Citrus Sinensis ID: 009564

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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-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530--
Protein Sequence
MNPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQVQKQTLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDKHTRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDLGKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTSSSGGSGSSFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSSSCVPFSGGAATDNSPLSGKMG
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccHHHHHHHHHcccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHcccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccHHHHHHHcccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccHccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHcccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mnpcipdwnfegdipisnqmkpmgqdnELVELLWQNGHVvlssqaqtqrkpslnhneprqvqkqtlrgsgscgnssnliqddetvswihcpiedsfeKDFYSQLfselppsgpmevdKHTRQLREEkmvkfdppgavtssqhpnvnhsvvpelqrnamppprfevhdaapqnknlgdlgklvnfsqstappkgelgpcsgqfdrkrsgnltqgevrecsmmtvgsshcgsnqvaydldmsrasssglnddvrkvispsergktetieptvtsssggsgssfnrtskqstgdnslkrksrdavdsecqseaagfesgagnktaqrsgscrrSRAAEVHNLSERRRRDRINEKMRALQELIphcnktdkaSMLDEAIEYLKSLQLQLQMSQVMWmgsgmaplmfpgmqhymsrmgmgmgppplpsvtnpmhfsrvplvdqsmSMAQAQNRAVMCQasvlnpvnyqnqmqnsnFTEQYARymgfhpmqansqpmnmfrfgsptmqnqivslpssscvpfsggaatdnsplsgkmg
Flexible Loop (DISEMBL)
mnpcipdwnfegdipISNQMKPMGQDNELVELLWQNGHVVLSSQaqtqrkpslnhneprqvqkqtlrgsgscgnssnliqddetVSWIHCPIEDSFEKDFYSQLFSelppsgpmeVDKHTRQLREEKMVKFDPpgavtssqhpnvnHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDLGKLVNFSQstappkgelgpcsgqfdrkrsgnltqGEVRECSMMTVGSSHCGSNQVAYDLDMSRasssglnddvrkvispsergktetieptvtsssggsgssfnrtskqstgdnslkrksrdaVDSECQSeaagfesgagnktaqrsgscrrsraaevhnlserrrrdrINEKMRALqeliphcnktdkASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSsscvpfsggaatdnsplsgkmg
Low Complexity Region (SEG)
MNPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQVQKQTLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDKHTRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDLGKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTsssggsgssFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYlkslqlqlqmsqVMWMGSGMAPLMFPGMQHYMSRmgmgmgpppLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSSSCVPFSGGAATDNSPLSGKMG
Disordered region (IsUnstruct)
******DWNFEGDI*************ELVELLWQNGHVVL***************************************DDETVSWIHCPIEDSFEKDFYSQLF************************************************************************************************************************************************************************************************************************************************************LIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQHY****************************************AVMCQASVLNPVNYQ*******FTEQYARYMGF***************************************************
Disordered Region (DISOPRED)
***CIPD*NFEGD**************ELVELLWQ**********************************************DETVSWIHCPIEDSFEKDF********************************************************************************************************************************************************************************************************************************************************NEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQM*************************************************************************************************************************************************
Disordered Region (DISEMBL)
MNPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLS*******************************NSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDKHTRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDLGKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPS*********************************************************************************SERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSSSCVPFSGGAATD*********
Disordered Region (DISPRO)
**********EGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQ*********************************LIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSG****************************************************************************************************************************************************************************************************************************************RDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQ*****L************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQVQKQTLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDKHTRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDLGKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTSSSGGSGSSFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSSSCVPFSGGAATDNSPLSGKMG
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	532	2.2.26 [Sep-21-2011]
Q84LH8	444	Transcription factor PIF5	yes	no	0.492	0.590	0.440	1e-44
Q8W2F3	430	Transcription factor PIF4	no	no	0.520	0.644	0.409	3e-41
Q8GZM7	478	Transcription factor PIF1	no	no	0.772	0.859	0.323	3e-40
O80536	524	Transcription factor PIF3	no	no	0.680	0.690	0.362	3e-37
Q9SVU6	413	Transcription factor bHLH	no	no	0.610	0.786	0.336	6e-32
Q8L5W8	416	Transcription factor PIL1	no	no	0.255	0.326	0.445	3e-23
Q9FUA4	373	Transcription factor SPAT	no	no	0.186	0.265	0.586	4e-22
Q9SVU7	445	Putative transcription fa	no	no	0.272	0.325	0.396	4e-22
Q7XHI7	307	Transcription factor bHLH	no	no	0.283	0.491	0.4	2e-21
Q9FHA2	210	Transcription factor ALC	no	no	0.165	0.419	0.5	3e-20

>sp|Q84LH8|PIF5_ARATH Transcription factor PIF5 OS=Arabidopsis thaliana GN=PIF5 PE=1 SV=1

 Score =  181 bits (459), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 142/322 (44%), Positives = 190/322 (59%), Gaps = 60/322 (18%)

Query: 219 SMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTSSSGGSG 278
           S++TVG SHCGSNQ           S+ ++      +S S+R K    E   TSS G SG
Sbjct: 146 SVITVGPSHCGSNQ-----------STNIHQATTLPVSMSDRSKN-VEERLDTSSGGSSG 193

Query: 279 SSFNRTSKQSTGDNS--LKRKSRDAVDSECQSEA---AGFESG----AGNKTAQRSGSCR 329
            S+ R +K++    S  + RK +  +D++ +S +    G  S      GNK++QRSGS R
Sbjct: 194 CSYGRNNKETVSGTSVTIDRKRKHVMDADQESVSQSDIGLTSTDDQTMGNKSSQRSGSTR 253

Query: 330 RSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQ 389
           RSRAAEVHNLSERRRRDRINE+M+ALQELIPHC++TDKAS+LDEAI+YLKSLQ+QL   Q
Sbjct: 254 RSRAAEVHNLSERRRRDRINERMKALQELIPHCSRTDKASILDEAIDYLKSLQMQL---Q 310

Query: 390 VMWMGSGM--------APLMFPGMQH--YMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQS 439
           VMWMGSGM        +P+MFPG+Q   Y+++M M           + M  S+ P++++S
Sbjct: 311 VMWMGSGMAAAAAAAASPMMFPGVQSSPYINQMAM----------QSQMQLSQFPVMNRS 360

Query: 440 MSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHP--------MQ-ANSQP 490
              A   +  ++CQ    NPV  Q Q QN   +EQ ARYMG  P        MQ    QP
Sbjct: 361 ---APQNHPGLVCQ----NPVQLQLQAQNQILSEQLARYMGGIPQMPPAGNQMQTVQQQP 413

Query: 491 MNMFRFGSPTMQNQIVSLPSSS 512
            +M  FGSP      +S P+++
Sbjct: 414 ADMLGFGSPAGPQSQLSAPATT 435

Transcription factor acting negatively in the phytochrome B signaling pathway to promote the shade-avoidance response. Regulates PHYB abundance at the post-transcriptional level, possibly via the ubiquitin-proteasome pathway. Promotes ethylene activity in the dark. May regulate the expression of a subset of genes by binding to the G-box motif. Might be involved in the integration of light-signals to control both circadian and photomorphogenic processes.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8W2F3|PIF4_ARATH Transcription factor PIF4 OS=Arabidopsis thaliana GN=PIF4 PE=1 SV=1

 Score =  170 bits (431), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 134/327 (40%), Positives = 177/327 (54%), Gaps = 50/327 (15%)

Query: 207 SGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETI 266
           S  + + E+ + S+ TVG SHCGSN    DLD+S +     N  + + ++P+    +   
Sbjct: 145 SSGIRETEMEQYSVTTVGPSHCGSNPSQNDLDVSMSHDRSKN--IEEKLNPNASSSSGGS 202

Query: 267 EPTVTSSSGGSGSSFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSG 326
                       +S     +  T D   KRK  +  D     E+       GNK+ QRSG
Sbjct: 203 SGCSFGKDIKEMAS----GRCITTDR--KRKRINHTD-----ESVSLSDAIGNKSNQRSG 251

Query: 327 SCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQ 386
           S RRSRAAEVHNLSERRRRDRINE+M+ALQELIPHC+KTDKAS+LDEAI+YLKSLQLQL 
Sbjct: 252 SNRRSRAAEVHNLSERRRRDRINERMKALQELIPHCSKTDKASILDEAIDYLKSLQLQL- 310

Query: 387 MSQVMW------MGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSM 440
             QVMW        +  AP+MFPG+Q              +  + +P+   R P++DQS 
Sbjct: 311 --QVMWMGSGMAAAAASAPMMFPGVQPQQF----------IRQIQSPVQLPRFPVMDQS- 357

Query: 441 SMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHP-MQANS--QPMNMFRFG 497
             A   N  ++CQ    NPV      QN   ++++ARY+G  P MQA +  QPM M RF 
Sbjct: 358 --AIQNNPGLVCQ----NPV------QNQIISDRFARYIGGFPHMQAATQMQPMEMLRFS 405

Query: 498 SPTMQNQIVSLPSSSCVPFSGGAATDN 524
           SP  Q      PSS     + G+  D+
Sbjct: 406 SPAGQQS--QQPSSVPTKTTDGSRLDH 430

Transcription factor acting negatively in the phytochrome B signaling pathway. May regulate the expression of a subset of genes involved in cell expansion by binding to the G-box motif.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GZM7|PIF1_ARATH Transcription factor PIF1 OS=Arabidopsis thaliana GN=PIF1 PE=1 SV=1

 Score =  166 bits (421), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 168/520 (32%), Positives = 239/520 (45%), Gaps = 109/520 (20%)

Query: 1   MNPCIPDWNFEGDIPISNQ-----------MKPMGQDNELVELLWQNGHVVLSSQAQTQR 49
           M+  +PD++ + D  ++N            +  MG+D++L+ELLWQNG VV+ +Q    +
Sbjct: 1   MHHFVPDFDTDDDY-VNNHNSSLNHLPRKSITTMGEDDDLMELLWQNGQVVVQNQRLHTK 59

Query: 50  KPSLNHNEPRQVQKQTLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELP 109
           KPS   + P ++            + +  IQ+DE  SW+H P+ D    DF S L     
Sbjct: 60  KPS---SSPPKLLPSMDPQQQPSSDQNLFIQEDEMTSWLHYPLRDD---DFCSDLLFS-- 111

Query: 110 PSGPMEVDKHTRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAA 169
                     T      ++    PP + T+   P V         RN M           
Sbjct: 112 -----AAPTATATATVSQVTAARPPVSSTNESRPPV---------RNFM----------- 146

Query: 170 PQNKNLGDLGKLVNFSQSTAPPKGELGPCSGQFDRKRSGN----LTQGEVRECSMMT--- 222
                        NFS+             G F+  R G     L++  VRE + ++   
Sbjct: 147 -------------NFSR-----------LRGDFNNGRGGESGPLLSKAVVRESTQVSPSA 182

Query: 223 ---VGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTSSSGGSGS 279
                +S  G  +     D S  +  G  +   K ++ +       IE T TSSS  S S
Sbjct: 183 TPSAAASESGLTRRTDGTDSSAVAGGGAYNRKGKAVAMT----APAIEITGTSSSVVSKS 238

Query: 280 SFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNL 339
                  + T  +  KRK R+A  ++ ++E+   E+     +   + S +RSRAAEVHNL
Sbjct: 239 EIE---PEKTNVDDRKRKEREATTTD-ETESRSEETKQARVS---TTSTKRSRAAEVHNL 291

Query: 340 SERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAP 399
           SER+RRDRINE+M+ALQELIP CNK+DKASMLDEAIEY+KSLQLQ+QM   M MG GM P
Sbjct: 292 SERKRRDRINERMKALQELIPRCNKSDKASMLDEAIEYMKSLQLQIQM---MSMGCGMMP 348

Query: 400 LMFPGMQHYMSRMGMGMG-----PPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQA 454
           +M+PGMQ YM  M MGMG     PPP       M  ++ PL  Q+          V   A
Sbjct: 349 MMYPGMQQYMPHMAMGMGMNQPIPPPSFMPFPNMLAAQRPLPTQTHMAGSGPQYPV--HA 406

Query: 455 SVLNPVNYQNQMQN---------SNFTEQYARYMGFHPMQ 485
           S  + V   NQ  +         + +T+ Y ++ G HP Q
Sbjct: 407 SDPSRVFVPNQQYDPTSGQPQYPAGYTDPYQQFRGLHPTQ 446

Transcription activator. Regulates negatively chlorophyll biosynthesis and seed germination in the dark, and lightinduced degradation of PIF1 relieves this negative regulation to promote photomorphogenesis. Binds to the G-box motif (5'-CACGTG-3') found in many light-regulated promoters. Promotes the expression of SOM, and thus modulates responses to abscisic acid (ABA) and gibberellic acid (GA).

Arabidopsis thaliana (taxid: 3702)

>sp|O80536|PIF3_ARATH Transcription factor PIF3 OS=Arabidopsis thaliana GN=PIF3 PE=1 SV=1

 Score =  156 bits (395), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 150/414 (36%), Positives = 205/414 (49%), Gaps = 52/414 (12%)

Query: 27  NELVELLWQNGHVVLSSQAQTQRK---PSLNHNEPRQVQKQTLRGSGSCGNS-------- 75
           +E+VEL+W+NG +   SQ+   R    P  N +  R++      G+GS            
Sbjct: 27  DEVVELVWENGQISTQSQSSRSRNIPPPQANSSRAREI------GNGSKTTMVDEIPMSV 80

Query: 76  ----SNLIQDDETVSWI-HCPIEDSFEKDFYSQLFSELPPS---GPMEVDKHTRQLREEK 127
               + L QDD+ V W+ H P  D +  DF   + S +  +     M V++    L + +
Sbjct: 81  PSLMTGLSQDDDFVPWLNHHPSLDGYCSDFLRDVSSPVTVNEQESDMAVNQTAFPLFQRR 140

Query: 128 MVKFDPPGAVTSSQHPNV-NHSVVPELQRNAMP-----PPRFEVHDAAPQNKNLGDLGKL 181
               +   A +SSQ+    +HS+    +   +P     P RF          N      L
Sbjct: 141 KDGNESAPAASSSQYNGFQSHSLYGSDRARDLPSQQTNPDRFTQTQEPLITSNKP---SL 197

Query: 182 VNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSR 241
           VNFS    P        +   D K     +   V +  ++    S    ++V   L+ S 
Sbjct: 198 VNFSHFLRPATFAKTTNNNLHDTKEKSPQSPPNVFQTRVLGAKDSE---DKV---LNESV 251

Query: 242 ASSSGLNDDVRKVISPSERGKTETIEPTVTSSSGGSGSSFNRTSKQSTGDNSLKRKSRDA 301
           AS++  ++    +IS     K +  E  V  SS GSG+S +  S+  +   SLKRK  + 
Sbjct: 252 ASATPKDNQKACLISEDSCRKDQESEKAVVCSSVGSGNSLDGPSESPSL--SLKRKHSNI 309

Query: 302 VDSECQSEAAGFESGAGNKTA--QRSG-SCRRSRAAEVHNLSERRRRDRINEKMRALQEL 358
            D +C SE    ESG G K A   R+G   +RSR+AEVHNLSERRRRDRINEKMRALQEL
Sbjct: 310 QDIDCHSEDVEEESGDGRKEAGPSRTGLGSKRSRSAEVHNLSERRRRDRINEKMRALQEL 369

Query: 359 IPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMA---PLMF-PGMQHY 408
           IP+CNK DKASMLDEAIEYLKSLQLQ+   Q+M M SG      +MF PGM HY
Sbjct: 370 IPNCNKVDKASMLDEAIEYLKSLQLQV---QIMSMASGYYLPPAVMFPPGMGHY 420

Transcription factor acting positively in the phytochrome signaling pathway. Activates transcription by binding to the G box (5'-CACGTG-3').

