Citrus Sinensis ID: 038918

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-
Protein Sequence
MALARETCAFKENVYGDLSSPGSKKAPGFVKSIGISNTSSPSSANSNGYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDWLYTEATAVTDTILESGSQDASSSLKRPNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAILSSQRDRSSSSK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHcccccccccccccccccccccccccccccccccccccccccccEEEccHHHHHccHEEccccccHcccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
MALARETCAFkenvygdlsspgskkapgfvksigisntsspssansngyefhnaEEARDSLinfksghdhfMHANasnllsfeqnetkddeysmWEGNFNQINQKyssdhrlmedfncfdtasnygfminnsardchgdwlytEATAVTDTIlesgsqdassslkrpntgdsMQAVKKQCAIAATkktnnkqktsappkdpqsiAAKNRRERISERLKILQElvpngskvDLVTMLEKAISYVKFLQLQVKVLatdefwpvqggkapdisQVREAIDAILSsqrdrssssk
Flexible Loop (DISEMBL)
malaretcafkenvygdlsspgskKAPGFVKSIGIsntsspssanSNGYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDWLYTEATAVTDTILesgsqdassslkrpntgdSMQAVKKQCAIAatkktnnkqktsappkdpqsiaaKNRRERISERLKIlqelvpngskvDLVTMLEKAISYVKFLQLQVKVLATdefwpvqggkapdisqVREAIDAilssqrdrssssk
Low Complexity Region (SEG)
MALARETCAFKENVYGDLSSPGSKKAPGFVKsigisntsspssansngYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDWLYTEATAVTDTILESGSQDASSSLKRPNTGDSMQAVKKQCAIAAtkktnnkqktSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAILssqrdrssssK
Disordered region (IsUnstruct)
*******************************************************************************************YSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDWLYTEATAVTDTIL***************************************************************LKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAP*I**********************
Disordered Region (DISOPRED)
*******************************************************************************************************************************************************************************************************************RISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKV***************************************
Disordered Region (DISEMBL)
MALARETCAFKENVYGDLSSPGSKKAPGFVKSIGISN**********GYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDWLYTEATAVTDTILES*********************KKQCAIAATK**********************RRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL***********
Disordered Region (DISPRO)
*ALARETCAFKENVYGDL*************************ANSNGYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGF*I*NSA*********************************************************************SIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAILS**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALARETCAFKENVYGDLSSPGSKKAPGFVKSIGISNTSSPSSANSNGYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDWLYTEATAVTDTILESGSQDASSSLKRPNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAILSSQRDRSSSSK
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	291	2.2.26 [Sep-21-2011]
Q9FJ00	307	Putative transcription fa	yes	no	0.790	0.749	0.464	6e-52
Q9C707	298	Transcription factor bHLH	no	no	0.773	0.755	0.512	2e-50
Q7XHI9	328	Transcription factor bHLH	no	no	0.206	0.182	0.683	2e-20
Q84WK0	352	Transcription factor bHLH	no	no	0.206	0.170	0.683	2e-20
Q8LEG1	258	Transcription factor bHLH	no	no	0.226	0.255	0.621	3e-19
Q3E7L7	223	Transcription factor bHLH	no	no	0.206	0.269	0.65	2e-18
Q9ZUG9	350	Transcription factor bHLH	no	no	0.302	0.251	0.476	3e-17
Q8S3D5	310	Transcription factor bHLH	no	no	0.333	0.312	0.490	1e-16
Q9M041	912	Transcription factor bHLH	no	no	0.226	0.072	0.560	1e-14
Q9LSQ3	297	Transcription factor bHLH	no	no	0.312	0.306	0.443	3e-14

>sp|Q9FJ00|BH086_ARATH Putative transcription factor bHLH086 OS=Arabidopsis thaliana GN=BHLH86 PE=4 SV=2

 Score =  204 bits (519), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 124/267 (46%), Positives = 165/267 (61%), Gaps = 37/267 (13%)

Query: 45  NSNGYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNE------TKDDEYSMWEGN 98
           N+ G+ F+ + E  +        H+  M  NAS+  +F+ +       T    + + +GN
Sbjct: 49  NNQGFVFYPSGETIED-------HNSLMDFNASSFFTFDNHRSLISPVTNGGAFPVVDGN 101

Query: 99  FNQINQKYSSDH------RLMEDFNCFDTASNYGFMINNSARDC----HGDWLYTEATAV 148
            +     +S         R+++  N F+T S++G   N+ ++      +GDWLY+ +T  
Sbjct: 102 MSYSYDGWSHHQVDSISPRVIKTPNSFETTSSFGLTSNSMSKPATNHGNGDWLYSGST-- 159

Query: 149 TDTILESGSQDASSSLK-----RPNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPKDPQS 203
              I+  GS+  S+S K     RP TG++ Q  KK  +    K    K K +  PKDPQS
Sbjct: 160 ---IVNIGSRHESTSPKLAGNKRPFTGENTQLSKKPSSGTNGKI---KPKATTSPKDPQS 213

Query: 204 IAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQG 263
           +AAKNRRERISERLK+LQELVPNG+KVDLVTMLEKAI YVKFLQ+QVKVLA DEFWP QG
Sbjct: 214 LAAKNRRERISERLKVLQELVPNGTKVDLVTMLEKAIGYVKFLQVQVKVLAADEFWPAQG 273

Query: 264 GKAPDISQVREAIDAIL-SSQRDRSSS 289
           GKAPDISQV+EAIDAIL SSQRD +S+
Sbjct: 274 GKAPDISQVKEAIDAILSSSQRDSNST 300

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C707|BH083_ARATH Transcription factor bHLH83 OS=Arabidopsis thaliana GN=BHLH83 PE=2 SV=1

 Score =  199 bits (505), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 120/234 (51%), Positives = 148/234 (63%), Gaps = 9/234 (3%)

Query: 61  LINFKSGHDH---FMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFN 117
            + + SG DH    M  N S+ L+F+ +E+         G+       +   + +   F 
Sbjct: 63  FVFYPSGEDHHNSLMDFNGSSFLNFDHHESFPPPAISCGGSSGGGGFSFLEGNNMSYGFT 122

Query: 118 CFDTASNYGFMINNSARDCHG--DWLYTEATAVTDTILESGSQDASSSLKRPNTGDSMQA 175
            ++   +   +   S     G  DWLY+++T VT           S+  KR +TG+S Q 
Sbjct: 123 NWNHQHHMDIISPRSTETPQGQKDWLYSDSTVVTTGSRNESLSPKSAGNKRSHTGESTQP 182

Query: 176 VKKQCAIAATKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTM 235
            KK  +   T KT  K  TS  PKDPQS+AAKNRRERISERLKILQELVPNG+KVDLVTM
Sbjct: 183 SKK-LSSGVTGKTKPKPTTS--PKDPQSLAAKNRRERISERLKILQELVPNGTKVDLVTM 239

Query: 236 LEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL-SSQRDRSS 288
           LEKAISYVKFLQ+QVKVLATDEFWP QGGKAPDISQV++AIDAIL SSQRDR+S
Sbjct: 240 LEKAISYVKFLQVQVKVLATDEFWPAQGGKAPDISQVKDAIDAILSSSQRDRNS 293

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XHI9|BH084_ARATH Transcription factor bHLH84 OS=Arabidopsis thaliana GN=BHLH84 PE=2 SV=1

 Score =  100 bits (248), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 41/60 (68%), Positives = 54/60 (90%)

Query: 200 DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
           DPQS+ A+ RRERI+ERL+ILQ LVPNG+KVD+ TMLE+A+ YVKFLQLQ+K+L++D+ W
Sbjct: 246 DPQSLYARKRRERINERLRILQHLVPNGTKVDISTMLEEAVQYVKFLQLQIKLLSSDDLW 305

Arabidopsis thaliana (taxid: 3702)

>sp|Q84WK0|BH085_ARATH Transcription factor bHLH85 OS=Arabidopsis thaliana GN=BHLH85 PE=2 SV=1

 Score =  100 bits (248), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 41/60 (68%), Positives = 54/60 (90%)

Query: 200 DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
           DPQS+ A+ RRERI+ERL+ILQ LVPNG+KVD+ TMLE+A+ YVKFLQLQ+K+L++D+ W
Sbjct: 275 DPQSLYARKRRERINERLRILQNLVPNGTKVDISTMLEEAVHYVKFLQLQIKLLSSDDLW 334

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LEG1|BH054_ARATH Transcription factor bHLH54 OS=Arabidopsis thaliana GN=BHLH54 PE=2 SV=1

 Score = 95.9 bits (237), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 41/66 (62%), Positives = 54/66 (81%)

Query: 194 TSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVL 253
           T     DPQS+ A+ RRE+I+ERLK LQ LVPNG+KVD+ TMLE+A+ YVKFLQLQ+K+L
Sbjct: 170 TKGTATDPQSLYARKRREKINERLKTLQNLVPNGTKVDISTMLEEAVHYVKFLQLQIKLL 229

Query: 254 ATDEFW 259
           ++D+ W
Sbjct: 230 SSDDLW 235

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E7L7|BH139_ARATH Transcription factor bHLH139 OS=Arabidopsis thaliana GN=BHLH139 PE=4 SV=1

 Score = 93.2 bits (230), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 39/60 (65%), Positives = 52/60 (86%)

Query: 200 DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
           DPQS+ A+ RRERI++RLK LQ LVPNG+KVD+ TMLE A+ YVKFLQLQ+K+L++++ W
Sbjct: 141 DPQSLYARKRRERINDRLKTLQSLVPNGTKVDISTMLEDAVHYVKFLQLQIKLLSSEDLW 200

Arabidopsis thaliana (taxid: 3702)

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

 Score = 89.4 bits (220), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 50/105 (47%), Positives = 62/105 (59%), Gaps = 17/105 (16%)

Query: 184 ATKKTNNKQKTSAPPK-------------DPQSIAAKNRRERISERLKILQELVPNGSKV 230
           A+  T      +APP+             DP SIA + RRERI+ER+K LQELVPNG+K 
Sbjct: 118 ASASTATGGTVAAPPQSRTKIRARRGQATDPHSIAERLRRERIAERMKALQELVPNGNKT 177

Query: 231 DLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREA 275
           D  +ML++ I YVKFLQLQVKVL+        GG A   SQ+ EA
Sbjct: 178 DKASMLDEIIDYVKFLQLQVKVLSMSRL----GGAASVSSQISEA 218

Arabidopsis thaliana (taxid: 3702)

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

 Score = 87.4 bits (215), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 51/104 (49%), Positives = 61/104 (58%), Gaps = 7/104 (6%)

Query: 174 QAVKKQCAIAATKKTNNKQKTSA---PPKDPQSIAAKNRRERISERLKILQELVPNGSKV 230
           QA        AT +   K K  A      DP SIA + RRERI+ER+K LQELVPNG+K 
Sbjct: 110 QATASATTGGATAQPQTKPKVRARRGQATDPHSIAERLRRERIAERMKSLQELVPNGNKT 169

Query: 231 DLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVRE 274
           D  +ML++ I YVKFLQLQVKVL+        GG A   SQ+ E
Sbjct: 170 DKASMLDEIIDYVKFLQLQVKVLSMSRL----GGAASASSQISE 209

