination between cell proliferation and endoreduplication during development. May play a role during the transition from skotomorphogenesis to photomorphogenesis. Regulated by phosphorylation-dependent proteolysis via the protein-ubiquitin ligase SCF(SKP2A) complex.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9FV71|E2FB_ARATH Transcription factor E2FB OS=Arabidopsis thaliana GN=E2FB PE=1 SV=1 Back     alignment and function description
>sp|Q9FNY0|E2FA_ARATH Transcription factor E2FA OS=Arabidopsis thaliana GN=E2FA PE=1 SV=1 Back     alignment and function description
>sp|Q16254|E2F4_HUMAN Transcription factor E2F4 OS=Homo sapiens GN=E2F4 PE=1 SV=2 Back     alignment and function description
>sp|Q8R0K9|E2F4_MOUSE Transcription factor E2F4 OS=Mus musculus GN=E2f4 PE=2 SV=1 Back     alignment and function description
>sp|O35261|E2F3_MOUSE Transcription factor E2F3 OS=Mus musculus GN=E2f3 PE=1 SV=2 Back     alignment and function description
>sp|O00716|E2F3_HUMAN Transcription factor E2F3 OS=Homo sapiens GN=E2F3 PE=1 SV=1 Back     alignment and function description
>sp|Q61502|E2F5_MOUSE Transcription factor E2F5 OS=Mus musculus GN=E2f5 PE=2 SV=2 Back     alignment and function description
>sp|P56931|E2F2_MOUSE Transcription factor E2F2 OS=Mus musculus GN=E2f2 PE=1 SV=2 Back     alignment and function description
>sp|Q15329|E2F5_HUMAN Transcription factor E2F5 OS=Homo sapiens GN=E2F5 PE=1 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query280
359492228 437 PREDICTED: transcription factor E2FC-lik 0.757 0.485 0.65 1e-72
302142646 436 unnamed protein product [Vitis vinifera] 0.757 0.486 0.65 1e-72
255538912 386 E2F4,5, putative [Ricinus communis] gi|2 0.821 0.595 0.622 8e-72
356517978 473 PREDICTED: transcription factor E2FC-lik 0.635 0.376 0.661 9e-63
356509584355 PREDICTED: transcription factor E2FC-lik 0.65 0.512 0.639 1e-62
224062015 476 transcription factor E2F [Populus tricho 0.807 0.474 0.536 4e-58
297847022 415 T2E6.2 [Arabidopsis lyrata subsp. lyrata 0.703 0.474 0.599 1e-57
147839835 389 hypothetical protein VITISV_039339 [Viti 0.625 0.449 0.588 5e-57
22086272 386 E2F-related transcription factor 2 [Nocc 0.617 0.448 0.632 3e-56
449470106 410 PREDICTED: transcription factor E2FC-lik 0.771 0.526 0.531 1e-55
>gi|359492228|ref|XP_002280139.2| PREDICTED: transcription factor E2FC-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 143/220 (65%), Positives = 169/220 (76%), Gaps = 8/220 (3%)

Query: 49  EDTHSAFSRLELKQTNELANHAAQNIARRDKV------VNAPSLEPESCASGKSNR-KLK 101
           +D  SAF +L LKQTNE+ +H     +R+  +      +  PSLEPESC  GK    K K
Sbjct: 63  DDRQSAFVKLPLKQTNEI-DHCKGQTSRQATLDGHGEEMKFPSLEPESCVGGKQQHSKSK 121

Query: 102 GLKSTKSGTQGSNADAPNGLNLSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVL 161
             K+ KSG Q SNA++PN LN    CRYDSSLGLLT+KFI+LIQEAKDGTLDLNRTA+VL
Sbjct: 122 VSKNAKSGAQRSNAESPNILNPVVTCRYDSSLGLLTKKFISLIQEAKDGTLDLNRTADVL 181

Query: 162 EVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVARLKAEIESLHAEEC 221
           EVQKRRIYDITNVLEGIGLIEKTSKNHI WKG D  G  K+D++V RLKAE+E L+AEEC
Sbjct: 182 EVQKRRIYDITNVLEGIGLIEKTSKNHISWKGFDMSGPQKMDNEVTRLKAEVERLYAEEC 241

Query: 222 RIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQ 261
           R+DD IREKQEL+R +  +EN QK++FLTEEDI +LPCFQ
Sbjct: 242 RLDDCIREKQELLRAIAGDENCQKHLFLTEEDITTLPCFQ 281