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVU6|BH023_ARATH Transcription factor bHLH23 OS=Arabidopsis thaliana GN=BHLH23 PE=2 SV=1

 Score =  139 bits (350), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 145/431 (33%), Positives = 191/431 (44%), Gaps = 106/431 (24%)

Query: 16  ISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQVQKQTLRGSGSCGNS 75
           IS +   MG+D+ +VELL ++  VV SSQ QT   PS +   P  +    LRGSGS    
Sbjct: 15  ISPEKYIMGEDD-IVELLGKSSQVVTSSQTQT---PSCD---PPLI----LRGSGSGDGE 63

Query: 76  SN----------------LIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDKH 119
            N                 IQ+DE  SW+H P    +       L+S+L  SG       
Sbjct: 64  GNGPLPQPPPPLYHQQSLFIQEDEMASWLHQPNRQDY-------LYSQLLYSG------- 109

Query: 120 TRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAA--PQNKNLGD 177
                              +S HP    S+ P       PPPR +   AA  P    L +
Sbjct: 110 ------------------VASTHPQSLASLEPP------PPPRAQYILAADRPTGHILAE 145

Query: 178 LGKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVREC-SMMTVGSSHCGSNQVAYD 236
             +  NF                   R+R GN+  G V    S  T+ SS   S    + 
Sbjct: 146 R-RAENFMN---------------ISRQR-GNIFLGGVEAVPSNSTLLSSATESIPATHG 188

Query: 237 LDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTSSSGGSGSSFNRTSKQSTGDNSL-- 294
            + SRA+ +G       V     RGK   IE   T S G   +      +Q   +  +  
Sbjct: 189 TE-SRATVTGGVSRTFAVPGLGPRGKAVAIETAGTQSWGLCKAETEPVQRQPATETDITD 247

Query: 295 --KRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKM 352
             KRK+R+  + E Q          G + A+ S S +RSRAA +H LSERRRR +INE M
Sbjct: 248 ERKRKTREETNVENQ----------GTEEARDSTSSKRSRAAIMHKLSERRRRQKINEMM 297

Query: 353 RALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMA-PLMFPG--MQHYM 409
           +ALQEL+P C KTD++SMLD+ IEY+KSLQ Q+QM     MG  M  P+M+ G   Q YM
Sbjct: 298 KALQELLPRCTKTDRSSMLDDVIEYVKSLQSQIQM---FSMGHVMIPPMMYAGNIQQQYM 354

Query: 410 SRMGMGMGPPP 420
             M MGM  PP
Sbjct: 355 PHMAMGMNRPP 365

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L5W8|PIL1_ARATH Transcription factor PIL1 OS=Arabidopsis thaliana GN=PIL1 PE=1 SV=1

 Score =  110 bits (274), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 66/148 (44%), Positives = 90/148 (60%), Gaps = 12/148 (8%)

Query: 276 GSGSSFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQ-----RSGSCRR 330
            S S F+R + +     SLKRK  D  + E    +   +  + +   Q     R    +R
Sbjct: 168 ASSSKFSRGTSRDLSCCSLKRKYGDIEEEESTYLSNNSDDESDDAKTQVHARTRKPVTKR 227

Query: 331 SRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQV 390
            R+ EVH L ER+RRD  N+KMRALQ+L+P+C K DKAS+LDEAI+Y+++LQLQ+QM   
Sbjct: 228 KRSTEVHKLYERKRRDEFNKKMRALQDLLPNCYKDDKASLLDEAIKYMRTLQLQVQM--- 284

Query: 391 MWMGSGMA--PLMFPGMQHYMSRMGMGM 416
           M MG+G+   P M P M HY S MG+GM
Sbjct: 285 MSMGNGLIRPPTMLP-MGHY-SPMGLGM 310

Transcription factor. Involved in responses to transient and long-term shade. Required for the light-mediated inhibition of hypocotyl elongation. Necessary for rapid light-induced expression of the photomorphogenesis- and circadian-related gene APRR9. Seems to play a role in multiple PHYB responses, such as flowering transition and petiole elongation.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FUA4|SPT_ARATH Transcription factor SPATULA OS=Arabidopsis thaliana GN=SPT PE=1 SV=1

 Score =  106 bits (265), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 61/104 (58%), Positives = 71/104 (68%), Gaps = 5/104 (4%)

Query: 305 ECQSEAAGF----ESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIP 360
           +C+SE  G     E+ +         S +R RAAEVHNLSE+RRR RINEKM+ALQ LIP
Sbjct: 166 DCESEEGGEAVVDEAPSSKSGPSSRSSSKRCRAAEVHNLSEKRRRSRINEKMKALQSLIP 225

Query: 361 HCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPG 404
           + NKTDKASMLDEAIEYLK LQLQ+QM   M  G  + PL  PG
Sbjct: 226 NSNKTDKASMLDEAIEYLKQLQLQVQM-LTMRNGINLHPLCLPG 268

Transcription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVU7|BH056_ARATH Putative transcription factor bHLH056 OS=Arabidopsis thaliana GN=BHLH56 PE=4 SV=2

 Score =  106 bits (265), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 69/174 (39%), Positives = 92/174 (52%), Gaps = 29/174 (16%)

Query: 260 RGKTETIEPTVTSSSGGSGSSFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGN 319
           +GK   +E   T SSG   +       Q   ++ LK +                E   G 
Sbjct: 199 KGKAVAVEAAGTPSSGVCKAETEPVQIQPATESKLKAR----------------EETHGT 242

Query: 320 KTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLK 379
           + A+ S S +RSR AE+HNL+ERRRR++INEKM+ LQ+LIP CNK+ K S LD+AIEY+K
Sbjct: 243 EEARGSTSRKRSRTAEMHNLAERRRREKINEKMKTLQQLIPRCNKSTKVSTLDDAIEYVK 302

Query: 380 SLQLQLQMSQVMWMGSGMAPLMFPG-MQHYMSRMGMGMGPP----PLPSVTNPM 428
           SLQ Q+Q          M+P+M  G  Q +M  M M M  P    P P  + PM
Sbjct: 303 SLQSQIQ--------GMMSPMMNAGNTQQFMPHMAMDMNRPPPFIPFPGTSFPM 348

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XHI7|BH127_ARATH Transcription factor bHLH127 OS=Arabidopsis thaliana GN=BHLH127 PE=2 SV=1

 Score =  104 bits (259), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 70/175 (40%), Positives = 97/175 (55%), Gaps = 24/175 (13%)

Query: 318 GNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEY 377
           G + A+ S S +RSRAAE+HNL+ERRRR++INE+M+ LQ+LIP CNK+ K SML++ IEY
Sbjct: 136 GTEEARGSTSRKRSRAAEMHNLAERRRREKINERMKTLQQLIPRCNKSTKVSMLEDVIEY 195

Query: 378 LKSLQLQL-QMSQVMWMGSGMAPLMFP-GMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPL 435
           +KSL++Q+ Q    M MG    P   P   Q +M+ +G    PP  P       F  +  
Sbjct: 196 VKSLEMQINQFMPHMAMGMNQPPAYIPFPSQAHMAGVGPSYPPPRYP-------FPNIQT 248

Query: 436 VDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQP 490
            D S          V  Q+   NPV+ Q QM        Y +++G H MQ +  P
Sbjct: 249 FDPS---------RVWLQSPQPNPVSNQPQM------NPYGQFVGHHQMQQSLPP 288

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHA2|ALC_ARATH Transcription factor ALC OS=Arabidopsis thaliana GN=ALC PE=2 SV=1

 Score =  100 bits (249), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 54/108 (50%), Positives = 68/108 (62%), Gaps = 20/108 (18%)

Query: 322 AQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSL 381
           A++  S +R+  A+ HNLSE++RR +INEKM+ALQ+LIP+ NKTDKASMLDEAIEYLK L
Sbjct: 83  AKQRNSLKRNIDAQFHNLSEKKRRSKINEKMKALQKLIPNSNKTDKASMLDEAIEYLKQL 142

Query: 382 QLQLQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMH 429
           QLQ+Q   VM                     G+G+ P  LP V  P H
Sbjct: 143 QLQVQTLAVMN--------------------GLGLNPMRLPQVPPPTH 170

Required for the dehiscence of fruit, especially for the separation of the valve cells from the replum. Promotes the differentiation of a strip of labile nonlignified cells sandwiched between layers of lignified cells.

Arabidopsis thaliana (taxid: 3702)

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	532
225446765	531	PREDICTED: transcription factor PIF5-lik	0.966	0.967	0.573	1e-159
449463597	550	PREDICTED: transcription factor PIF5-lik	0.973	0.941	0.590	1e-159
302143504	544	unnamed protein product [Vitis vinifera]	0.949	0.928	0.576	1e-157
356553623	562	PREDICTED: transcription factor PIF5-lik	0.984	0.932	0.513	1e-125
356501423	562	PREDICTED: transcription factor PIF4-lik	0.983	0.930	0.510	1e-122
224082612	380	predicted protein [Populus trichocarpa]	0.680	0.952	0.636	1e-108
356567480	397	PREDICTED: transcription factor PIF5-lik	0.695	0.931	0.532	2e-95
224066527	233	predicted protein [Populus trichocarpa]	0.430	0.982	0.741	1e-83
356526934	266	PREDICTED: transcription factor PIF5-lik	0.494	0.988	0.598	3e-70
108862947	446	Helix-loop-helix DNA-binding domain cont	0.652	0.778	0.402	2e-60

>gi|225446765|ref|XP_002278399.1| PREDICTED: transcription factor PIF5-like [Vitis vinifera]

 Score =  567 bits (1461), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 313/546 (57%), Positives = 381/546 (69%), Gaps = 32/546 (5%)

Query: 2   NPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQV 61
           +P +PDWN EGD+P++NQ KPMGQ++ELVELLW+NG VVL SQ  TQRK  L  NE +QV
Sbjct: 3   HPLLPDWNIEGDVPVTNQKKPMGQEHELVELLWRNGQVVLHSQ--TQRKSGLAPNESKQV 60

Query: 62  QKQ---TLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDK 118
           QK     LR  GSCGN SNLIQD+E++SWI  P++DS +K+F S LF ELPP+ P++ +K
Sbjct: 61  QKHDQTMLRNGGSCGNWSNLIQDEESISWIQYPLDDSLDKEFCSNLFMELPPNDPVQPEK 120

Query: 119 HTRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDL 178
             R   +EK        +V SSQ P   H   PE   N MPPP+F+V  +  QN + G  
Sbjct: 121 PVRHSEQEK--------SVPSSQQPIFKHLGSPEFPGNPMPPPKFQVPGSVQQNCSSGGF 172

Query: 179 GKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQG-EVRECSMMTVGSSHCGSNQVAYDL 237
           GK+VNF   + P +  LG    Q   K SGN+ QG + +E S+MTVG SHCGSNQV  + 
Sbjct: 173 GKIVNFPNFSFPGRSNLGSSKAQLGGKGSGNMAQGGDAKEGSVMTVGLSHCGSNQVVNEA 232

Query: 238 DMSRASSSGL----------NDDVRKVISPSERGKTETIEPTVTSSSGGSGSS-FNRTSK 286
           D+SR SSSG+           ++V +++S  +R +TET+EPTVTSSSGG   S F RT K
Sbjct: 233 DLSRFSSSGVGTGCLSSGHVKENVMRIVSQGDRRQTETLEPTVTSSSGGGSGSSFGRTYK 292

Query: 287 QSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRD 346
           QST  NS KRK R+A +SECQSEAA  ES A NK +QRSGS RRSRAAEVHNLSERRRRD
Sbjct: 293 QSTDTNSHKRKGREAEESECQSEAAEHESAARNKASQRSGSTRRSRAAEVHNLSERRRRD 352

Query: 347 RINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQ 406
           RINEKM+ALQELIPH NK+DKASMLDEAIEYLKS        Q+MWMG G+AP+MFPG+Q
Sbjct: 353 RINEKMKALQELIPHSNKSDKASMLDEAIEYLKS---LQLQLQLMWMGGGVAPMMFPGVQ 409

Query: 407 HYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQM 466
           HYM+RMGMGM PPPLPS+ NPMH  RV LVDQS S     N+  +CQ  VLNPVNYQNQM
Sbjct: 410 HYMARMGMGMCPPPLPSIHNPMHLPRVQLVDQSTSAVPPSNQPPICQTPVLNPVNYQNQM 469

Query: 467 QNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSSSCVPFSGGAATDNSP 526
            N NF EQ+A YMGFHPMQ  SQPMN+F FGS   Q+  ++ P+++    +  AA D +P
Sbjct: 470 PNPNFPEQFAHYMGFHPMQTPSQPMNVFSFGS---QSHPMASPATTGGTPTAAAAVDGAP 526

Query: 527 LSGKMG 532
            S K+G
Sbjct: 527 GS-KLG 531

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463597|ref|XP_004149520.1| PREDICTED: transcription factor PIF5-like [Cucumis sativus] gi|449505798|ref|XP_004162571.1| PREDICTED: transcription factor PIF5-like [Cucumis sativus]

 Score =  567 bits (1460), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 333/564 (59%), Positives = 398/564 (70%), Gaps = 46/564 (8%)

Query: 1   MNPCIPDWNFEGDIPISNQMKPMG-QDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPR 59
           MN C PDWNFEGDIP +   K MG + ++LVELLW+NG VVL  Q+Q  RK SL  NE R
Sbjct: 1   MNYCFPDWNFEGDIPPAK--KSMGPEHDDLVELLWRNGQVVL--QSQKARKSSLIANEVR 56

Query: 60  QVQKQT---LRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEV 116
           Q QKQ     R + SCGNSSNLIQDDETVSWI  P++DSFEK+F S  FSELPP+ P+E+
Sbjct: 57  QFQKQNQPLYRSNVSCGNSSNLIQDDETVSWIQDPLDDSFEKEFCSNFFSELPPADPIEI 116

Query: 117 DKH-TRQLREEKMVKFDPPGAVTSSQHPNVNHSV---------VPELQRNAMPPPRFEVH 166
            K   +  +++K  +F   GA  ++ H    + V         + E   N MPPPRF+  
Sbjct: 117 VKQPIKHFQDDKQTRF---GAFDTATHVTFGNFVKKNSKPPASLAEFPMNTMPPPRFQFQ 173

Query: 167 DAAPQNKNLGDLGKLVNFSQSTAPP-KGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGS 225
           D++ QNK+LGDLGKLVNFSQ   PP KG+LG  +G    + SGNL QGE R+CS MTVGS
Sbjct: 174 DSSRQNKDLGDLGKLVNFSQVPVPPLKGDLGSSNG---GRESGNLIQGEGRDCSGMTVGS 230

Query: 226 SHCGSNQVAY--DLDMSRASSSGL----------NDDVRKVISPSERGKTETIEPTVTSS 273
           SHCGSNQV    DLD+SR S+SG            +D RK+++  ER KTET++PT TSS
Sbjct: 231 SHCGSNQVPNPNDLDLSRVSTSGFGNAGLSAGFSKEDNRKMVAQGERDKTETMDPTATSS 290

Query: 274 SGGSGSSFNR--TSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRS 331
           SGGSGSS +R  T  QSTG N  KRK RD  +SECQSE A  ES  GNKTA RSGS RR+
Sbjct: 291 SGGSGSSMDRSRTIGQSTGGNGNKRKGRDGEESECQSETAELESAEGNKTAPRSGSSRRT 350

Query: 332 RAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVM 391
           RAAEVHNLSERRRR+RINEKM+ALQELIPHCNKTDKASMLDEAIEYLKSLQLQL   QVM
Sbjct: 351 RAAEVHNLSERRRRERINEKMKALQELIPHCNKTDKASMLDEAIEYLKSLQLQL---QVM 407

