Citrus Sinensis ID: 026390

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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-------24
Protein Sequence
MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGAGDAGLRMGNMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNKPAESSKPSEPPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSLSI
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHccccccHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHccccc
Coil and Loop (DISEMBL)
mdpplvnessfsaanpssyslaeiwpfpinnggagdaglrmgnmghgfgessalrdgsmeestvteqsgggcgrkrrdlssedesskivsttssandlndsngkwmktsgsknengskaeveassaagnkpaesskpseppkdyihvrarrgqatdshSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSrmnltptiegfhpkdvslsi
Flexible Loop (DISEMBL)
MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGAGDAGLRMGNMGHGFGESSALRDGSMEEStvteqsgggcgrkrrdlssedesskivsttssandlndsngkwmktsgsknengSKAEVEASsaagnkpaesskpseppkDYIHVRarrgqatdshslaeRARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRmnltptiegfhpkdvslsi
Low Complexity Region (SEG)
MDPPLVNEssfsaanpssysLAEIWPFPINNGGAGDAGLRMGNMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNkpaesskpseppkDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSLSI
Disordered region (IsUnstruct)
********************LAEIWPFPINNGG*******************************************************************************************************************************************MKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR*******************
Disordered Region (DISOPRED)
**PP****************************************************************************************************************************************************************RREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLS************************SL**
Disordered Region (DISEMBL)
***************PSSYSLAEIWPFPINNGGAGDAGLRMGNMGHGFGES**********************************************LNDSNGKWMK*********************************PKDYIHVR*****************REKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSLSI
Disordered Region (DISPRO)
********************************************************************************************************************************************PKDYIHVRARRGQ***SHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPK******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGAGDAGLRMGNMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNKPAESSKPSEPPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYxxxxxxxxxxxxxxxxxxxxxMNLTPTIEGFHPKDVSLSI
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	239	2.2.26 [Sep-21-2011]
Q9LV17	281	Transcription factor bHLH	yes	no	0.970	0.825	0.610	2e-66
Q0JXE7	343	Transcription factor BPE	no	no	0.845	0.588	0.541	2e-51
Q9LK48	371	Transcription factor bHLH	no	no	0.602	0.388	0.591	2e-41
Q9SRT2	456	Transcription factor bHLH	no	no	0.761	0.399	0.485	5e-41
Q9FJL4	498	Transcription factor bHLH	no	no	0.694	0.333	0.536	2e-40
Q9CAA9	486	Transcription factor bHLH	no	no	0.401	0.197	0.767	3e-38
Q8GY61	335	Transcription factor bHLH	no	no	0.786	0.561	0.459	4e-36
Q93W88	286	Transcription factor bHLH	no	no	0.451	0.377	0.690	9e-36
Q6NKN9	366	Transcription factor bHLH	no	no	0.380	0.248	0.739	2e-34
Q9C670	390	Transcription factor bHLH	no	no	0.460	0.282	0.630	2e-34

>sp|Q9LV17|BH079_ARATH Transcription factor bHLH79 OS=Arabidopsis thaliana GN=BHLH79 PE=2 SV=1

 Score =  252 bits (643), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 149/244 (61%), Positives = 178/244 (72%), Gaps = 12/244 (4%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGAGDAGLRMG-NMGHGF--GESSALRDG 57
           MDPPLVN+SSFSAANPSSY+L+EIWPFP+N+  A  +GLR+  N G  F   E S  +D 
Sbjct: 1   MDPPLVNDSSFSAANPSSYTLSEIWPFPVND--AVRSGLRLAVNSGRVFTRSEHSGNKDV 58

Query: 58  SM-EESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENG 116
           S  EESTVT+ + G   RK RDL+SED+SSK+VS++SS N+L +S  K  K  GS++ NG
Sbjct: 59  SAAEESTVTDLTAGWGSRKTRDLNSEDDSSKMVSSSSSGNELKESGDKKRKLCGSESGNG 118

Query: 117 S-----KAEVEASSAAGNKPAESSKPSEPPKDYIHVRARRGQATDSHSLAERARREKISE 171
                 + E  +         + +KP EPPKDYIHVRARRGQATD HSLAERARREKISE
Sbjct: 119 DGSMRPEGETSSGGGGSKATEQKNKP-EPPKDYIHVRARRGQATDRHSLAERARREKISE 177

Query: 172 RMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFH 231
           +M  LQD++PGCNK+IGKALVLDEIINYIQSLQRQVEFLSMKLE VNS  +  PTI  F 
Sbjct: 178 KMTALQDIIPGCNKIIGKALVLDEIINYIQSLQRQVEFLSMKLEVVNSGASTGPTIGVFP 237

Query: 232 PKDV 235
             D+
Sbjct: 238 SGDL 241

Arabidopsis thaliana (taxid: 3702)

>sp|Q0JXE7|BPE_ARATH Transcription factor BPE OS=Arabidopsis thaliana GN=BPE PE=2 SV=1

 Score =  202 bits (514), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 124/229 (54%), Positives = 147/229 (64%), Gaps = 27/229 (11%)

Query: 19  YSLAEIWPFPINN-GGAGDAGLRMGNMGHGFGESS---------ALRDGSMEESTVTEQS 68
           ++LAEIW FP+N    AGD+  R     + FG++          A    ++ ++ +   S
Sbjct: 13  FNLAEIWQFPLNGVSTAGDSSRRSFVGPNQFGDADLTTAANGDPARMSHALSQAVIEGIS 72

Query: 69  GGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAG 128
           G     KRR+   E +S+KIVST  ++   N       K          KAE E+    G
Sbjct: 73  GAW---KRRE--DESKSAKIVSTIGASEGEN-------KRQKIDEVCDGKAEAES---LG 117

Query: 129 NKPAESSKPSEPPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIG 188
            +  +  +  EP KDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIG
Sbjct: 118 TETEQKKQQMEPTKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIG 177

Query: 189 KALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSL 237
           KALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN  P IE F PK+V +
Sbjct: 178 KALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN--PGIEVFPPKEVMI 224

Involved in the control of petal size, by interfering with postmitotic cell expansion to limit final petal cell size.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LK48|BH077_ARATH Transcription factor bHLH77 OS=Arabidopsis thaliana GN=BHLH77 PE=2 SV=1

 Score =  168 bits (426), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 94/159 (59%), Positives = 111/159 (69%), Gaps = 15/159 (9%)

Query: 74  RKRRDLSSED--ESSKIVSTTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNKP 131
           RKR+ + S +  ES    S T+S + ++  NG      GSK    SK +V  SS  G + 
Sbjct: 115 RKRKSIPSGNGKESPASSSLTASNSKVSGENG------GSKGGKRSKQDVAGSSKNGVEK 168

Query: 132 AES-------SKPSEPPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCN 184
            +S       +KP E PKDYIHVRARRGQATDSHSLAERARREKISERM +LQDLVPGCN
Sbjct: 169 CDSKGDNKDDAKPPEAPKDYIHVRARRGQATDSHSLAERARREKISERMTLLQDLVPGCN 228

Query: 185 KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNL 223
           ++ GKA++LDEIINY+QSLQRQVEFLSMKL  VN RM  
Sbjct: 229 RITGKAVMLDEIINYVQSLQRQVEFLSMKLATVNPRMEF 267

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SRT2|BH062_ARATH Transcription factor bHLH62 OS=Arabidopsis thaliana GN=BHLH62 PE=2 SV=1

 Score =  167 bits (423), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 102/210 (48%), Positives = 126/210 (60%), Gaps = 28/210 (13%)

Query: 26  PFPINNGGAGDAGLRMGNMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDES 85
           PFPINN        +M  +      SS+     +       +S G   RKR+  S ++  
Sbjct: 163 PFPINNEPPITTNEKMPRV------SSSPVFKPLASHVPAGESSGELSRKRKTKSKQNSP 216

Query: 86  SKIVSTTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNKPAESSKPSEPPKDYI 145
           S  VS++    +  DS+ K  K S    ENG K                +K  +P KDYI
Sbjct: 217 SA-VSSSKEIEEKEDSDPKRCKKS---EENGDK----------------TKSIDPYKDYI 256

Query: 146 HVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQR 205
           HVRARRGQATDSHSLAER RREKISERMK+LQDLVPGCNKV GKAL+LDEIINY+QSLQR
Sbjct: 257 HVRARRGQATDSHSLAERVRREKISERMKLLQDLVPGCNKVTGKALMLDEIINYVQSLQR 316

Query: 206 QVEFLSMKLEAVNSRMNLTPTIEGFHPKDV 235
           QVEFLSMKL +VN+R++    ++    KD+
Sbjct: 317 QVEFLSMKLSSVNTRLDF--NMDALLSKDI 344

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJL4|BH078_ARATH Transcription factor bHLH78 OS=Arabidopsis thaliana GN=BHLH78 PE=2 SV=1

 Score =  166 bits (419), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 96/179 (53%), Positives = 116/179 (64%), Gaps = 13/179 (7%)

Query: 69  GGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKN--ENGSKAEVEASSA 126
           GG   RKR+ +         +ST S +   + +  K     GSK+  E G K   E    
Sbjct: 215 GGEFSRKRKSVPKGKSKENPISTASPSPSFSKTAEKNGGKGGSKSSEEKGGKRRREEEDD 274

Query: 127 AG-------NKPAESSKPSEPPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDL 179
                    NK + ++KP EPPKDYIHVRARRGQATDSHSLAER RREKI ERMK+LQDL
Sbjct: 275 EEEEGEGEGNK-SNNTKPPEPPKDYIHVRARRGQATDSHSLAERVRREKIGERMKLLQDL 333

Query: 180 VPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVN-SRMNLTPTIEGFHPKDVSL 237
           VPGCNKV GKAL+LDEIINY+QSLQRQVEFLSMKL +VN +R++    ++    KDV +
Sbjct: 334 VPGCNKVTGKALMLDEIINYVQSLQRQVEFLSMKLSSVNDTRLDF--NVDALVSKDVMI 390

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAA9|BH049_ARATH Transcription factor bHLH49 OS=Arabidopsis thaliana GN=BHLH49 PE=2 SV=1

 Score =  158 bits (399), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 76/99 (76%), Positives = 84/99 (84%), Gaps = 3/99 (3%)

Query: 138 SEPPKD-YIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEI 196
           S+PPKD YIHVRARRGQAT+SHSLAER RREKISERMK LQDLVPGCNKV GKA++LDEI
Sbjct: 293 SDPPKDGYIHVRARRGQATNSHSLAERVRREKISERMKFLQDLVPGCNKVTGKAVMLDEI 352

Query: 197 INYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDV 235
           INY+QSLQRQVEFLSMKL  VN +M+    +EG   KD 
Sbjct: 353 INYVQSLQRQVEFLSMKLATVNPQMDF--NLEGLLAKDA 389

Arabidopsis thaliana (taxid: 3702)

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

 Score =  151 bits (382), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 91/198 (45%), Positives = 122/198 (61%), Gaps = 10/198 (5%)

Query: 32  GGAGDAGLRMG--NMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDESSKIV 89
           GG  D+ L     N+   +GE++   D  +  S  T    G   +++ D  ++D + K  
Sbjct: 49  GGEMDSYLSTAGLNLPMMYGETTVEGDSRLSISPETTLGTGNFKKRKFDTETKDCNEKKK 108

