Citrus Sinensis ID: 025407

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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---
Protein Sequence
MQPTAGGSSSSSGGGGGGVGGRGELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLSSGDPVSVTAGLSLSQSQLDQVGFQRQNSSPADLFDGYFSNYATPSSYDYVDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccHHHccccHHHHHHHHHHHccccccccccccHHccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccc
Coil and Loop (DISEMBL)
mqptaggsssssggggggvggrgelsrgglarlrsapaSWIDALLEEeledplkpnqcltqllssgdpvsvtaGLSLSQSQLDqvgfqrqnsspadlfdgyfsnyatpssydyvdvspnsnkrarednntqfpsptaklnfhshlkveqsgqvpggvsnlvDMDMEKLLEDsvpcrvrakrgcathprsIAERVRRTRISDRIRKLQDlvpnmdkqtNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD
Flexible Loop (DISEMBL)
mqptaggsssssggggggvGGRGELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLSSGDPVSVTAGLSLSQSQLDQVGFQRQNSSPADLFDGYFSNYATPSSYDYVDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDsvpcrvrakrgcathprsiaervrrtrisdrirklqdlvpnmdkqTNTADMLEEAVEYVKFLQKQIEeltehqrrckcsakd
Low Complexity Region (SEG)
MQPTaggsssssggggggvggrgelsrgglarlrsaPASWIDAlleeeleDPLKPNQCLTQLLSSGDPVSVTAGLSLSQSQLDQVGFQRQNSSPADLFDGYFSNYATPSSYDYVDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAErvrrtrisdrirKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD
Disordered region (IsUnstruct)
***************************************WIDALL***************************************************LFDGYFSNYATPSSYDY*******************************************************L**SVPCRVRAKRGCA**************************************LEEAVEYVKFLQKQI****************
Disordered Region (DISOPRED)
*****************************************************************************************************************************************************************************************************RISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTE****C******
Disordered Region (DISEMBL)
***********************ELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLSSGDPVSVTAGLSLSQSQLDQVGFQRQNSSPADLFDGYFSNYATPSSYDYVDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELT************
Disordered Region (DISPRO)
*******************************RLRSAPASWIDALLEEELEDPLKPNQCLTQLLS**********************************DG*FSNYATPSSYDY*****************************************************KLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKC****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQPTAGGSSSSSGGGGGGVGGRGELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLSSGDPVSVTAGLSLSQSQLDQVGFQRQNSSPADLFDGYFSNYATPSSYDYVDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMxxxxxxxxxxxxxxxxxxxxxQRRCKCSAKD
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	253	2.2.26 [Sep-21-2011]
Q9C8P8	259	Transcription factor bHLH	yes	no	0.837	0.818	0.585	4e-67
Q9M0R0	262	Transcription factor bHLH	no	no	0.830	0.801	0.595	2e-61
Q9C690	379	Transcription factor bHLH	no	no	0.347	0.232	0.715	3e-34
Q66GR3	359	Transcription factor bHLH	no	no	0.422	0.298	0.6	1e-32
Q8H102	362	Transcription factor bHLH	no	no	0.355	0.248	0.637	7e-29
Q9ZW81	297	Transcription factor bHLH	no	no	0.292	0.249	0.714	4e-25
Q9LSQ3	297	Transcription factor bHLH	no	no	0.256	0.218	0.590	1e-15
Q9ZUG9	350	Transcription factor bHLH	no	no	0.260	0.188	0.552	5e-15
Q8S3D5	310	Transcription factor bHLH	no	no	0.256	0.209	0.575	6e-15
Q8GY61	335	Transcription factor bHLH	no	no	0.296	0.223	0.56	2e-14

>sp|Q9C8P8|BH080_ARATH Transcription factor bHLH80 OS=Arabidopsis thaliana GN=BHLH80 PE=1 SV=1

 Score =  254 bits (649), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 150/256 (58%), Positives = 178/256 (69%), Gaps = 44/256 (17%)

Query: 24  ELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLS----SGDPV---------- 69
           E+SR GL+R+RSAPA+WI+ LLEE+ E+ LKPN CLT+LL+    SG  +          
Sbjct: 20  EVSRSGLSRIRSAPATWIETLLEEDEEEGLKPNLCLTELLTGNNNSGGVITSRDDSFEFL 79

Query: 70  -SVTAGLSLSQSQLDQVGFQRQNSSPADLF-------DGYFSNYATPSSYDY----VDVS 117
            SV  GL    +     GF RQNSSPAD         DGYFSN+  P++YDY    VD+S
Sbjct: 80  SSVEQGL---YNHHQGGGFHRQNSSPADFLSGSGSGTDGYFSNFGIPANYDYLSTNVDIS 136

Query: 118 PNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRV 177
           P   KR+R D  TQF S          LK EQ   + GG+S ++DM+M+K+ EDSVPCRV
Sbjct: 137 PT--KRSR-DMETQFSS---------QLKEEQ---MSGGISGMMDMNMDKIFEDSVPCRV 181

Query: 178 RAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQI 237
           RAKRGCATHPRSIAERVRRTRISDRIR+LQ+LVPNMDKQTNTADMLEEAVEYVK LQ QI
Sbjct: 182 RAKRGCATHPRSIAERVRRTRISDRIRRLQELVPNMDKQTNTADMLEEAVEYVKALQSQI 241

Query: 238 EELTEHQRRCKCSAKD 253
           +ELTE Q+RCKC  K+
Sbjct: 242 QELTEQQKRCKCKPKE 257

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M0R0|BH081_ARATH Transcription factor bHLH81 OS=Arabidopsis thaliana GN=BHLH81 PE=2 SV=1

 Score =  235 bits (600), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 144/242 (59%), Positives = 170/242 (70%), Gaps = 32/242 (13%)

Query: 32  RLRSAPASWIDALLEEELEDPLKPNQCLTQLLS--SGD----------PVSVTAGLSLSQ 79
           R+RSAPA+W++ALLEE+ E+ LKPN  LT LL+  S D          P+ V  GL    
Sbjct: 31  RIRSAPATWLEALLEEDEEESLKPNLGLTDLLTGNSNDLPTSRGSFEFPIPVEQGL---- 86

Query: 80  SQLDQVGFQRQNSSPADLF---DGYFSNYATPSSYDY----VDVSPNSNKRAREDNNTQF 132
               Q GF RQNS+PAD     DG+  ++   ++YDY    +DVSP S KR+RE     F
Sbjct: 87  --YQQGGFHRQNSTPADFLSGSDGFIQSFGIQANYDYLSGNIDVSPGS-KRSRE-MEALF 142

Query: 133 PSPTAKLNFHSHLKVEQS-GQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIA 191
            SP     F S +K EQS GQVP GVS++ DM+ME L+EDSV  RVRAKRGCATHPRSIA
Sbjct: 143 SSP----EFTSQMKGEQSSGQVPTGVSSMSDMNMENLMEDSVAFRVRAKRGCATHPRSIA 198

Query: 192 ERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSA 251
           ERVRRTRISDRIRKLQ+LVPNMDKQTNTADMLEEAVEYVK LQ+QI+ELTE Q+RC C  
Sbjct: 199 ERVRRTRISDRIRKLQELVPNMDKQTNTADMLEEAVEYVKVLQRQIQELTEEQKRCTCIP 258

Query: 252 KD 253
           K+
Sbjct: 259 KE 260

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C690|BH122_ARATH Transcription factor bHLH122 OS=Arabidopsis thaliana GN=BHLH122 PE=1 SV=1

 Score =  145 bits (366), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 63/88 (71%), Positives = 80/88 (90%)

Query: 164 DMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADML 223
           D+E+LL DS+PC++RAKRGCATHPRSIAERVRRT+IS+R+RKLQDLVPNMD QTNTADML
Sbjct: 291 DIEQLLSDSIPCKIRAKRGCATHPRSIAERVRRTKISERMRKLQDLVPNMDTQTNTADML 350

Query: 224 EEAVEYVKFLQKQIEELTEHQRRCKCSA 251
           + AV+Y+K LQ+Q++ L E + RC+CS+
Sbjct: 351 DLAVQYIKDLQEQVKALEESRARCRCSS 378

Arabidopsis thaliana (taxid: 3702)

>sp|Q66GR3|BH130_ARATH Transcription factor bHLH130 OS=Arabidopsis thaliana GN=BHLH130 PE=1 SV=1

 Score =  140 bits (352), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 66/110 (60%), Positives = 87/110 (79%), Gaps = 3/110 (2%)

Query: 144 HLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRI 203
           HL + +S       S++V +D    L+DSVPC++RAKRGCATHPRSIAERVRRTRIS+R+
Sbjct: 249 HLSLPKSSST---ASDMVSVDKYLQLQDSVPCKIRAKRGCATHPRSIAERVRRTRISERM 305

Query: 204 RKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
           RKLQ+LVPNMDKQTNT+DML+ AV+Y+K LQ+Q + L +++  CKC  K+
Sbjct: 306 RKLQELVPNMDKQTNTSDMLDLAVDYIKDLQRQYKILNDNRANCKCMNKE 355

Arabidopsis thaliana (taxid: 3702)

>sp|Q8H102|BH128_ARATH Transcription factor bHLH128 OS=Arabidopsis thaliana GN=BHLH128 PE=1 SV=1

 Score =  127 bits (319), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 58/91 (63%), Positives = 74/91 (81%), Gaps = 1/91 (1%)

Query: 159 NLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTN 218
           N +D  M+ L EDSVPC++RAKRGCATHPRSIAER RRTRIS +++KLQDLVPNMDKQT+
Sbjct: 266 NYMDNFMQ-LPEDSVPCKIRAKRGCATHPRSIAERERRTRISGKLKKLQDLVPNMDKQTS 324

Query: 219 TADMLEEAVEYVKFLQKQIEELTEHQRRCKC 249
            +DML+ AV+++K LQ Q++ L + Q  C C
Sbjct: 325 YSDMLDLAVQHIKGLQHQLQNLKKDQENCTC 355

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZW81|BH129_ARATH Transcription factor bHLH129 OS=Arabidopsis thaliana GN=BHLH129 PE=2 SV=2

 Score =  115 bits (287), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/77 (71%), Positives = 65/77 (84%), Gaps = 3/77 (3%)

Query: 165 MEKLL---EDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTAD 221
           ME L+   EDSVPCR RAKRG ATHPRSIAER RRTRIS +++KLQ+LVPNMDKQT+ AD
Sbjct: 218 MENLMNIPEDSVPCRARAKRGFATHPRSIAERERRTRISGKLKKLQELVPNMDKQTSYAD 277

Query: 222 MLEEAVEYVKFLQKQIE 238
           ML+ AVE++K LQ Q+E
Sbjct: 278 MLDLAVEHIKGLQHQVE 294

Arabidopsis thaliana (taxid: 3702)

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

 Score = 83.6 bits (205), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/66 (59%), Positives = 54/66 (81%), Gaps = 1/66 (1%)

Query: 176 RVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQK 235
           RVRA+RG AT P SIAER+RR RI++R++ LQ+LVPN +K T+ A ML+E +EYV+FLQ 
Sbjct: 98  RVRARRGQATDPHSIAERLRRERIAERMKSLQELVPNTNK-TDKASMLDEIIEYVRFLQL 156

Query: 236 QIEELT 241
           Q++ L+
Sbjct: 157 QVKVLS 162

Arabidopsis thaliana (taxid: 3702)

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

 Score = 81.6 bits (200), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 37/67 (55%), Positives = 54/67 (80%), Gaps = 1/67 (1%)

Query: 175 CRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQ 234
            ++RA+RG AT P SIAER+RR RI++R++ LQ+LVPN +K T+ A ML+E ++YVKFLQ
Sbjct: 136 TKIRARRGQATDPHSIAERLRRERIAERMKALQELVPNGNK-TDKASMLDEIIDYVKFLQ 194

Query: 235 KQIEELT 241
            Q++ L+
Sbjct: 195 LQVKVLS 201

Arabidopsis thaliana (taxid: 3702)

>sp|Q8S3D5|BH069_ARATH Transcription factor bHLH69 OS=Arabidopsis thaliana GN=BHLH69 PE=2 SV=2

 Score = 81.3 bits (199), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 38/66 (57%), Positives = 54/66 (81%), Gaps = 1/66 (1%)

Query: 176 RVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQK 235
           +VRA+RG AT P SIAER+RR RI++R++ LQ+LVPN +K T+ A ML+E ++YVKFLQ 
Sbjct: 129 KVRARRGQATDPHSIAERLRRERIAERMKSLQELVPNGNK-TDKASMLDEIIDYVKFLQL 187

Query: 236 QIEELT 241
           Q++ L+
Sbjct: 188 QVKVLS 193

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GY61|BH063_ARATH Transcription factor bHLH63 OS=Arabidopsis thaliana GN=BHLH63 PE=2 SV=1

 Score = 80.1 bits (196), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/75 (56%), Positives = 53/75 (70%)

Query: 167 KLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEA 226
           K LE +    VRA+RG AT   SIAERVRR +IS+R++ LQDLVP  DK T  A ML+E 
Sbjct: 162 KELEKTDYIHVRARRGQATDSHSIAERVRREKISERMKFLQDLVPGCDKITGKAGMLDEI 221

Query: 227 VEYVKFLQKQIEELT 241
           + YV+ LQ+QIE L+
Sbjct: 222 INYVQSLQRQIEFLS 236

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	253
449447621	244	PREDICTED: transcription factor bHLH80-l	0.841	0.872	0.615	5e-68
224145129	246	predicted protein [Populus trichocarpa]	0.897	0.922	0.580	3e-66
297846606	256	basic helix-loop-helix family protein [A	0.841	0.832	0.597	7e-66
15219606	259	transcription factor bHLH80 [Arabidopsis	0.837	0.818	0.585	3e-65
224136007	264	predicted protein [Populus trichocarpa]	0.968	0.928	0.599	6e-63
297809111	263	basic helix-loop-helix family protein [A	0.853	0.821	0.610	4e-61
15233768	262	transcription factor bHLH81 [Arabidopsis	0.830	0.801	0.595	1e-59
222080621	259	bHLH transcription factor MYC4 [Catharan	0.845	0.826	0.533	1e-58
225460440	251	PREDICTED: transcription factor bHLH80-l	0.905	0.912	0.527	5e-56
296089503	181	unnamed protein product [Vitis vinifera]	0.640	0.895	0.625	4e-52

>gi|449447621|ref|XP_004141566.1| PREDICTED: transcription factor bHLH80-like [Cucumis sativus] gi|449522500|ref|XP_004168264.1| PREDICTED: transcription factor bHLH80-like [Cucumis sativus]

 Score =  263 bits (672), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 144/234 (61%), Positives = 165/234 (70%), Gaps = 21/234 (8%)

Query: 28  GGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLS--SGDPVSVTAGLSLSQSQLDQV 85
            GLAR RSAPA+W++ALLE++ EDPLKPN CLTQLL+  S D  S  A   L        
Sbjct: 24  AGLARFRSAPAAWLEALLEDDEEDPLKPNPCLTQLLAANSSDLDSAPADHPLFDPN-PSP 82

Query: 86  GFQRQNSSPADLF------DGYFSNYATPSSYDYVDVSPNSNKRAREDNNTQFPSPTAKL 139
            F RQNSSP +        +G++++Y   SS   +D+SP S      D    FP      
Sbjct: 83  AFHRQNSSPPEFLAPSGIAEGFYTSYPLNSS-PTLDISPTSKPSTDVDAQNFFP------ 135

Query: 140 NFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRI 199
            F   LK E SG     VS+L+DM+MEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRI
Sbjct: 136 KFSPQLKREGSG-----VSSLIDMEMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRI 190

Query: 200 SDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
           SDRIRKLQ++VPNMDKQTNTADMLEEAVEYVKFLQKQI+ELTEHQRRCKC  K+
Sbjct: 191 SDRIRKLQEVVPNMDKQTNTADMLEEAVEYVKFLQKQIQELTEHQRRCKCMVKE 244

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145129|ref|XP_002325537.1| predicted protein [Populus trichocarpa] gi|222862412|gb|EEE99918.1| predicted protein [Populus trichocarpa]

 Score =  257 bits (657), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 158/272 (58%), Positives = 187/272 (68%), Gaps = 45/272 (16%)

Query: 1   MQPTAGGSSSSSGGGGGGVGGRGELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLT 60
           MQPT  GSS++S GGG   GG      GG+AR RSAPA+WI+ALL EE EDPLK +Q LT
Sbjct: 1   MQPTPAGSSNTSAGGGSAGGG----GGGGIARFRSAPATWIEALLGEEEEDPLKQSQNLT 56

Query: 61  QLLSSGDP-----VSVTAGLSLSQSQLDQV--GFQRQNSSPADLF--------DGYFSNY 105
           +LL+S  P     V   A  +  +  L +   GFQRQNSSP D           GYFS+Y
Sbjct: 57  ELLTSNTPSSRDSVPFNASSAAVEPGLFEPVGGFQRQNSSPTDFLRSSGIGSDQGYFSSY 116

Query: 106 ATPSSYDYV----DVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLV 161
              S+Y+Y+    DVSP S+KRARE                   K EQ+G  P   S+L+
Sbjct: 117 GNASNYEYMTPNMDVSP-SDKRARE-------------------KGEQTG--PLRASSLI 154

Query: 162 DMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTAD 221
           +M+M+KLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQ+LVPNMDKQTNTAD
Sbjct: 155 EMEMDKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQELVPNMDKQTNTAD 214

Query: 222 MLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
           ML+EA+ YVKFLQ+QI+ELTE QR+CKC AK+
Sbjct: 215 MLDEALAYVKFLQRQIQELTEQQRKCKCIAKE 246

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297846606|ref|XP_002891184.1| basic helix-loop-helix family protein [Arabidopsis lyrata subsp. lyrata] gi|297337026|gb|EFH67443.1| basic helix-loop-helix family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  256 bits (654), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 150/251 (59%), Positives = 177/251 (70%), Gaps = 38/251 (15%)

Query: 24  ELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLSSGD----------PVSVTA 73
           E+SR GL+R+RSAPA+WI+ LLEE+ E+ LKPN CLT+LL+  +          P SV  
Sbjct: 21  EVSRSGLSRIRSAPATWIETLLEEDEEEGLKPNLCLTELLTGNNSGGVITSHEFPSSVEQ 80

Query: 74  GLSLSQSQLDQVGFQRQNSSPADLF-------DGYFSNYATPSSYDY----VDVSPNSNK 122
           GL     Q    GF RQNSSPAD         DGYFS++  P++YDY    VD+SP   K
Sbjct: 81  GLYNYNHQGG--GFHRQNSSPADFLSGSGVGTDGYFSSFGIPANYDYLSTNVDISPT--K 136

Query: 123 RAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRG 182
           R+R D  TQF S          LK EQ   + GGVS ++DM+M+KL+E SVPCRVRAKRG
Sbjct: 137 RSR-DMETQFSS---------QLKEEQ---MSGGVSGMMDMNMDKLIEGSVPCRVRAKRG 183

Query: 183 CATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTE 242
           CATHPRSIAERVRRTRISDRIR+LQ+LVPNMDKQTNTADMLEEAVEYVK LQ QI+ELTE
Sbjct: 184 CATHPRSIAERVRRTRISDRIRRLQELVPNMDKQTNTADMLEEAVEYVKALQGQIQELTE 243

Query: 243 HQRRCKCSAKD 253
            Q+RCKC  K+
Sbjct: 244 QQKRCKCKPKE 254

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15219606|ref|NP_174776.1| transcription factor bHLH80 [Arabidopsis thaliana] gi|75308885|sp|Q9C8P8.1|BH080_ARATH RecName: Full=Transcription factor bHLH80; AltName: Full=Basic helix-loop-helix protein 80; Short=AtbHLH80; Short=bHLH 80; AltName: Full=Transcription factor EN 71; AltName: Full=bHLH transcription factor bHLH080 gi|12324283|gb|AAG52112.1|AC023064_5 helix-loop-helix protein 1A, putative; 28707-26892 [Arabidopsis thaliana] gi|15724178|gb|AAL06481.1|AF411791_1 At1g35460/F12A4_2 [Arabidopsis thaliana] gi|20127088|gb|AAM10958.1|AF488612_1 putative bHLH transcription factor [Arabidopsis thaliana] gi|20147401|gb|AAM10410.1| At1g35460/F12A4_2 [Arabidopsis thaliana] gi|332193674|gb|AEE31795.1| transcription factor bHLH80 [Arabidopsis thaliana]

 Score =  254 bits (649), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 150/256 (58%), Positives = 178/256 (69%), Gaps = 44/256 (17%)

Query: 24  ELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLTQLLS----SGDPV---------- 69
           E+SR GL+R+RSAPA+WI+ LLEE+ E+ LKPN CLT+LL+    SG  +          
Sbjct: 20  EVSRSGLSRIRSAPATWIETLLEEDEEEGLKPNLCLTELLTGNNNSGGVITSRDDSFEFL 79

Query: 70  -SVTAGLSLSQSQLDQVGFQRQNSSPADLF-------DGYFSNYATPSSYDY----VDVS 117
            SV  GL    +     GF RQNSSPAD         DGYFSN+  P++YDY    VD+S
Sbjct: 80  SSVEQGL---YNHHQGGGFHRQNSSPADFLSGSGSGTDGYFSNFGIPANYDYLSTNVDIS 136

Query: 118 PNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRV 177
           P   KR+R D  TQF S          LK EQ   + GG+S ++DM+M+K+ EDSVPCRV
Sbjct: 137 PT--KRSR-DMETQFSS---------QLKEEQ---MSGGISGMMDMNMDKIFEDSVPCRV 181

Query: 178 RAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQI 237
           RAKRGCATHPRSIAERVRRTRISDRIR+LQ+LVPNMDKQTNTADMLEEAVEYVK LQ QI
Sbjct: 182 RAKRGCATHPRSIAERVRRTRISDRIRRLQELVPNMDKQTNTADMLEEAVEYVKALQSQI 241

Query: 238 EELTEHQRRCKCSAKD 253
           +ELTE Q+RCKC  K+
Sbjct: 242 QELTEQQKRCKCKPKE 257

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136007|ref|XP_002327358.1| predicted protein [Populus trichocarpa] gi|222835728|gb|EEE74163.1| predicted protein [Populus trichocarpa]

 Score =  246 bits (629), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 163/272 (59%), Positives = 197/272 (72%), Gaps = 27/272 (9%)

Query: 1   MQPTAGGSSSSSGGGGGGVGGRGELSRGGLARLRSAPASWIDALLEEELEDPLKPNQCLT 60
           M P   GSS++SGGG GG GG G    GGL RLRSAPA+W+ ALLEEE EDPLK NQ LT
Sbjct: 1   MHPAPAGSSNTSGGGCGGGGGGGGGGGGGLPRLRSAPATWLLALLEEEEEDPLKQNQNLT 60

Query: 61  QLLSSGDPVSV-TAGLSLSQSQLDQ------VGFQRQNSSPADLF--------DGYFSNY 105
           QLL+S  P S  +A  + S + ++        GFQRQNSSPAD           GYFSNY
Sbjct: 61  QLLTSNAPSSRNSAPFNASSAAVEPGLYETGSGFQRQNSSPADFLGNSGIGSDQGYFSNY 120

Query: 106 ATPSSYDYV----DVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLV 161
              S+Y+Y+    +VSP S KRARE    +  +P A+  +   LK  Q+G +    S+L+
Sbjct: 121 GIASNYEYMPPNMEVSP-SAKRARE---LELQNPPAR--YPPPLKGAQTGSL--RASSLI 172

Query: 162 DMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTAD 221
           +M+M+KLLE+SVPC++RAKRGCATHPRSIAERVRRTRISDRIRKLQ+LVPNMDKQTNTAD
Sbjct: 173 EMEMDKLLEESVPCKIRAKRGCATHPRSIAERVRRTRISDRIRKLQELVPNMDKQTNTAD 232

Query: 222 MLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
           MLEEAV+YVKFLQ+QI+ELTE QR+CKC AK+
Sbjct: 233 MLEEAVDYVKFLQRQIQELTEQQRKCKCMAKE 264

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809111|ref|XP_002872439.1| basic helix-loop-helix family protein [Arabidopsis lyrata subsp. lyrata] gi|297318276|gb|EFH48698.1| basic helix-loop-helix family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  240 bits (612), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 144/236 (61%), Positives = 172/236 (72%), Gaps = 20/236 (8%)

Query: 32  RLRSAPASWIDALLEEELEDPLKPNQCLTQLLS--SGD-PVSVTAG---LSLSQSQLDQV 85
           R+RSAPA+W++ALLEE+ E+ LKPN  LT LL+  S D P S ++    + + Q    Q 
Sbjct: 33  RIRSAPATWLEALLEEDEEESLKPNLGLTDLLTGNSNDLPTSRSSFEFPIPVEQGLYQQG 92

Query: 86  GFQRQNSSPADLF---DGYFSNYATPSSYDY----VDVSPNSNKRAREDNNTQFPSPTAK 138
           GF RQNS+PAD     DG+  ++  P++YDY    +DVSP S KR+RE     F SP   
Sbjct: 93  GFHRQNSTPADFLSGSDGFIQSFGIPANYDYLSGNIDVSPGS-KRSRE-MEALFSSP--- 147

Query: 139 LNFHSHLKVEQS-GQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRT 197
             F S +K EQS GQVP GVS + DM+ME L+EDSV  RVRAKRGCATHPRSIAERVRRT
Sbjct: 148 -EFTSQMKGEQSSGQVPAGVSGMTDMNMENLMEDSVAFRVRAKRGCATHPRSIAERVRRT 206

Query: 198 RISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
           RISDRIRKLQ+LVPNMDKQTNTADMLEEAVEYVK LQ+QI+ELTE Q+RC C  K+
Sbjct: 207 RISDRIRKLQELVPNMDKQTNTADMLEEAVEYVKVLQRQIQELTEEQKRCTCIPKE 262

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15233768|ref|NP_192657.1| transcription factor bHLH81 [Arabidopsis thaliana] gi|75311758|sp|Q9M0R0.1|BH081_ARATH RecName: Full=Transcription factor bHLH81; AltName: Full=Basic helix-loop-helix protein 81; Short=AtbHLH81; Short=bHLH 81; AltName: Full=Transcription factor EN 72; AltName: Full=bHLH transcription factor bHLH081 gi|7267561|emb|CAB78042.1| putative protein [Arabidopsis thaliana] gi|34146832|gb|AAQ62424.1| At4g09180 [Arabidopsis thaliana] gi|110741264|dbj|BAF02182.1| putative bHLH transcription factor [Arabidopsis thaliana] gi|332657332|gb|AEE82732.1| transcription factor bHLH81 [Arabidopsis thaliana]

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 144/242 (59%), Positives = 170/242 (70%), Gaps = 32/242 (13%)

Query: 32  RLRSAPASWIDALLEEELEDPLKPNQCLTQLLS--SGD----------PVSVTAGLSLSQ 79
           R+RSAPA+W++ALLEE+ E+ LKPN  LT LL+  S D          P+ V  GL    
Sbjct: 31  RIRSAPATWLEALLEEDEEESLKPNLGLTDLLTGNSNDLPTSRGSFEFPIPVEQGL---- 86

Query: 80  SQLDQVGFQRQNSSPADLF---DGYFSNYATPSSYDY----VDVSPNSNKRAREDNNTQF 132
               Q GF RQNS+PAD     DG+  ++   ++YDY    +DVSP S KR+RE     F
Sbjct: 87  --YQQGGFHRQNSTPADFLSGSDGFIQSFGIQANYDYLSGNIDVSPGS-KRSRE-MEALF 142

Query: 133 PSPTAKLNFHSHLKVEQS-GQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIA 191
            SP     F S +K EQS GQVP GVS++ DM+ME L+EDSV  RVRAKRGCATHPRSIA
Sbjct: 143 SSP----EFTSQMKGEQSSGQVPTGVSSMSDMNMENLMEDSVAFRVRAKRGCATHPRSIA 198

Query: 192 ERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSA 251
           ERVRRTRISDRIRKLQ+LVPNMDKQTNTADMLEEAVEYVK LQ+QI+ELTE Q+RC C  
Sbjct: 199 ERVRRTRISDRIRKLQELVPNMDKQTNTADMLEEAVEYVKVLQRQIQELTEEQKRCTCIP 258

Query: 252 KD 253
           K+
Sbjct: 259 KE 260

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222080621|gb|ACM41587.1| bHLH transcription factor MYC4 [Catharanthus roseus]

 Score =  232 bits (592), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 135/253 (53%), Positives = 166/253 (65%), Gaps = 39/253 (15%)

Query: 30  LARLRSAPASWIDALLEEELED--------------PLKP------NQCLTQLLSSGDPV 69
           LAR RSAPA+W++ALLE+E  D              PL P          T++ S+G   
Sbjct: 17  LARFRSAPATWLEALLEDEETDVVLDPPVLATSNKPPLHPPVGASSQPQSTEVSSAGGRY 76

Query: 70  SVTAGL--SLSQSQLDQVGFQRQNSSPADLF-DGYFSNYATPSSYDYV------DVSPNS 120
           +   GL  S+        G  RQNSSPA+   DGYFS++  P++YDY+      DVS + 
Sbjct: 77  AADLGLLDSVGSGAGGLSGLLRQNSSPAEFLSDGYFSSFGIPTNYDYLMSSSPLDVSESP 136

Query: 121 NKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAK 180
           +KR RE ++    +  A +           G+  GG+S L+D +M+KL EDSV CRVRAK
Sbjct: 137 SKRPREADSNAAKASLAVVK----------GEQGGGISGLLDAEMDKLAEDSVLCRVRAK 186

Query: 181 RGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEEL 240
           RGCATHPRSIAERVRRTRISDRIRKLQ+LVPNMDKQTNTADMLEEAVEYVKFLQKQI+EL
Sbjct: 187 RGCATHPRSIAERVRRTRISDRIRKLQELVPNMDKQTNTADMLEEAVEYVKFLQKQIQEL 246

Query: 241 TEHQRRCKCSAKD 253
           TE Q++CKCSAK+
Sbjct: 247 TEQQKKCKCSAKE 259

Source: Catharanthus roseus

Species: Catharanthus roseus

Genus: Catharanthus

Family: Apocynaceae

Order: Gentianales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460440|ref|XP_002271390.1| PREDICTED: transcription factor bHLH80-like [Vitis vinifera]

 Score =  223 bits (569), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 145/275 (52%), Positives = 179/275 (65%), Gaps = 46/275 (16%)

Query: 1   MQPTAGGSSSSSGGGGGGVGGRGELSRGGLARLRSAPASWIDALLEEELEDPL-----KP 55
           MQPT GG                E++R  LAR RSAPA+W+D LLEEE  +       KP
Sbjct: 1   MQPTRGG----------------EVNR--LARFRSAPATWLDTLLEEEEGEEEDDDSLKP 42

Query: 56  NQCLTQLLSSGDPVSVTAGLSLSQSQLDQV------GFQRQNSSPADLF------DGYFS 103
            Q LTQLL+     +  +G  +  S           GF RQ+S P +        +GYFS
Sbjct: 43  TQSLTQLLAGSGGPAGGSGGYIPASDPSMFDGAGAQGFLRQSSLPTEFLSQINSSEGYFS 102

Query: 104 NYATPSSYDY-----VDVSPNSNKRAREDNNTQFPSPTAKLNFHSHLKVEQSGQVPGGVS 158
           ++  P+ +DY     VD SP + KRARE       S ++   F S  K EQS ++ G V+
Sbjct: 103 SFGIPAGFDYAASPAVDGSP-TGKRARE-----LESRSSSRKFSSQSKGEQSSRLTGSVA 156

Query: 159 NLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTN 218
           +L+D+DMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQ+LVPNMDKQTN
Sbjct: 157 SLLDVDMEKLLEDSVPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQELVPNMDKQTN 216

Query: 219 TADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
           TADMLEEAVEYVKFLQ++I+EL+EHQ++C C A++
Sbjct: 217 TADMLEEAVEYVKFLQQKIQELSEHQKKCTCLARE 251

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089503|emb|CBI39322.3| unnamed protein product [Vitis vinifera]

 Score =  210 bits (535), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 112/179 (62%), Positives = 137/179 (76%), Gaps = 17/179 (9%)

Query: 86  GFQRQNSSPADLF------DGYFSNYATPSSYDY-----VDVSPNSNKRAREDNNTQFPS 134
           GF RQ+S P +        +GYFS++  P+ +DY     VD SP + KRARE       S
Sbjct: 9   GFLRQSSLPTEFLSQINSSEGYFSSFGIPAGFDYAASPAVDGSP-TGKRARE-----LES 62

Query: 135 PTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAERV 194
            ++   F S  K EQS ++ G V++L+D+DMEKLLEDSVPCRVRAKRGCATHPRSIAERV
Sbjct: 63  RSSSRKFSSQSKGEQSSRLTGSVASLLDVDMEKLLEDSVPCRVRAKRGCATHPRSIAERV 122

Query: 195 RRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
           RRTRISDRIRKLQ+LVPNMDKQTNTADMLEEAVEYVKFLQ++I+EL+EHQ++C C A++
Sbjct: 123 RRTRISDRIRKLQELVPNMDKQTNTADMLEEAVEYVKFLQQKIQELSEHQKKCTCLARE 181

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	253
TAIR|locus:2141573	262	FBH2 "AT4G09180" [Arabidopsis	0.833	0.805	0.528	1.2e-49
TAIR|locus:2008693	259	FBH1 "AT1G35460" [Arabidopsis	0.798	0.779	0.508	6.7e-49
TAIR|locus:2026037	379	FBH3 "AT1G51140" [Arabidopsis	0.347	0.232	0.613	2e-28
TAIR|locus:2059979	359	FBH4 "AT2G42280" [Arabidopsis	0.679	0.479	0.402	3.2e-26
TAIR|locus:505006103	362	AT1G05805 "AT1G05805" [Arabido	0.462	0.323	0.483	1.3e-25
UNIPROTKB|Q8S490	150	rau1 "Transcription factor RAU	0.347	0.586	0.6	2.6e-24
UNIPROTKB|Q7XT55	218	OSJNBa0084K20.3 "OSJNBa0076N16	0.494	0.573	0.459	2.4e-21
UNIPROTKB|Q6Z7E7	524	P0020C11.18 "Putative bHLH tra	0.256	0.124	0.515	4.1e-12
TAIR|locus:2183078	173	SRS8 "AT5G33210" [Arabidopsis	0.126	0.184	0.875	3.5e-11
TAIR|locus:2147760	297	LRL3 "AT5G58010" [Arabidopsis	0.256	0.218	0.5	1.1e-09

TAIR|locus:2141573 FBH2 "AT4G09180" [Arabidopsis thaliana (taxid:3702)]

 Score = 517 (187.1 bits), Expect = 1.2e-49, P = 1.2e-49
 Identities = 122/231 (52%), Positives = 148/231 (64%)

Query:    37 PASWIDAXXXXXXXDPLKPNQCLTQLLS--SGD-PVSVTA---GLSLSQSQLDQVGFQRQ 90
             PA+W++A       + LKPN  LT LL+  S D P S  +    + + Q    Q GF RQ
Sbjct:    36 PATWLEALLEEDEEESLKPNLGLTDLLTGNSNDLPTSRGSFEFPIPVEQGLYQQGGFHRQ 95

Query:    91 NSSPADLF---DGYFSNYATPSSYDY----VDVSPNSNKRAREDNNTQFPSPTAKLNFHS 143
             NS+PAD     DG+  ++   ++YDY    +DVSP S KR+RE     F SP     F S
Sbjct:    96 NSTPADFLSGSDGFIQSFGIQANYDYLSGNIDVSPGS-KRSRE-MEALFSSP----EFTS 149

Query:   144 HLKVEQS-GQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAEXXXXXXXXXX 202
              +K EQS GQVP GVS++ DM+ME L+EDSV  RVRAKRGCATHPRSIAE          
Sbjct:   150 QMKGEQSSGQVPTGVSSMSDMNMENLMEDSVAFRVRAKRGCATHPRSIAERVRRTRISDR 209

Query:   203 XXKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
               KLQ+LVPNMDKQTNTADMLEEAVEYVK LQ+QI+ELTE Q+RC C  K+
Sbjct:   210 IRKLQELVPNMDKQTNTADMLEEAVEYVKVLQRQIQELTEEQKRCTCIPKE 260

GO:0003677 "DNA binding" evidence=ISS

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

TAIR|locus:2008693 FBH1 "AT1G35460" [Arabidopsis thaliana (taxid:3702)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 122/240 (50%), Positives = 148/240 (61%)

Query:    37 PASWIDAXXXXXXXDPLKPNQCLTQLLS----SGDPVSVTAGLSLSQSQLDQV------- 85
             PA+WI+        + LKPN CLT+LL+    SG  ++         S ++Q        
Sbjct:    33 PATWIETLLEEDEEEGLKPNLCLTELLTGNNNSGGVITSRDDSFEFLSSVEQGLYNHHQG 92

Query:    86 -GFQRQNSSPADLF-------DGYFSNYATPSSYDY----VDVSPNSNKRAREDNNTQFP 133
              GF RQNSSPAD         DGYFSN+  P++YDY    VD+SP   KR+R D  TQF 
Sbjct:    93 GGFHRQNSSPADFLSGSGSGTDGYFSNFGIPANYDYLSTNVDISPT--KRSR-DMETQFS 149

Query:   134 SPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIAEX 193
             S          LK EQ   + GG+S ++DM+M+K+ EDSVPCRVRAKRGCATHPRSIAE 
Sbjct:   150 S---------QLKEEQ---MSGGISGMMDMNMDKIFEDSVPCRVRAKRGCATHPRSIAER 197

Query:   194 XXXXXXXXXXXKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSAKD 253
                        +LQ+LVPNMDKQTNTADMLEEAVEYVK LQ QI+ELTE Q+RCKC  K+
Sbjct:   198 VRRTRISDRIRRLQELVPNMDKQTNTADMLEEAVEYVKALQSQIQELTEQQKRCKCKPKE 257

GO:0003677 "DNA binding" evidence=ISS

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

TAIR|locus:2026037 FBH3 "AT1G51140" [Arabidopsis thaliana (taxid:3702)]

 Score = 292 (107.8 bits), Expect = 2.0e-28, Sum P(2) = 2.0e-28
 Identities = 54/88 (61%), Positives = 68/88 (77%)

Query:   164 DMEKLLEDSVPCRVRAKRGCATHPRSIAEXXXXXXXXXXXXKLQDLVPNMDKQTNTADML 223
             D+E+LL DS+PC++RAKRGCATHPRSIAE            KLQDLVPNMD QTNTADML
Sbjct:   291 DIEQLLSDSIPCKIRAKRGCATHPRSIAERVRRTKISERMRKLQDLVPNMDTQTNTADML 350

Query:   224 EEAVEYVKFLQKQIEELTEHQRRCKCSA 251
             + AV+Y+K LQ+Q++ L E + RC+CS+
Sbjct:   351 DLAVQYIKDLQEQVKALEESRARCRCSS 378

GO:0003677 "DNA binding" evidence=ISS

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

GO:0048573 "photoperiodism, flowering" evidence=IMP

TAIR|locus:2059979 FBH4 "AT2G42280" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 74/184 (40%), Positives = 103/184 (55%)

Query:    76 SLSQSQLDQVGFQRQNSSPADLFDGYFSNYATPSSYDYVDVSPNSNKRAREDNNTQF--- 132
             SLS      +G   Q    A   +  +S++  PSS+  +D + +S KR  ED+   F   
Sbjct:   178 SLSSRPPSSLGMLSQIPEIAPETNFPYSHWNDPSSF--ID-NLSSLKREAEDDGKLFLGA 234

Query:   133 ---PSPTAKLNFHSHLKVEQSGQVPGGVSNLVDMDMEKLLEDSVPCRVRAKRGCATHPRS 189
                 S         HL + +S       S++V +D    L+DSVPC++RAKRGCATHPRS
Sbjct:   235 QNGESGNRMQLLSHHLSLPKSSST---ASDMVSVDKYLQLQDSVPCKIRAKRGCATHPRS 291

Query:   190 IAEXXXXXXXXXXXXKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKC 249
             IAE            KLQ+LVPNMDKQTNT+DML+ AV+Y+K LQ+Q + L +++  CKC
Sbjct:   292 IAERVRRTRISERMRKLQELVPNMDKQTNTSDMLDLAVDYIKDLQRQYKILNDNRANCKC 351

Query:   250 SAKD 253
               K+
Sbjct:   352 MNKE 355

GO:0003677 "DNA binding" evidence=ISS

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

GO:0048573 "photoperiodism, flowering" evidence=IMP

GO:0046685 "response to arsenic-containing substance" evidence=RCA

TAIR|locus:505006103 AT1G05805 "AT1G05805" [Arabidopsis thaliana (taxid:3702)]

 Score = 261 (96.9 bits), Expect = 1.3e-25, Sum P(2) = 1.3e-25
 Identities = 59/122 (48%), Positives = 77/122 (63%)

Query:   133 PSPTAKLNFHSHLKVEQSGQVPGGVS-NLVDMDMEKLLEDSVPCRVRAKRGCATHPRSIA 191
             PS  +K +  S L  + S  +P   S N +D  M+ L EDSVPC++RAKRGCATHPRSIA
Sbjct:   242 PSKRSK-DMDSGLFSQYS--LPSDTSMNYMDNFMQ-LPEDSVPCKIRAKRGCATHPRSIA 297

Query:   192 EXXXXXXXXXXXXKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCSA 251
             E            KLQDLVPNMDKQT+ +DML+ AV+++K LQ Q++ L + Q  C C  
Sbjct:   298 ERERRTRISGKLKKLQDLVPNMDKQTSYSDMLDLAVQHIKGLQHQLQNLKKDQENCTCGC 357

Query:   252 KD 253
              +
Sbjct:   358 SE 359

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005829 "cytosol" evidence=IDA

UNIPROTKB|Q8S490 rau1 "Transcription factor RAU1" [Oryza sativa (taxid:4530)]

 Score = 278 (102.9 bits), Expect = 2.6e-24, P = 2.6e-24
 Identities = 54/90 (60%), Positives = 67/90 (74%)

Query:   165 MEKLLE--DSVPCRVRAKRGCATHPRSIAEXXXXXXXXXXXXKLQDLVPNMDKQTNTADM 222
             +EK L+  D+VPC++RAKRGCATHPRSIAE            KLQ+LVPNMDKQTNTADM
Sbjct:    55 IEKFLQFQDAVPCKIRAKRGCATHPRSIAERVRRTRISERIRKLQELVPNMDKQTNTADM 114

Query:   223 LEEAVEYVKFLQKQIEELTEHQRRCKCSAK 252
             L+ AV+Y+K LQKQ++ L + +  C CSAK
Sbjct:   115 LDLAVDYIKDLQKQVKGLNDSRANCTCSAK 144

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q7XT55 OSJNBa0084K20.3 "OSJNBa0076N16.1 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 250 (93.1 bits), Expect = 2.4e-21, P = 2.4e-21
 Identities = 62/135 (45%), Positives = 82/135 (60%)

Query:   126 EDNNT-QFPSPTAKLNFHSHLKVEQSGQVPGGVSNLV---DM-DMEKLLE---DSVPCRV 177
             ED+N+  F + T K   H +  +  +  +    S LV   +M  +EK L+   D VP RV
Sbjct:    77 EDSNSIVFSTSTGKSGAHGNDDIIAT--LSNYESQLVAPREMAGVEKYLQMQHDQVPFRV 134

Query:   178 RAKRGCATHPRSIAEXXXXXXXXXXXXKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQI 237
             RAKRGCATHPRSIAE            KLQ LVPNMDKQT+T+DML+ AV+++K LQ Q+
Sbjct:   135 RAKRGCATHPRSIAERERRTRISEKLRKLQALVPNMDKQTSTSDMLDLAVDHIKGLQSQL 194

Query:   238 EELTEHQRRCKCSAK 252
             + L E + +C CS K
Sbjct:   195 QTLKEDKEKCTCSCK 209

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q6Z7E7 P0020C11.18 "Putative bHLH transcription factor PTF1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 151 (58.2 bits), Expect = 4.1e-12, Sum P(2) = 4.1e-12
 Identities = 34/66 (51%), Positives = 43/66 (65%)

Query:   176 RVRAKRGCATHPRSIAEXXXXXXXXXXXXKLQDLVPNMDKQTNTADMLEEAVEYVKFLQK 235
             RVRA+RG AT P SIAE             LQ+LVPN +K TN A ML+E ++YVKFLQ 
Sbjct:   313 RVRARRGQATDPHSIAERLRREKISDRMKDLQELVPNSNK-TNKASMLDEIIDYVKFLQL 371

Query:   236 QIEELT 241
             Q++ L+
Sbjct:   372 QVKVLS 377

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2183078 SRS8 "AT5G33210" [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/32 (87%), Positives = 31/32 (96%)

Query:   161 VDMDMEKLLEDSVPCRVRAKRGCATHPRSIAE 192
             +DM+MEK+ EDSVPCRVRAKRGCATHPRSIAE
Sbjct:     1 MDMNMEKIFEDSVPCRVRAKRGCATHPRSIAE 32

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2147760 LRL3 "AT5G58010" [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 33/66 (50%), Positives = 43/66 (65%)

Query:   176 RVRAKRGCATHPRSIAEXXXXXXXXXXXXKLQDLVPNMDKQTNTADMLEEAVEYVKFLQK 235
             RVRA+RG AT P SIAE             LQ+LVPN +K T+ A ML+E +EYV+FLQ 
Sbjct:    98 RVRARRGQATDPHSIAERLRRERIAERMKSLQELVPNTNK-TDKASMLDEIIEYVRFLQL 156

Query:   236 QIEELT 241
             Q++ L+
Sbjct:   157 QVKVLS 162

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

GO:0080147 "root hair cell development" evidence=IMP

---

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)
Q9C8P8	BH080_ARATH	No assigned EC number	0.5859	0.8379	0.8185	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	253
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	4e-12
smart00353	53	smart00353, HLH, helix loop helix domain	3e-11
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	3e-09

>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 = 59.5 bits (145), Expect = 4e-12
 Identities = 19/54 (35%), Positives = 36/54 (66%), Gaps = 2/54 (3%)

Query: 187 PRSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE 238
             ++ ER RR RI+D   +L+ L+P +   K+ + A++L +AV+Y+K LQ+ ++
Sbjct: 7   AHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 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 = 56.8 bits (138), Expect = 3e-11
 Identities = 17/53 (32%), Positives = 36/53 (67%), Gaps = 2/53 (3%)

Query: 189 SIAERVRRTRISDRIRKLQDLVP--NMDKQTNTADMLEEAVEYVKFLQKQIEE 239
           +  ER RR +I++   +L+ L+P    +K+ + A++L  A+EY+K LQ+++++
Sbjct: 1   NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQK 53

Length = 53

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

 Score = 51.3 bits (124), Expect = 3e-09
 Identities = 19/47 (40%), Positives = 32/47 (68%), Gaps = 1/47 (2%)

Query: 189 SIAERVRRTRISDRIRKLQDLVPN-MDKQTNTADMLEEAVEYVKFLQ 234
           +  ER RR RI+D   +L++L+P   +K+ + A++L  A+EY+K LQ
Sbjct: 6   NERERRRRDRINDAFEELRELLPTPPNKKLSKAEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	253
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.46
smart00353	53	HLH helix loop helix domain.	99.41
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.4
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	99.24
KOG1318	411	consensus Helix loop helix transcription factor EB	99.21
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.59
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	98.49
KOG3960	284	consensus Myogenic helix-loop-helix transcription	98.46
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.38
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	98.06
KOG4029	228	consensus Transcription factor HAND2/Transcription	97.7
KOG0561	373	consensus bHLH transcription factor [Transcription	97.7
PLN03217	93	transcription factor ATBS1; Provisional	97.43
KOG3910	632	consensus Helix loop helix transcription factor [T	96.46
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	92.52
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	89.66
KOG3559	598	consensus Transcriptional regulator SIM1 [Transcri	84.82
KOG4395	285	consensus Transcription factor Atonal, contains HT	82.21

>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=1.2e-13  Score=96.73  Aligned_cols=53  Identities=36%  Similarity=0.673  Sum_probs=48.7

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCCC--CCCCChhhHHHHHHHHHHHHHHHHH
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE  238 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~~--~Kk~DKAsILeeAIdYIk~LQ~qVk  238 (253)
                      ..|+.+||+||++||+.|..|+++||..  ..++||++||+.||+||++|+.+++
T Consensus         6 ~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~   60 (60)
T cd00083           6 EAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ   60 (60)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            4599999999999999999999999999  3559999999999999999999863

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=99.41  E-value=4.8e-13  Score=92.43  Aligned_cols=50  Identities=34%  Similarity=0.664  Sum_probs=45.1

Q ss_pred             cHHHHHHHHHHHHHHHHHhhhcCCC--CCCCChhhHHHHHHHHHHHHHHHHH
Q 025407          189 SIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE  238 (253)
Q Consensus       189 siaERrRRerINer~~~LrsLVP~~--~Kk~DKAsILeeAIdYIk~LQ~qVk  238 (253)
                      +.+||+||++||+.|..|+.+||.+  ..++||++||.+||+||+.|+.+++
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            4689999999999999999999963  3348999999999999999999886

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

Probab=99.40  E-value=4.2e-13  Score=94.22  Aligned_cols=48  Identities=35%  Similarity=0.639  Sum_probs=44.8

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCCC----CCCCChhhHHHHHHHHHHHHH
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPNM----DKQTNTADMLEEAVEYVKFLQ  234 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~~----~Kk~DKAsILeeAIdYIk~LQ  234 (253)
                      .|+..||+||++||+.|..|+.+||.+    ..+++|++||+.||+||++||
T Consensus         4 ~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    4 KHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            489999999999999999999999997    345999999999999999997

; 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 ....

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=99.24  E-value=5.3e-12  Score=111.93  Aligned_cols=88  Identities=25%  Similarity=0.333  Sum_probs=65.0

Q ss_pred             CCCCCccchhhhhhhccCC--CccccCcCCCCCCCCcHHHHHHHHHHHHHHHHHhhhcCCCCC------CCChhhHHHHH
Q 025407          155 GGVSNLVDMDMEKLLEDSV--PCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDK------QTNTADMLEEA  226 (253)
Q Consensus       155 ~ssSs~~~~~~Ek~~~d~v--~~k~r~Kr~~a~~~HsiaERrRRerINer~~~LrsLVP~~~K------k~DKAsILeeA  226 (253)
                      +++++.++.++++..--+.  ...++.+|+.   .|..+||+||+.||..+..|++|||.|..      ++.||.||..+
T Consensus        34 tsssSApNtdd~ds~~hS~a~k~syk~rrr~---aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqks  110 (229)
T KOG1319|consen   34 TSASSAPNTDDEDSDYHSEAYKESYKDRRRR---AHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKT  110 (229)
T ss_pred             CCCCCCCCCCcccccchhHHHHhhHHHHHHH---HHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHH
Confidence            3445566666655431111  1223444443   49999999999999999999999998764      36799999999


Q ss_pred             HHHHHHHHHHHHHHHHHHh
Q 025407          227 VEYVKFLQKQIEELTEHQR  245 (253)
Q Consensus       227 IdYIk~LQ~qVk~Le~e~~  245 (253)
                      |+||.+|..++.+.+++..
T Consensus       111 idyi~~L~~~k~kqe~e~s  129 (229)
T KOG1319|consen  111 IDYIQFLHKEKKKQEEEVS  129 (229)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999888777654

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

Probab=99.21  E-value=2.3e-11  Score=117.40  Aligned_cols=60  Identities=27%  Similarity=0.541  Sum_probs=51.8

Q ss_pred             CcCCCCCCCCcHHHHHHHHHHHHHHHHHhhhcCCCCC---CCChhhHHHHHHHHHHHHHHHHH
Q 025407          179 AKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDK---QTNTADMLEEAVEYVKFLQKQIE  238 (253)
Q Consensus       179 ~Kr~~a~~~HsiaERrRRerINer~~~LrsLVP~~~K---k~DKAsILeeAIdYIk~LQ~qVk  238 (253)
                      .|.+++++.|+.+|||||++||++|++|..|||.|..   +++|..||..++|||+.||+..+
T Consensus       228 ~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q  290 (411)
T KOG1318|consen  228 ERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ  290 (411)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence            3444455679999999999999999999999999843   36899999999999999998765

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

Probab=98.59  E-value=2.8e-08  Score=90.65  Aligned_cols=50  Identities=34%  Similarity=0.549  Sum_probs=45.0

Q ss_pred             CcHHHHHHHHHHHHHHHHHhhhcCCCCC-------CCChhhHHHHHHHHHHHHHHHH
Q 025407          188 RSIAERVRRTRISDRIRKLQDLVPNMDK-------QTNTADMLEEAVEYVKFLQKQI  237 (253)
Q Consensus       188 HsiaERrRRerINer~~~LrsLVP~~~K-------k~DKAsILeeAIdYIk~LQ~qV  237 (253)
                      |-+.|||||.|||+-|.+|++|||.+.+       +++||.||+-||+|++.||...
T Consensus        36 Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~   92 (250)
T KOG4304|consen   36 KPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQ   92 (250)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccc
Confidence            6789999999999999999999997543       3789999999999999999764

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=98.49  E-value=1.2e-07  Score=99.03  Aligned_cols=64  Identities=30%  Similarity=0.482  Sum_probs=56.4

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHHHHHhhhcCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 025407          182 GCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQR  245 (253)
Q Consensus       182 ~~a~~~HsiaERrRRerINer~~~LrsLVP~~~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~  245 (253)
                      +.++.+||++|||-|..||++|.+|+++||+..-++.|..+|..||+||++||...+.+..++.
T Consensus       274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~  337 (953)
T KOG2588|consen  274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENA  337 (953)
T ss_pred             CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhh
Confidence            3456789999999999999999999999999887799999999999999999988766665443

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

Probab=98.46  E-value=3.4e-07  Score=84.40  Aligned_cols=71  Identities=18%  Similarity=0.442  Sum_probs=57.1

Q ss_pred             ccccCcCCCCCCCC---cHHHHHHHHHHHHHHHHH-hhhcCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 025407          175 CRVRAKRGCATHPR---SIAERVRRTRISDRIRKL-QDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQR  245 (253)
Q Consensus       175 ~k~r~Kr~~a~~~H---siaERrRRerINer~~~L-rsLVP~~~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~  245 (253)
                      ||+.+|+.-..+.+   .+.||||-.||||.|.+| |.-+++..+++-|..||..||+||..||.-++++.+...
T Consensus       106 ckackrks~svDRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~  180 (284)
T KOG3960|consen  106 CKACKRKSTSVDRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK  180 (284)
T ss_pred             hhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence            55555544333333   466999999999999999 667899999999999999999999999999888775544

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

Probab=98.38  E-value=3.6e-07  Score=94.65  Aligned_cols=52  Identities=25%  Similarity=0.480  Sum_probs=48.3

Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHhhhcCCCC---CCCChhhHHHHHHHHHHHHHHH
Q 025407          185 THPRSIAERVRRTRISDRIRKLQDLVPNMD---KQTNTADMLEEAVEYVKFLQKQ  236 (253)
Q Consensus       185 ~~~HsiaERrRRerINer~~~LrsLVP~~~---Kk~DKAsILeeAIdYIk~LQ~q  236 (253)
                      +.+|+.+|||||+++|.-|.+|.+|||.+.   .|+||-+||.+||++||.+++.
T Consensus        21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~   75 (803)
T KOG3561|consen   21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ   75 (803)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence            456999999999999999999999999987   5699999999999999999885

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

Probab=98.06  E-value=1.3e-05  Score=72.87  Aligned_cols=60  Identities=23%  Similarity=0.407  Sum_probs=49.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHhhhcCCCCCCC--ChhhHHHHHHHHHHHHHHHHHHHHHH
Q 025407          184 ATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQT--NTADMLEEAVEYVKFLQKQIEELTEH  243 (253)
Q Consensus       184 a~~~HsiaERrRRerINer~~~LrsLVP~~~Kk~--DKAsILeeAIdYIk~LQ~qVk~Le~e  243 (253)
                      ++..|+.-||+||..|++.|..|+.+||......  +.++||+.|+.||+.|+.+.......
T Consensus        59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~  120 (232)
T KOG2483|consen   59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQD  120 (232)
T ss_pred             chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHH
Confidence            3456899999999999999999999999865422  36999999999999999876554433

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

Probab=97.70  E-value=2.2e-05  Score=69.67  Aligned_cols=58  Identities=22%  Similarity=0.403  Sum_probs=50.5

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCC--C-CCCCChhhHHHHHHHHHHHHHHHHHHHHHHH
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPN--M-DKQTNTADMLEEAVEYVKFLQKQIEELTEHQ  244 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~--~-~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~  244 (253)
                      .++..||.|=+-||..|..||.+||.  . +|++.|..+|..||.||++|++-++.-+...
T Consensus       112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~  172 (228)
T KOG4029|consen  112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL  172 (228)
T ss_pred             hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence            35777999999999999999999996  3 6779999999999999999999887665443

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.70  E-value=2.6e-05  Score=73.97  Aligned_cols=61  Identities=28%  Similarity=0.426  Sum_probs=49.0

Q ss_pred             ccccCcCCCCCCCCcHHHHHHHHHHHHHHHHHhhhcCC--CCCCCChhhHHHHHHHHHHHHHHHHHHH
Q 025407          175 CRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPN--MDKQTNTADMLEEAVEYVKFLQKQIEEL  240 (253)
Q Consensus       175 ~k~r~Kr~~a~~~HsiaERrRRerINer~~~LrsLVP~--~~Kk~DKAsILeeAIdYIk~LQ~qVk~L  240 (253)
                      ..+|-||..+    |-.||||=.-||..|+.||+|+|.  +.| +.||.||+.+.+||..|..+.-+|
T Consensus        55 ~erRmRReIA----NsNERRRMQSINAGFqsLr~LlPr~eGEK-LSKAAILQQTa~yI~~Le~~Kt~l  117 (373)
T KOG0561|consen   55 PERRMRREIA----NSNERRRMQSINAGFQSLRALLPRKEGEK-LSKAAILQQTADYIHQLEGHKTEL  117 (373)
T ss_pred             HHHHHHHHhh----cchHHHHHHhhhHHHHHHHHhcCcccchh-hHHHHHHHHHHHHHHHHHhccccc
Confidence            3344555544    456999999999999999999997  445 999999999999999999765433

>PLN03217 transcription factor ATBS1; Provisional

Probab=97.43  E-value=0.00031  Score=55.97  Aligned_cols=51  Identities=27%  Similarity=0.605  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHhhhcCCCCC-----CCChhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025407          196 RTRISDRIRKLQDLVPNMDK-----QTNTADMLEEAVEYVKFLQKQIEELTEHQRR  246 (253)
Q Consensus       196 RerINer~~~LrsLVP~~~K-----k~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k  246 (253)
                      -+.|++-+..||.|+|....     +...+-||+||..||+.|+.+|..|.+....
T Consensus        19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~   74 (93)
T PLN03217         19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSE   74 (93)
T ss_pred             HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46899999999999996432     2567889999999999999999999887654

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=96.46  E-value=0.0038  Score=62.77  Aligned_cols=52  Identities=23%  Similarity=0.402  Sum_probs=44.1

Q ss_pred             CcHHHHHHHHHHHHHHHHHhhhcC---CCCCCCChhhHHHHHHHHHHHHHHHHHH
Q 025407          188 RSIAERVRRTRISDRIRKLQDLVP---NMDKQTNTADMLEEAVEYVKFLQKQIEE  239 (253)
Q Consensus       188 HsiaERrRRerINer~~~LrsLVP---~~~Kk~DKAsILeeAIdYIk~LQ~qVk~  239 (253)
                      .++.||.|=..||+.|++|-.+.-   ..+|...|.-||..||.-|-.|++||.+
T Consensus       530 NNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE  584 (632)
T KOG3910|consen  530 NNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE  584 (632)
T ss_pred             hhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH
Confidence            678899999999999999988764   2444357999999999999999999974

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=92.52  E-value=0.065  Score=47.03  Aligned_cols=49  Identities=24%  Similarity=0.534  Sum_probs=43.4

Q ss_pred             CcHHHHHHHHHHHHHHHHHhhhcCCC--CCCCChhhHHHHHHHHHHHHHHHH
Q 025407          188 RSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQI  237 (253)
Q Consensus       188 HsiaERrRRerINer~~~LrsLVP~~--~Kk~DKAsILeeAIdYIk~LQ~qV  237 (253)
                      |++-||+|=..+|+.|..||.++|..  +| +.|.-.|.-|-.||-+|=.-.
T Consensus        82 anvrerqRtqsLn~AF~~lr~iiptlPsdk-lSkiqtLklA~ryidfl~~vl  132 (173)
T KOG4447|consen   82 ANVRERQRTQSLNEAFAALRKIIPTLPSDK-LSKIQTLKLAARYIDFLYQVL  132 (173)
T ss_pred             HHHHHHHhhhhHHHHHHHHHhhcCCCCccc-cccccchhhcccCCchhhhcc
Confidence            78999999999999999999999974  45 889999999999999986543

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

Probab=89.66  E-value=0.26  Score=51.55  Aligned_cols=44  Identities=20%  Similarity=0.429  Sum_probs=37.7

Q ss_pred             cHHHHHHHHHHHHHHHHHhhhcCCC---CCCCChhhHHHHHHHHHHH
Q 025407          189 SIAERVRRTRISDRIRKLQDLVPNM---DKQTNTADMLEEAVEYVKF  232 (253)
Q Consensus       189 siaERrRRerINer~~~LrsLVP~~---~Kk~DKAsILeeAIdYIk~  232 (253)
                      .-|.|.||.|-|+-|.+|..+||-.   .-++|||+|+.-||-|++-
T Consensus        51 RdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl   97 (768)
T KOG3558|consen   51 RDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL   97 (768)
T ss_pred             hhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence            4468999999999999999999942   2358999999999999874

>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]

Probab=84.82  E-value=0.99  Score=45.34  Aligned_cols=44  Identities=25%  Similarity=0.373  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHhhhcCCC---CCCCChhhHHHHHHHHHHHH
Q 025407          190 IAERVRRTRISDRIRKLQDLVPNM---DKQTNTADMLEEAVEYVKFL  233 (253)
Q Consensus       190 iaERrRRerINer~~~LrsLVP~~---~Kk~DKAsILeeAIdYIk~L  233 (253)
                      -+.|.||++-|-.|.+|..++|-.   ..++||++|+.-|-.|||.-
T Consensus         7 naA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr   53 (598)
T KOG3559|consen    7 NAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR   53 (598)
T ss_pred             hHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence            457899999999999999999953   34589999999999999854

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

Probab=82.21  E-value=2  Score=40.59  Aligned_cols=50  Identities=24%  Similarity=0.324  Sum_probs=43.0

Q ss_pred             CcHHHHHHHHHHHHHHHHHhhhcCCCC--CCCChhhHHHHHHHHHHHHHHHH
Q 025407          188 RSIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQKQI  237 (253)
Q Consensus       188 HsiaERrRRerINer~~~LrsLVP~~~--Kk~DKAsILeeAIdYIk~LQ~qV  237 (253)
                      -+..||+|=..+|..|..|+.+||..+  +++.|-..|..|-.||--|=...
T Consensus       178 anarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l  229 (285)
T KOG4395|consen  178 ANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL  229 (285)
T ss_pred             cchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence            366799999999999999999999754  46889999999999999886655

---

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 HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	253
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.7
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.7
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.6
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.59
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.58
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.55
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.54
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.52
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.5
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.43
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.37
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.18
4f3l_A	361	Mclock, circadian locomoter output cycles protein	99.1
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	99.08
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.94
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.87
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.62
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	98.22
2pk2_A	358	Cyclin-T1, protein TAT; TAR, twinning, transcripti	92.28

>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=99.70  E-value=4.8e-18  Score=129.08  Aligned_cols=65  Identities=26%  Similarity=0.488  Sum_probs=59.3

Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHhhhcCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 025407          185 THPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKC  249 (253)
Q Consensus       185 ~~~HsiaERrRRerINer~~~LrsLVP~~~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k~~c  249 (253)
                      ..+|+++||+||++||++|.+|++|||++..++||++||.+||+||++||.+++.|+.++.....
T Consensus         7 r~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~~~L~~   71 (82)
T 1am9_A            7 RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLRT   71 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34699999999999999999999999998666999999999999999999999999998876543

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

Probab=99.70  E-value=2.1e-17  Score=133.48  Aligned_cols=74  Identities=28%  Similarity=0.487  Sum_probs=52.7

Q ss_pred             CCccccCcCCCCCCCCcHHHHHHHHHHHHHHHHHhhhcCCCCC---CCChhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025407          173 VPCRVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDK---QTNTADMLEEAVEYVKFLQKQIEELTEHQRR  246 (253)
Q Consensus       173 v~~k~r~Kr~~a~~~HsiaERrRRerINer~~~LrsLVP~~~K---k~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k  246 (253)
                      ...+...|++.++.+|+++||+||++||++|.+|++|||.+.+   +++|++||++||+||++||.+++.|+++..+
T Consensus        16 ~~~~~~~k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~~~~~   92 (118)
T 4ati_A           16 SEARALAKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDLENR   92 (118)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC-
T ss_pred             chHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667777788899999999999999999999999998853   4899999999999999999999999876433

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

Probab=99.60  E-value=3.3e-16  Score=117.48  Aligned_cols=57  Identities=16%  Similarity=0.371  Sum_probs=51.9

Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHhhhcCCCCCCCChhhHHHHHHHHHHHHHHHHHHHH
Q 025407          185 THPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELT  241 (253)
Q Consensus       185 ~~~HsiaERrRRerINer~~~LrsLVP~~~Kk~DKAsILeeAIdYIk~LQ~qVk~Le  241 (253)
                      ..+|+++||+||++||++|.+|++|||....++||++||+.||+||+.||.++.=|+
T Consensus         9 R~~Hn~iErrRRd~IN~~i~eL~~LvP~~~~K~dK~sIL~~aI~yik~Lq~~~~~~~   65 (71)
T 4h10_B            9 RVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKEITAWLE   65 (71)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSSSCCSCCCHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             hhhhhHHHhhHHHHHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHHHHHHhhhHHH
Confidence            346999999999999999999999999876569999999999999999999987664

>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=99.59  E-value=3.5e-16  Score=114.18  Aligned_cols=54  Identities=28%  Similarity=0.433  Sum_probs=48.2

Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHhhhcCCCCC------CCChhhHHHHHHHHHHHHHHHHH
Q 025407          185 THPRSIAERVRRTRISDRIRKLQDLVPNMDK------QTNTADMLEEAVEYVKFLQKQIE  238 (253)
Q Consensus       185 ~~~HsiaERrRRerINer~~~LrsLVP~~~K------k~DKAsILeeAIdYIk~LQ~qVk  238 (253)
                      ..+|+++||+||++||..|..|++|||.+.+      +++||+||+.||+||+.||++|+
T Consensus         3 r~~H~~aEr~RR~rIn~~~~~L~~LlP~~~~~~~~~~k~sKa~iL~~Ai~YIk~Lq~~~~   62 (63)
T 1a0a_A            3 RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS   62 (63)
T ss_dssp             TTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCSC
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHCCCcccccccCCcccHHHHHHHHHHHHHHHHHHhh
Confidence            4579999999999999999999999997633      36799999999999999998764

>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=99.58  E-value=4.4e-16  Score=112.75  Aligned_cols=55  Identities=22%  Similarity=0.416  Sum_probs=49.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHhhhcCCCCC-----CCChhhHHHHHHHHHHHHHHHHH
Q 025407          184 ATHPRSIAERVRRTRISDRIRKLQDLVPNMDK-----QTNTADMLEEAVEYVKFLQKQIE  238 (253)
Q Consensus       184 a~~~HsiaERrRRerINer~~~LrsLVP~~~K-----k~DKAsILeeAIdYIk~LQ~qVk  238 (253)
                      ....|+++||+||++||+.|..|++|||.+..     ++||++||++||+||++||++++
T Consensus         5 rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~~~   64 (65)
T 1an4_A            5 RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH   64 (65)
T ss_dssp             CCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTTC
T ss_pred             HHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHHhc
Confidence            44679999999999999999999999998873     48999999999999999998753

>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=99.55  E-value=5.1e-15  Score=111.35  Aligned_cols=64  Identities=25%  Similarity=0.483  Sum_probs=57.8

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCCCC-CCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPNMD-KQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKC  249 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~~~-Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k~~c  249 (253)
                      ..|+.+||+||..||+.|..|+++||.+. .+++|++||..||+||+.||.+++.|+.+......
T Consensus        14 ~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~L~~e~~~L~~   78 (80)
T 1hlo_A           14 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKR   78 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34999999999999999999999999873 24999999999999999999999999998876553

>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=99.54  E-value=8.9e-15  Score=110.40  Aligned_cols=61  Identities=25%  Similarity=0.501  Sum_probs=54.8

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCCC-CCCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPNM-DKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRC  247 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~~-~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k~  247 (253)
                      .|+..||+||+.||+.|..|+++||.+ ..+++|++||..||+||+.||.+++.|+.+....
T Consensus         5 ~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~e~~~L   66 (83)
T 1nkp_B            5 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDL   66 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            599999999999999999999999985 2349999999999999999999999988776654

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

Probab=99.52  E-value=1.2e-15  Score=114.55  Aligned_cols=53  Identities=28%  Similarity=0.407  Sum_probs=47.1

Q ss_pred             CCCCCCcHHHHHHHHHHHHHHHHHhhhcCCCC---CCCChhhHHHHHHHHHHHHHH
Q 025407          183 CATHPRSIAERVRRTRISDRIRKLQDLVPNMD---KQTNTADMLEEAVEYVKFLQK  235 (253)
Q Consensus       183 ~a~~~HsiaERrRRerINer~~~LrsLVP~~~---Kk~DKAsILeeAIdYIk~LQ~  235 (253)
                      +++.+|+++||+||++||+.|.+|++|||.+.   .++|||+||+.||+||+.||.
T Consensus         8 ~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            8 NAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSC
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhc
Confidence            33456999999999999999999999999873   349999999999999999974

>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=99.50  E-value=3.1e-14  Score=109.70  Aligned_cols=60  Identities=20%  Similarity=0.403  Sum_probs=53.5

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQKQIEELTEHQRR  246 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~~~--Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k  246 (253)
                      .|++.||+||+.||+.|..|+++||.+.  .+++|++||.+||+||++||.+++.|..+...
T Consensus         9 ~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~~~~~~   70 (88)
T 1nkp_A            9 THNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEEDL   70 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4999999999999999999999999864  35999999999999999999998887765443

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

Probab=99.43  E-value=8.1e-14  Score=105.27  Aligned_cols=57  Identities=26%  Similarity=0.331  Sum_probs=49.5

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCC---CCCCCChhhHHHHHHHHHHHHHHHHHHHHH
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPN---MDKQTNTADMLEEAVEYVKFLQKQIEELTE  242 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~---~~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~  242 (253)
                      ..|+..||+||+.||+.|..|+.+||.   .+|.++|+.||..||+||++||+++++++.
T Consensus         7 ~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~   66 (76)
T 3u5v_A            7 AHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNL   66 (76)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             hhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            459999999999999999999999995   344347999999999999999999998753

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

Probab=99.37  E-value=9.3e-13  Score=100.05  Aligned_cols=61  Identities=21%  Similarity=0.240  Sum_probs=54.4

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQKQIEELTEHQRRC  247 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~~~--Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k~  247 (253)
                      .|+..||+||..||+.|..|+++||.+.  .+++|++||..||+||+.||.+.+.|..+....
T Consensus         4 ~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~~l~~e~~~L   66 (80)
T 1nlw_A            4 THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQL   66 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4999999999999999999999999653  248999999999999999999999988776653

>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=99.18  E-value=5.9e-12  Score=93.33  Aligned_cols=52  Identities=17%  Similarity=0.389  Sum_probs=46.9

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCCC-CCCCChhhHHHHHHHHHHHHHHHH
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPNM-DKQTNTADMLEEAVEYVKFLQKQI  237 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~~-~Kk~DKAsILeeAIdYIk~LQ~qV  237 (253)
                      ..|+..||+|+..||+.|..|+++||.. +++++|+.||..||+||.+||+.+
T Consensus        14 ~~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~tLr~Ai~YI~~L~~~L   66 (68)
T 1mdy_A           14 KAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALL   66 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             hHhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            3489999999999999999999999964 346999999999999999999865

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

Probab=99.10  E-value=7.3e-11  Score=106.98  Aligned_cols=54  Identities=15%  Similarity=0.403  Sum_probs=42.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHhhhcCCCCCCCChhhHHHHHHHHHHHHHHHH
Q 025407          184 ATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQI  237 (253)
Q Consensus       184 a~~~HsiaERrRRerINer~~~LrsLVP~~~Kk~DKAsILeeAIdYIk~LQ~qV  237 (253)
                      +..+|+++||+||++||+.|.+|++|||....++||++||..||+||+.|+...
T Consensus        12 ~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~~   65 (361)
T 4f3l_A           12 KRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKETT   65 (361)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhhc
Confidence            345699999999999999999999999955555999999999999999998653

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

Probab=99.08  E-value=1.4e-10  Score=83.94  Aligned_cols=51  Identities=20%  Similarity=0.319  Sum_probs=46.6

Q ss_pred             CcHHHHHHHHHHHHHHHHHhhhcCCC--CCCCChhhHHHHHHHHHHHHHHHHH
Q 025407          188 RSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE  238 (253)
Q Consensus       188 HsiaERrRRerINer~~~LrsLVP~~--~Kk~DKAsILeeAIdYIk~LQ~qVk  238 (253)
                      |+..||+|+..||+.|..|+.+||..  +++++|..+|..||+||..||+.++
T Consensus         6 ~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   58 (60)
T 2ql2_B            6 ANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILR   58 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHh
Confidence            78889999999999999999999975  4569999999999999999998764

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

Probab=98.94  E-value=2.3e-10  Score=105.15  Aligned_cols=52  Identities=31%  Similarity=0.400  Sum_probs=46.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHHHHHhhhcCC----CCCCCChhhHHHHHHHHHHHHHHH
Q 025407          184 ATHPRSIAERVRRTRISDRIRKLQDLVPN----MDKQTNTADMLEEAVEYVKFLQKQ  236 (253)
Q Consensus       184 a~~~HsiaERrRRerINer~~~LrsLVP~----~~Kk~DKAsILeeAIdYIk~LQ~q  236 (253)
                      ++.+|+.+||+||++||+.|.+|+.|||.    ..| +||++||..||+|||.|+..
T Consensus        13 ~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k-~dk~~il~~~~~~l~~~~~~   68 (387)
T 4f3l_B           13 AREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRK-LDKLTVLRMAVQHMKTLRGA   68 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSC-CCHHHHHHHHHHHHHHHHCC
T ss_pred             hcccccchhhcchHHHHHHHHHHHHhcCCCCccccc-cCHHHHHHHHHHHHHHhhcc
Confidence            34569999999999999999999999994    445 99999999999999999854

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

Probab=98.87  E-value=3.8e-09  Score=81.52  Aligned_cols=51  Identities=29%  Similarity=0.589  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHhhhcCCCCC---CCChhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025407          196 RTRISDRIRKLQDLVPNMDK---QTNTADMLEEAVEYVKFLQKQIEELTEHQRR  246 (253)
Q Consensus       196 RerINer~~~LrsLVP~~~K---k~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k  246 (253)
                      |..||++|.+|..|||.+..   +++|++||..||+||++||++++.+.++..+
T Consensus         4 R~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~r~~e~e~r   57 (83)
T 4ath_A            4 RFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDLENR   57 (83)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             hhhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88999999999999997532   4799999999999999999988777655543

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

Probab=98.62  E-value=9.2e-09  Score=76.77  Aligned_cols=46  Identities=20%  Similarity=0.339  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhcCCC--CCCCChhhHHHHHHHHHHHHHH
Q 025407          190 IAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQK  235 (253)
Q Consensus       190 iaERrRRerINer~~~LrsLVP~~--~Kk~DKAsILeeAIdYIk~LQ~  235 (253)
                      ..||+|...||+.|..||.+||..  +++++|..+|..||+||..||.
T Consensus        20 erER~Rm~~lN~aF~~LR~~VP~~p~~kKLSKiEtLr~Ai~YI~~Lq~   67 (68)
T 2lfh_A           20 EEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQV   67 (68)
T ss_dssp             CCCSCSSSHHHHHHHHHHHHCCCCCTTCCCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCccHHHHHHHHHHHHHHHHc
Confidence            348888999999999999999975  4469999999999999999984

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

Probab=98.22  E-value=2.6e-06  Score=67.39  Aligned_cols=49  Identities=22%  Similarity=0.426  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHHHHhhhcCCC--CCCCChhhHHHHHHHHHHHHHHHHHHH
Q 025407          192 ERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIEEL  240 (253)
Q Consensus       192 ERrRRerINer~~~LrsLVP~~--~Kk~DKAsILeeAIdYIk~LQ~qVk~L  240 (253)
                      ||.|=..||+.|..||.+||..  ++++.|..+|..||+||..||+.++.-
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            5778888999999999999974  557999999999999999999987653

>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C

Probab=92.28  E-value=0.025  Score=52.15  Aligned_cols=8  Identities=13%  Similarity=0.214  Sum_probs=0.0

Q ss_pred             ccccccCC
Q 025407           30 LARLRSAP   37 (253)
Q Consensus        30 l~r~~s~p   37 (253)
                      ..++...|
T Consensus       309 ~~~~~~~~  316 (358)
T 2pk2_A          309 TGGQEARP  316 (358)
T ss_dssp             --------
T ss_pred             CCCCCCcc
Confidence            44444444

---

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	253
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	1e-16
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	3e-14
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	1e-12
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	1e-11
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	2e-11
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	2e-11
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	6e-11
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	1e-09

>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 = 69.8 bits (171), Expect = 1e-16
 Identities = 17/55 (30%), Positives = 35/55 (63%)

Query: 196 RTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCS 250
           R+ I+D+I +L+DLV   D + + + +L +A++Y+K+LQ+   +L +     K +
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMVLKLA 55

>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 = 64.2 bits (156), Expect = 3e-14
 Identities = 19/69 (27%), Positives = 39/69 (56%)

Query: 180 KRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEE 239
            RG      +  E+  R+ I+D+I +L+DLV   + + N + +L +A++Y++FLQ   ++
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 240 LTEHQRRCK 248
           L +     +
Sbjct: 62  LKQENLSLR 70

>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 = 59.9 bits (145), Expect = 1e-12
 Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 6/75 (8%)

Query: 176 RVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFL 233
            +  KR   TH  ++ ER RR  +      L+D +P +  +++     +L++A  Y+  +
Sbjct: 2   HMNVKR--RTH--NVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSV 57

Query: 234 QKQIEELTEHQRRCK 248
           Q + ++L   +   +
Sbjct: 58  QAEEQKLISEEDLLR 72

>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 = 56.4 bits (136), Expect = 1e-11
 Identities = 10/52 (19%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 189 SIAERVRRTRISDRIRKLQDLVP-NMDKQTNTADMLEEAVEYVKFLQKQIEE 239
           ++ ER R +++++    L+     N +++    ++L  A+ Y++ LQ  + +
Sbjct: 17  TMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLRD 68

>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 = 56.8 bits (137), Expect = 2e-11
 Identities = 15/62 (24%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 188 RSIAERVRRTRISDRIRKLQDLV-PNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRR 246
            +  ER RR  I D    L+D V     ++ + A +L++A EY+++++++     +    
Sbjct: 6   HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDD 65

Query: 247 CK 248
            K
Sbjct: 66  LK 67

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

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

 Score = 56.0 bits (135), Expect = 2e-11
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 6/56 (10%)

Query: 189 SIAERVRRTRISDRIRKLQDLVPNMDKQTN------TADMLEEAVEYVKFLQKQIE 238
             AE+ RR R++  + +L  L+P   KQ N       A  +E A  Y++ LQ+   
Sbjct: 7   KHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

>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 = 54.9 bits (132), Expect = 6e-11
 Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 189 SIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIEELTEHQRR 246
           +  E+ RR  +   + KL+ LVP      +  T  +L +A  ++K L+    +      +
Sbjct: 6   NEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQ 65

Query: 247 CK 248
            +
Sbjct: 66  LQ 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 = 51.3 bits (123), Expect = 1e-09
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 5/53 (9%)

Query: 189 SIAERVRRTRISDRIRKLQDLVPNM-----DKQTNTADMLEEAVEYVKFLQKQ 236
           +  ER RR +I++ I +L  ++P+          +   +L +A +Y++ L++ 
Sbjct: 10  NEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQS 62

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	253
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.54
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.53
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.5
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.45

>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=99.62  E-value=2.5e-16  Score=116.75  Aligned_cols=63  Identities=27%  Similarity=0.507  Sum_probs=58.3

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCK  248 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~~~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k~~  248 (253)
                      ..|+.+||+||++||+.|..|++|||++..++||++||..||+||+.|+++++.|+.++....
T Consensus         8 ~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~e~~~lk   70 (80)
T d1am9a_           8 TAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLR   70 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            359999999999999999999999999887799999999999999999999999998877654

>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=99.56  E-value=7.5e-16  Score=109.44  Aligned_cols=55  Identities=31%  Similarity=0.535  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHhhhcCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 025407          196 RTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCKCS  250 (253)
Q Consensus       196 RerINer~~~LrsLVP~~~Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k~~c~  250 (253)
                      |++||++|..|++|||++.+++|||+||.+||+||++||++++.|++++....|.
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            6789999999999999988669999999999999999999999999998877654

>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=99.54  E-value=1.1e-15  Score=108.98  Aligned_cols=52  Identities=27%  Similarity=0.463  Sum_probs=47.0

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCCC------CCCCChhhHHHHHHHHHHHHHHHH
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPNM------DKQTNTADMLEEAVEYVKFLQKQI  237 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~~------~Kk~DKAsILeeAIdYIk~LQ~qV  237 (253)
                      ..|+++||+||++||+.|..|++|||.+      ..+++|++||+.||+||++||++|
T Consensus         4 ~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k~sKa~iL~~Av~yI~~Lq~~v   61 (63)
T d1a0aa_           4 ESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             TGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCcccccHHHHHHHHHHHHHHHHHhh
Confidence            4599999999999999999999999953      345899999999999999999875

>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=99.54  E-value=4.9e-15  Score=108.96  Aligned_cols=62  Identities=21%  Similarity=0.245  Sum_probs=55.5

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQKQIEELTEHQRRCK  248 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~~~--Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k~~  248 (253)
                      .|+.+||+||++||+.|..|+++||.+.  .+++|++||..||+||++|+.+++.|..+.....
T Consensus         4 ~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~L~   67 (79)
T d1nlwa_           4 THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQLQ   67 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5999999999999999999999999753  2489999999999999999999999988776543

>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=99.53  E-value=5.2e-16  Score=112.53  Aligned_cols=53  Identities=17%  Similarity=0.366  Sum_probs=48.3

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCCCC-CCCChhhHHHHHHHHHHHHHHHHH
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPNMD-KQTNTADMLEEAVEYVKFLQKQIE  238 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~~~-Kk~DKAsILeeAIdYIk~LQ~qVk  238 (253)
                      ..|++.||+||++||+.|..|++|||.+. ++++|++||..||+||++||++|+
T Consensus        14 ~~hn~~Er~Rr~~in~~~~~L~~llP~~~~~k~sK~~iL~~Ai~YI~~Lq~~l~   67 (68)
T d1mdya_          14 KAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            35999999999999999999999999864 458999999999999999998774

>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=99.52  E-value=8.8e-15  Score=108.47  Aligned_cols=60  Identities=25%  Similarity=0.522  Sum_probs=54.1

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCCCC-CCCChhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPNMD-KQTNTADMLEEAVEYVKFLQKQIEELTEHQRR  246 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~~~-Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k  246 (253)
                      .|+.+||+||++||+.|..|++|||.+. ++++|++||..||+||++|+++++.|..+...
T Consensus         5 ~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~   65 (83)
T d1nkpb_           5 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDD   65 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5999999999999999999999999753 45899999999999999999999988876654

>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=99.50  E-value=1.6e-14  Score=108.05  Aligned_cols=60  Identities=20%  Similarity=0.403  Sum_probs=53.7

Q ss_pred             CCcHHHHHHHHHHHHHHHHHhhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025407          187 PRSIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQKQIEELTEHQRR  246 (253)
Q Consensus       187 ~HsiaERrRRerINer~~~LrsLVP~~~--Kk~DKAsILeeAIdYIk~LQ~qVk~Le~e~~k  246 (253)
                      .|+.+||+||++||+.|..|+++||++.  .+++|++||..||+||+.|+++++.|+.+...
T Consensus         9 ~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~   70 (88)
T d1nkpa_           9 THNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEEDL   70 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4999999999999999999999999753  34899999999999999999999998776543

>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=99.45  E-value=9.5e-15  Score=104.57  Aligned_cols=52  Identities=23%  Similarity=0.452  Sum_probs=46.9

Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhhhcCCCC-----CCCChhhHHHHHHHHHHHHHHHH
Q 025407          186 HPRSIAERVRRTRISDRIRKLQDLVPNMD-----KQTNTADMLEEAVEYVKFLQKQI  237 (253)
Q Consensus       186 ~~HsiaERrRRerINer~~~LrsLVP~~~-----Kk~DKAsILeeAIdYIk~LQ~qV  237 (253)
                      ..|+++||+||++||+.|..|++|||.+.     .+++|++||..||+||+.||++.
T Consensus         7 ~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~~~   63 (65)
T d1an4a_           7 AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            45999999999999999999999999753     24899999999999999999764