Query: 392 WMGSGMAPLMFPGMQHYMSR--MGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRA 449
           WMGSGMAP+MFPG+QHYMSR  MGMGM  P +PS+ NPM   RVP+VDQS+S+A   N+ 
Sbjct: 408 WMGSGMAPMMFPGVQHYMSRVAMGMGMAQPSMPSIHNPMQLPRVPIVDQSVSVAPTPNQP 467

Query: 450 VMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFG-SPTMQNQIVSL 508
           +MCQ  + NP+NYQNQMQN    EQYAR MGFH MQ  SQP+N+FRF  S  +Q+Q  + 
Sbjct: 468 MMCQPQMFNPMNYQNQMQNPALQEQYARLMGFHHMQPTSQPINVFRFCPSAVLQSQPAAA 527

Query: 509 PSSSCVPFSGGAATDNSPLSGKMG 532
           P  +  P +GG+ T N  ++G +G
Sbjct: 528 PGPASGPTAGGSIT-NDIVNGNLG 550

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143504|emb|CBI22065.3| unnamed protein product [Vitis vinifera]

 Score =  561 bits (1446), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 309/536 (57%), Positives = 372/536 (69%), Gaps = 31/536 (5%)

Query: 2   NPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQV 61
           +P +PDWN EGD+P++NQ KPMGQ++ELVELLW+NG VVL SQ  TQRK  L  NE +QV
Sbjct: 3   HPLLPDWNIEGDVPVTNQKKPMGQEHELVELLWRNGQVVLHSQ--TQRKSGLAPNESKQV 60

Query: 62  QKQ---TLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDK 118
           QK     LR  GSCGN SNLIQD+E++SWI  P++DS +K+F S LF ELPP+ P++ +K
Sbjct: 61  QKHDQTMLRNGGSCGNWSNLIQDEESISWIQYPLDDSLDKEFCSNLFMELPPNDPVQPEK 120

Query: 119 HTRQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDL 178
             R   +EK        +V SSQ P   H   PE   N MPPP+F+V  +  QN + G  
Sbjct: 121 PVRHSEQEK--------SVPSSQQPIFKHLGSPEFPGNPMPPPKFQVPGSVQQNCSSGGF 172

Query: 179 GKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQG-EVRECSMMTVGSSHCGSNQVAYDL 237
           GK+VNF   + P +  LG    Q   K SGN+ QG + +E S+MTVG SHCGSNQV  + 
Sbjct: 173 GKIVNFPNFSFPGRSNLGSSKAQLGGKGSGNMAQGGDAKEGSVMTVGLSHCGSNQVVNEA 232

Query: 238 DMSRASSSGL----------NDDVRKVISPSERGKTETIEPTVTSSSGGSGSS-FNRTSK 286
           D+SR SSSG+           ++V +++S  +R +TET+EPTVTSSSGG   S F RT K
Sbjct: 233 DLSRFSSSGVGTGCLSSGHVKENVMRIVSQGDRRQTETLEPTVTSSSGGGSGSSFGRTYK 292

Query: 287 QSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRD 346
           QST  NS KRK R+A +SECQSEAA  ES A NK +QRSGS RRSRAAEVHNLSERRRRD
Sbjct: 293 QSTDTNSHKRKGREAEESECQSEAAEHESAARNKASQRSGSTRRSRAAEVHNLSERRRRD 352

Query: 347 RINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQ 406
           RINEKM+ALQELIPH NK+DKASMLDEAIEYLKS        Q+MWMG G+AP+MFPG+Q
Sbjct: 353 RINEKMKALQELIPHSNKSDKASMLDEAIEYLKS---LQLQLQLMWMGGGVAPMMFPGVQ 409

Query: 407 HYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQM 466
           HYM+RMGMGM PPPLPS+ NPMH  RV LVDQS S     N+  +CQ  VLNPVNYQNQM
Sbjct: 410 HYMARMGMGMCPPPLPSIHNPMHLPRVQLVDQSTSAVPPSNQPPICQTPVLNPVNYQNQM 469

Query: 467 QNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSSSCVPFSGGAAT 522
            N NF EQ+A YMGFHPMQ  SQPMN+F FGS   Q   V+    +C   + G+ T
Sbjct: 470 PNPNFPEQFAHYMGFHPMQTPSQPMNVFSFGS---QTSWVNTSGYACCSNAFGSIT 522

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356553623|ref|XP_003545154.1| PREDICTED: transcription factor PIF5-like [Glycine max]

 Score =  454 bits (1168), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 290/565 (51%), Positives = 361/565 (63%), Gaps = 41/565 (7%)

Query: 1   MNPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQ 60
           M   IP  +FE D  ++NQ K +G D ELVELLWQNG VV     QT RKP  N +  RQ
Sbjct: 1   MKNSIPGLDFESDACLTNQRKLIGPDQELVELLWQNGQVV--RHNQTHRKPLGNSSNLRQ 58

Query: 61  VQK---QTLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVD 117
            QK    TLR SG  GNSSNL Q++ T  WI  P+ED  E+DF S L SELPP+   E  
Sbjct: 59  AQKTDHSTLRSSGPYGNSSNLDQEEAT-PWIQFPLEDPLEQDFCSNLLSELPPTCEFESY 117

Query: 118 KHTRQLREEKMVKF----DPPGAVTSSQHP---NVNHSVVPELQRNA--MPPPRFEVHDA 168
           K  +QL E+K   F     P    TSS  P   N+  S V  +Q N   MP PRF V D+
Sbjct: 118 KPIKQLEEDKFTNFFASSTPHHPTTSSSKPLPPNMTSSWVQRIQGNPNPMPAPRFHVPDS 177

Query: 169 APQNKNLGDLGKLVNFSQSTAPPKG-ELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSH 227
           + ++ +LG   K++NF   + P       P S QF  K + NL+Q E RE S++TVGSSH
Sbjct: 178 SQKDNDLGASRKVLNFPHFSTPRNNVSSAPGSTQFREKTTANLSQSEAREYSVITVGSSH 237

Query: 228 CGSNQVAYDLDMSRASSSGL----------------NDDVRKVISP-SERGKTETIEPTV 270
           CGS+ +  + D+SR SSS +                 D V++ I P S++GK+E IEPTV
Sbjct: 238 CGSSHIPQEKDVSRVSSSAVWATNNNNSLSAEPEAVRDCVQRPICPRSDKGKSEMIEPTV 297

Query: 271 TSSSGGSGSSFN-RTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCR 329
           TSSSGGSGS+   RT   ST D+  KRK  +   SE QSEA   +S  GNK +QR+GS +
Sbjct: 298 TSSSGGSGSTGIGRTCSLSTRDHGQKRKGTEEEASEEQSEATELKSADGNKASQRTGSSK 357

Query: 330 RSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQ 389
           R+RAAEVHN SERRRRDRINEKMR LQ+LIP+ NKTDKASML+EAIEYLKSLQ QL   Q
Sbjct: 358 RNRAAEVHNQSERRRRDRINEKMRTLQQLIPNSNKTDKASMLEEAIEYLKSLQFQL---Q 414

Query: 390 VMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRA 449
           VMWMGSGM P+MFPG+QHYMS+MGMGMG P LPS+ NPM   +VP  DQ+MS+ Q  N+ 
Sbjct: 415 VMWMGSGMTPVMFPGIQHYMSQMGMGMGAPSLPSIYNPMQLPKVPH-DQAMSVPQMPNQN 473

Query: 450 VMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQ--IVS 507
           +MCQ  VL   NYQ  MQN    EQYA YMG+H M++ SQPMN+FR+GS  +Q+   +++
Sbjct: 474 LMCQNQVLGAFNYQTHMQNPCLPEQYAPYMGYHFMRSASQPMNVFRYGSQAVQHSQTMIA 533

Query: 508 LPSSSCVPFSGGAATDNSPLSGKMG 532
             ++S  P SG A  D++ +SGK G
Sbjct: 534 PGNNSSGPMSGTANIDDA-VSGKAG 557

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356501423|ref|XP_003519524.1| PREDICTED: transcription factor PIF4-like [Glycine max]

 Score =  446 bits (1146), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 289/566 (51%), Positives = 356/566 (62%), Gaps = 43/566 (7%)

Query: 1   MNPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQ 60
           MN  IP W+FE D  ++NQ K +G D ELVELLW+NG VV+ +Q  T RK   N +  RQ
Sbjct: 1   MNNSIPGWDFESDTCLTNQRKLIGPDQELVELLWKNGQVVMHNQ--THRKTLGNSSNLRQ 58

Query: 61  VQKQ---TLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVD 117
           VQK     LR SG  GNSSNL Q+D    W+  P+ED  E+DF S L SELP +   E  
Sbjct: 59  VQKSDQSVLRSSGPYGNSSNLDQED-AAPWVQFPLEDPLEQDFCSNLLSELP-TCEFESY 116

Query: 118 KHTRQLREEKMVKFDPPGA----VTSSQHP---NVNHSVVPELQRNA--MPPPRFEVHDA 168
           K  RQL EEK  KF   G      TSS  P   N+  S +  LQ N   MP PRF   D+
Sbjct: 117 KPIRQLEEEKFAKFFASGTPHHPTTSSSQPLPPNMKPSCIQGLQGNPIPMPAPRFHGPDS 176

Query: 169 APQNKNLGDLGKLVNFSQSTAPPKG-ELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSH 227
           + +  + G   K++NF Q + P       P   QF  K + N++Q E RE S++TVGSSH
Sbjct: 177 SQKIHDFGASRKVLNFPQFSTPRNNVPSAPGITQFREKTTANMSQSEAREYSVITVGSSH 236

Query: 228 CGSNQVAYDLDMSRASSSGL-----------------NDDVRKVISP-SERGKTETIEPT 269
           CGSN +  + D+SR SS+G+                  D V++ I P S +GK+E IE T
Sbjct: 237 CGSNHIPQEQDVSRISSTGVWATTNNNTTLSAEPEAVRDYVQRPICPKSGQGKSEMIELT 296

Query: 270 VTSSSGGSGSSFN-RTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSC 328
           VTSSSGGSGS+   RT   ST D+  KRK  +    E QSE    +S  GNK +QR+ S 
Sbjct: 297 VTSSSGGSGSTGIGRTCSLSTRDHGQKRKGTEEEALEEQSEDTELKSADGNKASQRTRSS 356

Query: 329 RRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMS 388
           RR+RAAEVHN SERRRRDRINEKMR LQ+LIP+ NKTDKASML+EAIEYLKSLQ QL   
Sbjct: 357 RRNRAAEVHNQSERRRRDRINEKMRTLQQLIPNSNKTDKASMLEEAIEYLKSLQFQL--- 413

Query: 389 QVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNR 448
           QVMWMG GM P+MFPG+QHYMS+MGMGMG P LPS+ NPM   +VP  DQ+MS+ Q  N+
Sbjct: 414 QVMWMGGGMTPVMFPGIQHYMSQMGMGMGAPSLPSIHNPMQLPKVPH-DQAMSVLQIPNQ 472

Query: 449 AVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQNQ--IV 506
            +MCQ  VL   NYQNQMQN    EQYARYMG+H MQ  SQPMN+FR+GS  +Q+   ++
Sbjct: 473 NLMCQNPVLGAFNYQNQMQNPCLPEQYARYMGYHLMQNASQPMNVFRYGSQAVQHSQTMI 532

Query: 507 SLPSSSCVPFSGGAATDNSPLSGKMG 532
           +  ++S  P SG A  D++  SGK G
Sbjct: 533 APGNNSSGPMSGTANIDDAD-SGKAG 557

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224082612|ref|XP_002306764.1| predicted protein [Populus trichocarpa] gi|222856213|gb|EEE93760.1| predicted protein [Populus trichocarpa]

 Score =  398 bits (1022), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 250/393 (63%), Positives = 290/393 (73%), Gaps = 31/393 (7%)

Query: 158 MPPPRFEVHDAAPQNKNLGDLGKLVN--FSQSTAPPKG-ELGPCSGQFDRKRSGNLTQGE 214
           MPPPR +V +    +  +G  G+ VN  FSQ +AP KG +    SGQF  + SGN  QGE
Sbjct: 1   MPPPRIQVPEK--NHAGVGGFGEAVNANFSQFSAPFKGGDFRTSSGQFGGQGSGNSPQGE 58

Query: 215 VRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLN-----------DDVRKVISPSERGKT 263
           VRECS++TVGSS    NQ+ +D DMSRASS+ +            DD RK++S SERGKT
Sbjct: 59  VRECSVVTVGSS----NQIPHDRDMSRASSNAMGTSTAFSTGPSMDDPRKIVSQSERGKT 114

Query: 264 ETIEPTVTSSSGGSGSSFNRTSKQSTG-DNSLKRKSRDAVDSECQSEAA--GFESGAGNK 320
           ET+E T+T+SSGGSGSSF RT KQS G  +S KRK+ D  DSE QSEAA    +S AGN 
Sbjct: 115 ETLEATLTTSSGGSGSSFGRTCKQSAGPSSSQKRKTIDTEDSEYQSEAAELDLDSMAGNN 174

Query: 321 TAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKS 380
             +RSGS RRSRAAEVHNLSERRRRDRINEKMRALQELIPHC KTDKASMLDEAIEYLKS
Sbjct: 175 PTKRSGSTRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCYKTDKASMLDEAIEYLKS 234

Query: 381 LQLQLQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSM 440
           LQLQL   QVMWMG GMAP++FPG+QH+MSRMGMG   PPLPS+ NPMH  RV L+DQS+
Sbjct: 235 LQLQL---QVMWMGGGMAPMLFPGVQHFMSRMGMG---PPLPSMQNPMHLPRVQLIDQSI 288

Query: 441 SMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPT 500
           SMA  QN  VMCQA VLNPVN+ NQMQN  F +QYAR+MGFH MQA SQPMNMFRFGS T
Sbjct: 289 SMAPTQNSGVMCQAPVLNPVNFHNQMQNPAFADQYARFMGFH-MQAASQPMNMFRFGSQT 347

Query: 501 M-QNQIVSLPSSSCVPFSGGAATDNSPLSGKMG 532
           + QNQ+++  SS   P S G A  ++P S K+G
Sbjct: 348 VQQNQMMAPTSSVGGPLSAGTAVSDAPPSDKVG 380

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567480|ref|XP_003551947.1| PREDICTED: transcription factor PIF5-like [Glycine max]

 Score =  356 bits (913), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 207/389 (53%), Positives = 262/389 (67%), Gaps = 19/389 (4%)

Query: 158 MPPPRFEVHDAAPQNKN-LGDLGKLVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVR 216
           +P PRF V D+  +N N LG   K+ NFS  +AP        +  F  K +GN+++ E+R
Sbjct: 14  IPAPRFHVSDSPQKNNNDLGGSCKVQNFSHFSAPLNVSSASANAHFRDKITGNMSKNEIR 73

Query: 217 ECSMMTVGSSHCGSNQVAYDLDMSRASSSGL------------NDDVRKVISPSERGKTE 264
           ECS+MTVGSS+CGSN +  D D SRASS+G+             D V +    +E+GK+E
Sbjct: 74  ECSLMTVGSSYCGSNHIPQDPDASRASSNGVWTTTLSAEPEAVRDHVPRTSPQNEKGKSE 133

Query: 265 TIEPTVTSSSGGSGSSFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQR 324
            +EPT TSSSGGSGSS  +    ST +   KRK  D  +SE QSE    +S  GNK++QR
Sbjct: 134 MLEPTTTSSSGGSGSSLGKNCSLSTRNQGQKRKGIDVEESEEQSEDTELKSALGNKSSQR 193