Query: 90  STTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAA-----GNKPAESSKPSEPPK-- 142
             T + +DL +  G+  K+  ++  NGS   ++           N   +SSK ++  +  
Sbjct: 109 KMTMNRDDLVEE-GEEEKSKITEQNNGSTKSIKKMKHKAKKEENNFSNDSSKVTKELEKT 167

Query: 143 DYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQS 202
           DYIHVRARRGQATDSHS+AER RREKISERMK LQDLVPGC+K+ GKA +LDEIINY+QS
Sbjct: 168 DYIHVRARRGQATDSHSIAERVRREKISERMKFLQDLVPGCDKITGKAGMLDEIINYVQS 227

Query: 203 LQRQVEFLSMKLEAVNSR 220
           LQRQ+EFLSMKL  VN R
Sbjct: 228 LQRQIEFLSMKLAIVNPR 245

Arabidopsis thaliana (taxid: 3702)

>sp|Q93W88|BH137_ARATH Transcription factor bHLH137 OS=Arabidopsis thaliana GN=BHLH137 PE=2 SV=1

 Score =  150 bits (378), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 78/113 (69%), Positives = 87/113 (76%), Gaps = 5/113 (4%)

Query: 107 KTSGSK--NENGSKAEVEASSAAGNKPAESSKPSEPPKDYIHVRARRGQATDSHSLAERA 164
           KT G K  N N SK  VE   +   K    SK  EPP DYIHVRARRGQATDSHSLAER 
Sbjct: 97  KTRGRKARNSNNSKEGVEGRKSKKQK--RGSK-EEPPTDYIHVRARRGQATDSHSLAERV 153

Query: 165 RREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAV 217
           RREKISERM+ LQ+LVPGC+KV GKAL+LDEIINY+Q+LQ QVEFLSMKL ++
Sbjct: 154 RREKISERMRTLQNLVPGCDKVTGKALMLDEIINYVQTLQTQVEFLSMKLTSI 206

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NKN9|BH074_ARATH Transcription factor bHLH74 OS=Arabidopsis thaliana GN=BHLH74 PE=2 SV=1

 Score =  145 bits (367), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 68/92 (73%), Positives = 82/92 (89%), Gaps = 1/92 (1%)

Query: 133 ESSKPSEPPKD-YIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKAL 191
           ESS+  E PK+ YIH+RARRGQAT+SHSLAER RREKISERM++LQ+LVPGCNK+ GKA+
Sbjct: 191 ESSQSEEAPKENYIHMRARRGQATNSHSLAERVRREKISERMRLLQELVPGCNKITGKAV 250

Query: 192 VLDEIINYIQSLQRQVEFLSMKLEAVNSRMNL 223
           +LDEIINY+QSLQ+QVEFLSMKL  VN  +N+
Sbjct: 251 MLDEIINYVQSLQQQVEFLSMKLATVNPEINI 282

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C670|BH076_ARATH Transcription factor bHLH76 OS=Arabidopsis thaliana GN=BHLH76 PE=2 SV=1

 Score =  145 bits (367), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 70/111 (63%), Positives = 88/111 (79%), Gaps = 1/111 (0%)

Query: 114 ENGSKAEVEASSAAGNKPAESSKPSEPPKD-YIHVRARRGQATDSHSLAERARREKISER 172
           E+  + + ++ ++  NK     +PS+  KD YIH+RARRGQAT+SHSLAER RREKISER
Sbjct: 189 EDKKQKDEQSPTSNANKTNSEKQPSDSLKDGYIHMRARRGQATNSHSLAERVRREKISER 248

Query: 173 MKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNL 223
           MK LQDLVPGC+KV GKA++LDEIINY+QSLQ Q+EFLSMKL AVN  ++ 
Sbjct: 249 MKFLQDLVPGCDKVTGKAVMLDEIINYVQSLQCQIEFLSMKLSAVNPVLDF 299

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	239
449440736	276	PREDICTED: transcription factor bHLH79-l	0.966	0.836	0.765	2e-91
255540845	275	DNA binding protein, putative [Ricinus c	0.958	0.832	0.798	3e-91
224119176	272	predicted protein [Populus trichocarpa]	0.941	0.827	0.746	4e-88
225456604	284	PREDICTED: transcription factor bHLH79 i	0.979	0.823	0.733	2e-85
297734057	269	unnamed protein product [Vitis vinifera]	0.949	0.843	0.741	2e-82
147821091	328	hypothetical protein VITISV_027596 [Viti	0.979	0.713	0.630	2e-78
339716200	301	putative MYC protein [Tamarix hispida]	0.941	0.747	0.671	4e-78
55419646	222	bHLH transcription factor [Gossypium hir	0.748	0.806	0.836	8e-76
224133354	213	predicted protein [Populus trichocarpa]	0.677	0.760	0.831	2e-67
225456606	262	PREDICTED: transcription factor bHLH79 i	0.887	0.809	0.645	2e-67

>gi|449440736|ref|XP_004138140.1| PREDICTED: transcription factor bHLH79-like [Cucumis sativus] gi|449477343|ref|XP_004154996.1| PREDICTED: transcription factor bHLH79-like [Cucumis sativus]

 Score =  340 bits (873), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 183/239 (76%), Positives = 200/239 (83%), Gaps = 8/239 (3%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGAGDAGLRMGNMGH---GFGESSALRDG 57
           MDPPLVNESSFSAANPSSYSLA IWPF  + GG+   GLRM N+     GF E S  RDG
Sbjct: 1   MDPPLVNESSFSAANPSSYSLASIWPFGGDQGGS-VLGLRMANLAQNLGGFRECSTNRDG 59

Query: 58  SMEESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENGS 117
           SMEESTVTEQSGGG  RKR+D+SSEDESS++VST SSAN L++SN K MK   S++ENG 
Sbjct: 60  SMEESTVTEQSGGG--RKRKDVSSEDESSRMVST-SSANQLSNSNDKRMKVVESRDENGG 116

Query: 118 -KAEVEASSAAGNKPAESSKPSEPPKDYIHVRARRGQATDSHSLAERARREKISERMKIL 176
            KAEV+ +S+ G K AE S   EPPKDYIHVRARRGQATDSHSLAERARREKISERMKIL
Sbjct: 117 IKAEVDPNSSDGKKLAEQSPKPEPPKDYIHVRARRGQATDSHSLAERARREKISERMKIL 176

Query: 177 QDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDV 235
           QDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN+TP IEGF  K++
Sbjct: 177 QDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNITPGIEGFTVKNI 235

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540845|ref|XP_002511487.1| DNA binding protein, putative [Ricinus communis] gi|223550602|gb|EEF52089.1| DNA binding protein, putative [Ricinus communis]

 Score =  340 bits (872), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 190/238 (79%), Positives = 204/238 (85%), Gaps = 9/238 (3%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGA-GDAGLRMGNMGHGFGESSALRDGSM 59
           MDPPL++E+SFSAANPSSY+L EIWPF   NG A    GLR+GN+  GFGE    RDGS+
Sbjct: 1   MDPPLISETSFSAANPSSYTLTEIWPFSALNGDASAGLGLRVGNLSAGFGE----RDGSV 56

Query: 60  EESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENG-SK 118
           EESTVTEQS GG GRKRRD SSEDESSK+VST+SS N+L DSN K MK SGS+NENG SK
Sbjct: 57  EESTVTEQSVGG-GRKRRDFSSEDESSKMVSTSSSGNELQDSNVKRMKISGSQNENGKSK 115

Query: 119 AEVEASSAAGNKPAE-SSKPSEPPK-DYIHVRARRGQATDSHSLAERARREKISERMKIL 176
           AEVEASSA     AE +SK SEPPK DYIHVRARRGQATDSHSLAERARREKISERMKIL
Sbjct: 116 AEVEASSANDKNAAEQNSKISEPPKQDYIHVRARRGQATDSHSLAERARREKISERMKIL 175

Query: 177 QDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKD 234
           QDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM + PT+EGFHPKD
Sbjct: 176 QDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMGMNPTVEGFHPKD 233

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119176|ref|XP_002318005.1| predicted protein [Populus trichocarpa] gi|222858678|gb|EEE96225.1| predicted protein [Populus trichocarpa]

 Score =  330 bits (845), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 180/241 (74%), Positives = 198/241 (82%), Gaps = 16/241 (6%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGAGDAGLRMGNMGHGFGESSALRDGSME 60
           MDPPL+NE SFSAANPSSYSL EIWPFP  +  A   GLRM N+        A RDGS++
Sbjct: 1   MDPPLINEKSFSAANPSSYSLTEIWPFPPPSSTA--LGLRMANL--------ADRDGSVD 50

Query: 61  ESTVTEQSGGG--CGRKRRDLSSE-DESSKIVSTTSSANDLNDSNGKWMKTSGSKNENG- 116
           ESTVTEQ GG     RK RDLSSE D+SS +VSTT+SA+DLND NGK  K SGS+NEN  
Sbjct: 51  ESTVTEQRGGNRNGNRKARDLSSEEDDSSIMVSTTTSAHDLNDLNGKRRKISGSRNENND 110

Query: 117 SKAEVEASSAAGNKPAE-SSKPSEPP-KDYIHVRARRGQATDSHSLAERARREKISERMK 174
           S+AE+EASSAA NKPAE SSKPSEPP +DYIHVR+RRGQATDSHSLAERARRE+I ERMK
Sbjct: 111 SRAEIEASSAANNKPAEPSSKPSEPPMQDYIHVRSRRGQATDSHSLAERARRERIGERMK 170

Query: 175 ILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKD 234
           ILQDLVPGCNKVIGKAL LDEIINYIQSLQ QVEFLSMKLEAVNSRM+ +P IEG HPKD
Sbjct: 171 ILQDLVPGCNKVIGKALALDEIINYIQSLQCQVEFLSMKLEAVNSRMSTSPAIEGLHPKD 230

Query: 235 V 235
           +
Sbjct: 231 L 231

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456604|ref|XP_002267633.1| PREDICTED: transcription factor bHLH79 isoform 1 [Vitis vinifera]

 Score =  320 bits (821), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 182/248 (73%), Positives = 202/248 (81%), Gaps = 14/248 (5%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGA-----GDAGLRMGNMGH---GFGESS 52
           MDPPL+NESSFSAANPS+YSLAEIWPFP+N+  A        GLR+ N G     F +SS
Sbjct: 1   MDPPLINESSFSAANPSAYSLAEIWPFPVNSASAIGEPTAGLGLRIANFGQIMGQFADSS 60

Query: 53  ALRDGSMEESTVTEQSGGGCGRKRR-DLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGS 111
           A RD S++ESTVTEQSG   G ++R D+SSEDESSKIVST SS + +N SNGK MK S +
Sbjct: 61  ANRDVSVDESTVTEQSGSRGGGRKRRDVSSEDESSKIVST-SSGSGMNASNGKRMKISRT 119

Query: 112 KNENG-SKAEVEASSAAGNKPAESSKPSEPPK-DYIHVRARRGQATDSHSLAERARREKI 169
            +ENG SKAE+EASS AG KPAE SKP+E  K DYIHVRARRGQATDSHSLAERARREKI
Sbjct: 120 PDENGGSKAELEASSVAGEKPAEESKPAEQSKQDYIHVRARRGQATDSHSLAERARREKI 179

