Citrus Sinensis ID: 024111

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270--
Protein Sequence
MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHccccccccccccccHHHHHHHHcccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHccccHHHHHHccccccccccccccccccccc
Coil and Loop (DISEMBL)
MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPsmleyfntpnfslatplahqqpeflagcsynnsfsnfqtdsrivvprvrtvrgnedvlyessrrevtEQSTSISktmcssastsetqgdtyknkkirsrrgkkvssnekeegnperIIHVRakrgqatdshsIAERVRREKINKKMRClqdlvpgchkdmgMAGMLEEIINYVHSLQNQVEFLSMELAAAcssndlnietessrktqgtnsHEALEMEIWAKEAYgeytsfhstwsl
Flexible Loop (DISEMBL)
madfrentqslrasqaftelgVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFLAGCSYNNSFSnfqtdsrivvprvrtvrgnedvlyessrrevteqstsisktmcssastsetqgdtyknkkirsrrgkkvssnekeegnperiihvrakrgqatdshsiaervrrekinkkmrclqdlvpgcHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNietessrktqgtnshEALEMEIWAKEAYGEYTSFHSTWSL
Low Complexity Region (SEG)
MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL
Disordered region (IsUnstruct)
****************FTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDV*************************************************************************************NKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAAC*************************MEIWAKEAYGEYTSF******
Disordered Region (DISOPRED)
*A*FR*************************************************************************************************************************************************************************EKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSME***************************************************
Disordered Region (DISEMBL)
**********LRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVL*******************************************************PERIIHVR***********IAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNI*************HEALEMEIWAKEAYGEYT********
Disordered Region (DISPRO)
*****E*TQSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQ********************************************************************************************PERIIHVRAKRGQ***SHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESS***Q**N**EA*EM********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL
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	272	2.2.26 [Sep-21-2011]
Q8GWK7	261	Transcription factor BEE	yes	no	0.852	0.888	0.420	3e-38
A4D998	223	Transcription factor bHLH	no	no	0.481	0.587	0.578	4e-37
Q8GZ13	260	Transcription factor BEE	no	no	0.433	0.453	0.606	4e-36
Q9SRT2	456	Transcription factor bHLH	no	no	0.477	0.285	0.458	3e-29
Q8GY61	335	Transcription factor bHLH	no	no	0.562	0.456	0.433	2e-28
Q9CAA9	486	Transcription factor bHLH	no	no	0.422	0.236	0.537	4e-28
Q9FJL4	498	Transcription factor bHLH	no	no	0.419	0.228	0.556	5e-28
Q93VJ4	304	Transcription factor BEE	no	no	0.334	0.299	0.626	1e-27
Q93W88	286	Transcription factor bHLH	no	no	0.389	0.370	0.571	1e-27
Q9ZPW3	337	Transcription factor bHLH	no	no	0.503	0.406	0.478	2e-27

>sp|Q8GWK7|BEE3_ARATH Transcription factor BEE 3 OS=Arabidopsis thaliana GN=BEE3 PE=2 SV=1

 Score =  159 bits (401), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 109/259 (42%), Positives = 150/259 (57%), Gaps = 27/259 (10%)

Query: 27  VKHFAELKPSMLEYFNT--PNFS--LATPLAHQQ-PEFLAGCSYNNSFSNFQTDSRIVVP 81
           ++  AEL  + L +F T  P FS  L +   H Q P+   G S  N+F        I  P
Sbjct: 17  IRQLAELS-NTLHHFQTFPPPFSSSLDSLFFHNQFPDHFPGKSLENNFHQ-----GIFFP 70

Query: 82  RVRTVRGNEDV--LYESSRRE-----VTEQSTSISKTMCSSASTSETQGDTYKNKKIRSR 134
               ++ NE+    +++ +R+     V+    S+S    S++S   +       K   SR
Sbjct: 71  S--NIQNNEESSSQFDTKKRKSLMEAVSTSENSVSDQTLSTSSAQVSINGNISTKNNSSR 128

Query: 135 RGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKD 194
           RGK+  S  +EE     ++HVRA+RGQATDSHSIAERVRR KIN++++CLQD+VPGC+K 
Sbjct: 129 RGKR--SKNREEEKEREVVHVRARRGQATDSHSIAERVRRGKINERLKCLQDIVPGCYKT 186

Query: 195 MGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQGTNSHEALEMEI 254
           MGMA ML+EIINYV SLQNQVEFLSM+L AA S  D N ET++    Q   + EA+EM  
Sbjct: 187 MGMATMLDEIINYVQSLQNQVEFLSMKLTAASSYYDFNSETDAVESMQKAKAREAVEM-- 244

Query: 255 WAKEAYGEYTSFH-STWSL 272
              +     + FH S+W+L
Sbjct: 245 --GQGRDGSSVFHSSSWTL 261

Positive regulator of brassinosteroid signaling.
Arabidopsis thaliana (taxid: 3702)

>sp|A4D998|BH075_ARATH Transcription factor bHLH75 OS=Arabidopsis thaliana GN=BHLH75 PE=2 SV=1

 Score =  154 bits (390), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 77/133 (57%), Positives = 99/133 (74%), Gaps = 2/133 (1%)

Query: 142 NEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGML 201
           N  E   P+ ++HVRAKRGQATDSHS+AERVRREKIN++++CLQDLVPGC+K MGMA ML
Sbjct: 91  NGDETQKPKDVVHVRAKRGQATDSHSLAERVRREKINERLKCLQDLVPGCYKAMGMAVML 150

Query: 202 EEIINYVHSLQNQVEFLSMELAAACSSNDLN-IETESSRKTQGTNSHEALEMEIWAKEAY 260
           + II+YV SLQNQ+EFLSM+L+AA +  DLN ++ E +   QG N H A EME   +E+ 
Sbjct: 151 DVIIDYVRSLQNQIEFLSMKLSAASACYDLNSLDIEPTDIFQGGNIHSAAEMERILRESV 210

Query: 261 G-EYTSFHSTWSL 272
           G +  +F ST   
Sbjct: 211 GTQPPNFSSTLPF 223

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GZ13|BEE1_ARATH Transcription factor BEE 1 OS=Arabidopsis thaliana GN=BEE1 PE=2 SV=1

 Score =  151 bits (382), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 74/122 (60%), Positives = 91/122 (74%), Gaps = 4/122 (3%)

Query: 152 IIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSL 211
           ++HVRA+RGQATDSHS+AERVRR KIN+++RCLQD+VPGC+K MGMA ML+EIINYV SL
Sbjct: 142 VVHVRARRGQATDSHSLAERVRRGKINERLRCLQDMVPGCYKAMGMATMLDEIINYVQSL 201

Query: 212 QNQVEFLSMELAAACSSNDLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFH-STW 270
           QNQVEFLSM+L AA S  D N ET++    Q   + E +EM    ++       FH STW
Sbjct: 202 QNQVEFLSMKLTAASSFYDFNSETDAVDSMQRAKARETVEM---GRQTRDGSPVFHLSTW 258

Query: 271 SL 272
           SL
Sbjct: 259 SL 260

Positive regulator of brassinosteroid signaling.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  129 bits (323), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 71/155 (45%), Positives = 99/155 (63%), Gaps = 25/155 (16%)

Query: 105 STSISKTMCSSASTSETQGDTYKNKKIRSRRGKK--VSSN----EKEEGNPER------- 151
           S+ + K + S     E+ G+  + +K +S++     VSS+    EKE+ +P+R       
Sbjct: 183 SSPVFKPLASHVPAGESSGELSRKRKTKSKQNSPSAVSSSKEIEEKEDSDPKRCKKSEEN 242

Query: 152 ------------IIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAG 199
                        IHVRA+RGQATDSHS+AERVRREKI+++M+ LQDLVPGC+K  G A 
Sbjct: 243 GDKTKSIDPYKDYIHVRARRGQATDSHSLAERVRREKISERMKLLQDLVPGCNKVTGKAL 302

Query: 200 MLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIE 234
           ML+EIINYV SLQ QVEFLSM+L++  +  D N++
Sbjct: 303 MLDEIINYVQSLQRQVEFLSMKLSSVNTRLDFNMD 337

Arabidopsis thaliana (taxid: 3702)

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

 Score =  126 bits (316), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 72/166 (43%), Positives = 100/166 (60%), Gaps = 13/166 (7%)

Query: 72  FQTDSRIVVPRVRTVRGNEDVLYESSRRE---VTEQSTSISKTMCSSASTSETQGDTYKN 128
           F T+++    + + +  N D L E    E   +TEQ+   +K++      ++ + + + N
Sbjct: 96  FDTETKDCNEKKKKMTMNRDDLVEEGEEEKSKITEQNNGSTKSIKKMKHKAKKEENNFSN 155

Query: 129 KKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLV 188
                      SS   +E      IHVRA+RGQATDSHSIAERVRREKI+++M+ LQDLV
Sbjct: 156 D----------SSKVTKELEKTDYIHVRARRGQATDSHSIAERVRREKISERMKFLQDLV 205

Query: 189 PGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIE 234
           PGC K  G AGML+EIINYV SLQ Q+EFLSM+LA      D +++
Sbjct: 206 PGCDKITGKAGMLDEIINYVQSLQRQIEFLSMKLAIVNPRPDFDMD 251

Arabidopsis thaliana (taxid: 3702)

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

 Score =  125 bits (313), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 65/121 (53%), Positives = 85/121 (70%), Gaps = 6/121 (4%)

Query: 120 ETQGDTYKNKKIRSRRGKKVSSNEKEEG----NPER--IIHVRAKRGQATDSHSIAERVR 173
           +  GD  +N +       K S++ K++G    +P +   IHVRA+RGQAT+SHS+AERVR
Sbjct: 262 DNNGDEKRNDEQSPNSPGKKSNSGKQQGKQSSDPPKDGYIHVRARRGQATNSHSLAERVR 321

Query: 174 REKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNI 233
           REKI+++M+ LQDLVPGC+K  G A ML+EIINYV SLQ QVEFLSM+LA      D N+
Sbjct: 322 REKISERMKFLQDLVPGCNKVTGKAVMLDEIINYVQSLQRQVEFLSMKLATVNPQMDFNL 381

Query: 234 E 234
           E
Sbjct: 382 E 382

Arabidopsis thaliana (taxid: 3702)

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

 Score =  124 bits (312), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 64/115 (55%), Positives = 82/115 (71%), Gaps = 1/115 (0%)