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M041|BH140_ARATH Transcription factor bHLH140 OS=Arabidopsis thaliana GN=BHLH140 PE=4 SV=1

 Score = 80.5 bits (197), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/66 (56%), Positives = 50/66 (75%)

Query: 185 TKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVK 244
           T  T   + TS    DPQS+AA++RR RIS+R KILQ +VP G+K+D V+ML++AISYVK
Sbjct: 31  TGNTKRSRSTSTLSTDPQSVAARDRRHRISDRFKILQSMVPGGAKMDTVSMLDEAISYVK 90

Query: 245 FLQLQV 250
           FL+ Q+
Sbjct: 91  FLKAQI 96

Arabidopsis thaliana (taxid: 3702)

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

 Score = 79.3 bits (194), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 43/97 (44%), Positives = 59/97 (60%), Gaps = 6/97 (6%)

Query: 167 PNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPK-----DPQSIAAKNRRERISERLKILQ 221
           P  G S + ++ Q  ++ T     +QK     +     DP SIA + RRERI+ER+K LQ
Sbjct: 71  PTMG-SQEGLQPQGTVSTTSAPVVRQKPRVRARRGQATDPHSIAERLRRERIAERMKSLQ 129

Query: 222 ELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEF 258
           ELVPN +K D  +ML++ I YV+FLQLQVKVL+    
Sbjct: 130 ELVPNTNKTDKASMLDEIIEYVRFLQLQVKVLSMSRL 166

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	291
255583421	327	DNA binding protein, putative [Ricinus c	0.972	0.865	0.583	1e-83
224069350	330	predicted protein [Populus trichocarpa]	0.982	0.866	0.561	3e-81
225453146	347	PREDICTED: putative transcription factor	0.773	0.648	0.646	2e-78
224077304	334	predicted protein [Populus trichocarpa]	0.972	0.847	0.541	2e-77
356569373	339	PREDICTED: putative transcription factor	0.859	0.737	0.534	2e-66
356499097	295	PREDICTED: putative transcription factor	0.831	0.820	0.518	2e-61
356537912	339	PREDICTED: putative transcription factor	0.824	0.707	0.512	1e-60
449445206	284	PREDICTED: putative transcription factor	0.793	0.813	0.512	7e-52
15240346	307	putative transcription factor bHLH086 [A	0.790	0.749	0.464	4e-50
297801316	300	basic helix-loop-helix family protein [A	0.742	0.72	0.495	2e-49

>gi|255583421|ref|XP_002532470.1| DNA binding protein, putative [Ricinus communis] gi|223527828|gb|EEF29926.1| DNA binding protein, putative [Ricinus communis]

 Score =  315 bits (807), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 193/331 (58%), Positives = 227/331 (68%), Gaps = 48/331 (14%)

Query: 1   MALAR------ETCAFKENVYGDLSSPGSKKAPG---FVKSIGISNTSSPS--------- 42
           MALA+      +TCA+  N+ GDLSS       G    V   G SN  + +         
Sbjct: 1   MALAKDRIGSVQTCAYNGNLMGDLSSLDPYTFDGKHKLVPEEGESNIKNLAMSHSYSSSL 60

Query: 43  ----SANSNGYEFHNA----EEARDSLINFKSGHDHFMHANASNLLSFEQNETKD----- 89
               SANSN + FH+A     E   SLINF+ G+D F+H N S LLSFEQN         
Sbjct: 61  GSPSSANSNEFLFHSARHQAHEGAHSLINFRGGYDGFLHGNGS-LLSFEQNNKVSSQTSS 119

Query: 90  ---DEYSMWEGNFN------QINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDW 140
              ++YS WE +FN      Q+N K S+D RL+E+ NCF TASN+   I+NS ++  GDW
Sbjct: 120 GLKEDYSTWEVDFNCNYQWNQMNPKSSADPRLVENINCFHTASNFN-SIDNSEKEDPGDW 178

Query: 141 LYTEATAVTD-TILESGSQDASSSLKRPNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPK 199
           LY+E T +TD +I E G+QDA+   KRP+ G+S QAVKKQC  +ATKK   K KTS P K
Sbjct: 179 LYSEGTIITDHSIQEPGTQDANFH-KRPHMGESTQAVKKQCN-SATKK--QKPKTS-PSK 233

Query: 200 DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
           DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW
Sbjct: 234 DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 293

Query: 260 PVQGGKAPDISQVREAIDAILSSQRDRSSSS 290
           PVQGGKAPD+SQV+EAIDAILSSQ+DR+SSS
Sbjct: 294 PVQGGKAPDVSQVKEAIDAILSSQKDRNSSS 324

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224069350|ref|XP_002302962.1| predicted protein [Populus trichocarpa] gi|222844688|gb|EEE82235.1| predicted protein [Populus trichocarpa]

 Score =  307 bits (787), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 186/331 (56%), Positives = 226/331 (68%), Gaps = 45/331 (13%)

Query: 1   MALAR------ETCAFKENVYGDLSSPG-------------SKKAPGFVKSIGISNTSSP 41
           MALA+      +TCA   NV GDLSS G              K +   +K++ +S +   
Sbjct: 1   MALAKDRMDSVQTCALYGNVMGDLSSLGPNYRFDEEGDRNFEKNSALMIKNLAMSPSPPS 60

Query: 42  SS----ANSNGYEFH---NAEEARDSLINFK-SGHDHFMHANASNLLSFEQN------ET 87
                 ANS    F    N  E   SLINFK +G D  MHAN S L+SFEQ+       +
Sbjct: 61  LGSPSSANSGELVFQATDNQVEEAHSLINFKGTGFDSIMHANGS-LISFEQSNRVSQTSS 119

Query: 88  KDDEYSMWEGN------FNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSARDCHGDWL 141
             D+YS WEGN      +NQIN K +++ RLMED NC+ +ASN+  + N++ ++ HGDWL
Sbjct: 120 HKDDYSAWEGNLSCNYQWNQINPKCNANPRLMEDLNCYQSASNFNSITNSAEKENHGDWL 179

Query: 142 YT-EATAVTDTILESGSQDASSSLKRPNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPKD 200
           YT E+T VTD+I +S + DASS  KRPN G+SMQA+KKQ   +ATKK   K K++ P KD
Sbjct: 180 YTHESTIVTDSIPDSATPDASSFHKRPNMGESMQALKKQ-RDSATKKP--KPKSAGPAKD 236

Query: 201 PQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWP 260
           PQSIAAKNRRERISERLK+LQ+LVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWP
Sbjct: 237 PQSIAAKNRRERISERLKMLQDLVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWP 296

Query: 261 VQGGKAPDISQVREAIDAILSSQ-RDRSSSS 290
           VQGGKAPDISQV+ AIDA LSSQ +DR+S+S
Sbjct: 297 VQGGKAPDISQVKGAIDATLSSQTKDRNSNS 327

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453146|ref|XP_002272414.1| PREDICTED: putative transcription factor bHLH086 [Vitis vinifera] gi|296087164|emb|CBI33538.3| unnamed protein product [Vitis vinifera]

 Score =  298 bits (763), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 163/252 (64%), Positives = 197/252 (78%), Gaps = 27/252 (10%)

Query: 60  SLINFKSGHDHFMHANASNLLSFEQNE----------TKDDEYSMWEGNFN-----QINQ 104
           S+I FK+ +++FMH N+ +LLSFEQNE            +D+YS WE N N     Q+N 
Sbjct: 103 SVITFKTRYENFMH-NSGSLLSFEQNERGSQVTYTKVCHEDDYSNWEDNLNYDYQNQLNP 161

Query: 105 KYSSDHRLMEDFNCFDTASNYGFMINNSARD-CHGD----WLYTEATAVTDTILESGSQD 159
           K +S+ RL+EDFNCF  AS+YG M  N+ ++  HG+    W+YTEATAVTD+I ES +++
Sbjct: 162 KLNSNPRLLEDFNCF-PASSYGSMSGNTPKENQHGEESFGWIYTEATAVTDSIQESATKE 220

Query: 160 ASSSLKRPNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKI 219
            S   KRP+ G++MQA+K+QC  AAT+K+  K   S PPKDPQS+AAKNRRERISERLKI
Sbjct: 221 -SCFHKRPHMGETMQALKRQCT-AATRKSKPK---SIPPKDPQSLAAKNRRERISERLKI 275

Query: 220 LQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAI 279
           LQ+LVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQV+EAIDAI
Sbjct: 276 LQDLVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVKEAIDAI 335

Query: 280 LSSQRDRSSSSK 291
           LSSQRD +SSSK
Sbjct: 336 LSSQRDTNSSSK 347

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077304|ref|XP_002305203.1| predicted protein [Populus trichocarpa] gi|222848167|gb|EEE85714.1| predicted protein [Populus trichocarpa]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 183/338 (54%), Positives = 223/338 (65%), Gaps = 55/338 (16%)

Query: 1   MALAR------ETCAFKENVYGDLSSPGS-------------------KKAPGF-VKSIG 34
           MALA+      +TC +  NV GD SS GS                   +K  G  +K++ 
Sbjct: 1   MALAKDRMGSVQTCPYNGNVMGDFSSMGSYGFDEYQKVAFYEEGNSTFEKTSGLMIKNLA 60

Query: 35  ISNTSSPSS----ANSNGYEF----HNAEEARDSLINFKS-GHDHFMHANASNLLSFEQN 85
           ++++ S       A S    F    H AEEA  SLI+FK  G D+ MH N S LLSFEQ+
Sbjct: 61  MTSSPSSLGSPSSAISGELVFQATDHQAEEAH-SLISFKGIGFDNIMHNNGS-LLSFEQS 118

Query: 86  E------TKDDEYSMWEGN------FNQINQKYSSDHRLMEDFNCFDTASNYGFMINNSA 133
                  ++ D+YS WEGN      +N++N K ++  RLMEDFNCF  A N+   I+ + 
Sbjct: 119 SRVSQTSSQKDDYSAWEGNLSYNYQWNEMNPKCNTSPRLMEDFNCFQRAGNF---ISMTG 175

Query: 134 RDCHGDWLYTEATAVTDTILESGSQDASSSLKRPNTGDSMQAVKKQCAIAATKKTNNKQK 193
           ++ HGDWLY E+T V D+I +S + DASS  KRPN G+SMQA+KKQC   ATKK   K  
Sbjct: 176 KENHGDWLYAESTIVADSIQDSATPDASSFHKRPNMGESMQALKKQCN-NATKKPKPK-S 233

Query: 194 TSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVL 253
            + P KD QSIAAKNRRERISERLK+LQ+LVPNGSKVDLVTMLEKAISYVKFLQLQVKVL
Sbjct: 234 AAGPAKDLQSIAAKNRRERISERLKVLQDLVPNGSKVDLVTMLEKAISYVKFLQLQVKVL 293

Query: 254 ATDEFWPVQGGKAPDISQVREAIDAILSSQ-RDRSSSS 290
           ATDE WPVQGGKAPDISQV+EAIDA+LSSQ +D +SSS
Sbjct: 294 ATDELWPVQGGKAPDISQVKEAIDALLSSQTKDGNSSS 331

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356569373|ref|XP_003552876.1| PREDICTED: putative transcription factor bHLH086-like [Glycine max]