Query: 170 SERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEG 229
           SERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN   T+EG
Sbjct: 180 SERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN--HTVEG 237

Query: 230 FHPKDVSL 237
           F  KD+ +
Sbjct: 238 FPLKDLGV 245

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734057|emb|CBI15304.3| unnamed protein product [Vitis vinifera]

 Score =  311 bits (796), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 178/240 (74%), Positives = 198/240 (82%), Gaps = 13/240 (5%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGAGDAGLRMGNMGHGFGESSALRDGSME 60
           MDPPL+NESSFSAANPS+YSLAEIWPFP+N+  A      +G    G  +SSA RD S++
Sbjct: 1   MDPPLINESSFSAANPSAYSLAEIWPFPVNSASA------IGEPTAGL-DSSANRDVSVD 53

Query: 61  ESTVTEQSGGGCGRKRR-DLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENG-SK 118
           ESTVTEQSG   G ++R D+SSEDESSKIVST SS + +N SNGK MK S + +ENG SK
Sbjct: 54  ESTVTEQSGSRGGGRKRRDVSSEDESSKIVST-SSGSGMNASNGKRMKISRTPDENGGSK 112

Query: 119 AEVEASSAAGNKPAESSKPSEPPK-DYIHVRARRGQATDSHSLAERARREKISERMKILQ 177
           AE+EASS AG KPAE SKP+E  K DYIHVRARRGQATDSHSLAERARREKISERMKILQ
Sbjct: 113 AELEASSVAGEKPAEESKPAEQSKQDYIHVRARRGQATDSHSLAERARREKISERMKILQ 172

Query: 178 DLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSL 237
           DLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN   T+EGF  KD+ +
Sbjct: 173 DLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN--HTVEGFPLKDLGV 230

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147821091|emb|CAN75381.1| hypothetical protein VITISV_027596 [Vitis vinifera]

 Score =  298 bits (762), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 184/292 (63%), Positives = 202/292 (69%), Gaps = 58/292 (19%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGA-----GDAGLRMGNMGH---GFGESS 52
           MDPPL+NESSFSAANPS+YSLAEIWPFP+N+  A        GLR+ N G     F +SS
Sbjct: 1   MDPPLINESSFSAANPSAYSLAEIWPFPVNSASAIGEPTAGLGLRIANFGQIMGQFADSS 60

Query: 53  ALRDGSMEESTVTEQ-SGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGS 111
           A RD S++ESTVTEQ    G GRKRRD+SSEDESSKIVS TSS + +N SNGK MK S +
Sbjct: 61  ANRDVSVDESTVTEQSGSRGGGRKRRDVSSEDESSKIVS-TSSGSGMNASNGKRMKISRT 119

Query: 112 KNEN-GSKAEVEASSAAGNKPAESSKPSEPPK-DYIHVRARRGQATDSHSLAER------ 163
            +EN GSKAE+EASS AG KPAE SKP+E  K DYIHVRARRGQATDSHSLAER      
Sbjct: 120 PDENGGSKAELEASSVAGEKPAEESKPAEQSKQDYIHVRARRGQATDSHSLAERVMQFYT 179

Query: 164 --------------------------------------ARREKISERMKILQDLVPGCNK 185
                                                 ARREKISERMKILQDLVPGCNK
Sbjct: 180 LLIFCFLVVPQMPKLKRIGLSWNSRSRCRCIGVSVYINARREKISERMKILQDLVPGCNK 239

Query: 186 VIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSL 237
           VIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN   T+EGF  KD+ +
Sbjct: 240 VIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN--HTVEGFPLKDLGV 289

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|339716200|gb|AEJ88339.1| putative MYC protein [Tamarix hispida]

 Score =  296 bits (759), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 178/265 (67%), Positives = 197/265 (74%), Gaps = 40/265 (15%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGG--AGDAGLRMGN----MGHGF------ 48
           MDPPL++ESSFSAANPS   LAEIWPF   +GG  +G   LRMG+    +G  F      
Sbjct: 1   MDPPLISESSFSAANPS---LAEIWPF---SGGDVSGVLDLRMGSGVVAIGGIFGHGGSV 54

Query: 49  ------------GESSALRDGSMEESTVTEQSG----GGCGRKRRDLSSEDESSKIVSTT 92
                       G  +  RDGS+EESTVTEQSG    GGC RKR+D+ SEDESSK+VS T
Sbjct: 55  GGGGFHDGGCSGGVGTINRDGSIEESTVTEQSGSHGGGGC-RKRKDVISEDESSKLVSAT 113

Query: 93  SSANDLNDSNGKWMKTSGSKNEN-GSKAEVEASSAAGNKPAE-SSKPSEPPKDYIHVRAR 150
           +SAN+L + NGK MK SGS+ EN GSK  +EASS+ G K AE SS+P EPPKDYIHVRAR
Sbjct: 114 TSANELTE-NGKRMKISGSRYENNGSKTGIEASSSGGGKSAEKSSQPPEPPKDYIHVRAR 172

Query: 151 RGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFL 210
           RGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFL
Sbjct: 173 RGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFL 232

Query: 211 SMKLEAVNSRMNLTPTIEGFHPKDV 235
           SMKLE VNS +N  P I  F  KDV
Sbjct: 233 SMKLEVVNSGVN--PAINCFPSKDV 255

Source: Tamarix hispida

Species: Tamarix hispida

Genus: Tamarix

Family: Tamaricaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|55419646|gb|AAV51936.1| bHLH transcription factor [Gossypium hirsutum]

 Score =  289 bits (739), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 153/183 (83%), Positives = 167/183 (91%), Gaps = 4/183 (2%)

Query: 59  MEESTVTEQS-GGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNEN-G 116
           MEESTVTEQS G G GRKR++LSSEDESSKIVSTT+SAN+LNDSNGK MKT  SKN N G
Sbjct: 1   MEESTVTEQSVGCGGGRKRKELSSEDESSKIVSTTTSANELNDSNGKRMKTPVSKNGNTG 60

Query: 117 SK-AEVEASSAAGNKPAESSKPSEPPK-DYIHVRARRGQATDSHSLAERARREKISERMK 174
           SK AEVEASSA G+KP ++SKP+EPPK DYIHVRARRGQATDSHSLAERARRE+ISERMK
Sbjct: 61  SKEAEVEASSADGSKPDKNSKPAEPPKQDYIHVRARRGQATDSHSLAERARRERISERMK 120

Query: 175 ILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKD 234
           ILQDLVPGCNKVIGKALVLDEIINYIQSLQ+QVEFLSMKLEAVNSR+N+ P+ EGFH KD
Sbjct: 121 ILQDLVPGCNKVIGKALVLDEIINYIQSLQQQVEFLSMKLEAVNSRINVNPSFEGFHSKD 180

Query: 235 VSL 237
           + L
Sbjct: 181 LGL 183

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224133354|ref|XP_002321546.1| predicted protein [Populus trichocarpa] gi|222868542|gb|EEF05673.1| predicted protein [Populus trichocarpa]

 Score =  261 bits (666), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 138/166 (83%), Positives = 147/166 (88%), Gaps = 4/166 (2%)

Query: 74  RKRRDLSSE-DESSKIVSTTSSANDLNDSNGKWMKTSGSKNENG-SKAEVEASSAAGNKP 131
           RK RD SSE D+SSK+VSTT+SANDLNDSNGK  K SGS++EN  S+AE EASSAA NK 
Sbjct: 7   RKTRDFSSEKDDSSKMVSTTTSANDLNDSNGKRRKISGSRSENNDSRAETEASSAANNKT 66

Query: 132 AE-SSKPSEPPK-DYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGK 189
           AE SSKPSEPPK DYIHVRARRGQATDSHSLAERARREKISERM +LQDLVPGCNKVIGK
Sbjct: 67  AEQSSKPSEPPKQDYIHVRARRGQATDSHSLAERARREKISERMNMLQDLVPGCNKVIGK 126

Query: 190 ALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDV 235
           ALVLDEIINYIQSLQ QVEFLSMKLEAVNSRMN +PT E  HPKD+
Sbjct: 127 ALVLDEIINYIQSLQCQVEFLSMKLEAVNSRMNTSPTTEHLHPKDL 172

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456606|ref|XP_002267823.1| PREDICTED: transcription factor bHLH79 isoform 2 [Vitis vinifera]

 Score =  261 bits (666), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 160/248 (64%), Positives = 180/248 (72%), Gaps = 36/248 (14%)

Query: 1   MDPPLVNESSFSAANPSSYSLAEIWPFPINNGGA-----GDAGLRMGNMGH---GFGESS 52
           MDPPL+NESSFSAANPS+YSLAEIWPFP+N+  A        GLR+ N G     F +SS
Sbjct: 1   MDPPLINESSFSAANPSAYSLAEIWPFPVNSASAIGEPTAGLGLRIANFGQIMGQFADSS 60

Query: 53  ALRDGSMEESTVTEQSGGGCGRKRR-DLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGS 111
           A RD S++ESTVTEQSG   G ++R D+SSEDESSKIVST SS + +N SNGK MK S +
Sbjct: 61  ANRDVSVDESTVTEQSGSRGGGRKRRDVSSEDESSKIVST-SSGSGMNASNGKRMKISRT 119

Query: 112 KNENG-SKAEVEASSAAGNKPAESSKPSEPPK-DYIHVRARRGQATDSHSLAERARREKI 169
            +ENG SKAE+EASS AG KPAE SKP+E  K DYIHVRARRGQATDSHSLAER      
Sbjct: 120 PDENGGSKAELEASSVAGEKPAEESKPAEQSKQDYIHVRARRGQATDSHSLAER------ 173

Query: 170 SERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEG 229
                           VIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN   T+EG
Sbjct: 174 ----------------VIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN--HTVEG 215

Query: 230 FHPKDVSL 237
           F  KD+ +
Sbjct: 216 FPLKDLGV 223

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	239
TAIR|locus:2172209	281	AT5G62610 "AT5G62610" [Arabido	0.974	0.829	0.559	5.1e-58
UNIPROTKB|Q84T08	265	OSJNBa0087C10.10 "BHLH transcr	0.870	0.784	0.543	6e-48
TAIR|locus:2202867	343	BPEp "AT1G59640" [Arabidopsis	0.849	0.591	0.553	1.9e-44
TAIR|locus:2079676	456	AT3G07340 "AT3G07340" [Arabido	0.380	0.199	0.774	2.8e-38
UNIPROTKB|Q69JJ6	428	OSJNBa0026C08.22 "TA1 protein-	0.857	0.478	0.454	3e-37
UNIPROTKB|Q69WS3	268	OJ1118_E12.15 "Putative bHLH p	0.707	0.630	0.527	1e-36
UNIPROTKB|Q5N802	481	P0004D12.24 "BHLH transcriptio	0.866	0.430	0.425	1.9e-35
TAIR|locus:2095198	371	AT3G23690 "AT3G23690" [Arabido	0.702	0.452	0.528	3.1e-35
UNIPROTKB|Q5VR96	437	P0038C05.31-1 "Os06g0275600 pr	0.790	0.432	0.472	5.1e-35
TAIR|locus:2152551	498	AT5G48560 "AT5G48560" [Arabido	0.841	0.403	0.465	8.3e-35