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|302142646|emb|CBI19849.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255538912|ref|XP_002510521.1| E2F4,5, putative [Ricinus communis] gi|223551222|gb|EEF52708.1| E2F4,5, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356517978|ref|XP_003527661.1| PREDICTED: transcription factor E2FC-like [Glycine max] Back     alignment and taxonomy information
>gi|356509584|ref|XP_003523527.1| PREDICTED: transcription factor E2FC-like [Glycine max] Back     alignment and taxonomy information
>gi|224062015|ref|XP_002300712.1| transcription factor E2F [Populus trichocarpa] gi|222842438|gb|EEE79985.1| transcription factor E2F [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297847022|ref|XP_002891392.1| T2E6.2 [Arabidopsis lyrata subsp. lyrata] gi|297337234|gb|EFH67651.1| T2E6.2 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|147839835|emb|CAN61698.1| hypothetical protein VITISV_039339 [Vitis vinifera] Back     alignment and taxonomy information
>gi|22086272|gb|AAM90621.1|AF400001_1 E2F-related transcription factor 2 [Noccaea caerulescens] Back     alignment and taxonomy information
>gi|449470106|ref|XP_004152759.1| PREDICTED: transcription factor E2FC-like [Cucumis sativus] gi|449521766|ref|XP_004167900.1| PREDICTED: transcription factor E2FC-like [Cucumis sativus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query280
TAIR|locus:2202390396 ATE2F2 [Arabidopsis thaliana ( 0.710 0.502 0.569 3e-53
TAIR|locus:3685148 469 E2F1 "E2F transcription factor 0.621 0.371 0.570 3.7e-48
TAIR|locus:2039220 514 E2F3 "E2F transcription factor 0.664 0.361 0.443 3.6e-28
UNIPROTKB|F1MBE6 404 E2F4 "Uncharacterized protein" 0.467 0.324 0.518 5e-28
MGI|MGI:105091 335 E2f5 "E2F transcription factor 0.525 0.438 0.456 5e-28
UNIPROTKB|Q16254 413 E2F4 "Transcription factor E2F 0.467 0.317 0.518 6.4e-28
MGI|MGI:103012 410 E2f4 "E2F transcription factor 0.467 0.319 0.518 6.4e-28
RGD|2322129 412 E2f4 "E2F transcription factor 0.467 0.317 0.518 6.4e-28
UNIPROTKB|E1C204 312 E2F5 "Uncharacterized protein" 0.503 0.451 0.476 8.2e-28
UNIPROTKB|D4ADJ4 341 E2f5 "Transcription factor E2F 0.6 0.492 0.438 1e-27
TAIR|locus:2202390 ATE2F2 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 551 (199.0 bits), Expect = 3.0e-53, P = 3.0e-53
 Identities = 115/202 (56%), Positives = 146/202 (72%)

Query:    62 QTNELANHAAQNIARRDKVVNAPSLEPESCASGKSNRKLKGLKSTKSGTQGSNADAPNG- 120
             Q   +AN +        KV+      P++      N+   G K  K+G + +N +  NG 
Sbjct:    88 QLGSIANMSGGESIDIAKVIVKQESSPQN-VKRVYNKSKGGTKLLKAGKRMANGEVQNGG 146

Query:   121 LN-LSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIG 179
             LN  S  CRYDSSLGLLT+KF+ LIQEA+DGTLDLN  A VLEVQKRRIYDITNVLEGIG
Sbjct:   147 LNGASINCRYDSSLGLLTKKFVKLIQEAEDGTLDLNYCAVVLEVQKRRIYDITNVLEGIG 206

Query:   180 LIEKTSKNHIRWKGSDSLGTSKLDDQVARLKAEIESLHAEECRIDDSIREKQELIRTLEE 239
             LIEKT+KNHIRWKG+D+LG   L DQ++RLK+E+ES+ +EE R+DD IRE+QE +R+LEE
Sbjct:   207 LIEKTTKNHIRWKGADNLGQKDLGDQISRLKSEVESMQSEESRLDDLIRERQEALRSLEE 266

Query:   240 NENHQKYMFLTEEDIASLPCFQ 261
             ++  ++YMF+TEEDI SLP FQ
Sbjct:   267 DDYCRRYMFMTEEDITSLPRFQ 288
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0005667 "transcription factor complex" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IDA
GO:0003677 "DNA binding" evidence=IDA
GO:0000902 "cell morphogenesis" evidence=IMP
GO:0005515 "protein binding" evidence=IPI
GO:0051301 "cell division" evidence=IMP
GO:0005730 "nucleolus" evidence=IDA
GO:0042023 "DNA endoreduplication" evidence=RCA;IMP
GO:0046982 "protein heterodimerization activity" evidence=IPI
GO:0051782 "negative regulation of cell division" evidence=IMP
GO:0006302 "double-strand break repair" evidence=RCA
GO:0010090 "trichome morphogenesis" evidence=RCA
GO:0010332 "response to gamma radiation" evidence=RCA
GO:0051302 "regulation of cell division" evidence=RCA
TAIR|locus:3685148 E2F1 "E2F transcription factor 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2039220 E2F3 "E2F transcription factor 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1MBE6 E2F4 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:105091 E2f5 "E2F transcription factor 5" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q16254 E2F4 "Transcription factor E2F4" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:103012 E2f4 "E2F transcription factor 4" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|2322129 E2f4 "E2F transcription factor 4, p107/p130-binding" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E1C204 E2F5 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|D4ADJ4 E2f5 "Transcription factor E2F5" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query280
pfam0231967 pfam02319, E2F_TDP, E2F/DP family winged-helix DNA 2e-30
>gnl|CDD|202203 pfam02319, E2F_TDP, E2F/DP family winged-helix DNA-binding domain Back     alignment and domain information 
 Score =  108 bits (273), Expect = 2e-30
 Identities = 45/67 (67%), Positives = 53/67 (79%), Gaps = 1/67 (1%)

