Citrus Sinensis ID: 020455

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320------
Protein Sequence
MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPSSQLLLTQPLPLPQLIIAITILFLILHFYFNKGRGQMP
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHcccccccccccccccccccccccHHHHccccHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEcccccccEEcccccccccccccccccccccccccccccEEEEccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHccccccHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHccccccHHHHHcccccHHHcccccccccccccccccccccccccHHHHHcHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
maafsyqqhhhpflldssefieegsffsqlyyppkfpthddhqeMIVVNNNSNNLLDAAAVFetscgdnhdhhsddncnepsnnnslatknqstavssteqqvtQSTVTTTAtttrmdkkrknrtnasssfnsaqskdprevkskkqkkgnvndakkeekenspkadseqkvakeppkdyIHVRarrgqatdshsLAERVRREKISERMKILQKLvpgcdkvtgkaFMLDEIINYVQFLQNQVEFLSMKLasvnpmfydfgmdldntfmvrpddqqlqhlkcnaapqpssqllltqplplpqlIIAITILFLILHFYFnkgrgqmp
Flexible Loop (DISEMBL)
maafsyqqhhhpFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTavssteqqvtqstvtttatttrmdkkrknrtnasssfnsaqskdprevkskkqkkgnvndakkeekenspkadseqkvakeppkdyihvrarrgqatdshslaervrrekISERMKIlqklvpgcdkVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPSSQLLLTQPLPLPQLIIAITILFLILHFYFNKGRGQMP
Low Complexity Region (SEG)
MAAFSYQQHHHPFLLDssefieegsffsQLYYPPKFPTHDDHQEMIvvnnnsnnlldaaavFETSCGdnhdhhsddncnEPSNNNSLATKNqstavssteqqvtqstvtttatttRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAapqpssqllltqplplpqliiaitilflilHFYFNKGRGQMP
Disordered region (IsUnstruct)
**********HPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAAVFET************************************************************************************************************************************************MKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPD***LQHLKC*********LLLTQPLPLPQLIIAITILFLILHFYFN*******
Disordered Region (DISOPRED)
*AA******************************************************************************************************************************************************************************************************REKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDF*********************************************AITILFLILHF**********
Disordered Region (DISEMBL)
*********HHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLA***************************************************************************************PPKDYIHVR*************ERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPSSQLLLTQPLPLPQLIIAITILFLILHFYFNKGRGQMP
Disordered Region (DISPRO)
*AAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAAVFETSCGDNHDHHSD****************************************************************************************************PPKDYIHVRARRGQ***SHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPSSQLLLTQPLPLPQLIIAITILFLILHFYFNKGRG***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPSSQLLLTQPLPLPQLIIAITILFLILHFYFNKGRGQMP
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	326	2.2.26 [Sep-21-2011]
Q93W88	286	Transcription factor bHLH	yes	no	0.656	0.748	0.440	1e-44
Q9CAA9	486	Transcription factor bHLH	no	no	0.815	0.547	0.411	2e-41
Q9LK48	371	Transcription factor bHLH	no	no	0.570	0.501	0.502	9e-40
Q9SRT2	456	Transcription factor bHLH	no	no	0.426	0.304	0.614	2e-39
Q9FJL4	498	Transcription factor bHLH	no	no	0.273	0.178	0.842	7e-39
Q0JXE7	343	Transcription factor BPE	no	no	0.401	0.381	0.626	5e-37
Q8GY61	335	Transcription factor bHLH	no	no	0.312	0.304	0.771	4e-36
Q9C670	390	Transcription factor bHLH	no	no	0.328	0.274	0.663	8e-36
Q6NKN9	366	Transcription factor bHLH	no	no	0.365	0.325	0.615	9e-36
Q9ZPW3	337	Transcription factor bHLH	no	no	0.319	0.308	0.663	9e-34

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

 Score =  180 bits (457), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 122/277 (44%), Positives = 144/277 (51%), Gaps = 63/277 (22%)

Query: 1   MAAFSYQQHHHPFLLDSSEF------IEEGSFFSQ--LYYPPKFPTHDDHQEMIVVNNNS 52
           MA FSY Q++   LLD   F      I   SF  Q  LY  P   T +D   +       
Sbjct: 1   MATFSYFQNYPHSLLDPLLFPTPHSSINLTSFIDQNHLYPLPNISTVEDISFL------- 53

Query: 53  NNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTA 112
                             +++ D   N  S   +  TK  +T  SS +Q     +  T  
Sbjct: 54  ------------------EYNVDKTENSGSEKLANTTKTATTGSSSCDQLSHGPSAITNT 95

Query: 113 TTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKV 172
             TR  K R       +S NS +  + R  KSKKQK+G+                     
Sbjct: 96  GKTRGRKAR-------NSNNSKEGVEGR--KSKKQKRGS--------------------- 125

Query: 173 AKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEI 232
            +EPP DYIHVRARRGQATDSHSLAERVRREKISERM+ LQ LVPGCDKVTGKA MLDEI
Sbjct: 126 KEEPPTDYIHVRARRGQATDSHSLAERVRREKISERMRTLQNLVPGCDKVTGKALMLDEI 185

Query: 233 INYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFM 269
           INYVQ LQ QVEFLSMKL S++P+ YDFG DLD   +
Sbjct: 186 INYVQTLQTQVEFLSMKLTSISPVVYDFGSDLDGLIL 222

Arabidopsis thaliana (taxid: 3702)

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

 Score =  169 bits (429), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 124/301 (41%), Positives = 165/301 (54%), Gaps = 35/301 (11%)

Query: 18  SEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNL-LDAAAVFETSCGDNHDHHSDD 76
           S FIE  + FS L+    F    D     + N+ +  L L      +  C  N     + 
Sbjct: 130 SGFIERAARFS-LFSGGNF---SDMVNQPLGNSEAIGLFLQGGGTMQGQCQSN-----EL 180

Query: 77  NCNEPSNNNSLATKNQSTAVSSTEQ---QVTQSTVTTTATTTRMDKKRKNRTNASSSF-- 131
           N  EP N+ S+A K   + V S+EQ    V  S   +  T +     +K R  +S++   
Sbjct: 181 NVGEPHNDVSVAVK--ESTVRSSEQAKPNVPGSGNVSEDTQSSGGNGQKGRETSSNTKKR 238

Query: 132 ------NSAQSKDPREVKSKKQKKGNVNDAKKEEKE-NSPKADS-----EQKVAKEPPKD 179
                 NS  ++  R  +S+++   N ++ + +E+  NSP   S     + K + +PPKD
Sbjct: 239 KRNGQKNSEAAQSHRSQQSEEEPDNNGDEKRNDEQSPNSPGKKSNSGKQQGKQSSDPPKD 298

Query: 180 -YIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQF 238
            YIHVRARRGQAT+SHSLAERVRREKISERMK LQ LVPGC+KVTGKA MLDEIINYVQ 
Sbjct: 299 GYIHVRARRGQATNSHSLAERVRREKISERMKFLQDLVPGCNKVTGKAVMLDEIINYVQS 358

Query: 239 LQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPSSQLLLTQPL 298
           LQ QVEFLSMKLA+VNP      MD +   ++  D  QL+    +  P P +  +   PL
Sbjct: 359 LQRQVEFLSMKLATVNPQ-----MDFNLEGLLAKDALQLRAGSSSTTPFPPNMSMAYPPL 413

Query: 299 P 299
           P
Sbjct: 414 P 414

Arabidopsis thaliana (taxid: 3702)

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

 Score =  164 bits (415), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 102/203 (50%), Positives = 126/203 (62%), Gaps = 17/203 (8%)

Query: 113 TTTRMDKKRKN-------RTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPK 165
           TT    +KRK+        + ASSS  ++ SK   E    K  K +  D     K    K
Sbjct: 109 TTKSNSRKRKSIPSGNGKESPASSSLTASNSKVSGENGGSKGGKRSKQDVAGSSKNGVEK 168

Query: 166 ADSE---QKVAKEP--PKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCD 220
            DS+   +  AK P  PKDYIHVRARRGQATDSHSLAER RREKISERM +LQ LVPGC+
Sbjct: 169 CDSKGDNKDDAKPPEAPKDYIHVRARRGQATDSHSLAERARREKISERMTLLQDLVPGCN 228

Query: 221 KVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNP-MFYDFGMDLDNTFMVRPDD---QQ 276
           ++TGKA MLDEIINYVQ LQ QVEFLSMKLA+VNP M ++    L +T M++P +   Q 
Sbjct: 229 RITGKAVMLDEIINYVQSLQRQVEFLSMKLATVNPRMEFNANASL-STEMIQPGESLTQS 287

Query: 277 LQHLKCNAAPQPSSQLLLTQPLP 299
           L  + C+    PS+   L + +P
Sbjct: 288 LYAMACSEQRLPSAYYSLGKNMP 310

Arabidopsis thaliana (taxid: 3702)

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

 Score =  163 bits (412), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 91/148 (61%), Positives = 107/148 (72%), Gaps = 9/148 (6%)

Query: 140 REVKSKKQKKGNVNDAKK-EEKENS-PK------ADSEQKVAKEPPKDYIHVRARRGQAT 191
           R+ KSK+     V+ +K+ EEKE+S PK       + ++  + +P KDYIHVRARRGQAT
Sbjct: 207 RKTKSKQNSPSAVSSSKEIEEKEDSDPKRCKKSEENGDKTKSIDPYKDYIHVRARRGQAT 266

Query: 192 DSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLA 251
           DSHSLAERVRREKISERMK+LQ LVPGC+KVTGKA MLDEIINYVQ LQ QVEFLSMKL+
Sbjct: 267 DSHSLAERVRREKISERMKLLQDLVPGCNKVTGKALMLDEIINYVQSLQRQVEFLSMKLS 326

Query: 252 SVNPMFYDFGMDLDNTFMVRPDDQQLQH 279
           SVN    DF MD   +  + P    L H
Sbjct: 327 SVNTRL-DFNMDALLSKDIFPSSNNLMH 353

Arabidopsis thaliana (taxid: 3702)

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

 Score =  161 bits (407), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 75/89 (84%), Positives = 79/89 (88%)

Query: 175 EPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIIN 234
           EPPKDYIHVRARRGQATDSHSLAERVRREKI ERMK+LQ LVPGC+KVTGKA MLDEIIN
Sbjct: 293 EPPKDYIHVRARRGQATDSHSLAERVRREKIGERMKLLQDLVPGCNKVTGKALMLDEIIN 352

Query: 235 YVQFLQNQVEFLSMKLASVNPMFYDFGMD 263
           YVQ LQ QVEFLSMKL+SVN    DF +D
Sbjct: 353 YVQSLQRQVEFLSMKLSSVNDTRLDFNVD 381

Arabidopsis thaliana (taxid: 3702)

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

 Score =  155 bits (391), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 84/134 (62%), Positives = 97/134 (72%), Gaps = 3/134 (2%)

Query: 122 KNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAK-EPPKDY 180
           K R + S S     +    E ++K+QK   V D K E +  S   ++EQK  + EP KDY
Sbjct: 76  KRREDESKSAKIVSTIGASEGENKRQKIDEVCDGKAEAE--SLGTETEQKKQQMEPTKDY 133