Query: 325 SGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQ 384
           +G  RR+RAAEVHNLSERRRRDRINEKM+ALQ+LIPH +KTDKASML+EAIEYLKS    
Sbjct: 194 AGLARRNRAAEVHNLSERRRRDRINEKMKALQQLIPHSSKTDKASMLEEAIEYLKS---L 250

Query: 385 LQMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQ 444
               Q+MWMGSGMAP+MFPG+QHYMS+MGMGM  PP P + NPM   R+PL DQS+S +Q
Sbjct: 251 QLQLQLMWMGSGMAPIMFPGIQHYMSQMGMGMATPPFPPIHNPMQLPRLPL-DQSVSASQ 309

Query: 445 AQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQN- 503
             N+ +M Q  +L   NY NQMQN   +EQYARYMG+H MQ  SQPMN+FR+G   +++ 
Sbjct: 310 TPNQTLMSQNPILGAFNYHNQMQNPALSEQYARYMGYHLMQNASQPMNVFRYGPQGVRHS 369

Query: 504 QIVSLPSSSCVPFSGGAATDNSPLSGKMG 532
           Q +  PS+S    SG A  D + +SGKMG
Sbjct: 370 QTMITPSNSSGNMSGAANIDEA-VSGKMG 397

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224066527|ref|XP_002302124.1| predicted protein [Populus trichocarpa] gi|222843850|gb|EEE81397.1| predicted protein [Populus trichocarpa]

 Score =  317 bits (812), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 175/236 (74%), Positives = 196/236 (83%), Gaps = 7/236 (2%)

Query: 300 DAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELI 359
           DA +SECQSE A  +S   NK A+RSGS RRSRAAEVHNLSERRRRDRINEKMRALQELI
Sbjct: 2   DAEESECQSEDAELDSAVANKPAKRSGSTRRSRAAEVHNLSERRRRDRINEKMRALQELI 61

Query: 360 PHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMFPGMQHYMSR--MGMGMG 417
           PHCNKTDKASMLDEAIEYLKSLQLQL   QVMWMGSG+ P+MFPG+QH+MSR  MGMGMG
Sbjct: 62  PHCNKTDKASMLDEAIEYLKSLQLQL---QVMWMGSGIVPVMFPGVQHFMSRMGMGMGMG 118

Query: 418 PPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYAR 477
           PPPLPS+ NPMH  RVPLVDQS+SM   QN+AV+CQ  VLNPVNYQNQMQN  F++QYAR
Sbjct: 119 PPPLPSMQNPMHLPRVPLVDQSISMTPTQNQAVICQTPVLNPVNYQNQMQNPTFSDQYAR 178

Query: 478 YMGFHPMQANSQPMNMFRFGSPTM-QNQIVSLPSSSCVPFSGGAATDNSPLSGKMG 532
           +MGFH MQA SQPMNMFRFGS T+ QNQ+++ P+S   P S G A  ++P SGK G
Sbjct: 179 FMGFH-MQAASQPMNMFRFGSQTVQQNQMMAPPNSGGGPLSAGTAASDAPPSGKTG 233

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526934|ref|XP_003532070.1| PREDICTED: transcription factor PIF5-like [Glycine max]

 Score =  272 bits (695), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 161/269 (59%), Positives = 195/269 (72%), Gaps = 6/269 (2%)

Query: 266 IEPTVTSSSGGSGSSFNRTSKQSTGDNSLKRKSRDAVDSECQSEAAGFESGAGNKTAQRS 325
           +EP VTSSSGGSGSS  +T   ST +   KRK  D  +SE QSE    +S  GNK++QR+
Sbjct: 2   LEPAVTSSSGGSGSSLGKTCSLSTRNQGQKRKGIDVEESEEQSEDTELKSALGNKSSQRT 61

Query: 326 GSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQL 385
           GS RR+RAAEVHNLSERRRRDRINEKM+ALQ+LIPH +KTDKASML+EAIEYLKS     
Sbjct: 62  GSARRNRAAEVHNLSERRRRDRINEKMKALQQLIPHSSKTDKASMLEEAIEYLKS---LQ 118

Query: 386 QMSQVMWMGSGMAPLMFPGMQHYMSRMGMGMG-PPPLPSVTNPMHFSRVPLVDQSMSMAQ 444
              Q+MWMGSGMAP+MFPG+QHYMS+MGMGM  PP  P + NPM   RVPL D+S+S +Q
Sbjct: 119 LQLQLMWMGSGMAPIMFPGIQHYMSQMGMGMARPPFPPPIHNPMQLPRVPL-DKSVSASQ 177

Query: 445 AQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHPMQANSQPMNMFRFGSPTMQN- 503
             N+ +MCQ  +L   NYQNQMQN   +EQY RYMG+H MQ  SQPMN+FR+G   +Q+ 
Sbjct: 178 TPNQTLMCQNPILGAFNYQNQMQNPALSEQYVRYMGYHLMQNASQPMNVFRYGPQGVQHS 237

Query: 504 QIVSLPSSSCVPFSGGAATDNSPLSGKMG 532
           Q +  PSS+      GAA  +  +SGKMG
Sbjct: 238 QTMITPSSNSSGNMSGAANIDEAVSGKMG 266

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108862947|gb|ABA99362.2| Helix-loop-helix DNA-binding domain containing protein, expressed [Oryza sativa Japonica Group]

 Score =  239 bits (611), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 177/440 (40%), Positives = 224/440 (50%), Gaps = 93/440 (21%)

Query: 1   MNPCIPDWNFEGDIPISNQMKPMGQDNELVELLWQNGHVVLSSQAQTQRKPSLNHNEPRQ 60
           MN  +PDWN      + +   P+G+D+ LVELLW NGHVV+ SQA   RKP      PR 
Sbjct: 1   MNQFVPDWN---TTSMGDGFAPLGEDDGLVELLWCNGHVVMQSQAP--RKP------PRP 49

Query: 61  VQKQTLRGSGSCGNSSNLIQDDETVSWIHCPIEDSFEKDFYSQLFSELPPSGPMEVDKHT 120
            +K T         ++  + +DE+ SW   P++D  EKD +++LF E+  +G    D   
Sbjct: 50  -EKTTA-------AAAAAMAEDESASWFQYPVDDVLEKDLFTELFGEMTAAGGGGGDVRR 101

Query: 121 RQLREEKMVKFDPPGAVTSSQHPNVNHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDLGK 180
              +EE+       GAV +              Q   MPPP       A      GD+  
Sbjct: 102 AACKEER-------GAVAA-------------FQSRMMPPPW-----PARGKAEFGDVDD 136

Query: 181 LVNFSQSTAPPKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQV------A 234
           +   S+                  K  G      V E SM+T+GSS CGSN V       
Sbjct: 137 VCGVSEVVMA--------------KMDGAAAAETVGESSMLTIGSSICGSNHVQTPPVGN 182

Query: 235 YDLDMSRASSSGLNDDVRKVISPSERGK--TETIEPTVTSSSGGSGSSFNRTSKQSTGDN 292
                  A ++    D   V S S R +  T   EP   +++G  G              
Sbjct: 183 GKAGAGTAGAARRAHDTATVASSSMRSRSCTAKAEPRDVAAAGVGG-------------- 228

Query: 293 SLKRKSRD--AVDSECQSEAAGFESGAGNKT-AQRSGSCRRSRAAEVHNLSERRRRDRIN 349
             KRK R   A++S   SE   FES A   + AQ++ + +R RAAEVHNLSERRRRDRIN
Sbjct: 229 --KRKQRGGAAMESGSPSEDVEFESAAATCSPAQKTTTAKRRRAAEVHNLSERRRRDRIN 286

Query: 350 EKMRALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAP--LMFP--GM 405
           EKM+ALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQM   MWMG GMAP  +MFP  G+
Sbjct: 287 EKMKALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQM---MWMGGGMAPPAVMFPAAGV 343

Query: 406 QHYMSRMG-MGMGPPPLPSV 424
             YM RMG +GMGPP + S+
Sbjct: 344 HQYMQRMGAVGMGPPHMASL 363

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

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	532
TAIR|locus:2077680	444	PIL6 "AT3G59060" [Arabidopsis	0.492	0.590	0.394	9.9e-58
TAIR|locus:2053733	430	PIF4 "AT2G43010" [Arabidopsis	0.458	0.567	0.389	3.3e-53
TAIR|locus:2061634	478	PIL5 "phytochrome interacting	0.545	0.606	0.345	8e-39
UNIPROTKB|Q8GRJ1	417	OJ1343_B12.103 "Transcription	0.507	0.647	0.346	8.1e-37
TAIR|locus:2012345	524	PIF3 "AT1G09530" [Arabidopsis	0.723	0.734	0.324	9.2e-36
TAIR|locus:4010713915	544	AT4G28811 [Arabidopsis thalian	0.330	0.323	0.358	7.2e-22
UNIPROTKB|Q5NAE0	565	P0498A12.33 "Putative BP-5 pro	0.221	0.208	0.511	1.5e-21
TAIR|locus:2117773	413	AT4G28790 [Arabidopsis thalian	0.359	0.462	0.347	9.8e-21
UNIPROTKB|Q7FA23	181	OSJNBa0058K23.6 "Os04g0618600	0.159	0.469	0.579	1.9e-20
UNIPROTKB|Q5VRS4	315	OSJNBa0015I14.14 "Basic helix-	0.133	0.225	0.693	3.1e-19

TAIR|locus:2077680 PIL6 "AT3G59060" [Arabidopsis thaliana (taxid:3702)]

 Score = 441 (160.3 bits), Expect = 9.9e-58, Sum P(2) = 9.9e-58
 Identities = 127/322 (39%), Positives = 175/322 (54%)

Query:   219 SMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTXXXXXXX 278
             S++TVG SHCGSNQ           S+ ++      +S S+R K    E   T       
Sbjct:   146 SVITVGPSHCGSNQ-----------STNIHQATTLPVSMSDRSKNVE-ERLDTSSGGSSG 193

Query:   279 XXFNRTSKQSTGDNS--LKRKSRDAVDSECQSEAA---GFESG----AGNKTAQRSGSCR 329
               + R +K++    S  + RK +  +D++ +S +    G  S      GNK++QRSGS R
Sbjct:   194 CSYGRNNKETVSGTSVTIDRKRKHVMDADQESVSQSDIGLTSTDDQTMGNKSSQRSGSTR 253

Query:   330 RSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYXXXXXXXXXXXX 389
             RSRAAEVHNLSERRRRDRINE+M+ALQELIPHC++TDKAS+LDEAI+Y            
Sbjct:   254 RSRAAEVHNLSERRRRDRINERMKALQELIPHCSRTDKASILDEAIDYLKSLQMQLQ--- 310

Query:   390 VMWMGSGMA--------PLMFPGMQH--YMSRXXXXXXXXXLPSVTNPMHFSRVPLVDQS 439
             VMWMGSGMA        P+MFPG+Q   Y+++           ++ + M  S+ P++++S
Sbjct:   311 VMWMGSGMAAAAAAAASPMMFPGVQSSPYINQM----------AMQSQMQLSQFPVMNRS 360

Query:   440 MSMAQAQNRAVMCQASVLNPVNYQNQMQNSNFTEQYARYMGFHP--------MQA-NSQP 490
                A   +  ++CQ    NPV  Q Q QN   +EQ ARYMG  P        MQ    QP
Sbjct:   361 ---APQNHPGLVCQ----NPVQLQLQAQNQILSEQLARYMGGIPQMPPAGNQMQTVQQQP 413

Query:   491 MNMFRFGSPTMQNQIVSLPSSS 512
              +M  FGSP      +S P+++
Sbjct:   414 ADMLGFGSPAGPQSQLSAPATT 435

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

GO:0009585 "red, far-red light phototransduction" evidence=IMP

GO:0009693 "ethylene biosynthetic process" evidence=IMP

GO:0010600 "regulation of auxin biosynthetic process" evidence=IDA

GO:0010928 "regulation of auxin mediated signaling pathway" evidence=IDA

GO:0000096 "sulfur amino acid metabolic process" evidence=RCA

GO:0006546 "glycine catabolic process" evidence=RCA

GO:0006636 "unsaturated fatty acid biosynthetic process" evidence=RCA

GO:0006733 "oxidoreduction coenzyme metabolic process" evidence=RCA

GO:0006766 "vitamin metabolic process" evidence=RCA

GO:0007623 "circadian rhythm" evidence=RCA

GO:0008652 "cellular amino acid biosynthetic process" evidence=RCA

GO:0009072 "aromatic amino acid family metabolic process" evidence=RCA

GO:0009073 "aromatic amino acid family biosynthetic process" evidence=RCA

GO:0009106 "lipoate metabolic process" evidence=RCA

GO:0009108 "coenzyme biosynthetic process" evidence=RCA

GO:0009117 "nucleotide metabolic process" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0009684 "indoleacetic acid biosynthetic process" evidence=RCA

GO:0009695 "jasmonic acid biosynthetic process" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010017 "red or far-red light signaling pathway" evidence=RCA

GO:0015995 "chlorophyll biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0019344 "cysteine biosynthetic process" evidence=RCA

GO:0019748 "secondary metabolic process" evidence=RCA

GO:0019761 "glucosinolate biosynthetic process" evidence=RCA

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0044272 "sulfur compound biosynthetic process" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:2053733 PIF4 "AT2G43010" [Arabidopsis thaliana (taxid:3702)]

 Score = 403 (146.9 bits), Expect = 3.3e-53, Sum P(2) = 3.3e-53
 Identities = 113/290 (38%), Positives = 150/290 (51%)

Query:   190 PPKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLND 249
             PP   + P   +     SG + + E+ + S+ TVG SHCGSN    DLD+S      ++ 
Sbjct:   129 PPPQVMPPPKFRLTNSSSG-IRETEMEQYSVTTVGPSHCGSNPSQNDLDVS------MSH 181

Query:   250 DVRKVISPSERGKTETIEPTVTXXXXXXXX-XFNRTSKQSTGDNSLKR-KSRDAVDSECQ 307
             D  K I        E + P  +          F +  K+      +   + R  ++    
Sbjct:   182 DRSKNIE-------EKLNPNASSSSGGSSGCSFGKDIKEMASGRCITTDRKRKRINHT-- 232

Query:   308 SEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDK 367
              E+       GNK+ QRSGS RRSRAAEVHNLSERRRRDRINE+M+ALQELIPHC+KTDK
Sbjct:   233 DESVSLSDAIGNKSNQRSGSNRRSRAAEVHNLSERRRRDRINERMKALQELIPHCSKTDK 292

Query:   368 ASMLDEAIEYXXXXXXXXXXXXVMWMGSGMA------PLMFPGMQHYMSRXXXXXXXXXL 421
             AS+LDEAI+Y            VMWMGSGMA      P+MFPG+Q              +
Sbjct:   293 ASILDEAIDYLKSLQLQLQ---VMWMGSGMAAAAASAPMMFPGVQPQQ----------FI 339

Query:   422 PSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQNQMQNSNF 471
               + +P+   R P++DQS   A   N  ++CQ    NPV  QNQ+ +  F
Sbjct:   340 RQIQSPVQLPRFPVMDQS---AIQNNPGLVCQ----NPV--QNQIISDRF 380

GO:0003677 "DNA binding" evidence=ISS;IDA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0010017 "red or far-red light signaling pathway" evidence=RCA;IMP

GO:0010161 "red light signaling pathway" evidence=IGI

GO:0009704 "de-etiolation" evidence=IMP

GO:0010600 "regulation of auxin biosynthetic process" evidence=IDA

GO:0010928 "regulation of auxin mediated signaling pathway" evidence=IDA

GO:0000165 "MAPK cascade" evidence=RCA

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

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0007623 "circadian rhythm" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

TAIR|locus:2061634 PIL5 "phytochrome interacting factor 3-like 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 8.0e-39, Sum P(2) = 8.0e-39
 Identities = 118/342 (34%), Positives = 161/342 (47%)