Query: 128 RYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEV-QKRRIYDITNVLEGIGLIEKTSK 186
           R + SLGLLT+KF+ L +++ DG  DLN  A+ L+V QKRRIYDITNVLEGIGLIEK SK
Sbjct: 1   RKEKSLGLLTQKFLKLCEKSPDGITDLNEAAKELDVKQKRRIYDITNVLEGIGLIEKKSK 60

Query: 187 NHIRWKG 193
           N IRW G
Sbjct: 61  NEIRWIG 67

This family contains the transcription factor E2F and its dimerisation partners TDP1 and TDP2, which stimulate E2F-dependent transcription. E2F binds to DNA as a homodimer or as a heterodimer in association with TDP1/2, the heterodimer having increased binding efficiency. The crystal structure of an E2F4-DP2-DNA complex shows that the DNA-binding domains of the E2F and DP proteins both have a fold related to the winged-helix DNA-binding motif. Recognition of the central c/gGCGCg/c sequence of the consensus DNA-binding site is symmetric, and amino acids that contact these bases are conserved among all known E2F and DP proteins. Length = 67

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 280
KOG2577 354 consensus Transcription factor E2F/dimerization pa 100.0
PF0231971 E2F_TDP: E2F/DP family winged-helix DNA-binding do 99.89
KOG2578 388 consensus Transcription factor E2F/dimerization pa 99.8
KOG2578388 consensus Transcription factor E2F/dimerization pa 99.0
KOG2829 326 consensus E2F-like protein [Transcription] 98.96
PF0197868 TrmB: Sugar-specific transcriptional regulator Trm 95.2
PF0827955 HTH_11: HTH domain; InterPro: IPR013196 Winged hel 93.97
COG1378247 Predicted transcriptional regulators [Transcriptio 93.46
smart0042053 HTH_DEOR helix_turn_helix, Deoxyribose operon repr 92.97
cd0009267 HTH_CRP helix_turn_helix, cAMP Regulatory protein 92.71
smart0034691 HTH_ICLR helix_turn_helix isocitrate lyase regulat 92.05
PF0933952 HTH_IclR: IclR helix-turn-helix domain; InterPro: 91.75
smart0055068 Zalpha Z-DNA-binding domain in adenosine deaminase 91.5
PF1280262 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP 90.09
PF1341248 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 89.8
smart0041866 HTH_ARSR helix_turn_helix, Arsenical Resistance Op 87.43
COG3355126 Predicted transcriptional regulator [Transcription 86.79
PF14394171 DUF4423: Domain of unknown function (DUF4423) 86.17
PF0208283 Rrf2: Transcriptional regulator; InterPro: IPR0009 85.92
TIGR02944130 suf_reg_Xantho FeS assembly SUF system regulator, 85.65
cd00890129 Prefoldin Prefoldin is a hexameric molecular chape 85.63
PF0104759 MarR: MarR family; InterPro: IPR000835 The MarR-ty 85.46
PF1373055 HTH_36: Helix-turn-helix domain 85.33
cd0009078 HTH_ARSR Arsenical Resistance Operon Repressor and 83.59
PF0907985 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The 82.86
PF1346368 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL 82.81
TIGR0012269 birA_repr_reg BirA biotin operon repressor domain. 81.51
PF0039264 GntR: Bacterial regulatory proteins, gntR family; 81.3
smart0041948 HTH_CRP helix_turn_helix, cAMP Regulatory protein. 80.95
cd0876887 Cdc6_C Winged-helix domain of essential DNA replic 80.66
smart0034560 HTH_GNTR helix_turn_helix gluconate operon transcr 80.06
>KOG2577 consensus Transcription factor E2F/dimerization partner (TDP) [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=2.4e-53  Score=403.12  Aligned_cols=156  Identities=51%  Similarity=0.741  Sum_probs=150.3

Q ss_pred             CCCCCCCCCCCcHHHHHHHHHHHHHhCCCCceeHHHHHHHhcccceehhhhhhhhhhccccccccCCceEEecCCCCCCc
Q 023564          121 LNLSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEVQKRRIYDITNVLEGIGLIEKTSKNHIRWKGSDSLGTS  200 (280)
Q Consensus       121 ~tp~~~~R~d~SLglLTkkFI~ll~~a~~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~~KN~i~W~G~~~s~~~  200 (280)
                      .+|...+|+++|||+||+|||.|++++|||++|||+||++|+|+|||||||||||||||||+|++||+|+|+|.+.+..+
T Consensus        61 ~s~~~~~R~d~SLglLTkKFv~Llq~s~dGvldLn~aA~~L~VqKRRIYDITNVLEGI~LIeKksKN~IqW~G~~~~~~~  140 (354)
T KOG2577|consen   61 SSPSESTRSDTSLGLLTKKFVDLLQESPDGVLDLNKAAEVLNVQKRRIYDITNVLEGIGLIEKKSKNNIQWIGGDFNSTG  140 (354)
T ss_pred             cCCCCcccchhhHHHHHHHHHHHHHhCCCceeeHHHHHHHhccccceeeehhhhhhcccceeeccccceeeecCCCcccc
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999987667


