Citrus Sinensis ID: 040019

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160------
Protein Sequence
MAVCLCCHQQMFSLFFVVQLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYRTRQPDAPAFVKPESSTPS
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHccccccccccccccccccccccccccccccHHHHHHHHHHHcHHHHHHHHHHccccEcHHHHHHHHHccccccccccccccccccc
Coil and Loop (DISEMBL)
MAVCLCCHQQMFSLFFVVQLRRERIADRMRALQELvpscnktdrAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVAdvplssalegesidggssqpewekwsndgTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYrtrqpdapafvkpesstps
Flexible Loop (DISEMBL)
mavclcchqqmFSLFFVVQLRRERIADRMRALqelvpscnktdraAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADVPLSSALEGesidggssqpewekwsNDGTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYRTRQPDApafvkpesstps
Low Complexity Region (SEG)
MAVCLCCHQQMFSLFFVVQLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRlgaagavaqlvaDVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYRTRQPDAPAFVKPESSTPS
Disordered region (IsUnstruct)
**VCLCCHQQMFSLFFVVQLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADVPL**********************************EEDIGAAMQFLQSKALCIMPISLASAIYRT*****************
Disordered Region (DISOPRED)
************************IADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLS**************************************************************FLQSKALCIMPISLASAIYRTRQPDAPA***P******
Disordered Region (DISEMBL)
MAVCLCCHQQMFSLFFVVQLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADVPLSSA***********************EQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYRTRQPDAP***********
Disordered Region (DISPRO)
MAVCLCCHQQMFSLFFVVQLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADV*************************DGTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYR******************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAVCLCCHQQMFSLFFVVQLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYRTRQPDAPAFVKPESSTPS
Positional Conservation
no confident homologs detected

---

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	166	2.2.26 [Sep-21-2011]
O22768	310	Transcription factor UNE1	yes	no	0.807	0.432	0.748	7e-54
Q93Y00	302	Transcription factor bHLH	no	no	0.777	0.427	0.720	4e-49
Q9ZUG9	350	Transcription factor bHLH	no	no	0.825	0.391	0.578	2e-39
Q8S3D5	310	Transcription factor bHLH	no	no	0.777	0.416	0.577	2e-37
Q9LSQ3	297	Transcription factor bHLH	no	no	0.843	0.471	0.522	6e-36
O80536	524	Transcription factor PIF3	no	no	0.283	0.089	0.617	8e-13
Q8GZM7	478	Transcription factor PIF1	no	no	0.283	0.098	0.595	3e-12
Q6NKN9	366	Transcription factor bHLH	no	no	0.295	0.133	0.62	5e-11
Q9FUA4	373	Transcription factor SPAT	no	no	0.283	0.126	0.574	2e-10
Q84WK0	352	Transcription factor bHLH	no	no	0.403	0.190	0.507	2e-10

>sp|O22768|UNE12_ARATH Transcription factor UNE12 OS=Arabidopsis thaliana GN=UNE12 PE=2 SV=2

 Score =  209 bits (532), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 101/135 (74%), Positives = 118/135 (87%), Gaps = 1/135 (0%)

Query: 32  LQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADVPLSSALEG 91
           LQELVP+ NKTDRAAM+DEIVDYVKFLRLQVKVLSMSRLG AGAVA LV D+PLSS++E 
Sbjct: 175 LQELVPTVNKTDRAAMIDEIVDYVKFLRLQVKVLSMSRLGGAGAVAPLVTDMPLSSSVED 234

Query: 92  ESIDGG-SSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYRTR 150
           E+ +GG + QP WEKWSNDGTE+QVAKLMEE++GAAMQ LQSKALC+MPISLA AIY ++
Sbjct: 235 ETGEGGRTPQPAWEKWSNDGTERQVAKLMEENVGAAMQLLQSKALCMMPISLAMAIYHSQ 294

Query: 151 QPDAPAFVKPESSTP 165
            PD  + VKPE++ P
Sbjct: 295 PPDTSSVVKPENNPP 309

Required for ovule fertilization.
Arabidopsis thaliana (taxid: 3702)

>sp|Q93Y00|BH007_ARATH Transcription factor bHLH7 OS=Arabidopsis thaliana GN=BHLH7 PE=2 SV=1

 Score =  193 bits (491), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 98/136 (72%), Positives = 114/136 (83%), Gaps = 7/136 (5%)