Query:   200 GQFDRKRSGN----LTQGEVRECSMMT------VGSSHCGSNQVAYDLDMSRASSSGLND 249
             G F+  R G     L++  VRE + ++        +S  G  +     D S  +  G  +
Sbjct:   153 GDFNNGRGGESGPLLSKAVVRESTQVSPSATPSAAASESGLTRRTDGTDSSAVAGGGAYN 212

Query:   250 DVRKVISPSERGKTETIEPTVTXXXXXXXXXFNRTSKQSTGDNSLKRKSRDAVDSECQSE 309
                K ++ +       IE T T          +    + T  +  KRK R+A  ++ ++E
Sbjct:   213 RKGKAVAMT----APAIEITGTSSSVVSK---SEIEPEKTNVDDRKRKEREATTTD-ETE 264

Query:   310 AAGFESGAGNKTAQRSG-SCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKA 368
             +   E+    K A+ S  S +RSRAAEVHNLSER+RRDRINE+M+ALQELIP CNK+DKA
Sbjct:   265 SRSEET----KQARVSTTSTKRSRAAEVHNLSERKRRDRINERMKALQELIPRCNKSDKA 320

Query:   369 SMLDEAIEYXXXXXXXXXXXXVMWMGSGMAPLMFPGMQHYMSRXXXXXXXXXL---PS-V 424
             SMLDEAIEY            +M MG GM P+M+PGMQ YM               PS +
Sbjct:   321 SMLDEAIEYMKSLQLQIQ---MMSMGCGMMPMMYPGMQQYMPHMAMGMGMNQPIPPPSFM 377

Query:   425 TNP-MHFSRVPLVDQSMSMAQAQNRAVMCQ--ASVLNPVNYQ-----NQMQN-SNFTEQY 475
               P M  ++ PL  Q+          V     + V  P N Q      Q Q  + +T+ Y
Sbjct:   378 PFPNMLAAQRPLPTQTHMAGSGPQYPVHASDPSRVFVP-NQQYDPTSGQPQYPAGYTDPY 436

Query:   476 ARYMGFHPMQANSQPMNMFRFGSPTMQNQIVSLPSSSCVPFS 517
              ++ G HP    +QP        P  QNQ  S PSSS V  S
Sbjct:   437 QQFRGLHP----TQP--------PQFQNQATSYPSSSRVSSS 466

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0015995 "chlorophyll biosynthetic process" evidence=IMP

GO:0010187 "negative regulation of seed germination" evidence=IGI;IMP

GO:0010313 "phytochrome binding" evidence=IDA

GO:0009959 "negative gravitropism" evidence=IMP;TAS

GO:0010029 "regulation of seed germination" evidence=TAS

GO:0010099 "regulation of photomorphogenesis" evidence=TAS

GO:0003677 "DNA binding" evidence=IDA

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

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA;IMP

GO:0010100 "negative regulation of photomorphogenesis" evidence=IMP

GO:0010161 "red light signaling pathway" evidence=IDA

GO:0006783 "heme biosynthetic process" evidence=IMP

GO:0042802 "identical protein binding" evidence=IPI

GO:0009686 "gibberellin biosynthetic process" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0048608 "reproductive structure development" evidence=RCA

UNIPROTKB|Q8GRJ1 OJ1343_B12.103 "Transcription factor BHLH9-like protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 330 (121.2 bits), Expect = 8.1e-37, Sum P(2) = 8.1e-37
 Identities = 103/297 (34%), Positives = 143/297 (48%)

Query:   226 SHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTXXXXXXXXXFNRTS 285
             S CGSN V     ++ A  +  +DD+    +P E  + E   P                S
Sbjct:   137 SICGSNAV-----VAPALPADDDDDI-DAAAPREEEEEEEEGPGAARAAGASSSG---GS 187

Query:   286 KQSTGDNSL-KRKSRDAVDSECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRR 344
                +G   L KR   + VDS   SE A  E+    + ++R  + RR+RAAEVHNLSERRR
Sbjct:   188 GSGSGSYPLFKRGREELVDS--LSEVAD-ET----RPSKRPAAKRRTRAAEVHNLSERRR 240

Query:   345 RDRINEKMRALQELIPHCNKTDKASMLDEAIEYXXXXXXXXXXXXVMWMGSGMAPLMFPG 404
             RDRINEK+RALQEL+PHCNKTDKAS+LDEAIEY            +MWM +G+ P+MFPG
Sbjct:   241 RDRINEKLRALQELVPHCNKTDKASILDEAIEYLKSLQMQVQ---IMWMTTGIVPMMFPG 297

Query:   405 MQHYMSRXXXXXXXXXLPSVTNPMHFSRVPLVDQSMSMAQAQNRAVMCQASVLNPVNYQN 464
                 M           +P        +++      M+ +   N+     +  +N  +  +
Sbjct:   298 THQLMPPMGMGLNTACMPGA-QAQGLNQMQRTTYYMNNS-LPNQMPQIPSPAMNAPSVPD 355

Query:   465 QMQNSNFTEQYARYMGFH---PMQANSQPMNMFRFGSPTM-QNQIVSLPSSSCVPFS 517
              MQN N      R    H    + A +Q   +F +GS    QN+I  L S + +P S
Sbjct:   356 DMQNDNRIRG-PRNPFLHCNDTLTATAQVPGLFTYGSQIAEQNEIQELLSGAVIPSS 411

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2012345 PIF3 "AT1G09530" [Arabidopsis thaliana (taxid:3702)]

 Score = 386 (140.9 bits), Expect = 9.2e-36, P = 9.2e-36
 Identities = 136/419 (32%), Positives = 193/419 (46%)

Query:    27 NELVELLWQNGHVVLSSQAQTQRK---PSLNHNEPRQV---QKQTLRGSGSCGNSS---N 77
             +E+VEL+W+NG +   SQ+   R    P  N +  R++    K T+         S    
Sbjct:    27 DEVVELVWENGQISTQSQSSRSRNIPPPQANSSRAREIGNGSKTTMVDEIPMSVPSLMTG 86

Query:    78 LIQDDETVSWI-HCPIEDSFEKDFYSQLFSELPPS---GPMEVDKHTRQLREEKMVKFDP 133
             L QDD+ V W+ H P  D +  DF   + S +  +     M V++    L + +    + 
Sbjct:    87 LSQDDDFVPWLNHHPSLDGYCSDFLRDVSSPVTVNEQESDMAVNQTAFPLFQRRKDGNES 146

Query:   134 PGAVTSSQHPNV-NHSVVPELQRNAMPPPRFEVHDAAPQNKNLGDLGK--LVNFSQSTAP 190
               A +SSQ+    +HS+    +   +P  +          + L    K  LVNFS    P
Sbjct:   147 APAASSSQYNGFQSHSLYGSDRARDLPSQQTNPDRFTQTQEPLITSNKPSLVNFSHFLRP 206

Query:   191 PKGELGPCSGQFDRKRSGNLTQGEVRECSMMTVGSSHCGSNQVAYDLDMSRASSSGLNDD 250
                     +   D K     +   V +  ++    S    ++V   L+ S AS++  ++ 
Sbjct:   207 ATFAKTTNNNLHDTKEKSPQSPPNVFQTRVLGAKDSE---DKV---LNESVASATPKDNQ 260

Query:   251 VRKVISPSERGKTETIEPTVTXXXXXXXXXFNRTSKQSTGDNSLKRKSRDAVDSECQSEA 310
                +IS     K +  E  V           +  S+  +   SLKRK  +  D +C SE 
Sbjct:   261 KACLISEDSCRKDQESEKAVVCSSVGSGNSLDGPSESPS--LSLKRKHSNIQDIDCHSED 318

Query:   311 AGFESGAGNKTA--QRSG-SCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDK 367
                ESG G K A   R+G   +RSR+AEVHNLSERRRRDRINEKMRALQELIP+CNK DK
Sbjct:   319 VEEESGDGRKEAGPSRTGLGSKRSRSAEVHNLSERRRRDRINEKMRALQELIPNCNKVDK 378

Query:   368 ASMLDEAIEYXXXXXXXXXXXXVMWMGSG--MAP-LMFP-GMQHYMSRXXXXXXXXXLP 422
             ASMLDEAIEY            +M M SG  + P +MFP GM HY +          +P
Sbjct:   379 ASMLDEAIEYLKSLQLQVQ---IMSMASGYYLPPAVMFPPGMGHYPAAAAAMAMGMGMP 434

GO:0003677 "DNA binding" evidence=ISS;IDA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0009639 "response to red or far red light" evidence=IMP

GO:0010017 "red or far-red light signaling pathway" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

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

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

GO:0042802 "identical protein binding" evidence=IPI

GO:0031539 "positive regulation of anthocyanin metabolic process" evidence=IMP

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=IMP

GO:0009704 "de-etiolation" evidence=IMP

GO:0007623 "circadian rhythm" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0007165 "signal transduction" evidence=TAS

TAIR|locus:4010713915 AT4G28811 [Arabidopsis thaliana (taxid:3702)]

 Score = 240 (89.5 bits), Expect = 7.2e-22, Sum P(2) = 7.2e-22
 Identities = 72/201 (35%), Positives = 99/201 (49%)

Query:   318 GNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEY 377
             G + A  S S +RSRAA++HNLSERRRR+RINE+M+ LQEL+P C KTDK SML++ IEY
Sbjct:   343 GTEEAHGSTSRKRSRAADMHNLSERRRRERINERMKTLQELLPRCRKTDKVSMLEDVIEY 402

Query:   378 XXXXXXXXXXXXVMWMGSGMAP-LMFPG-MQHYMSRXXXXXXXXXLP---------SVTN 426
                         +M MG GM P +M  G  Q +M            P         +   
Sbjct:   403 VKSLQLQIQ---MMSMGHGMMPPMMHEGNTQQFMPHMAMGMKGMNRPPPFVPFPGKTFPR 459

Query:   427 PMHFSRV----PLVDQSMSMAQAQNRAVMCQASV-LNPVNYQNQMQNSNFTEQYARYMGF 481
             P H + V    P +       QA + + +   S+  NPV   NQ +   +   Y++++G 
Sbjct:   460 PGHMAGVGPSYPALRYPFPDTQASDLSRVHVPSLHSNPV--PNQPRFPAYINPYSQFVGL 517

Query:   482 HPMQANSQPMNMFRFGSPTMQ 502
             H MQ    P+     G PT Q
Sbjct:   518 HQMQQPPLPLQ----GQPTSQ 534

GO:0005634 "nucleus" evidence=ISM

UNIPROTKB|Q5NAE0 P0498A12.33 "Putative BP-5 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 263 (97.6 bits), Expect = 1.5e-21, Sum P(2) = 1.5e-21
 Identities = 67/131 (51%), Positives = 79/131 (60%)

Query:   285 SKQSTGDNSLKR--KSRDAVDSEC---QSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNL 339
             S    G + L R  K +    +EC   Q +    E G   K+  RS   +RSR AEVHNL
Sbjct:   262 SGNGAGSDELWRQQKRKCQAQAECSASQDDDLDDEPGVLRKSGTRS--TKRSRTAEVHNL 319

Query:   340 SERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYXXXXXXXXXXXXVMWMGSGMA- 398
             SERRRRDRINEKMRALQELIP+CNK DKASMLDEAIEY            +M MG+G+  
Sbjct:   320 SERRRRDRINEKMRALQELIPNCNKIDKASMLDEAIEYLKTLQLQVQ---MMSMGTGLCI 376

Query:   399 -PLMFP-GMQH 407
              P++ P  MQH
Sbjct:   377 PPMLLPTAMQH 387

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2117773 AT4G28790 [Arabidopsis thaliana (taxid:3702)]

 Score = 220 (82.5 bits), Expect = 9.8e-21, Sum P(2) = 9.8e-21
 Identities = 74/213 (34%), Positives = 100/213 (46%)

Query:   205 KRSGNLTQGEVREC-SMMTVGSSHCGSNQVAYDLDMSRASSSGLNDDVRKVISPSERGKT 263
             ++ GN+  G V    S  T+ SS   S    +  + SRA+ +G       V     RGK 
Sbjct:   156 RQRGNIFLGGVEAVPSNSTLLSSATESIPATHGTE-SRATVTGGVSRTFAVPGLGPRGKA 214

Query:   264 ETIEPTVTXXXXXXXXXFNRTSKQSTGDNSL----KRKSRDAVDSECQSEAAGFESGAGN 319
               IE   T              +Q   +  +    KRK+R+  + E Q          G 
Sbjct:   215 VAIETAGTQSWGLCKAETEPVQRQPATETDITDERKRKTREETNVENQ----------GT 264

Query:   320 KTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYXX 379
             + A+ S S +RSRAA +H LSERRRR +INE M+ALQEL+P C KTD++SMLD+ IEY  
Sbjct:   265 EEARDSTSSKRSRAAIMHKLSERRRRQKINEMMKALQELLPRCTKTDRSSMLDDVIEYVK 324

Query:   380 XXXXXXXXXXVMWMGSGMAP-LMFPG--MQHYM 409
                          MG  M P +M+ G   Q YM
Sbjct:   325 SLQSQIQMFS---MGHVMIPPMMYAGNIQQQYM 354

GO:0005634 "nucleus" evidence=ISM

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

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

UNIPROTKB|Q7FA23 OSJNBa0058K23.6 "Os04g0618600 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 248 (92.4 bits), Expect = 1.9e-20, P = 1.9e-20
 Identities = 51/88 (57%), Positives = 63/88 (71%)

Query:   322 AQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCNKTDKASMLDEAIEYXXXX 381
             A+R    RRSR+AE HN SERRRRDRINEK++ALQEL+P+C KTDK SMLDEAI+Y    
Sbjct:     3 ARRPTPTRRSRSAEFHNFSERRRRDRINEKLKALQELLPNCTKTDKVSMLDEAIDYLKSL 62

Query:   382 XXXXXXXXVMWMGSGMAPLMFPGMQHYM 409
                     ++ MG GMAP++ P +Q YM
Sbjct:    63 QLQLQ---MLVMGKGMAPVVPPELQQYM 87

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q5VRS4 OSJNBa0015I14.14 "Basic helix-loop-helix protein SPATULA-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 237 (88.5 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 52/75 (69%), Positives = 59/75 (78%)

Query:   306 CQSEAAGF---ESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHC 362
             C SEA G    E+ AG +    SGS +RSRAAEVHNLSE+RRR +INEKM+ALQ LIP+ 
Sbjct:    75 CDSEAGGSSEPEAAAGARPRGGSGS-KRSRAAEVHNLSEKRRRSKINEKMKALQSLIPNS 133

Query:   363 NKTDKASMLDEAIEY 377
             NKTDKASMLDEAIEY
Sbjct:   134 NKTDKASMLDEAIEY 148

GO:0005634 "nucleus" evidence=IC

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00018844001 SubName- Full=Chromosome chr12 scaffold_18, whole genome shotgun sequence; (437 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	532
smart00353	53	smart00353, HLH, helix loop helix domain	3e-17
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	6e-17
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	2e-15

>gnl|CDD|197674 smart00353, HLH, helix loop helix domain

 Score = 74.9 bits (185), Expect = 3e-17
 Identities = 26/52 (50%), Positives = 32/52 (61%), Gaps = 3/52 (5%)

Query: 338 NLSERRRRDRINEKMRALQELIPHCN---KTDKASMLDEAIEYLKSLQLQLQ 386
           N  ERRRR +INE    L+ L+P      K  KA +L  AIEY+KSLQ +LQ
Sbjct: 1   NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQ 52

Length = 53

>gnl|CDD|238036 cd00083, HLH, Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long