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCcccccChHhhcCCCCCccchh---------------
Q 023564          201 KLDDQVARLKAEIESLHAEECRIDDSIREKQELIRTLEENENHQKYMFLTEEDIASLPCFQVIAV---------------  265 (280)
Q Consensus       201 ~~~~~~~~Lk~El~~L~~eE~~LD~~I~~~~~~L~~Lted~~n~~~~YVT~eDI~~l~~fq~qTv---------------  265 (280)
                      +..++.+.|++|++.|.++|+.||++|++|+++|+.|++|.+|++|+||||+||++|+.|++|||               
T Consensus       141 ~~~e~~~~l~~e~~~L~~~E~~LD~~i~~~q~~L~~lted~~n~~laYVT~eDI~~i~~f~~q~vi~vkap~et~levp~  220 (354)
T KOG2577|consen  141 GVPERLNGLEAEVEDLSQEEDDLDQLIRDCQQNLRLLTEDVENRRLAYVTYEDIRSIPGFDEQTVIAVKAPPETRLEVPD  220 (354)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhcccceeeeHHHHhhccccCCceEEEEecCCcceEeccc
Confidence            78888999999999999999999999999999999999999999999999999999999999999               


Q ss_pred             ----eeeeeehhhhh
Q 023564          266 ----NLRIYLKSIFS  276 (280)
Q Consensus       266 ----~lqI~LkS~~~  276 (280)
                          .+||+|||++.
T Consensus       221 ~~~~~~~i~L~s~~G  235 (354)
T KOG2577|consen  221 PDEDRYQIRLKSNQG  235 (354)
T ss_pred             CCCCceEEEeccCCC
Confidence                79999999985

>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle Back     alignment and domain information
>KOG2578 consensus Transcription factor E2F/dimerization partner (TDP)-like proteins [Transcription] Back     alignment and domain information
>KOG2578 consensus Transcription factor E2F/dimerization partner (TDP)-like proteins [Transcription] Back     alignment and domain information
>KOG2829 consensus E2F-like protein [Transcription] Back     alignment and domain information
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis Back     alignment and domain information
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets Back     alignment and domain information
>COG1378 Predicted transcriptional regulators [Transcription] Back     alignment and domain information
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor Back     alignment and domain information
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family Back     alignment and domain information
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation Back     alignment and domain information
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities Back     alignment and domain information
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases Back     alignment and domain information
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B Back     alignment and domain information
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A Back     alignment and domain information
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor Back     alignment and domain information
>COG3355 Predicted transcriptional regulator [Transcription] Back     alignment and domain information
>PF14394 DUF4423: Domain of unknown function (DUF4423) Back     alignment and domain information
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp Back     alignment and domain information
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial Back     alignment and domain information
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly Back     alignment and domain information
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance Back     alignment and domain information
>PF13730 HTH_36: Helix-turn-helix domain Back     alignment and domain information
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors Back     alignment and domain information
>PF09079 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The C-terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8) Back     alignment and domain information
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A Back     alignment and domain information
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain Back     alignment and domain information
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities Back     alignment and domain information
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein Back     alignment and domain information
>cd08768 Cdc6_C Winged-helix domain of essential DNA replication protein Cell division control protein (Cdc6), which mediates DNA binding Back     alignment and domain information
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query280
1cf7_A76 Structural Basis Of Dna Recognition By The Heterodi 2e-21
>pdb|1CF7|A Chain A, Structural Basis Of Dna Recognition By The Heterodimeric Cell Cycle Transcription Factor E2f-Dp Length = 76 Back     alignment and structure 
Iteration: 1

 Score = 99.0 bits (245), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 49/68 (72%), Positives = 56/68 (82%), Gaps = 1/68 (1%)
Query: 127 CRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEV-QKRRIYDITNVLEGIGLIEKTS 185
            R++ SLGLLT KF++L+QEAKDG LDL   A+ L V QKRRIYDITNVLEGIGLIEK S
Sbjct: 6   SRHEKSLGLLTTKFVSLLQEAKDGVLDLKLAADTLAVRQKRRIYDITNVLEGIGLIEKKS 65
Query: 186 KNHIRWKG 193
           KN I+WKG
Sbjct: 66  KNSIQWKG 73

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query280
1cf7_A76 Protein (transcription factor E2F-4); E2F, winged- 2e-29
2aze_B106 Transcription factor E2F1; coiled coil, beta sandw 2e-15
>1cf7_A Protein (transcription factor E2F-4); E2F, winged-helix, DNA-binding domain, cell cycle, transcription/DNA complex; HET: DNA; 2.60A {Homo sapiens} SCOP: a.4.5.17 Length = 76 Back     alignment and structure
 Score =  105 bits (264), Expect = 2e-29
 Identities = 49/71 (69%), Positives = 56/71 (78%), Gaps = 1/71 (1%)