Query: 140 SSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAG 199
           S+N K    P+  IHVRA+RGQATDSHS+AERVRREKI ++M+ LQDLVPGC+K  G A 
Sbjct: 286 SNNTKPPEPPKDYIHVRARRGQATDSHSLAERVRREKIGERMKLLQDLVPGCNKVTGKAL 345

Query: 200 MLEEIINYVHSLQNQVEFLSMELAAACSSN-DLNIETESSRKTQGTNSHEALEME 253
           ML+EIINYV SLQ QVEFLSM+L++   +  D N++   S+     +S+  L  E
Sbjct: 346 MLDEIINYVQSLQRQVEFLSMKLSSVNDTRLDFNVDALVSKDVMIPSSNNRLHEE 400

Arabidopsis thaliana (taxid: 3702)

>sp|Q93VJ4|BEE2_ARATH Transcription factor BEE 2 OS=Arabidopsis thaliana GN=BEE2 PE=2 SV=1

 Score =  123 bits (308), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/91 (62%), Positives = 73/91 (80%)

Query: 153 IHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQ 212
           IHVRA+RG+ATD HS+AER RREKI+KKM+CLQD+VPGC+K  G AGML+EIINYV SLQ
Sbjct: 139 IHVRARRGEATDRHSLAERARREKISKKMKCLQDIVPGCNKVTGKAGMLDEIINYVQSLQ 198

Query: 213 NQVEFLSMELAAACSSNDLNIETESSRKTQG 243
            QVEFLSM+L+      + +I+  S+++ Q 
Sbjct: 199 QQVEFLSMKLSVINPELECHIDDLSAKQFQA 229

Positive regulator of brassinosteroid signaling.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  123 bits (308), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 64/112 (57%), Positives = 80/112 (71%), Gaps = 6/112 (5%)

Query: 118 TSETQGDTYKN-----KKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERV 172
           T +T+G   +N     + +  R+ KK     KEE  P   IHVRA+RGQATDSHS+AERV
Sbjct: 95  TGKTRGRKARNSNNSKEGVEGRKSKKQKRGSKEEP-PTDYIHVRARRGQATDSHSLAERV 153

Query: 173 RREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAA 224
           RREKI+++MR LQ+LVPGC K  G A ML+EIINYV +LQ QVEFLSM+L +
Sbjct: 154 RREKISERMRTLQNLVPGCDKVTGKALMLDEIINYVQTLQTQVEFLSMKLTS 205

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZPW3|BH064_ARATH Transcription factor bHLH64 OS=Arabidopsis thaliana GN=BHLH64 PE=2 SV=3

 Score =  122 bits (306), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 68/142 (47%), Positives = 86/142 (60%), Gaps = 5/142 (3%)

Query: 102 TEQSTSISKTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQ 161
           TE+   +     SS       G+T  +        K  S N+K +      IHVRA+RGQ
Sbjct: 137 TEKKIKVEAETESSMKGKSNMGNTEASSDTSKETSKGASENQKLD-----YIHVRARRGQ 191

Query: 162 ATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSME 221
           ATD HS+AER RREKI+KKM+ LQD+VPGC+K  G AGML+EIINYV  LQ QVEFLSM+
Sbjct: 192 ATDRHSLAERARREKISKKMKYLQDIVPGCNKVTGKAGMLDEIINYVQCLQRQVEFLSMK 251

Query: 222 LAAACSSNDLNIETESSRKTQG 243
           LA      +L +E  S ++ Q 
Sbjct: 252 LAVLNPELELAVEDVSVKQFQA 273

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	272
224127674	265	predicted protein [Populus trichocarpa]	0.966	0.992	0.565	3e-74
224079313	276	predicted protein [Populus trichocarpa]	1.0	0.985	0.550	6e-69
296087271	319	unnamed protein product [Vitis vinifera]	0.996	0.849	0.505	1e-62
255586626	267	DNA binding protein, putative [Ricinus c	0.911	0.928	0.529	1e-54
147810591	271	hypothetical protein VITISV_017400 [Viti	0.856	0.859	0.512	3e-50
224118802	273	predicted protein [Populus trichocarpa]	0.970	0.967	0.434	4e-50
225424017	258	PREDICTED: transcription factor bHLH75 [	0.933	0.984	0.456	5e-46
224135389	270	predicted protein [Populus trichocarpa]	0.952	0.959	0.422	7e-46
356529573	273	PREDICTED: transcription factor BEE 3-li	0.963	0.959	0.409	4e-45
356520601	272	PREDICTED: transcription factor BEE 3-li	0.959	0.959	0.416	2e-44

>gi|224127674|ref|XP_002329336.1| predicted protein [Populus trichocarpa] gi|222870790|gb|EEF07921.1| predicted protein [Populus trichocarpa]

 Score =  284 bits (727), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 155/274 (56%), Positives = 189/274 (68%), Gaps = 11/274 (4%)

Query: 1   MADFRENTQSLRASQAFTEL-GVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEF 59
           MA+F E  Q  R SQ  TE+  +NMEM+KH  E+ PS+LE F+  +FS  + LA QQPEF
Sbjct: 1   MAEFAEYQQRFRPSQPLTEMMDMNMEMLKHLPEMNPSILESFSITDFSADSLLARQQPEF 60

Query: 60  LAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSSASTS 119
            A   + N  S F  D       V TV  N++  ++S +R+  EQSTS    +  +AST+
Sbjct: 61  TATYDHKNLSSTFHPDILSTATVVHTVTLNQNDSHDSKKRKSMEQSTS--SYISPTASTN 118

Query: 120 ETQGDTYKNKKIRSRRGKKVSSNEKEEGN-PERIIHVRAKRGQATDSHSIAERVRREKIN 178
           ET       KK  +  G K   N+++EG+  E +IHVRAKRGQATDSHSIAERVRREKIN
Sbjct: 119 ET-------KKKNNLGGSKKGENKEKEGDKAEEVIHVRAKRGQATDSHSIAERVRREKIN 171

Query: 179 KKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESS 238
            K+RCLQDLVPGCH+ MGMA MLEEIINYVHSLQNQVEFLSMELAAA SSNDLN  TESS
Sbjct: 172 NKLRCLQDLVPGCHRSMGMAVMLEEIINYVHSLQNQVEFLSMELAAASSSNDLNNLTESS 231

Query: 239 RKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL 272
           ++ QGT+S EA + + W +E YGE T FHS WS+
Sbjct: 232 KRAQGTDSTEAQKTQKWLRERYGEITCFHSAWSI 265

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224079313|ref|XP_002305819.1| predicted protein [Populus trichocarpa] gi|222848783|gb|EEE86330.1| predicted protein [Populus trichocarpa]

 Score =  266 bits (680), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 152/276 (55%), Positives = 190/276 (68%), Gaps = 4/276 (1%)

Query: 1   MADFRENTQSLRASQAFTEL-GVNMEMVKHFAELKPSMLEYFN-TPNFSLATPLAHQQPE 58
           MA+F E  Q L ASQ  TE+  +NMEM+KH  EL PS+LE F+ T +FS  +  AHQQPE
Sbjct: 1   MAEFAEYLQRLGASQPLTEMMDMNMEMLKHLPELNPSILENFSITHDFSADSFFAHQQPE 60

Query: 59  FLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSSAST 118
           F A  ++N   S          P V +V  N++V +E  + +  EQST  SK +  +AS 
Sbjct: 61  FPATYNHNKLSSTSHPHILSTAPLVHSVSLNQNVFHERKKPKAMEQSTGSSKNVSPTASI 120

Query: 119 SETQGDTYKNKKIRSRRGKKVSSNEKEEGNPER-IIHVRAKRGQATDSHSIAERVRREKI 177
           + T+        + ++R  K   N+++EG+  + +IHVRAKRGQATDSHSIAER+RREKI
Sbjct: 121 NITEKKNILTPSLCAKRRGKKGKNKEKEGDKSKEVIHVRAKRGQATDSHSIAERIRREKI 180

Query: 178 NKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETES 237
           N K+RCLQD+VPGCHK MGMA MLEEIINYVHSLQNQVEFLSMELAAA  SNDL   TES
Sbjct: 181 NNKLRCLQDIVPGCHKSMGMAVMLEEIINYVHSLQNQVEFLSMELAAASCSNDLKNLTES 240

Query: 238 SRKTQGTNS-HEALEMEIWAKEAYGEYTSFHSTWSL 272
           S+K QGTNS  +A E + W++E YGE T FHSTWS+
Sbjct: 241 SKKAQGTNSTDDAQETQKWSRERYGEITCFHSTWSI 276

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087271|emb|CBI33645.3| unnamed protein product [Vitis vinifera]

 Score =  245 bits (626), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 138/273 (50%), Positives = 188/273 (68%), Gaps = 2/273 (0%)

Query: 1   MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFL 60
           + DF ++ QS R SQ F  + V MEMV  FAE+ P MLE FN  + S+   LAHQQPE +
Sbjct: 48  IVDFSDSMQSFRPSQPFLGMDVTMEMVNQFAEMNPIMLENFNITDVSVENLLAHQQPELM 107

Query: 61  AGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSSASTSE 120
              +YN   S+F+++    +P V+++  + +  +ES RR+V EQS S S+ + S AS S 
Sbjct: 108 GTFAYNLQ-SSFESNGLSSMPVVQSMPSSGNAFHESKRRKVMEQSKSSSENISSMASGSG 166

Query: 121 TQGDTYKNKKIRSRRGKKVSSNEKEE-GNPERIIHVRAKRGQATDSHSIAERVRREKINK 179
            +  +   KK    +GKK  +++KE    P+ +IHVRA+RGQATD+HSIAERVRREKI  
Sbjct: 167 LKEISSTKKKNNLGKGKKGRNSDKELLDKPDEVIHVRARRGQATDNHSIAERVRREKIKT 226

Query: 180 KMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSR 239
           ++RCLQDLVPGC+K+ GMA ML+EIINYVHSLQNQVEFLS ELAAA S ++ N ETE+ +
Sbjct: 227 RLRCLQDLVPGCYKNKGMAVMLDEIINYVHSLQNQVEFLSRELAAASSLHNFNSETEAIK 286

Query: 240 KTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL 272
             QGTN+HE  EME   ++ YGE++ F+ T ++
Sbjct: 287 NAQGTNTHEGQEMEKIVRKGYGEHSCFYPTRTI 319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255586626|ref|XP_002533944.1| DNA binding protein, putative [Ricinus communis] gi|223526075|gb|EEF28430.1| DNA binding protein, putative [Ricinus communis]

 Score =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 143/270 (52%), Positives = 173/270 (64%), Gaps = 22/270 (8%)

Query: 20  LGVNMEMVK---HFAELKPSM-LEYFNTPNFSLATPLAHQQ-PEF-LAGCSYNNSFSN-- 71
           + +NM M+K   H  EL PS  L+ F   +FS+ + LAHQQ PEF ++    NNS  N  
Sbjct: 3   MNMNMHMLKQPQHLPELNPSSSLDTFGVADFSVDSFLAHQQQPEFPVSNYGQNNSTINNL 62

Query: 72  ----FQTD---SRIVVPRVRTVRGNEDVLY-ESSRREVTEQSTSISKTMCSSASTSETQG 123
               F  D   S    P V TV  ++ V++ +S +R+V  QSTS SK +     +  T  
Sbjct: 63  SSSTFHPDMLNSSAAPPIVHTVDSSQYVIFRDSKKRKVEAQSTSSSKNV-----SPTTST 117

Query: 124 DTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRC 183
            T   +K    R KK  + EKE    E +IHVRAKRGQATDSHSIAERVRREKIN K+RC
Sbjct: 118 TTNTKQKNNLGRDKKGKNKEKEVEKAEEVIHVRAKRGQATDSHSIAERVRREKINNKLRC 177

Query: 184 LQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQG 243
           LQDLVPGCHK MGMA MLEEIINYVHSLQNQVEFLSMELAAA  S DLN+ETESS+K Q 
Sbjct: 178 LQDLVPGCHKSMGMAVMLEEIINYVHSLQNQVEFLSMELAAASCSYDLNLETESSKKAQV 237

Query: 244 TNSHEALEMEIWAKEAYGEY-TSFHSTWSL 272
           T+S    E + W +E YG+    + STWS+
Sbjct: 238 TSSAGTQETQKWLRERYGDLGCCYQSTWSI 267

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147810591|emb|CAN71967.1| hypothetical protein VITISV_017400 [Vitis vinifera]

 Score =  204 bits (519), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 123/240 (51%), Positives = 162/240 (67%), Gaps = 7/240 (2%)

Query: 9   QSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFLAGCSYNNS 68
           QS R SQ F  + V MEMV  FAE+ P MLE FN  + S+   LAHQQPE +   +YN  
Sbjct: 2   QSFRPSQPFLGMDVTMEMVNQFAEMNPIMLENFNITDVSVEXLLAHQQPELMGTFAYNLQ 61

Query: 69  FSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSSASTSETQGDTYKN 128
            S+F+++    +P V+++  + +  +ES RR+V EQS S S+ + S AS S  +  +   
Sbjct: 62  -SSFESNGLSSMPVVQSMPSSGNAFHESKRRKVMEQSKSSSENISSMASGSGLKEISSTK 120

Query: 129 KKIRSRRGKKVSSNEKEE-GNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDL 187
           KK    +GKK  +++KE    P+ +IHVRA+RGQATD+HSIAERVRREKI  ++RCLQDL
Sbjct: 121 KKNNLGKGKKGRNSDKELLDKPDEVIHVRARRGQATDNHSIAERVRREKIKTRLRCLQDL 180

Query: 188 VPGCHK-----DMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQ 242
           VPGC+K     + GMA ML+EIINYVHSLQNQVEFLS ELAAA S ++ N ETE+ +  Q
Sbjct: 181 VPGCYKVYDPQNKGMAVMLDEIINYVHSLQNQVEFLSRELAAASSLHNFNSETEAIKNAQ 240

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118802|ref|XP_002317910.1| predicted protein [Populus trichocarpa] gi|222858583|gb|EEE96130.1| predicted protein [Populus trichocarpa]

 Score =  204 bits (518), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 122/281 (43%), Positives = 164/281 (58%), Gaps = 17/281 (6%)

Query: 1   MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPL------AH 54
           MADF  + QS R    F ++  +M  +  F E+  ++L+  +  N     P       +H
Sbjct: 1   MADFTADLQSFRPPFPFLDIDPSMVALSQFTEVSQAILDNPSVNNIHSFMPFTSDNFFSH 60

Query: 55  QQPEFLAGCSYNNSFSN-FQTDSRIVVP--RVRTVRGNEDVLYESSRREVTEQSTSISKT 111
           Q PEF    +    F+  F  + + V+P  +  T  GNE    ES +R+  + S S S  
Sbjct: 61  QAPEFPGNLA--EGFAGIFHQNDQTVMPVSQPFTTPGNESEFQESKKRKAMDVSESSSMN 118

Query: 112 MCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAER 171
                S S   G   +N    SRRGK V SNE  +G P+ ++HVRA+RGQATDSHS+AER
Sbjct: 119 SSPQVSES---GSKRRNVN-SSRRGKGVKSNE--DGKPKDVVHVRARRGQATDSHSLAER 172

Query: 172 VRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDL 231
           VRR KIN+++RCLQD+VPGC+K MGMA ML+EIINYV SLQNQVEFLSM+L AA +  D 
Sbjct: 173 VRRGKINERLRCLQDIVPGCYKTMGMAVMLDEIINYVQSLQNQVEFLSMKLTAASTFYDF 232

Query: 232 NIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL 272
           N ET++    Q   + EA E++   +E  G +   HSTWSL
Sbjct: 233 NAETDAIETMQRAKAQEAKELQRAMREGSGGFAHIHSTWSL 273

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225424017|ref|XP_002279412.1| PREDICTED: transcription factor bHLH75 [Vitis vinifera]

 Score =  190 bits (483), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 126/276 (45%), Positives = 158/276 (57%), Gaps = 22/276 (7%)

Query: 1   MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSMLEYFNTPNFSLATPLAHQQPEFL 60
           MA+F  N QSL+ S    E+  NME++ + +  + S +       FS      H Q EF 
Sbjct: 1   MAEFAANLQSLKPSS--LEMNSNMELMNNRSAPENSHMNGHGFMAFSNVGFSIHHQQEFP 58

Query: 61  AGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSISKTMCSS---AS 117
                N       T S +    +  V+    VL  SS+     Q T   K    S   AS
Sbjct: 59  VNFRDN-------TQSPVHAGGLSAVQ----VLQFSSQPGDFGQETKTGKVNFVSSPPAS 107

Query: 118 TSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKI 177
            SE  GD   NK +  R+ K+  SNE+E   P  +IHVRAKRGQATDSHS+AERVRREKI
Sbjct: 108 GSEFLGD---NKNLGGRKRKR--SNERENNKPREVIHVRAKRGQATDSHSLAERVRREKI 162

Query: 178 NKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLN-IETE 236
           N+K+RCLQDLVPGC+K MGMA ML+ IINYV SLQNQ+EFLSM+L+AA +  D N  E E
Sbjct: 163 NEKLRCLQDLVPGCYKTMGMAVMLDVIINYVQSLQNQIEFLSMKLSAASTFYDFNSSEAE 222

Query: 237 SSRKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL 272
           +    QGTN++E  E+E   KE YG  +  HSTW  
Sbjct: 223 ALETMQGTNAYEVHEVERSVKEGYGGPSHLHSTWPF 258

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135389|ref|XP_002322061.1| predicted protein [Populus trichocarpa] gi|222869057|gb|EEF06188.1| predicted protein [Populus trichocarpa]

 Score =  190 bits (482), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 118/279 (42%), Positives = 161/279 (57%), Gaps = 20/279 (7%)

Query: 1   MADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSM-LEYFNTPNFSLATPL------A 53
           MADF  + QS +    F ++  +M  +  F E+  ++ L+     NF   TP       +
Sbjct: 1   MADFTVDLQSFKPPFPFLDIDASMAAINQFTEVNQAIQLDNPIMNNFHSFTPFTSNNFFS 60

Query: 54  HQQPEF---LAGCSYNNSFSNFQTDSRIV-VPRVRTVRGNEDVLYESSRREVTEQSTSIS 109
           HQ PEF    AG     SF   Q D  ++ V +  T+   E    ES RR     +  +S
Sbjct: 61  HQAPEFPGNFAGSFLPGSFH--QNDQNVMPVSQTFTIPAKESEFQESKRR-----AMDVS 113

Query: 110 KTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIA 169
           ++ C ++    ++  + K K   SRRGK+V SNE+EE     ++HVRA+RGQATDSHS+A
Sbjct: 114 ESSCMNSYPRVSESGSKKRKS--SRRGKRVKSNEEEEEKTREVVHVRARRGQATDSHSLA 171

Query: 170 ERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSN 229
           ERVRR KIN+++RCLQD+VPGC+K MGMA ML+EIINYV SLQNQVEFLSM+L AA +  
Sbjct: 172 ERVRRGKINERLRCLQDIVPGCYKTMGMAVMLDEIINYVQSLQNQVEFLSMKLTAASTFY 231

Query: 230 DLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFHS 268
           D N ETE+    Q   + E  E++   +E  G     HS
Sbjct: 232 DFNAETEAIETVQRAKAQETKELQRAMREGSGGLAQSHS 270

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356529573|ref|XP_003533364.1| PREDICTED: transcription factor BEE 3-like [Glycine max]

 Score =  187 bits (475), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 116/283 (40%), Positives = 161/283 (56%), Gaps = 21/283 (7%)

Query: 1   MADFRENTQ----SLRASQ-AFTELGVNMEMVKHFAELKPSMLE------YFNTPNFSLA 49
           MA+F EN Q     +R SQ  F E+  +ME++  F  +   +LE        N   FS  
Sbjct: 1   MAEFTENMQLQSNIIRPSQFPFLEIDPSMELLNQFIGMNQHVLENSNLSTMHNLVPFSCD 60

Query: 50  TPLAHQQPEFLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRREVTEQSTSIS 109
           T L  Q+PEF      N  F      +   +P    +   E+ ++E  +R+      S+ 
Sbjct: 61  TFLGPQEPEFPGNLEEN--FPALVNHN--ALPVSLPIFQAENEIHEGKKRK------SVD 110

Query: 110 KTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIA 169
               SSA+++    ++    K  S RGK+V SN  EE   + ++HVRA+RGQATDSHS+A
Sbjct: 111 LPETSSANSTPAVSESGSKIKHSSGRGKRVKSNVTEEEKAKEVVHVRARRGQATDSHSLA 170