 Score = 74.6 bits (184), Expect = 6e-17
 Identities = 27/55 (49%), Positives = 36/55 (65%), Gaps = 3/55 (5%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIP---HCNKTDKASMLDEAIEYLKSLQLQLQ 386
           E HNL ERRRR+RIN+    L+ L+P      K  KA +L +A++Y+KSLQ  LQ
Sbjct: 6   EAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60

A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and have a PAS domain which allows the dimerization between PAS proteins, the binding of small molecules (e.g., dioxin), and interactions with non-PAS proteins. Length = 60

>gnl|CDD|215654 pfam00010, HLH, Helix-loop-helix DNA-binding domain

 Score = 69.8 bits (172), Expect = 2e-15
 Identities = 26/50 (52%), Positives = 32/50 (64%), Gaps = 2/50 (4%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIPHCN--KTDKASMLDEAIEYLKSLQ 382
           + HN  ERRRRDRIN+    L+EL+P     K  KA +L  AIEY+K LQ
Sbjct: 3   KAHNERERRRRDRINDAFEELRELLPTPPNKKLSKAEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	532
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.4
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.38
KOG1318	411	consensus Helix loop helix transcription factor EB	99.31
smart00353	53	HLH helix loop helix domain.	99.3
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	98.92
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.74
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.73
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	98.1
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	98.01
KOG3960	284	consensus Myogenic helix-loop-helix transcription	98.01
KOG0561	373	consensus bHLH transcription factor [Transcription	97.56
KOG4029	228	consensus Transcription factor HAND2/Transcription	97.48
PLN03217	93	transcription factor ATBS1; Provisional	97.36
KOG3910	632	consensus Helix loop helix transcription factor [T	96.74
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	94.6
KOG3898	254	consensus Transcription factor NeuroD and related	94.21
KOG3560	712	consensus Aryl-hydrocarbon receptor [Transcription	93.93
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	91.46
KOG4395	285	consensus Transcription factor Atonal, contains HT	84.79
KOG3559	598	consensus Transcriptional regulator SIM1 [Transcri	84.3

>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long

Probab=99.40  E-value=4.7e-13  Score=104.62  Aligned_cols=54  Identities=50%  Similarity=0.773  Sum_probs=50.3

Q ss_pred             hhhhcchhhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHHHHH
Q 009564          333 AAEVHNLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       333 ~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      .+..|+..||+||++||+.|..|+.+||.+   .|++|++||..||+||++|+.+++
T Consensus         4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~   60 (60)
T cd00083           4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ   60 (60)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            356899999999999999999999999988   789999999999999999998763

A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and

>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt)

Probab=99.38  E-value=6.1e-13  Score=103.58  Aligned_cols=49  Identities=55%  Similarity=0.889  Sum_probs=46.3

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC-----CCCchhhHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASMLDEAIEYLKSLQ  382 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~-----~K~dKasIL~~AI~YIk~Lq  382 (532)
                      +..|+..||+||++||+.|.+|+++||.+     .|++|++||..||+||++||
T Consensus         2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    2 RQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            45799999999999999999999999988     58999999999999999997

; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....

>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]

Probab=99.31  E-value=2e-12  Score=136.95  Aligned_cols=62  Identities=40%  Similarity=0.730  Sum_probs=55.6

Q ss_pred             ccccchhhhhcchhhHHHHHHHHHHHHHHHhhCCCCC----CCchhhHHHHHHHHHHHHHHHHHHh
Q 009564          327 SCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQLQLQMS  388 (532)
Q Consensus       327 ~~rr~r~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~----K~dKasIL~~AI~YIk~Lq~qvq~L  388 (532)
                      ..|.+|+|+.||++|||||++||++|++|..|||.|+    |..|..||..+++||+.||+..++.
T Consensus       227 ~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~  292 (411)
T KOG1318|consen  227 LERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRA  292 (411)
T ss_pred             hHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHH
Confidence            4455666789999999999999999999999999995    6779999999999999999988854

>smart00353 HLH helix loop helix domain

Probab=99.30  E-value=5.3e-12  Score=96.93  Aligned_cols=49  Identities=53%  Similarity=0.736  Sum_probs=45.7

Q ss_pred             chhhHHHHHHHHHHHHHHHhhCCC---CCCCchhhHHHHHHHHHHHHHHHHH
Q 009564          338 NLSERRRRDRINEKMRALQELIPH---CNKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       338 n~~ERrRR~kINe~~~~Lr~LVP~---~~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      |..||+||++||+.|..|+.+||.   ..|++|++||.+||+||++|+.+++
T Consensus         1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~   52 (53)
T smart00353        1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ   52 (53)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            578999999999999999999995   5689999999999999999999886

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=98.92  E-value=9.3e-10  Score=105.66  Aligned_cols=56  Identities=32%  Similarity=0.595  Sum_probs=50.4

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCC-------CCchhhHHHHHHHHHHHHHHHHHHhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCN-------KTDKASMLDEAIEYLKSLQLQLQMSQ  389 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~-------K~dKasIL~~AI~YIk~Lq~qvq~Le  389 (532)
                      +..|...||+|||-||..+..|++|||.|.       |+.||.||.++|+||.+|.+++.+-|
T Consensus        63 r~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe  125 (229)
T KOG1319|consen   63 RRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQE  125 (229)
T ss_pred             HHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            447999999999999999999999999774       88899999999999999998776543

>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]

Probab=98.74  E-value=7.3e-09  Score=104.46  Aligned_cols=53  Identities=36%  Similarity=0.540  Sum_probs=47.5

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC--------CCCchhhHHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC--------NKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~--------~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      +..|-++|||||+|||+.|.+|++||+.+        .|++||.||+.|++|++.|+...+
T Consensus        33 k~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~   93 (250)
T KOG4304|consen   33 KVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ   93 (250)
T ss_pred             hhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence            34688999999999999999999999933        478999999999999999998655

>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]

Probab=98.73  E-value=1.2e-08  Score=115.99  Aligned_cols=80  Identities=26%  Similarity=0.390  Sum_probs=64.6

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCC----CCchhhHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCC--cchhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQLQLQMSQVMWMGSGMAPLMF--PGMQH  407 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~----K~dKasIL~~AI~YIk~Lq~qvq~Le~~~m~~~~~p~~~--p~~~~  407 (532)
                      +++|+.+||||||++|..|.+|.+|||.|.    |+||.+||++||.+||.+++.-  ++.......+.|.++  +.+.+
T Consensus        21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~~--~~~~~~~~d~KpSflS~~eL~~   98 (803)
T KOG3561|consen   21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQE--SENSSIDQDYKPSFLSNDELTH   98 (803)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhhh--cccccccccccccccchHHHHH
Confidence            568999999999999999999999999996    9999999999999999998863  234455566777665  45666


Q ss_pred             hHhhhcCC
Q 009564          408 YMSRMGMG  415 (532)
Q Consensus       408 ~~~~~~~~  415 (532)
                      +|-.+..|
T Consensus        99 LmLeAlDG  106 (803)
T KOG3561|consen   99 LILEALDG  106 (803)
T ss_pred             HHHHHhcC
Confidence            66655444

>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]

Probab=98.10  E-value=7.3e-06  Score=82.10  Aligned_cols=55  Identities=29%  Similarity=0.472  Sum_probs=47.7

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCC--CCc-hhhHHHHHHHHHHHHHHHHHHh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCN--KTD-KASMLDEAIEYLKSLQLQLQMS  388 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~--K~d-KasIL~~AI~YIk~Lq~qvq~L  388 (532)
                      +..||.-||+||+.|.++|..|+.+||...  |.. .++||++|++||++|+.+....
T Consensus        60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~  117 (232)
T KOG2483|consen   60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQ  117 (232)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHH
Confidence            458999999999999999999999999764  333 7999999999999999876543

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=98.01  E-value=2.3e-06  Score=98.30  Aligned_cols=56  Identities=36%  Similarity=0.571  Sum_probs=51.8

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCC-CCchhhHHHHHHHHHHHHHHHHHHhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCN-KTDKASMLDEAIEYLKSLQLQLQMSQ  389 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~-K~dKasIL~~AI~YIk~Lq~qvq~Le  389 (532)
                      |.+||++|||.|..||++|.+|+.+||+.. |+.|..+|.+||+||++|+...+.|.
T Consensus       277 RtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk  333 (953)
T KOG2588|consen  277 RTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLK  333 (953)
T ss_pred             cchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccc
Confidence            458999999999999999999999999885 99999999999999999999877663

>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]

Probab=98.01  E-value=1.3e-05  Score=80.53  Aligned_cols=57  Identities=30%  Similarity=0.403  Sum_probs=48.6

Q ss_pred             cchhhHHHHHHHHHHHHHHHhh-CCCCC-CCchhhHHHHHHHHHHHHHHHHHHhhhhcc
Q 009564          337 HNLSERRRRDRINEKMRALQEL-IPHCN-KTDKASMLDEAIEYLKSLQLQLQMSQVMWM  393 (532)
Q Consensus       337 Hn~~ERrRR~kINe~~~~Lr~L-VP~~~-K~dKasIL~~AI~YIk~Lq~qvq~Le~~~m  393 (532)
                      -.+.||||=.||||.|.+|+.- +++-+ .+-|..||..||+||+.||.-++++..+..
T Consensus       122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~  180 (284)
T KOG3960|consen  122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK  180 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence            4689999999999999999875 55554 689999999999999999999998755443

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.56  E-value=8.6e-05  Score=76.46  Aligned_cols=55  Identities=31%  Similarity=0.510  Sum_probs=48.9

Q ss_pred             hhhhcchhhHHHHHHHHHHHHHHHhhCCCC--CCCchhhHHHHHHHHHHHHHHHHHH
Q 009564          333 AAEVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQLQM  387 (532)
Q Consensus       333 ~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~--~K~dKasIL~~AI~YIk~Lq~qvq~  387 (532)
                      +++.-|.-||||=.-||..|..||.|||..  .|++||.||+.+.+||.+|+.+.-+
T Consensus        60 RReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~  116 (373)
T KOG0561|consen   60 RREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTE  116 (373)
T ss_pred             HHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccc
Confidence            356778899999999999999999999976  5999999999999999999876444

>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]

Probab=97.48  E-value=9.9e-05  Score=73.32  Aligned_cols=53  Identities=28%  Similarity=0.427  Sum_probs=48.1

Q ss_pred             hcchhhHHHHHHHHHHHHHHHhhCCC----CCCCchhhHHHHHHHHHHHHHHHHHHh
Q 009564          336 VHNLSERRRRDRINEKMRALQELIPH----CNKTDKASMLDEAIEYLKSLQLQLQMS  388 (532)
Q Consensus       336 ~Hn~~ERrRR~kINe~~~~Lr~LVP~----~~K~dKasIL~~AI~YIk~Lq~qvq~L  388 (532)
                      .+|..||.|=..||..|..||.+||.    .+|+.|..+|..||.||++|+.-++.-
T Consensus       112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~  168 (228)
T KOG4029|consen  112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQ  168 (228)
T ss_pred             hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhccc
Confidence            47788999999999999999999993    568999999999999999999988843

>PLN03217 transcription factor ATBS1; Provisional

Probab=97.36  E-value=0.0004  Score=59.73  Aligned_cols=45  Identities=27%  Similarity=0.534  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHhhCCC------CCCCchhhHHHHHHHHHHHHHHHHHHhh
Q 009564          345 RDRINEKMRALQELIPH------CNKTDKASMLDEAIEYLKSLQLQLQMSQ  389 (532)
Q Consensus       345 R~kINe~~~~Lr~LVP~------~~K~dKasIL~~AI~YIk~Lq~qvq~Le  389 (532)
                      -|.||+-+..|+.|+|.      ..|..-+-||++++.||+.|+.+|..|.
T Consensus        19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLS   69 (93)
T PLN03217         19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLS   69 (93)
T ss_pred             HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            47899999999999994      3467788899999999999999999884

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=96.74  E-value=0.0022  Score=69.93  Aligned_cols=54  Identities=28%  Similarity=0.329  Sum_probs=46.4

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCCC----CchhhHHHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCNK----TDKASMLDEAIEYLKSLQLQLQM  387 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~K----~dKasIL~~AI~YIk~Lq~qvq~  387 (532)
                      +...|..||-|-..|||.|++|-.+.----|    --|..||..||.-|-.|++||.+
T Consensus       527 R~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE  584 (632)
T KOG3910|consen  527 RMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE  584 (632)
T ss_pred             HhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH
Confidence            4468999999999999999999998663333    35999999999999999999993

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=94.60  E-value=0.017  Score=54.77  Aligned_cols=52  Identities=35%  Similarity=0.490  Sum_probs=46.8

Q ss_pred             hhcchhhHHHHHHHHHHHHHHHhhCCCC--CCCchhhHHHHHHHHHHHHHHHHH
Q 009564          335 EVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       335 ~~Hn~~ERrRR~kINe~~~~Lr~LVP~~--~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      --||+.||+|-..+|+.|.+||.+||..  .|++|.-.|+-|..||-+|=+-++
T Consensus        80 v~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~vl~  133 (173)
T KOG4447|consen   80 VMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQVLQ  133 (173)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhccc
Confidence            3699999999999999999999999955  699999999999999999876554

>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]

Probab=94.21  E-value=0.09  Score=53.68  Aligned_cols=51  Identities=35%  Similarity=0.456  Sum_probs=44.1

Q ss_pred             hhcchhhHHHHHHHHHHHHHHHhhCCC---CCCCchhhHHHHHHHHHHHHHHHH
Q 009564          335 EVHNLSERRRRDRINEKMRALQELIPH---CNKTDKASMLDEAIEYLKSLQLQL  385 (532)
Q Consensus       335 ~~Hn~~ERrRR~kINe~~~~Lr~LVP~---~~K~dKasIL~~AI~YIk~Lq~qv  385 (532)
                      ..=|..||+|=-.+|+.|..||++||.   ..|+.|+..|.-|-+||..|++-.
T Consensus        74 ~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~~  127 (254)
T KOG3898|consen   74 LKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEVL  127 (254)
T ss_pred             ccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcccc
Confidence            345778999999999999999999994   358999999999999999998643

>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]

Probab=93.93  E-value=0.047  Score=60.65  Aligned_cols=39  Identities=38%  Similarity=0.674  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHHHHhhCC----CCCCCchhhHHHHHHHHHHH
Q 009564          342 RRRRDRINEKMRALQELIP----HCNKTDKASMLDEAIEYLKS  380 (532)
Q Consensus       342 RrRR~kINe~~~~Lr~LVP----~~~K~dKasIL~~AI~YIk~  380 (532)
                      ||-|||+|..|+.|..|+|    -.+|+||.+||.-+|-|++.
T Consensus        34 KRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~   76 (712)
T KOG3560|consen   34 KRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRV   76 (712)
T ss_pred             hhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHH
Confidence            6789999999999999999    34699999999999999864

>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]

Probab=91.46  E-value=0.14  Score=58.30  Aligned_cols=47  Identities=34%  Similarity=0.470  Sum_probs=39.3

Q ss_pred             hhcchhhHHHHHHHHHHHHHHHhhCCCC----CCCchhhHHHHHHHHHHHH
Q 009564          335 EVHNLSERRRRDRINEKMRALQELIPHC----NKTDKASMLDEAIEYLKSL  381 (532)
Q Consensus       335 ~~Hn~~ERrRR~kINe~~~~Lr~LVP~~----~K~dKasIL~~AI~YIk~L  381 (532)
                      |.-.-+-|.||-|-|+-|.+|..+||--    ..+|||+|+.-||-|+|-=
T Consensus        48 EkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRlr   98 (768)
T KOG3558|consen   48 EKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRLR   98 (768)
T ss_pred             hhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHHH
Confidence            3344567999999999999999999932    3689999999999999743

>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]

Probab=84.79  E-value=4.3  Score=41.81  Aligned_cols=53  Identities=28%  Similarity=0.369  Sum_probs=46.9