Query: 181 IHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQ 240
           IHVRARRGQATDSHSLAER RREKISERMKILQ LVPGC+KV GKA +LDEIINY+Q LQ
Sbjct: 134 IHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQ 193

Query: 241 NQVEFLSMKLASVN 254
            QVEFLSMKL +VN
Sbjct: 194 RQVEFLSMKLEAVN 207

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  152 bits (383), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 81/105 (77%), Positives = 86/105 (81%), Gaps = 3/105 (2%)

Query: 160 KENSPKADSEQKVAKEPPK-DYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPG 218
           +EN+   DS  KV KE  K DYIHVRARRGQATDSHS+AERVRREKISERMK LQ LVPG
Sbjct: 149 EENNFSNDS-SKVTKELEKTDYIHVRARRGQATDSHSIAERVRREKISERMKFLQDLVPG 207

Query: 219 CDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMD 263
           CDK+TGKA MLDEIINYVQ LQ Q+EFLSMKLA VNP   DF MD
Sbjct: 208 CDKITGKAGMLDEIINYVQSLQRQIEFLSMKLAIVNPR-PDFDMD 251

Arabidopsis thaliana (taxid: 3702)

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

 Score =  151 bits (381), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 75/113 (66%), Positives = 92/113 (81%), Gaps = 6/113 (5%)

Query: 156 KKEEKENSPKADSEQKVAKEPPKD-----YIHVRARRGQATDSHSLAERVRREKISERMK 210
           KK++ E SP +++ +  +++ P D     YIH+RARRGQAT+SHSLAERVRREKISERMK
Sbjct: 191 KKQKDEQSPTSNANKTNSEKQPSDSLKDGYIHMRARRGQATNSHSLAERVRREKISERMK 250

Query: 211 ILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMD 263
            LQ LVPGCDKVTGKA MLDEIINYVQ LQ Q+EFLSMKL++VNP+  DF ++
Sbjct: 251 FLQDLVPGCDKVTGKAVMLDEIINYVQSLQCQIEFLSMKLSAVNPVL-DFNLE 302

Arabidopsis thaliana (taxid: 3702)

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

 Score =  150 bits (380), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 80/130 (61%), Positives = 99/130 (76%), Gaps = 11/130 (8%)

Query: 137 KDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKD-YIHVRARRGQATDSHS 195
           +DP+    + QKK + ND  KE        + E   ++E PK+ YIH+RARRGQAT+SHS
Sbjct: 166 EDPQRGNDQSQKK-HKNDQSKE------TVNKESSQSEEAPKENYIHMRARRGQATNSHS 218

Query: 196 LAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNP 255
           LAERVRREKISERM++LQ+LVPGC+K+TGKA MLDEIINYVQ LQ QVEFLSMKLA+VNP
Sbjct: 219 LAERVRREKISERMRLLQELVPGCNKITGKAVMLDEIINYVQSLQQQVEFLSMKLATVNP 278

Query: 256 MFYDFGMDLD 265
              +  +D+D
Sbjct: 279 ---EINIDID 285

Arabidopsis thaliana (taxid: 3702)

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

 Score =  144 bits (363), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 73/110 (66%), Positives = 80/110 (72%), Gaps = 6/110 (5%)

Query: 146 KQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKI 205
           K   GN   +    KE S  A   QK+      DYIHVRARRGQATD HSLAER RREKI
Sbjct: 154 KSNMGNTEASSDTSKETSKGASENQKL------DYIHVRARRGQATDRHSLAERARREKI 207

Query: 206 SERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNP 255
           S++MK LQ +VPGC+KVTGKA MLDEIINYVQ LQ QVEFLSMKLA +NP
Sbjct: 208 SKKMKYLQDIVPGCNKVTGKAGMLDEIINYVQCLQRQVEFLSMKLAVLNP 257

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	326
159505446	370	putative bHLH transcription factor [Citr	0.914	0.805	0.933	1e-146
255540091	422	DNA binding protein, putative [Ricinus c	0.733	0.566	0.559	6e-64
224122148	359	predicted protein [Populus trichocarpa]	0.788	0.715	0.525	1e-60
225456461	349	PREDICTED: transcription factor bHLH137	0.791	0.739	0.509	1e-57
158147058	340	bHLH transcription factor Upa20 [Capsicu	0.720	0.691	0.483	2e-55
390979910	330	basic helix-loop-helix [Solanum lycopers	0.736	0.727	0.471	3e-54
224136304	357	predicted protein [Populus trichocarpa]	0.812	0.742	0.493	2e-53
356516503	320	PREDICTED: transcription factor bHLH77-l	0.803	0.818	0.494	2e-52
357520555	327	BHLH transcription factor [Medicago trun	0.776	0.773	0.476	2e-51
356507384	334	PREDICTED: transcription factor bHLH137-	0.714	0.697	0.510	2e-51

>gi|159505446|gb|ABW97699.1| putative bHLH transcription factor [Citrus sinensis]

 Score =  523 bits (1346), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 279/299 (93%), Positives = 284/299 (94%), Gaps = 1/299 (0%)

Query: 1   MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAA 60
           MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAA
Sbjct: 1   MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAA 60

Query: 61  VFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDKK 120
           VF+TSCGDNH+HHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDKK
Sbjct: 61  VFKTSCGDNHNHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDKK 120

Query: 121 RKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKDY 180
           RKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSE+KVAKEPPKDY
Sbjct: 121 RKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEKKVAKEPPKDY 180

Query: 181 IHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQ 240
           IHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQ
Sbjct: 181 IHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQ 240

Query: 241 NQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQ-LQHLKCNAAPQPSSQLLLTQPL 298
           NQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQ L  +   +A  P  Q   T  L
Sbjct: 241 NQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQNLNSIIAASASAPQVQCSPTAQL 299

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540091|ref|XP_002511110.1| DNA binding protein, putative [Ricinus communis] gi|223550225|gb|EEF51712.1| DNA binding protein, putative [Ricinus communis]

 Score =  250 bits (639), Expect = 6e-64,   Method: Compositional matrix adjust.
 Identities = 165/295 (55%), Positives = 186/295 (63%), Gaps = 56/295 (18%)

Query: 1   MAAFSYQQHHHPFLLDS------------SEFIEEGS------FFSQLYYPPKFPTHDDH 42
           MAAFSYQQHH PF LDS            S F+E+G+      +FSQ +YPP   T D  
Sbjct: 1   MAAFSYQQHH-PFHLDSVFLPSASAIKNLSGFLEKGNSIINTNYFSQ-FYPPLETTPD-- 56

Query: 43  QEMIVVNNNSNNLLDAAAVFETSCGDNHDHH----SDDNCNEPSNNNSLATKNQSTAVSS 98
                        LD     ETS   +H       SD   NEPS+     TK QST  SS
Sbjct: 57  -------------LDVR-FHETSPPIDHSSMVAALSD---NEPSS----VTKKQSTD-SS 94

Query: 99  TEQQVTQSTVTTTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKE 158
           T     +S    T     MDKKRK      SSFNSAQSKD R+ + KKQKK N N+ K++
Sbjct: 95  TVVDKFESGEQVTQKLAPMDKKRK------SSFNSAQSKDARDGRGKKQKKCN-NEVKED 147

Query: 159 EKENSPKADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPG 218
           +K  + K D ++   +EPP  YIHVRARRGQATDSHSLAERVRREKISERMKILQ+LVPG
Sbjct: 148 KKPKAEKKDQKKVPDQEPPTGYIHVRARRGQATDSHSLAERVRREKISERMKILQRLVPG 207

Query: 219 CDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPD 273
           CDKVTGKA MLDEIINYVQ LQNQVEFLSMKLASVNP+FYDFGMD D   MVRP+
Sbjct: 208 CDKVTGKALMLDEIINYVQSLQNQVEFLSMKLASVNPLFYDFGMDFD-ALMVRPE 261

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122148|ref|XP_002318764.1| predicted protein [Populus trichocarpa] gi|222859437|gb|EEE96984.1| predicted protein [Populus trichocarpa]

 Score =  239 bits (611), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 162/308 (52%), Positives = 189/308 (61%), Gaps = 51/308 (16%)

Query: 1   MAAFSYQQHHHPFLLDSSEFIEEGS----FFSQLYYPPKFPTHDDHQEMIVVNNNSNNLL 56
           MAAFSYQ  H P  LDS       +      + +Y+         + E   +N NS   +
Sbjct: 1   MAAFSYQ--HPPLFLDSVILPNITTPIMNMNNSMYW--------FYDEAGGINTNSFYQV 50

Query: 57  DAAAVFETSCGD-------NHDHHSDDNCNEPSNNNSLATKNQSTAVSS------TEQQV 103
                F  +  D       +HDH S  +    S+N +  TK QST  S+      T +QV
Sbjct: 51  YPPETFHEAPLDVRFHEFSHHDHSSKVSL---SDNETSLTKKQSTGSSTVVDKLETGEQV 107

Query: 104 TQSTVTTTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENS 163
           TQ         T +D+KRK  TN S   NSAQSKD +EVKSK+QKK    D K+EEK   
Sbjct: 108 TQEV-------TPVDRKRKT-TNGS--LNSAQSKDVKEVKSKRQKKCR-GDMKQEEKR-- 154

Query: 164 PKADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVT 223
           PKA   +KV +EPP  Y+HVRARRGQATDSHSLAERVRREKISERMK+LQ+LVPGCDKVT
Sbjct: 155 PKA--VKKVPEEPPTGYVHVRARRGQATDSHSLAERVRREKISERMKMLQRLVPGCDKVT 212

Query: 224 GKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCN 283
           GKA MLDEIINYVQ LQNQVEFLSMKLASVNPMFYDFGM+LD  FMVRP     + L   
Sbjct: 213 GKALMLDEIINYVQSLQNQVEFLSMKLASVNPMFYDFGMELD-AFMVRP-----ERLSSM 266

Query: 284 AAPQPSSQ 291
           + P PS Q
Sbjct: 267 SPPLPSLQ 274

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456461|ref|XP_002284464.1| PREDICTED: transcription factor bHLH137 [Vitis vinifera] gi|297734492|emb|CBI15739.3| unnamed protein product [Vitis vinifera]

 Score =  229 bits (584), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 156/306 (50%), Positives = 182/306 (59%), Gaps = 48/306 (15%)

Query: 1   MAAFSYQQHHHPFLLDS----------SEFIEEG---SFFSQLYYPPKFPTHDDHQEMIV 47
           MAAFSYQ  H PFLLDS          S F+EEG   + FSQ      FP+   H+    
Sbjct: 1   MAAFSYQ--HPPFLLDSVFLPSTPIKMSGFMEEGNTTTCFSQF-----FPSESLHE---- 49

Query: 48  VNNNSNNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTE--QQVTQ 105
                   + A A    S    H      + NEP     L+T + S+ V   E  +QVTQ
Sbjct: 50  --------VPADARVHESTSLQHSSKVTLSDNEPCVTQKLST-DSSSVVDRLELGEQVTQ 100

Query: 106 STVTTTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPK 165
                      ++++RK ++   SS  SAQSKD RE K KK KKG+      EE++    
Sbjct: 101 KVAP-------IERERKRKSRDGSSLTSAQSKDAREGKGKKAKKGSGLVKDGEEEQLKAD 153