Query: 170 ERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSN 229
           ERVRR KIN+K+RCLQ++VPGC+K MGMA ML+EIINYV SLQ+QVEFLS++L AA +  
Sbjct: 171 ERVRRGKINEKLRCLQNIVPGCYKTMGMAVMLDEIINYVQSLQHQVEFLSLKLTAASTFY 230

Query: 230 DLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL 272
           D N ET++    Q   + EA E+  + KE YG  + F   W L
Sbjct: 231 DFNSETDALETMQRARASEAKELGKYKKEGYGGVSFFQPAWPL 273

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356520601|ref|XP_003528950.1| PREDICTED: transcription factor BEE 3-like [Glycine max]

 Score =  185 bits (469), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 118/283 (41%), Positives = 165/283 (58%), Gaps = 22/283 (7%)

Query: 1   MADFRENTQ---SLRASQ-AFTELGVNMEMVKHFAELKPSMLE------YFNTPNFSLAT 50
           MA+F EN Q   ++R SQ  F E+  +ME++  F  +   +LE        N   FS  T
Sbjct: 1   MAEFTENMQLQSNIRPSQFPFLEIDPSMELLNQFLGMNQHVLENSNLIPMHNLVPFSCDT 60

Query: 51  PLAHQQPEFLAGCSYNNSFSNFQTD-SRIVVPRVRTVRGNEDVLYESSRREVTEQSTSIS 109
            L  Q+PE    C   N   NF    +   +P    +   E+ ++E  +R    +S  + 
Sbjct: 61  FLGPQEPE----CP-GNLEENFPAHVNHNALPISLPIFQAENEIHEGKKR----KSMDLP 111

Query: 110 KTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIA 169
           +T  SSA+++    ++    K  S RGK+V SN  EE   + ++HVRA+RGQATDSHS+A
Sbjct: 112 ET--SSANSTPAVSESGSKIKHSSGRGKRVKSNVTEEEKAKEVVHVRARRGQATDSHSLA 169

Query: 170 ERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSN 229
           ERVRR KIN+K+RCLQ++VPGC+K MGMA ML+EIINYV SLQ+QVEFLS++L AA +  
Sbjct: 170 ERVRRGKINEKLRCLQNIVPGCYKTMGMAVMLDEIINYVQSLQHQVEFLSLKLTAASTFY 229

Query: 230 DLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFHSTWSL 272
           D N ET++    Q   + EA E+  + KE YG  + F   W L
Sbjct: 230 DFNSETDALETMQRARASEAKELGKYKKEGYGGVSFFQPAWPL 272

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	272
TAIR|locus:2027809	261	BEE3 "AT1G73830" [Arabidopsis	0.852	0.888	0.444	2.6e-40
TAIR|locus:2014144	260	BEE1 "BR enhanced expression 1	0.602	0.630	0.517	5.5e-38
TAIR|locus:2032990	223	CES "AT1G25330" [Arabidopsis t	0.522	0.636	0.555	1.9e-35
TAIR|locus:2152551	498	AT5G48560 "AT5G48560" [Arabido	0.430	0.234	0.554	7.5e-29
TAIR|locus:2139484	335	CIB1 "AT4G34530" [Arabidopsis	0.650	0.528	0.408	8.2e-28
UNIPROTKB|Q69JJ6	428	OSJNBa0026C08.22 "TA1 protein-	0.459	0.292	0.530	1.3e-27
TAIR|locus:2201906	366	AT1G10120 "AT1G10120" [Arabido	0.503	0.374	0.464	2.8e-27
TAIR|locus:2205420	486	AT1G68920 [Arabidopsis thalian	0.544	0.304	0.461	3.5e-27
UNIPROTKB|Q5VR96	437	P0038C05.31-1 "Os06g0275600 pr	0.5	0.311	0.496	3.5e-27
TAIR|locus:2115200	304	BEE2 "AT4G36540" [Arabidopsis	0.404	0.361	0.553	5.7e-27

TAIR|locus:2027809 BEE3 "AT1G73830" [Arabidopsis thaliana (taxid:3702)]

 Score = 429 (156.1 bits), Expect = 2.6e-40, P = 2.6e-40
 Identities = 115/259 (44%), Positives = 155/259 (59%)

Query:    27 VKHFAELKPSMLEYFNT--PNFS--LATPLAHQQ-PEFLAGCSYNNSFSNFQTDSRIVVP 81
             ++  AEL  + L +F T  P FS  L +   H Q P+   G S  N+F        I  P
Sbjct:    17 IRQLAELS-NTLHHFQTFPPPFSSSLDSLFFHNQFPDHFPGKSLENNFHQ-----GIFFP 70

Query:    82 RVRTVRGNEDVL--YESSRREVTEQSTSISKTMCS--SASTSETQGDTYKN---KKIRSR 134
                 ++ NE+    +++ +R+   ++ S S+   S  + STS  Q     N   K   SR
Sbjct:    71 S--NIQNNEESSSQFDTKKRKSLMEAVSTSENSVSDQTLSTSSAQVSINGNISTKNNSSR 128

Query:   135 RGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKD 194
             RGK+ S N +EE   E ++HVRA+RGQATDSHSIAERVRR KIN++++CLQD+VPGC+K 
Sbjct:   129 RGKR-SKNREEEKERE-VVHVRARRGQATDSHSIAERVRRGKINERLKCLQDIVPGCYKT 186

Query:   195 MGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQGTNSHEALEMEI 254
             MGMA ML+EIINYV SLQNQVEFLSM+L AA S  D N ET++    Q   + EA+EM  
Sbjct:   187 MGMATMLDEIINYVQSLQNQVEFLSMKLTAASSYYDFNSETDAVESMQKAKAREAVEM-- 244

Query:   255 WAKEAYGEYTSFHST-WSL 272
               +   G  + FHS+ W+L
Sbjct:   245 -GQGRDGS-SVFHSSSWTL 261

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

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

TAIR|locus:2014144 BEE1 "BR enhanced expression 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 90/174 (51%), Positives = 116/174 (66%)

Query:   106 TSISKTMCSSASTSETQGDTYKNKKIRS-----RRGKKVSSNEKEEGNPER-IIHVRAKR 159
             T   K +  + S+SET G +     I +     RRGK++   ++EE   ER ++HVRA+R
Sbjct:    90 TKKRKALLPTLSSSETSGVSDNTNVIATETGSLRRGKRLKKKKEEEDEKEREVVHVRARR 149

Query:   160 GQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLS 219
             GQATDSHS+AERVRR KIN+++RCLQD+VPGC+K MGMA ML+EIINYV SLQNQVEFLS
Sbjct:   150 GQATDSHSLAERVRRGKINERLRCLQDMVPGCYKAMGMATMLDEIINYVQSLQNQVEFLS 209

Query:   220 MELAAACSSNDLNIETESSRKTQGTNSHEALEMEIWAKEAYGEYTSFH-STWSL 272
             M+L AA S  D N ET++    Q   + E +EM    ++       FH STWSL
Sbjct:   210 MKLTAASSFYDFNSETDAVDSMQRAKARETVEM---GRQTRDGSPVFHLSTWSL 260

GO:0005634 "nucleus" evidence=ISM

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

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

TAIR|locus:2032990 CES "AT1G25330" [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 80/144 (55%), Positives = 107/144 (74%)

Query:   128 NKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDL 187
             +K+ R R  ++ + N  E   P+ ++HVRAKRGQATDSHS+AERVRREKIN++++CLQDL
Sbjct:    77 SKRRRKRSEEEEAMNGDETQKPKDVVHVRAKRGQATDSHSLAERVRREKINERLKCLQDL 136

Query:   188 VPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLN-IETESSRKTQGTNS 246
             VPGC+K MGMA ML+ II+YV SLQNQ+EFLSM+L+AA +  DLN ++ E +   QG N 
Sbjct:   137 VPGCYKAMGMAVMLDVIIDYVRSLQNQIEFLSMKLSAASACYDLNSLDIEPTDIFQGGNI 196

Query:   247 HEALEMEIWAKEAYG-EYTSFHST 269
             H A EME   +E+ G +  +F ST
Sbjct:   197 HSAAEMERILRESVGTQPPNFSST 220

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

GO:2000488 "positive regulation of brassinosteroid biosynthetic process" evidence=IMP

GO:0048441 "petal development" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

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

 Score = 302 (111.4 bits), Expect = 7.5e-29, Sum P(2) = 7.5e-29
 Identities = 66/119 (55%), Positives = 84/119 (70%)

Query:   136 GKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDM 195
             G K S+N K    P+  IHVRA+RGQATDSHS+AERVRREKI ++M+ LQDLVPGC+K  
Sbjct:   283 GNK-SNNTKPPEPPKDYIHVRARRGQATDSHSLAERVRREKIGERMKLLQDLVPGCNKVT 341

Query:   196 GMAGMLEEIINYVHSLQNQVEFLSMELAAACSSN-DLNIETESSRKTQGTNSHEALEME 253
             G A ML+EIINYV SLQ QVEFLSM+L++   +  D N++   S+     +S+  L  E
Sbjct:   342 GKALMLDEIINYVQSLQRQVEFLSMKLSSVNDTRLDFNVDALVSKDVMIPSSNNRLHEE 400

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

TAIR|locus:2139484 CIB1 "AT4G34530" [Arabidopsis thaliana (taxid:3702)]

 Score = 311 (114.5 bits), Expect = 8.2e-28, P = 8.2e-28
 Identities = 78/191 (40%), Positives = 112/191 (58%)

Query:    57 PEFLAGCSYNNSFSNFQTDSRIVVPRVRTVRGNEDVLYESSRRE---VTEQSTSISKTMC 113
             PE   G   N     F T+++    + + +  N D L E    E   +TEQ+   +K++ 
Sbjct:    82 PETTLGTG-NFKKRKFDTETKDCNEKKKKMTMNRDDLVEEGEEEKSKITEQNNGSTKSIK 140

Query:   114 SSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATDSHSIAERVR 173
                  ++ + + + N    S+  K++   EK +      IHVRA+RGQATDSHSIAERVR
Sbjct:   141 KMKHKAKKEENNFSNDS--SKVTKEL---EKTD-----YIHVRARRGQATDSHSIAERVR 190

Query:   174 REKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNI 233
             REKI+++M+ LQDLVPGC K  G AGML+EIINYV SLQ Q+EFLSM+LA      D ++
Sbjct:   191 REKISERMKFLQDLVPGCDKITGKAGMLDEIINYVQSLQRQIEFLSMKLAIVNPRPDFDM 250