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCC---CCchhhHHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCN---KTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~---K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      +..-|..||+|=..+|..|+.||.+||...   |+.|-..|..|-.||--|-..++
T Consensus       175 r~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~  230 (285)
T KOG4395|consen  175 RLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD  230 (285)
T ss_pred             hcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence            446789999999999999999999999664   78999999999999998877665

>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]

Probab=84.30  E-value=0.91  Score=49.39  Aligned_cols=45  Identities=31%  Similarity=0.483  Sum_probs=38.5

Q ss_pred             hhHHHHHHHHHHHHHHHhhCCCC----CCCchhhHHHHHHHHHHHHHHH
Q 009564          340 SERRRRDRINEKMRALQELIPHC----NKTDKASMLDEAIEYLKSLQLQ  384 (532)
Q Consensus       340 ~ERrRR~kINe~~~~Lr~LVP~~----~K~dKasIL~~AI~YIk~Lq~q  384 (532)
                      +.|.||++-|..|.+|..++|-.    ..+||++|+.-+..|||--.--
T Consensus         8 aA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr~vF   56 (598)
T KOG3559|consen    8 AARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMRNVF   56 (598)
T ss_pred             HHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHHHhc
Confidence            45899999999999999999944    3599999999999999865443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	532
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	7e-20
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	4e-16
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	8e-14
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	3e-13
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	8e-13
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	5e-09
1a0a_A	63	BHLH, protein (phosphate system positive regulator	8e-09
4f3l_A	361	Mclock, circadian locomoter output cycles protein	2e-07
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	7e-05

>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A); basic-helix-loop- helix-leucine zipper, transcription factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1 PDB: 1ukl_C Length = 82

 Score = 83.2 bits (206), Expect = 7e-20
 Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 1/59 (1%)

Query: 329 RRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN-KTDKASMLDEAIEYLKSLQLQLQ 386
            R      HN  E+R R  IN+K+  L++L+     K +K+++L +AI+Y++ LQ   Q
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQ 60

>1an4_A Protein (upstream stimulatory factor); protein-DNA complex, double helix, overhanging base, transcription/DNA complex; HET: DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1 Length = 65

 Score = 72.0 bits (177), Expect = 4e-16
 Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 329 RRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN------KTDKASMLDEAIEYLKSLQ 382
            + RA   HN  ERRRRD+IN  +  L ++IP  +         K  +L +A +Y++ L+
Sbjct: 3   EKRRAQ--HNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60

Query: 383 LQLQ 386
               
Sbjct: 61  QSNH 64

>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA binding, complex (transcription factor MAX/DNA), transcription/DNA complex; HET: DNA; 2.80A {Homo sapiens} SCOP: a.38.1.1 Length = 80

 Score = 65.8 bits (161), Expect = 8e-14
 Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIPHCN--KTDKASMLDEAIEYLKSLQLQLQ 386
             HN  ER+RRD I +   +L++ +P     K  +A +LD+A EY++ ++ +  
Sbjct: 14  AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNH 67

>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B Length = 83

 Score = 63.9 bits (156), Expect = 3e-13
 Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIPHCN--KTDKASMLDEAIEYLKSLQLQLQ 386
             HN  ER+RRD I +   +L++ +P     K  +A +LD+A EY++ ++ +  
Sbjct: 4   AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNH 57

>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 Length = 88

 Score = 63.1 bits (154), Expect = 8e-13
 Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIPHCN---KTDKASMLDEAIEYLKSLQLQLQ 386
             HN+ ER+RR+ +     AL++ IP      K  K  +L +A  Y+ S+Q + Q
Sbjct: 8   RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQ 62

>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ, transcription/DNA complex; 2.00A {Homo sapiens} SCOP: a.38.1.1 Length = 80

 Score = 52.1 bits (125), Expect = 5e-09
 Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 3/58 (5%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIP---HCNKTDKASMLDEAIEYLKSLQLQLQMSQ 389
             HN  E+ RR  +   +  L+ L+P     ++    S+L +A  ++K L+   + + 
Sbjct: 3   STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAV 60

>1a0a_A BHLH, protein (phosphate system positive regulatory protein PHO4); transcription factor, basic helix loop helix; HET: DNA; 2.80A {Saccharomyces cerevisiae} SCOP: a.38.1.1 Length = 63

 Score = 51.0 bits (122), Expect = 8e-09
 Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 7/55 (12%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIPHCNKTD-------KASMLDEAIEYLKSLQ 382
           E H  +E+ RR+R+   +  L  LIP   K         KA+ ++ A  Y++ LQ
Sbjct: 4   ESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQ 58

>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Length = 361

 Score = 52.3 bits (125), Expect = 2e-07
 Identities = 18/80 (22%), Positives = 38/80 (47%), Gaps = 3/80 (3%)

Query: 329 RRSRAAEVHNLSERRRRDRINEKMRALQELIPHC-NKTDKASMLDEAIEYLKSLQLQLQM 387
           +  R +   N SE++RRD+ N  ++ L  ++P    K DK+++L ++I++L+  +     
Sbjct: 10  KAKRVS--RNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKETTAQ 67

Query: 388 SQVMWMGSGMAPLMFPGMQH 407
           S    +     P      + 
Sbjct: 68  SDASEIRQDWKPTFLSNEEF 87

>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Length = 387

 Score = 48.5 bits (115), Expect = 4e-06
 Identities = 22/60 (36%), Positives = 36/60 (60%), Gaps = 4/60 (6%)

Query: 328 CRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQL 383
            R   A E H+  E+RRRD++N  +  L  L+P CN    K DK ++L  A++++K+L+ 
Sbjct: 8   GRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG 67

>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 = 46.4 bits (109), Expect = 2e-05
 Identities = 39/337 (11%), Positives = 95/337 (28%), Gaps = 77/337 (22%)

Query: 236 DLDMSRASSSGLNDDVRKVISPSERGKTETIEPTVTSSSGGSGSSFNRTSKQSTGDNSLK 295
           + D          D  + ++S  E      I+  + S    SG+     +  S  +  ++
Sbjct: 32  NFDCKDVQ-----DMPKSILSKEE------IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80

Query: 296 RKSRDAVD-------SECQSEAAGFESGAGNKTAQRSGSCRRSRAAEVHNLSERRRRDRI 348
           +   + +        S  ++E             QR      ++    +N+S   R    
Sbjct: 81  KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS---RLQPY 137

Query: 349 NEKMRALQELIPH----------CNKTDKASMLDEAIEYLKSLQLQLQMS-QVMWMGSGM 397
            +  +AL EL P             K    + +  A++   S ++Q +M  ++ W+    
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLGSGK----TWV--ALDVCLSYKVQCKMDFKIFWLNLKN 191

Query: 398 ---APLMFPGMQHYMSRMGMGMGPPPLPSVTNPMHFSRVPLVDQSMSMAQAQNRA--VM- 451
                 +   +Q  + ++          S    +    +    + +  ++       V+ 
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251

Query: 452 --CQASVLNPVNYQNQM----QNSNFTEQYA-----------RYMGFHPMQANSQPMNMF 494
               A   N  N   ++    +    T+  +             M   P +      ++ 
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV----KSLL 307

Query: 495 RFGSPTMQNQIVSLPSSSCVPFSGGAATDNSPLSGKM 531
                 +  +   LP               +P    +
Sbjct: 308 ---LKYLDCRPQDLPREVL---------TTNPRRLSI 332

>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB: 2ql2_A* Length = 76

 Score = 40.3 bits (94), Expect = 7e-05
 Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 8/65 (12%)

Query: 326 GSCRRSRAAEVHNLSERRRRDRINEKMRAL-QELIPHCNKTDKAS---MLDEAIEYLKSL 381
           G+ +R+     HN  ER+RR  INE  R L +    H       +   +L +A++ +  L
Sbjct: 2   GADKRA----HHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGL 57

Query: 382 QLQLQ 386
           + Q++
Sbjct: 58  EQQVR 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	532
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.63
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.59
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.58
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.55
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.55
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.54
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.48
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.47
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.45
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.41
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.35
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.12
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	99.07
4f3l_A	361	Mclock, circadian locomoter output cycles protein	99.06
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.96
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.7
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.63
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	98.06

>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A); basic-helix-loop- helix-leucine zipper, transcription factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1 PDB: 1ukl_C

Probab=99.63  E-value=3.1e-16  Score=131.47  Aligned_cols=59  Identities=32%  Similarity=0.466  Sum_probs=55.3

Q ss_pred             hhhhhcchhhHHHHHHHHHHHHHHHhhCCCC-CCCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          332 RAAEVHNLSERRRRDRINEKMRALQELIPHC-NKTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       332 r~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~-~K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      ..+..|+++||+||++||++|.+|+.|||++ .|+||++||++||+||++|+.+++.|+.
T Consensus         5 ~rr~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~   64 (82)
T 1am9_A            5 EKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQ   64 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999999999999999998 7999999999999999999999998854

>4h10_B Circadian locomoter output cycles protein kaput; BHLH, circadian transcription, transcription-DNA complex; 2.40A {Homo sapiens}

Probab=99.59  E-value=1.3e-15  Score=124.89  Aligned_cols=59  Identities=25%  Similarity=0.434  Sum_probs=53.5

Q ss_pred             chhhhhcchhhHHHHHHHHHHHHHHHhhCCCC-CCCchhhHHHHHHHHHHHHHHHHHHhh
Q 009564          331 SRAAEVHNLSERRRRDRINEKMRALQELIPHC-NKTDKASMLDEAIEYLKSLQLQLQMSQ  389 (532)
Q Consensus       331 ~r~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~-~K~dKasIL~~AI~YIk~Lq~qvq~Le  389 (532)
                      ...+.+|+++||+||++||++|.+|+.|||.+ .|+||++||++||+||+.||.++.=||
T Consensus         6 ~~kR~~Hn~iErrRRd~IN~~i~eL~~LvP~~~~K~dK~sIL~~aI~yik~Lq~~~~~~~   65 (71)
T 4h10_B            6 KAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKEITAWLE   65 (71)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSCCSCCCHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHhhhhhHHHhhHHHHHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHHHHHHhhhHHH
Confidence            34467899999999999999999999999975 599999999999999999999988554

>4ati_A MITF, microphthalmia-associated transcription factor; DNA-binding protein-DNA complex, melanoma; 2.60A {Mus musculus} PDB: 4atk_A

Probab=99.58  E-value=1.9e-15  Score=134.82  Aligned_cols=64  Identities=33%  Similarity=0.591  Sum_probs=51.8

Q ss_pred             ccchhhhhcchhhHHHHHHHHHHHHHHHhhCCCCC----CCchhhHHHHHHHHHHHHHHHHHHhhhhc
Q 009564          329 RRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQLQLQMSQVMW  392 (532)
Q Consensus       329 rr~r~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~----K~dKasIL~~AI~YIk~Lq~qvq~Le~~~  392 (532)
                      ++.+.+..|+++||+||++||++|.+|+.|||.|.    |++|++||++||+||++||.+++.|+...
T Consensus        23 k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~~~   90 (118)
T 4ati_A           23 KERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDLE   90 (118)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445668999999999999999999999999885    67899999999999999999999986543

>4h10_A ARYL hydrocarbon receptor nuclear translocator-LI 1; BHLH, circadian transcription, transcription-DNA complex; 2.40A {Homo sapiens}

Probab=99.55  E-value=1.2e-15  Score=125.60  Aligned_cols=56  Identities=38%  Similarity=0.607  Sum_probs=51.0

Q ss_pred             ccchhhhhcchhhHHHHHHHHHHHHHHHhhCCCC----CCCchhhHHHHHHHHHHHHHHH
Q 009564          329 RRSRAAEVHNLSERRRRDRINEKMRALQELIPHC----NKTDKASMLDEAIEYLKSLQLQ  384 (532)
Q Consensus       329 rr~r~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~----~K~dKasIL~~AI~YIk~Lq~q  384 (532)
                      +.++++++|+++||+||++||+.|.+|+.|||.|    .|+|||+||+.||+||+.|+..
T Consensus         5 k~~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~~   64 (73)
T 4h10_A            5 RIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA   64 (73)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhcC
Confidence            4556678999999999999999999999999987    6999999999999999999753

>1an4_A Protein (upstream stimulatory factor); protein-DNA complex, double helix, overhanging base, transcription/DNA complex; HET: DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1

Probab=99.55  E-value=8.4e-16  Score=123.04  Aligned_cols=53  Identities=34%  Similarity=0.567  Sum_probs=49.2

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCC------CCchhhHHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCN------KTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~------K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      +..|+.+||+||++||+.|.+|+.|||.|.      |++|++||++||+||++||++++
T Consensus         6 r~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~~~   64 (65)
T 1an4_A            6 RAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH   64 (65)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTTC
T ss_pred             HHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHHhc
Confidence            458999999999999999999999999886      78999999999999999998754

>1a0a_A BHLH, protein (phosphate system positive regulatory protein PHO4); transcription factor, basic helix loop helix; HET: DNA; 2.80A {Saccharomyces cerevisiae} SCOP: a.38.1.1

Probab=99.54  E-value=1.1e-15  Score=122.51  Aligned_cols=53  Identities=30%  Similarity=0.476  Sum_probs=48.2

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC-------CCCchhhHHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC-------NKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~-------~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      +.+|+++||+||++||+.|.+|+.|||.+       .|++||+||+.||+||+.||++++
T Consensus         3 r~~H~~aEr~RR~rIn~~~~~L~~LlP~~~~~~~~~~k~sKa~iL~~Ai~YIk~Lq~~~~   62 (63)
T 1a0a_A            3 RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS   62 (63)
T ss_dssp             TTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCSC
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHCCCcccccccCCcccHHHHHHHHHHHHHHHHHHhh
Confidence            45899999999999999999999999966       467799999999999999998764

>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA binding, complex (transcription factor MAX/DNA), transcription/DNA complex; HET: DNA; 2.80A {Homo sapiens} SCOP: a.38.1.1

Probab=99.48  E-value=3.2e-14  Score=118.44  Aligned_cols=58  Identities=31%  Similarity=0.552  Sum_probs=54.1

Q ss_pred             hhhhcchhhHHHHHHHHHHHHHHHhhCCCC--CCCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          333 AAEVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       333 ~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~--~K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      .+..|+.+||+||++||+.|..|+.+||.+  .|++|++||..||+||+.|+.+++.|+.
T Consensus        12 ~R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~L~~   71 (80)
T 1hlo_A           12 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ   71 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356899999999999999999999999987  5999999999999999999999998864

>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B

Probab=99.47  E-value=4e-14  Score=118.43  Aligned_cols=57  Identities=32%  Similarity=0.564  Sum_probs=52.8

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC--CCCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~--~K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      +..||.+||+||++||+.|..|+.+||.+  .|++|++||.+||+||+.|+.+++.|+.
T Consensus         3 R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~   61 (83)
T 1nkp_B            3 RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ   61 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45899999999999999999999999985  6999999999999999999999888753

>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1

Probab=99.45  E-value=8.1e-14  Score=118.38  Aligned_cols=56  Identities=32%  Similarity=0.475  Sum_probs=52.1

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHHHHHHhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQMSQ  389 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~qvq~Le  389 (532)
                      +..||..||+||++||++|..|+.+||.+   .|++|++||.+||+||++|+.+++.|+
T Consensus         7 R~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~   65 (88)
T 1nkp_A            7 RRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLI   65 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45899999999999999999999999976   599999999999999999999988764

>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB: 2ql2_A*

Probab=99.41  E-value=1.1e-13  Score=114.83  Aligned_cols=59  Identities=29%  Similarity=0.397  Sum_probs=50.8

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCC---CCCC-chhhHHHHHHHHHHHHHHHHHHhhhhc
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPH---CNKT-DKASMLDEAIEYLKSLQLQLQMSQVMW  392 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~---~~K~-dKasIL~~AI~YIk~Lq~qvq~Le~~~  392 (532)
                      +..||..||+||++||++|.+|+.+||.   ..|. +|+.||.+||+||++|++++++||...
T Consensus         6 R~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~~~   68 (76)
T 3u5v_A            6 RAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNLNP   68 (76)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCT
T ss_pred             HhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            3479999999999999999999999995   3465 799999999999999999999887544

>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ, transcription/DNA complex; 2.00A {Homo sapiens} SCOP: a.38.1.1

Probab=99.35  E-value=1.2e-12  Score=109.48  Aligned_cols=56  Identities=23%  Similarity=0.309  Sum_probs=51.7

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHHHHHHhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQMSQ  389 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~qvq~Le  389 (532)
                      +..||..||+||+.||++|..|+++||.+   .|.+|+.||.+||+||+.|+.+.+.|+
T Consensus         2 R~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~~l~   60 (80)
T 1nlw_A            2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAV   60 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34799999999999999999999999965   589999999999999999999998774

>1mdy_A Protein (MYOD BHLH domain); protein-DNA complex, transcription/DNA complex; HET: DNA; 2.80A {Mus musculus} SCOP: a.38.1.1 PDB: 1mdy_B*

Probab=99.12  E-value=4.3e-11  Score=97.29  Aligned_cols=53  Identities=28%  Similarity=0.481  Sum_probs=48.6

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC--CCCchhhHHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~--~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      +..||..||+|+..||+.|..|+.+||..  .|++|+.||..||+||++|++.++
T Consensus        13 R~~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~tLr~Ai~YI~~L~~~L~   67 (68)
T 1mdy_A           13 RKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hhHhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHc
Confidence            45799999999999999999999999965  589999999999999999998654

>2ql2_B Neurod1, neurogenic differentiation factor 1; basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}

Probab=99.07  E-value=1.4e-10  Score=92.00  Aligned_cols=52  Identities=27%  Similarity=0.355  Sum_probs=48.0

Q ss_pred             hhcchhhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHHHHH
Q 009564          335 EVHNLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       335 ~~Hn~~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      ..||..||+|+..||+.|..|+.+||..   .|++|+.||..||+||+.|++.++
T Consensus         4 ~~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   58 (60)
T 2ql2_B            4 MKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILR   58 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHh
Confidence            4699999999999999999999999965   489999999999999999998765

>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}

Probab=99.06  E-value=1.3e-10  Score=118.96  Aligned_cols=54  Identities=28%  Similarity=0.528  Sum_probs=43.6

Q ss_pred             hhhhcchhhHHHHHHHHHHHHHHHhhCC-CCCCCchhhHHHHHHHHHHHHHHHHH
Q 009564          333 AAEVHNLSERRRRDRINEKMRALQELIP-HCNKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       333 ~~~~Hn~~ERrRR~kINe~~~~Lr~LVP-~~~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      .+..|+++||+||++||+.|.+|++||| ...|+||++||+.||+|||.|+....
T Consensus        12 ~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~~~   66 (361)
T 4f3l_A           12 KRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKETTA   66 (361)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhhcc
Confidence            3457999999999999999999999999 55799999999999999999987543

>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}

Probab=98.96  E-value=3.9e-10  Score=116.93  Aligned_cols=55  Identities=35%  Similarity=0.515  Sum_probs=49.2

Q ss_pred             cchhhhhcchhhHHHHHHHHHHHHHHHhhCC----CCCCCchhhHHHHHHHHHHHHHHH
Q 009564          330 RSRAAEVHNLSERRRRDRINEKMRALQELIP----HCNKTDKASMLDEAIEYLKSLQLQ  384 (532)
Q Consensus       330 r~r~~~~Hn~~ERrRR~kINe~~~~Lr~LVP----~~~K~dKasIL~~AI~YIk~Lq~q  384 (532)
                      .+.++++|+.+||+||+|||+.|.+|+.|||    ...|+||++||+.||+|||.|+..
T Consensus        10 ~~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~~   68 (387)
T 4f3l_B           10 IKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA   68 (387)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHCC
T ss_pred             hhhhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhcc
Confidence            3455779999999999999999999999999    557999999999999999999843

>4ath_A MITF, microphthalmia-associated transcription factor; DNA binding protein, melanoma; HET: MSE; 1.95A {Mus musculus}

Probab=98.70  E-value=2e-08  Score=84.45  Aligned_cols=46  Identities=30%  Similarity=0.597  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHhhCCCCC----CCchhhHHHHHHHHHHHHHHHHHHhh
Q 009564          344 RRDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQLQLQMSQ  389 (532)
Q Consensus       344 RR~kINe~~~~Lr~LVP~~~----K~dKasIL~~AI~YIk~Lq~qvq~Le  389 (532)
                      -|++||++|.+|..|||.++    |.+|++||.+||+||++||++++.+.
T Consensus         3 ~R~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~r~~   52 (83)
T 4ath_A            3 MRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAK   52 (83)
T ss_dssp             CHHHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHHHHH
T ss_pred             chhhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHH
Confidence            38999999999999999874    68999999999999999999877663

>2lfh_A DNA-binding protein inhibitor ID-3; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=98.63  E-value=1.1e-08  Score=82.99  Aligned_cols=46  Identities=24%  Similarity=0.397  Sum_probs=42.1

Q ss_pred             chhhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHH
Q 009564          338 NLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQL  383 (532)
Q Consensus       338 n~~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~  383 (532)
                      +..||+|+..||+.|..||.+||..   .|++|..||..||+||..||.
T Consensus        19 ~erER~Rm~~lN~aF~~LR~~VP~~p~~kKLSKiEtLr~Ai~YI~~Lq~   67 (68)
T 2lfh_A           19 AEEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQV   67 (68)
T ss_dssp             BCCCSCSSSHHHHHHHHHHHHCCCCCTTCCCCHHHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHHHHHHHHCCCCCCCCCccHHHHHHHHHHHHHHHHc
Confidence            4668999999999999999999965   589999999999999999984

>4aya_A DNA-binding protein inhibitor ID-2; cell cycle; 2.10A {Homo sapiens}

Probab=98.06  E-value=6.2e-06  Score=71.21  Aligned_cols=47  Identities=28%  Similarity=0.456  Sum_probs=42.5

Q ss_pred             hhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHHHHH
Q 009564          340 SERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       340 ~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      .||.|=..||+.|..||.+||..   .|+.|..+|..||+||+.|++.++
T Consensus        32 ~~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~   81 (97)
T 4aya_A           32 DPMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALD   81 (97)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHh
Confidence            35778888999999999999965   489999999999999999999988

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	532
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	6e-16
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	5e-15
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	9e-15
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	9e-15
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	1e-14
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	2e-14
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	2e-14
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	3e-14

>d1nkpb_ a.38.1.1 (B:) Max protein {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Max protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 70.7 bits (173), Expect = 6e-16
 Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 2/55 (3%)

Query: 337 HNLSERRRRDRINEKMRALQELIPHCN--KTDKASMLDEAIEYLKSLQLQLQMSQ 389
           HN  ER+RRD I +   +L++ +P     K  +A +LD+A EY++ ++ +    Q
Sbjct: 6   HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQ 60

>d1an4a_ a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Usf B/HLH domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.5 bits (165), Expect = 5e-15
 Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 329 RRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN------KTDKASMLDEAIEYLKSLQ 382
            + RA   HN  ERRRRD+IN  +  L ++IP  +         K  +L +A +Y++ L+
Sbjct: 3   EKRRAQ--HNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60

Query: 383 LQLQ 386
               
Sbjct: 61  QSNH 64

>d1mdya_ a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 68

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Myod B/HLH domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 66.8 bits (163), Expect = 9e-15
 Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 5/69 (7%)

Query: 320 KTAQRSGSCRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN--KTDKASMLDEAIEY 377
           +  +++ +  R +A     + ERRR  ++NE    L+         +  K  +L  AI Y
Sbjct: 2   ELKRKTTNADRRKA---ATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRY 58

Query: 378 LKSLQLQLQ 386
           ++ LQ  L+
Sbjct: 59  IEGLQALLR 67

>d1a0aa_ a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 63

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Pho4 B/HLH domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 66.8 bits (163), Expect = 9e-15
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 7/59 (11%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIPHCN-------KTDKASMLDEAIEYLKSLQLQLQ 386
           E H  +E+ RR+R+   +  L  LIP             KA+ ++ A  Y++ LQ    
Sbjct: 4   ESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

>d1am9a_ a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: SREBP-1a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.9 bits (163), Expect = 1e-14
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 1/62 (1%)

Query: 329 RRSRAAEVHNLSERRRRDRINEKMRALQELIP-HCNKTDKASMLDEAIEYLKSLQLQLQM 387
            R      HN  E+R R  IN+K+  L++L+     K +K+++L +AI+Y++ LQ   Q 
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 388 SQ 389
            +
Sbjct: 62  LK 63

>d1nlwa_ a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Mad protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.5 bits (162), Expect = 2e-14
 Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 5/62 (8%)

Query: 331 SRAAEVHNLSERRRRDRINEKMRALQELIPHCN---KTDKASMLDEAIEYLKSLQLQLQM 387
           SR+   HN  E+ RR  +   +  L+ L+P      +    S+L +A  ++K L+   + 
Sbjct: 1   SRST--HNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRK 58

Query: 388 SQ 389
           + 
Sbjct: 59  AV 60

>d1nkpa_ a.38.1.1 (A:) Myc proto-oncogene protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Myc proto-oncogene protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.5 bits (162), Expect = 2e-14
 Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 3/56 (5%)

Query: 335 EVHNLSERRRRDRINEKMRALQELIPHCN---KTDKASMLDEAIEYLKSLQLQLQM 387
             HN+ ER+RR+ +     AL++ IP      K  K  +L +A  Y+ S+Q + Q 
Sbjct: 8   RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQK 63

>d1uklc_ a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 61

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: SREBP-2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.1 bits (159), Expect = 3e-14
 Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 345 RDRINEKMRALQELIPHCN-KTDKASMLDEAIEYLKSLQLQLQ 386
           R  IN+K+  L++L+   + K  K+ +L +AI+Y+K LQ    
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNH 43

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	532
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.5
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.48
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.46
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.43
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.41
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.4
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.29

>d1am9a_ a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: SREBP-1a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=5.7e-15  Score=120.92  Aligned_cols=58  Identities=33%  Similarity=0.478  Sum_probs=53.7

Q ss_pred             hhhhcchhhHHHHHHHHHHHHHHHhhCCCCC-CCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          333 AAEVHNLSERRRRDRINEKMRALQELIPHCN-KTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       333 ~~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~-K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      .+..|+.+||+||++||+.|..|++|||++. |++|++||.+||+||+.|+.+++.|+.
T Consensus         6 kR~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~   64 (80)
T d1am9a_           6 KRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQ   64 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3568999999999999999999999999875 899999999999999999999998854

>d1a0aa_ a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Pho4 B/HLH domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.50  E-value=6e-15  Score=115.87  Aligned_cols=52  Identities=31%  Similarity=0.503  Sum_probs=47.7

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCC-------CCCCchhhHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPH-------CNKTDKASMLDEAIEYLKSLQLQL  385 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~-------~~K~dKasIL~~AI~YIk~Lq~qv  385 (532)
                      +..|+.+||+||++||+.|.+|+.|||.       ..|++|+.||++||+||++||++|
T Consensus         3 R~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k~sKa~iL~~Av~yI~~Lq~~v   61 (63)
T d1a0aa_           3 RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             TTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCcccccHHHHHHHHHHHHHHHHHhh
Confidence            3479999999999999999999999994       358999999999999999999865

>d1mdya_ a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Myod B/HLH domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.48  E-value=1.1e-14  Score=116.14  Aligned_cols=53  Identities=28%  Similarity=0.471  Sum_probs=49.2

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCCC--CCchhhHHHHHHHHHHHHHHHHH
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHCN--KTDKASMLDEAIEYLKSLQLQLQ  386 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~--K~dKasIL~~AI~YIk~Lq~qvq  386 (532)
                      +..||..||+||++||+.|..|+.|||.+.  |++|++||..||+||++||+.|+
T Consensus        13 R~~hn~~Er~Rr~~in~~~~~L~~llP~~~~~k~sK~~iL~~Ai~YI~~Lq~~l~   67 (68)
T d1mdya_          13 RKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            457999999999999999999999999874  79999999999999999998765

>d1nlwa_ a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Mad protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=3.6e-14  Score=115.56  Aligned_cols=57  Identities=23%  Similarity=0.292  Sum_probs=52.3

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      +..||.+||+||++||+.|.+|+++||.+   .|++|++||.+||+||+.|+.+++.|+.
T Consensus         2 R~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~   61 (79)
T d1nlwa_           2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVH   61 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45899999999999999999999999976   3899999999999999999999998743

>d1nkpb_ a.38.1.1 (B:) Max protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Max protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=6.6e-14  Score=114.98  Aligned_cols=57  Identities=32%  Similarity=0.564  Sum_probs=52.7

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC--CCCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~--~K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      +..|+.+||+||++||+.|.+|++|||.+  .|++|++||..||+||+.|+.+++.|+.
T Consensus         3 R~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~   61 (83)
T d1nkpb_           3 RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ   61 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45899999999999999999999999965  5899999999999999999999998754

>d1nkpa_ a.38.1.1 (A:) Myc proto-oncogene protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Myc proto-oncogene protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=8.5e-14  Score=115.50  Aligned_cols=57  Identities=32%  Similarity=0.461  Sum_probs=52.4

Q ss_pred             hhhcchhhHHHHHHHHHHHHHHHhhCCCC---CCCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          334 AEVHNLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       334 ~~~Hn~~ERrRR~kINe~~~~Lr~LVP~~---~K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      +..||.+||+||++||+.|..|+++||++   .|++|++||..||+||+.|+.+++.|+.
T Consensus         7 R~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~   66 (88)
T d1nkpa_           7 RRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLIS   66 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45799999999999999999999999965   4799999999999999999999998743

>d1an4a_ a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Usf B/HLH domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=2.3e-14  Score=113.17  Aligned_cols=51  Identities=35%  Similarity=0.585  Sum_probs=47.2

Q ss_pred             hhcchhhHHHHHHHHHHHHHHHhhCCCCC------CCchhhHHHHHHHHHHHHHHHH
Q 009564          335 EVHNLSERRRRDRINEKMRALQELIPHCN------KTDKASMLDEAIEYLKSLQLQL  385 (532)
Q Consensus       335 ~~Hn~~ERrRR~kINe~~~~Lr~LVP~~~------K~dKasIL~~AI~YIk~Lq~qv  385 (532)
                      ..|+.+||+||++||+.|.+|+.|||.+.      |++|++||..||+||++||++.
T Consensus         7 ~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~~~   63 (65)
T d1an4a_           7 AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            47999999999999999999999999763      8999999999999999999764

>d1uklc_ a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: SREBP-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=5.9e-13  Score=103.81  Aligned_cols=46  Identities=33%  Similarity=0.476  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHhhCCCCC-CCchhhHHHHHHHHHHHHHHHHHHhhh
Q 009564          345 RDRINEKMRALQELIPHCN-KTDKASMLDEAIEYLKSLQLQLQMSQV  390 (532)
Q Consensus       345 R~kINe~~~~Lr~LVP~~~-K~dKasIL~~AI~YIk~Lq~qvq~Le~  390 (532)
                      |++||++|.+|++|||++. |+||++||.+||+||+.||.+++.|+.
T Consensus         1 R~~in~~f~~L~~lvP~~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L~~   47 (61)
T d1uklc_           1 RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQ   47 (61)
T ss_dssp             CCCHHHHHHHHHHHHSCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6899999999999999985 999999999999999999999998854