Query: 124 SNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEV-QKRRIYDITNVLEGIGLIE 182
               R++ SLGLLT KF++L+QEAKDG LDL   A+ L V QKRRIYDITNVLEGIGLIE
Sbjct: 3   GTPSRHEKSLGLLTTKFVSLLQEAKDGVLDLKLAADTLAVRQKRRIYDITNVLEGIGLIE 62

Query: 183 KTSKNHIRWKG 193
           K SKN I+WKG
Sbjct: 63  KKSKNSIQWKG 73
>2aze_B Transcription factor E2F1; coiled coil, beta sandwich, cell cycle, transcription; 2.55A {Homo sapiens} SCOP: e.63.1.2 Length = 106 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query280
1cf7_A76 Protein (transcription factor E2F-4); E2F, winged- 99.96
2aze_B106 Transcription factor E2F1; coiled coil, beta sandw 99.8
1cf7_B95 Protein (transcription factor DP-2); E2F, winged-h 99.39
2xvc_A59 ESCRT-III, SSO0910; cell cycle, cell division, cyt 93.78
1qgp_A77 Protein (double stranded RNA adenosine deaminase); 93.38
1oyi_A82 Double-stranded RNA-binding protein; (alpha+beta) 92.84
2heo_A67 Z-DNA binding protein 1; protein DLM1-Z-DNA comple 92.52
3deu_A166 Transcriptional regulator SLYA; MARR, WING-helix, 92.51
1qbj_A81 Protein (double-stranded RNA specific adenosine D 92.43
3r0a_A123 Putative transcriptional regulator; structural gen 92.32
1r7j_A95 Conserved hypothetical protein SSO10A; winged heli 92.04
3eco_A139 MEPR; mutlidrug efflux pump regulator winged helix 91.07
2oqg_A114 Possible transcriptional regulator, ARSR family P; 90.97
3jw4_A148 Transcriptional regulator, MARR/EMRR family; DNA-b 90.87
1ku9_A152 Hypothetical protein MJ223; putative transcription 90.16
2htj_A81 P fimbrial regulatory protein KS71A; winged helix- 89.82
3qph_A 342 TRMB, A global transcription regulator; transcript 89.37
2a61_A145 Transcriptional regulator TM0710; APC4350, MCSG, m 88.72
2gxg_A146 146AA long hypothetical transcriptional regulator; 88.68
3cuo_A99 Uncharacterized HTH-type transcriptional regulato; 86.27
1sfx_A109 Conserved hypothetical protein AF2008; structural 86.26
2y75_A129 HTH-type transcriptional regulator CYMR; DNA bindi 85.85
2fa5_A162 Transcriptional regulator MARR/EMRR family; multip 85.56
1s3j_A155 YUSO protein; structural genomics, MARR transcript 85.47
2kko_A108 Possible transcriptional regulatory protein (possi 85.32
3bj6_A152 Transcriptional regulator, MARR family; helix-turn 85.18
4b8x_A147 SCO5413, possible MARR-transcriptional regulator; 85.12
3bpv_A138 Transcriptional regulator; MARR, DNA binding, tran 85.12
3bro_A141 Transcriptional regulator; helix_TURN_helix, multi 85.12
3u2r_A168 Regulatory protein MARR; structural genomics, PSI- 84.84
2eth_A154 Transcriptional regulator, putative, MAR family; M 84.72
1y0u_A96 Arsenical resistance operon repressor, putative; s 84.7
2hr3_A147 Probable transcriptional regulator; MCSG, structur 84.68
3g3z_A145 NMB1585, transcriptional regulator, MARR family; t 84.65
2d1h_A109 ST1889, 109AA long hypothetical transcriptional re 84.56
2frh_A127 SARA, staphylococcal accessory regulator A; winged 84.52
2qww_A154 Transcriptional regulator, MARR family; YP_013417. 84.34
1on2_A142 Transcriptional regulator MNTR; helix-turn-helix, 84.3
3nrv_A148 Putative transcriptional regulator (MARR/EMRR FAM; 83.91
2fu4_A83 Ferric uptake regulation protein; DNA binding doma 83.78
3s2w_A159 Transcriptional regulator, MARR family; structural 83.76
1lj9_A144 Transcriptional regulator SLYA; HTH DNA binding pr 83.48
3oop_A143 LIN2960 protein; protein structure initiative, PSI 83.26
3jth_A98 Transcription activator HLYU; transcription factor 83.11
3tgn_A146 ADC operon repressor ADCR; helix-turn-helix, trans 82.94
2x4h_A139 Hypothetical protein SSO2273; transcription; 2.30A 82.43
1r1u_A106 CZRA, repressor protein; zinc, DNA binding, transc 82.35
2fbh_A146 Transcriptional regulator PA3341; MARR, transcript 82.33
3cjn_A162 Transcriptional regulator, MARR family; silicibact 82.21
2bv6_A142 MGRA, HTH-type transcriptional regulator MGRA; mul 81.73
3boq_A160 Transcriptional regulator, MARR family; MARR famil 81.42
2lkp_A119 Transcriptional regulator, ARSR family; symmetric 81.24
3f6o_A118 Probable transcriptional regulator, ARSR family pr 81.22
3k0l_A162 Repressor protein; helix-turn-helix, structural ge 81.03
1ub9_A100 Hypothetical protein PH1061; helix-turn-helix moti 80.24
1j5y_A187 Transcriptional regulator, biotin repressor famil; 80.2
3e6m_A161 MARR family transcriptional regulator; APC88769, s 80.09
1u2w_A122 CADC repressor, cadmium efflux system accessory pr 80.03
>1cf7_A Protein (transcription factor E2F-4); E2F, winged-helix, DNA-binding domain, cell cycle, transcription/DNA complex; HET: DNA; 2.60A {Homo sapiens} SCOP: a.4.5.17 Back     alignment and structure
Probab=99.96  E-value=2.7e-30  Score=198.24  Aligned_cols=73  Identities=67%  Similarity=0.990  Sum_probs=65.8

Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHhCCCCceeHHHHHHHhcc-cceehhhhhhhhhhccccccccCCceEEecCC
Q 023564          123 LSNGCRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEV-QKRRIYDITNVLEGIGLIEKTSKNHIRWKGSD  195 (280)
Q Consensus       123 p~~~~R~d~SLglLTkkFI~ll~~a~~g~ldLn~aA~~L~V-qKRRIYDItNVLEgIGLIeK~~KN~i~W~G~~  195 (280)
                      |.+.+|+++||++||++||++|.+++++++||++||+.|+| +|||||||+|||||||||+|.+||.|+|+|++
T Consensus         2 ~~~~~R~~~SL~~lt~kFi~l~~~~~~~~i~l~~aa~~L~v~~kRRiYDI~NVLe~igli~K~~k~~~~W~G~~   75 (76)
T 1cf7_A            2 PGTPSRHEKSLGLLTTKFVSLLQEAKDGVLDLKLAADTLAVRQKRRIYDITNVLEGIGLIEKKSKNSIQWKGVG   75 (76)
T ss_dssp             ----CTTTTCHHHHHHHHHHHHHHSSTTEEEHHHHHHHTTTCCTHHHHHHHHHHHHHTSEEEEETTEEEEC---
T ss_pred             CCCCCCccCcHHHHHHHHHHHHHhCCCCcCcHHHHHHHhCCccceehhhHHHHHhHhcceeecCCCcEEEeCCC
Confidence            66799999999999999999999999999999999999999 99999999999999999999999999999976
>2aze_B Transcription factor E2F1; coiled coil, beta sandwich, cell cycle, transcription; 2.55A {Homo sapiens} SCOP: e.63.1.2 Back     alignment and structure
>1cf7_B Protein (transcription factor DP-2); E2F, winged-helix, DNA-binding domain, cell cycle, transcription/DNA complex; HET: DNA; 2.60A {Homo sapiens} SCOP: a.4.5.17 Back     alignment and structure
>2xvc_A ESCRT-III, SSO0910; cell cycle, cell division, cytokinesis, winged-helix; 2.15A {Sulfolobus solfataricus} Back     alignment and structure
>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19 Back     alignment and structure
>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19 Back     alignment and structure
>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A Back     alignment and structure
>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28 Back     alignment and structure
>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A Back     alignment and structure
>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei} Back     alignment and structure
>1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix, two-stranded antiparallel coiled CO structural genomics, PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB: 1xsx_A Back     alignment and structure
>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus} SCOP: a.4.5.0 Back     alignment and structure
>2oqg_A Possible transcriptional regulator, ARSR family P; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP} Back     alignment and structure
>3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Clostridium acetobutylicum} SCOP: a.4.5.0 Back     alignment and structure
>1ku9_A Hypothetical protein MJ223; putative transcription factor, homodimeric winged-helix fold, structural genomics, PSI; 2.80A {Methanocaldococcus jannaschii} SCOP: a.4.5.36 Back     alignment and structure
>2htj_A P fimbrial regulatory protein KS71A; winged helix-turn-helix, PAP PILI, transcription activator; NMR {Escherichia coli} SCOP: a.4.5.73 Back     alignment and structure
>3qph_A TRMB, A global transcription regulator; transcriptional regulator; HET: SUC; 2.99A {Pyrococcus furiosus} Back     alignment and structure
>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28 Back     alignment and structure
>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A Back     alignment and structure
>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12} Back     alignment and structure
>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT protein structure initiative, midwest center for structural genomics; 1.55A {Archaeoglobus fulgidus} SCOP: a.4.5.50 Back     alignment and structure
>2y75_A HTH-type transcriptional regulator CYMR; DNA binding protein; 2.00A {Bacillus subtilis} Back     alignment and structure
>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris} Back     alignment and structure
>1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator family, PSI, protein structure initiative; HET: MSE; 2.25A {Bacillus subtilis} SCOP: a.4.5.28 Back     alignment and structure
>2kko_A Possible transcriptional regulatory protein (possibly ARSR-family); NESG, DNA-binding, transcription regulation, WHTH, homodimer; NMR {Mycobacterium bovis} PDB: 3gw2_A Back     alignment and structure
>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, STR genomics, PSI-2, protein structure initiative; 2.01A {Silicibacter pomeroyi dss-3} Back     alignment and structure
>4b8x_A SCO5413, possible MARR-transcriptional regulator; winged helix motif; HET: CME; 1.25A {Streptomyces coelicolor} Back     alignment and structure
>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A* Back     alignment and structure
>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MA structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.04A {Oenococcus oeni} SCOP: a.4.5.28 Back     alignment and structure