 Score =  258 bits (660), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 155/290 (53%), Positives = 196/290 (67%), Gaps = 40/290 (13%)

Query: 34  GISNTSS-----PSSANSNGYEF----HNAEEARDSLINFKSGHDHFMHANASNLLSFEQ 84
           G+SN S+     P   +   Y +    +  EEA  SLI+FK G+ + + A+ S LLSF+Q
Sbjct: 58  GLSNDSAVTRSPPLCGSRKDYAYKGTNYQLEEAV-SLIDFK-GYSNILQASGS-LLSFQQ 114

Query: 85  NET-------KDD---EYSMWEGN-------FNQINQKYSSDHRLMEDFNCFDTASNYGF 127
           N+        KD+   EY +WE N       +NQ + + + D RL+E+ NCF T+S Y  
Sbjct: 115 NKMVPLNCYLKDNGQKEYCVWENNLHQGHNHWNQTSPRSTRDMRLVENLNCFQTSSGYSP 174

Query: 128 MINNSARDCHGD----WLYTEATAVTD--TILESGSQDASSSLKRPNTGDSMQAVKKQCA 181
           ++NN+    HG     WLY+  T   D  ++ +SG+Q+ S   KRP+ G++M+A KKQC+
Sbjct: 175 IVNNAKEKQHGQSSSGWLYSAPTIPNDISSLHKSGAQE-SVLQKRPSMGENMKAAKKQCS 233

Query: 182 IAATKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAIS 241
              T+    K K+S P KDPQS+AAKNRRERISERLKILQELVPNGSKVDLVTMLEKAIS
Sbjct: 234 ---TESKTPKHKSS-PSKDPQSVAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAIS 289

Query: 242 YVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAILSSQRDRSSSSK 291
           YVKFLQLQVKVLATDEFWPVQGGK P+ISQV+E ID ILSSQR+RSS SK
Sbjct: 290 YVKFLQLQVKVLATDEFWPVQGGKPPEISQVKEVIDVILSSQRERSSCSK 339

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499097|ref|XP_003518380.1| PREDICTED: putative transcription factor bHLH086-like [Glycine max]

 Score =  241 bits (616), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 143/276 (51%), Positives = 184/276 (66%), Gaps = 34/276 (12%)

Query: 34  GISNTSS-------PSSANSNGY----EFHNAEEARDSLINFKSGHDHFMHANASNLLSF 82
           G+SN S+       P  +NSN Y      H   E  +SLINFK+   + +   + + LS 
Sbjct: 29  GLSNDSASAITHSPPLCSNSNEYVHNKSTHYQLEEAESLINFKANEYNTLIQGSESFLSV 88

Query: 83  EQNETKDDEYSMWEGNFNQINQ----KYSSDHRLMEDFNCFDTASNYGFMINNSARDCHG 138
           +++     E ++ EG +NQ N     K ++D RL+++F+CF+T+++Y  + N +    HG
Sbjct: 89  QKSWLFPKESNLHEG-YNQWNHAISPKSTTDMRLVQNFSCFETSADYSSIFNGAKEKQHG 147

Query: 139 D-----WLYTEATAVTDTILESGSQDASSSLKRPNTGDSMQAV--KKQC---AIAATKKT 188
           +     WLY+E    +D++LES +Q+   + KR + G++MQA   KK C   + AA  K 
Sbjct: 148 ESSSSGWLYSEPNVPSDSLLESAAQELVLT-KRSSMGENMQATNAKKPCTSASKAAKPKL 206

Query: 189 NNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQL 248
           N       P KDPQS+AAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQL
Sbjct: 207 N-------PFKDPQSVAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQL 259

Query: 249 QVKVLATDEFWPVQGGKAPDISQVREAIDAILSSQR 284
           QVKVLA DEFWPVQGGKAPDISQVR+AIDAILSSQR
Sbjct: 260 QVKVLAADEFWPVQGGKAPDISQVRQAIDAILSSQR 295

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356537912|ref|XP_003537450.1| PREDICTED: putative transcription factor bHLH086-like [Glycine max]

 Score =  239 bits (610), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 142/277 (51%), Positives = 171/277 (61%), Gaps = 37/277 (13%)

Query: 34  GISNTSS-----PSSANSNGYEF----HNAEEARDSLINFKSGHDHFMHANASNLLSFEQ 84
           G+SN S+     P   +  GY +    +  EEA + LINFK G+ + M    S LLSF+Q
Sbjct: 59  GLSNDSAITHSPPLCGSVKGYAYKGTNYQLEEA-EPLINFK-GYSNLMQGGGS-LLSFQQ 115

Query: 85  N----------ETKDDEYSMWEGN-------FNQINQKYSSDHRLMEDFNCFDTASNYGF 127
           N          E    E  +WE N       +NQ + + + D RL+E+ NCF T+S Y  
Sbjct: 116 NKMVPNNCYMKENGQKEVCVWENNLHQGRDHWNQTSPRNTRDMRLVENANCFQTSSGYIS 175

Query: 128 MINNSARDCHGD----WLYTEATAVTDTILESGSQDASSSLKRPNTGDSMQAVKKQCAIA 183
           ++NN+    HG      LY   T    + L       S   KRP  G+SM+A KKQC+I 
Sbjct: 176 IVNNAKEKQHGQSSSGLLYPAPTIPNASSLHKLGAQESVLQKRPFMGESMKAAKKQCSIE 235

Query: 184 ATKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYV 243
           +    +N    S+P KDPQS+AAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYV
Sbjct: 236 SKTTKHN----SSPSKDPQSVAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYV 291

Query: 244 KFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL 280
           KFLQLQVKVLATDEFWPVQGGK PDISQV+E ID IL
Sbjct: 292 KFLQLQVKVLATDEFWPVQGGKPPDISQVKEVIDTIL 328

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445206|ref|XP_004140364.1| PREDICTED: putative transcription factor bHLH086-like [Cucumis sativus]

 Score =  210 bits (534), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 144/281 (51%), Positives = 175/281 (62%), Gaps = 50/281 (17%)

Query: 24  KKAPGFVKSIGISNTSSPSSANSN-----GYEFHNAEEARDSLINFKSGHDHFMHANASN 78
           K   G++KS+ I       + N +        +   ++ + SLINF  GH      N  +
Sbjct: 16  KNGGGYLKSLAIGKGHDHQNPNGDFVFRDTTNYQLGQQQQQSLINF--GHK----MNNES 69

Query: 79  LLSFEQNETKDDEYSMWEGNFNQINQKYSSD--HRLMEDFNCFDTASNYGFMINN--SAR 134
           LLSFE                 Q++  Y+ D   R+MED NCF TA+N+    NN   ++
Sbjct: 70  LLSFEAQ------------GICQLDLTYNWDDQQRVMEDPNCFQTATNH----NNYSPSK 113

Query: 135 DCH-----GD------WLYTEATA-VTDTILES-GSQDASSSLKRPNT-GDSMQAV-KKQ 179
           D H     GD      WLY+E+T   +D+I E+ G+Q+   + KR +T G+S  +V KKQ
Sbjct: 114 DHHHHNKNGDNGSVYEWLYSESTTDFSDSIQEAEGTQEIVPNHKRSHTTGESSGSVCKKQ 173

Query: 180 CAIAATKKTNNKQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKA 239
           C  AA KK   K   SA  KDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKA
Sbjct: 174 CT-AAPKKQKPK---SATAKDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKA 229

Query: 240 ISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL 280
           ISYVKFLQLQVK+LATDEFWPVQGGKAPDISQV+EAID IL
Sbjct: 230 ISYVKFLQLQVKILATDEFWPVQGGKAPDISQVKEAIDVIL 270

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15240346|ref|NP_198596.1| putative transcription factor bHLH086 [Arabidopsis thaliana] gi|218563533|sp|Q9FJ00.2|BH086_ARATH RecName: Full=Putative transcription factor bHLH086; AltName: Full=Basic helix-loop-helix protein 86; Short=AtbHLH86; Short=bHLH 86; AltName: Full=Transcription factor EN 113; AltName: Full=bHLH transcription factor bHLH086 gi|332006851|gb|AED94234.1| putative transcription factor bHLH086 [Arabidopsis thaliana]

 Score =  204 bits (519), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 124/267 (46%), Positives = 165/267 (61%), Gaps = 37/267 (13%)

Query: 45  NSNGYEFHNAEEARDSLINFKSGHDHFMHANASNLLSFEQNE------TKDDEYSMWEGN 98
           N+ G+ F+ + E  +        H+  M  NAS+  +F+ +       T    + + +GN
Sbjct: 49  NNQGFVFYPSGETIED-------HNSLMDFNASSFFTFDNHRSLISPVTNGGAFPVVDGN 101

Query: 99  FNQINQKYSSDH------RLMEDFNCFDTASNYGFMINNSARDC----HGDWLYTEATAV 148
            +     +S         R+++  N F+T S++G   N+ ++      +GDWLY+ +T  
Sbjct: 102 MSYSYDGWSHHQVDSISPRVIKTPNSFETTSSFGLTSNSMSKPATNHGNGDWLYSGST-- 159

Query: 149 TDTILESGSQDASSSLK-----RPNTGDSMQAVKKQCAIAATKKTNNKQKTSAPPKDPQS 203
              I+  GS+  S+S K     RP TG++ Q  KK  +    K    K K +  PKDPQS
Sbjct: 160 ---IVNIGSRHESTSPKLAGNKRPFTGENTQLSKKPSSGTNGKI---KPKATTSPKDPQS 213

Query: 204 IAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQG 263
           +AAKNRRERISERLK+LQELVPNG+KVDLVTMLEKAI YVKFLQ+QVKVLA DEFWP QG
Sbjct: 214 LAAKNRRERISERLKVLQELVPNGTKVDLVTMLEKAIGYVKFLQVQVKVLAADEFWPAQG 273

Query: 264 GKAPDISQVREAIDAIL-SSQRDRSSS 289
           GKAPDISQV+EAIDAIL SSQRD +S+
Sbjct: 274 GKAPDISQVKEAIDAILSSSQRDSNST 300

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297801316|ref|XP_002868542.1| basic helix-loop-helix family protein [Arabidopsis lyrata subsp. lyrata] gi|297314378|gb|EFH44801.1| basic helix-loop-helix family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  202 bits (513), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 119/240 (49%), Positives = 151/240 (62%), Gaps = 24/240 (10%)

Query: 68  HDHFMHANASNLLSFEQNE------TKDDEYSMWEGNFN------QINQKYSSDHRLMED 115
           H+  M  NAS+  SF+ +       T    +S+ E N +        +Q  S   R+++ 
Sbjct: 65  HNSLMDFNASSFFSFDYHRSFISPVTNGGAFSVLEENMSYGYTGWSHHQMDSISPRVIKT 124

Query: 116 FNCFDTASNYGFMINNSARDC----HGDWLYTEATAVTDTILESGSQDASSSLKRPNTGD 171
            N F+T S++    N+  +      +GDWLY+++T V   +    +    +  KRP TGD
Sbjct: 125 SNSFETTSSFELTSNSRCKPATNHGNGDWLYSDSTIVNTGLRHESASPKLAGNKRPFTGD 184