Query: 166 ADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGK 225
              ++K ++EPP  YIHVRARRGQATDSHSLAERVRREKISERMK+LQ LVPGCDKVTGK
Sbjct: 154 KKDQKKASEEPPTGYIHVRARRGQATDSHSLAERVRREKISERMKLLQALVPGCDKVTGK 213

Query: 226 AFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAA 285
           A MLDEIINYVQ LQNQVEFLSMKLASVNPMFYDFGMDLD   MVRP     + L    +
Sbjct: 214 ALMLDEIINYVQSLQNQVEFLSMKLASVNPMFYDFGMDLD-ALMVRP-----ERLSALTS 267

Query: 286 PQPSSQ 291
           P PS Q
Sbjct: 268 PLPSLQ 273

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|158147058|gb|ABW22630.1| bHLH transcription factor Upa20 [Capsicum annuum] gi|158147060|gb|ABW22631.1| bHLH transcription factor Upa20 [Capsicum annuum] gi|158147061|gb|ABW22632.1| bHLH transcription factor Upa20 [Capsicum annuum]

 Score =  222 bits (565), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 146/302 (48%), Positives = 173/302 (57%), Gaps = 67/302 (22%)

Query: 2   AAFSYQQHHHPFLLDS----------SEFIEE-------GSFFSQLYYPPKFPTHDDHQE 44
           +++  QQH+ P LLDS          S F EE        + FSQ +Y P+FPT++    
Sbjct: 5   SSYQLQQHNTPSLLDSVFLPSSPLKMSGFFEEPNNSCVVQNCFSQ-FYQPEFPTNN---- 59

Query: 45  MIVVNNNSNNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVS-----ST 99
            + VN NS  L                   D N N         T   S+++S     S+
Sbjct: 60  -VNVNENSYCL-------------------DQNTN--------VTNKSSSSISLDMDSSS 91

Query: 100 EQQVTQSTVTTTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEE 159
                +S       T+ MDKKRK+R   SSS  SA SK+  +  + K+ K N     K+E
Sbjct: 92  VTDKMESGNNKPNVTSPMDKKRKSRE-GSSSMTSANSKNVTQGDNGKKNKSNSKLVAKDE 150

Query: 160 KENSPKADSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGC 219
           K          K  +E P  YIHVRARRGQATDSHSLAERVRREKISERMK+LQ LVPGC
Sbjct: 151 K----------KANEEAPTGYIHVRARRGQATDSHSLAERVRREKISERMKMLQSLVPGC 200

Query: 220 DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQH 279
           DKVTGKA MLDEIINYVQ LQNQVEFLSMKLAS+NPM+YDFGMDLD   MVRPDDQ L  
Sbjct: 201 DKVTGKALMLDEIINYVQSLQNQVEFLSMKLASLNPMYYDFGMDLD-ALMVRPDDQNLSG 259

Query: 280 LK 281
           L+
Sbjct: 260 LE 261

Source: Capsicum annuum

Species: Capsicum annuum

Genus: Capsicum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|390979910|gb|AFM30927.1| basic helix-loop-helix [Solanum lycopersicum]

 Score =  218 bits (555), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 141/299 (47%), Positives = 174/299 (58%), Gaps = 59/299 (19%)

Query: 1   MAAFSYQQ--HHHPFLLDS----------SEFIEE--GSFFSQLYYPPKFPTHDDHQEMI 46
           MAAFS  Q  H++PFLLDS          S F EE   S   Q +Y  +FP+        
Sbjct: 1   MAAFSSHQLQHNNPFLLDSVFLPTSPIKMSGFFEEPNNSCIVQQFYQQEFPS-------- 52

Query: 47  VVNNNSNNLLDAAAVFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQS 106
                  NL+                H +  C +P +++S++    +++V+    ++   
Sbjct: 53  -------NLIS---------------HENSFCLDPKSSSSISLDMDASSVTD---KIESG 87

Query: 107 TVTTTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKA 166
                A  + +DKKRK+   +SS   SA SK+ ++  + K+KK N     K+EK      
Sbjct: 88  INNNKANVSPLDKKRKSSEGSSSM-TSAHSKNEKQGDNGKKKKINSKLVAKDEK------ 140

Query: 167 DSEQKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKA 226
               K  +E P  YIHVRARRGQATDSHSLAERVRREKISERMKILQ LVPGCDKVTGKA
Sbjct: 141 ----KANEEAPTGYIHVRARRGQATDSHSLAERVRREKISERMKILQSLVPGCDKVTGKA 196

Query: 227 FMLDEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAA 285
            MLDEIINYVQ LQNQVEFLSMKL S+NPM+YDFGMDLD   MVRPDDQ L  L+   A
Sbjct: 197 LMLDEIINYVQSLQNQVEFLSMKLTSLNPMYYDFGMDLD-ALMVRPDDQSLSGLETQMA 254

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136304|ref|XP_002322296.1| predicted protein [Populus trichocarpa] gi|222869292|gb|EEF06423.1| predicted protein [Populus trichocarpa]

 Score =  215 bits (547), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 149/302 (49%), Positives = 176/302 (58%), Gaps = 37/302 (12%)

Query: 1   MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPK------FPTHDDHQEMIVVNNNSNN 54
           MA FSYQ  H P   DS+       F   +  P K      + + ++   M+  N  S  
Sbjct: 1   MAGFSYQ--HQPLFPDSA-------FLPSIATPTKNMNNNMYGSFEEAGNMMNTNGFSQ- 50

Query: 55  LLDAAAVFETSCGDNHDH---HSDDNCNEPS--NNNSLATKNQSTAVSSTEQQVTQSTVT 109
           +       ET   D   H   H DD+  + S  +N +  TK QST  S+   ++    VT
Sbjct: 51  IYSPETFHETPSLDVRFHQSSHPDDHSYKVSLSDNETSLTKKQSTNSSTVVDKLESEHVT 110

Query: 110 TTATTTRMDKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSE 169
              T   M +KRK+   A+   NSAQSKD R+VKSK+Q     N    + K    K   E
Sbjct: 111 QEVTP--MARKRKS---ANGFLNSAQSKDARKVKSKRQ-----NKCSGDMKHEEKKPKVE 160

Query: 170 QKVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFML 229
           +KV  EPP  YIHVRARRGQATDSHSLAERVRRE+ISERMKILQ LVPGCDK+TGKA ML
Sbjct: 161 KKVHGEPPAGYIHVRARRGQATDSHSLAERVRRERISERMKILQLLVPGCDKITGKALML 220

Query: 230 DEIINYVQFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPS 289
           DEIINYVQ LQNQVEFLSMKLASVNP+ YDFGMD D  FMVRP     + L   + P PS
Sbjct: 221 DEIINYVQSLQNQVEFLSMKLASVNPLLYDFGMDRD-AFMVRP-----ERLSSMSPPLPS 274

Query: 290 SQ 291
            Q
Sbjct: 275 LQ 276

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516503|ref|XP_003526933.1| PREDICTED: transcription factor bHLH77-like [Glycine max]

 Score =  212 bits (540), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 143/289 (49%), Positives = 173/289 (59%), Gaps = 27/289 (9%)

Query: 1   MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAA 60
           MAAFSYQ  +HPFL+D + F    +  +               + +    +S N+ +   
Sbjct: 1   MAAFSYQ--YHPFLVDPAFFPNNLNTPNSPPP-----PLPSQFQQLPHETSSFNVTNQ-- 51

Query: 61  VFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDKK 120
             ETSC D     +  + NEPS      TKN S   S    ++      T      +DKK
Sbjct: 52  --ETSCVDQSSKITISD-NEPS-----VTKNLSPQSSMVVDKLETGEQVTQKVNIPVDKK 103

Query: 121 RKNRTNASSSFNSAQSKD-PREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKD 179
           R+ R N SS  ++ QSKD   E K+KKQ+K N     KEE +   +   ++K  +EPP  
Sbjct: 104 RRTR-NGSSFTSNPQSKDTATEGKNKKQRKNN--GGLKEEDKAKEEKKDQRKCPEEPPTG 160

Query: 180 YIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFL 239
           YIHVRARRGQATDSHSLAERVRREKISERMK+LQ+LVPGCDKVTGKA MLDEIINYVQ L
Sbjct: 161 YIHVRARRGQATDSHSLAERVRREKISERMKVLQRLVPGCDKVTGKALMLDEIINYVQSL 220

Query: 240 QNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQP 288
           QNQVEFLSMKLASVNPMFYD   DLD T +VRP+      L   A+P P
Sbjct: 221 QNQVEFLSMKLASVNPMFYDLATDLD-TLLVRPE-----KLNSMASPSP 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357520555|ref|XP_003630566.1| BHLH transcription factor [Medicago truncatula] gi|355524588|gb|AET05042.1| BHLH transcription factor [Medicago truncatula]

 Score =  209 bits (532), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 139/292 (47%), Positives = 176/292 (60%), Gaps = 39/292 (13%)

Query: 1   MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAA 60
           MAAFSYQ +  PFL+DS+ F    +       PP    H+ HQE+ + N           
Sbjct: 1   MAAFSYQ-YQQPFLVDSTYFTNINTSL-----PPSHLFHN-HQELSLSNQ---------- 43

Query: 61  VFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDKK 120
             ETSC D +  +S  N   P +  S+   N         +QVTQ  VT+      M+KK
Sbjct: 44  --ETSCVDQNSKNSISNNQSPES--SMVVDNLEKG-----EQVTQKAVTS------MEKK 88

Query: 121 RKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKDY 180
           R+ R   S       +KD  + +  K++K +  +  K E++   +   ++K  +E P  Y
Sbjct: 89  RRIRNKTS------LTKDISKEEKSKKQKKSSGEGMKGEEKKKEEKKDQKKNVEEVPTGY 142

Query: 181 IHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQ 240
           IHVRARRGQATDSHSLAERVRREKISERMKILQ+LVPGCD+VTGKA +LDEIINYVQ LQ
Sbjct: 143 IHVRARRGQATDSHSLAERVRREKISERMKILQQLVPGCDRVTGKALVLDEIINYVQSLQ 202

Query: 241 NQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQHLKCNAAPQPSSQL 292
           NQVEFLSMKLASVNP+F+DF MDLD T +VRPD Q+L  +   + P P   L
Sbjct: 203 NQVEFLSMKLASVNPIFFDFAMDLD-TLLVRPDHQRLNSITSPSTPIPHVSL 253

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507384|ref|XP_003522447.1| PREDICTED: transcription factor bHLH137-like [Glycine max]

 Score =  208 bits (530), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 141/276 (51%), Positives = 166/276 (60%), Gaps = 43/276 (15%)

Query: 1   MAAFSYQQHHHPFLLDSSEFIEEGSFFSQLYYPPKFPTHDDHQEMIVVNNNSNNLLDAAA 60
           MAAFSYQ  +HPFL+D +       FF      P  P H   Q  +    +S N+ +   
Sbjct: 1   MAAFSYQ--YHPFLVDPA-------FFPNNLNTPSPPPHQFQQ--LPHETSSFNVTNQ-- 47

Query: 61  VFETSCGDNHDHHSDDNCNEPSNNNSLATKNQSTAVS---STEQQVTQSTVTTTATTTRM 117
             ETSC D     +  + NEPS   +L+   QS+ V     T +QVTQ         T +
Sbjct: 48  --ETSCVDQSSKITISD-NEPSVTENLSP--QSSMVVDKLETGEQVTQKV------NTPV 96