TAIR|locus:2172209 AT5G62610 "AT5G62610" [Arabidopsis thaliana (taxid:3702)]

 Score = 596 (214.9 bits), Expect = 5.1e-58, P = 5.1e-58
 Identities = 136/243 (55%), Positives = 161/243 (66%)

Query:     1 MDPPLVNEXXXXXXXXXXXXLAEIWPFPINNGGAGDAGLRMG-NMGHGF--GESSALRDG 57
             MDPPLVN+            L+EIWPFP+N+  A  +GLR+  N G  F   E S  +D 
Sbjct:     1 MDPPLVNDSSFSAANPSSYTLSEIWPFPVND--AVRSGLRLAVNSGRVFTRSEHSGNKDV 58

Query:    58 SM-EESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENG 116
             S  EESTVT+ + G   RK RDL+SED+SSK+VS++SS N+L +S  K  K  GS++ NG
Sbjct:    59 SAAEESTVTDLTAGWGSRKTRDLNSEDDSSKMVSSSSSGNELKESGDKKRKLCGSESGNG 118

Query:   117 S---KAEVEASSAAGNXXXXXXXXXXXX-XDYIHVRARRGQATDSHSLAERARREKISER 172
                 + E E SS  G               DYIHVRARRGQATD HSLAERARREKISE+
Sbjct:   119 DGSMRPEGETSSGGGGSKATEQKNKPEPPKDYIHVRARRGQATDRHSLAERARREKISEK 178

Query:   173 MKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHP 232
             M  LQD++PGCNK+IGKALVLDEIINYIQSLQRQVEFLSMKLE VNS  +  PTI  F  
Sbjct:   179 MTALQDIIPGCNKIIGKALVLDEIINYIQSLQRQVEFLSMKLEVVNSGASTGPTIGVFPS 238

Query:   233 KDV 235
              D+
Sbjct:   239 GDL 241

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|Q84T08 OSJNBa0087C10.10 "BHLH transcription factor, putative, expressed" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 501 (181.4 bits), Expect = 6.0e-48, P = 6.0e-48
 Identities = 124/228 (54%), Positives = 147/228 (64%)

Query:    22 AEIWPFPINNGGAGDAGLRMGNMGHGFGESSALRDGSMEESTVTEQSGGGCG---RKRRD 78
             AE+W  P   GG G  G   G  G G  E++A   G  E+S  +   GGG G   R++R+
Sbjct:     9 AELWRTPYLGGGGGGGG---G--GRGL-EAAA--SGVTEQSNGSRGGGGGGGAGRRRQRE 60

Query:    79 LSS-EDESSKIVSTTSSAN---DLNDSNGKWMKTSGSKNENGS---KAEVEASSAAGNXX 131
               + ED+SS+IVST+       DL DS  K  K S S  +N S   +AE ++ +A+ +  
Sbjct:    61 APALEDDSSRIVSTSGGGGGGQDLTDSEAKRFKASKSSGDNSSLRTEAETDSRNASKSGD 120

Query:   132 XXXXXXXXXXXDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKAL 191
                        DYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKA 
Sbjct:   121 QNPPPPEPPKQDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKAS 180

Query:   192 VLDEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSLSI 239
             VLDEIINYIQ+LQRQVEFLSMKLEAVN+ +N    IE F PKD    +
Sbjct:   181 VLDEIINYIQALQRQVEFLSMKLEAVNAHVN--NGIEAFPPKDFGAQV 226

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2202867 BPEp "AT1G59640" [Arabidopsis thaliana (taxid:3702)]

 Score = 468 (169.8 bits), Expect = 1.9e-44, P = 1.9e-44
 Identities = 124/224 (55%), Positives = 142/224 (63%)

Query:    21 LAEIWPFPINN-GGAGDAGLRMGNMGHGFGES---SALRDGSMEESTVTEQS--GGGCGR 74
             LAEIW FP+N    AGD+  R     + FG++   +A        S    Q+   G  G 
Sbjct:    15 LAEIWQFPLNGVSTAGDSSRRSFVGPNQFGDADLTTAANGDPARMSHALSQAVIEGISGA 74

Query:    75 -KRRDLSSEDESSKIVSTTSSANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNXXXX 133
              KRR+   E +S+KIVST  +      S G+  +    +  +G KAE E+    G     
Sbjct:    75 WKRRE--DESKSAKIVSTIGA------SEGENKRQKIDEVCDG-KAEAES---LGTETEQ 122

Query:   134 XXXXXXXXXDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVL 193
                      DYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVL
Sbjct:   123 KKQQMEPTKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVL 182

Query:   194 DEIINYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSL 237
             DEIINYIQSLQRQVEFLSMKLEAVNSRMN  P IE F PK+V +
Sbjct:   183 DEIINYIQSLQRQVEFLSMKLEAVNSRMN--PGIEVFPPKEVMI 224

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

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

GO:0048446 "petal morphogenesis" evidence=IMP

GO:0009062 "fatty acid catabolic process" evidence=RCA

GO:0009694 "jasmonic acid metabolic process" evidence=RCA

GO:0009753 "response to jasmonic acid stimulus" evidence=RCA

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0048441 "petal development" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2079676 AT3G07340 "AT3G07340" [Arabidopsis thaliana (taxid:3702)]

 Score = 363 (132.8 bits), Expect = 2.8e-38, Sum P(2) = 2.8e-38
 Identities = 72/93 (77%), Positives = 82/93 (88%)

Query:   143 DYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQS 202
             DYIHVRARRGQATDSHSLAER RREKISERMK+LQDLVPGCNKV GKAL+LDEIINY+QS
Sbjct:   254 DYIHVRARRGQATDSHSLAERVRREKISERMKLLQDLVPGCNKVTGKALMLDEIINYVQS 313

Query:   203 LQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDV 235
             LQRQVEFLSMKL +VN+R++    ++    KD+
Sbjct:   314 LQRQVEFLSMKLSSVNTRLDFN--MDALLSKDI 344

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

UNIPROTKB|Q69JJ6 OSJNBa0026C08.22 "TA1 protein-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 99/218 (45%), Positives = 125/218 (57%)

Query:    26 PFPINNGGAGDA--GLRMGNMGH----GFGESSALRDGSMEESTVTEQSGGGCGRKRRDL 79
             P+   +   GDA  G   G M H    G  ++        +E   +E +GG C  K  D 
Sbjct:   122 PYGAADQAMGDAFGGTAEGLMDHHRNVGNDKAEEFAGNGHDEVPSSEVAGGDCSSKGSDS 181

Query:    80 SSEDESSKIVSTTS--SANDLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNXXXXXXXX 137
                   ++++ T    S+N  +DS  + +  S  K E  S A      + G         
Sbjct:   182 KKRRRPNEVMGTDQVHSSNLPSDSANESVH-SKDKGEESSPATTNGGKSKGKGAKETSES 240

Query:   138 XXXXXDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEII 197
                  +YIHVRARRGQAT+SHSLAER RREKISERMK+LQDLVPGC+KV GKA++LDEII
Sbjct:   241 QKE--EYIHVRARRGQATNSHSLAERLRREKISERMKLLQDLVPGCSKVTGKAVMLDEII 298

Query:   198 NYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDV 235
             NY+QSLQRQVEFLSMKL  VN R++L   IEG   KD+
Sbjct:   299 NYVQSLQRQVEFLSMKLATVNPRLDLN--IEGLLSKDL 334

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q69WS3 OJ1118_E12.15 "Putative bHLH protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 395 (144.1 bits), Expect = 1.0e-36, P = 1.0e-36
 Identities = 107/203 (52%), Positives = 122/203 (60%)

Query:    46 HGFGESSALRD-GSMEESTVTEQSGGGCGRKR--RDLSSEDES-SKIVSTTSSAN----- 96
             H F  SS + D GS        + GGG GR+R   D   ED+  SK+VST++++      
Sbjct:    19 HHFEASSVVTDQGS------GSRGGGGSGRRRPRSDAGPEDDDLSKVVSTSAASGGGGGG 72

Query:    97 --DLNDSNGKWMKTSGSKNENGSKAEVEASSAAGNXXXXXXXXXXX----XXDYIHVRAR 150
               D +    K +K   S ++N S    EA + +GN                 DYIHVRAR
Sbjct:    73 GQDSDAPEAKRLKPMKSSDKNDS-LRTEAGTDSGNSSKAADKNATPPEPPKQDYIHVRAR 131

Query:   151 RGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEF- 209
             RGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKA VLDEIINYIQSLQ QVEF 
Sbjct:   132 RGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKASVLDEIINYIQSLQHQVEFM 191

Query:   210 -----------LSMKLEAVNSRM 221
                        LSMKLEAVNS M
Sbjct:   192 FKYLIELFLQFLSMKLEAVNSHM 214

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q5N802 P0004D12.24 "BHLH transcription factor" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 94/221 (42%), Positives = 128/221 (57%)

Query:    27 FPINNGGAGDAGLRMGNMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDESS 86
             F + + GA  A   M  +G+   ESS + D +   + +  +       ++R  S + +  
Sbjct:   152 FGLPDAGAAGASKEM-ELGNTRDESS-VSDPAPGGAEIPPKGASDGNARKRKASGKGKGK 209

Query:    87 KIVSTTSSANDLNDSNGKWMKTSGSKN----ENGSKAEVEASSAAGNXXXXXXXXXXXX- 141
                 +TS+A +  DS+GK  K++   N    EN  K +   S++                
Sbjct:   210 DSPMSTSAAKE--DSSGKRCKSTEESNAAAEENSGKGKAAQSNSENGGGKKQGKDSSSKP 267

Query:   142 ----XDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEII 197
                  DYIHVRARRG+ATDSHSLAER RREKIS+RMK+LQDLVPGCNKV+GKA++LDEII
Sbjct:   268 PEPPKDYIHVRARRGEATDSHSLAERVRREKISQRMKLLQDLVPGCNKVVGKAVMLDEII 327

Query:   198 NYIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSLS 238
             NY+QSLQRQVEFLSMKL  VN +++    +     KD+  S
Sbjct:   328 NYVQSLQRQVEFLSMKLATVNPQLDFN-NLPNLLAKDMHQS 367

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2095198 AT3G23690 "AT3G23690" [Arabidopsis thaliana (taxid:3702)]

 Score = 381 (139.2 bits), Expect = 3.1e-35, P = 3.1e-35
 Identities = 93/176 (52%), Positives = 112/176 (63%)

Query:    50 ESSALRDGSMEESTVTEQSGGGCGRKRRDLSSED--ESSKIVSTTSSANDLNDSNG--KW 105
             +SS L   S+ +   T +S     RKR+ + S +  ES    S T+S + ++  NG  K 
Sbjct:    94 KSSLLDPDSVSDRVHTTKSNS---RKRKSIPSGNGKESPASSSLTASNSKVSGENGGSKG 150

Query:   106 MKTSGSKNENGSKAEVEASSAAGNXXXXXXXXXXXXXDYIHVRARRGQATDSHSLAERAR 165
              K S       SK  VE   + G+             DYIHVRARRGQATDSHSLAERAR
Sbjct:   151 GKRSKQDVAGSSKNGVEKCDSKGDNKDDAKPPEAPK-DYIHVRARRGQATDSHSLAERAR 209

Query:   166 REKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221
             REKISERM +LQDLVPGCN++ GKA++LDEIINY+QSLQRQVEFLSMKL  VN RM
Sbjct:   210 REKISERMTLLQDLVPGCNRITGKAVMLDEIINYVQSLQRQVEFLSMKLATVNPRM 265

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

UNIPROTKB|Q5VR96 P0038C05.31-1 "Os06g0275600 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 379 (138.5 bits), Expect = 5.1e-35, P = 5.1e-35
 Identities = 94/199 (47%), Positives = 118/199 (59%)

Query:    42 GNMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDESSKIVSTTSSANDLNDS 101
             G    G GE++   D S +E ++  ++GG    +   +S    S K   +       +  
Sbjct:   153 GEKQQGDGETTHAVDSSSKELSMPGRNGGAGHDEGTRVSC---SKKRKRSGQDGGVKHAE 209

Query:   102 NGKWMKTSGS--KNENGSKAEVEASSAAGNXXXXXXXXXXXXX---DYIHVRARRGQATD 156
              G+ + T GS  KNE+  K E + SS A                  DYIHVRARRGQAT+
Sbjct:   210 GGEQLATVGSAQKNEDDEKGEPKRSSVASGKSSGKQIKDNAGSPKEDYIHVRARRGQATN 269

Query:   157 SHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEA 216
             SHSLAER RREKISERMK LQDLVPGC+KV GKA++LDEIINY+QSLQRQVEFLSMKL +
Sbjct:   270 SHSLAERVRREKISERMKYLQDLVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMKLAS 329

Query:   217 VNSRMNLTPTIEGFHPKDV 235
             VN  ++    IE    KD+
Sbjct:   330 VNPTLDFN--IERILSKDI 346

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2152551 AT5G48560 "AT5G48560" [Arabidopsis thaliana (taxid:3702)]

 Score = 377 (137.8 bits), Expect = 8.3e-35, P = 8.3e-35
 Identities = 102/219 (46%), Positives = 119/219 (54%)

Query:    28 PINNGGAGDAGLRMGNMGHGFGESSALRDGSMEESTVTEQSGGGCGRKRRDLSSEDESSK 87
             PINNG        + N G     SS     ++    VT   GG   RKR+ +        
Sbjct:   181 PINNGNN-----MVNNSGKLTRVSSTPALKALVSPEVTP--GGEFSRKRKSVPKGKSKEN 233

Query:    88 IVSTTSSANDLNDSNGKWMKTSGSKN--ENGSKA-------EVEASSAAGNXXXXXXXXX 138
              +ST S +   + +  K     GSK+  E G K        E E     GN         
Sbjct:   234 PISTASPSPSFSKTAEKNGGKGGSKSSEEKGGKRRREEEDDEEEEGEGEGNKSNNTKPPE 293

Query:   139 XXXXDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIIN 198
                 DYIHVRARRGQATDSHSLAER RREKI ERMK+LQDLVPGCNKV GKAL+LDEIIN
Sbjct:   294 PPK-DYIHVRARRGQATDSHSLAERVRREKIGERMKLLQDLVPGCNKVTGKALMLDEIIN 352

Query:   199 YIQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDVSL 237
             Y+QSLQRQVEFLSMKL +VN    L   ++    KDV +
Sbjct:   353 YVQSLQRQVEFLSMKLSSVNDT-RLDFNVDALVSKDVMI 390

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0016132 "brassinosteroid biosynthetic process" evidence=RCA

---

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)
Q9LV17	BH079_ARATH	No assigned EC number	0.6106	0.9707	0.8256	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	239
smart00353	53	smart00353, HLH, helix loop helix domain	2e-11
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	2e-09
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	2e-08

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

 Score = 57.2 bits (139), Expect = 2e-11
 Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 2/52 (3%)

Query: 159 SLAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSLQRQVE 208
           +  ER RR KI+E    L+ L+P    NK + KA +L   I YI+SLQ +++
Sbjct: 1   NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQ 52

Length = 53

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

 Score = 51.8 bits (125), Expect = 2e-09
 Identities = 20/60 (33%), Positives = 36/60 (60%), Gaps = 2/60 (3%)

Query: 151 RGQATDSHSLAERARREKISERMKILQDLVPGCNKV--IGKALVLDEIINYIQSLQRQVE 208
           R    ++H+L ER RRE+I++    L+ L+P       + KA +L + ++YI+SLQ  ++
Sbjct: 1   RKSRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60

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

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

 Score = 49.0 bits (118), Expect = 2e-08
 Identities = 17/49 (34%), Positives = 30/49 (61%), Gaps = 1/49 (2%)

Query: 157 SHSLAERARREKISERMKILQDLVPGCNKV-IGKALVLDEIINYIQSLQ 204
           +H+  ER RR++I++  + L++L+P      + KA +L   I YI+ LQ
Sbjct: 4   AHNERERRRRDRINDAFEELRELLPTPPNKKLSKAEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	239
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.42
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.37
smart00353	53	HLH helix loop helix domain.	99.33
KOG1318	411	consensus Helix loop helix transcription factor EB	99.19
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	99.19
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.66
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.48
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	98.42
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	98.25
PLN03217	93	transcription factor ATBS1; Provisional	98.0
KOG0561	373	consensus bHLH transcription factor [Transcription	97.52
KOG3960	284	consensus Myogenic helix-loop-helix transcription	97.27
KOG4029	228	consensus Transcription factor HAND2/Transcription	97.13
KOG3910	632	consensus Helix loop helix transcription factor [T	96.22
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	91.38
KOG3582	856	consensus Mlx interactors and related transcriptio	88.11
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	81.81

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

Probab=99.42  E-value=2.3e-13  Score=94.99  Aligned_cols=54  Identities=37%  Similarity=0.654  Sum_probs=49.0

Q ss_pred             CCcccHHHHhHHHHHHHHHHHHHhcCCCC--CCCCChHhHHHHHHHHHHHHHHHHH
Q 026390          155 TDSHSLAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       155 t~sHs~aERrRR~kIne~~~~LrsLVP~~--~k~~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      +..|+..||+||++||+.|..|+.|||.+  ...++|+.||+.||+||++|+.+++
T Consensus         5 r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~   60 (60)
T cd00083           5 REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ   60 (60)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            35799999999999999999999999999  3456999999999999999998863

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

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

Probab=99.37  E-value=1e-12  Score=91.75  Aligned_cols=49  Identities=37%  Similarity=0.739  Sum_probs=45.1

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC----CCCCChHhHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC----NKVIGKALVLDEIINYIQSLQ  204 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~----~k~~dKAsIL~eAIdYIk~LQ  204 (239)
                      ..|+..||+||..||+.|..|+.|||.+    ...++|++||+.||+||++||
T Consensus         3 ~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    3 QKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            4699999999999999999999999997    233799999999999999997

; 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 ....

>smart00353 HLH helix loop helix domain

Probab=99.33  E-value=4.1e-12  Score=87.27  Aligned_cols=50  Identities=40%  Similarity=0.577  Sum_probs=44.8

Q ss_pred             cHHHHhHHHHHHHHHHHHHhcCCCCC--CCCChHhHHHHHHHHHHHHHHHHH
Q 026390          159 SLAERARREKISERMKILQDLVPGCN--KVIGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       159 s~aERrRR~kIne~~~~LrsLVP~~~--k~~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      +..||+||++||++|..|+.|||.+.  ..++|+.||..||+||++|+.+++
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            46899999999999999999999753  335999999999999999999886

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

Probab=99.19  E-value=2.8e-11  Score=115.95  Aligned_cols=59  Identities=37%  Similarity=0.650  Sum_probs=51.8

Q ss_pred             cCCCCCCcccHHHHhHHHHHHHHHHHHHhcCCCCCCC---CChHhHHHHHHHHHHHHHHHHH
Q 026390          150 RRGQATDSHSLAERARREKISERMKILQDLVPGCNKV---IGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       150 rr~~at~sHs~aERrRR~kIne~~~~LrsLVP~~~k~---~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      |.+++++.|+.+|||||++||++|++|..|||.|+..   +.|.+||..+++||++||+..+
T Consensus       229 rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q  290 (411)
T KOG1318|consen  229 RDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ  290 (411)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence            3344558999999999999999999999999999543   6899999999999999998665

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=99.19  E-value=1.6e-11  Score=107.77  Aligned_cols=66  Identities=30%  Similarity=0.537  Sum_probs=59.4

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCCCC------CChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCNKV------IGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM  221 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~k~------~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~l  221 (239)
                      .+|..+||+||+.||.+++.|++|||.|...      ++||.||.++|+||.+|+.++...+.++.+|+.++
T Consensus        64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~v  135 (229)
T KOG1319|consen   64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDV  135 (229)
T ss_pred             HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4799999999999999999999999988544      58999999999999999999888888888877665

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

Probab=98.66  E-value=1e-08  Score=92.81  Aligned_cols=52  Identities=33%  Similarity=0.510  Sum_probs=46.5

Q ss_pred             cccHHHHhHHHHHHHHHHHHHhcCCCCCCC-------CChHhHHHHHHHHHHHHHHHHH
Q 026390          157 SHSLAERARREKISERMKILQDLVPGCNKV-------IGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       157 sHs~aERrRR~kIne~~~~LrsLVP~~~k~-------~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      .|-+.||+||.+||++|.+|++|||.+-++       ++||.||+.||+|++.||....
T Consensus        35 ~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~   93 (250)
T KOG4304|consen   35 RKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ   93 (250)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence            588999999999999999999999976433       6999999999999999997654

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

Probab=98.48  E-value=3e-07  Score=94.52  Aligned_cols=52  Identities=21%  Similarity=0.382  Sum_probs=48.5

Q ss_pred             CCcccHHHHhHHHHHHHHHHHHHhcCCCCC---CCCChHhHHHHHHHHHHHHHHH
Q 026390          155 TDSHSLAERARREKISERMKILQDLVPGCN---KVIGKALVLDEIINYIQSLQRQ  206 (239)
Q Consensus       155 t~sHs~aERrRR~kIne~~~~LrsLVP~~~---k~~dKAsIL~eAIdYIk~LQ~q  206 (239)
                      +++|+.+||+||+++|..|.+|.+|||+|.   .++||.+||.+||++|+.++..
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            378999999999999999999999999997   5579999999999999999875

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

Probab=98.42  E-value=6.1e-07  Score=80.79  Aligned_cols=55  Identities=29%  Similarity=0.420  Sum_probs=46.9

Q ss_pred             CCCcccHHHHhHHHHHHHHHHHHHhcCCCCCCCC-C-hHhHHHHHHHHHHHHHHHHH
Q 026390          154 ATDSHSLAERARREKISERMKILQDLVPGCNKVI-G-KALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       154 at~sHs~aERrRR~kIne~~~~LrsLVP~~~k~~-d-KAsIL~eAIdYIk~LQ~qVe  208 (239)
                      ++..|+..||+||..|+++|..|+.+||...... . .++||++|++||+.|+.+..
T Consensus        59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~  115 (232)
T KOG2483|consen   59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSA  115 (232)
T ss_pred             chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHH
Confidence            3467999999999999999999999999775442 2 58999999999999987544

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=98.25  E-value=4.7e-07  Score=93.98  Aligned_cols=66  Identities=29%  Similarity=0.509  Sum_probs=60.7

Q ss_pred             CCCCcccHHHHhHHHHHHHHHHHHHhcCCCCCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026390          153 QATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVN  218 (239)
Q Consensus       153 ~at~sHs~aERrRR~kIne~~~~LrsLVP~~~k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~  218 (239)
                      ..+.+||++|++-|..||++|.+|+++||+..-++.|..+|..||+||++|+...+.|....+++.
T Consensus       275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~  340 (953)
T KOG2588|consen  275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENASLR  340 (953)
T ss_pred             cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence            557899999999999999999999999999876679999999999999999999998887777776

>PLN03217 transcription factor ATBS1; Provisional

Probab=98.00  E-value=2.1e-05  Score=61.67  Aligned_cols=55  Identities=31%  Similarity=0.493  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHhcCCCCCC-----CCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 026390          166 REKISERMKILQDLVPGCNK-----VIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR  220 (239)
Q Consensus       166 R~kIne~~~~LrsLVP~~~k-----~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~  220 (239)
                      -+.|++.+..||.|+|....     ..+-+-||++|+.||+.|+++|..|.+.|.+|-..
T Consensus        19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t   78 (93)
T PLN03217         19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLAN   78 (93)
T ss_pred             HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35799999999999996532     14778899999999999999999999999988655

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.52  E-value=0.00011  Score=69.20  Aligned_cols=55  Identities=25%  Similarity=0.404  Sum_probs=46.6

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC-CCCCChHhHHHHHHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC-NKVIGKALVLDEIINYIQSLQRQVEFL  210 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~-~k~~dKAsIL~eAIdYIk~LQ~qVe~L  210 (239)
                      +.-+..||+|=.-||-+|..|+.|+|.- ..+++||.||+.+.+||..|+.+.-+|
T Consensus        62 eIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~l  117 (373)
T KOG0561|consen   62 EIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTEL  117 (373)
T ss_pred             HhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhccccc
Confidence            4567889999999999999999999965 333699999999999999998754433

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

Probab=97.27  E-value=0.00077  Score=62.01  Aligned_cols=61  Identities=23%  Similarity=0.319  Sum_probs=51.4

Q ss_pred             ccHHHHhHHHHHHHHHHHHHh-cCCCCCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026390          158 HSLAERARREKISERMKILQD-LVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVN  218 (239)
Q Consensus       158 Hs~aERrRR~kIne~~~~Lrs-LVP~~~k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~  218 (239)
                      -.+-||+|=.|||+.|.+|+. -+++-+.-+-|..||..||+||..||.-++++.+.-..++
T Consensus       122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~~  183 (284)
T KOG3960|consen  122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGLA  183 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccchhhh
Confidence            468999999999999999975 4566666689999999999999999998888876655553

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

Probab=97.13  E-value=0.00039  Score=61.47  Aligned_cols=58  Identities=22%  Similarity=0.311  Sum_probs=49.5

Q ss_pred             cccHHHHhHHHHHHHHHHHHHhcCCCC---CCCCChHhHHHHHHHHHHHHHHHHHHHHHHH
Q 026390          157 SHSLAERARREKISERMKILQDLVPGC---NKVIGKALVLDEIINYIQSLQRQVEFLSMKL  214 (239)
Q Consensus       157 sHs~aERrRR~kIne~~~~LrsLVP~~---~k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~l  214 (239)
                      .++..||.|=..+|..|..|+.+||..   .++++|..+|.-||.||++|+.-++.-...+
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            466779999999999999999999964   4558999999999999999998877665443

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=96.22  E-value=0.0056  Score=61.02  Aligned_cols=67  Identities=27%  Similarity=0.271  Sum_probs=52.2

Q ss_pred             CCCccccccccCCCCCCcccHHHHhHHHHHHHHHHHHHhcCCCC---CCCCChHhHHHHHHHHHHHHHHHHHHH
Q 026390          140 PPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGC---NKVIGKALVLDEIINYIQSLQRQVEFL  210 (239)
Q Consensus       140 p~~d~~~~R~rr~~at~sHs~aERrRR~kIne~~~~LrsLVP~~---~k~~dKAsIL~eAIdYIk~LQ~qVe~L  210 (239)
                      |.+...+.+.||    ...+.-||-|=.-||+.|++|-.|.-.-   .|..-|..||..||.-|-.|++||++-
T Consensus       516 peqkaeREkERR----~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER  585 (632)
T KOG3910|consen  516 PEQKAEREKERR----MANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER  585 (632)
T ss_pred             hhhhhhHHHHHH----hhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence            344444444455    6789999999889999999999987422   233589999999999999999999863

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=91.38  E-value=0.11  Score=45.02  Aligned_cols=50  Identities=22%  Similarity=0.356  Sum_probs=44.4

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC-CCCCChHhHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC-NKVIGKALVLDEIINYIQSLQR  205 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~-~k~~dKAsIL~eAIdYIk~LQ~  205 (239)
                      .-|++-||+|-..+|+.|..||.++|.. ....+|...|+-|.-||-+|-+
T Consensus        80 v~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~  130 (173)
T KOG4447|consen   80 VMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQ  130 (173)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhh
Confidence            4599999999999999999999999976 3335999999999999999864

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

Probab=88.11  E-value=0.072  Score=55.14  Aligned_cols=67  Identities=18%  Similarity=0.271  Sum_probs=53.7

Q ss_pred             CCcccHHHHhHHHHHHHHHHHHHhcCCCCCCC----CChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 026390          155 TDSHSLAERARREKISERMKILQDLVPGCNKV----IGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM  221 (239)
Q Consensus       155 t~sHs~aERrRR~kIne~~~~LrsLVP~~~k~----~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~l  221 (239)
                      ...|+-+|++||+.|+-+|..|-.++......    +.+++-|+.+++||..++.+...++++--.+...+
T Consensus       652 ~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~lr~~~  722 (856)
T KOG3582|consen  652 PITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHSLRKEI  722 (856)
T ss_pred             cccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhhhhhhh
Confidence            36799999999999999999999999765443    56777799999999999887776665555555554

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

Probab=81.81  E-value=1.1  Score=46.70  Aligned_cols=47  Identities=28%  Similarity=0.355  Sum_probs=38.8

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCC---CCCChHhHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCN---KVIGKALVLDEIINYIQS  202 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~---k~~dKAsIL~eAIdYIk~  202 (239)
                      +.-.-+-|.||.|-|+-|.+|..+||--.   -.+|||+|+.-||-|++-
T Consensus        48 EkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl   97 (768)
T KOG3558|consen   48 EKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL   97 (768)
T ss_pred             hhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence            33456789999999999999999999332   227999999999999973

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	239
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	1e-20
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	6e-10
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	3e-09
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	1e-08
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08
1a0a_A	63	BHLH, protein (phosphate system positive regulator	6e-05
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	5e-04

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

 Score = 82.0 bits (203), Expect = 1e-20
 Identities = 20/73 (27%), Positives = 41/73 (56%)

Query: 150 RRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEF 209
            RG+   +H+  E+  R  I++++  L+DLV G    + K+ VL + I+YI+ LQ   + 
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 210 LSMKLEAVNSRMN 222
           L  +  ++ + ++
Sbjct: 62  LKQENLSLRTAVH 74

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

 Score = 53.1 bits (128), Expect = 6e-10
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 156 DSHSLAERARREKISERMKILQDLVPGCNKVIG-----KALVLDEIINYIQSLQRQVE 208
             H+  ER RR+KI+  +  L  ++P  +         K  +L +  +YIQ L++   
Sbjct: 7   AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

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

 Score = 51.6 bits (124), Expect = 3e-09
 Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 8/75 (10%)

Query: 156 DSHSLAERARREKISERMKILQDLVPGCNKV-IGKALVLDEIINYIQSLQR-------QV 207
             H+  ER RR+ I +    L+D VP        +A +LD+   YIQ ++R        +
Sbjct: 4   AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 63

Query: 208 EFLSMKLEAVNSRMN 222
           + L  +   +  ++ 
Sbjct: 64  DDLKRQNALLEQQVR 78

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

 Score = 49.6 bits (119), Expect = 1e-08
 Identities = 20/83 (24%), Positives = 34/83 (40%), Gaps = 9/83 (10%)

Query: 135 SKPSEPPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKV-IGKALVL 193
           +   E   D      +R      H+  ER RR+ I +    L+D VP        +A +L
Sbjct: 1   NDDIEVESD----ADKR----AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQIL 52

Query: 194 DEIINYIQSLQRQVEFLSMKLEA 216
           D+   YIQ ++R+       ++ 
Sbjct: 53  DKATEYIQYMRRKNHTHQQDIDD 75

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

 Score = 49.6 bits (119), Expect = 2e-08
 Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 2/68 (2%)

Query: 157 SHSLAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSLQRQVEFLSMKL 214
           +H++ ER RR ++      L+D +P    N+   K ++L +   YI S+Q + + L  + 
Sbjct: 9   THNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEE 68

Query: 215 EAVNSRMN 222
           + +  R  
Sbjct: 69  DLLRKRRE 76

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

 Score = 52.5 bits (125), Expect = 4e-08
 Identities = 39/204 (19%), Positives = 75/204 (36%), Gaps = 48/204 (23%)

Query: 77  RDLSSED--ESSKIVSTTSSANDL----NDSNGK----WMKTSGSKNENGSKAEVEASSA 126
            +   +D  +  K + +    + +    +  +G     W   S  K E   +  VE    
Sbjct: 31  DNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS--KQEEMVQKFVE-EVL 87

Query: 127 AGNKP-------AESSKPSEPPKDYIHVRARRGQATDSHSLAER--ARREKISERMKILQ 177
             N          E  +PS   + YI  R R     D+   A+   +R +   +  + L 
Sbjct: 88  RINYKFLMSPIKTEQRQPSMMTRMYIEQRDR--LYNDNQVFAKYNVSRLQPYLKLRQALL 145

Query: 178 DLVPGCNKVI------GK-ALVLDEIINYIQSLQRQVEF----LSMK-----------LE 215
           +L P  N +I      GK  + LD  ++Y   +Q +++F    L++K           L+
Sbjct: 146 ELRPAKNVLIDGVLGSGKTWVALDVCLSY--KVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203

Query: 216 AVNSRMNLTPTIEGFHPKDVSLSI 239
            +  +++   T    H  ++ L I
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRI 227

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

 Score = 39.0 bits (91), Expect = 6e-05
 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 6/58 (10%)

Query: 157 SHSLAERARREKISERMKILQDLVPGCNK------VIGKALVLDEIINYIQSLQRQVE 208
           SH  AE+ARR +++  +  L  L+P   K         KA  ++    YI+ LQ+   
Sbjct: 5   SHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

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

 Score = 36.7 bits (85), Expect = 5e-04
 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 16/76 (21%)