Query: 31  ALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLVADVPLSSALE 90
           +LQELVP+ NKTDRAAM+DEIVDYVKFLRLQVKVLSMSRLG AGAVA LV ++PLSS++E
Sbjct: 172 SLQELVPTVNKTDRAAMIDEIVDYVKFLRLQVKVLSMSRLGGAGAVAPLVTEMPLSSSVE 231

Query: 91  GESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIMPISLASAIYRTR 150
            E      +Q  WEKWSNDGTE+QVAKLMEE++GAAMQ LQSKALCIMPISLA AIY ++
Sbjct: 232 DE------TQAVWEKWSNDGTERQVAKLMEENVGAAMQLLQSKALCIMPISLAMAIYHSQ 285

Query: 151 QPD-APAFVKPESSTP 165
            PD + + VKPE + P
Sbjct: 286 PPDTSSSIVKPEMNPP 301

Arabidopsis thaliana (taxid: 3702)

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

 Score =  161 bits (407), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 85/147 (57%), Positives = 107/147 (72%), Gaps = 10/147 (6%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVP+ NKTD+A+MLDEI+DYVKFL+LQVKVLSMSRLG A +V+ 
Sbjct: 154 RLRRERIAERMKALQELVPNGNKTDKASMLDEIIDYVKFLQLQVKVLSMSRLGGAASVSS 213

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDG---TEQQVAKLMEEDIGAAMQFLQSKAL 135
            +++   S      ++ GGS   +    SND    TE QVAKLMEED+G+AMQ+LQ K L
Sbjct: 214 QISEAGGSHGNASSAMVGGS---QTAGNSNDSVTMTEHQVAKLMEEDMGSAMQYLQGKGL 270

Query: 136 CIMPISLASAIY----RTRQPDAPAFV 158
           C+MPISLA+AI      +R P  P  V
Sbjct: 271 CLMPISLATAISTATCHSRNPLIPGAV 297

Arabidopsis thaliana (taxid: 3702)

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

 Score =  154 bits (390), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 82/142 (57%), Positives = 99/142 (69%), Gaps = 13/142 (9%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRL-GAAGAVA 77
           +LRRERIA+RM++LQELVP+ NKTD+A+MLDEI+DYVKFL+LQVKVLSMSRL GAA A +
Sbjct: 146 RLRRERIAERMKSLQELVPNGNKTDKASMLDEIIDYVKFLQLQVKVLSMSRLGGAASASS 205

Query: 78  QLVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCI 137
           Q+  D             GGS +          TE QVAKLMEED+G+AMQ+LQ K LC+
Sbjct: 206 QISEDA------------GGSHENTSSSGEAKMTEHQVAKLMEEDMGSAMQYLQGKGLCL 253

Query: 138 MPISLASAIYRTRQPDAPAFVK 159
           MPISLA+ I     P    FVK
Sbjct: 254 MPISLATTISTATCPSRSPFVK 275

Arabidopsis thaliana (taxid: 3702)

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

 Score =  149 bits (377), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 82/157 (52%), Positives = 104/157 (66%), Gaps = 17/157 (10%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAV-- 76
           +LRRERIA+RM++LQELVP+ NKTD+A+MLDEI++YV+FL+LQVKVLSMSRLG AG+V  
Sbjct: 115 RLRRERIAERMKSLQELVPNTNKTDKASMLDEIIEYVRFLQLQVKVLSMSRLGGAGSVGP 174

Query: 77  ----------AQLVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAA 126
                      +L A     + L G     GSS           TEQ+VAKLMEED+G+A
Sbjct: 175 RLNGLSAEAGGRLNALTAPCNGLNGNGNATGSSNESLRS-----TEQRVAKLMEEDMGSA 229

Query: 127 MQFLQSKALCIMPISLASAIYRTRQPDAPAFVKPESS 163
           MQ+LQ K LC+MPISLA+AI  +      +   P SS
Sbjct: 230 MQYLQGKGLCLMPISLATAISSSTTHSRGSLFNPISS 266

Arabidopsis thaliana (taxid: 3702)

>sp|O80536|PIF3_ARATH Transcription factor PIF3 OS=Arabidopsis thaliana GN=PIF3 PE=1 SV=1

 Score = 72.8 bits (177), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 43/47 (91%)

Query: 21  RRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSM 67
           RR+RI ++MRALQEL+P+CNK D+A+MLDE ++Y+K L+LQV+++SM
Sbjct: 355 RRDRINEKMRALQELIPNCNKVDKASMLDEAIEYLKSLQLQVQIMSM 401

Transcription factor acting positively in the phytochrome signaling pathway. Activates transcription by binding to the G box (5'-CACGTG-3').