Query: 172 SMQAVKKQCAIAATKKTNN--KQKTSAPPKDPQSIAAKNRRERISERLKILQELVPNGSK 229
           +    KK      +  TN   K K +  PKDPQS+AAKNRRERISERLK+LQELVPNG+K
Sbjct: 185 NTHLSKK-----PSSGTNGEAKPKATTSPKDPQSLAAKNRRERISERLKVLQELVPNGTK 239

Query: 230 VDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAILSS-QRDRSS 288
           VDLVTMLEKAI YVKFLQ+QVKVLA DEFWP QGGKAPDISQV+EAIDAILSS QRD +S
Sbjct: 240 VDLVTMLEKAIGYVKFLQVQVKVLAADEFWPAQGGKAPDISQVKEAIDAILSSTQRDSNS 299

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	291
TAIR|locus:2156015	307	RSL1 "AT5G37800" [Arabidopsis	0.721	0.684	0.475	1.9e-44
TAIR|locus:2028957	298	RHD6 "AT1G66470" [Arabidopsis	0.762	0.744	0.465	3.1e-44
UNIPROTKB|Q6ZFY4	298	OJ1311_H06.19 "BHLH protein-li	0.402	0.392	0.716	8.9e-38
UNIPROTKB|Q9ASJ3	294	P0439B06.24 "Putative uncharac	0.491	0.486	0.550	2e-33
UNIPROTKB|Q651K2	294	B1089G05.30 "BHLH protein-like	0.281	0.278	0.670	6.6e-26
TAIR|locus:2199221	258	RSL4 "AT1G27740" [Arabidopsis	0.690	0.779	0.323	3.1e-19
UNIPROTKB|Q2QMV9	304	LOC_Os12g39850 "Helix-loop-hel	0.350	0.335	0.461	4e-19
UNIPROTKB|Q6AV35	310	OSJNBa0063J18.7 "Putative tran	0.206	0.193	0.716	4e-19
UNIPROTKB|Q2R0R9	246	LOC_Os11g41640 "Helix-loop-hel	0.209	0.247	0.688	8.3e-19
TAIR|locus:2118934	352	RSL2 "AT4G33880" [Arabidopsis	0.206	0.170	0.683	1.5e-18

TAIR|locus:2156015 RSL1 "AT5G37800" [Arabidopsis thaliana (taxid:3702)]

 Score = 468 (169.8 bits), Expect = 1.9e-44, P = 1.9e-44
 Identities = 109/229 (47%), Positives = 142/229 (62%)

Query:    68 HDHFMHANASNLLSFEQNE------TKDDEYSMWEGNFNQI------NQKYSSDHRLMED 115
             H+  M  NAS+  +F+ +       T    + + +GN +        +Q  S   R+++ 
Sbjct:    65 HNSLMDFNASSFFTFDNHRSLISPVTNGGAFPVVDGNMSYSYDGWSHHQVDSISPRVIKT 124

Query:   116 FNCFDTASNYGFMINNSARDC--HG--DWLYTEATAVTDTILESGSQDASSSLKRPNTGD 171
              N F+T S++G   N+ ++    HG  DWLY+ +T V        +    +  KRP TG+
Sbjct:   125 PNSFETTSSFGLTSNSMSKPATNHGNGDWLYSGSTIVNIGSRHESTSPKLAGNKRPFTGE 184

Query:   172 SMQAVKKQCAIAAXXXXXXXXXXSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKVD 231
             + Q  KK    ++          +  PKDPQS+AAKNRRERISERLK+LQELVPNG+KVD
Sbjct:   185 NTQLSKKP---SSGTNGKIKPKATTSPKDPQSLAAKNRRERISERLKVLQELVPNGTKVD 241

Query:   232 LVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL 280
             LVTMLEKAI YVKFLQ+QVKVLA DEFWP QGGKAPDISQV+EAIDAIL
Sbjct:   242 LVTMLEKAIGYVKFLQVQVKVLAADEFWPAQGGKAPDISQVKEAIDAIL 290

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:2028957 RHD6 "AT1G66470" [Arabidopsis thaliana (taxid:3702)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 107/230 (46%), Positives = 138/230 (60%)

Query:    56 EARDSLINFKSGHDH---FMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRL 112
             +     + + SG DH    M  N S+ L+F+ +E+         G+       +   + +
Sbjct:    58 QQHQGFVFYPSGEDHHNSLMDFNGSSFLNFDHHESFPPPAISCGGSSGGGGFSFLEGNNM 117

Query:   113 MEDFNCFDTASNYGFMINNSARDCHG--DWLYTEATAVTDTILESGSQDASSSLKRPNTG 170
                F  ++   +   +   S     G  DWLY+++T VT           S+  KR +TG
Sbjct:   118 SYGFTNWNHQHHMDIISPRSTETPQGQKDWLYSDSTVVTTGSRNESLSPKSAGNKRSHTG 177

Query:   171 DSMQAVKKQCAIAAXXXXXXXXXXSAPPKDPQSIAAKNRRERISERLKILQELVPNGSKV 230
             +S Q  KK   +++          +  PKDPQS+AAKNRRERISERLKILQELVPNG+KV
Sbjct:   178 ESTQPSKK---LSSGVTGKTKPKPTTSPKDPQSLAAKNRRERISERLKILQELVPNGTKV 234

Query:   231 DLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL 280
             DLVTMLEKAISYVKFLQ+QVKVLATDEFWP QGGKAPDISQV++AIDAIL
Sbjct:   235 DLVTMLEKAISYVKFLQVQVKVLATDEFWPAQGGKAPDISQVKDAIDAIL 284

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

GO:0048766 "root hair initiation" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|Q6ZFY4 OJ1311_H06.19 "BHLH protein-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 405 (147.6 bits), Expect = 8.9e-38, P = 8.9e-38
 Identities = 86/120 (71%), Positives = 94/120 (78%)

Query:   163 SLKRPNTGDS--MQAVKKQCAIAAXXXXXXXXXXSAPPKDPQSIAAKNRRERISERLKIL 220
             S KR +   S  M   KKQC  A           + P KDPQS+AAKNRRERISERL+IL
Sbjct:   168 SQKRAHAESSQAMSPSKKQCG-AGRKAGKAKSAPTTPTKDPQSLAAKNRRERISERLRIL 226

Query:   221 QELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL 280
             QELVPNG+KVDLVTMLEKAISYVKFLQLQVKVLATDEFWP QGGKAP+ISQV+EA+DAIL
Sbjct:   227 QELVPNGTKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPAQGGKAPEISQVKEALDAIL 286

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q9ASJ3 P0439B06.24 "Putative uncharacterized protein P0439B06.24" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 364 (133.2 bits), Expect = 2.0e-33, P = 2.0e-33
 Identities = 87/158 (55%), Positives = 108/158 (68%)

Query:   138 GDWLYTEATAVTDTILESGSQDAS-----SSLKRP-NTGDSMQAVKKQC--------AIA 183
             G  L +  ++V D  LE    + S     ++ KR   +G++  A KKQC        A +
Sbjct:   130 GFGLASPGSSVVDNGLEIHESNVSKPPPPAAKKRACPSGEARAAGKKQCRKGSKPNKAAS 189

Query:   184 AXXXXXXXXXXSAPPKD-PQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISY 242
             A           +P K+ PQS AAK RRERISERLK+LQ+LVPNG+KVDLVTMLEKAI+Y
Sbjct:   190 ASSPSPSPSPSPSPNKEQPQSAAAKVRRERISERLKVLQDLVPNGTKVDLVTMLEKAINY 249

Query:   243 VKFLQLQVKVLATDEFWPVQGGKAPDISQVREAIDAIL 280
             VKFLQLQVKVLATDEFWP QGGKAP++SQV++A+DAIL
Sbjct:   250 VKFLQLQVKVLATDEFWPAQGGKAPELSQVKDALDAIL 287

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q651K2 B1089G05.30 "BHLH protein-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 293 (108.2 bits), Expect = 6.6e-26, P = 6.6e-26
 Identities = 55/82 (67%), Positives = 71/82 (86%)

Query:   199 KDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEF 258
             K+ QS AAK+RRERISERL+ LQELVP+G KVD+VTML++AISYVKF+Q+Q++VL TD F
Sbjct:   197 KETQSSAAKSRRERISERLRALQELVPSGGKVDMVTMLDRAISYVKFMQMQLRVLETDAF 256

Query:   259 WPVQGGKAPDISQVREAIDAIL 280
             WP   G  PDIS+V++A+DAI+
Sbjct:   257 WPASDGATPDISRVKDALDAII 278

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2199221 RSL4 "AT1G27740" [Arabidopsis thaliana (taxid:3702)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 69/213 (32%), Positives = 107/213 (50%)

Query:    55 EEARDSLINFKS---GHDHFMHANASNLLSFEQNE-TKDDEY---SMWEGNFNQINQKYS 107
             E  RD L+   S   GH H  H + +N+LS + +     D +   +M  GN   +   + 
Sbjct:    27 ERPRDELLGLSSLYNGHLH-QHQHHNNVLSSDHHAFLLPDMFPFGAMPGGNLPAMLDSWD 85

Query:   108 SDHRLMEDFNCFDTASNYGFMIN-NSARDCHGDWLYTEATAVTDTILESGSQDASSSLKR 166
               H L E  +      +   +   NS  D     L  ++        ES + D S++   
Sbjct:    86 QSHHLQETSSLKRKLLDVENLCKTNSNCDVTRQEL-AKSKKKQRVSSESNTVDESNTNWV 144

Query:   167 PNTGDSMQAVKKQCAIAAXXXXXXXXXXSAPPKDPQSIAAKNRRERISERLKILQELVPN 226
                  S  +  ++ ++ +          +A   DPQS+ A+ RRE+I+ERLK LQ LVPN
Sbjct:   145 DGQSLSNSSDDEKASVTSVKGKTRATKGTAT--DPQSLYARKRREKINERLKTLQNLVPN 202

Query:   227 GSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
             G+KVD+ TMLE+A+ YVKFLQLQ+K+L++D+ W
Sbjct:   203 GTKVDISTMLEEAVHYVKFLQLQIKLLSSDDLW 235

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0009733 "response to auxin stimulus" evidence=IEP

GO:0016049 "cell growth" evidence=IMP

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

GO:0048766 "root hair initiation" evidence=IMP

GO:0048765 "root hair cell differentiation" evidence=RCA

UNIPROTKB|Q2QMV9 LOC_Os12g39850 "Helix-loop-helix DNA-binding domain containing protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 48/104 (46%), Positives = 67/104 (64%)

Query:   158 QDASSSLKRPNTG--DSMQAVKKQCAIAAXXXXXXXXXXSAPPKDPQSIAAKNRRERISE 215
             +DAS ++   +    D+  +  ++ A A                DPQS+ A+ RRERI+E
Sbjct:   181 KDASVAIPNGSCSISDNDSSSSQEVADAGATSKGKSRAGRGAATDPQSLYARKRRERINE 240

Query:   216 RLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
             RLK LQ LVPNG+KVD+ TMLE+A+ YVKFLQLQ+K+L++DE W
Sbjct:   241 RLKTLQNLVPNGTKVDISTMLEEAVHYVKFLQLQIKLLSSDEMW 284

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q6AV35 OSJNBa0063J18.7 "Putative transcription factor" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 43/60 (71%), Positives = 54/60 (90%)