Query:   234 ETESSRKTQGT 244
             +   +++   T
Sbjct:   251 DDIFAKEVAST 261

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0006351 "transcription, DNA-dependent" evidence=IDA

GO:0009911 "positive regulation of flower development" evidence=IMP

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

 Score = 309 (113.8 bits), Expect = 1.3e-27, P = 1.3e-27
 Identities = 69/130 (53%), Positives = 89/130 (68%)

Query:   105 STSISKTMCSSASTSETQGDTYKNKKIRSRRGKKVSSNEKEEGNPERIIHVRAKRGQATD 164
             S S ++++ S     E+   T    K + +  K+ S ++KEE      IHVRA+RGQAT+
Sbjct:   203 SDSANESVHSKDKGEESSPATTNGGKSKGKGAKETSESQKEE-----YIHVRARRGQATN 257

Query:   165 SHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAA 224
             SHS+AER+RREKI+++M+ LQDLVPGC K  G A ML+EIINYV SLQ QVEFLSM+LA 
Sbjct:   258 SHSLAERLRREKISERMKLLQDLVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMKLAT 317

Query:   225 ACSSNDLNIE 234
                  DLNIE
Sbjct:   318 VNPRLDLNIE 327

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2201906 AT1G10120 "AT1G10120" [Arabidopsis thaliana (taxid:3702)]

 Score = 306 (112.8 bits), Expect = 2.8e-27, P = 2.8e-27
 Identities = 66/142 (46%), Positives = 94/142 (66%)

Query:    98 RREVTEQSTSISKTMCSSASTSETQGDTYKNKKIRSRRGKKV---SSNEKEEGNPERIIH 154
             +R + E  +  +K           +G+    KK ++ + K+     S++ EE   E  IH
Sbjct:   146 KRRLPEAESQWNKKAVEEFQEDPQRGNDQSQKKHKNDQSKETVNKESSQSEEAPKENYIH 205

Query:   155 VRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQ 214
             +RA+RGQAT+SHS+AERVRREKI+++MR LQ+LVPGC+K  G A ML+EIINYV SLQ Q
Sbjct:   206 MRARRGQATNSHSLAERVRREKISERMRLLQELVPGCNKITGKAVMLDEIINYVQSLQQQ 265

Query:   215 VEFLSMELAAACSSNDLNIETE 236
             VEFLSM+LA    + ++NI+ +
Sbjct:   266 VEFLSMKLATV--NPEINIDID 285

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

TAIR|locus:2205420 AT1G68920 [Arabidopsis thaliana (taxid:3702)]

 Score = 308 (113.5 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 72/156 (46%), Positives = 101/156 (64%)

Query:    87 RGNEDVLYESSRREVTEQSTSISKTMCSSASTSE--TQGDTYKN-KKIRSRRGKKVSSNE 143
             +G E       R+   ++++  +++  S  S  E    GD  +N ++  +  GKK +S +
Sbjct:   227 KGRETSSNTKKRKRNGQKNSEAAQSHRSQQSEEEPDNNGDEKRNDEQSPNSPGKKSNSGK 286

Query:   144 ---KEEGNPER--IIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMA 198
                K+  +P +   IHVRA+RGQAT+SHS+AERVRREKI+++M+ LQDLVPGC+K  G A
Sbjct:   287 QQGKQSSDPPKDGYIHVRARRGQATNSHSLAERVRREKISERMKFLQDLVPGCNKVTGKA 346

Query:   199 GMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIE 234
              ML+EIINYV SLQ QVEFLSM+LA      D N+E
Sbjct:   347 VMLDEIINYVQSLQRQVEFLSMKLATVNPQMDFNLE 382

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 = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 72/145 (49%), Positives = 96/145 (66%)

Query:   111 TMCSSASTSETQGDTYKNKKIRSRR--GKKVSSNEKEEGNP-ERIIHVRAKRGQATDSHS 167
             T+ S+    + +    K   + S +  GK++  N    G+P E  IHVRA+RGQAT+SHS
Sbjct:   216 TVGSAQKNEDDEKGEPKRSSVASGKSSGKQIKDNA---GSPKEDYIHVRARRGQATNSHS 272

Query:   168 IAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACS 227
             +AERVRREKI+++M+ LQDLVPGC K  G A ML+EIINYV SLQ QVEFLSM+LA+   
Sbjct:   273 LAERVRREKISERMKYLQDLVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMKLASVNP 332

Query:   228 SNDLNIETESSR---KTQGTNSHEA 249
             + D NIE   S+   + +GT +  A
Sbjct:   333 TLDFNIERILSKDIFQCRGTTASSA 357

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2115200 BEE2 "AT4G36540" [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 62/112 (55%), Positives = 82/112 (73%)

Query:   133 SRRGKKVSSNEKEEGNPER--IIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPG 190
             S +GK   SN +     ++   IHVRA+RG+ATD HS+AER RREKI+KKM+CLQD+VPG
Sbjct:   117 SMKGKSNMSNTETSSEIQKPDYIHVRARRGEATDRHSLAERARREKISKKMKCLQDIVPG 176

Query:   191 CHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLNIETESSRKTQ 242
             C+K  G AGML+EIINYV SLQ QVEFLSM+L+      + +I+  S+++ Q
Sbjct:   177 CNKVTGKAGMLDEIINYVQSLQQQVEFLSMKLSVINPELECHIDDLSAKQFQ 228

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:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA

GO:0010162 "seed dormancy 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)
Q8GWK7	BEE3_ARATH	No assigned EC number	0.4208	0.8529	0.8888	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	272
smart00353	53	smart00353, HLH, helix loop helix domain	1e-09
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	2e-08
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	2e-04

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

 Score = 52.6 bits (127), Expect = 1e-09
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 167 SIAERVRREKINKKMRCLQDLVPGCHKDMGM--AGMLEEIINYVHSLQNQVE 216
           +  ER RR KIN+    L+ L+P   K+  +  A +L   I Y+ 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 = 49.5 bits (119), Expect = 2e-08
 Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 2/60 (3%)

Query: 159 RGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGM--AGMLEEIINYVHSLQNQVE 216
           R    ++H++ ER RRE+IN     L+ L+P       +  A +L + ++Y+ 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 = 37.8 bits (89), Expect = 2e-04
 Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 9/53 (16%)

Query: 165 SHSIAERVRREKINKKMRCLQDLVPGCH-----KDMGMAGMLEEIINYVHSLQ 212
           +H+  ER RR++IN     L++L+P        K    A +L   I Y+  LQ
Sbjct: 4   AHNERERRRRDRINDAFEELRELLPTPPNKKLSK----AEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	272
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.42
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.36
smart00353	53	HLH helix loop helix domain.	99.34
KOG1318	411	consensus Helix loop helix transcription factor EB	99.21
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	99.19
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	98.47
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.39
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.26
KOG3960	284	consensus Myogenic helix-loop-helix transcription	97.93
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	97.84
PLN03217	93	transcription factor ATBS1; Provisional	97.63
KOG0561	373	consensus bHLH transcription factor [Transcription	97.58
KOG4029	228	consensus Transcription factor HAND2/Transcription	97.29
KOG3910	632	consensus Helix loop helix transcription factor [T	96.08
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	86.39
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	84.63

>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=1.6e-13  Score=97.52  Aligned_cols=54  Identities=33%  Similarity=0.620  Sum_probs=49.3

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCCC--CCCCChhchHHHHHHHHHHHHHHHH
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPGC--HKDMGMAGMLEEIINYVHSLQNQVE  216 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~~--~K~mdKAsiL~eAIdYIk~LQ~qV~  216 (272)
                      ...|+..||+||++||+.|..|+.+||.+  ..+++|+.||..||+||+.|+.+++
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            34699999999999999999999999998  3568999999999999999998863

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=99.36  E-value=1.1e-12  Score=93.16  Aligned_cols=48  Identities=35%  Similarity=0.715  Sum_probs=45.1

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCCC----CCCCChhchHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPGC----HKDMGMAGMLEEIINYVHSLQ  212 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~~----~K~mdKAsiL~eAIdYIk~LQ  212 (272)
                      .|+..||+||++||+.|..|+.+||.+    ..+++|+.||..||+||+.||
T Consensus         4 ~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    4 KHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            599999999999999999999999997    355899999999999999997

; 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=99.34  E-value=2.4e-12  Score=90.06  Aligned_cols=50  Identities=36%  Similarity=0.571  Sum_probs=45.1

Q ss_pred             hHHHHHHHHHHHHHHHHhhccCCCC--CCCCChhchHHHHHHHHHHHHHHHH
Q 024111          167 SIAERVRREKINKKMRCLQDLVPGC--HKDMGMAGMLEEIINYVHSLQNQVE  216 (272)
Q Consensus       167 s~aERrRRekIner~~~Lr~LVP~~--~K~mdKAsiL~eAIdYIk~LQ~qV~  216 (272)
                      +..||+||++||+.|..|+.+||.+  ..+++|+.||..||+||+.|+.+++
T Consensus         1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~   52 (53)
T smart00353        1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ   52 (53)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            4689999999999999999999963  3447999999999999999999886

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

Probab=99.21  E-value=1.5e-11  Score=119.94  Aligned_cols=60  Identities=28%  Similarity=0.534  Sum_probs=51.7

Q ss_pred             CCCCCcchHHHHHHHHHHHHHHHHhhccCCCCCC---CCChhchHHHHHHHHHHHHHHHHHHH
Q 024111          160 GQATDSHSIAERVRREKINKKMRCLQDLVPGCHK---DMGMAGMLEEIINYVHSLQNQVEFLS  219 (272)
Q Consensus       160 ~~~~~sHs~aERrRRekIner~~~Lr~LVP~~~K---~mdKAsiL~eAIdYIk~LQ~qV~~L~  219 (272)
                      .++++.|+.+|||||++||++|++|..|||.|..   +.+|+.||..++|||+.||+..+...
T Consensus       231 r~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~  293 (411)
T KOG1318|consen  231 RRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAR  293 (411)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHH
Confidence            3445779999999999999999999999999942   24799999999999999998777444

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=99.19  E-value=2.7e-11  Score=108.18  Aligned_cols=60  Identities=30%  Similarity=0.517  Sum_probs=52.7