>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, helix-turn-helix; 2.20A {Planctomyces limnophilus} Back     alignment and structure
>2eth_A Transcriptional regulator, putative, MAR family; MARR family, structural genomics, joint center for structura genomics, JCSG; 2.30A {Thermotoga maritima} SCOP: a.4.5.28 Back     alignment and structure
>1y0u_A Arsenical resistance operon repressor, putative; structural genomics, protein structure initiative, PSI; HET: MSE; 1.60A {Archaeoglobus fulgidus} SCOP: a.4.5.5 Back     alignment and structure
>2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28 Back     alignment and structure
>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B} Back     alignment and structure
>2d1h_A ST1889, 109AA long hypothetical transcriptional regulator; helix-turn-helix, intermolecular and intramolecular S-S bond structural genomics; 2.05A {Sulfolobus tokodaii} SCOP: a.4.5.50 Back     alignment and structure
>2frh_A SARA, staphylococcal accessory regulator A; winged-helix protein, divalent metal binding, transcription; 2.50A {Staphylococcus aureus} SCOP: a.4.5.28 PDB: 2fnp_A 1fzp_D Back     alignment and structure
>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str} Back     alignment and structure
>1on2_A Transcriptional regulator MNTR; helix-turn-helix, DNA-binding protein, metalloregulatory protein; 1.61A {Bacillus subtilis} SCOP: a.4.5.24 a.76.1.1 PDB: 2ev0_A 1on1_A 2ev5_A 2ev6_A* 2f5c_A 2f5d_A 2f5e_A 2f5f_A 2hyf_A* 2hyg_D 3r60_A* 3r61_A* Back     alignment and structure
>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP} Back     alignment and structure
>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli} Back     alignment and structure
>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei} Back     alignment and structure
>1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural genomics, PSI, protein structure initiative; 1.60A {Enterococcus faecalis} SCOP: a.4.5.28 Back     alignment and structure
>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua} Back     alignment and structure
>3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus} Back     alignment and structure
>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae} Back     alignment and structure
>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus} Back     alignment and structure
>1r1u_A CZRA, repressor protein; zinc, DNA binding, transcriptional regulation, winged HTH protein, transcription repressor; 2.00A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 1r1v_A 2kjb_A 2kjc_A Back     alignment and structure
>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 Back     alignment and structure
>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3} Back     alignment and structure
>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28 Back     alignment and structure
>3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3} Back     alignment and structure
>2lkp_A Transcriptional regulator, ARSR family; symmetric homodimer, NI(II) binding protein, DNA binding Pro transcription regulator; NMR {Mycobacterium tuberculosis} Back     alignment and structure
>3f6o_A Probable transcriptional regulator, ARSR family protein; transcriptional regulator,RHA00566,MCSG, structural genomics, PSI-2; 1.90A {Rhodococcus SP} Back     alignment and structure
>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP} Back     alignment and structure
>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genom transcription; 2.05A {Pyrococcus horikoshii} SCOP: a.4.5.28 Back     alignment and structure
>1j5y_A Transcriptional regulator, biotin repressor famil; structural genomics, TM1602, BIOT repressor family, JCSG, conserved hypothetical protein; 2.30A {Thermotoga maritima} SCOP: a.4.5.1 d.94.2.1 Back     alignment and structure
>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi} Back     alignment and structure
>1u2w_A CADC repressor, cadmium efflux system accessory protein; LEAD, SOFT metal ION resistance, ARSR/SM family, DNA binding protein; 1.90A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 3f72_A Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 280
d1cf7a_67 a.4.5.17 (A:) Cell cycle transcription factor E2F- 8e-30
d2azeb1101 e.63.1.2 (B:201-301) Transcription factor E2F1 {Hu 9e-15
d1cf7b_82 a.4.5.17 (B:) Cell cycle transcription factor DP-2 5e-05
>d1cf7a_ a.4.5.17 (A:) Cell cycle transcription factor E2F-4 {Human (Homo sapiens) [TaxId: 9606]} Length = 67 Back     information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Cell cycle transcription factor e2f-dp
domain: Cell cycle transcription factor E2F-4
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  105 bits (263), Expect = 8e-30
 Identities = 48/66 (72%), Positives = 55/66 (83%), Gaps = 1/66 (1%)