Query:   200 DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
             DPQS+ A+ RRERI+ERLKILQ LVPNG+KVD+ TMLE+A+ YVKFLQLQ+K+L++DE W
Sbjct:   230 DPQSLYARKRRERINERLKILQNLVPNGTKVDISTMLEEAMHYVKFLQLQIKLLSSDEMW 289

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q2R0R9 LOC_Os11g41640 "Helix-loop-helix DNA-binding domain containing protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 226 (84.6 bits), Expect = 8.3e-19, P = 8.3e-19
 Identities = 42/61 (68%), Positives = 55/61 (90%)

Query:   199 KDPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEF 258
             KD QS+ AK RRERI+ERL+ILQ+LVPNG+KVD+ TMLE+A+ YVKFLQLQ+K+L++D+ 
Sbjct:   163 KDTQSLYAKRRRERINERLRILQQLVPNGTKVDISTMLEEAVQYVKFLQLQIKLLSSDDT 222

Query:   259 W 259
             W
Sbjct:   223 W 223

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2118934 RSL2 "AT4G33880" [Arabidopsis thaliana (taxid:3702)]

 Score = 225 (84.3 bits), Expect = 1.5e-18, P = 1.5e-18
 Identities = 41/60 (68%), Positives = 54/60 (90%)

Query:   200 DPQSIAAKNRRERISERLKILQELVPNGSKVDLVTMLEKAISYVKFLQLQVKVLATDEFW 259
             DPQS+ A+ RRERI+ERL+ILQ LVPNG+KVD+ TMLE+A+ YVKFLQLQ+K+L++D+ W
Sbjct:   275 DPQSLYARKRRERINERLRILQNLVPNGTKVDISTMLEEAVHYVKFLQLQIKLLSSDDLW 334

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0009733 "response to auxin stimulus" evidence=IEP

GO:0016049 "cell growth" evidence=IMP

GO:0048766 "root hair initiation" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	291
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	2e-10
smart00353	53	smart00353, HLH, helix loop helix domain	2e-10
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	3e-08

>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 = 54.9 bits (133), Expect = 2e-10
 Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 3/56 (5%)

Query: 199 KDPQSIAAKNRRERISERLKILQELVPN---GSKVDLVTMLEKAISYVKFLQLQVK 251
           ++  ++  + RRERI++    L+ L+P      K+    +L KA+ Y+K LQ  ++
Sbjct: 5   REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60

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

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

 Score = 54.5 bits (132), Expect = 2e-10
 Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)

Query: 203 SIAAKNRRERISERLKILQELVP---NGSKVDLVTMLEKAISYVKFLQLQVK 251
           +   + RR +I+E    L+ L+P      K+    +L  AI Y+K LQ +++
Sbjct: 1   NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQ 52

Length = 53

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

 Score = 49.0 bits (118), Expect = 3e-08
 Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 2/43 (4%)

Query: 207 KNRRERISERLKILQELVPN--GSKVDLVTMLEKAISYVKFLQ 247
           + RR+RI++  + L+EL+P     K+    +L  AI Y+K LQ
Sbjct: 10  RRRRDRINDAFEELRELLPTPPNKKLSKAEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	291
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.37
smart00353	53	HLH helix loop helix domain.	99.33
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.25
KOG1318	411	consensus Helix loop helix transcription factor EB	99.02
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	98.54
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.35
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.19
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	97.96
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	97.72
KOG3960	284	consensus Myogenic helix-loop-helix transcription	97.25
KOG0561	373	consensus bHLH transcription factor [Transcription	97.22
PLN03217	93	transcription factor ATBS1; Provisional	96.91
KOG4029	228	consensus Transcription factor HAND2/Transcription	96.83
KOG3910	632	consensus Helix loop helix transcription factor [T	93.05
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	86.95
KOG3560	712	consensus Aryl-hydrocarbon receptor [Transcription	85.03
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	83.99

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

Probab=99.37  E-value=6.7e-13  Score=95.19  Aligned_cols=54  Identities=30%  Similarity=0.546  Sum_probs=50.1

Q ss_pred             CCCcCcHHHHHHHHHHHHHHHHHhccCCCC---CCCCHhHHHHHHHHHHHHHHHHHH
Q 038918          198 PKDPQSIAAKNRRERISERLKILQELVPNG---SKVDLVTMLEKAISYVKFLQLQVK  251 (291)
Q Consensus       198 ~~~~H~~aERrRRerIner~~~Lr~LVP~~---~K~DkASIL~eAI~YIK~LQ~qVq  251 (291)
                      .+..|+..||+||++||+.|..|+.|||..   .++||++||..||+||+.|+.+++
T Consensus         4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~   60 (60)
T cd00083           4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ   60 (60)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            356799999999999999999999999998   789999999999999999999863

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

>smart00353 HLH helix loop helix domain

Probab=99.33  E-value=4.3e-12  Score=89.57  Aligned_cols=49  Identities=31%  Similarity=0.530  Sum_probs=45.6

Q ss_pred             cHHHHHHHHHHHHHHHHHhccCCC---CCCCCHhHHHHHHHHHHHHHHHHHH
Q 038918          203 SIAAKNRRERISERLKILQELVPN---GSKVDLVTMLEKAISYVKFLQLQVK  251 (291)
Q Consensus       203 ~~aERrRRerIner~~~Lr~LVP~---~~K~DkASIL~eAI~YIK~LQ~qVq  251 (291)
                      +..||+||++||+.|..|+.|||.   ..++||++||.+||+||+.|+.+++
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            468999999999999999999994   6689999999999999999999886

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

Probab=99.25  E-value=8.8e-12  Score=89.40  Aligned_cols=48  Identities=35%  Similarity=0.603  Sum_probs=45.1

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC-----CCCCHhHHHHHHHHHHHHHH
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG-----SKVDLVTMLEKAISYVKFLQ  247 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~-----~K~DkASIL~eAI~YIK~LQ  247 (291)
                      ..|+..||+||++||+.|..|+.|||..     .+++|++||..||+||+.||
T Consensus         3 ~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    3 QKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            4689999999999999999999999987     57899999999999999997

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

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

Probab=99.02  E-value=2.5e-10  Score=112.39  Aligned_cols=58  Identities=28%  Similarity=0.476  Sum_probs=51.8

Q ss_pred             CCCCCCCcCcHHHHHHHHHHHHHHHHHhccCCCCC----CCCHhHHHHHHHHHHHHHHHHHH
Q 038918          194 TSAPPKDPQSIAAKNRRERISERLKILQELVPNGS----KVDLVTMLEKAISYVKFLQLQVK  251 (291)
Q Consensus       194 k~~~~~~~H~~aERrRRerIner~~~Lr~LVP~~~----K~DkASIL~eAI~YIK~LQ~qVq  251 (291)
                      |.+++++.|+++|||||++||++|++|..|||.+.    +..|.+||..+++||++||+..+
T Consensus       229 rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q  290 (411)
T KOG1318|consen  229 RDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ  290 (411)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence            44456889999999999999999999999999884    44699999999999999999766

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=98.54  E-value=6.8e-08  Score=87.39  Aligned_cols=56  Identities=30%  Similarity=0.489  Sum_probs=48.5

Q ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCCC-------CCCCHhHHHHHHHHHHHHHHHHHHHHh
Q 038918          199 KDPQSIAAKNRRERISERLKILQELVPNG-------SKVDLVTMLEKAISYVKFLQLQVKVLA  254 (291)
Q Consensus       199 ~~~H~~aERrRRerIner~~~Lr~LVP~~-------~K~DkASIL~eAI~YIK~LQ~qVq~Le  254 (291)
                      +..|.-+||+||+.|+..+..|++|||.+       .|+.+|.||.++|+||.+|.++...-+
T Consensus        63 r~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe  125 (229)
T KOG1319|consen   63 RRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQE  125 (229)
T ss_pred             HHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45799999999999999999999999964       366799999999999999987655444

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

Probab=98.35  E-value=2.9e-07  Score=85.82  Aligned_cols=54  Identities=30%  Similarity=0.465  Sum_probs=46.6

Q ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCCC--------CCCCHhHHHHHHHHHHHHHHHHHHH
Q 038918          199 KDPQSIAAKNRRERISERLKILQELVPNG--------SKVDLVTMLEKAISYVKFLQLQVKV  252 (291)
Q Consensus       199 ~~~H~~aERrRRerIner~~~Lr~LVP~~--------~K~DkASIL~eAI~YIK~LQ~qVq~  252 (291)
                      +..|-+.||+||.|||+-|.+|++|||..        .|++||.||+-|++|++.||.+.+.
T Consensus        33 k~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~   94 (250)
T KOG4304|consen   33 KVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA   94 (250)
T ss_pred             hhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence            34566899999999999999999999953        5668999999999999999986543

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

Probab=98.19  E-value=1.6e-06  Score=91.85  Aligned_cols=51  Identities=27%  Similarity=0.503  Sum_probs=48.3

Q ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCCCC----CCCHhHHHHHHHHHHHHHHHH
Q 038918          199 KDPQSIAAKNRRERISERLKILQELVPNGS----KVDLVTMLEKAISYVKFLQLQ  249 (291)
Q Consensus       199 ~~~H~~aERrRRerIner~~~Lr~LVP~~~----K~DkASIL~eAI~YIK~LQ~q  249 (291)
                      +++|+.+|||||+++|..|.+|-+|||.+.    |+||-+||.+||.+||.++..
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            788999999999999999999999999865    999999999999999999885

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=97.96  E-value=4.2e-06  Score=89.44  Aligned_cols=58  Identities=29%  Similarity=0.431  Sum_probs=53.4

Q ss_pred             CCCCcCcHHHHHHHHHHHHHHHHHhccCCCCC-CCCHhHHHHHHHHHHHHHHHHHHHHh
Q 038918          197 PPKDPQSIAAKNRRERISERLKILQELVPNGS-KVDLVTMLEKAISYVKFLQLQVKVLA  254 (291)
Q Consensus       197 ~~~~~H~~aERrRRerIner~~~Lr~LVP~~~-K~DkASIL~eAI~YIK~LQ~qVq~Le  254 (291)
                      .++.+|+++|||.|.-||+||.+|+.|||+.. |+.|..+|..||+||++|+...+.+.
T Consensus       275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk  333 (953)
T KOG2588|consen  275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLK  333 (953)
T ss_pred             cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccc
Confidence            66899999999999999999999999999875 89999999999999999998766554

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

Probab=97.72  E-value=9e-05  Score=68.83  Aligned_cols=58  Identities=17%  Similarity=0.285  Sum_probs=49.2

Q ss_pred             CCCCcCcHHHHHHHHHHHHHHHHHhccCCCCCCC---CHhHHHHHHHHHHHHHHHHHHHHh
Q 038918          197 PPKDPQSIAAKNRRERISERLKILQELVPNGSKV---DLVTMLEKAISYVKFLQLQVKVLA  254 (291)
Q Consensus       197 ~~~~~H~~aERrRRerIner~~~Lr~LVP~~~K~---DkASIL~eAI~YIK~LQ~qVq~Le  254 (291)
                      ..+..|+..||+||..|.+.|..|+.+||.+...   +.++||+.|+.||+.|+.+....+
T Consensus        58 ~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~  118 (232)
T KOG2483|consen   58 SSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQ  118 (232)
T ss_pred             cchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHH
Confidence            4567899999999999999999999999976532   369999999999999988665544