Query: 157 SHSLAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINY--------------I 200
           +H+  E+ RR  +   ++ L+ LVP    +       +L +   +              I
Sbjct: 4   THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQI 63

Query: 201 QSLQRQVEFLSMKLEA 216
             LQR+   L  +LE 
Sbjct: 64  DQLQREQRHLKRQLEK 79

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	239
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.72
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.69
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.61
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.59
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.58
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.58
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.57
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.53
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.5
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.47
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.42
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.1
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	99.05
4f3l_A	361	Mclock, circadian locomoter output cycles protein	98.96
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.93
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.82
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.63
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	98.15
1pyi_A	96	Protein (pyrimidine pathway regulator 1); protein-	80.46

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

Probab=99.72  E-value=3.2e-18  Score=129.22  Aligned_cols=67  Identities=27%  Similarity=0.408  Sum_probs=62.6

Q ss_pred             CCcccHHHHhHHHHHHHHHHHHHhcCCCCCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 026390          155 TDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM  221 (239)
Q Consensus       155 t~sHs~aERrRR~kIne~~~~LrsLVP~~~k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~l  221 (239)
                      +.+|+++||+||++||++|..|++|||++...++|++||.+||+||++||.+++.|+++++++...+
T Consensus         7 r~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~~~L~~~~   73 (82)
T 1am9_A            7 RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLRTAV   73 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3689999999999999999999999999966679999999999999999999999999999998765

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

Probab=99.69  E-value=2e-17  Score=132.65  Aligned_cols=74  Identities=32%  Similarity=0.473  Sum_probs=51.4

Q ss_pred             CCCccccccccCCCCCCcccHHHHhHHHHHHHHHHHHHhcCCCCCC---CCChHhHHHHHHHHHHHHHHHHHHHHHH
Q 026390          140 PPKDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNK---VIGKALVLDEIINYIQSLQRQVEFLSMK  213 (239)
Q Consensus       140 p~~d~~~~R~rr~~at~sHs~aERrRR~kIne~~~~LrsLVP~~~k---~~dKAsIL~eAIdYIk~LQ~qVe~L~~~  213 (239)
                      |..+..+...++.+++.+|+++||+||++||++|.+|++|||+|.+   .++|++||++||+||++||.+++.|+..
T Consensus        13 ~t~~~~~~~~k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~~   89 (118)
T 4ati_A           13 PTESEARALAKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDL   89 (118)
T ss_dssp             ------------------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666777778888999999999999999999999999999964   3699999999999999999999999865

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

Probab=99.61  E-value=2.3e-16  Score=114.27  Aligned_cols=54  Identities=30%  Similarity=0.436  Sum_probs=48.4

Q ss_pred             CCcccHHHHhHHHHHHHHHHHHHhcCCCCC------CCCChHhHHHHHHHHHHHHHHHHH
Q 026390          155 TDSHSLAERARREKISERMKILQDLVPGCN------KVIGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       155 t~sHs~aERrRR~kIne~~~~LrsLVP~~~------k~~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      +++|+++||+||++||.+|.+|+.|||.|.      ..++||+||++||+||++||++|+
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            478999999999999999999999999763      235899999999999999998763

>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=99.59  E-value=1.6e-15  Score=113.42  Aligned_cols=64  Identities=27%  Similarity=0.469  Sum_probs=59.1

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCC-CCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCN-KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNS  219 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~-k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~  219 (239)
                      ..|+..||+||..||++|..|++|||.+. ..++|++||..||+||++|+.+++.|+.+++.|..
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            57999999999999999999999999873 23699999999999999999999999999998864

>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=99.58  E-value=1.9e-15  Score=113.42  Aligned_cols=66  Identities=26%  Similarity=0.450  Sum_probs=57.8

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC-CCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC-NKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM  221 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~-~k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~l  221 (239)
                      .+|+..||+||..||+.|..|+++||.+ ...++|++||.+||+||++|+.+++.|+.+++.+..+.
T Consensus         4 ~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~e~~~L~~~~   70 (83)
T 1nkp_B            4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQN   70 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5799999999999999999999999986 23369999999999999999998888887777766543

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

Probab=99.58  E-value=9.9e-16  Score=113.82  Aligned_cols=57  Identities=23%  Similarity=0.445  Sum_probs=51.9

Q ss_pred             CCcccHHHHhHHHHHHHHHHHHHhcCCCCCCCCChHhHHHHHHHHHHHHHHHHHHHH
Q 026390          155 TDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLS  211 (239)
Q Consensus       155 t~sHs~aERrRR~kIne~~~~LrsLVP~~~k~~dKAsIL~eAIdYIk~LQ~qVe~L~  211 (239)
                      +.+|+++||+||++||++|.+|++|||++...++|++||++||+||++||.++.-|+
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            368999999999999999999999999876556999999999999999999987653

>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=99.57  E-value=4.7e-16  Score=111.90  Aligned_cols=55  Identities=27%  Similarity=0.427  Sum_probs=49.7

Q ss_pred             CCCcccHHHHhHHHHHHHHHHHHHhcCCCCCC-----CCChHhHHHHHHHHHHHHHHHHH
Q 026390          154 ATDSHSLAERARREKISERMKILQDLVPGCNK-----VIGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       154 at~sHs~aERrRR~kIne~~~~LrsLVP~~~k-----~~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      .+.+|+.+||+||++||++|.+|++|||.|..     .++|++||.+||+||++||.+++
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            45789999999999999999999999999863     36999999999999999998753

>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=99.53  E-value=1.2e-14  Score=111.28  Aligned_cols=63  Identities=24%  Similarity=0.390  Sum_probs=54.9

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCC--CCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCN--KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVN  218 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~--k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~  218 (239)
                      ..|+..||+||..||++|..|+++||.+.  ..++|++||.+||+||++|+.+++.|..+++.+.
T Consensus         8 ~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~~~~~~L~   72 (88)
T 1nkp_A            8 RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEEDLLR   72 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57999999999999999999999999873  3469999999999999999999887766555544

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

Probab=99.50  E-value=3.2e-15  Score=111.32  Aligned_cols=52  Identities=33%  Similarity=0.562  Sum_probs=46.8

Q ss_pred             CCCcccHHHHhHHHHHHHHHHHHHhcCCCCC---CCCChHhHHHHHHHHHHHHHH
Q 026390          154 ATDSHSLAERARREKISERMKILQDLVPGCN---KVIGKALVLDEIINYIQSLQR  205 (239)
Q Consensus       154 at~sHs~aERrRR~kIne~~~~LrsLVP~~~---k~~dKAsIL~eAIdYIk~LQ~  205 (239)
                      ++.+|+++||+||++||+.|.+|+.|||.|.   ..+||++||+.||+||+.|+.
T Consensus         9 rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            9 AREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSC
T ss_pred             HHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhc
Confidence            3478999999999999999999999999884   335999999999999999974

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

Probab=99.47  E-value=1.1e-13  Score=104.35  Aligned_cols=65  Identities=17%  Similarity=0.197  Sum_probs=57.4

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCC--CCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCN--KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR  220 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~--k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~  220 (239)
                      ..|+..||+||..||++|..|+++||.+.  ...+|+.||.+||+||+.|+.+++.|..+++.+..+
T Consensus         3 ~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~~l~~e~~~L~~e   69 (80)
T 1nlw_A            3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQLQRE   69 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46999999999999999999999999763  235999999999999999999999888887777654

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

Probab=99.42  E-value=8.1e-14  Score=104.41  Aligned_cols=56  Identities=29%  Similarity=0.380  Sum_probs=48.5

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC---CCCCChHhHHHHHHHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC---NKVIGKALVLDEIINYIQSLQRQVEFLS  211 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~---~k~~dKAsIL~eAIdYIk~LQ~qVe~L~  211 (239)
                      ..|+..||+||..||++|..|+.+||.+   .+..+|+.||..||+||++||+++++++
T Consensus         7 ~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~   65 (76)
T 3u5v_A            7 AHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERN   65 (76)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             hhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5799999999999999999999999953   3334799999999999999999998764

>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=99.10  E-value=2.9e-11  Score=88.81  Aligned_cols=52  Identities=27%  Similarity=0.423  Sum_probs=47.1

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC-CCCCChHhHHHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC-NKVIGKALVLDEIINYIQSLQRQV  207 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~-~k~~dKAsIL~eAIdYIk~LQ~qV  207 (239)
                      ..|+..||+|+..||+.|..|+++||.. ++.++|+.||..||+||.+||+.+
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            4699999999999999999999999975 344799999999999999999865

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

Probab=99.05  E-value=2.8e-10  Score=81.64  Aligned_cols=53  Identities=23%  Similarity=0.288  Sum_probs=47.5

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC--CCCCChHhHHHHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~--~k~~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      ..|+..||+|+..||+.|..|+.+||..  ++.++|..+|..||+||.+|++.++
T Consensus         4 ~~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   58 (60)
T 2ql2_B            4 MKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILR   58 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHh
Confidence            3589999999999999999999999976  3457999999999999999998764

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

Probab=98.96  E-value=5.9e-10  Score=100.83  Aligned_cols=53  Identities=23%  Similarity=0.439  Sum_probs=41.8

Q ss_pred             CCCcccHHHHhHHHHHHHHHHHHHhcCCCCCCCCChHhHHHHHHHHHHHHHHH
Q 026390          154 ATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQ  206 (239)
Q Consensus       154 at~sHs~aERrRR~kIne~~~~LrsLVP~~~k~~dKAsIL~eAIdYIk~LQ~q  206 (239)
                      .+.+|+.+||+||++||..|.+|+.|||....++||++||..||+||+.|+..
T Consensus        12 ~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~   64 (361)
T 4f3l_A           12 KRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKET   64 (361)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhh
Confidence            34689999999999999999999999995544569999999999999999864

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

Probab=98.93  E-value=2.4e-09  Score=81.75  Aligned_cols=50  Identities=30%  Similarity=0.408  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHHhcCCCCCCC---CChHhHHHHHHHHHHHHHHHHHHHHHHH
Q 026390          165 RREKISERMKILQDLVPGCNKV---IGKALVLDEIINYIQSLQRQVEFLSMKL  214 (239)
Q Consensus       165 RR~kIne~~~~LrsLVP~~~k~---~dKAsIL~eAIdYIk~LQ~qVe~L~~~l  214 (239)
                      -|..||++|.+|..|||.++..   ++|++||.+||+||++||++++.+.+..
T Consensus         3 ~R~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~r~~e~e   55 (83)
T 4ath_A            3 MRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDLE   55 (83)
T ss_dssp             CHHHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHHHHHHHH
T ss_pred             chhhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3889999999999999987542   6999999999999999999888776443

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

Probab=98.82  E-value=1.6e-09  Score=99.39  Aligned_cols=52  Identities=33%  Similarity=0.558  Sum_probs=46.4