Query: 128 RYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEV-QKRRIYDITNVLEGIGLIEKTSK 186
           R++ SLGLLT KF++L+QEAKDG LDL   A+ L V QKRRIYDITNVLEGIGLIEK SK
Sbjct: 2   RHEKSLGLLTTKFVSLLQEAKDGVLDLKLAADTLAVRQKRRIYDITNVLEGIGLIEKKSK 61

Query: 187 NHIRWK 192
           N I+WK
Sbjct: 62  NSIQWK 67
>d2azeb1 e.63.1.2 (B:201-301) Transcription factor E2F1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101 Back     information, alignment and structure
>d1cf7b_ a.4.5.17 (B:) Cell cycle transcription factor DP-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 82 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query280
d1cf7a_67 Cell cycle transcription factor E2F-4 {Human (Homo 99.96
d2azeb1101 Transcription factor E2F1 {Human (Homo sapiens) [T 99.81
d1cf7b_82 Cell cycle transcription factor DP-2 {Human (Homo 98.76
d1j5ya165 Putative transcriptional regulator TM1602, N-termi 93.88
d1sfxa_109 Hypothetical protein AF2008 {Archaeoglobus fulgidu 93.83
d1ku9a_151 DNA-binding protein Mj223 {Archaeon Methanococcus 91.83
d1mkma175 Transcriptional regulator IclR, N-terminal domain 90.4
d1biaa163 Biotin repressor, N-terminal domain {Escherichia c 89.39
d2a61a1139 Transcriptional regulator TM0710 {Thermotoga marit 88.75
d2d1ha1109 Hypothetical transcriptional regulator ST1889 {Sul 87.17
d1tw3a185 Carminomycin 4-O-methyltransferase {Streptomyces p 86.24
d1p4xa1125 Staphylococcal accessory regulator A homolog, SarS 85.73
d1qzza192 Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu 84.4
d3broa1135 Transcriptional regulator OEOE1854 {Oenococcus oen 83.39
d2fbha1137 Transcriptional regulator PA3341 {Pseudomonas aeru 82.8
d1fnna1112 CDC6, C-terminal domain {Archaeon Pyrobaculum aero 81.92
d1ub9a_100 Hypothetical protein PH1061 {Archaeon Pyrococcus h 81.27
d1bl0a154 MarA {Escherichia coli [TaxId: 562]} 80.84
d2frha1115 Pleiotropic regulator of virulence genes, SarA {St 80.12
>d1cf7a_ a.4.5.17 (A:) Cell cycle transcription factor E2F-4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Cell cycle transcription factor e2f-dp
domain: Cell cycle transcription factor E2F-4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.8e-30  Score=193.98  Aligned_cols=66  Identities=73%  Similarity=1.081  Sum_probs=64.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhCCCCceeHHHHHHHhcc-cceehhhhhhhhhhccccccccCCceEEe
Q 023564          127 CRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEV-QKRRIYDITNVLEGIGLIEKTSKNHIRWK  192 (280)
Q Consensus       127 ~R~d~SLglLTkkFI~ll~~a~~g~ldLn~aA~~L~V-qKRRIYDItNVLEgIGLIeK~~KN~i~W~  192 (280)
                      +|+|+|||+||++||+++.++|++++||++||++|+| +|||||||||||||||||+|++||+|+|+
T Consensus         1 sR~ekSLglLt~kFl~l~~~~~~~~~~L~~aa~~L~v~~kRRiYDI~NVLe~igli~K~~Kn~~~W~   67 (67)
T d1cf7a_           1 SRHEKSLGLLTTKFVSLLQEAKDGVLDLKLAADTLAVRQKRRIYDITNVLEGIGLIEKKSKNSIQWK   67 (67)
T ss_dssp             CTTTTCHHHHHHHHHHHHHHSSTTEEEHHHHHHHTTTCCTHHHHHHHHHHHHHTSEEEEETTEEEEC
T ss_pred             ChhhhhHHHHHHHHHHHHhhCCCCeeeHHHHHHHhcCcchhhHHHHHHHHhhhhhhhcccCCccccC
Confidence            5999999999999999999999999999999999999 89999999999999999999999999995
>d2azeb1 e.63.1.2 (B:201-301) Transcription factor E2F1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1cf7b_ a.4.5.17 (B:) Cell cycle transcription factor DP-2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1j5ya1 a.4.5.1 (A:3-67) Putative transcriptional regulator TM1602, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1ku9a_ a.4.5.36 (A:) DNA-binding protein Mj223 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1biaa1 a.4.5.1 (A:1-63) Biotin repressor, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2a61a1 a.4.5.28 (A:5-143) Transcriptional regulator TM0710 {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d2d1ha1 a.4.5.50 (A:1-109) Hypothetical transcriptional regulator ST1889 {Sulfolobus tokodaii [TaxId: 111955]} Back     information, alignment and structure
>d1tw3a1 a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]} Back     information, alignment and structure
>d1p4xa1 a.4.5.28 (A:1-125) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1qzza1 a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]} Back     information, alignment and structure
>d3broa1 a.4.5.28 (A:3-137) Transcriptional regulator OEOE1854 {Oenococcus oeni [TaxId: 1247]} Back     information, alignment and structure
>d2fbha1 a.4.5.28 (A:8-144) Transcriptional regulator PA3341 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1fnna1 a.4.5.11 (A:277-388) CDC6, C-terminal domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Back     information, alignment and structure
>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1bl0a1 a.4.1.8 (A:9-62) MarA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2frha1 a.4.5.28 (A:102-216) Pleiotropic regulator of virulence genes, SarA {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure