Citrus Sinensis ID: 022171

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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-
Protein Sequence
MRTTKGNREEEDYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLMPEASVAKV
Secondary Structure (PSIPRED)
ccccccccccccccHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccHHHHHHHHHHHHHHHHHHccccccccEEEEEEcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccHHHccHHHHHHHHHHHHHHHHHHHHccccccHHcHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccEEcccEEEEcHHHHHHHHHHHHHHHHHccccccccEEEEEEEcccccccccccccccccc
Coil and Loop (DISEMBL)
mrttkgnreeedyeddefmskKEAASnitnsnakdgknsdkasvirskhsvTEQRRRSKINERFQILREiiphsdqkrdTASFLLEVIEYVQYLQEKVQKYEVSYqdwsaeptklmpwrnshwrvqnfatqphaikngsgpgsmfpgkfddnsismsptmltstqtpvesdpnrdiackpmdrqpevankgisismplqgnlpaparsdsvllhplqrpvsdaqsnecpattdtmnqqeeltveggtiNISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLgkranrglmpeasvakv
Flexible Loop (DISEMBL)
mrttkgnreeedyeddefmskkeaasnitnsnakdgknsdkasvirskhsvteqrrrskineRFQIlreiiphsdqkrdTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTstqtpvesdpnrDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDlgkranrglmpeasvakv
Low Complexity Region (SEG)
MRTTKGNREEEDYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLMPEASVAKV
Disordered region (IsUnstruct)
***************************************************************FQILREIIPHS**KRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFA*****************************************************************************************************************VEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQID******************
Disordered Region (DISOPRED)
********************************************************RSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKV***************************************************************************************************************************************************************LL*NLTQALESAGIDLSQANISV*********************
Disordered Region (DISEMBL)
*******************SKKEAASNITNSN*************************SKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTML***********NRDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLM********
Disordered Region (DISPRO)
*****************************************************QRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDW*A*PTKL****************************************M*****************RDIAC******PEVANKGISISMP*****************************************EELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGK***************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRTTKGNREEEDYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLMPEASVAKV
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	301	2.2.26 [Sep-21-2011]
Q9CAA4	311	Transcription factor BIM2	yes	no	0.936	0.906	0.601	4e-97
Q9LEZ3	529	Transcription factor BIM1	no	no	0.870	0.495	0.371	4e-38
Q9FMB6	298	Transcription factor BIM3	no	no	0.747	0.755	0.392	2e-36
O80536	524	Transcription factor PIF3	no	no	0.345	0.198	0.318	1e-07
Q9SVU6	413	Transcription factor bHLH	no	no	0.295	0.215	0.336	2e-07
Q9FHA2	210	Transcription factor ALC	no	no	0.219	0.314	0.447	2e-07
Q9CAD0	596	Transcription factor EGL1	no	no	0.176	0.088	0.518	4e-07
Q9FN69	637	Transcription factor GLAB	no	no	0.176	0.083	0.518	4e-07
Q9LSQ3	297	Transcription factor bHLH	no	no	0.182	0.185	0.446	9e-07
Q9ZUG9	350	Transcription factor bHLH	no	no	0.202	0.174	0.403	1e-06

>sp|Q9CAA4|BIM2_ARATH Transcription factor BIM2 OS=Arabidopsis thaliana GN=BIM2 PE=1 SV=1

 Score =  354 bits (909), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 181/301 (60%), Positives = 222/301 (73%), Gaps = 19/301 (6%)

Query: 1   MRTTKGNREEEDYEDDEFMSKKEA-ASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
           MRT KGN+EEEDY +++F SK+E  +SN T  + +D K +DKAS IRSKHSVTEQRRRSK
Sbjct: 1   MRTGKGNQEEEDYGEEDFNSKREGPSSNTTVHSNRDSKENDKASAIRSKHSVTEQRRRSK 60

Query: 60  INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
           INERFQILRE+IP+S+QKRDTASFLLEVI+YVQYLQEKVQKYE SY  WS EPTKL PWR
Sbjct: 61  INERFQILRELIPNSEQKRDTASFLLEVIDYVQYLQEKVQKYEGSYPGWSQEPTKLTPWR 120

Query: 120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACK 179
           N+HWRVQ+    P AI NGSGPG  FPGKF+DN+++ +P ++   Q P+ESD  R I   
Sbjct: 121 NNHWRVQSLGNHPVAINNGSGPGIPFPGKFEDNTVTSTPAIIAEPQIPIESDKARAITGI 180

Query: 180 PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQE 239
            ++ QPE+ +KG+    PLQ  LP                V   Q+NECPAT+D + Q  
Sbjct: 181 SIESQPELDDKGLP---PLQPILPM---------------VQGEQANECPATSDGLGQSN 222

Query: 240 ELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLMPEASVA 299
           +L +EGGTI+ISS YS  LL++LTQAL++AGIDLSQA +SVQIDLGKRAN+GL  E   +
Sbjct: 223 DLVIEGGTISISSAYSHELLSSLTQALQNAGIDLSQAKLSVQIDLGKRANQGLTHEEPSS 282

Query: 300 K 300
           K
Sbjct: 283 K 283

Positive brassinosteroid-signaling protein.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LEZ3|BIM1_ARATH Transcription factor BIM1 OS=Arabidopsis thaliana GN=BIM1 PE=1 SV=2

 Score =  158 bits (400), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 111/299 (37%), Positives = 171/299 (57%), Gaps = 37/299 (12%)

Query: 1   MRTTKGNREEEDYEDDE-FMSKKEAASNI--------TNSNAKDGKNSDKASVIRSKHSV 51
           +R+ KG+ +E+D +D+E F+ KKE++S            ++ +   N  K +  RSKHS 
Sbjct: 224 IRSAKGSSQEDDLDDEEDFIMKKESSSTSQSHRVDLRVKADVRGSPNDQKLNTPRSKHSA 283

Query: 52  TEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAE 111
           TEQRRRSKIN+RFQ+LR++IP+SDQKRD ASFLLEVIEY+Q+LQEK  KY  SYQ W+ E
Sbjct: 284 TEQRRRSKINDRFQMLRQLIPNSDQKRDKASFLLEVIEYIQFLQEKADKYVTSYQGWNHE 343

Query: 112 PTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESD 171
           P KL+ W++++    N    P         G  F  K ++   ++  ++L + Q  V   
Sbjct: 344 PAKLLNWQSNN----NQQLVPE--------GVAFAPKLEEEKNNIPVSVLATAQGVVIDH 391

Query: 172 PNRDIACK-PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPA 230
           P        P+  Q        S   P+    P P              V+ +++ E   
Sbjct: 392 PTTATTSPFPLSIQSN------SFFSPVIAGNPVPQ---------FHARVASSEAVEPSP 436

Query: 231 TTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRAN 289
           ++ +  ++E+  V  G I ISS+YSQGL+  L +ALE++G+DL++A+ISV+I+L K+++
Sbjct: 437 SSRSQKEEEDEEVLEGNIRISSVYSQGLVKTLREALENSGVDLTKASISVEIELAKQSS 495

Positive brassinosteroid-signaling protein. Transcription factor that bind specifically to the DNA sequence 5'-CANNTG-3'(E box). Can bind individually to the promoter as a homodimer or synergistically as a heterodimer with BZR2/BES1. Does not itself activate transcription but enhances BZR2/BES1-mediated target gene activation.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMB6|BIM3_ARATH Transcription factor BIM3 OS=Arabidopsis thaliana GN=BIM3 PE=1 SV=1

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 101/257 (39%), Positives = 143/257 (55%), Gaps = 32/257 (12%)

Query: 45  IRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQKYE 102
            RSKHS TEQRRRSKINERFQ L +IIP +  DQKRD ASFLLEVIEY+ +LQEKV  YE
Sbjct: 34  CRSKHSETEQRRRSKINERFQSLMDIIPQNQNDQKRDKASFLLEVIEYIHFLQEKVHMYE 93

Query: 103 VSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLT 162
            S+Q W   PTKL+PWRNSH  V      P  +K+ S           ++ ++ S   L 
Sbjct: 94  DSHQMWYQSPTKLIPWRNSHGSVAEENDHPQIVKSFSS----------NDKVAASSGFLL 143

Query: 163 STQTPVESDPNRDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSD 222
            T   V  D +  ++ K  +  P  A   +S  +  + +L         + H   +P + 
Sbjct: 144 DTYNSVNPDIDSAVSTKIPEHSPVSA---VSSYLRTEPSL-------QFVQHDFWQPKTS 193

Query: 223 AQSNECPATTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQI 282
             +  C  T + +   E+ +      ++S++ SQ +LN LT+AL+S+G+++S+  ISVQ+
Sbjct: 194 CGTINC-FTNELLTSDEKTSA-----SLSTVCSQRVLNTLTEALKSSGVNMSETMISVQL 247

Query: 283 DLGKRANRGLMPEASVA 299
            L KR +R    E SVA
Sbjct: 248 SLRKREDR----EYSVA 260

Positive brassinosteroid-signaling protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 57.8 bits (138), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 36/113 (31%), Positives = 64/113 (56%), Gaps = 9/113 (7%)

Query: 11  EDYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREI 70
           ED E++    +KEA  + T   +K  ++++        H+++E+RRR +INE+ + L+E+
Sbjct: 317 EDVEEESGDGRKEAGPSRTGLGSKRSRSAEV-------HNLSERRRRDRINEKMRALQEL 369

Query: 71  IPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHW 123
           IP+ + K D AS L E IEY++ LQ +VQ   ++   +   P  + P    H+
Sbjct: 370 IPNCN-KVDKASMLDEAIEYLKSLQLQVQIMSMA-SGYYLPPAVMFPPGMGHY 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 = 57.0 bits (136), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 54/92 (58%), Gaps = 3/92 (3%)

Query: 16  DEFMSKKEAASNITNSNAKDGKNSDKASVIRSK--HSVTEQRRRSKINERFQILREIIPH 73
           DE   K    +N+ N   ++ ++S  +   R+   H ++E+RRR KINE  + L+E++P 
Sbjct: 247 DERKRKTREETNVENQGTEEARDSTSSKRSRAAIMHKLSERRRRQKINEMMKALQELLPR 306

Query: 74  SDQKRDTASFLLEVIEYVQYLQEKVQKYEVSY 105
              K D +S L +VIEYV+ LQ ++Q + + +
Sbjct: 307 CT-KTDRSSMLDDVIEYVKSLQSQIQMFSMGH 337

Arabidopsis thaliana (taxid: 3702)

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

 Score = 57.0 bits (136), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 30/67 (44%), Positives = 48/67 (71%), Gaps = 1/67 (1%)

Query: 37  KNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQE 96
           +NS K ++    H+++E++RRSKINE+ + L+++IP+S+ K D AS L E IEY++ LQ 
Sbjct: 86  RNSLKRNIDAQFHNLSEKKRRSKINEKMKALQKLIPNSN-KTDKASMLDEAIEYLKQLQL 144

Query: 97  KVQKYEV 103
           +VQ   V
Sbjct: 145 QVQTLAV 151

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)

>sp|Q9CAD0|EGL1_ARATH Transcription factor EGL1 OS=Arabidopsis thaliana GN=BHLH2 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 28/54 (51%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 49  HSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE 102
           H+++E++RR K+NERF  LR IIP S  K D  S L + IEY+Q LQ++VQ+ E
Sbjct: 406 HALSEKKRREKLNERFMTLRSIIP-SISKIDKVSILDDTIEYLQDLQKRVQELE 458

Transcription activator, when associated with MYB75/PAP1, MYB90/PAP2 or TT2. Involved in epidermal cell fate specification. Regulates negatively stomata formation but promotes trichome formation. Together with MYB66/WER, promotes the formation of non-hair cells in root epidermis cells in the N position. Whereas together with CPC, promotes the formation of hair cells in root epidermis cells in the H position by inhibiting non-hair cell formation. Seems also to play a role in the activation of anthocyanin biosynthesis, probably together with MYB75/PAP1. Involved in seed mucilage production. Activates the transcription of GL2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FN69|GL3_ARATH Transcription factor GLABRA 3 OS=Arabidopsis thaliana GN=GL3 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 28/54 (51%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 49  HSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE 102
           H+V E++RR K+NERF  LR+IIP S  K D  S L + IEY+Q L+ +VQ+ E
Sbjct: 442 HAVLEKKRREKLNERFMTLRKIIP-SINKIDKVSILDDTIEYLQELERRVQELE 494

Transcription activator, when associated with MYB75/PAP1, MYB90/PAP2 or TT2. Involved in epidermal cell fate specification. Regulates negatively stomata formation, but, in association with TTG1 and MYB0/GL1, promotes trichome formation, branching and endoreplication. Regulates also trichome cell wall maturation. Together with MYB66/WER, promotes the formation of non-hair cells in root epidermis cells in the N position. Whereas together with CPC, promotes the formation of hair cells in root epidermis cells in the H position by inhibiting non-hair cell formation. Seems also to play a role in the activation of anthocyanin biosynthesis, probably together with MYB75/PAP1. Activates the transcription of GL2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSQ3|BH082_ARATH Transcription factor bHLH82 OS=Arabidopsis thaliana GN=BHLH82 PE=2 SV=1

 Score = 54.7 bits (130), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 25/56 (44%), Positives = 41/56 (73%), Gaps = 1/56 (1%)

Query: 49  HSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVS 104
           HS+ E+ RR +I ER + L+E++P+++ K D AS L E+IEYV++LQ +V+   +S
Sbjct: 110 HSIAERLRRERIAERMKSLQELVPNTN-KTDKASMLDEIIEYVRFLQLQVKVLSMS 164

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUG9|BH066_ARATH Transcription factor bHLH66 OS=Arabidopsis thaliana GN=BHLH66 PE=2 SV=1

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 42/62 (67%), Gaps = 1/62 (1%)

Query: 49  HSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDW 108
           HS+ E+ RR +I ER + L+E++P+ + K D AS L E+I+YV++LQ +V+   +S    
Sbjct: 149 HSIAERLRRERIAERMKALQELVPNGN-KTDKASMLDEIIDYVKFLQLQVKVLSMSRLGG 207

Query: 109 SA 110
           +A
Sbjct: 208 AA 209

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	301
255547053	348	conserved hypothetical protein [Ricinus	0.887	0.767	0.711	1e-112
302398603	334	BHLH domain class transcription factor [	0.960	0.865	0.709	1e-112
359806380	336	uncharacterized protein LOC100816055 [Gl	0.970	0.869	0.686	1e-111
357488103	335	Transcription factor BIM2 [Medicago trun	0.960	0.862	0.697	1e-111
217074640	335	unknown [Medicago truncatula] gi|3884906	0.960	0.862	0.690	1e-109
359473634	328	PREDICTED: transcription factor BIM2-lik	0.980	0.899	0.67	1e-108
358249202	335	uncharacterized protein LOC100795416 [Gl	0.966	0.868	0.675	1e-106
357488105	326	Transcription factor BIM2 [Medicago trun	0.930	0.858	0.666	1e-102
224101635	296	predicted protein [Populus trichocarpa]	0.910	0.925	0.659	1e-100
224108629	322	predicted protein [Populus trichocarpa]	0.897	0.838	0.648	2e-99

>gi|255547053|ref|XP_002514584.1| conserved hypothetical protein [Ricinus communis] gi|223546188|gb|EEF47690.1| conserved hypothetical protein [Ricinus communis]

 Score =  411 bits (1056), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 197/277 (71%), Positives = 227/277 (81%), Gaps = 10/277 (3%)

Query: 34  KDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQY 93
           KDGKNSDKA+ IRSKHSVTEQRRRSKINERFQILR++IPHSDQKRDTASFLLEVIEYVQY
Sbjct: 41  KDGKNSDKANAIRSKHSVTEQRRRSKINERFQILRDLIPHSDQKRDTASFLLEVIEYVQY 100

Query: 94  LQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNS 153
           LQEKVQKYE SYQ WS+EPTKLMPWRNSHWRVQ+F   P  IKNGSGPGS  PGKFD+N+
Sbjct: 101 LQEKVQKYEGSYQGWSSEPTKLMPWRNSHWRVQSFIGHPQPIKNGSGPGSTIPGKFDENT 160

Query: 154 ISMSPTMLTSTQTPVESDPNRDIACKPMDRQPEVANKGI--------SISMPLQ--GNLP 203
           I+++PTMLT  Q  VESDP+RD+ CK MDR PEVANK +        +I +P+   G + 
Sbjct: 161 IAINPTMLTGAQNQVESDPSRDVTCKAMDRHPEVANKVLLHPVSLQTTIPIPVHSDGAIA 220

Query: 204 APARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSIYSQGLLNNLT 263
            P  SD  + HPLQ+PV+DAQS + P T+  +NQQEELT+EGGTI+ISS+YSQGLLNNLT
Sbjct: 221 HPVHSDGAIAHPLQQPVTDAQSADFPITSGALNQQEELTIEGGTISISSVYSQGLLNNLT 280

Query: 264 QALESAGIDLSQANISVQIDLGKRANRGLMPEASVAK 300
           ++L+SAG+DLS ANISVQIDLGKRANRGL    S  K
Sbjct: 281 RSLQSAGVDLSDANISVQIDLGKRANRGLASGTSTTK 317

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302398603|gb|ADL36596.1| BHLH domain class transcription factor [Malus x domestica]

 Score =  410 bits (1054), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 210/296 (70%), Positives = 249/296 (84%), Gaps = 7/296 (2%)

Query: 1   MRTT-KGNREEEDYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
           MRT  KGN+EE++Y+++EF S+KE  S  +NSN+KD KN+DKAS IRSKHSVTEQRRRSK
Sbjct: 1   MRTAAKGNQEEDEYDEEEFGSRKEGPS--SNSNSKDAKNNDKASAIRSKHSVTEQRRRSK 58

Query: 60  INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
           INERFQILR++IPHSDQKRDTASFLLEVIEYVQYLQEKV KYE SYQ WS EPTKLMPWR
Sbjct: 59  INERFQILRDLIPHSDQKRDTASFLLEVIEYVQYLQEKVHKYEGSYQGWSPEPTKLMPWR 118

Query: 120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLT-STQTPVESDPNRDIAC 178
           NSHWRVQ+F   P AIK+ + P   FPGKFD+++IS++P ML  ST  PVESDP+RD+A 
Sbjct: 119 NSHWRVQSFVGNPQAIKSDAAPMLPFPGKFDESNISINPNMLANSTPNPVESDPSRDVAS 178

Query: 179 KPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPAT--TDTMN 236
           K +DRQPE+ NKGI + MPL  N+  P RSD VL HPLQ  +SDAQS +CP T  +D ++
Sbjct: 179 KIVDRQPEIVNKGIPLPMPLP-NIAPPVRSDGVLAHPLQGQISDAQSTQCPTTSASDVLS 237

Query: 237 QQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGL 292
           QQEELT+EGGTI+ISS+YSQGLLN+L+QAL+SAG+DLSQA+ISVQIDLG RANRGL
Sbjct: 238 QQEELTIEGGTISISSVYSQGLLNSLSQALQSAGVDLSQASISVQIDLGNRANRGL 293

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806380|ref|NP_001241235.1| uncharacterized protein LOC100816055 [Glycine max] gi|255635096|gb|ACU17906.1| unknown [Glycine max]

 Score =  406 bits (1044), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 201/293 (68%), Positives = 243/293 (82%), Gaps = 1/293 (0%)

Query: 1   MRTTKGNREEEDYEDDEF-MSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
           MR  KG++EE++YE++EF  SKK+  S+  N+N  DGK  DKAS IRSKHSVTEQRRRSK
Sbjct: 1   MRAGKGSQEEDEYEEEEFGSSKKQGTSSAPNTNKADGKAIDKASAIRSKHSVTEQRRRSK 60

Query: 60  INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
           INERFQILR++IPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE SYQ W  EP+KLMPWR
Sbjct: 61  INERFQILRDLIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEGSYQGWGQEPSKLMPWR 120

Query: 120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACK 179
           NSHWRVQ+FA QP A+KNG GP S FPGKFD++++S+SPTML  +Q  ++ D +RDI  K
Sbjct: 121 NSHWRVQSFAGQPTAVKNGLGPVSPFPGKFDESNVSISPTMLNGSQNTIDPDQSRDIVNK 180

Query: 180 PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQE 239
             +RQP++ +KGI + + +  N+  P RSD VL HPLQ  VS+AQS ECP T++  NQQ+
Sbjct: 181 TAERQPDLVSKGIPLPLAMHANMSVPVRSDGVLAHPLQGTVSNAQSTECPTTSEPQNQQD 240

Query: 240 ELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGL 292
           EL+VEGGTI+ISS YSQGLLNNLTQAL+SAG+DLSQA+ISVQI+LGKRAN+GL
Sbjct: 241 ELSVEGGTISISSAYSQGLLNNLTQALQSAGLDLSQASISVQINLGKRANKGL 293

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357488103|ref|XP_003614339.1| Transcription factor BIM2 [Medicago truncatula] gi|355515674|gb|AES97297.1| Transcription factor BIM2 [Medicago truncatula]

 Score =  406 bits (1044), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 203/291 (69%), Positives = 242/291 (83%), Gaps = 2/291 (0%)

Query: 1   MRTTKGNREEEDYEDDEFMS-KKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
           M+  K N EE++Y+DDEF S KK+A S++ N+N KDGK +DKASVIRSKHSVTEQRRRSK
Sbjct: 1   MKAGKVNHEEDEYDDDEFNSNKKQATSSVPNTN-KDGKATDKASVIRSKHSVTEQRRRSK 59

Query: 60  INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
           INERFQILR++IP  DQKRDTASFLLEVIEYVQYLQE+VQKYE SYQ WS EP+KLMPWR
Sbjct: 60  INERFQILRDLIPQCDQKRDTASFLLEVIEYVQYLQERVQKYEGSYQGWSQEPSKLMPWR 119

Query: 120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACK 179
           NSHWR QNF  QP  +KNGSGP   FPGKFD+NS+ +SPTML+ +   ++ DP RDI  K
Sbjct: 120 NSHWRAQNFVGQPPIVKNGSGPVLPFPGKFDENSVGISPTMLSGSHNMIDHDPTRDIVGK 179

Query: 180 PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQE 239
             +RQP++A+KGI + M +  N+  P RSD VL HPLQ  VSDAQS ECP T++ +NQQ+
Sbjct: 180 TAERQPDLASKGIPLPMAMHANMSVPVRSDGVLSHPLQGTVSDAQSTECPTTSEQLNQQD 239

Query: 240 ELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANR 290
           +LTVEGGTI+ISS+YSQGLLNNLTQAL+SAG+DLS+ANISVQIDLGKRAN+
Sbjct: 240 DLTVEGGTISISSVYSQGLLNNLTQALQSAGLDLSKANISVQIDLGKRANK 290

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217074640|gb|ACJ85680.1| unknown [Medicago truncatula] gi|388490634|gb|AFK33383.1| unknown [Medicago truncatula]

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 201/291 (69%), Positives = 241/291 (82%), Gaps = 2/291 (0%)

Query: 1   MRTTKGNREEEDYEDDEFMS-KKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
           M+  K N EE++Y+DDEF S KK+A S++ N++ KDGK +DKASVIRSKHSVTEQRRRSK
Sbjct: 1   MKAGKVNHEEDEYDDDEFNSNKKQATSSVPNTD-KDGKATDKASVIRSKHSVTEQRRRSK 59

Query: 60  INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
           INERFQILR++IP  DQKRDTASFLLEVIEYVQYLQE+VQKYE SYQ WS EP+KLMPWR
Sbjct: 60  INERFQILRDLIPQCDQKRDTASFLLEVIEYVQYLQERVQKYEGSYQGWSQEPSKLMPWR 119

Query: 120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACK 179
           NSHWR QNF  QP  +KNGSGP   FPGKFD+NS+ +SPTML+ +   ++ DP RDI  K
Sbjct: 120 NSHWRAQNFVGQPPIVKNGSGPVLPFPGKFDENSVGISPTMLSGSHNMMDHDPTRDIVGK 179

Query: 180 PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQE 239
             +RQP++A+KGI + M +  N+  P RSD VL H LQ  VSDAQS ECP T++ +NQQ+
Sbjct: 180 TAERQPDLASKGIPLPMAMHANMSVPVRSDGVLSHSLQGTVSDAQSTECPTTSEQLNQQD 239

Query: 240 ELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANR 290
           +LTVEGGTI+ISS+YSQGLLNNLTQAL+SAG+DLS+ANISVQIDLGKRAN+
Sbjct: 240 DLTVEGGTISISSVYSQGLLNNLTQALQSAGLDLSKANISVQIDLGKRANK 290

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473634|ref|XP_002266685.2| PREDICTED: transcription factor BIM2-like [Vitis vinifera] gi|297738196|emb|CBI27397.3| unnamed protein product [Vitis vinifera]

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 201/300 (67%), Positives = 240/300 (80%), Gaps = 5/300 (1%)

Query: 1   MRTTKGNREEEDYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKI 60
           M+  KG+REEE+ E++E +S K+          KDGKN DKA+ +RSKHSVTEQRRRSKI
Sbjct: 1   MKQDKGHREEEEEEEEEELSMKKEGP----LTKKDGKNHDKANAMRSKHSVTEQRRRSKI 56

Query: 61  NERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRN 120
           NERFQILR++IPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE SYQ  + EPTKLMPWRN
Sbjct: 57  NERFQILRDLIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEGSYQGLTPEPTKLMPWRN 116

Query: 121 SHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACKP 180
           SHWRVQ+F   P AI NGSGPGS F GKFD+N+I+++ TML   Q PVESD +RD  CK 
Sbjct: 117 SHWRVQSFVGHPQAINNGSGPGSAFSGKFDENNINITSTMLVKAQNPVESDLSRDATCKA 176

Query: 181 MDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEE 240
           MD Q E  NK I + + LQ N+ AP +S+  L+HPLQ PVSDAQS +CP T++T++++EE
Sbjct: 177 MDHQSEF-NKAIVMPISLQSNMSAPVQSEGGLVHPLQGPVSDAQSADCPITSETLSKKEE 235

Query: 241 LTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLMPEASVAK 300
           L +EGGTI+ISS YSQGLLN LTQAL+S+G+DLSQA+ISVQIDLGKRANRGL    S+AK
Sbjct: 236 LMIEGGTISISSAYSQGLLNTLTQALQSSGVDLSQASISVQIDLGKRANRGLPSGTSIAK 295

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358249202|ref|NP_001239754.1| uncharacterized protein LOC100795416 [Glycine max] gi|255635070|gb|ACU17893.1| unknown [Glycine max]

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 198/293 (67%), Positives = 237/293 (80%), Gaps = 2/293 (0%)

Query: 1   MRTTKGNREEEDYEDDEF-MSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
           MR  KG++EE++YE++EF  SKK+  S+  N+N KDGK  DKAS IRSKHSVTEQRRRSK
Sbjct: 1   MRAGKGSQEEDEYEEEEFGSSKKQGTSSAPNAN-KDGKAIDKASAIRSKHSVTEQRRRSK 59

Query: 60  INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
           INERFQILR++IPHSDQKRDTASFLLEV+EYVQYLQEKVQKYE SYQ W  EP KLMPWR
Sbjct: 60  INERFQILRDLIPHSDQKRDTASFLLEVMEYVQYLQEKVQKYEGSYQGWGQEPLKLMPWR 119

Query: 120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACK 179
           NSHWRVQ+FA QP A+KNG GP S FP KFD+++ S+SPTML+ TQ  ++   +RDI  K
Sbjct: 120 NSHWRVQSFAGQPTAVKNGLGPVSPFPVKFDESNASISPTMLSGTQNTIDPYQSRDIVNK 179

Query: 180 PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQE 239
             +RQP++ NKG+ + + +  N+  P RSD VL HPL   VSD QS ECP T++  NQQ+
Sbjct: 180 TAERQPDLVNKGMPLPLAMHANMSVPVRSDGVLAHPLHGTVSDPQSTECPTTSEPQNQQD 239

Query: 240 ELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGL 292
           E TVEGGTI+ISS YSQGLLNNLTQAL+SAG+DLSQA+ISVQI+LGKR N+GL
Sbjct: 240 EFTVEGGTISISSAYSQGLLNNLTQALQSAGLDLSQASISVQINLGKRGNKGL 292

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357488105|ref|XP_003614340.1| Transcription factor BIM2 [Medicago truncatula] gi|355515675|gb|AES97298.1| Transcription factor BIM2 [Medicago truncatula]

 Score =  379 bits (972), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 194/291 (66%), Positives = 233/291 (80%), Gaps = 11/291 (3%)

Query: 1   MRTTKGNREEEDYEDDEFMS-KKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
           M+  K N EE++Y+DDEF S KK+A S++ N+N KDGK +DKASVIRSKHSVTEQRRRSK
Sbjct: 1   MKAGKVNHEEDEYDDDEFNSNKKQATSSVPNTN-KDGKATDKASVIRSKHSVTEQRRRSK 59

Query: 60  INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
           INERFQILR++IP  DQKRDTASFLLE         E+VQKYE SYQ WS EP+KLMPWR
Sbjct: 60  INERFQILRDLIPQCDQKRDTASFLLE---------ERVQKYEGSYQGWSQEPSKLMPWR 110

Query: 120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACK 179
           NSHWR QNF  QP  +KNGSGP   FPGKFD+NS+ +SPTML+ +   ++ DP RDI  K
Sbjct: 111 NSHWRAQNFVGQPPIVKNGSGPVLPFPGKFDENSVGISPTMLSGSHNMIDHDPTRDIVGK 170

Query: 180 PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQE 239
             +RQP++A+KGI + M +  N+  P RSD VL HPLQ  VSDAQS ECP T++ +NQQ+
Sbjct: 171 TAERQPDLASKGIPLPMAMHANMSVPVRSDGVLSHPLQGTVSDAQSTECPTTSEQLNQQD 230

Query: 240 ELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANR 290
           +LTVEGGTI+ISS+YSQGLLNNLTQAL+SAG+DLS+ANISVQIDLGKRAN+
Sbjct: 231 DLTVEGGTISISSVYSQGLLNNLTQALQSAGLDLSKANISVQIDLGKRANK 281

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224101635|ref|XP_002312362.1| predicted protein [Populus trichocarpa] gi|222852182|gb|EEE89729.1| predicted protein [Populus trichocarpa]

 Score =  372 bits (954), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 190/288 (65%), Positives = 224/288 (77%), Gaps = 14/288 (4%)

Query: 18  FMSKKEAASN---ITNSNA-KDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPH 73
           F S+K+  S+   + N+N+ KDGKNSD+A+ IRSKHSVTEQRRRSKINERFQILR++IPH
Sbjct: 19  FGSRKDGPSSSFTVNNNNSSKDGKNSDRANAIRSKHSVTEQRRRSKINERFQILRDLIPH 78

Query: 74  SDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPH 133
           SDQKRDTASFLLEVIEYVQ+LQEKVQKYE  YQ WS EP KLMPWRNSHWR+Q+    P 
Sbjct: 79  SDQKRDTASFLLEVIEYVQHLQEKVQKYEGPYQGWSPEPAKLMPWRNSHWRLQSSVGHPQ 138

Query: 134 AIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACKPMDRQPEVANKGIS 193
           AIKNG  PG  FPGK D+N+I+++P ML ST   VESD    +ACK ++ QPE+ NK   
Sbjct: 139 AIKNGYVPGETFPGKLDENNIALTPAMLPSTPNLVESD---HVACKVLEHQPELGNK--- 192

Query: 194 ISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSI 253
            +MPL    PAP RS  ++ HP Q PVSDAQS ECP T++ +NQQ EL +E GTINISS+
Sbjct: 193 -AMPLP--TPAPIRSVGLVAHPCQLPVSDAQSAECPITSEMLNQQ-ELAIEAGTINISSV 248

Query: 254 YSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLMPEASVAKV 301
           YSQ LLN LTQ+L+SAG+DLSQANISVQIDLGKRANRGL      +KV
Sbjct: 249 YSQELLNTLTQSLQSAGVDLSQANISVQIDLGKRANRGLTSGTLTSKV 296

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108629|ref|XP_002314914.1| predicted protein [Populus trichocarpa] gi|222863954|gb|EEF01085.1| predicted protein [Populus trichocarpa]

 Score =  368 bits (944), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 186/287 (64%), Positives = 226/287 (78%), Gaps = 17/287 (5%)

Query: 18  FMSKKEAASN---ITNSNA-KDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPH 73
           F S+K+  S+   I N+N+ KDGK+SDKA+ IRSKHSVTEQ+RRSKINERFQILR++IPH
Sbjct: 19  FGSRKDGPSSNFTIDNTNSCKDGKHSDKANAIRSKHSVTEQKRRSKINERFQILRDLIPH 78

Query: 74  SDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPH 133
           SDQKRDTASFLLEVIEYVQYLQEKVQKYE  Y  WS EP KLMPWRNSHWR+Q+F   P 
Sbjct: 79  SDQKRDTASFLLEVIEYVQYLQEKVQKYEGPYPGWSPEPAKLMPWRNSHWRLQSFVGHPQ 138

Query: 134 AIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACKPMDRQPEVANKGIS 193
           A KNGSG G+ FPGK D+N+I+++P ML ST   +ESD    + CK ++ QPE+AN    
Sbjct: 139 ATKNGSGLGAAFPGKLDENNITLTPAMLPSTPNLIESD---HVTCKVLEHQPELAN---- 191

Query: 194 ISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPATTDTMNQQEELTVEGGTINISSI 253
            ++P    +PAPARSD ++  PL++PVSDAQS ECP T++ +NQQ EL +E GTI+ISS+
Sbjct: 192 -ALP----MPAPARSDGLVAPPLEQPVSDAQSAECPITSEMLNQQ-ELAIEAGTISISSV 245

Query: 254 YSQGLLNNLTQALESAGIDLSQANISVQIDLGKRANRGLMPEASVAK 300
           YSQ LLN LTQAL+SA +DLSQANISVQIDLGKRAN+GL    S +K
Sbjct: 246 YSQELLNTLTQALQSASVDLSQANISVQIDLGKRANKGLASGTSTSK 292

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	301
TAIR|locus:2205455	311	BIM2 "AT1G69010" [Arabidopsis	0.890	0.861	0.526	7.4e-66
UNIPROTKB|Q69JI7	504	OSJNBa0026C08.39-1 "BHLH prote	0.843	0.503	0.407	3.3e-47
UNIPROTKB|Q6ZBQ2	508	P0605H02.26 "BHLH protein fami	0.870	0.515	0.423	8.8e-47
TAIR|locus:2152262	298	BIM3 "AT5G38860" [Arabidopsis	0.514	0.520	0.460	5.7e-38
UNIPROTKB|Q6Z339	344	B1121A12.20 "Os02g0726700 prot	0.654	0.572	0.358	5.8e-27
TAIR|locus:2155503	210	ALC "AT5G67110" [Arabidopsis t	0.421	0.604	0.335	5.9e-09
TAIR|locus:2090847	494	ICE1 "AT3G26744" [Arabidopsis	0.342	0.208	0.3	2.3e-08
UNIPROTKB|Q5NAE0	565	P0498A12.33 "Putative BP-5 pro	0.365	0.194	0.376	5.8e-08
TAIR|locus:2053733	430	PIF4 "AT2G43010" [Arabidopsis	0.302	0.211	0.381	1.1e-07
TAIR|locus:2117773	413	AT4G28790 [Arabidopsis thalian	0.295	0.215	0.336	2.8e-07

TAIR|locus:2205455 BIM2 "AT1G69010" [Arabidopsis thaliana (taxid:3702)]

 Score = 670 (240.9 bits), Expect = 7.4e-66, P = 7.4e-66
 Identities = 148/281 (52%), Positives = 190/281 (67%)

Query:     1 MRTTKGNREEEDYEDDEFMSKKEA-ASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSK 59
             MRT KGN+EEEDY +++F SK+E  +SN T  + +D K +DKAS IRSKHSVTEQRRRSK
Sbjct:     1 MRTGKGNQEEEDYGEEDFNSKREGPSSNTTVHSNRDSKENDKASAIRSKHSVTEQRRRSK 60

Query:    60 INERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWR 119
             INERFQILRE+IP+S+QKRDTASFLLEVI+YVQYLQEKVQKYE SY  WS EPTKL PWR
Sbjct:    61 INERFQILRELIPNSEQKRDTASFLLEVIDYVQYLQEKVQKYEGSYPGWSQEPTKLTPWR 120

Query:   120 NSHWRVQNFATQPHAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESDPNRDIACK 179
             N+HWRVQ+    P AI NGSGPG  FPGKF+DN+++ +P ++   Q P+ESD  R I   
Sbjct:   121 NNHWRVQSLGNHPVAINNGSGPGIPFPGKFEDNTVTSTPAIIAEPQIPIESDKARAITGI 180

Query:   180 PMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDA--QSNECPATTDTMNQ 237
              ++ QPE+ +KG+    PLQ  LP   + +     P     SD   QSN+      T++ 
Sbjct:   181 SIESQPELDDKGLP---PLQPILPM-VQGEQANECPA---TSDGLGQSNDLVIEGGTISI 233

Query:   238 QEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQ-AN 277
                 + E  +    ++ + G+  +L+QA  S  IDL + AN
Sbjct:   234 SSAYSHELLSSLTQALQNAGI--DLSQAKLSVQIDLGKRAN 272

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

UNIPROTKB|Q69JI7 OSJNBa0026C08.39-1 "BHLH protein family-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 494 (179.0 bits), Expect = 3.3e-47, P = 3.3e-47
 Identities = 121/297 (40%), Positives = 172/297 (57%)

Query:    14 EDDEFMSKKEAASNITNSNAK-DGKNSD--------KASVIRSKHSVTEQRRRSKINERF 64
             +DD   +++E +S++     + DGK           + S  RSKHS TEQRRRSKIN+RF
Sbjct:   178 DDDGVAARREVSSSLKELTVRVDGKGGSCSGSGTDQRPSSPRSKHSATEQRRRSKINDRF 237

Query:    65 QILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRN---- 120
             QILRE++PHSDQKRD A+FLLEVIEY+++LQEKVQK+E S  +W+ E  K++PW N    
Sbjct:   238 QILRELLPHSDQKRDKATFLLEVIEYIRFLQEKVQKFEASVPEWNQENAKILPWSNIYFR 297

Query:   121 SHWR-VQNFATQP--------HAIKNGSGPGSMFPGKFDDNSISMSPTMLTSTQTPVESD 171
             S W+  Q+    P          I+NGS  G  F GK DDN   ++    +  Q  VE+D
Sbjct:   298 SFWKNSQSKGQNPGDDLPDPSQFIRNGSSSGYNFTGKPDDNHNMVTSAAASGAQELVETD 357

Query:   172 PNRDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNECPAT 231
                 ++ +  +    + N   +++   Q    +PA  D                 +C   
Sbjct:   358 HAASVSYRSAETPTNITN---NVTSQAQAQWASPAGVD-----------------DCAMN 397

Query:   232 TDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRA 288
             ++ +N Q+ L ++ GTI++SS YSQ LL  LT ALES+G+DLSQ++ISVQI+LGKRA
Sbjct:   398 SEMLNNQQ-LAIDEGTISLSSQYSQQLLGTLTHALESSGVDLSQSSISVQINLGKRA 453

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q6ZBQ2 P0605H02.26 "BHLH protein family-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 490 (177.5 bits), Expect = 8.8e-47, P = 8.8e-47
 Identities = 131/309 (42%), Positives = 183/309 (59%)

Query:    14 EDDEFMSKKEAASNITNSNAK-DGKN---SDKA------SVIRSKHSVTEQRRRSKINER 63
             +DD   +++E +S++     + +GK    S  A      +  RSKHS TEQRRRSKIN+R
Sbjct:   181 DDDGHAARREVSSSLKELTVRVEGKGGSCSGSAGTDQMPNTPRSKHSATEQRRRSKINDR 240

Query:    64 FQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRN--- 120
             FQ+LR+++PH+DQKRD ASFLLEVIEY+++LQEKVQKYEVSY +W+ E  K++PW N   
Sbjct:   241 FQLLRDLLPHNDQKRDKASFLLEVIEYIRFLQEKVQKYEVSYPEWNQENAKVVPWTNIYF 300

Query:   121 -SHWR-VQNFATQP--HA------IKNGSGPGSMFP--GKFDDNSISMSPTMLTSTQTPV 168
              S W+  QN    P  H+      +KNGS P  MFP  G  D+N+ ++     +  Q   
Sbjct:   301 RSSWKNAQNKGQVPADHSPDPPELLKNGS-P-YMFPFTGNSDNNN-AVETAAASGAQDQA 357

Query:   169 ESDPNRDIACKPMDRQPEVANKGISISMPLQGNLPAPARSDSVLLHPLQRPVSDAQSNEC 228
             E+DP        M R   V+ +  S+  P   N+     +D V   P  + V  + +   
Sbjct:   358 ETDP--------MSR---VSYR--SVDTPSPNNV-----ADKVTSQPHAQLVRPSPAENH 399

Query:   229 PATTDTMNQQEELTVEGGTINISSIYSQGLLNNLTQALESAGIDLSQANISVQIDLGKRA 288
                 D +N  + L ++ GTI++SS YSQ LLN L  ALE++GIDLSQA+ISVQI+LGKRA
Sbjct:   400 TVNCDKLNNSD-LAIDEGTISLSSQYSQELLNKLNHALENSGIDLSQASISVQINLGKRA 458

Query:   289 NRGLMPEAS 297
              +   P A+
Sbjct:   459 MKRSTPAAT 467

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2152262 BIM3 "AT5G38860" [Arabidopsis thaliana (taxid:3702)]

 Score = 313 (115.2 bits), Expect = 5.7e-38, Sum P(2) = 5.7e-38
 Identities = 75/163 (46%), Positives = 97/163 (59%)

Query:    15 DDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHS 74
             DD+   + +  SN+ + N       ++ S  RSKHS TEQRRRSKINERFQ L +IIP +
Sbjct:     7 DDQL--EADVYSNLPSRNDSSTGRRNRNSC-RSKHSETEQRRRSKINERFQSLMDIIPQN 63

Query:    75 --DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQP 132
               DQKRD ASFLLEVIEY+ +LQEKV  YE S+Q W   PTKL+PWRNSH  V      P
Sbjct:    64 QNDQKRDKASFLLEVIEYIHFLQEKVHMYEDSHQMWYQSPTKLIPWRNSHGSVAEENDHP 123

Query:   133 HAIKNGSGPGSMFP--GKFDDNSISMSPTMLTSTQTPV-ESDP 172
               +K+ S    +    G   D   S++P + ++  T + E  P
Sbjct:   124 QIVKSFSSNDKVAASSGFLLDTYNSVNPDIDSAVSTKIPEHSP 166

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|Q6Z339 B1121A12.20 "Os02g0726700 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 273 (101.2 bits), Expect = 5.8e-27, Sum P(2) = 5.8e-27
 Identities = 76/212 (35%), Positives = 111/212 (52%)

Query:    29 TNSNAKDGKNS-DKA-SVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLE 86
             T +  +   +S D+  S  RSKHS TEQRRR+KIN+R +ILRE++PH+DQKRD ASFL E
Sbjct:   128 TRAEGRSSASSADQGPSTPRSKHSATEQRRRTKINDRLEILRELLPHTDQKRDKASFLSE 187

Query:    87 VIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRN----SHWRVQNFATQPHAIKNGSGPG 142
             VIEY+++LQEKVQKYE +  + + E +K MPW      S WR     +Q           
Sbjct:   188 VIEYIRFLQEKVQKYEEADPERNHEDSKSMPWAKVYYRSCWRNTKNTSQVQGEDLSPSTQ 247

Query:   143 SMFPGKFDDNSISMSPTMLTSTQ--TPVESDPNRDIACKP--MDRQPEVANKG--ISISM 196
              M   ++    IS +   L +TQ  T   +  +      P  +++    +N+   +S+S 
Sbjct:   248 DMNNEQYGPKHISAAQPALFNTQSVTSTTTSSSHMATGTPQNLEKNSTPSNQPPWLSMST 307

Query:   197 PLQGNLPA---PARSDSVLLHPLQRPVSDAQS 225
               Q + P    P + +   LH     +S A S
Sbjct:   308 MRQESEPGNKMPNKHEKQTLHDENHSISSAYS 339

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2155503 ALC "AT5G67110" [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 5.9e-09, P = 5.9e-09
 Identities = 45/134 (33%), Positives = 73/134 (54%)

Query:    31 SNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEY 90
             S AK  +NS K ++    H+++E++RRSKINE+ + L+++IP+S+ K D AS L E IEY
Sbjct:    81 SGAKQ-RNSLKRNIDAQFHNLSEKKRRSKINEKMKALQKLIPNSN-KTDKASMLDEAIEY 138

Query:    91 VQYLQEKVQKYEVSYQDWSAEPTKL--MPWRNSHWRVQNFATQPHAIKNG-SGPGSMFPG 147
             ++ LQ +VQ   V        P +L  +P   +H R+     Q   ++   + P S+ P 
Sbjct:   139 LKQLQLQVQTLAVM-NGLGLNPMRLPQVP-PPTHTRINETLEQDLNLETLLAAPHSLEPA 196

Query:   148 KFDDNSISMSPTML 161
             K        + T+L
Sbjct:   197 KTSQGMCFSTATLL 210

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM;ISS;IDA

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

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

GO:0010047 "fruit dehiscence" evidence=IMP

TAIR|locus:2090847 ICE1 "AT3G26744" [Arabidopsis thaliana (taxid:3702)]

 Score = 123 (48.4 bits), Expect = 2.3e-08, Sum P(2) = 2.3e-08
 Identities = 33/110 (30%), Positives = 56/110 (50%)

Query:    12 DYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREII 71
             +YE DE     +AA ++       GK   K   + +K+ + E+RRR K+N+R  +LR ++
Sbjct:   275 NYESDEINESGKAAESVQIGGG--GKGKKKG--MPAKNLMAERRRRKKLNDRLYMLRSVV 330

Query:    72 PHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPWRNS 121
             P    K D AS L + I+Y++ L +++       +  S  P  L P  +S
Sbjct:   331 PKIS-KMDRASILGDAIDYLKELLQRINDLHNELE--STPPGSLPPTSSS 377

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0009409 "response to cold" evidence=IEP

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

GO:0050826 "response to freezing" evidence=RCA;IMP

GO:0010440 "stomatal lineage progression" evidence=IMP

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

GO:0009410 "response to xenobiotic stimulus" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0009933 "meristem structural organization" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010182 "sugar mediated signaling pathway" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

GO:0016567 "protein ubiquitination" evidence=RCA

GO:0016571 "histone methylation" evidence=RCA

GO:0016579 "protein deubiquitination" evidence=RCA

GO:0019915 "lipid storage" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0048522 "positive regulation of cellular process" evidence=RCA

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

 Score = 152 (58.6 bits), Expect = 5.8e-08, P = 5.8e-08
 Identities = 44/117 (37%), Positives = 63/117 (53%)

Query:    34 KDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQY 93
             K G  S K S     H+++E+RRR +INE+ + L+E+IP+ + K D AS L E IEY++ 
Sbjct:   302 KSGTRSTKRSRTAEVHNLSERRRRDRINEKMRALQELIPNCN-KIDKASMLDEAIEYLKT 360

Query:    94 LQEKVQKYEVSYQDWSAEPTKLMPWRNSHWRVQNFATQPHAIKNGSGPGSMFPGKFD 150
             LQ +VQ   +S       P  L+P    H ++   A  PH +  G G G    G FD
Sbjct:   361 LQLQVQM--MSMGTGLCIPPMLLPTAMQHLQIPPMAHFPH-LGMGLGYGM---GVFD 411

GO:0005634 "nucleus" evidence=IC

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

 Score = 148 (57.2 bits), Expect = 1.1e-07, P = 1.1e-07
 Identities = 37/97 (38%), Positives = 58/97 (59%)

Query:     3 TTKGNREEEDYEDDEFMSKKEAASNITNSNAKDGKNSDKASVIRSKHSVTEQRRRSKINE 62
             TT   R+  ++ D E +S  +A  N +N  +   + S  A V    H+++E+RRR +INE
Sbjct:   221 TTDRKRKRINHTD-ESVSLSDAIGNKSNQRSGSNRRSRAAEV----HNLSERRRRDRINE 275

Query:    63 RFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQ 99
             R + L+E+IPH   K D AS L E I+Y++ LQ ++Q
Sbjct:   276 RMKALQELIPHCS-KTDKASILDEAIDYLKSLQLQLQ 311

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:2117773 AT4G28790 [Arabidopsis thaliana (taxid:3702)]

 Score = 144 (55.7 bits), Expect = 2.8e-07, P = 2.8e-07
 Identities = 31/92 (33%), Positives = 54/92 (58%)

Query:    16 DEFMSKKEAASNITNSNAKDGKNSDKASVIRSK--HSVTEQRRRSKINERFQILREIIPH 73
             DE   K    +N+ N   ++ ++S  +   R+   H ++E+RRR KINE  + L+E++P 
Sbjct:   247 DERKRKTREETNVENQGTEEARDSTSSKRSRAAIMHKLSERRRRQKINEMMKALQELLPR 306

Query:    74 SDQKRDTASFLLEVIEYVQYLQEKVQKYEVSY 105
                K D +S L +VIEYV+ LQ ++Q + + +
Sbjct:   307 CT-KTDRSSMLDDVIEYVKSLQSQIQMFSMGH 337

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9CAA4	BIM2_ARATH	No assigned EC number	0.6013	0.9368	0.9067	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	301
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	2e-13
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	2e-12
smart00353	53	smart00353, HLH, helix loop helix domain	3e-11

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

 Score = 63.6 bits (156), Expect = 2e-13
 Identities = 21/51 (41%), Positives = 33/51 (64%), Gaps = 1/51 (1%)

Query: 46 RSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQ 95
          R  H+  E+RRR +IN+ F+ LRE++P   ++K   A  L   IEY+++LQ
Sbjct: 2  RKAHNERERRRRDRINDAFEELRELLPTPPNKKLSKAEILRLAIEYIKHLQ 52

Length = 52

>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 = 61.1 bits (149), Expect = 2e-12
 Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 2/56 (3%)

Query: 46 RSKHSVTEQRRRSKINERFQILREIIP--HSDQKRDTASFLLEVIEYVQYLQEKVQ 99
          R  H++ E+RRR +IN+ F  LR ++P     +K   A  L + ++Y++ LQE +Q
Sbjct: 5  REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 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|197674 smart00353, HLH, helix loop helix domain

 Score = 57.6 bits (140), Expect = 3e-11
 Identities = 23/50 (46%), Positives = 32/50 (64%), Gaps = 2/50 (4%)

Query: 53  EQRRRSKINERFQILREIIP--HSDQKRDTASFLLEVIEYVQYLQEKVQK 100
           E+RRR KINE F  LR ++P    ++K   A  L   IEY++ LQE++QK
Sbjct: 4   ERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQK 53

Length = 53

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	301
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.48
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.46
smart00353	53	HLH helix loop helix domain.	99.36
KOG1318	411	consensus Helix loop helix transcription factor EB	99.27
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	99.25
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.97
KOG3960	284	consensus Myogenic helix-loop-helix transcription	98.85
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.67
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	98.64
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	98.37
KOG4029	228	consensus Transcription factor HAND2/Transcription	98.0
KOG0561	373	consensus bHLH transcription factor [Transcription	97.85
KOG3910	632	consensus Helix loop helix transcription factor [T	97.42
PLN03217	93	transcription factor ATBS1; Provisional	97.17
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	95.59
KOG3898	254	consensus Transcription factor NeuroD and related	95.02
KOG4395	285	consensus Transcription factor Atonal, contains HT	94.38
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	92.3
KOG3582	856	consensus Mlx interactors and related transcriptio	90.09
KOG3560	712	consensus Aryl-hydrocarbon receptor [Transcription	87.15
KOG3559	598	consensus Transcriptional regulator SIM1 [Transcri	86.06

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

Probab=99.48  E-value=3.2e-14  Score=102.72  Aligned_cols=51  Identities=43%  Similarity=0.711  Sum_probs=48.3

Q ss_pred             hhccCChHHHHHHHHHHHHHHHHhccCCCC----CCCCChhhhhHHHHHHHHHHH
Q 022171           45 IRSKHSVTEQRRRSKINERFQILREIIPHS----DQKRDTASFLLEVIEYVQYLQ   95 (301)
Q Consensus        45 ~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~----~~K~dKasIL~~AI~YIk~Lq   95 (301)
                      +|..|+..||+||++||++|..|+.+||.+    ..|++|++||..||+||++||
T Consensus         1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            478999999999999999999999999986    579999999999999999997

; 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 ....

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

Probab=99.46  E-value=8.9e-14  Score=100.72  Aligned_cols=55  Identities=35%  Similarity=0.625  Sum_probs=51.9

Q ss_pred             hhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHH
Q 022171           44 VIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        44 ~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      .+|..|+..||+||++||++|..|+.+||.+  ..|++|+.||..||+||+.|+.++
T Consensus         3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~   59 (60)
T cd00083           3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL   59 (60)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence            4688999999999999999999999999998  589999999999999999999875

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

>smart00353 HLH helix loop helix domain

Probab=99.36  E-value=1.5e-12  Score=92.71  Aligned_cols=50  Identities=44%  Similarity=0.672  Sum_probs=46.1

Q ss_pred             ChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171           50 SVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQ   99 (301)
Q Consensus        50 ~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~   99 (301)
                      +..||+||++||++|..|+.+||.+  ..|++|++||.+||+||+.|+.+++
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            4689999999999999999999974  4799999999999999999998875

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

Probab=99.27  E-value=4.9e-12  Score=124.74  Aligned_cols=63  Identities=30%  Similarity=0.539  Sum_probs=57.1

Q ss_pred             CCCccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171           37 KNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQEKVQ   99 (301)
Q Consensus        37 ~~~~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~~v~   99 (301)
                      ....|..+||..|+++|||||++||++|.+|..|||.|   +.|..|..||..+++||+.||+..+
T Consensus       225 ~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q  290 (411)
T KOG1318|consen  225 TALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ  290 (411)
T ss_pred             chhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence            33447888999999999999999999999999999998   5688999999999999999998666

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=99.25  E-value=2.6e-12  Score=115.11  Aligned_cols=81  Identities=26%  Similarity=0.388  Sum_probs=71.0

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC------CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccccc
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS------DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTK  114 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~------~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~  114 (301)
                      .+.+||.+|..+||+||+.||..+..|+.|||.|      ..|+.||.||.++|+||.+|+.+..+.+.+.-.|+.+.+.
T Consensus        58 yk~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~vtA  137 (229)
T KOG1319|consen   58 YKDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDVTA  137 (229)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999999999999999999987      1389999999999999999999999989888888887777


Q ss_pred             ccCCcCC
Q 022171          115 LMPWRNS  121 (301)
Q Consensus       115 l~p~~~~  121 (301)
                      |.-..+.
T Consensus       138 L~iIk~~  144 (229)
T KOG1319|consen  138 LKIIKVN  144 (229)
T ss_pred             HHHHHHH
Confidence            6654443

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

Probab=98.97  E-value=3.5e-10  Score=105.72  Aligned_cols=64  Identities=23%  Similarity=0.421  Sum_probs=55.0

Q ss_pred             CCCCCccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC-------CCCCChhhhhHHHHHHHHHHHHHH
Q 022171           35 DGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHS-------DQKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        35 d~~~~~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-------~~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      ..........+|..|-+.|||||+|||+++.+|++|||.+       ..|++||.||+.|++|++.|+...
T Consensus        22 ~~~~~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~   92 (250)
T KOG4304|consen   22 DERSSKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQ   92 (250)
T ss_pred             CCcchhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccc
Confidence            3344446677899999999999999999999999999965       268999999999999999998643

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

Probab=98.85  E-value=1.2e-08  Score=95.24  Aligned_cols=79  Identities=25%  Similarity=0.371  Sum_probs=66.3

Q ss_pred             CCCCCCccchhhhccCChHHHHHHHHHHHHHHHH-hccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 022171           34 KDGKNSDKASVIRSKHSVTEQRRRSKINERFQIL-REIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEP  112 (301)
Q Consensus        34 ~d~~~~~k~~~~r~~H~~~ERrRR~kIne~f~~L-r~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~  112 (301)
                      .-+|.+.-...||++-.+.||||-.|+|+.|.+| |.-.++.++++.|++||..||+||..||+.++++.+....+.+.+
T Consensus       107 kackrks~svDRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~~~~~  186 (284)
T KOG3960|consen  107 KACKRKSTSVDRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGLAYAP  186 (284)
T ss_pred             hhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccchhhhhcC
Confidence            4455555556788999999999999999999999 566788789999999999999999999999999988766554333

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

Probab=98.67  E-value=2.1e-08  Score=106.19  Aligned_cols=57  Identities=26%  Similarity=0.457  Sum_probs=52.4

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCCC---CCCChhhhhHHHHHHHHHHHHH
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHSD---QKRDTASFLLEVIEYVQYLQEK   97 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~---~K~dKasIL~~AI~YIk~Lq~~   97 (301)
                      ++...|..|+.+|||||+++|..|.+|.+|||.|.   .|+||..||++||.+||.+++.
T Consensus        16 k~r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~   75 (803)
T KOG3561|consen   16 KDRKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ   75 (803)
T ss_pred             hhhhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence            44455999999999999999999999999999995   8999999999999999988874

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

Probab=98.64  E-value=3.7e-08  Score=91.35  Aligned_cols=77  Identities=30%  Similarity=0.442  Sum_probs=64.7

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCCCC-CCC-hhhhhHHHHHHHHHHHHHHHHHHhhhhccccccccccC
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQ-KRD-TASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMP  117 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~-K~d-KasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l~p  117 (301)
                      .....|..|+..||+||+.|+++|..|+.+||..+. +.. .+.||++|++||+.|+.+.+..+...+.+..+...|.+
T Consensus        55 ~~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~l~~e~~~l~~  133 (232)
T KOG2483|consen   55 SAASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIEDLSRENRKLKA  133 (232)
T ss_pred             CCCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            455689999999999999999999999999998733 333 69999999999999999888888777777766655554

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=98.37  E-value=1.2e-07  Score=101.04  Aligned_cols=66  Identities=27%  Similarity=0.482  Sum_probs=61.9

Q ss_pred             hhhccCChHHHHHHHHHHHHHHHHhccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccc
Q 022171           44 VIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWS  109 (301)
Q Consensus        44 ~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~  109 (301)
                      .+|.+||++|||.|..|||+|.+|+++||+...|+.|..+|..||+||++|+...+.+.....++.
T Consensus       275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~  340 (953)
T KOG2588|consen  275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENASLR  340 (953)
T ss_pred             cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence            579999999999999999999999999999888999999999999999999999999888777665

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

Probab=98.00  E-value=5.3e-06  Score=76.07  Aligned_cols=65  Identities=23%  Similarity=0.402  Sum_probs=56.9

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHHHHHHHHhhh
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQEKVQKYEVSY  105 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~  105 (301)
                      .....+..++..||.|=..+|.+|..||.+||..   ++|++|+.+|..||.||++|++.++.-+...
T Consensus       105 ~~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~  172 (228)
T KOG4029|consen  105 QTSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL  172 (228)
T ss_pred             chhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence            4556788888999999999999999999999964   6899999999999999999999887766543

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.85  E-value=9.3e-06  Score=77.90  Aligned_cols=62  Identities=26%  Similarity=0.414  Sum_probs=52.7

Q ss_pred             hhhhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHHHHHHhh
Q 022171           43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQKYEVS  104 (301)
Q Consensus        43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~  104 (301)
                      .-||.--+-.||||=.-||..|..||.|+|.- ..|++||.||+.+.+||..|+.+..+|-.+
T Consensus        58 RmRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll~q  120 (373)
T KOG0561|consen   58 RMRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELLPQ  120 (373)
T ss_pred             HHHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccccc
Confidence            34666677889999999999999999999975 479999999999999999998765555433

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=97.42  E-value=0.00014  Score=73.89  Aligned_cols=73  Identities=18%  Similarity=0.297  Sum_probs=57.2

Q ss_pred             ccchhhhccCChHHHHHHHHHHHHHHHHhccCCC---CCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccccccc
Q 022171           40 DKASVIRSKHSVTEQRRRSKINERFQILREIIPH---SDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLM  116 (301)
Q Consensus        40 ~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~---~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l~  116 (301)
                      ++.+.||.+.++.||-|-..||+.|++|.++.--   .++.-.|.-||..||.-|-.|++||++     ..|+...++|+
T Consensus       521 eREkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE-----RNLNPKaaclk  595 (632)
T KOG3910|consen  521 EREKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE-----RNLNPKAACLK  595 (632)
T ss_pred             hHHHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH-----ccCChhhhhhh
Confidence            3667899999999999999999999999887642   234456999999999999999998875     23455555544


Q ss_pred             C
Q 022171          117 P  117 (301)
Q Consensus       117 p  117 (301)
                      -
T Consensus       596 R  596 (632)
T KOG3910|consen  596 R  596 (632)
T ss_pred             c
Confidence            3

>PLN03217 transcription factor ATBS1; Provisional

Probab=97.17  E-value=0.00069  Score=54.32  Aligned_cols=52  Identities=19%  Similarity=0.387  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHhccCCCC-----CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcc
Q 022171           57 RSKINERFQILREIIPHS-----DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDW  108 (301)
Q Consensus        57 R~kIne~f~~Lr~lVP~~-----~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l  108 (301)
                      -+.|++.+..|+.|+|..     ..|.+-+-+|++|+.||+.|+.+|..|.+..-+|
T Consensus        19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~L   75 (93)
T PLN03217         19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSEL   75 (93)
T ss_pred             HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            378999999999999974     3477788899999999999999999999876555

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=95.59  E-value=0.0057  Score=54.01  Aligned_cols=55  Identities=29%  Similarity=0.428  Sum_probs=49.8

Q ss_pred             hhhhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHH
Q 022171           43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEK   97 (301)
Q Consensus        43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~   97 (301)
                      ...|..|++.||+|-..+|+.|..||.++|.. ..|++|+-.|.-|-.||-+|=.-
T Consensus        76 q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~v  131 (173)
T KOG4447|consen   76 QKQRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQV  131 (173)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhc
Confidence            45788999999999999999999999999986 57999999999999999998643

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

Probab=95.02  E-value=0.022  Score=53.66  Aligned_cols=56  Identities=29%  Similarity=0.423  Sum_probs=49.8

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHH
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQE   96 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~   96 (301)
                      ....+|.+=+..||+|=-.+|+.|+.||.+||..  +.|+.|+..|.-|=.||-.|++
T Consensus        68 ~~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~  125 (254)
T KOG3898|consen   68 ALTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSE  125 (254)
T ss_pred             hhhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcc
Confidence            4566788888999999999999999999999954  6899999999999999998874

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

Probab=94.38  E-value=0.059  Score=51.11  Aligned_cols=58  Identities=26%  Similarity=0.310  Sum_probs=51.2

Q ss_pred             chhhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171           42 ASVIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQ   99 (301)
Q Consensus        42 ~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~   99 (301)
                      ...+|.+-+..||+|=..+|..|..||..||..  ++|++|-..|..|-.||--|-..+.
T Consensus       171 ~~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~  230 (285)
T KOG4395|consen  171 NSHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD  230 (285)
T ss_pred             HHhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence            346788889999999999999999999999986  6899999999999999998866543

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

Probab=92.30  E-value=0.1  Score=55.47  Aligned_cols=50  Identities=30%  Similarity=0.438  Sum_probs=42.9

Q ss_pred             hhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHH
Q 022171           44 VIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQY   93 (301)
Q Consensus        44 ~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~   93 (301)
                      .||++-.-+-|-||.|-|+-|.+|..+||-.   ...+|||+|+.-||-|++.
T Consensus        45 ~rkEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl   97 (768)
T KOG3558|consen   45 LRKEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL   97 (768)
T ss_pred             HHhhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence            3466666778999999999999999999842   4689999999999999983

>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]

Probab=90.09  E-value=0.052  Score=57.59  Aligned_cols=84  Identities=18%  Similarity=0.206  Sum_probs=68.6

Q ss_pred             hhhhccCChHHHHHHHHHHHHHHHHhccCCCC----CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccccccccCC
Q 022171           43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS----DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPW  118 (301)
Q Consensus        43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~----~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l~p~  118 (301)
                      ..+...|+-+|++||.+|+-+|..|-.++-+.    ..|+.+..-+..+++||..++.+...+.++...+..++..++.-
T Consensus       649 k~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~lr~~~s~~~A~  728 (856)
T KOG3582|consen  649 KNRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHSLRKEISELNAV  728 (856)
T ss_pred             cCCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhhhhhhhHHHHHH
Confidence            36788999999999999999999999988764    45888888899999999999888888887777777777777765


Q ss_pred             cCCccccc
Q 022171          119 RNSHWRVQ  126 (301)
Q Consensus       119 ~~~~~~~~  126 (301)
                      .+.+.+..
T Consensus       729 ~~~~~q~p  736 (856)
T KOG3582|consen  729 ISACQQPP  736 (856)
T ss_pred             HHHhhcCC
Confidence            54444433

>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]

Probab=87.15  E-value=0.51  Score=49.26  Aligned_cols=41  Identities=24%  Similarity=0.452  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHH
Q 022171           52 TEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQ   92 (301)
Q Consensus        52 ~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk   92 (301)
                      --+|-|+|+|.-++.|..|+|-.   ..|+||.+||.-+|-|++
T Consensus        32 PSKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr   75 (712)
T KOG3560|consen   32 PSKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR   75 (712)
T ss_pred             cchhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence            35778999999999999999964   479999999999999997

>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]

Probab=86.06  E-value=0.76  Score=46.64  Aligned_cols=45  Identities=24%  Similarity=0.349  Sum_probs=39.0

Q ss_pred             ChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHH
Q 022171           50 SVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYL   94 (301)
Q Consensus        50 ~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~L   94 (301)
                      .-.-|.||++-|--|.+|..++|-.   ...+||++|+.-|..|||.-
T Consensus         6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr   53 (598)
T KOG3559|consen    6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR   53 (598)
T ss_pred             hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence            3457899999999999999999964   45799999999999999954

---

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	301
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	2e-18
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	1e-12
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	2e-12
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	2e-12
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	4e-11
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	2e-07
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	6e-05
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	3e-04

>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 = 77.4 bits (191), Expect = 2e-18
 Identities = 17/57 (29%), Positives = 37/57 (64%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE 102
           R+ H+  E+R RS IN++   L++++  ++ K + ++ L + I+Y+++LQ   QK +
Sbjct: 7   RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLK 63

>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 = 61.2 bits (149), Expect = 1e-12
 Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 5/74 (6%)

Query: 30  NSNAKDGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPH-SDQKRDTASFLLEVI 88
           N + +   ++DK    R+ H+  E++RR  I + F  LR+ +P    +K   A  L +  
Sbjct: 1   NDDIEVESDADK----RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKAT 56

Query: 89  EYVQYLQEKVQKYE 102
           EY+QY++ K   ++
Sbjct: 57  EYIQYMRRKNHTHQ 70

>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 = 61.2 bits (149), Expect = 2e-12
 Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 1/72 (1%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIPH-SDQKRDTASFLLEVIEYVQYLQEKVQKYEVS 104
           R+ H+  E++RR  I + F  LR+ +P    +K   A  L +  EY+QY++ K   ++  
Sbjct: 3   RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQD 62

Query: 105 YQDWSAEPTKLM 116
             D   +   L 
Sbjct: 63  IDDLKRQNALLE 74

>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 = 60.4 bits (147), Expect = 2e-12
 Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 5/60 (8%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIP-----HSDQKRDTASFLLEVIEYVQYLQEKVQK 100
           R++H+  E+RRR KIN     L +IIP      +   +     L +  +Y+Q L++   +
Sbjct: 6   RAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNHR 65

>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 = 57.7 bits (140), Expect = 4e-11
 Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 6/69 (8%)

Query: 36  GKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIP--HSDQKRDTASFLLEVIEYVQY 93
           G  + K    R  H+V E++RR+++   F  LR+ IP   +++K      L +   Y+  
Sbjct: 1   GHMNVK----RRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILS 56

Query: 94  LQEKVQKYE 102
           +Q + QK  
Sbjct: 57  VQAEEQKLI 65

>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 = 46.7 bits (111), Expect = 2e-07
 Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 2/72 (2%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIP--HSDQKRDTASFLLEVIEYVQYLQEKVQKYEV 103
           RS H+  E+ RR+ +    + L+ ++P      +  T S L +   +++ L++  +K   
Sbjct: 2   RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVH 61

Query: 104 SYQDWSAEPTKL 115
                  E   L
Sbjct: 62  QIDQLQREQRHL 73

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

 Score = 39.9 bits (93), Expect = 6e-05
 Identities = 17/62 (27%), Positives = 35/62 (56%), Gaps = 3/62 (4%)

Query: 46  RSKHSVTEQRRRSKINERFQIL-REIIPH--SDQKRDTASFLLEVIEYVQYLQEKVQKYE 102
           R+ H+  E++RR  INE F+ L R    H  SD+ +     L + ++ +  L+++V++  
Sbjct: 6   RAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERN 65

Query: 103 VS 104
           ++
Sbjct: 66  LN 67

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

 Score = 41.1 bits (96), Expect = 3e-04
 Identities = 20/97 (20%), Positives = 40/97 (41%), Gaps = 9/97 (9%)

Query: 35  DGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHSD---QKRDTASFLLEVIEYV 91
             ++  +    R  HS  E+RRR K+N     L  ++P  +   +K D  + L   ++++
Sbjct: 3   YAEHQGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHM 62

Query: 92  QYLQEKVQKY-EVSYQDWSAEPTKLMPWRNSHWRVQN 127
                K  +     Y + + +PT L      H  ++ 
Sbjct: 63  -----KTLRGATNPYTEANYKPTFLSDDELKHLILRA 94

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	301
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.72
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.67
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.65
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.64
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.64
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.61
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.6
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.6
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.57
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.54
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.51
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.4
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	99.33
4f3l_A	361	Mclock, circadian locomoter output cycles protein	99.14
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.97
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.93
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.77
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	98.56

>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=99.72  E-value=3.4e-18  Score=133.15  Aligned_cols=71  Identities=24%  Similarity=0.422  Sum_probs=65.6

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccc
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAE  111 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e  111 (301)
                      +...+|..|+.+||+||++||++|.+|+.+||+++.|++|++||.+||+||++|+.+++.|+.+.+.+...
T Consensus         2 k~~~rr~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~~~L~~~   72 (82)
T 1am9_A            2 SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLRTA   72 (82)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34568999999999999999999999999999988899999999999999999999999999998877643

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

Probab=99.67  E-value=4.3e-17  Score=124.35  Aligned_cols=62  Identities=23%  Similarity=0.368  Sum_probs=58.2

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHH
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE  102 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le  102 (301)
                      +...+|..|+++||+||++||++|.+|+.|||.+..|+||++||+.||+||++||.++.-|+
T Consensus         4 k~~~kR~~Hn~iErrRRd~IN~~i~eL~~LvP~~~~K~dK~sIL~~aI~yik~Lq~~~~~~~   65 (71)
T 4h10_B            4 KDKAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKEITAWLE   65 (71)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSCCSCCCHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             hhhHHhhhhhHHHhhHHHHHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHHHHHHhhhHHH
Confidence            56778999999999999999999999999999877899999999999999999999988775

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

Probab=99.65  E-value=1.4e-16  Score=132.02  Aligned_cols=72  Identities=26%  Similarity=0.456  Sum_probs=53.7

Q ss_pred             CCCCCccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhh
Q 022171           35 DGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQ  106 (301)
Q Consensus        35 d~~~~~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~  106 (301)
                      +.+...+...+|..|+++||+||++||++|.+|+.|||.+   +.|++|++||.+||+||++||.+++.|+....
T Consensus        17 ~~~~~~k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~~~~   91 (118)
T 4ati_A           17 EARALAKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDLEN   91 (118)
T ss_dssp             --------------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             hHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344446677899999999999999999999999999987   35899999999999999999999999987633

>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=99.64  E-value=1.2e-16  Score=123.50  Aligned_cols=71  Identities=27%  Similarity=0.484  Sum_probs=64.9

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccc
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAE  111 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e  111 (301)
                      ....+|..|+..||+||.+||++|..|+.+||.+ ..|++|++||..||+||++|+.+++.|+.+.+.|..+
T Consensus         8 ~~~~~R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~L~~e~~~L~~~   79 (80)
T 1hlo_A            8 SDADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ   79 (80)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred             chHHHHHHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3456899999999999999999999999999987 4699999999999999999999999999998877643

>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=99.64  E-value=8.8e-17  Score=124.84  Aligned_cols=71  Identities=28%  Similarity=0.501  Sum_probs=64.7

Q ss_pred             hhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccccccc
Q 022171           45 IRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKL  115 (301)
Q Consensus        45 ~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l  115 (301)
                      +|..|+..||+||++||++|..|+.+||.+ ..|++|++||..||+||++|+.+++.|+.+.+.+..+...|
T Consensus         2 rR~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~e~~~L~~~~~~L   73 (83)
T 1nkp_B            2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQNALL   73 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            688999999999999999999999999986 57999999999999999999999999999888887665444

>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=99.61  E-value=1.7e-16  Score=118.29  Aligned_cols=54  Identities=24%  Similarity=0.372  Sum_probs=49.7

Q ss_pred             hhccCChHHHHHHHHHHHHHHHHhccCCCC------CCCCChhhhhHHHHHHHHHHHHHH
Q 022171           45 IRSKHSVTEQRRRSKINERFQILREIIPHS------DQKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        45 ~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~------~~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      +|..|+++||+||++||++|.+|+.|||.+      ..|++||+||++||+||++||+++
T Consensus         2 kr~~H~~aEr~RR~rIn~~~~~L~~LlP~~~~~~~~~~k~sKa~iL~~Ai~YIk~Lq~~~   61 (63)
T 1a0a_A            2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHCCCcccccccCCcccHHHHHHHHHHHHHHHHHHh
Confidence            588999999999999999999999999975      368899999999999999999765

>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=99.60  E-value=3.6e-16  Score=123.40  Aligned_cols=71  Identities=25%  Similarity=0.354  Sum_probs=62.7

Q ss_pred             hhhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccccc
Q 022171           43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPT  113 (301)
Q Consensus        43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~  113 (301)
                      ..+|..|+..||+||++||++|..|+.+||.+  +.|++|++||..||+||++|+.+.+.+..+.+.+..+..
T Consensus         4 ~~~R~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~~~~~~L~~~n~   76 (88)
T 1nkp_A            4 NVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEEDLLRKRRE   76 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45789999999999999999999999999986  479999999999999999999999988877666655443

>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=99.60  E-value=2.7e-16  Score=116.90  Aligned_cols=56  Identities=32%  Similarity=0.494  Sum_probs=51.2

Q ss_pred             hhhhccCChHHHHHHHHHHHHHHHHhccCCCCC-----CCCChhhhhHHHHHHHHHHHHHH
Q 022171           43 SVIRSKHSVTEQRRRSKINERFQILREIIPHSD-----QKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~-----~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      ..+|..|+.+||+||++||++|.+|+.|||.+.     .|++|++||.+||+||++||.++
T Consensus         3 ~~rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~~   63 (65)
T 1an4_A            3 EKRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHHh
Confidence            457899999999999999999999999999983     38899999999999999999764

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

Probab=99.57  E-value=4.5e-16  Score=119.23  Aligned_cols=57  Identities=26%  Similarity=0.402  Sum_probs=52.0

Q ss_pred             ccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHH
Q 022171           40 DKASVIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQE   96 (301)
Q Consensus        40 ~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~   96 (301)
                      .+...+|..|+++||+||++||++|.+|+.|||.|   ..|+|||+||+.||+||+.|+.
T Consensus         4 ~k~~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            4 GRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             -CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhc
Confidence            36678999999999999999999999999999987   3799999999999999999873

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

Probab=99.54  E-value=4e-15  Score=115.64  Aligned_cols=69  Identities=20%  Similarity=0.314  Sum_probs=62.3

Q ss_pred             hccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccccc
Q 022171           46 RSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTK  114 (301)
Q Consensus        46 r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~  114 (301)
                      |..|+..||+||..||++|..|+++||.+  +.|.+|+.||..|++||+.|+.+.+.|+.+.+.+..+...
T Consensus         2 R~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~~l~~e~~~L~~e~~~   72 (80)
T 1nlw_A            2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQLQREQRH   72 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67899999999999999999999999975  4799999999999999999999999999888877655443

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

Probab=99.51  E-value=5.2e-15  Score=114.06  Aligned_cols=61  Identities=23%  Similarity=0.376  Sum_probs=49.8

Q ss_pred             hhhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCC-ChhhhhHHHHHHHHHHHHHHHHHHh
Q 022171           43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKR-DTASFLLEVIEYVQYLQEKVQKYEV  103 (301)
Q Consensus        43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~-dKasIL~~AI~YIk~Lq~~v~~Le~  103 (301)
                      ..+|..|+..||+||++||++|.+|+.+||.+  ..|. +|+.||..||+||++|++++++++.
T Consensus         3 ~~rR~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~   66 (76)
T 3u5v_A            3 ADKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNL   66 (76)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             hhHHhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35789999999999999999999999999953  3455 8999999999999999999998764

>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=99.40  E-value=2.3e-13  Score=102.82  Aligned_cols=59  Identities=27%  Similarity=0.407  Sum_probs=53.7

Q ss_pred             ccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHH
Q 022171           40 DKASVIRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        40 ~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      .....+|..|+..||+|+..||+.|..||.+||.. +.|++|+.||..||+||.+|++.+
T Consensus         7 ~~~~~rR~~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~tLr~Ai~YI~~L~~~L   66 (68)
T 1mdy_A            7 TTNADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALL   66 (68)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             CCchhhhhHhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            34567899999999999999999999999999975 689999999999999999999765

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

Probab=99.33  E-value=8.6e-13  Score=97.38  Aligned_cols=55  Identities=25%  Similarity=0.318  Sum_probs=50.9