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

Probab=97.25  E-value=0.00078  Score=63.65  Aligned_cols=58  Identities=21%  Similarity=0.369  Sum_probs=49.5

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhc-cCCCCC-CCCHhHHHHHHHHHHHHHHHHHHHHhcCC
Q 038918          200 DPQSIAAKNRRERISERLKILQE-LVPNGS-KVDLVTMLEKAISYVKFLQLQVKVLATDE  257 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~-LVP~~~-K~DkASIL~eAI~YIK~LQ~qVq~Les~~  257 (291)
                      ..-.+.||||=.|+||-|.+|++ -+++.+ .+-|+-||.-||+||..||.-++.+...+
T Consensus       120 KAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~  179 (284)
T KOG3960|consen  120 KAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAE  179 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            34567899999999999999976 566655 67899999999999999999999988654

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.22  E-value=0.00053  Score=66.30  Aligned_cols=52  Identities=21%  Similarity=0.409  Sum_probs=45.6

Q ss_pred             CcHHHHHHHHHHHHHHHHHhccCCC--CCCCCHhHHHHHHHHHHHHHHHHHHHH
Q 038918          202 QSIAAKNRRERISERLKILQELVPN--GSKVDLVTMLEKAISYVKFLQLQVKVL  253 (291)
Q Consensus       202 H~~aERrRRerIner~~~Lr~LVP~--~~K~DkASIL~eAI~YIK~LQ~qVq~L  253 (291)
                      -+..||||=.-||-.|..||.|+|.  ++|+.||.||..+.+||..|+.+-..|
T Consensus        64 ANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~l  117 (373)
T KOG0561|consen   64 ANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTEL  117 (373)
T ss_pred             hcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhccccc
Confidence            3457999999999999999999996  679999999999999999998754443

>PLN03217 transcription factor ATBS1; Provisional

Probab=96.91  E-value=0.0021  Score=52.06  Aligned_cols=47  Identities=26%  Similarity=0.477  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHhccCCC------CCCCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          210 RERISERLKILQELVPN------GSKVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       210 RerIner~~~Lr~LVP~------~~K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      -+.|++-+..||.|+|.      ..+...+-+|.||..||+.|+.+|..|...
T Consensus        19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSer   71 (93)
T PLN03217         19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSER   71 (93)
T ss_pred             HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46799999999999995      346678999999999999999999999753

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

Probab=96.83  E-value=0.0011  Score=60.42  Aligned_cols=60  Identities=18%  Similarity=0.369  Sum_probs=50.6

Q ss_pred             CCCCcCcHHHHHHHHHHHHHHHHHhccCCC----CCCCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          197 PPKDPQSIAAKNRRERISERLKILQELVPN----GSKVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       197 ~~~~~H~~aERrRRerIner~~~Lr~LVP~----~~K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      ..+..++..||.|=+-+|..|..||.+||.    ..|..|..+|..||.||++|+.-++.-...
T Consensus       108 ~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~  171 (228)
T KOG4029|consen  108 AQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAP  171 (228)
T ss_pred             hhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccC
Confidence            344456677999999999999999999995    457799999999999999999887766644

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=93.05  E-value=0.049  Score=56.01  Aligned_cols=56  Identities=20%  Similarity=0.210  Sum_probs=45.2

Q ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCC---CC-CCCHhHHHHHHHHHHHHHHHHHHHHh
Q 038918          199 KDPQSIAAKNRRERISERLKILQELVPN---GS-KVDLVTMLEKAISYVKFLQLQVKVLA  254 (291)
Q Consensus       199 ~~~H~~aERrRRerIner~~~Lr~LVP~---~~-K~DkASIL~eAI~YIK~LQ~qVq~Le  254 (291)
                      +...++.||-|=..|||-|++|.++.--   .+ .+.|--||..||.-|..|++||++-.
T Consensus       527 R~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN  586 (632)
T KOG3910|consen  527 RMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN  586 (632)
T ss_pred             HhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence            4456677888878899999999988653   22 34689999999999999999998643

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=86.95  E-value=0.33  Score=43.39  Aligned_cols=49  Identities=20%  Similarity=0.459  Sum_probs=44.3

Q ss_pred             cCcHHHHHHHHHHHHHHHHHhccCCC--CCCCCHhHHHHHHHHHHHHHHHH
Q 038918          201 PQSIAAKNRRERISERLKILQELVPN--GSKVDLVTMLEKAISYVKFLQLQ  249 (291)
Q Consensus       201 ~H~~aERrRRerIner~~~Lr~LVP~--~~K~DkASIL~eAI~YIK~LQ~q  249 (291)
                      -|++-||+|-..+|+-|.+||.++|.  +.|..|---|.-|-.||-+|=+-
T Consensus        81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~v  131 (173)
T KOG4447|consen   81 MANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQV  131 (173)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhc
Confidence            67889999999999999999999995  57889999999999999999653

>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]

Probab=85.03  E-value=1.8  Score=45.42  Aligned_cols=60  Identities=28%  Similarity=0.424  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHHHHHHhccCCC----CCCCCHhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCC
Q 038918          206 AKNRRERISERLKILQELVPN----GSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGK  265 (291)
Q Consensus       206 ERrRRerIner~~~Lr~LVP~----~~K~DkASIL~eAI~YIK~LQ~qVq~Les~~~~p~~g~~  265 (291)
                      -||-|+|+|-.+..|.+|+|-    +.|+||-+||.-+|.|++-=--=--.|......+-.|..
T Consensus        33 SKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~KSfFqvvl~~s~~~~~gg~~   96 (712)
T KOG3560|consen   33 SKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRVKSFFQVVLHQSSRQPAGGPP   96 (712)
T ss_pred             chhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHhcCccccCCCCC
Confidence            467799999999999999995    578999999999999986433222234444444444433

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

Probab=83.99  E-value=0.74  Score=49.18  Aligned_cols=41  Identities=32%  Similarity=0.502  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHhccCCCC----CCCCHhHHHHHHHHHHH
Q 038918          204 IAAKNRRERISERLKILQELVPNG----SKVDLVTMLEKAISYVK  244 (291)
Q Consensus       204 ~aERrRRerIner~~~Lr~LVP~~----~K~DkASIL~eAI~YIK  244 (291)
                      -++|.||.|=|+-|-+|..++|-.    ..+|||+|+.-||.|+|
T Consensus        52 dAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLR   96 (768)
T KOG3558|consen   52 DAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLR   96 (768)
T ss_pred             hhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHH
Confidence            378999999999999999999943    35699999999999986

---

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	291
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-08
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	1e-05
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	1e-05
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	3e-05
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	4e-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 = 49.3 bits (118), Expect = 3e-08
 Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 1/66 (1%)

Query: 193 KTSAPPKDPQSIAAKNRRERISERLKILQELVPN-GSKVDLVTMLEKAISYVKFLQLQVK 251
           ++    +   +   K  R  I++++  L++LV    +K++   +L KAI Y++FLQ   +
Sbjct: 1   QSRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQ 60

Query: 252 VLATDE 257
            L  + 
Sbjct: 61  KLKQEN 66

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

 Score = 52.9 bits (126), Expect = 5e-08
 Identities = 45/252 (17%), Positives = 78/252 (30%), Gaps = 56/252 (22%)

Query: 68  HDHFMHANASNLLSFEQNETKDDEYSMWEGNFNQINQKYSSDHRLMEDFNCFDTASNYGF 127
           H H  H      + FE  E +   Y      +  I   +      +++F+C D       
Sbjct: 1   HHHHHH------MDFETGEHQ---YQ-----YKDILSVFEDA--FVDNFDCKDVQDMPKS 44

Query: 128 MINNSARDCHGDWLYTEATAVT------DTILESGS---QDASSSLKRPNTGDSMQAVKK 178
           ++  S  +   D +     AV+       T+L       Q     + R N    M  +K 
Sbjct: 45  IL--SKEEI--DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT 100

Query: 179 QCAIAATKKTNNKQKTSAPPKDPQSIAAKN--RRERISERLKILQELVPN---------G 227
           +    +       ++      D Q  A  N  R +   +  + L EL P          G
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG 160

Query: 228 S-KVDLVTMLEKAISYVKFLQLQVKVLATDEFWPVQGGKAPDISQVREA-------IDAI 279
           S K  +   +  +      +  ++       FW +          V E        ID  
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKI-------FW-LNLKNCNSPETVLEMLQKLLYQIDPN 212

Query: 280 LSSQRDRSSSSK 291
            +S+ D SS+ K
Sbjct: 213 WTSRSDHSSNIK 224

>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 = 42.3 bits (100), Expect = 1e-05
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 3/53 (5%)

Query: 207 KNRRERISERLKILQELVP---NGSKVDLVTMLEKAISYVKFLQLQVKVLATD 256
           + RR  +      L++ +P   N  K   V +L+KA +Y+  +Q + + L ++
Sbjct: 15  RQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISE 67

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

 Score = 42.0 bits (99), Expect = 1e-05
 Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 2/52 (3%)

Query: 207 KNRRERISERLKILQELVP--NGSKVDLVTMLEKAISYVKFLQLQVKVLATD 256
           + RR+ I +    L++ VP   G K     +L+KA  Y+++++ +      D
Sbjct: 11  RKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQD 62

>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 = 40.0 bits (94), Expect = 3e-05
 Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 6/51 (11%)

Query: 207 KNRRERISERLKILQELVP------NGSKVDLVTMLEKAISYVKFLQLQVK 251
           + RR++I+  +  L +++P        S      +L KA  Y++ L+    
Sbjct: 14  RRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

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

 Score = 40.0 bits (94), Expect = 4e-05
 Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 2/52 (3%)

Query: 207 KNRRERISERLKILQELVP--NGSKVDLVTMLEKAISYVKFLQLQVKVLATD 256
           + RR+ I +    L++ VP   G K     +L+KA  Y+++++ +      D
Sbjct: 21  RKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQD 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	291
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.56
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.55
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.54
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.49
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.49
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.42
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.39
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.39
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.35
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.35
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.18
4f3l_A	361	Mclock, circadian locomoter output cycles protein	98.98
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	98.9
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.85
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	98.84
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.49
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.27
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	97.84

>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=99.56  E-value=2.8e-15  Score=116.16  Aligned_cols=58  Identities=28%  Similarity=0.476  Sum_probs=54.8

Q ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCCC-CCCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          199 KDPQSIAAKNRRERISERLKILQELVPNG-SKVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       199 ~~~H~~aERrRRerIner~~~Lr~LVP~~-~K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      +.+|+++||+||++||++|.+|+.|||++ .|+||++||.+||+||++||.+++.|+..
T Consensus         7 r~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e   65 (82)
T 1am9_A            7 RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQE   65 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46899999999999999999999999997 79999999999999999999999999854

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

Probab=99.55  E-value=5.5e-15  Score=121.75  Aligned_cols=63  Identities=24%  Similarity=0.395  Sum_probs=51.2