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCCCC------CCChhchHHHHHHHHHHHHHHHHHHHHHHh
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGCHK------DMGMAGMLEEIINYVHSLQNQVEFLSMELA  223 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~~K------~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~  223 (272)
                      ..|..+||+||+.||..+..|+.|||.|..      ++.||.||.++|+||.+|..++...+.+++
T Consensus        64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s  129 (229)
T KOG1319|consen   64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVS  129 (229)
T ss_pred             HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            359999999999999999999999997754      257999999999999999998887776654

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=98.47  E-value=3.2e-07  Score=96.89  Aligned_cols=62  Identities=34%  Similarity=0.574  Sum_probs=55.8

Q ss_pred             CCCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHH
Q 024111          160 GQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSME  221 (272)
Q Consensus       160 ~~~~~sHs~aERrRRekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~  221 (272)
                      +..+.+||++|||.|-.||++|.+|++|||+..-++.|..+|..||+||++|+..-+.+...
T Consensus       274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~  335 (953)
T KOG2588|consen  274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLE  335 (953)
T ss_pred             CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchh
Confidence            46688999999999999999999999999997777899999999999999999877666643

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

Probab=98.39  E-value=3.4e-07  Score=95.91  Aligned_cols=52  Identities=21%  Similarity=0.364  Sum_probs=48.6

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCCCC---CCCChhchHHHHHHHHHHHHHH
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPGCH---KDMGMAGMLEEIINYVHSLQNQ  214 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~~~---K~mdKAsiL~eAIdYIk~LQ~q  214 (272)
                      +.+|+.+|||||+++|..|.+|.+|||+|.   .|+||-+||.+||+.||.++.+
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            456999999999999999999999999998   7799999999999999998875

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

Probab=98.26  E-value=2.9e-07  Score=85.05  Aligned_cols=54  Identities=30%  Similarity=0.456  Sum_probs=46.6

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCCCCC-------CCChhchHHHHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPGCHK-------DMGMAGMLEEIINYVHSLQNQVEFL  218 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~~~K-------~mdKAsiL~eAIdYIk~LQ~qV~~L  218 (272)
                      .|-+.||+||.|||+-|.+|++|||.+.+       ++.||.||+-+++|++.||.+...-
T Consensus        35 ~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~   95 (250)
T KOG4304|consen   35 RKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAA   95 (250)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccccc
Confidence            37799999999999999999999996433       3789999999999999999865443

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

Probab=97.93  E-value=6.5e-05  Score=70.14  Aligned_cols=55  Identities=20%  Similarity=0.316  Sum_probs=49.1

Q ss_pred             hHHHHHHHHHHHHHHHHhh-ccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHH
Q 024111          167 SIAERVRREKINKKMRCLQ-DLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSME  221 (272)
Q Consensus       167 s~aERrRRekIner~~~Lr-~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~  221 (272)
                      .+-||||=.|+||.|.+|+ .-+++.++++-|.-||..||+||..||.-++.+...
T Consensus       123 TMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~  178 (284)
T KOG3960|consen  123 TMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQA  178 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            5789999999999999996 467788888999999999999999999998888753

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

Probab=97.84  E-value=3.6e-05  Score=70.75  Aligned_cols=56  Identities=20%  Similarity=0.332  Sum_probs=46.7

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCCCCCC--ChhchHHHHHHHHHHHHHHHHHHH
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGCHKDM--GMAGMLEEIINYVHSLQNQVEFLS  219 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~~K~m--dKAsiL~eAIdYIk~LQ~qV~~L~  219 (272)
                      ..|+.-||+||..|.+.|..|+.+||......  ..++||+.|+.||+.|+.+.....
T Consensus        61 ~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~  118 (232)
T KOG2483|consen   61 AHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQ  118 (232)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHH
Confidence            45999999999999999999999999743321  268999999999999988665544

>PLN03217 transcription factor ATBS1; Provisional

Probab=97.63  E-value=0.00012  Score=58.56  Aligned_cols=52  Identities=29%  Similarity=0.468  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHhhccCCCCC-----CCCChhchHHHHHHHHHHHHHHHHHHHHHHhhc
Q 024111          174 REKINKKMRCLQDLVPGCH-----KDMGMAGMLEEIINYVHSLQNQVEFLSMELAAA  225 (272)
Q Consensus       174 RekIner~~~Lr~LVP~~~-----K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~a~  225 (272)
                      -+.|++-+..||.|+|...     .+...+-||.|+.+||+.|+.+|..|++.++..
T Consensus        19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~L   75 (93)
T PLN03217         19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSEL   75 (93)
T ss_pred             HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4679999999999999521     124677899999999999999999999987643

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.58  E-value=5.5e-05  Score=72.28  Aligned_cols=51  Identities=27%  Similarity=0.471  Sum_probs=44.8

Q ss_pred             chHHHHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHHHHHH
Q 024111          166 HSIAERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQNQVEF  217 (272)
Q Consensus       166 Hs~aERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~qV~~  217 (272)
                      -|-.||||=.-||-.|..||.|+|.  +.| ++||.||..+.+||..|+.+.-.
T Consensus        64 ANsNERRRMQSINAGFqsLr~LlPr~eGEK-LSKAAILQQTa~yI~~Le~~Kt~  116 (373)
T KOG0561|consen   64 ANSNERRRMQSINAGFQSLRALLPRKEGEK-LSKAAILQQTADYIHQLEGHKTE  116 (373)
T ss_pred             hcchHHHHHHhhhHHHHHHHHhcCcccchh-hHHHHHHHHHHHHHHHHHhcccc
Confidence            3558999999999999999999997  556 79999999999999999875443

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

Probab=97.29  E-value=0.00024  Score=64.02  Aligned_cols=58  Identities=21%  Similarity=0.291  Sum_probs=51.4

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCC--C-CCCCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPG--C-HKDMGMAGMLEEIINYVHSLQNQVEFLSMEL  222 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~--~-~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~  222 (272)
                      .++..||.|=+-+|..|..||.+||.  . .|+++|.-+|..||.||++|+.-++.-+..+
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            36777999999999999999999996  4 7889999999999999999999888776544

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=96.08  E-value=0.014  Score=59.27  Aligned_cols=57  Identities=23%  Similarity=0.310  Sum_probs=47.1

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCC---CCCCCChhchHHHHHHHHHHHHHHHHHHHH
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPG---CHKDMGMAGMLEEIINYVHSLQNQVEFLSM  220 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~---~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~  220 (272)
                      ..-++-||-|=.-||+.|++|..+.=-   .+|.--|-.||..|+.-|-.|++||.+-..
T Consensus       528 ~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERNL  587 (632)
T KOG3910|consen  528 MANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERNL  587 (632)
T ss_pred             hhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHccC
Confidence            346788999988899999999998653   344445889999999999999999987553

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=86.39  E-value=0.43  Score=42.27  Aligned_cols=50  Identities=20%  Similarity=0.385  Sum_probs=43.2

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQNQV  215 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~qV  215 (272)
                      .|++-||+|-..+|+.|.+||.++|.  ..| .+|--.|.-|-.||-+|=.-.
T Consensus        81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdk-lSkiqtLklA~ryidfl~~vl  132 (173)
T KOG4447|consen   81 MANVRERQRTQSLNEAFAALRKIIPTLPSDK-LSKIQTLKLAARYIDFLYQVL  132 (173)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHhhcCCCCccc-cccccchhhcccCCchhhhcc
Confidence            38999999999999999999999997  445 688888999999999886533

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

Probab=84.63  E-value=0.65  Score=49.17  Aligned_cols=42  Identities=29%  Similarity=0.395  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHhhccCCC---CCCCCChhchHHHHHHHHH
Q 024111          168 IAERVRREKINKKMRCLQDLVPG---CHKDMGMAGMLEEIINYVH  209 (272)
Q Consensus       168 ~aERrRRekIner~~~Lr~LVP~---~~K~mdKAsiL~eAIdYIk  209 (272)
                      -|.|.||.|=|+-|.+|..+||-   ..-.+|||+|+.-||-|++
T Consensus        52 dAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLR   96 (768)
T KOG3558|consen   52 DAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLR   96 (768)
T ss_pred             hhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHH
Confidence            38899999999999999999994   3334799999999999986

---

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	272
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	2e-15
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	5e-08
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	4e-06
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	8e-06
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	1e-05
1a0a_A	63	BHLH, protein (phosphate system positive regulator	8e-05

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

 Score = 68.6 bits (168), Expect = 2e-15
 Identities = 20/67 (29%), Positives = 35/67 (52%)

Query: 158 KRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEF 217
            RG+   +H+  E+  R  IN K+  L+DLV G    +  + +L + I+Y+  LQ+  + 
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 218 LSMELAA 224
           L  E  +
Sbjct: 62  LKQENLS 68

>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 = 48.1 bits (115), Expect = 5e-08
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 5/58 (8%)

Query: 164 DSHSIAERVRREKINKKMRCLQDLVPGCHKDMGM-----AGMLEEIINYVHSLQNQVE 216
             H+  ER RR+KIN  +  L  ++P    +         G+L +  +Y+  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 = 43.1 bits (102), Expect = 4e-06
 Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 164 DSHSIAERVRREKINKKMRCLQDLVPGCHKD-MGMAGMLEEIINYVHSLQNQVEFLSMEL 222
             H+  ER RR+ I      L+D VP    +    A +L++   Y+  ++ +      ++
Sbjct: 4   AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 63

Query: 223 AA 224
             
Sbjct: 64  DD 65

>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 = 41.9 bits (99), Expect = 8e-06
 Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 164 DSHSIAERVRREKINKKMRCLQDLVPGCHKD-MGMAGMLEEIINYVHSLQNQVEFLSMEL 222
             H+  ER RR+ I      L+D VP    +    A +L++   Y+  ++ +      ++
Sbjct: 14  AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 73

Query: 223 AA 224
             
Sbjct: 74  DD 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 = 41.6 bits (98), Expect = 1e-05
 Identities = 14/59 (23%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 165 SHSIAERVRREKINKKMRCLQDLVPGCHKDMGM--AGMLEEIINYVHSLQNQVEFLSME 221
           +H++ ER RR ++ +    L+D +P    +       +L++   Y+ S+Q + + L  E
Sbjct: 9   THNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISE 67

>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 = 8e-05
 Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 6/58 (10%)