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GZM7|PIF1_ARATH Transcription factor PIF1 OS=Arabidopsis thaliana GN=PIF1 PE=1 SV=1

 Score = 71.2 bits (173), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 28/47 (59%), Positives = 43/47 (91%)

Query: 21  RRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSM 67
           RR+RI +RM+ALQEL+P CNK+D+A+MLDE ++Y+K L+LQ++++SM
Sbjct: 296 RRDRINERMKALQELIPRCNKSDKASMLDEAIEYMKSLQLQIQMMSM 342

Transcription activator. Regulates negatively chlorophyll biosynthesis and seed germination in the dark, and lightinduced degradation of PIF1 relieves this negative regulation to promote photomorphogenesis. Binds to the G-box motif (5'-CACGTG-3') found in many light-regulated promoters. Promotes the expression of SOM, and thus modulates responses to abscisic acid (ABA) and gibberellic acid (GA).

Arabidopsis thaliana (taxid: 3702)

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

 Score = 67.0 bits (162), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 31/50 (62%), Positives = 42/50 (84%), Gaps = 1/50 (2%)

Query: 19  QLRRERIADRMRALQELVPSCNK-TDRAAMLDEIVDYVKFLRLQVKVLSM 67
           ++RRE+I++RMR LQELVP CNK T +A MLDEI++YV+ L+ QV+ LSM
Sbjct: 222 RVRREKISERMRLLQELVPGCNKITGKAVMLDEIINYVQSLQQQVEFLSM 271

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FUA4|SPT_ARATH Transcription factor SPATULA OS=Arabidopsis thaliana GN=SPT PE=1 SV=1

 Score = 65.5 bits (158), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/47 (57%), Positives = 41/47 (87%)

Query: 21  RRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSM 67
           RR RI ++M+ALQ L+P+ NKTD+A+MLDE ++Y+K L+LQV++L+M
Sbjct: 209 RRSRINEKMKALQSLIPNSNKTDKASMLDEAIEYLKQLQLQVQMLTM 255

Transcription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 65.1 bits (157), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/67 (50%), Positives = 44/67 (65%)

Query: 21  RRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQLV 80
           RRERI +R+R LQ LVP+  K D + ML+E V YVKFL+LQ+K+LS   L     +A   
Sbjct: 284 RRERINERLRILQNLVPNGTKVDISTMLEEAVHYVKFLQLQIKLLSSDDLWMYAPIAFNG 343

Query: 81  ADVPLSS 87
            D+ LSS
Sbjct: 344 MDIGLSS 350

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	166
255580949	326	conserved hypothetical protein [Ricinus	0.885	0.450	0.852	7e-66
449530006	219	PREDICTED: transcription factor UNE12-li	0.879	0.666	0.836	3e-64
449435746	318	PREDICTED: transcription factor UNE12-li	0.879	0.459	0.836	7e-64
359487888	331	PREDICTED: transcription factor UNE12-li	0.885	0.444	0.824	1e-63
224131266	182	predicted protein [Populus trichocarpa]	0.885	0.807	0.804	2e-63
298204851	261	unnamed protein product [Vitis vinifera]	0.885	0.563	0.824	2e-63
225432880	313	PREDICTED: transcription factor UNE12 [V	0.885	0.469	0.790	5e-62
223702396	342	putative basic helix-loop-helix protein	0.873	0.423	0.821	6e-62
147771925	337	hypothetical protein VITISV_032727 [Viti	0.885	0.436	0.790	1e-61
224123420	178	predicted protein [Populus trichocarpa]	0.885	0.825	0.777	1e-60

>gi|255580949|ref|XP_002531293.1| conserved hypothetical protein [Ricinus communis] gi|223529126|gb|EEF31106.1| conserved hypothetical protein [Ricinus communis]

 Score =  254 bits (650), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 127/149 (85%), Positives = 139/149 (93%), Gaps = 2/149 (1%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVP+ NKTDRAAM+DEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ
Sbjct: 179 RLRRERIAERMKALQELVPTANKTDRAAMIDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 238

Query: 79  LVADVPLSSALEGESIDGGS-SQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCI 137
           LVADVPL+S +EGESIDG + +Q  WEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCI
Sbjct: 239 LVADVPLAS-VEGESIDGAAANQQTWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCI 297

Query: 138 MPISLASAIYRTRQPDAPAFVKPESSTPS 166
           MPISLASAI RT  PDAP+ +KPES+TPS
Sbjct: 298 MPISLASAILRTHPPDAPSIIKPESNTPS 326