Q ss_pred             CCCCCCCcCcHHHHHHHHHHHHHHHHHhccCCCCC----CCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          194 TSAPPKDPQSIAAKNRRERISERLKILQELVPNGS----KVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       194 k~~~~~~~H~~aERrRRerIner~~~Lr~LVP~~~----K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      +...++.+|+++||+||++||++|.+|+.|||++.    |++|++||++||+||++||.+++.|...
T Consensus        23 k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~~   89 (118)
T 4ati_A           23 KERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDL   89 (118)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55567889999999999999999999999999874    6789999999999999999999999853

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

Probab=99.54  E-value=2.2e-15  Score=115.01  Aligned_cols=58  Identities=22%  Similarity=0.365  Sum_probs=53.4

Q ss_pred             CCCCcCcHHHHHHHHHHHHHHHHHhccCCCC-CCCCHhHHHHHHHHHHHHHHHHHHHHh
Q 038918          197 PPKDPQSIAAKNRRERISERLKILQELVPNG-SKVDLVTMLEKAISYVKFLQLQVKVLA  254 (291)
Q Consensus       197 ~~~~~H~~aERrRRerIner~~~Lr~LVP~~-~K~DkASIL~eAI~YIK~LQ~qVq~Le  254 (291)
                      ..+.+|+++||+||++||++|.+|+.|||++ .|+||++||+.||+||+.||.++.-|+
T Consensus         7 ~kR~~Hn~iErrRRd~IN~~i~eL~~LvP~~~~K~dK~sIL~~aI~yik~Lq~~~~~~~   65 (71)
T 4h10_B            7 AKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKEITAWLE   65 (71)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTSSSCCSCCCHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHhhhhhHHHhhHHHHHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHHHHHHhhhHHH
Confidence            3456899999999999999999999999975 599999999999999999999998876

>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=99.49  E-value=5.9e-15  Score=109.03  Aligned_cols=55  Identities=20%  Similarity=0.356  Sum_probs=50.3

Q ss_pred             CCCCcCcHHHHHHHHHHHHHHHHHhccCCCCC------CCCHhHHHHHHHHHHHHHHHHHH
Q 038918          197 PPKDPQSIAAKNRRERISERLKILQELVPNGS------KVDLVTMLEKAISYVKFLQLQVK  251 (291)
Q Consensus       197 ~~~~~H~~aERrRRerIner~~~Lr~LVP~~~------K~DkASIL~eAI~YIK~LQ~qVq  251 (291)
                      ..+..|+++||+||++||+.|..|+.|||.+.      |+||++||.+||+||+.||.+++
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            35789999999999999999999999999875      67999999999999999998753

>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=99.49  E-value=2.8e-15  Score=111.45  Aligned_cols=54  Identities=26%  Similarity=0.404  Sum_probs=48.9

Q ss_pred             CCCcCcHHHHHHHHHHHHHHHHHhccCCCC-------CCCCHhHHHHHHHHHHHHHHHHHH
Q 038918          198 PKDPQSIAAKNRRERISERLKILQELVPNG-------SKVDLVTMLEKAISYVKFLQLQVK  251 (291)
Q Consensus       198 ~~~~H~~aERrRRerIner~~~Lr~LVP~~-------~K~DkASIL~eAI~YIK~LQ~qVq  251 (291)
                      ++.+|.++||+||++||..|..|+.|||.+       .+.+||+||+.||+||+.||++|+
T Consensus         2 kr~~H~~aEr~RR~rIn~~~~~L~~LlP~~~~~~~~~~k~sKa~iL~~Ai~YIk~Lq~~~~   62 (63)
T 1a0a_A            2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS   62 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCSC
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHCCCcccccccCCcccHHHHHHHHHHHHHHHHHHhh
Confidence            467899999999999999999999999964       466799999999999999998764

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

Probab=99.42  E-value=1.3e-14  Score=111.06  Aligned_cols=52  Identities=29%  Similarity=0.425  Sum_probs=47.7

Q ss_pred             CCCCcCcHHHHHHHHHHHHHHHHHhccCCCC----CCCCHhHHHHHHHHHHHHHHH
Q 038918          197 PPKDPQSIAAKNRRERISERLKILQELVPNG----SKVDLVTMLEKAISYVKFLQL  248 (291)
Q Consensus       197 ~~~~~H~~aERrRRerIner~~~Lr~LVP~~----~K~DkASIL~eAI~YIK~LQ~  248 (291)
                      .++..|+++||+||++||+.|.+|+.|||.+    .|+||++||+.||+||+.|+.
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            3456899999999999999999999999976    699999999999999999974

>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=99.39  E-value=3.4e-13  Score=103.87  Aligned_cols=56  Identities=21%  Similarity=0.481  Sum_probs=52.8

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCC--CCCCCHhHHHHHHHHHHHHHHHHHHHHhc
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPN--GSKVDLVTMLEKAISYVKFLQLQVKVLAT  255 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~--~~K~DkASIL~eAI~YIK~LQ~qVq~Les  255 (291)
                      ..|+..||+||..||+.|..|+.+||.  +.|++|++||..||+||+.|+.+++.|+.
T Consensus         4 ~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~   61 (83)
T 1nkp_B            4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ   61 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            479999999999999999999999997  47999999999999999999999999975

>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=99.39  E-value=3.1e-13  Score=103.76  Aligned_cols=58  Identities=21%  Similarity=0.444  Sum_probs=53.9

Q ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCCC--CCCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          199 KDPQSIAAKNRRERISERLKILQELVPNG--SKVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       199 ~~~H~~aERrRRerIner~~~Lr~LVP~~--~K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      +..|+..||+||..||+.|..|+.|||..  .|++|++||..||+||+.|+.+++.|+..
T Consensus        13 R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~L~~e   72 (80)
T 1hlo_A           13 RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQD   72 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45799999999999999999999999975  68999999999999999999999999753

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

Probab=99.35  E-value=6.9e-13  Score=102.05  Aligned_cols=59  Identities=19%  Similarity=0.282  Sum_probs=50.5

Q ss_pred             CCCcCcHHHHHHHHHHHHHHHHHhccCCC---CCCC-CHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          198 PKDPQSIAAKNRRERISERLKILQELVPN---GSKV-DLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       198 ~~~~H~~aERrRRerIner~~~Lr~LVP~---~~K~-DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      .+..|++.||+||..||+.|..|+.+||.   +.|. .|+.||..||+||++||++|++++.-
T Consensus         5 rR~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~~   67 (76)
T 3u5v_A            5 KRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNLN   67 (76)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             HHhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            35689999999999999999999999994   4566 79999999999999999999998743

>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=99.35  E-value=7.9e-13  Score=103.86  Aligned_cols=57  Identities=21%  Similarity=0.392  Sum_probs=52.7

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC---CCCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG---SKVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~---~K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      ..|+..||+||..||+.|..|+.+||..   .|++|++||.+||+||+.|+.+.+.|...
T Consensus         8 ~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~~~   67 (88)
T 1nkp_A            8 RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISE   67 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4799999999999999999999999975   59999999999999999999999888753

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

Probab=99.18  E-value=3.3e-11  Score=93.27  Aligned_cols=57  Identities=28%  Similarity=0.327  Sum_probs=52.4

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC---CCCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG---SKVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~---~K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      ..|+..||+||..|++.|..|+++||..   .|++|+.||..|++||+.|+.+.+.|...
T Consensus         3 ~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~~l~~e   62 (80)
T 1nlw_A            3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQ   62 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999964   57899999999999999999999988754

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

Probab=98.98  E-value=3.7e-10  Score=105.05  Aligned_cols=56  Identities=23%  Similarity=0.404  Sum_probs=43.1

Q ss_pred             CCCCCCcCcHHHHHHHHHHHHHHHHHhccCC-CCCCCCHhHHHHHHHHHHHHHHHHH
Q 038918          195 SAPPKDPQSIAAKNRRERISERLKILQELVP-NGSKVDLVTMLEKAISYVKFLQLQV  250 (291)
Q Consensus       195 ~~~~~~~H~~aERrRRerIner~~~Lr~LVP-~~~K~DkASIL~eAI~YIK~LQ~qV  250 (291)
                      ...++.+|+++||+||++||+.|.+|+.||| ...|+||++||..||.|||.|+...
T Consensus         9 ~~~~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~~   65 (361)
T 4f3l_A            9 DKAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKETT   65 (361)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhhc
Confidence            3445678999999999999999999999999 5569999999999999999998654

>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=98.90  E-value=1.2e-09  Score=82.39  Aligned_cols=51  Identities=20%  Similarity=0.388  Sum_probs=46.9

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC--CCCCHhHHHHHHHHHHHHHHHHH
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG--SKVDLVTMLEKAISYVKFLQLQV  250 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~--~K~DkASIL~eAI~YIK~LQ~qV  250 (291)
                      ..|+..||+|+..||+.|..||.+||..  .|++|+.||..||+||..|++.+
T Consensus        14 ~~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~tLr~Ai~YI~~L~~~L   66 (68)
T 1mdy_A           14 KAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALL   66 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             hHhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            4689999999999999999999999963  58899999999999999999865

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

Probab=98.85  E-value=6.8e-10  Score=104.72  Aligned_cols=55  Identities=27%  Similarity=0.385  Sum_probs=49.3

Q ss_pred             CCCCCCcCcHHHHHHHHHHHHHHHHHhccCC----CCCCCCHhHHHHHHHHHHHHHHHH
Q 038918          195 SAPPKDPQSIAAKNRRERISERLKILQELVP----NGSKVDLVTMLEKAISYVKFLQLQ  249 (291)
Q Consensus       195 ~~~~~~~H~~aERrRRerIner~~~Lr~LVP----~~~K~DkASIL~eAI~YIK~LQ~q  249 (291)
                      ...++.+|+.+||+||++||+.|.+|+.|||    ...|+||++||..||.|||.|+..
T Consensus        10 ~~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~~   68 (387)
T 4f3l_B           10 IKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA   68 (387)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHCC
T ss_pred             hhhhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhcc
Confidence            3445778999999999999999999999999    678999999999999999999843

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

Probab=98.84  E-value=3.7e-09  Score=77.85  Aligned_cols=51  Identities=22%  Similarity=0.294  Sum_probs=46.3

Q ss_pred             cCcHHHHHHHHHHHHHHHHHhccCCCC---CCCCHhHHHHHHHHHHHHHHHHHH
Q 038918          201 PQSIAAKNRRERISERLKILQELVPNG---SKVDLVTMLEKAISYVKFLQLQVK  251 (291)
Q Consensus       201 ~H~~aERrRRerIner~~~Lr~LVP~~---~K~DkASIL~eAI~YIK~LQ~qVq  251 (291)
                      .|+..||+|+..||+.|..||.+||..   .|++|..+|..||+||..|++.++
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            467889999999999999999999964   488999999999999999998764

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

Probab=98.49  E-value=1.8e-07  Score=73.44  Aligned_cols=46  Identities=26%  Similarity=0.441  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHhccCCCCC----CCCHhHHHHHHHHHHHHHHHHHHHHhc
Q 038918          210 RERISERLKILQELVPNGS----KVDLVTMLEKAISYVKFLQLQVKVLAT  255 (291)
Q Consensus       210 RerIner~~~Lr~LVP~~~----K~DkASIL~eAI~YIK~LQ~qVq~Les  255 (291)
                      |..||++|.+|..|||.+.    |.+|++||..||+||++||+.++.+..
T Consensus         4 R~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~r~~e   53 (83)
T 4ath_A            4 RFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKD   53 (83)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHHHHHH
T ss_pred             hhhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999753    578999999999999999997776653

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

Probab=98.27  E-value=2.3e-07  Score=70.38  Aligned_cols=43  Identities=26%  Similarity=0.411  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHhccCCCC---CCCCHhHHHHHHHHHHHHHHH
Q 038918          206 AKNRRERISERLKILQELVPNG---SKVDLVTMLEKAISYVKFLQL  248 (291)
Q Consensus       206 ERrRRerIner~~~Lr~LVP~~---~K~DkASIL~eAI~YIK~LQ~  248 (291)
                      ||+|+..||+-|..||.+||..   .|++|..+|..||+||..||.
T Consensus        22 ER~Rm~~lN~aF~~LR~~VP~~p~~kKLSKiEtLr~Ai~YI~~Lq~   67 (68)
T 2lfh_A           22 PLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQV   67 (68)
T ss_dssp             CSCSSSHHHHHHHHHHHHCCCCCTTCCCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCccHHHHHHHHHHHHHHHHc
Confidence            5568889999999999999964   588999999999999999984

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

Probab=97.84  E-value=3.2e-05  Score=62.16  Aligned_cols=55  Identities=24%  Similarity=0.342  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHhccCCC---CCCCCHhHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 038918          206 AKNRRERISERLKILQELVPN---GSKVDLVTMLEKAISYVKFLQLQVKVLATDEFWP  260 (291)
Q Consensus       206 ERrRRerIner~~~Lr~LVP~---~~K~DkASIL~eAI~YIK~LQ~qVq~Les~~~~p  260 (291)
                      ||.|=..||+-|..||.+||.   ..|+.|..+|.-||+||..|+..++.-.....+-
T Consensus        33 ~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~~~~~~~~~   90 (97)
T 4aya_A           33 PMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDSHLKPSFLV   90 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHTTTSTTCC-
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhcCCCCcchh
Confidence            567778899999999999995   3488999999999999999999998877665553

---

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	291
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	4e-11
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	6e-10
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	1e-08
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	3e-08
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	4e-08
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	2e-07
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	2e-07
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	3e-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 = 55.5 bits (134), Expect = 4e-11
 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)

Query: 210 RERISERLKILQELVPNG-SKVDLVTMLEKAISYVKFLQLQVKVL 253
           R  I++++  L++LV    +K+    +L KAI Y+K+LQ     L
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKL 45

>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 = 52.2 bits (125), Expect = 6e-10
 Identities = 14/60 (23%), Positives = 24/60 (40%), Gaps = 7/60 (11%)

Query: 199 KDPQSIAAKNRRERISERLKILQELVPN-------GSKVDLVTMLEKAISYVKFLQLQVK 251
           ++    A + RR R++  L  L  L+P         +     T +E A  Y++ LQ    
Sbjct: 3   RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

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

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

 Score = 49.1 bits (117), Expect = 1e-08
 Identities = 13/54 (24%), Positives = 27/54 (50%), Gaps = 3/54 (5%)

Query: 203 SIAAKNRRERISERLKILQELVP---NGSKVDLVTMLEKAISYVKFLQLQVKVL 253
           ++  + RR  +      L++ +P   N  K   V +L+KA +Y+  +Q + + L
Sbjct: 11  NVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKL 64

>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 = 47.9 bits (114), Expect = 3e-08
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 2/53 (3%)

Query: 203 SIAAKNRRERISERLKILQELVP--NGSKVDLVTMLEKAISYVKFLQLQVKVL 253
           +   + RR+ I +    L++ VP   G K     +L+KA  Y+++++ +    
Sbjct: 7   NALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTH 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 = 47.2 bits (112), Expect = 4e-08
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 193 KTSAPPKDPQSIAAKNRRERISERLKILQELVPNG-SKVDLVTMLEKAISYVKFLQLQVK 251
           ++    +   +   K  R  I++++  L++LV    +K++   +L KAI Y++FLQ   +
Sbjct: 1   QSRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQ 60

Query: 252 VL 253
            L
Sbjct: 61  KL 62

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

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

 Score = 45.3 bits (107), Expect = 2e-07
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 3/54 (5%)

Query: 203 SIAAKNRRERISERLKILQELVPNGS---KVDLVTMLEKAISYVKFLQLQVKVL 253
           +   KNRR  +   L+ L+ LVP G    +   +++L KA  ++K L+   +  
Sbjct: 6   NEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKA 59

>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 = 44.9 bits (106), Expect = 2e-07
 Identities = 14/64 (21%), Positives = 31/64 (48%), Gaps = 3/64 (4%)

Query: 191 KQKTSAPPK-DPQSIAAKNRRERISERLKILQELVPNGSKVDL--VTMLEKAISYVKFLQ 247
           K+KT+   +    ++  + R  +++E  + L+    +     L  V +L  AI Y++ LQ
Sbjct: 4   KRKTTNADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQ 63

Query: 248 LQVK 251
             ++
Sbjct: 64  ALLR 67

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

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

 Score = 44.8 bits (106), Expect = 3e-07
 Identities = 11/59 (18%), Positives = 25/59 (42%), Gaps = 6/59 (10%)

Query: 199 KDPQSIAAKNRRERISERLKILQELVP------NGSKVDLVTMLEKAISYVKFLQLQVK 251
           +   +   + RR++I+  +  L +++P        S      +L KA  Y++ L+    
Sbjct: 6   RAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	291
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.47
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.42
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.39
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.38
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.35
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.34
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.33
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.3

>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=99.47  E-value=9.7e-15  Score=106.03  Aligned_cols=52  Identities=27%  Similarity=0.431  Sum_probs=48.3

Q ss_pred             CCcCcHHHHHHHHHHHHHHHHHhccCCC-------CCCCCHhHHHHHHHHHHHHHHHHH
Q 038918          199 KDPQSIAAKNRRERISERLKILQELVPN-------GSKVDLVTMLEKAISYVKFLQLQV  250 (291)
Q Consensus       199 ~~~H~~aERrRRerIner~~~Lr~LVP~-------~~K~DkASIL~eAI~YIK~LQ~qV  250 (291)
                      +..|+++||+||++||+.|..|+.|||+       +.|++|+.||+.||+||+.||++|
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            5689999999999999999999999994       468899999999999999999875

>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=99.42  E-value=8e-14  Score=105.19  Aligned_cols=56  Identities=29%  Similarity=0.461  Sum_probs=52.6

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC-CCCCHhHHHHHHHHHHHHHHHHHHHHhc
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG-SKVDLVTMLEKAISYVKFLQLQVKVLAT  255 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~-~K~DkASIL~eAI~YIK~LQ~qVq~Les  255 (291)
                      ..|+.+||+||++||+.|..|++|||+. .|+||++||..||+||++|+.+++.|..
T Consensus         8 ~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~   64 (80)
T d1am9a_           8 TAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQ   64 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999986 4899999999999999999999999874

>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=99.39  E-value=1e-13  Score=102.24  Aligned_cols=52  Identities=19%  Similarity=0.398  Sum_probs=48.2

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC--CCCCHhHHHHHHHHHHHHHHHHHH
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG--SKVDLVTMLEKAISYVKFLQLQVK  251 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~--~K~DkASIL~eAI~YIK~LQ~qVq  251 (291)
                      ..|+..||+||++||+.|..|+.|||.+  .|+||++||..||+||++||++|+
T Consensus        14 ~~hn~~Er~Rr~~in~~~~~L~~llP~~~~~k~sK~~iL~~Ai~YI~~Lq~~l~   67 (68)
T d1mdya_          14 KAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            4799999999999999999999999985  478999999999999999998764

>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=99.38  E-value=2.7e-13  Score=101.66  Aligned_cols=57  Identities=28%  Similarity=0.327  Sum_probs=52.1

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC---CCCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG---SKVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~---~K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      ..|+.+||+||++||+.|..|++|||++   .|++|++||..||+||+.|+.+++.|...
T Consensus         3 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~   62 (79)
T d1nlwa_           3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQ   62 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999975   37899999999999999999999988653

>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=99.35  E-value=5e-13  Score=100.98  Aligned_cols=56  Identities=21%  Similarity=0.481  Sum_probs=52.2

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCC--CCCCCHhHHHHHHHHHHHHHHHHHHHHhc
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPN--GSKVDLVTMLEKAISYVKFLQLQVKVLAT  255 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~--~~K~DkASIL~eAI~YIK~LQ~qVq~Les  255 (291)
                      ..|+..||+||++||+.|..|++|||+  +.|++|++||..||+||++|+.+++.|..
T Consensus         4 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~   61 (83)
T d1nkpb_           4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ   61 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            469999999999999999999999996  46899999999999999999999999884

>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=99.34  E-value=5.6e-13  Score=101.72  Aligned_cols=56  Identities=21%  Similarity=0.383  Sum_probs=52.1

Q ss_pred             CcCcHHHHHHHHHHHHHHHHHhccCCCC---CCCCHhHHHHHHHHHHHHHHHHHHHHhc
Q 038918          200 DPQSIAAKNRRERISERLKILQELVPNG---SKVDLVTMLEKAISYVKFLQLQVKVLAT  255 (291)
Q Consensus       200 ~~H~~aERrRRerIner~~~Lr~LVP~~---~K~DkASIL~eAI~YIK~LQ~qVq~Les  255 (291)
                      ..|+.+||+||++||+.|..|++|||+.   .|++|++||..||+||++|+.+++.|..
T Consensus         8 ~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~   66 (88)
T d1nkpa_           8 RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLIS   66 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4799999999999999999999999964   4789999999999999999999999875

>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=99.33  E-value=2.4e-13  Score=99.10  Aligned_cols=53  Identities=21%  Similarity=0.369  Sum_probs=47.8

Q ss_pred             CCCcCcHHHHHHHHHHHHHHHHHhccCCCC------CCCCHhHHHHHHHHHHHHHHHHH
Q 038918          198 PKDPQSIAAKNRRERISERLKILQELVPNG------SKVDLVTMLEKAISYVKFLQLQV  250 (291)
Q Consensus       198 ~~~~H~~aERrRRerIner~~~Lr~LVP~~------~K~DkASIL~eAI~YIK~LQ~qV  250 (291)
                      .+..|+.+||+||++||+.|..|+.|||..      .|++|++||..||+||+.||++.
T Consensus         5 rR~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~~~   63 (65)
T d1an4a_           5 RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            356899999999999999999999999964      37899999999999999999764

>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=99.30  E-value=2.5e-13  Score=98.11  Aligned_cols=47  Identities=32%  Similarity=0.488  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHhccCCCCC-CCCHhHHHHHHHHHHHHHHHHHHHHhcC
Q 038918          210 RERISERLKILQELVPNGS-KVDLVTMLEKAISYVKFLQLQVKVLATD  256 (291)
Q Consensus       210 RerIner~~~Lr~LVP~~~-K~DkASIL~eAI~YIK~LQ~qVq~Les~  256 (291)
                      |++||++|..||+|||++. |+||++||.+||+||++||.+++.|+..
T Consensus         1 R~~in~~f~~L~~lvP~~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L~~e   48 (61)
T d1uklc_           1 RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQE   48 (61)
T ss_dssp             CCCHHHHHHHHHHHHSCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5789999999999999875 9999999999999999999999999754