Query: 118 DKKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPP 177
           +KKRK R  +S             + S  Q KGN     KEE +   +   ++K  +EPP
Sbjct: 97  EKKRKTRNGSS-------------LTSNPQSKGN--GGLKEEDKAKEEKKEQRKCPEEPP 141

Query: 178 KDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQ 237
             YIHVRARRGQATDSHSLAERVRREKISERMK+LQ+LVPGCDKVTGKA MLDEIINYVQ
Sbjct: 142 TGYIHVRARRGQATDSHSLAERVRREKISERMKVLQRLVPGCDKVTGKALMLDEIINYVQ 201

Query: 238 FLQNQVEFLSMKLASVNPMFYDFGMDLDNTFMVRPD 273
            LQNQVEFLSMKLASVNPMFYD   DLD T +VRPD
Sbjct: 202 SLQNQVEFLSMKLASVNPMFYDLATDLD-TLLVRPD 236

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	326
TAIR|locus:505006688	286	AT5G50915 "AT5G50915" [Arabido	0.444	0.506	0.607	2.2e-42
TAIR|locus:2152551	498	AT5G48560 "AT5G48560" [Arabido	0.444	0.291	0.568	2.5e-39
UNIPROTKB|Q75M33	339	P0668H12.5 "BHLH transcription	0.417	0.401	0.616	3.7e-39
TAIR|locus:2079676	456	AT3G07340 "AT3G07340" [Arabido	0.450	0.322	0.608	5.5e-38
TAIR|locus:2205420	486	AT1G68920 [Arabidopsis thalian	0.429	0.288	0.611	1.9e-37
TAIR|locus:2095198	371	AT3G23690 "AT3G23690" [Arabido	0.469	0.412	0.575	1e-36
TAIR|locus:2139484	335	CIB1 "AT4G34530" [Arabidopsis	0.435	0.423	0.629	4.4e-36
UNIPROTKB|Q5N802	481	P0004D12.24 "BHLH transcriptio	0.407	0.276	0.594	3.1e-35
UNIPROTKB|Q84QW1	405	OJ1191_A10.109 "BHLH transcrip	0.352	0.283	0.669	3.1e-35
UNIPROTKB|Q5VR96	437	P0038C05.31-1 "Os06g0275600 pr	0.432	0.322	0.6	4e-35

TAIR|locus:505006688 AT5G50915 "AT5G50915" [Arabidopsis thaliana (taxid:3702)]

 Score = 426 (155.0 bits), Expect = 2.2e-42, Sum P(2) = 2.2e-42
 Identities = 93/153 (60%), Positives = 110/153 (71%)

Query:   122 KNRTNASSSFNSAQSKDPREV----KSKKQKKGNVNDAKKEEKENSPKADSEQKVAKE-P 176
             K  T  SSS +   S  P  +    K++ +K  N N++K  E     K+  +++ +KE P
Sbjct:    73 KTATTGSSSCDQL-SHGPSAITNTGKTRGRKARNSNNSK--EGVEGRKSKKQKRGSKEEP 129

Query:   177 PKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYV 236
             P DYIHVRARRGQATDSHSLAERVRREKISERM+ LQ LVPGCDKVTGKA MLDEIINYV
Sbjct:   130 PTDYIHVRARRGQATDSHSLAERVRREKISERMRTLQNLVPGCDKVTGKALMLDEIINYV 189

Query:   237 QFLQNQVEFLSMKLASVNPMFYDFGMDLDNTFM 269
             Q LQ QVEFLSMKL S++P+ YDFG DLD   +
Sbjct:   190 QTLQTQVEFLSMKLTSISPVVYDFGSDLDGLIL 222

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

GO:0009739 "response to gibberellin stimulus" evidence=IEP

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

 Score = 395 (144.1 bits), Expect = 2.5e-39, Sum P(2) = 2.5e-39
 Identities = 87/153 (56%), Positives = 107/153 (69%)

Query:   119 KKRKNRTNASS---SFNSAQSKDPRE--VKSKKQKKGNVNDAKKEEKENSPKAD---SEQ 170
             K ++N  + +S   SF+    K+  +   KS ++K G     +++++E   + +   S  
Sbjct:   229 KSKENPISTASPSPSFSKTAEKNGGKGGSKSSEEKGGKRRREEEDDEEEEGEGEGNKSNN 288

Query:   171 KVAKEPPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLD 230
                 EPPKDYIHVRARRGQATDSHSLAERVRREKI ERMK+LQ LVPGC+KVTGKA MLD
Sbjct:   289 TKPPEPPKDYIHVRARRGQATDSHSLAERVRREKIGERMKLLQDLVPGCNKVTGKALMLD 348

Query:   231 EIINYVQFLQNQVEFLSMKLASVNPMFYDFGMD 263
             EIINYVQ LQ QVEFLSMKL+SVN    DF +D
Sbjct:   349 EIINYVQSLQRQVEFLSMKLSSVNDTRLDFNVD 381

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0016132 "brassinosteroid biosynthetic process" evidence=RCA

UNIPROTKB|Q75M33 P0668H12.5 "BHLH transcription factor" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 90/146 (61%), Positives = 104/146 (71%)

Query:   130 SFNSAQSKDPREVKSKKQKKGNVNDAKKEEK----------ENSPKADSEQKVAKEPPKD 179
             S  S Q  D    KS+K K+ NV     EEK          ++  K  +++    EPP  
Sbjct:   117 SLGSTQDMDASWGKSRKHKRSNVGLKGLEEKKARRVVLHQHDDDVKKKAKEAAGGEPPAG 176

Query:   180 YIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFL 239
             YIHVRARRGQATDSHSLAERVRREKISERMK+LQ LVPGCDKVTGKA MLDEII+YVQ L
Sbjct:   177 YIHVRARRGQATDSHSLAERVRREKISERMKMLQSLVPGCDKVTGKALMLDEIISYVQSL 236

Query:   240 QNQVEFLSMKLASVNPMFYDFGMDLD 265
             QNQVEFLSMKLAS++P+ Y+FG  +D
Sbjct:   237 QNQVEFLSMKLASLSPLMYEFGPGID 262

GO:0005634 "nucleus" evidence=IC

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

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 95/156 (60%), Positives = 110/156 (70%)

Query:   132 NSAQSKDPREVKSKKQKKGNVNDAKK-EEKENS-PKA--DSEQKVAK----EPPKDYIHV 183
             +S +    R+ KSK+     V+ +K+ EEKE+S PK    SE+   K    +P KDYIHV
Sbjct:   199 SSGELSRKRKTKSKQNSPSAVSSSKEIEEKEDSDPKRCKKSEENGDKTKSIDPYKDYIHV 258

Query:   184 RARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQV 243
             RARRGQATDSHSLAERVRREKISERMK+LQ LVPGC+KVTGKA MLDEIINYVQ LQ QV
Sbjct:   259 RARRGQATDSHSLAERVRREKISERMKLLQDLVPGCNKVTGKALMLDEIINYVQSLQRQV 318

Query:   244 EFLSMKLASVNPMFYDFGMDLDNTFMVRPDDQQLQH 279
             EFLSMKL+SVN    DF MD   +  + P    L H
Sbjct:   319 EFLSMKLSSVNTRL-DFNMDALLSKDIFPSSNNLMH 353

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:2205420 AT1G68920 [Arabidopsis thaliana (taxid:3702)]

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 93/152 (61%), Positives = 114/152 (75%)

Query:   119 KKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKE-NSP--KADS--EQ-KV 172
             KKRK   N   +  +AQS   R  +S+++   N ++ + +E+  NSP  K++S  +Q K 
Sbjct:   236 KKRKR--NGQKNSEAAQSH--RSQQSEEEPDNNGDEKRNDEQSPNSPGKKSNSGKQQGKQ 291

Query:   173 AKEPPKD-YIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDE 231
             + +PPKD YIHVRARRGQAT+SHSLAERVRREKISERMK LQ LVPGC+KVTGKA MLDE
Sbjct:   292 SSDPPKDGYIHVRARRGQATNSHSLAERVRREKISERMKFLQDLVPGCNKVTGKAVMLDE 351

Query:   232 IINYVQFLQNQVEFLSMKLASVNPMFYDFGMD 263
             IINYVQ LQ QVEFLSMKLA+VNP   DF ++
Sbjct:   352 IINYVQSLQRQVEFLSMKLATVNPQM-DFNLE 382

GO:0005634 "nucleus" evidence=ISM

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

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

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

 Score = 395 (144.1 bits), Expect = 1.0e-36, P = 1.0e-36
 Identities = 92/160 (57%), Positives = 108/160 (67%)

Query:   127 ASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSE---QKVAKEP--PKDYI 181
             ASSS  ++ SK   E    K  K +  D     K    K DS+   +  AK P  PKDYI
Sbjct:   130 ASSSLTASNSKVSGENGGSKGGKRSKQDVAGSSKNGVEKCDSKGDNKDDAKPPEAPKDYI 189

Query:   182 HVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQN 241
             HVRARRGQATDSHSLAER RREKISERM +LQ LVPGC+++TGKA MLDEIINYVQ LQ 
Sbjct:   190 HVRARRGQATDSHSLAERARREKISERMTLLQDLVPGCNRITGKAVMLDEIINYVQSLQR 249

Query:   242 QVEFLSMKLASVNP-MFYDFGMDLDNTFMVRPDDQQLQHL 280
             QVEFLSMKLA+VNP M ++    L +T M++P +   Q L
Sbjct:   250 QVEFLSMKLATVNPRMEFNANASL-STEMIQPGESLTQSL 288

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

 Score = 389 (142.0 bits), Expect = 4.4e-36, P = 4.4e-36
 Identities = 95/151 (62%), Positives = 105/151 (69%)

Query:   118 DKKRK---NRTNASSSFNSAQSKDPREVK-SKKQKKGNVNDAKKEEKENSPKADSEQKVA 173
             +KK+K   NR +        +SK   +   S K  K   + AKKEE  N+   DS  KV 
Sbjct:   105 EKKKKMTMNRDDLVEEGEEEKSKITEQNNGSTKSIKKMKHKAKKEE--NNFSNDSS-KVT 161

Query:   174 KEPPK-DYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEI 232
             KE  K DYIHVRARRGQATDSHS+AERVRREKISERMK LQ LVPGCDK+TGKA MLDEI
Sbjct:   162 KELEKTDYIHVRARRGQATDSHSIAERVRREKISERMKFLQDLVPGCDKITGKAGMLDEI 221

Query:   233 INYVQFLQNQVEFLSMKLASVNPMFYDFGMD 263
             INYVQ LQ Q+EFLSMKLA VNP   DF MD
Sbjct:   222 INYVQSLQRQIEFLSMKLAIVNPR-PDFDMD 251

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

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

 Score = 381 (139.2 bits), Expect = 3.1e-35, P = 3.1e-35
 Identities = 85/143 (59%), Positives = 102/143 (71%)

Query:   124 RTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSPKADSEQKVAKEPPKDYIHV 183
             R  ++   N+A  ++  + K+ +    N    KK+ K++S K         EPPKDYIHV
Sbjct:   226 RCKSTEESNAAAEENSGKGKAAQSNSEN-GGGKKQGKDSSSKPP-------EPPKDYIHV 277

Query:   184 RARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQV 243
             RARRG+ATDSHSLAERVRREKIS+RMK+LQ LVPGC+KV GKA MLDEIINYVQ LQ QV
Sbjct:   278 RARRGEATDSHSLAERVRREKISQRMKLLQDLVPGCNKVVGKAVMLDEIINYVQSLQRQV 337

Query:   244 EFLSMKLASVNPMFYDFGMDLDN 266
             EFLSMKLA+VNP   DF  +L N
Sbjct:   338 EFLSMKLATVNPQL-DFN-NLPN 358

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q84QW1 OJ1191_A10.109 "BHLH transcription factor(GBOF-1)-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 381 (139.2 bits), Expect = 3.1e-35, P = 3.1e-35
 Identities = 81/121 (66%), Positives = 95/121 (78%)

Query:   142 VKSKKQKKGNVNDAKKEEKENSPKADSEQKVAK--EPPKDYIHVRARRGQATDSHSLAER 199
             VK K ++ G+  D+  E+     +   + K AK  EPPKDY+HVRARRGQATDSHSLAER
Sbjct:   163 VKPKAEQAGS--DSSVEDGGGGGQKQGKGKNAKPVEPPKDYVHVRARRGQATDSHSLAER 220

Query:   200 VRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMFYD 259
             VRRE+IS+RMK+LQ LVPGC+KV GKA MLDEIINYVQ LQ QVEFLSMKLA+VNP+  D
Sbjct:   221 VRRERISQRMKVLQDLVPGCNKVIGKALMLDEIINYVQSLQRQVEFLSMKLATVNPL--D 278

Query:   260 F 260
             F
Sbjct:   279 F 279

GO:0005634 "nucleus" evidence=IC

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

 Score = 380 (138.8 bits), Expect = 4.0e-35, P = 4.0e-35
 Identities = 90/150 (60%), Positives = 100/150 (66%)

Query:   119 KKRKNRTNASSSFNSAQSKDPREVKSKKQKKGNVNDAKKEEKENS-PKADSEQKVAKE-- 175
             KKRK R+        A+  +        QK  N +D K E K +S     S  K  K+  
Sbjct:   194 KKRK-RSGQDGGVKHAEGGEQLATVGSAQK--NEDDEKGEPKRSSVASGKSSGKQIKDNA 250

Query:   176 --PPKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEII 233
               P +DYIHVRARRGQAT+SHSLAERVRREKISERMK LQ LVPGC KVTGKA MLDEII
Sbjct:   251 GSPKEDYIHVRARRGQATNSHSLAERVRREKISERMKYLQDLVPGCSKVTGKAVMLDEII 310

Query:   234 NYVQFLQNQVEFLSMKLASVNPMFYDFGMD 263
             NYVQ LQ QVEFLSMKLASVNP   DF ++
Sbjct:   311 NYVQSLQRQVEFLSMKLASVNPTL-DFNIE 339

GO:0005634 "nucleus" evidence=IC

---

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

Your Input: fgenesh4_pg.C_LG_XII001024 hypothetical protein (359 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	326
smart00353	53	smart00353, HLH, helix loop helix domain	1e-09
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	1e-08
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	4e-07

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

 Score = 53.0 bits (128), Expect = 1e-09
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 195 SLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVE 244
           +  ER RR KI+E    L+ L+P    +K   KA +L   I Y++ LQ +++
Sbjct: 1   NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQ 52

Length = 53

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

 Score = 50.7 bits (122), Expect = 1e-08
 Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 2/60 (3%)

Query: 187 RGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTG--KAFMLDEIINYVQFLQNQVE 244
           R    ++H+L ER RRE+I++    L+ L+P         KA +L + ++Y++ LQ  ++
Sbjct: 1   RKSRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60

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

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

 Score = 45.9 bits (110), Expect = 4e-07
 Identities = 17/50 (34%), Positives = 32/50 (64%), Gaps = 3/50 (6%)

Query: 193 SHSLAERVRREKISERMKILQKLVPGCD--KVTGKAFMLDEIINYVQFLQ 240
           +H+  ER RR++I++  + L++L+P     K++ KA +L   I Y++ LQ
Sbjct: 4   AHNERERRRRDRINDAFEELRELLPTPPNKKLS-KAEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	326
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.39
smart00353	53	HLH helix loop helix domain.	99.33
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.32
KOG1318	411	consensus Helix loop helix transcription factor EB	99.21
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	99.01
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.4
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	98.4
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.22
KOG3960	284	consensus Myogenic helix-loop-helix transcription	97.73
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	97.64
KOG0561	373	consensus bHLH transcription factor [Transcription	97.47
PLN03217	93	transcription factor ATBS1; Provisional	97.41
KOG3910	632	consensus Helix loop helix transcription factor [T	96.98
KOG4029	228	consensus Transcription factor HAND2/Transcription	96.96
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	91.02
KOG3560	712	consensus Aryl-hydrocarbon receptor [Transcription	87.56
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	86.11

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

Probab=99.39  E-value=3.6e-13  Score=97.88  Aligned_cols=54  Identities=33%  Similarity=0.572  Sum_probs=48.5

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHHHH
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVE  244 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~qVq  244 (326)
                      ...|+..||+||++||+.|..|+++||.+  ....||++||+.||+||+.|+.+++
T Consensus         5 r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~   60 (60)
T cd00083           5 REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ   60 (60)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            45699999999999999999999999999  2445999999999999999998763

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=2.2e-12  Score=92.34  Aligned_cols=49  Identities=37%  Similarity=0.519  Sum_probs=44.6

Q ss_pred             chHHHHHHHHHHHHHHHHhhcCCC---CCcCCChhchHHHHHHHHHHHHHHHH
Q 020455          195 SLAERVRREKISERMKILQKLVPG---CDKVTGKAFMLDEIINYVQFLQNQVE  244 (326)
Q Consensus       195 slaERrRRekINer~~~LqsLVP~---~~K~tDKAsIL~eAI~YIk~Lq~qVq  244 (326)
                      +..||+||++||+.|..|++|||.   ..+ .+|++||.+||+||+.|+.+++
T Consensus         1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k-~~k~~iL~~ai~yi~~L~~~~~   52 (53)
T smart00353        1 NARERRRRRKINEAFDELRSLLPTLPNNKK-LSKAEILRLAIEYIKSLQEELQ   52 (53)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHh
Confidence            468999999999999999999996   445 4999999999999999999886

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

Probab=99.32  E-value=2.5e-12  Score=93.59  Aligned_cols=48  Identities=35%  Similarity=0.663  Sum_probs=44.2

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhcCCCC----CcCCChhchHHHHHHHHHHHH
Q 020455          193 SHSLAERVRREKISERMKILQKLVPGC----DKVTGKAFMLDEIINYVQFLQ  240 (326)
Q Consensus       193 ~HslaERrRRekINer~~~LqsLVP~~----~K~tDKAsIL~eAI~YIk~Lq  240 (326)
                      .|+..||+||++||+.|..|+.|||.+    ....+|++||+.||+||+.||
T Consensus         4 ~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    4 KHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            499999999999999999999999987    233699999999999999997

; 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=99.21  E-value=1.4e-11  Score=122.88  Aligned_cols=60  Identities=33%  Similarity=0.572  Sum_probs=51.8

Q ss_pred             cccccCCCCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCc---CCChhchHHHHHHHHHHHHH
Q 020455          182 HVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDK---VTGKAFMLDEIINYVQFLQN  241 (326)
Q Consensus       182 ~~Rarr~~a~~~HslaERrRRekINer~~~LqsLVP~~~K---~tDKAsIL~eAI~YIk~Lq~  241 (326)
                      ..-.|.+++++.|+++|||||++||++|++|..|||.|..   ..+|..||..+++||+.||+
T Consensus       225 ~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq  287 (411)
T KOG1318|consen  225 TALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQ  287 (411)
T ss_pred             chhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHH
Confidence            3334666778899999999999999999999999999932   13799999999999999987

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=99.01  E-value=2e-10  Score=105.09  Aligned_cols=65  Identities=31%  Similarity=0.527  Sum_probs=55.9

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhcCCCCCc------CCChhchHHHHHHHHHHHHHHHHHHHhhhhcCCCcc
Q 020455          193 SHSLAERVRREKISERMKILQKLVPGCDK------VTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMF  257 (326)
Q Consensus       193 ~HslaERrRRekINer~~~LqsLVP~~~K------~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~~~P~~  257 (326)
                      .|.-+||+||+.||..+..|++|||.|..      ++.||.||..+|+||.+|..++.+.+.+++.++-.+
T Consensus        65 aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~v  135 (229)
T KOG1319|consen   65 AHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDV  135 (229)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            49999999999999999999999998743      246999999999999999998888887776665443

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

Probab=98.40  E-value=1.7e-07  Score=88.71  Aligned_cols=52  Identities=29%  Similarity=0.413  Sum_probs=45.5

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCC--------CcCCChhchHHHHHHHHHHHHHHH
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGC--------DKVTGKAFMLDEIINYVQFLQNQV  243 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~--------~K~tDKAsIL~eAI~YIk~Lq~qV  243 (326)
                      +..|-+.|||||.|||+.|.+|++||+.+        .|+ +||.||+-|++|++.|+...
T Consensus        33 k~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~skl-EKAdILEltV~hL~~l~~~~   92 (250)
T KOG4304|consen   33 KVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKL-EKADILELTVNHLRQLQRSQ   92 (250)
T ss_pred             hhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhh-HHHHHHHHHHHHHHHHhccc
Confidence            34588999999999999999999999965        343 79999999999999998743

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=98.40  E-value=1.1e-06  Score=94.99  Aligned_cols=63  Identities=27%  Similarity=0.470  Sum_probs=54.7

Q ss_pred             CCCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCcCCChhchHHHHHHHHHHHHHHHHHHHhhh
Q 020455          188 GQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKL  250 (326)
Q Consensus       188 ~~a~~~HslaERrRRekINer~~~LqsLVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~  250 (326)
                      +.++.+|+++|||.|..|||+|.+|++|||+..-+..|..+|..||+||++|+..-+.+....
T Consensus       274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~  336 (953)
T KOG2588|consen  274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLEN  336 (953)
T ss_pred             CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhh
Confidence            466889999999999999999999999999985545899999999999999998666555443

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

Probab=98.22  E-value=1.2e-06  Score=94.12  Aligned_cols=52  Identities=19%  Similarity=0.386  Sum_probs=47.8

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCCC---cCCChhchHHHHHHHHHHHHHH
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGCD---KVTGKAFMLDEIINYVQFLQNQ  242 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~~---K~tDKAsIL~eAI~YIk~Lq~q  242 (326)
                      ..+|+.+|||||+++|.-|.+|-+|||.|.   .+.||-+||..||..||.+++.
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            567999999999999999999999999996   4459999999999999999885

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

Probab=97.73  E-value=0.00015  Score=69.47  Aligned_cols=58  Identities=21%  Similarity=0.261  Sum_probs=49.3

Q ss_pred             cchHHHHHHHHHHHHHHHHhh-cCCCCCcCCChhchHHHHHHHHHHHHHHHHHHHhhhh
Q 020455          194 HSLAERVRREKISERMKILQK-LVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLA  251 (326)
Q Consensus       194 HslaERrRRekINer~~~Lqs-LVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~  251 (326)
                      -.+.||||=.|+||.|.+|+. -+++.++..-|+.||..||+||+.||.-++++.....
T Consensus       122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~  180 (284)
T KOG3960|consen  122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK  180 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence            346799999999999999975 4567776668999999999999999999988876543

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

Probab=97.64  E-value=8.7e-05  Score=69.94  Aligned_cols=52  Identities=23%  Similarity=0.334  Sum_probs=44.2

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCCCcCCC--hhchHHHHHHHHHHHHHH
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGCDKVTG--KAFMLDEIINYVQFLQNQ  242 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~~K~tD--KAsIL~eAI~YIk~Lq~q  242 (326)
                      +..|+.-||+||..|.+.|..|+.+||....-+.  .++||+.|++||+.|+.+
T Consensus        60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~  113 (232)
T KOG2483|consen   60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERK  113 (232)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhH
Confidence            3459999999999999999999999997633222  699999999999999773

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.47  E-value=8.9e-05  Score=72.58  Aligned_cols=50  Identities=26%  Similarity=0.458  Sum_probs=44.0

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCC--CCcCCChhchHHHHHHHHHHHHHH
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPG--CDKVTGKAFMLDEIINYVQFLQNQ  242 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~--~~K~tDKAsIL~eAI~YIk~Lq~q  242 (326)
                      +.-+..||||=.-||-.|..||.|+|.  +.|+ .||.||+.+.+||..|+.+
T Consensus        62 eIANsNERRRMQSINAGFqsLr~LlPr~eGEKL-SKAAILQQTa~yI~~Le~~  113 (373)
T KOG0561|consen   62 EIANSNERRRMQSINAGFQSLRALLPRKEGEKL-SKAAILQQTADYIHQLEGH  113 (373)
T ss_pred             HhhcchHHHHHHhhhHHHHHHHHhcCcccchhh-HHHHHHHHHHHHHHHHHhc
Confidence            345678999999999999999999995  4665 9999999999999999874

>PLN03217 transcription factor ATBS1; Provisional

Probab=97.41  E-value=0.0003  Score=57.77  Aligned_cols=51  Identities=33%  Similarity=0.520  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHHhhcCCCC------CcCCChhchHHHHHHHHHHHHHHHHHHHhhhhc
Q 020455          201 RREKISERMKILQKLVPGC------DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLAS  252 (326)
Q Consensus       201 RRekINer~~~LqsLVP~~------~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~  252 (326)
                      =-+.|+|-+..||.|+|..      ++. .-+-+|+||..||+.|+.+|..|++.++.
T Consensus        18 sddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdLSerLs~   74 (93)
T PLN03217         18 SEDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDLSERLSE   74 (93)
T ss_pred             CHHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3478999999999999964      333 56779999999999999999999998754

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=96.98  E-value=0.0008  Score=69.59  Aligned_cols=59  Identities=22%  Similarity=0.268  Sum_probs=48.7

Q ss_pred             CCCCCcchHHHHHHHHHHHHHHHHhhcCC---CCCcCCChhchHHHHHHHHHHHHHHHHHHH
Q 020455          189 QATDSHSLAERVRREKISERMKILQKLVP---GCDKVTGKAFMLDEIINYVQFLQNQVEFLS  247 (326)
Q Consensus       189 ~a~~~HslaERrRRekINer~~~LqsLVP---~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le  247 (326)
                      .++...+..||.|=..|||.|++|.++.=   ..+|.--|.-||..||.-|-.|++||.+-.
T Consensus       525 ERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN  586 (632)
T KOG3910|consen  525 ERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN  586 (632)
T ss_pred             HHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence            34456788999999999999999999875   234433599999999999999999998754

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

Probab=96.96  E-value=0.00078  Score=62.20  Aligned_cols=56  Identities=20%  Similarity=0.272  Sum_probs=48.6

Q ss_pred             cchHHHHHHHHHHHHHHHHhhcCCCC---CcCCChhchHHHHHHHHHHHHHHHHHHHhh
Q 020455          194 HSLAERVRREKISERMKILQKLVPGC---DKVTGKAFMLDEIINYVQFLQNQVEFLSMK  249 (326)
Q Consensus       194 HslaERrRRekINer~~~LqsLVP~~---~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~  249 (326)
                      ++..||.|=..+|..|..||.+||..   +|+..|..+|..||.||++|+.-++.-+..
T Consensus       113 ~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~  171 (228)
T KOG4029|consen  113 RNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAP  171 (228)
T ss_pred             hhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccC
Confidence            66779999999999999999999943   455699999999999999999988777644

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=91.02  E-value=0.13  Score=46.69  Aligned_cols=49  Identities=29%  Similarity=0.475  Sum_probs=42.9

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHH
Q 020455          193 SHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQ  242 (326)
Q Consensus       193 ~HslaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~q  242 (326)
                      .|++-||+|-..+|+.|..||.++|..  +|. .|.--|.-|-.||.+|=.-
T Consensus        81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~~v  131 (173)
T KOG4447|consen   81 MANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLYQV  131 (173)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhhhc
Confidence            499999999999999999999999954  675 7888899999999988543

>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]

Probab=87.56  E-value=0.47  Score=50.36  Aligned_cols=40  Identities=20%  Similarity=0.405  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHhhcCCC----CCcCCChhchHHHHHHHHHH
Q 020455          198 ERVRREKISERMKILQKLVPG----CDKVTGKAFMLDEIINYVQF  238 (326)
Q Consensus       198 ERrRRekINer~~~LqsLVP~----~~K~tDKAsIL~eAI~YIk~  238 (326)
                      -+|-|+|+|-.+..|.+|+|=    ..|+ ||.+||.-++-|++-
T Consensus        33 SKRHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr~   76 (712)
T KOG3560|consen   33 SKRHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLRV   76 (712)
T ss_pred             chhHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHHH
Confidence            357899999999999999994    4786 999999999999864

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

Probab=86.11  E-value=0.53  Score=50.99  Aligned_cols=44  Identities=32%  Similarity=0.394  Sum_probs=37.4

Q ss_pred             cchHHHHHHHHHHHHHHHHhhcCCCC----CcCCChhchHHHHHHHHHH
Q 020455          194 HSLAERVRREKISERMKILQKLVPGC----DKVTGKAFMLDEIINYVQF  238 (326)
Q Consensus       194 HslaERrRRekINer~~~LqsLVP~~----~K~tDKAsIL~eAI~YIk~  238 (326)
                      -.-+.|.||.|=|+-|.+|..+||--    ..+ |||+|+.-||-|++-
T Consensus        50 SRdAARsRRsKEn~~FyeLa~~lPlp~aisshL-DkaSimRLtISyLRl   97 (768)
T KOG3558|consen   50 SRDAARSRRSKENEEFYELAKLLPLPAAISSHL-DKASIMRLTISYLRL   97 (768)
T ss_pred             hhhhhhhhcccchHHHHHHHHhCCCcchhhhhh-hhHHHHHHHHHHHHH
Confidence            34478999999999999999999933    444 999999999999874

---

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	326
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	1e-16
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	6e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	5e-06
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	2e-05
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	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 = 72.8 bits (179), Expect = 1e-16
 Identities = 19/67 (28%), Positives = 38/67 (56%)

Query: 186 RRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEF 245
            RG+   +H+  E+  R  I++++  L+ LV G +    K+ +L + I+Y++FLQ+  + 
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 246 LSMKLAS 252
           L  +  S
Sbjct: 62  LKQENLS 68

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

 Score = 48.1 bits (115), Expect = 6e-08
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 192 DSHSLAERVRREKISERMKILQKLVPGCDKVTG-----KAFMLDEIINYVQFLQNQVE 244
             H+  ER RR+KI+  +  L K++P     +      K  +L +  +Y+Q L+    
Sbjct: 7   AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

>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 = 48.3 bits (114), Expect = 2e-06
 Identities = 43/280 (15%), Positives = 87/280 (31%), Gaps = 65/280 (23%)

Query: 69  NHDHHSDDNCNEPS-NNNSLATKNQSTAVSSTEQQVTQSTVTTTATTTRMDK--KRKNRT 125
           +H HH D    E       + +  +   V + + +  Q    +  +   +D     K+  
Sbjct: 2   HHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV 61

Query: 126 NASSS-FNSAQSKDPREVKSKKQKKGNVNDAKKEEKENSP-KADSEQKVAKEPP---KDY 180
           + +   F +  SK    V+        V +     + N        +   ++P    + Y
Sbjct: 62  SGTLRLFWTLLSKQEEMVQKF------VEEV---LRINYKFLMSPIKTEQRQPSMMTRMY 112

Query: 181 IHVRARRGQATDSHSLAER--VRREKISERMKILQKLVP----------GCDKVTGKAFM 228
           I  R R     D+   A+    R +   +  + L +L P          G     GK   
Sbjct: 113 IEQRDR--LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS----GK--- 163

Query: 229 LDEIINYVQFLQNQV-EFLSMKLASVNPMFYDFGMDLDNTFMVRPDD--QQLQHLKCNAA 285
                    ++   V     ++      +F+   ++L N     P+   + LQ L     
Sbjct: 164 --------TWVALDVCLSYKVQCKMDFKIFW---LNLKNCN--SPETVLEMLQKLLYQID 210

Query: 286 PQPSSQLLLTQPLPLP--QLIIAITILF---------LIL 314
           P  +S+   +  + L    +   +  L          L+L
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250

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

 Score = 43.1 bits (102), Expect = 5e-06
 Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 192 DSHSLAERVRREKISERMKILQKLVPGCDKVTG-KAFMLDEIINYVQFLQNQ 242
             H+  ER RR+ I +    L+  VP        +A +LD+   Y+Q+++ +
Sbjct: 4   AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 55

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

 Score = 41.2 bits (97), Expect = 2e-05
 Identities = 14/60 (23%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 192 DSHSLAERVRREKISERMKILQKLVPGCDKV-TGKAFMLDEIINYVQFLQNQVEFLSMKL 250
             H+  ER RR+ I +    L+  VP        +A +LD+   Y+Q+++ +       +
Sbjct: 14  AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 73

>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 = 40.8 bits (96), Expect = 4e-05
 Identities = 11/54 (20%), Positives = 25/54 (46%), Gaps = 2/54 (3%)

Query: 193 SHSLAERVRREKISERMKILQKLVPGCDKVTG--KAFMLDEIINYVQFLQNQVE 244
           +H++ ER RR ++      L+  +P  +      K  +L +   Y+  +Q + +
Sbjct: 9   THNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQ 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	326
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.66
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.66
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.56
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.55
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.55
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.5
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.47
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.46
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.41
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.38
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.25
4f3l_A	361	Mclock, circadian locomoter output cycles protein	99.01
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	98.97
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	98.89
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.89
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.6
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.45
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=99.66  E-value=2.3e-17  Score=129.67  Aligned_cols=65  Identities=26%  Similarity=0.413  Sum_probs=58.2

Q ss_pred             CCCCcchHHHHHHHHHHHHHHHHhhcCCCCCcCCChhchHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 020455          190 ATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVN  254 (326)
Q Consensus       190 a~~~HslaERrRRekINer~~~LqsLVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~~~  254 (326)
                      ++..|+++||+||++||++|.+|++|||+++.+.||++||++||+||++|+.+++.|++++..+.
T Consensus         6 rr~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~~~L~   70 (82)
T 1am9_A            6 KRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLR   70 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44679999999999999999999999999844469999999999999999999999998876543

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

Probab=99.66  E-value=1.1e-16  Score=133.74  Aligned_cols=73  Identities=27%  Similarity=0.377  Sum_probs=51.2

Q ss_pred             CcccccccccCCCCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCc---CCChhchHHHHHHHHHHHHHHHHHHHhh
Q 020455          177 PKDYIHVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDK---VTGKAFMLDEIINYVQFLQNQVEFLSMK  249 (326)
Q Consensus       177 ~~~~~~~Rarr~~a~~~HslaERrRRekINer~~~LqsLVP~~~K---~tDKAsIL~eAI~YIk~Lq~qVq~Le~~  249 (326)
                      +....+..+++++++.+|+++||+||++||++|.+|++|||+|.+   +.+|++||+.||+||++||.+++.|++.
T Consensus        14 t~~~~~~~~k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~~   89 (118)
T 4ati_A           14 TESEARALAKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDL   89 (118)
T ss_dssp             -----------------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcchHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334556778888999999999999999999999999999999853   2489999999999999999999999865

>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=99.56  E-value=1.1e-15  Score=114.59  Aligned_cols=56  Identities=27%  Similarity=0.395  Sum_probs=49.7

Q ss_pred             CCCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCc-----CCChhchHHHHHHHHHHHHHHH
Q 020455          188 GQATDSHSLAERVRREKISERMKILQKLVPGCDK-----VTGKAFMLDEIINYVQFLQNQV  243 (326)
Q Consensus       188 ~~a~~~HslaERrRRekINer~~~LqsLVP~~~K-----~tDKAsIL~eAI~YIk~Lq~qV  243 (326)
                      ..+...|+++||+||++||+.|.+|++|||.|..     +.+|++||+.||+||+.|+.+.
T Consensus         3 ~~rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~~   63 (65)
T 1an4_A            3 EKRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHHh
Confidence            3456789999999999999999999999999862     2499999999999999999865

>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=99.55  E-value=6.9e-16  Score=116.45  Aligned_cols=55  Identities=27%  Similarity=0.419  Sum_probs=48.2

Q ss_pred             CCCCcchHHHHHHHHHHHHHHHHhhcCCCCCc------CCChhchHHHHHHHHHHHHHHHH
Q 020455          190 ATDSHSLAERVRREKISERMKILQKLVPGCDK------VTGKAFMLDEIINYVQFLQNQVE  244 (326)
Q Consensus       190 a~~~HslaERrRRekINer~~~LqsLVP~~~K------~tDKAsIL~eAI~YIk~Lq~qVq  244 (326)
                      ++++|+++||+||++||+.|..|+.|||.+.+      ..+||+||+.||+||+.||++|+
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            35679999999999999999999999997633      23699999999999999998763

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

Probab=99.55  E-value=1.6e-15  Score=117.54  Aligned_cols=59  Identities=20%  Similarity=0.363  Sum_probs=51.8

Q ss_pred             CCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCcCCChhchHHHHHHHHHHHHHHHHHHH
Q 020455          189 QATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLS  247 (326)
Q Consensus       189 ~a~~~HslaERrRRekINer~~~LqsLVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le  247 (326)
                      .++.+|+++||+||++||++|.+|++|||++..+.||++||+.||+||+.||.++.-|+
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            34457999999999999999999999999865335999999999999999999887654

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

Probab=99.50  E-value=2e-15  Score=117.25  Aligned_cols=55  Identities=31%  Similarity=0.478  Sum_probs=48.6

Q ss_pred             cCCCCCCCcchHHHHHHHHHHHHHHHHhhcCCCC----CcCCChhchHHHHHHHHHHHHH
Q 020455          186 RRGQATDSHSLAERVRREKISERMKILQKLVPGC----DKVTGKAFMLDEIINYVQFLQN  241 (326)
Q Consensus       186 rr~~a~~~HslaERrRRekINer~~~LqsLVP~~----~K~tDKAsIL~eAI~YIk~Lq~  241 (326)
                      +..+++.+|+++||+||++||+.|.+|+.|||.|    .|+ |||+||+.||+||+.|+.
T Consensus         5 k~~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~Kl-dKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            5 RIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKL-DKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCC-CHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccc-cHHHHHHHHHHHHHHHhc
Confidence            3444567799999999999999999999999987    464 999999999999999974

>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=99.47  E-value=3.7e-14  Score=110.47  Aligned_cols=61  Identities=25%  Similarity=0.475  Sum_probs=55.7

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHHHHHHHhhhhc
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLAS  252 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~  252 (326)
                      ...|+.+||+||.+||+.|..|++|||.+  .| .+|++||..||+||+.|+.+++.|+.++..
T Consensus        13 R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k-~sK~~iL~~Ai~YI~~L~~~~~~L~~e~~~   75 (80)
T 1hlo_A           13 RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEK-ASRAQILDKATEYIQYMRRKNHTHQQDIDD   75 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34699999999999999999999999987  46 499999999999999999999999988654

>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=99.46  E-value=5e-14  Score=110.11  Aligned_cols=59  Identities=25%  Similarity=0.490  Sum_probs=53.4

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHHHHHHHhhhh
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLA  251 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~  251 (326)
                      ..|+.+||+||++||+.|..|+++||.+  .| .+|++||..||+||+.|+.+++.|+.++.
T Consensus         4 ~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k-~sK~~iL~~Ai~YI~~L~~~~~~l~~e~~   64 (83)
T 1nkp_B            4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEK-ASRAQILDKATEYIQYMRRKNHTHQQDID   64 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999985  66 49999999999999999998888886653

>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=99.41  E-value=2.2e-13  Score=108.64  Aligned_cols=58  Identities=22%  Similarity=0.365  Sum_probs=51.8

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCCC---CcCCChhchHHHHHHHHHHHHHHHHHHHhhh
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPGC---DKVTGKAFMLDEIINYVQFLQNQVEFLSMKL  250 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~~---~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~  250 (326)
                      ..|+..||+||++||++|..|+++||.+   .| .+|++||..||+||++|+.+.+.|..+.
T Consensus         8 ~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K-~sK~~iL~~A~~YI~~L~~~~~~l~~~~   68 (88)
T 1nkp_A            8 RTHNVLERQRRNELKRSFFALRDQIPELENNEK-APKVVILKKATAYILSVQAEEQKLISEE   68 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTT-CCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3599999999999999999999999976   46 4999999999999999999988776543

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

Probab=99.38  E-value=2e-13  Score=106.62  Aligned_cols=58  Identities=26%  Similarity=0.360  Sum_probs=49.2

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCC---CcCCChhchHHHHHHHHHHHHHHHHHHHh
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGC---DKVTGKAFMLDEIINYVQFLQNQVEFLSM  248 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~---~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~  248 (326)
                      ...|+..||+||+.||+.|.+|+.+||.+   +|...|+.||..||+||++|+++|++++.
T Consensus         6 R~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~   66 (76)
T 3u5v_A            6 RAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNL   66 (76)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             HhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35699999999999999999999999953   44336889999999999999999998864

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

Probab=99.25  E-value=1e-11  Score=97.57  Aligned_cols=58  Identities=17%  Similarity=0.205  Sum_probs=52.0

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhcCCCC---CcCCChhchHHHHHHHHHHHHHHHHHHHhhhh
Q 020455          193 SHSLAERVRREKISERMKILQKLVPGC---DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLA  251 (326)
Q Consensus       193 ~HslaERrRRekINer~~~LqsLVP~~---~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~  251 (326)
                      .|+..||+||..||+.|..|+++||.+   .| ..|+.||..||+||+.|+.+.+.|..+..
T Consensus         4 ~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k-~sk~~iL~kA~~yI~~L~~~~~~l~~e~~   64 (80)
T 1nlw_A            4 THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSR-HTTLSLLTKAKLHIKKLEDSDRKAVHQID   64 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCC-CTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            599999999999999999999999965   45 48999999999999999999988876643

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

Probab=99.01  E-value=2.4e-10  Score=107.79  Aligned_cols=55  Identities=22%  Similarity=0.385  Sum_probs=41.4

Q ss_pred             CCCCCCCcchHHHHHHHHHHHHHHHHhhcCCC-CCcCCChhchHHHHHHHHHHHHHH
Q 020455          187 RGQATDSHSLAERVRREKISERMKILQKLVPG-CDKVTGKAFMLDEIINYVQFLQNQ  242 (326)
Q Consensus       187 r~~a~~~HslaERrRRekINer~~~LqsLVP~-~~K~tDKAsIL~eAI~YIk~Lq~q  242 (326)
                      ...+..+|+.+||+||++||+.|.+|++|||. ..|+ ||++||..||+||+.|+..
T Consensus         9 ~~~~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~-dk~~il~~~~~~~~~~~~~   64 (361)
T 4f3l_A            9 DKAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKM-DKSTVLQKSIDFLRKHKET   64 (361)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHTCCSSSCCC-CHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCc-CHHHHHHHHHHHHHHHHhh
Confidence            34455679999999999999999999999994 4565 9999999999999999864

>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=98.97  E-value=4.3e-10  Score=86.15  Aligned_cols=53  Identities=23%  Similarity=0.342  Sum_probs=46.5

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCCC-CcCCChhchHHHHHHHHHHHHHHHH
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPGC-DKVTGKAFMLDEIINYVQFLQNQVE  244 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~~-~K~tDKAsIL~eAI~YIk~Lq~qVq  244 (326)
                      ..|+..||+|+..||+.|..|+++||.. +++.+|+.||..||+||.+|++.++
T Consensus        14 ~~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~tLr~Ai~YI~~L~~~L~   67 (68)
T 1mdy_A           14 KAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHc
Confidence            3499999999999999999999999964 3335899999999999999998653

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

Probab=98.89  E-value=1.7e-09  Score=80.94  Aligned_cols=52  Identities=23%  Similarity=0.254  Sum_probs=46.1

Q ss_pred             CcchHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHHHH
Q 020455          193 SHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVE  244 (326)
Q Consensus       193 ~HslaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~qVq  244 (326)
                      .|+..||+|+..||+.|..|+++||..  +++..|..+|..||+||..|++.++
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            388999999999999999999999964  3445999999999999999998764

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

Probab=98.89  E-value=4.5e-10  Score=107.40  Aligned_cols=56  Identities=29%  Similarity=0.387  Sum_probs=48.3

Q ss_pred             cCCCCCCCcchHHHHHHHHHHHHHHHHhhcCC----CCCcCCChhchHHHHHHHHHHHHHH
Q 020455          186 RRGQATDSHSLAERVRREKISERMKILQKLVP----GCDKVTGKAFMLDEIINYVQFLQNQ  242 (326)
Q Consensus       186 rr~~a~~~HslaERrRRekINer~~~LqsLVP----~~~K~tDKAsIL~eAI~YIk~Lq~q  242 (326)
                      |.+.++++|+.+||+||++||+.|.+|+.|||    ...|+ ||++||..||+||+.|+..
T Consensus         9 ~~~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~-dk~~il~~~~~~l~~~~~~   68 (387)
T 4f3l_B            9 RIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKL-DKLTVLRMAVQHMKTLRGA   68 (387)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCC-CHHHHHHHHHHHHHHHHCC
T ss_pred             hhhhhcccccchhhcchHHHHHHHHHHHHhcCCCCcccccc-CHHHHHHHHHHHHHHhhcc
Confidence            44555678999999999999999999999999    45675 9999999999999999853

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

Probab=98.60  E-value=5.8e-08  Score=77.33  Aligned_cols=48  Identities=25%  Similarity=0.362  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHhhcCCCCCc---CCChhchHHHHHHHHHHHHHHHHHHHhh
Q 020455          202 REKISERMKILQKLVPGCDK---VTGKAFMLDEIINYVQFLQNQVEFLSMK  249 (326)
Q Consensus       202 RekINer~~~LqsLVP~~~K---~tDKAsIL~eAI~YIk~Lq~qVq~Le~~  249 (326)
                      |..||++|.+|..|||.+..   ..+|++||..||+||++||..++.+.+.
T Consensus         4 R~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~r~~e~   54 (83)
T 4ath_A            4 RFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDL   54 (83)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHHHHHHH
T ss_pred             hhhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88999999999999997632   2489999999999999999877666543

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

Probab=98.45  E-value=5.8e-08  Score=74.79  Aligned_cols=47  Identities=21%  Similarity=0.304  Sum_probs=40.7

Q ss_pred             chHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHH
Q 020455          195 SLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQN  241 (326)
Q Consensus       195 slaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~  241 (326)
                      +..||+|+..||+.|..||.+||..  +++..|..+|..||+||..||.
T Consensus        19 ~erER~Rm~~lN~aF~~LR~~VP~~p~~kKLSKiEtLr~Ai~YI~~Lq~   67 (68)
T 2lfh_A           19 AEEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQV   67 (68)
T ss_dssp             BCCCSCSSSHHHHHHHHHHHHCCCCCTTCCCCHHHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHHHHHHHHCCCCCCCCCccHHHHHHHHHHHHHHHHc
Confidence            3458899999999999999999965  3345899999999999999984

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

Probab=97.84  E-value=2.8e-05  Score=63.49  Aligned_cols=50  Identities=22%  Similarity=0.263  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHHHHHHH
Q 020455          198 ERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVEFLS  247 (326)
Q Consensus       198 ERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~qVq~Le  247 (326)
                      ||.|=..||+.|..||.+||..  +++..|..+|..||+||..|+..++.-.
T Consensus        33 ~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~~~   84 (97)
T 4aya_A           33 PMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDSHL   84 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            4677778999999999999964  4445899999999999999998876543

---

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	326
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	4e-14
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	1e-12
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	1e-11
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	1e-11
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	2e-11
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	1e-09
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	2e-09
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	1e-08

>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 = 64.0 bits (156), Expect = 4e-14
 Identities = 14/51 (27%), Positives = 27/51 (52%)

Query: 202 REKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLAS 252
           R  I++++  L+ LV G D    K+ +L + I+Y+++LQ     L  +   
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMV 51

>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 = 60.3 bits (146), Expect = 1e-12
 Identities = 19/67 (28%), Positives = 38/67 (56%)

Query: 186 RRGQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEF 245
            RG+   +H+  E+  R  I++++  L+ LV G +    K+ +L + I+Y++FLQ+  + 
Sbjct: 2   SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQK 61

Query: 246 LSMKLAS 252
           L  +  S
Sbjct: 62  LKQENLS 68

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

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

 Score = 58.0 bits (140), Expect = 1e-11
 Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 6/72 (8%)

Query: 182 HVRARRGQATDSHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFL 239
           H+  +R     +H++ ER RR ++      L+  +P    ++   K  +L +   Y+  +
Sbjct: 2   HMNVKR----RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSV 57

Query: 240 QNQVEFLSMKLA 251
           Q + + L  +  
Sbjct: 58  QAEEQKLISEED 69

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

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

 Score = 56.8 bits (137), Expect = 1e-11
 Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 6/59 (10%)

Query: 192 DSHSLAERVRREKISERMKILQKLVPGCDKVTG------KAFMLDEIINYVQFLQNQVE 244
           +SH  AE+ RR +++  +  L  L+P   K         KA  ++    Y++ LQ    
Sbjct: 4   ESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

>d1mdya_ a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 68

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

 Score = 56.4 bits (136), Expect = 2e-11
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 193 SHSLAERVRREKISERMKILQKLVPGC-DKVTGKAFMLDEIINYVQFLQNQVE 244
           + ++ ER R  K++E  + L++      ++   K  +L   I Y++ LQ  + 
Sbjct: 15  AATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR 67

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

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

 Score = 52.2 bits (125), Expect = 1e-09
 Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 193 SHSLAERVRREKISERMKILQKLVPGC-DKVTGKAFMLDEIINYVQFLQNQVEFLSMKL 250
            H+  ER RR+ I +    L+  VP    +   +A +LD+   Y+Q+++ +       +
Sbjct: 5   HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 63

>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 = 50.9 bits (122), Expect = 2e-09
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 192 DSHSLAERVRREKISERMKILQKLVPGCDKVTG-----KAFMLDEIINYVQFLQNQVE 244
             H+  ER RR+KI+  +  L K++P     +      K  +L +  +Y+Q L+    
Sbjct: 7   AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

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

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

 Score = 49.1 bits (117), Expect = 1e-08
 Identities = 10/60 (16%), Positives = 26/60 (43%), Gaps = 2/60 (3%)

Query: 193 SHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVEFLSMKL 250
           +H+  E+ RR  +   ++ L+ LVP            +L +   +++ L++       ++
Sbjct: 4   THNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQI 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	326
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.57
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.5
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.45
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.45
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.43
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.41
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.39

>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=99.57  E-value=3.2e-16  Score=120.29  Aligned_cols=63  Identities=27%  Similarity=0.426  Sum_probs=57.3

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCCCcCCChhchHHHHHHHHHHHHHHHHHHHhhhhcC
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASV  253 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~~  253 (326)
                      ...|+.+||+||++||+.|..|++|||++...++|++||..||+||+.|+.+++.|.+++..+
T Consensus         7 R~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~e~~~l   69 (80)
T d1am9a_           7 RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSL   69 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356999999999999999999999999986556999999999999999999999999887554

>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=99.50  E-value=6.1e-15  Score=108.69  Aligned_cols=52  Identities=27%  Similarity=0.452  Sum_probs=46.7

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCC-------CcCCChhchHHHHHHHHHHHHHHH
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGC-------DKVTGKAFMLDEIINYVQFLQNQV  243 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~-------~K~tDKAsIL~eAI~YIk~Lq~qV  243 (326)
                      +..|+++||+||++||+.|..|++|||++       .| .+|+.||+.||+||+.||++|
T Consensus         3 R~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k-~sKa~iL~~Av~yI~~Lq~~v   61 (63)
T d1a0aa_           3 RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAA-PSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             TTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCC-SCTTHHHHHHHHHHHHHHTCS
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCccc-ccHHHHHHHHHHHHHHHHHhh
Confidence            35699999999999999999999999953       45 499999999999999999865

>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=99.45  E-value=5.3e-14  Score=107.06  Aligned_cols=60  Identities=17%  Similarity=0.169  Sum_probs=53.3

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCCCC--cCCChhchHHHHHHHHHHHHHHHHHHHhhhh
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPGCD--KVTGKAFMLDEIINYVQFLQNQVEFLSMKLA  251 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~~~--K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~  251 (326)
                      ..|+.+||+||++||+.|..|++|||++.  .+.+|++||..||+||+.|+.+++.|..+..
T Consensus         3 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~   64 (79)
T d1nlwa_           3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQID   64 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35999999999999999999999999763  2259999999999999999999999987654

>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=99.45  E-value=2e-14  Score=107.70  Aligned_cols=53  Identities=23%  Similarity=0.324  Sum_probs=47.7

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCCCC-cCCChhchHHHHHHHHHHHHHHHH
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPGCD-KVTGKAFMLDEIINYVQFLQNQVE  244 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~~~-K~tDKAsIL~eAI~YIk~Lq~qVq  244 (326)
                      ..|+..||+||++||+.|..|++|||.+. +..+|++||+.||+||++||++|+
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            45999999999999999999999999873 335999999999999999998764

>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=99.44  E-value=1.2e-14  Score=106.72  Aligned_cols=54  Identities=26%  Similarity=0.369  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHhhcCCCCCcCCChhchHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 020455          202 REKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNP  255 (326)
Q Consensus       202 RekINer~~~LqsLVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~~~P  255 (326)
                      |++||++|..|++|||++.+++|||+||.+||+||++|+.+++.|++++..++.
T Consensus         1 R~~in~~f~~L~~lvP~~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L~~e~~~L~~   54 (61)
T d1uklc_           1 RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMVLKL   54 (61)
T ss_dssp             CCCHHHHHHHHHHHHSCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            678999999999999998755699999999999999999999999998766543

>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=99.43  E-value=8.4e-14  Score=106.83  Aligned_cols=60  Identities=23%  Similarity=0.447  Sum_probs=53.0

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCCC-CcCCChhchHHHHHHHHHHHHHHHHHHHhhhh
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPGC-DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLA  251 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~~-~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~  251 (326)
                      ..|+.+||+||++||+.|..|++|||++ ++..+|++||..||+||+.|+.+++.|..+..
T Consensus         4 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~   64 (83)
T d1nkpb_           4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID   64 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999975 23359999999999999999999988886643

>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=99.41  E-value=9.6e-14  Score=107.55  Aligned_cols=61  Identities=20%  Similarity=0.314  Sum_probs=53.9

Q ss_pred             CCcchHHHHHHHHHHHHHHHHhhcCCCCC--cCCChhchHHHHHHHHHHHHHHHHHHHhhhhc
Q 020455          192 DSHSLAERVRREKISERMKILQKLVPGCD--KVTGKAFMLDEIINYVQFLQNQVEFLSMKLAS  252 (326)
Q Consensus       192 ~~HslaERrRRekINer~~~LqsLVP~~~--K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~  252 (326)
                      ..|+.+||+||++||+.|..|++|||++.  ...+|++||..||+||+.|+.+++.|..+...
T Consensus         8 ~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~~~~   70 (88)
T d1nkpa_           8 RTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEEDL   70 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45999999999999999999999999762  22499999999999999999999999876544

>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=99.39  E-value=7.2e-14  Score=103.41  Aligned_cols=52  Identities=29%  Similarity=0.448  Sum_probs=46.2

Q ss_pred             CCCcchHHHHHHHHHHHHHHHHhhcCCCCC------cCCChhchHHHHHHHHHHHHHHH
Q 020455          191 TDSHSLAERVRREKISERMKILQKLVPGCD------KVTGKAFMLDEIINYVQFLQNQV  243 (326)
Q Consensus       191 ~~~HslaERrRRekINer~~~LqsLVP~~~------K~tDKAsIL~eAI~YIk~Lq~qV  243 (326)
                      ...|+.+||+||++||+.|..|++|||.+.      + .+|++||..||+||+.||++.
T Consensus         6 R~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k-~sK~~iL~~av~yI~~Lq~~~   63 (65)
T d1an4a_           6 RAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSG-QSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTC-CCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCC-CCHHHHHHHHHHHHHHHHHhh
Confidence            346999999999999999999999999753      5 489999999999999998753