Query: 165 SHSIAERVRREKINKKMRCLQDLVPGCHKDMGM------AGMLEEIINYVHSLQNQVE 216
           SH  AE+ RR ++   +  L  L+P   K   +      A  +E    Y+  LQ    
Sbjct: 5   SHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	272
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.68
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.68
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.61
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.59
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.57
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.52
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.49
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.48
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.45
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.4
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.28
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.04
4f3l_A	361	Mclock, circadian locomoter output cycles protein	99.04
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	98.99
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.86
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.7
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.47
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	97.94

>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=99.68  E-value=1.4e-17  Score=127.96  Aligned_cols=62  Identities=29%  Similarity=0.417  Sum_probs=57.2

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHHHhh
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAA  224 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~a  224 (272)
                      +.+|+++||+||++||++|.+|++|||++..++||++||++||+||++||.+++.|+.+..+
T Consensus         7 r~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~~~   68 (82)
T 1am9_A            7 RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLS   68 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45799999999999999999999999999666999999999999999999999999987543

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

Probab=99.68  E-value=4.5e-17  Score=133.01  Aligned_cols=71  Identities=25%  Similarity=0.375  Sum_probs=51.8

Q ss_pred             cchhhcccCCCCCCcchHHHHHHHHHHHHHHHHhhccCCCCCC---CCChhchHHHHHHHHHHHHHHHHHHHHH
Q 024111          151 RIIHVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHK---DMGMAGMLEEIINYVHSLQNQVEFLSME  221 (272)
Q Consensus       151 ~~~~~rarR~~~~~sHs~aERrRRekIner~~~Lr~LVP~~~K---~mdKAsiL~eAIdYIk~LQ~qV~~L~~~  221 (272)
                      ..++..+++++++.+|+++||+||++||++|.+|++|||+|.+   +++|++||++||+||++||.+++.|...
T Consensus        16 ~~~~~~~k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~~   89 (118)
T 4ati_A           16 SEARALAKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDL   89 (118)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667777888999999999999999999999999999853   5789999999999999999999999865

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

Probab=99.61  E-value=1.9e-16  Score=119.76  Aligned_cols=57  Identities=21%  Similarity=0.433  Sum_probs=52.7

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHH
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLS  219 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~  219 (272)
                      +.+|+++||+||++||++|.+|++|||++..++||++||+.||+||+.||.++..|+
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            457999999999999999999999999877669999999999999999999988765

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

Probab=99.59  E-value=2.9e-16  Score=115.72  Aligned_cols=54  Identities=26%  Similarity=0.386  Sum_probs=48.4

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCCCC------CCCChhchHHHHHHHHHHHHHHHH
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPGCH------KDMGMAGMLEEIINYVHSLQNQVE  216 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~~~------K~mdKAsiL~eAIdYIk~LQ~qV~  216 (272)
                      +.+|+++||+||++||..|..|+.|||+|.      .+++||.||+.||+||+.||++|+
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            467999999999999999999999999763      346799999999999999998764

>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=6.3e-16  Score=113.26  Aligned_cols=56  Identities=25%  Similarity=0.454  Sum_probs=50.2

Q ss_pred             CCCCcchHHHHHHHHHHHHHHHHhhccCCCCCC-----CCChhchHHHHHHHHHHHHHHHH
Q 024111          161 QATDSHSIAERVRREKINKKMRCLQDLVPGCHK-----DMGMAGMLEEIINYVHSLQNQVE  216 (272)
Q Consensus       161 ~~~~sHs~aERrRRekIner~~~Lr~LVP~~~K-----~mdKAsiL~eAIdYIk~LQ~qV~  216 (272)
                      ..+.+|+++||+||++||+.|.+|++|||+|..     +++|++||.+||+||+.||.+++
T Consensus         4 ~rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~~~   64 (65)
T 1an4_A            4 KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH   64 (65)
T ss_dssp             CCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTTC
T ss_pred             HHHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHHhc
Confidence            345679999999999999999999999999873     47999999999999999998753

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

Probab=99.52  E-value=1e-15  Score=116.06  Aligned_cols=53  Identities=28%  Similarity=0.515  Sum_probs=47.5

Q ss_pred             CCCCcchHHHHHHHHHHHHHHHHhhccCCCCC---CCCChhchHHHHHHHHHHHHH
Q 024111          161 QATDSHSIAERVRREKINKKMRCLQDLVPGCH---KDMGMAGMLEEIINYVHSLQN  213 (272)
Q Consensus       161 ~~~~sHs~aERrRRekIner~~~Lr~LVP~~~---K~mdKAsiL~eAIdYIk~LQ~  213 (272)
                      +++.+|+++||+||++||+.|.+|+.|||.|.   .++|||+||+.||+||+.|+.
T Consensus         8 ~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            8 NAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSC
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhc
Confidence            34567999999999999999999999999873   458999999999999999974

>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=99.49  E-value=4.1e-14  Score=108.06  Aligned_cols=59  Identities=22%  Similarity=0.420  Sum_probs=53.2

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCC-CCCCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGC-HKDMGMAGMLEEIINYVHSLQNQVEFLSMEL  222 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~-~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~  222 (272)
                      ..|+..||+||..||+.|..|+++||.+ ..+++|++||..||+||+.|+.+++.|+.+.
T Consensus         4 ~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~e~   63 (83)
T 1nkp_B            4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI   63 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999985 2348999999999999999999999988654

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

Probab=99.48  E-value=4.3e-14  Score=107.55  Aligned_cols=60  Identities=22%  Similarity=0.426  Sum_probs=54.9

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCCC-CCCChhchHHHHHHHHHHHHHHHHHHHHHHh
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGCH-KDMGMAGMLEEIINYVHSLQNQVEFLSMELA  223 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~~-K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~  223 (272)
                      ..|+..||+||..||+.|..|++|||.+. .+++|+.||..||+||+.|+.+++.|+.+..
T Consensus        14 ~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~L~~e~~   74 (80)
T 1hlo_A           14 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID   74 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45999999999999999999999999863 3489999999999999999999999998764

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

Probab=99.45  E-value=9.4e-14  Score=108.15  Aligned_cols=58  Identities=24%  Similarity=0.395  Sum_probs=52.6

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCCCC--CCCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPGCH--KDMGMAGMLEEIINYVHSLQNQVEFLSMEL  222 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~~~--K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~  222 (272)
                      .|+..||+||..||+.|..|+++||.+.  .+++|++||.+||+||++|+.+.+.+....
T Consensus         9 ~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~~~~   68 (88)
T 1nkp_A            9 THNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEE   68 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5999999999999999999999999863  458999999999999999999998887653

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

Probab=99.40  E-value=8.6e-14  Score=106.15  Aligned_cols=57  Identities=25%  Similarity=0.295  Sum_probs=49.2

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCC---CCCCCChhchHHHHHHHHHHHHHHHHHHH
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPG---CHKDMGMAGMLEEIINYVHSLQNQVEFLS  219 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~---~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~  219 (272)
                      +..|+..||+||..||+.|..|+.+||.   +.|..+|+.||..||+||++||++|++++
T Consensus         6 R~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~   65 (76)
T 3u5v_A            6 RAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERN   65 (76)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3469999999999999999999999995   44544799999999999999999999875

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

Probab=99.28  E-value=7.5e-12  Score=96.01  Aligned_cols=58  Identities=17%  Similarity=0.212  Sum_probs=52.2

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCCCC--CCCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPGCH--KDMGMAGMLEEIINYVHSLQNQVEFLSMEL  222 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~~~--K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~  222 (272)
                      .|+..||+||..||+.|..|+++||.+.  .+++|+.||.+||+||+.|+.+.+.|..+.
T Consensus         4 ~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~~l~~e~   63 (80)
T 1nlw_A            4 THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQI   63 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5999999999999999999999999642  347899999999999999999999888653

>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=99.04  E-value=1.6e-10  Score=86.38  Aligned_cols=52  Identities=21%  Similarity=0.378  Sum_probs=47.2

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCCC-CCCCChhchHHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPGC-HKDMGMAGMLEEIINYVHSLQNQVE  216 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~~-~K~mdKAsiL~eAIdYIk~LQ~qV~  216 (272)
                      .|+..||+|+..||+.|..|+.+||.. +++++|..||..||+||.+||..++
T Consensus        15 ~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~tLr~Ai~YI~~L~~~L~   67 (68)
T 1mdy_A           15 AATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHc
Confidence            499999999999999999999999963 4568999999999999999998653

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

Probab=99.04  E-value=1.5e-10  Score=106.74  Aligned_cols=54  Identities=20%  Similarity=0.417  Sum_probs=42.8

Q ss_pred             CCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHHHHH
Q 024111          161 QATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQ  214 (272)
Q Consensus       161 ~~~~sHs~aERrRRekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~LQ~q  214 (272)
                      .++.+|+++||+||++||+.|.+|+.|||....++||++||..||+||+.|+..
T Consensus        11 ~~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~   64 (361)
T 4f3l_A           11 AKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKET   64 (361)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhh
Confidence            344579999999999999999999999996555699999999999999999864

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

Probab=98.99  E-value=5.1e-10  Score=81.69  Aligned_cols=52  Identities=21%  Similarity=0.325  Sum_probs=47.4

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCCC--CCCCChhchHHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPGC--HKDMGMAGMLEEIINYVHSLQNQVE  216 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~~--~K~mdKAsiL~eAIdYIk~LQ~qV~  216 (272)
                      .|+.-||+|+..||+.|..|+.+||..  +++++|..+|..||+||+.|+..++
T Consensus         5 ~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   58 (60)
T 2ql2_B            5 KANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILR   58 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHh
Confidence            389999999999999999999999963  5678999999999999999998764

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

Probab=98.86  E-value=7e-10  Score=103.63  Aligned_cols=54  Identities=28%  Similarity=0.496  Sum_probs=47.0

Q ss_pred             CCCCcchHHHHHHHHHHHHHHHHhhccCCCC---CCCCChhchHHHHHHHHHHHHHH
Q 024111          161 QATDSHSIAERVRREKINKKMRCLQDLVPGC---HKDMGMAGMLEEIINYVHSLQNQ  214 (272)
Q Consensus       161 ~~~~sHs~aERrRRekIner~~~Lr~LVP~~---~K~mdKAsiL~eAIdYIk~LQ~q  214 (272)
                      +++++|+.+||+||++||+.|.+|+.|||.+   ..++||++||..||+|||.|+..
T Consensus        12 ~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~~   68 (387)
T 4f3l_B           12 NAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA   68 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHCC
T ss_pred             hhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhcc
Confidence            3456799999999999999999999999942   23489999999999999999843