Q ss_pred             CCCCcccHHHHhHHHHHHHHHHHHHhcCCCC----CCCCChHhHHHHHHHHHHHHHH
Q 026390          153 QATDSHSLAERARREKISERMKILQDLVPGC----NKVIGKALVLDEIINYIQSLQR  205 (239)
Q Consensus       153 ~at~sHs~aERrRR~kIne~~~~LrsLVP~~----~k~~dKAsIL~eAIdYIk~LQ~  205 (239)
                      +++.+|+.+||+||++||+.|.+|+.|||.+    .+ +||++||..||+||+.|+.
T Consensus        12 ~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k-~dk~~il~~~~~~l~~~~~   67 (387)
T 4f3l_B           12 NAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRK-LDKLTVLRMAVQHMKTLRG   67 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSC-CCHHHHHHHHHHHHHHHHC
T ss_pred             hhcccccchhhcchHHHHHHHHHHHHhcCCCCccccc-cCHHHHHHHHHHHHHHhhc
Confidence            3457899999999999999999999999953    44 5999999999999999984

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

Probab=98.63  E-value=1.1e-08  Score=75.48  Aligned_cols=46  Identities=24%  Similarity=0.417  Sum_probs=40.3

Q ss_pred             HHHHhHHHHHHHHHHHHHhcCCCC--CCCCChHhHHHHHHHHHHHHHH
Q 026390          160 LAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSLQR  205 (239)
Q Consensus       160 ~aERrRR~kIne~~~~LrsLVP~~--~k~~dKAsIL~eAIdYIk~LQ~  205 (239)
                      --||+|...||+.|..|+.+||..  +++++|..+|..||+||..||.
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            347788889999999999999976  3447999999999999999984

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

Probab=98.15  E-value=4.5e-06  Score=65.30  Aligned_cols=48  Identities=27%  Similarity=0.414  Sum_probs=41.3

Q ss_pred             HHhHHHHHHHHHHHHHhcCCCC--CCCCChHhHHHHHHHHHHHHHHHHHH
Q 026390          162 ERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSLQRQVEF  209 (239)
Q Consensus       162 ERrRR~kIne~~~~LrsLVP~~--~k~~dKAsIL~eAIdYIk~LQ~qVe~  209 (239)
                      ||.|=..||+.|..|+.+||..  ++.++|..+|..||+||..||..++.
T Consensus        33 ~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~   82 (97)
T 4aya_A           33 PMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDS   82 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhc
Confidence            4667778999999999999975  44579999999999999999987653

>1pyi_A Protein (pyrimidine pathway regulator 1); protein-DNA complex, transcription/DNA complex, GAL4, zinc finger, Zn2Cys6, binuclear cluster; HET: DNA; 3.20A {Saccharomyces cerevisiae} SCOP: g.38.1.1 h.1.3.1

Probab=80.46  E-value=3.5  Score=29.92  Aligned_cols=30  Identities=10%  Similarity=0.084  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCCCCC
Q 026390          197 INYIQSLQRQVEFLSMKLEAVNSRMNLTPT  226 (239)
Q Consensus       197 IdYIk~LQ~qVe~L~~~le~l~~~l~~~~~  226 (239)
                      ..||+.|+.+++.|+..|..+....+...+
T Consensus        47 ~~~~~~Le~rl~~le~~l~~~~~~~~~~~~   76 (96)
T 1pyi_A           47 RSYVFFLEDRLAVMMRVLKEYGVDPTKIRG   76 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCCCCSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCccccCC
Confidence            359999999999999999999887754433

---

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	239
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	5e-17
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	5e-16
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	3e-15
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	2e-13
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	1e-12
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	2e-12
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	1e-11
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	2e-11

>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 = 70.5 bits (173), Expect = 5e-17
 Identities = 16/57 (28%), Positives = 30/57 (52%)

Query: 166 REKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRMN 222
           R  I++++  L+DLV G +  + K+ VL + I+YI+ LQ+    L  +   +     
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMVLKLANQ 57

>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 = 68.4 bits (167), Expect = 5e-16
 Identities = 20/73 (27%), Positives = 41/73 (56%)

Query: 150 RRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEF 209
            RG+   +H+  E+  R  I++++  L+DLV G    + K+ VL + I+YI+ LQ   + 
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 210 LSMKLEAVNSRMN 222
           L  +  ++ + ++
Sbjct: 62  LKQENLSLRTAVH 74

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

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

 Score = 66.9 bits (163), Expect = 3e-15
 Identities = 19/79 (24%), Positives = 38/79 (48%), Gaps = 6/79 (7%)

Query: 146 HVRARRGQATDSHSLAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSL 203
           H+  +R     +H++ ER RR ++      L+D +P    N+   K ++L +   YI S+
Sbjct: 2   HMNVKR----RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSV 57

Query: 204 QRQVEFLSMKLEAVNSRMN 222
           Q + + L  + + +  R  
Sbjct: 58  QAEEQKLISEEDLLRKRRE 76

>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 = 61.0 bits (148), Expect = 2e-13
 Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 6/59 (10%)

Query: 156 DSHSLAERARREKISERMKILQDLVPGCNKVIG------KALVLDEIINYIQSLQRQVE 208
           +SH  AE+ARR +++  +  L  L+P   K         KA  ++    YI+ LQ+   
Sbjct: 4   ESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

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

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

 Score = 59.5 bits (144), Expect = 1e-12
 Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 1/65 (1%)

Query: 157 SHSLAERARREKISERMKILQDLVPGC-NKVIGKALVLDEIINYIQSLQRQVEFLSMKLE 215
            H+  ER RR+ I +    L+D VP    +   +A +LD+   YIQ ++R+       ++
Sbjct: 5   HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID 64

Query: 216 AVNSR 220
            +  +
Sbjct: 65  DLKRQ 69

>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 = 58.7 bits (142), Expect = 2e-12
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 157 SHSLAERARREKISERMKILQDLVPGC-NKVIGKALVLDEIINYIQSLQRQVE 208
           + ++ ER R  K++E  + L+       N+ + K  +L   I YI+ LQ  + 
Sbjct: 15  AATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR 67

>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 = 56.8 bits (137), Expect = 1e-11
 Identities = 11/68 (16%), Positives = 27/68 (39%), Gaps = 2/68 (2%)

Query: 157 SHSLAERARREKISERMKILQDLVPGCNKV--IGKALVLDEIINYIQSLQRQVEFLSMKL 214
           +H+  E+ RR  +   ++ L+ LVP            +L +   +I+ L+        ++
Sbjct: 4   THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQI 63

Query: 215 EAVNSRMN 222
           + +     
Sbjct: 64  DQLQREQR 71

>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 = 55.9 bits (135), Expect = 2e-11
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 156 DSHSLAERARREKISERMKILQDLVPGCNKVIG-----KALVLDEIINYIQSLQRQVE 208
             H+  ER RR+KI+  +  L  ++P  +         K  +L +  +YIQ L++   
Sbjct: 7   AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	239
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.55
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.52
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.5
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.48
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=99.66  E-value=2.5e-17  Score=121.44  Aligned_cols=67  Identities=27%  Similarity=0.408  Sum_probs=62.2

Q ss_pred             CCcccHHHHhHHHHHHHHHHHHHhcCCCCCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 026390          155 TDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM  221 (239)
Q Consensus       155 t~sHs~aERrRR~kIne~~~~LrsLVP~~~k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~l  221 (239)
                      +..|+.+||+||++||+.|..|++|||++...++|++||.+||+||++|+.+++.|.++++.+...+
T Consensus         7 R~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~e~~~lk~~~   73 (80)
T d1am9a_           7 RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLRTAV   73 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3579999999999999999999999999876779999999999999999999999999999887654

>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=99.58  E-value=1.9e-15  Score=110.57  Aligned_cols=65  Identities=17%  Similarity=0.199  Sum_probs=58.7

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCCC--CCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCNK--VIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR  220 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~k--~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~  220 (239)
                      ..|+.+||+||+.||++|..|++|||.+..  .++|++||..||+||+.|+.+++.|..+++.+..+
T Consensus         3 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~L~~~   69 (79)
T d1nlwa_           3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQLQRE   69 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            579999999999999999999999998642  26999999999999999999999999888887654

>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=99.55  E-value=3.8e-15  Score=110.93  Aligned_cols=66  Identities=24%  Similarity=0.388  Sum_probs=58.9

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCC--CCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCN--KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM  221 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~--k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~l  221 (239)
                      ..|+.+||+||+.||+.|..|++|||++.  ..++|++||..||+||++|+.+++.|..+++.+..+.
T Consensus         8 ~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~l~~~~   75 (88)
T d1nkpa_           8 RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEEDLLRKRR   75 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57999999999999999999999999763  2369999999999999999999999988888776554

>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=99.54  E-value=4e-15  Score=109.75  Aligned_cols=65  Identities=26%  Similarity=0.470  Sum_probs=57.5

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCC-CCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCN-KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR  220 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~-k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~  220 (239)
                      ..|+.+||+||.+||+.|..|++|||++. ..++|++||..||+||++|+.++..|..+++.+..+
T Consensus         4 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~l~~~   69 (83)
T d1nkpb_           4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ   69 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57999999999999999999999999763 346999999999999999999999888877776543

>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=99.52  E-value=3.3e-15  Score=105.64  Aligned_cols=52  Identities=31%  Similarity=0.481  Sum_probs=46.9

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCC------CCCCChHhHHHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGC------NKVIGKALVLDEIINYIQSLQRQV  207 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~------~k~~dKAsIL~eAIdYIk~LQ~qV  207 (239)
                      ..|+.+||+||++||++|..|++|||++      ...++|+.||++||+||++||++|
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            6799999999999999999999999953      233699999999999999999875

>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=99.50  E-value=5.2e-15  Score=104.27  Aligned_cols=56  Identities=29%  Similarity=0.352  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 026390          166 REKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM  221 (239)
Q Consensus       166 R~kIne~~~~LrsLVP~~~k~~dKAsIL~eAIdYIk~LQ~qVe~L~~~le~l~~~l  221 (239)
                      |++||++|..|++|||++...++|++||.+||+||++||.+++.|++++..+....
T Consensus         1 R~~in~~f~~L~~lvP~~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L~~e~~~L~~~~   56 (61)
T d1uklc_           1 RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMVLKLAN   56 (61)
T ss_dssp             CCCHHHHHHHHHHHHSCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56899999999999999976679999999999999999999999999999887655

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

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

Probab=99.48  E-value=1.1e-14  Score=104.76  Aligned_cols=53  Identities=25%  Similarity=0.388  Sum_probs=48.4

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCC-CCCChHhHHHHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCN-KVIGKALVLDEIINYIQSLQRQVE  208 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~-k~~dKAsIL~eAIdYIk~LQ~qVe  208 (239)
                      ..|+..||+||.+||+.|..|++|||.+. +.++|++||..||+||++||++|+
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            46999999999999999999999999974 346999999999999999998764

>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=9.3e-15  Score=103.90  Aligned_cols=52  Identities=29%  Similarity=0.454  Sum_probs=47.0

Q ss_pred             CcccHHHHhHHHHHHHHHHHHHhcCCCCCC-----CCChHhHHHHHHHHHHHHHHHH
Q 026390          156 DSHSLAERARREKISERMKILQDLVPGCNK-----VIGKALVLDEIINYIQSLQRQV  207 (239)
Q Consensus       156 ~sHs~aERrRR~kIne~~~~LrsLVP~~~k-----~~dKAsIL~eAIdYIk~LQ~qV  207 (239)
                      ..|+.+||+||++||+.|..|++|||.+..     .++|++||..||+||++||++.
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            579999999999999999999999997642     3699999999999999999764