Q ss_pred             hhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171           45 IRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQ   99 (301)
Q Consensus        45 ~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~   99 (301)
                      +|..|+..||+|+..||+.|..||.+||..  +.|++|+.||..||+||.+|++.++
T Consensus         2 rR~~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   58 (60)
T 2ql2_B            2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILR   58 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHh
Confidence            578899999999999999999999999975  6899999999999999999998763

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

Probab=99.14  E-value=2.8e-11  Score=114.32  Aligned_cols=59  Identities=24%  Similarity=0.426  Sum_probs=43.7

Q ss_pred             ccchhhhccCChHHHHHHHHHHHHHHHHhccCCCCCCCCChhhhhHHHHHHHHHHHHHH
Q 022171           40 DKASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        40 ~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      ++...+|..|+.+||+||++||+.|.+|+.|||....|+||++||+.||+||+.|+...
T Consensus         7 ~~~~~~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~~   65 (361)
T 4f3l_A            7 DKDKAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKETT   65 (361)
T ss_dssp             ------------CHHHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhhc
Confidence            36677899999999999999999999999999965689999999999999999998643

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

Probab=98.97  E-value=2.4e-10  Score=109.35  Aligned_cols=57  Identities=26%  Similarity=0.402  Sum_probs=50.2

Q ss_pred             ccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHH
Q 022171           40 DKASVIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQE   96 (301)
Q Consensus        40 ~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~   96 (301)
                      .|...+|..|+.+||+||++||+.|.+|+.|||.+   ..|+||++||+.||+|||.|+.
T Consensus         8 ~~~~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~   67 (387)
T 4f3l_B            8 GRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   67 (387)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHC
T ss_pred             chhhhhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhc
Confidence            36677899999999999999999999999999953   4799999999999999999874

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

Probab=98.93  E-value=1.6e-10  Score=87.33  Aligned_cols=47  Identities=23%  Similarity=0.353  Sum_probs=43.0

Q ss_pred             ChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHH
Q 022171           50 SVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQE   96 (301)
Q Consensus        50 ~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~   96 (301)
                      +..||+|+..||++|..||.+||..  ++|++|++||..||+||..||.
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            3558999999999999999999975  6899999999999999999984

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

Probab=98.77  E-value=7.7e-09  Score=80.89  Aligned_cols=50  Identities=28%  Similarity=0.446  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHHHHHHHHhhh
Q 022171           56 RRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQEKVQKYEVSY  105 (301)
Q Consensus        56 RR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~  105 (301)
                      -|.+||++|.+|..|||.+   +.|.+|+.||..||+||++||..++.+....
T Consensus         3 ~R~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~r~~e~e   55 (83)
T 4ath_A            3 MRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDLE   55 (83)
T ss_dssp             CHHHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHHHHHHHH
T ss_pred             chhhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3899999999999999975   4689999999999999999999888777553

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

Probab=98.56  E-value=9.8e-08  Score=76.65  Aligned_cols=49  Identities=22%  Similarity=0.370  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHHHH
Q 022171           53 EQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQKY  101 (301)
Q Consensus        53 ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~~L  101 (301)
                      ||.|=..||+.|..||.+||..  ++|++|+++|..||+||..|++.++.-
T Consensus        33 ~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~~   83 (97)
T 4aya_A           33 PMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDSH   83 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            5677789999999999999975  689999999999999999999887653

---

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	301
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	5e-13
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	8e-13
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	1e-12
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	2e-12
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	2e-12
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	3e-12
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	4e-12
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	1e-11

>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 = 60.7 bits (147), Expect = 5e-13
 Identities = 13/60 (21%), Positives = 24/60 (40%), Gaps = 6/60 (10%)

Query: 46 RSKHSVTEQRRRSKINERFQILREIIP------HSDQKRDTASFLLEVIEYVQYLQEKVQ 99
          R  H   EQ RR+++      L  +IP      +       A+ +     Y+++LQ+   
Sbjct: 3  RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

>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 = 61.1 bits (148), Expect = 8e-13
 Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIPH--SDQKRDTASFLLEVIEYVQYLQEKVQKYE 102
           R  H+V E++RR+++   F  LR+ IP   +++K      L +   Y+  +Q + QK  
Sbjct: 7   RRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLI 65

>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 = 59.7 bits (145), Expect = 1e-12
 Identities = 14/46 (30%), Positives = 27/46 (58%)

Query: 57  RSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE 102
           RS IN++   L++++  +D K   +  L + I+Y++YLQ+   K  
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLR 46

>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 = 59.9 bits (145), Expect = 2e-12
 Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQKYEVS 104
           R+ H+  E++RR  I + F  LR+ +P    +K   A  L +  EY+QY++ K   ++  
Sbjct: 3   RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQD 62

Query: 105 YQDWSAEPTKL 115
             D   +   L
Sbjct: 63  IDDLKRQNALL 73

>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 = 59.1 bits (143), Expect = 2e-12
 Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 46 RSKHSVTEQRRRSKINERFQILREIIPHSDQKR-DTASFLLEVIEYVQYLQEKVQ 99
          R   ++ E+RR SK+NE F+ L+     +  +R      L   I Y++ LQ  ++
Sbjct: 13 RKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR 67

>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 = 59.0 bits (143), Expect = 3e-12
 Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 5/60 (8%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIPHS-----DQKRDTASFLLEVIEYVQYLQEKVQK 100
           R++H+  E+RRR KIN     L +IIP S        +     L +  +Y+Q L++   +
Sbjct: 6   RAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNHR 65

>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 = 58.8 bits (142), Expect = 4e-12
 Identities = 15/73 (20%), Positives = 31/73 (42%), Gaps = 2/73 (2%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQKYEV 103
           RS H+  E+ RR+ +    + L+ ++P      +  T S L +   +++ L++  +K   
Sbjct: 2   RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVH 61

Query: 104 SYQDWSAEPTKLM 116
                  E   L 
Sbjct: 62  QIDQLQREQRHLK 74

>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 = 57.3 bits (138), Expect = 1e-11
 Identities = 17/57 (29%), Positives = 37/57 (64%)

Query: 46  RSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYE 102
           R+ H+  E+R RS IN++   L++++  ++ K + ++ L + I+Y+++LQ   QK +
Sbjct: 7   RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLK 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	301
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.61
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.6
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.59
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.59
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.51
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.47

>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=99.66  E-value=2.3e-17  Score=125.70  Aligned_cols=70  Identities=24%  Similarity=0.428  Sum_probs=64.0

Q ss_pred             chhhhccCChHHHHHHHHHHHHHHHHhccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccc
Q 022171           42 ASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAE  111 (301)
Q Consensus        42 ~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e  111 (301)
                      +..+|..|+.+||+||++||++|..|++|||++..|++|++||..||+||++|+++++.|+.+...+..+
T Consensus         3 ~~~kR~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~e~~~lk~~   72 (80)
T d1am9a_           3 RGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLRTA   72 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3457889999999999999999999999999988899999999999999999999999999887766543

>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=99.62  E-value=1.3e-16  Score=120.89  Aligned_cols=69  Identities=20%  Similarity=0.314  Sum_probs=62.4

Q ss_pred             hccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccccc
Q 022171           46 RSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTK  114 (301)
Q Consensus        46 r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~  114 (301)
                      |..|+..||+||++||++|..|+.+||.+  ..|++|++||..||+||++|+.+++.+..+.+.+..+...
T Consensus         2 R~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~L~~~~~~   72 (79)
T d1nlwa_           2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQLQREQRH   72 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67899999999999999999999999976  4689999999999999999999999999988877655443

>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=99.61  E-value=1.4e-16  Score=121.80  Aligned_cols=68  Identities=28%  Similarity=0.511  Sum_probs=61.9

Q ss_pred             hhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 022171           45 IRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEP  112 (301)
Q Consensus        45 ~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~  112 (301)
                      +|..|+..||+||++||++|..|+++||++ +.|++|++||..||+||++|+.+++.|+.+.+.+..+.
T Consensus         2 rR~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~l~~~~   70 (83)
T d1nkpb_           2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQN   70 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            688999999999999999999999999976 57999999999999999999999999998877665544

>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=99.60  E-value=1.8e-16  Score=117.66  Aligned_cols=59  Identities=27%  Similarity=0.416  Sum_probs=53.6

Q ss_pred             cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171           41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQ   99 (301)
Q Consensus        41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v~   99 (301)
                      ....+|..|+..||+||.+||++|..|+.+||.+ ..|++|++||..||+||++||+.++
T Consensus         8 ~~~~rR~~hn~~Er~Rr~~in~~~~~L~~llP~~~~~k~sK~~iL~~Ai~YI~~Lq~~l~   67 (68)
T d1mdya_           8 TNADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            4456789999999999999999999999999997 4789999999999999999998764

>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=99.59  E-value=2.6e-16  Score=114.91  Aligned_cols=54  Identities=24%  Similarity=0.372  Sum_probs=49.8

Q ss_pred             hhccCChHHHHHHHHHHHHHHHHhccCCCC------CCCCChhhhhHHHHHHHHHHHHHH
Q 022171           45 IRSKHSVTEQRRRSKINERFQILREIIPHS------DQKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        45 ~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~------~~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      +|..|+.+||+||++||++|..|+.|||.+      +.|++|+.||+.||+||++||+++
T Consensus         2 rR~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k~sKa~iL~~Av~yI~~Lq~~v   61 (63)
T d1a0aa_           2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCcccccHHHHHHHHHHHHHHHHHhh
Confidence            588999999999999999999999999952      579999999999999999999764

>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=99.59  E-value=2.5e-16  Score=121.55  Aligned_cols=70  Identities=26%  Similarity=0.360  Sum_probs=62.8

Q ss_pred             hhhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 022171           43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEP  112 (301)
Q Consensus        43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~  112 (301)
                      ..+|..|+.+||+||++||++|..|+++||++  ..|++|++||..||+||++|+++++.|+.+.+.+..+.
T Consensus         4 ~~rR~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~l~~~~   75 (88)
T d1nkpa_           4 NVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEEDLLRKRR   75 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45788999999999999999999999999975  46899999999999999999999999988877665544

>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=99.51  E-value=2.2e-15  Score=110.51  Aligned_cols=55  Identities=33%  Similarity=0.502  Sum_probs=50.0

Q ss_pred             hhhccCChHHHHHHHHHHHHHHHHhccCCCC-----CCCCChhhhhHHHHHHHHHHHHHH
Q 022171           44 VIRSKHSVTEQRRRSKINERFQILREIIPHS-----DQKRDTASFLLEVIEYVQYLQEKV   98 (301)
Q Consensus        44 ~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-----~~K~dKasIL~~AI~YIk~Lq~~v   98 (301)
                      .+|..|+.+||+||++||++|.+|+.+||.+     +.|++|+.||..||+||+.||++.
T Consensus         4 ~rR~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~~~   63 (65)
T d1an4a_           4 KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            4688999999999999999999999999975     359999999999999999998654

>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=99.47  E-value=7e-15  Score=106.74  Aligned_cols=55  Identities=25%  Similarity=0.417  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHhccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccc
Q 022171           57 RSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAE  111 (301)
Q Consensus        57 R~kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e  111 (301)
                      |++||++|..|+++||++..|+|||+||.+||+||++||.+++.|++++..+...
T Consensus         1 R~~in~~f~~L~~lvP~~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L~~e~~~L~~~   55 (61)
T d1uklc_           1 RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMVLKLA   55 (61)
T ss_dssp             CCCHHHHHHHHHHHHSCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6789999999999999987899999999999999999999999999988776543