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

Probab=98.70  E-value=2.1e-08  Score=77.99  Aligned_cols=50  Identities=20%  Similarity=0.317  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHhhccCCCCCC---CCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111          173 RREKINKKMRCLQDLVPGCHK---DMGMAGMLEEIINYVHSLQNQVEFLSMEL  222 (272)
Q Consensus       173 RRekIner~~~Lr~LVP~~~K---~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~  222 (272)
                      -|..||++|.+|..|||.+..   +.+|++||..|||||+.||.+++.+....
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            488999999999999997642   46899999999999999999888887543

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

Probab=98.47  E-value=3.8e-08  Score=73.93  Aligned_cols=46  Identities=24%  Similarity=0.396  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHH
Q 024111          168 IAERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQN  213 (272)
Q Consensus       168 ~aERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~  213 (272)
                      .-||+|+..||+.|..||.+||.  .+++++|.-+|.-||+||..||.
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            35788899999999999999997  35678999999999999999984

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

Probab=97.94  E-value=1.5e-05  Score=63.55  Aligned_cols=49  Identities=22%  Similarity=0.324  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHHHHHHH
Q 024111          170 ERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQNQVEFL  218 (272)
Q Consensus       170 ERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~qV~~L  218 (272)
                      ||.|=..||+.|..||.+||.  .+++++|.-+|.-||+||..|+..++.-
T Consensus        33 ~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~~   83 (97)
T 4aya_A           33 PMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDSH   83 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            577888899999999999996  4667999999999999999999887653

---

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	272
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	4e-13
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	2e-12
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	9e-12
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	4e-11
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	2e-09
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	2e-09
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	1e-08
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	1e-07

>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 = 60.9 bits (148), Expect = 4e-13
 Identities = 20/59 (33%), Positives = 28/59 (47%)

Query: 174 REKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSNDLN 232
           R  IN K+  L+DLV G    M  +G+L + I+Y+  LQ     L  E      +N  N
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMVLKLANQKN 59

>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 = 59.6 bits (144), Expect = 2e-12
 Identities = 20/67 (29%), Positives = 35/67 (52%)

Query: 158 KRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEF 217
            RG+   +H+  E+  R  IN K+  L+DLV G    +  + +L + I+Y+  LQ+  + 
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 218 LSMELAA 224
           L  E  +
Sbjct: 62  LKQENLS 68

>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 = 57.6 bits (139), Expect = 9e-12
 Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 6/73 (8%)

Query: 154 HVRAKRGQATDSHSIAERVRREKINKKMRCLQDLVPGCHKD--MGMAGMLEEIINYVHSL 211
           H+  KR     +H++ ER RR ++ +    L+D +P    +       +L++   Y+ S+
Sbjct: 2   HMNVKR----RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSV 57

Query: 212 QNQVEFLSMELAA 224
           Q + + L  E   
Sbjct: 58  QAEEQKLISEEDL 70

>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 = 55.3 bits (133), Expect = 4e-11
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 6/59 (10%)

Query: 164 DSHSIAERVRREKINKKMRCLQDLVPGCHKD------MGMAGMLEEIINYVHSLQNQVE 216
           +SH  AE+ RR ++   +  L  L+P   K          A  +E    Y+  LQ    
Sbjct: 4   ESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

>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 = 51.0 bits (122), Expect = 2e-09
 Identities = 11/53 (20%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 165 SHSIAERVRREKINKKMRCLQDLVPGCH-KDMGMAGMLEEIINYVHSLQNQVE 216
           + ++ ER R  K+N+    L+        + +    +L   I Y+  LQ  + 
Sbjct: 15  AATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR 67

>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 = 51.0 bits (122), Expect = 2e-09
 Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 165 SHSIAERVRREKINKKMRCLQDLVPGCHKD-MGMAGMLEEIINYVHSLQNQVEFLSMELA 223
            H+  ER RR+ I      L+D VP    +    A +L++   Y+  ++ +      ++ 
Sbjct: 5   HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID 64

Query: 224 AACSSNDL 231
                N L
Sbjct: 65  DLKRQNAL 72

>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 = 48.6 bits (116), Expect = 1e-08
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 5/58 (8%)

Query: 164 DSHSIAERVRREKINKKMRCLQDLVPGCHKD-----MGMAGMLEEIINYVHSLQNQVE 216
             H+  ER RR+KIN  +  L  ++P    +         G+L +  +Y+  L+    
Sbjct: 7   AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

>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 = 46.4 bits (110), Expect = 1e-07
 Identities = 10/60 (16%), Positives = 24/60 (40%), Gaps = 2/60 (3%)

Query: 165 SHSIAERVRREKINKKMRCLQDLVPGCHKDMGM--AGMLEEIINYVHSLQNQVEFLSMEL 222
           +H+  E+ RR  +   +  L+ LVP            +L +   ++  L++       ++
Sbjct: 4   THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQI 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	272
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.53
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.5
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.49
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.47
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.47
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.45
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.41

>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=99.60  E-value=1.7e-16  Score=119.06  Aligned_cols=61  Identities=30%  Similarity=0.425  Sum_probs=56.7

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHHHhh
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAA  224 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~a  224 (272)
                      ..|+.+||+||++||+.|..|++|||++..+++|+.||..||+||+.|+.+++.|..+...
T Consensus         8 ~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~e~~~   68 (80)
T d1am9a_           8 TAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLS   68 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999998877999999999999999999999999876543

>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=99.53  E-value=2.6e-15  Score=108.16  Aligned_cols=53  Identities=26%  Similarity=0.396  Sum_probs=47.6

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCCC------CCCCChhchHHHHHHHHHHHHHHH
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPGC------HKDMGMAGMLEEIINYVHSLQNQV  215 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~~------~K~mdKAsiL~eAIdYIk~LQ~qV  215 (272)
                      +..|+++||+||++||+.|..|++|||++      ..+++|+.||+.||+||+.||++|
T Consensus         3 R~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k~sKa~iL~~Av~yI~~Lq~~v   61 (63)
T d1a0aa_           3 RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             TTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCcccccHHHHHHHHHHHHHHHHHhh
Confidence            34699999999999999999999999953      345899999999999999999876

>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=99.50  E-value=1.3e-14  Score=107.91  Aligned_cols=59  Identities=17%  Similarity=0.211  Sum_probs=53.4

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCCC--CCCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGCH--KDMGMAGMLEEIINYVHSLQNQVEFLSMEL  222 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~~--K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~  222 (272)
                      ..|+.+||+||++||+.|..|++|||++.  .+++|++||..||+||+.|+.+++.|....
T Consensus         3 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~   63 (79)
T d1nlwa_           3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQI   63 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46999999999999999999999999753  347999999999999999999999998764

>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=99.49  E-value=8.8e-15  Score=107.08  Aligned_cols=52  Identities=21%  Similarity=0.363  Sum_probs=48.1

Q ss_pred             cchHHHHHHHHHHHHHHHHhhccCCCCC-CCCChhchHHHHHHHHHHHHHHHH
Q 024111          165 SHSIAERVRREKINKKMRCLQDLVPGCH-KDMGMAGMLEEIINYVHSLQNQVE  216 (272)
Q Consensus       165 sHs~aERrRRekIner~~~Lr~LVP~~~-K~mdKAsiL~eAIdYIk~LQ~qV~  216 (272)
                      .|++.||+||.+||+.|..|++|||.+. ++++|+.||..||+||++||++|+
T Consensus        15 ~hn~~Er~Rr~~in~~~~~L~~llP~~~~~k~sK~~iL~~Ai~YI~~Lq~~l~   67 (68)
T d1mdya_          15 AATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            5999999999999999999999999864 558999999999999999998774

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

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

Probab=99.47  E-value=8.3e-15  Score=105.07  Aligned_cols=51  Identities=35%  Similarity=0.461  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHHHhh
Q 024111          174 REKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAA  224 (272)
Q Consensus       174 RekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~a  224 (272)
                      |++||++|.+|++|||++.+++|||+||.+||+||++||.+++.|+++...
T Consensus         1 R~~in~~f~~L~~lvP~~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L~~e~~~   51 (61)
T d1uklc_           1 RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMV   51 (61)
T ss_dssp             CCCHHHHHHHHHHHHSCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            578999999999999999877999999999999999999999999987543

>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=99.47  E-value=3e-14  Score=106.82  Aligned_cols=59  Identities=22%  Similarity=0.420  Sum_probs=53.6

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCC-CCCCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGC-HKDMGMAGMLEEIINYVHSLQNQVEFLSMEL  222 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~-~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~  222 (272)
                      ..|+.+||+||++||+.|..|++|||++ .++++|++||..||+||+.|+.++..|....
T Consensus         4 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~   63 (83)
T d1nkpb_           4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI   63 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3699999999999999999999999975 3458999999999999999999999988654

>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=99.45  E-value=5.2e-14  Score=106.57  Aligned_cols=60  Identities=23%  Similarity=0.379  Sum_probs=53.9

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhccCCCCC--CCCChhchHHHHHHHHHHHHHHHHHHHHHHh
Q 024111          164 DSHSIAERVRREKINKKMRCLQDLVPGCH--KDMGMAGMLEEIINYVHSLQNQVEFLSMELA  223 (272)
Q Consensus       164 ~sHs~aERrRRekIner~~~Lr~LVP~~~--K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~  223 (272)
                      ..|+.+||+||++||+.|..|++|||++.  ++++|+.||..||+||+.|+.+++.|..+..
T Consensus         8 ~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~   69 (88)
T d1nkpa_           8 RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEED   69 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35999999999999999999999999753  3479999999999999999999999987644

>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=99.41  E-value=4.3e-14  Score=102.19  Aligned_cols=53  Identities=26%  Similarity=0.481  Sum_probs=47.1

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhccCCCCC-----CCCChhchHHHHHHHHHHHHHHH
Q 024111          163 TDSHSIAERVRREKINKKMRCLQDLVPGCH-----KDMGMAGMLEEIINYVHSLQNQV  215 (272)
Q Consensus       163 ~~sHs~aERrRRekIner~~~Lr~LVP~~~-----K~mdKAsiL~eAIdYIk~LQ~qV  215 (272)
                      +..|+.+||+||++||+.|.+|++|||.+.     .+++|+.||..||+||+.||.+.
T Consensus         6 R~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~~~   63 (65)
T d1an4a_           6 RAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            346999999999999999999999999753     25799999999999999999753