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449530006|ref|XP_004171988.1| PREDICTED: transcription factor UNE12-like, partial [Cucumis sativus]

 Score =  249 bits (636), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 123/147 (83%), Positives = 134/147 (91%), Gaps = 1/147 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLG AGAVAQ
Sbjct: 74  RLRRERIAERMKALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGGAGAVAQ 133

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVADVPLSS +EGE I+ G++Q  WEKWS+DGTEQQVAKLMEED+GAAMQFLQSKALCIM
Sbjct: 134 LVADVPLSS-VEGEGIESGNNQQAWEKWSSDGTEQQVAKLMEEDVGAAMQFLQSKALCIM 192

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTP 165
           PISLASAI+RT Q D    VKPE +TP
Sbjct: 193 PISLASAIFRTHQADPQILVKPEMNTP 219

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449435746|ref|XP_004135655.1| PREDICTED: transcription factor UNE12-like [Cucumis sativus]

 Score =  248 bits (632), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 123/147 (83%), Positives = 134/147 (91%), Gaps = 1/147 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLG AGAVAQ
Sbjct: 173 RLRRERIAERMKALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGGAGAVAQ 232

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVADVPLSS +EGE I+ G++Q  WEKWS+DGTEQQVAKLMEED+GAAMQFLQSKALCIM
Sbjct: 233 LVADVPLSS-VEGEGIESGNNQQAWEKWSSDGTEQQVAKLMEEDVGAAMQFLQSKALCIM 291

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTP 165
           PISLASAI+RT Q D    VKPE +TP
Sbjct: 292 PISLASAIFRTHQADPQILVKPEMNTP 318

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487888|ref|XP_002274833.2| PREDICTED: transcription factor UNE12-like [Vitis vinifera]

 Score =  247 bits (630), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 122/148 (82%), Positives = 132/148 (89%), Gaps = 1/148 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVPS NKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLG AGAVAQ
Sbjct: 185 RLRRERIAERMKALQELVPSANKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGGAGAVAQ 244

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVADVPL S +EG+  +GGS+Q  WEKWS DGTEQQVAKLMEED+GAAMQFLQSKALCIM
Sbjct: 245 LVADVPLLS-IEGDGTEGGSNQQAWEKWSTDGTEQQVAKLMEEDVGAAMQFLQSKALCIM 303

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTPS 166
           PISLASAI+RT QP+    VKPES  PS
Sbjct: 304 PISLASAIFRTHQPEPSTLVKPESDAPS 331

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131266|ref|XP_002328496.1| predicted protein [Populus trichocarpa] gi|222838211|gb|EEE76576.1| predicted protein [Populus trichocarpa]

 Score =  246 bits (629), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 119/148 (80%), Positives = 135/148 (91%), Gaps = 1/148 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRR RI +R++ALQELVP+CNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ
Sbjct: 36  RLRRVRITERVKALQELVPTCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 95

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVADVPLSS ++GE I+GG++Q  WE WSNDGTEQ+VAKLMEED+GAAMQ LQSKALCIM
Sbjct: 96  LVADVPLSS-VQGEGIEGGANQQAWENWSNDGTEQEVAKLMEEDVGAAMQLLQSKALCIM 154

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTPS 166
           P+SLASAI+R R P+AP  VKPES+ PS
Sbjct: 155 PVSLASAIFRARPPNAPTLVKPESNPPS 182

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298204851|emb|CBI34158.3| unnamed protein product [Vitis vinifera]

 Score =  246 bits (629), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 122/148 (82%), Positives = 132/148 (89%), Gaps = 1/148 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVPS NKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLG AGAVAQ
Sbjct: 115 RLRRERIAERMKALQELVPSANKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGGAGAVAQ 174

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVADVPL S +EG+  +GGS+Q  WEKWS DGTEQQVAKLMEED+GAAMQFLQSKALCIM
Sbjct: 175 LVADVPLLS-IEGDGTEGGSNQQAWEKWSTDGTEQQVAKLMEEDVGAAMQFLQSKALCIM 233

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTPS 166
           PISLASAI+RT QP+    VKPES  PS
Sbjct: 234 PISLASAIFRTHQPEPSTLVKPESDAPS 261

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225432880|ref|XP_002284047.1| PREDICTED: transcription factor UNE12 [Vitis vinifera] gi|297737150|emb|CBI26351.3| unnamed protein product [Vitis vinifera]

 Score =  242 bits (617), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 117/148 (79%), Positives = 132/148 (89%), Gaps = 1/148 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVPS NKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLG AGAVAQ
Sbjct: 167 RLRRERIAERMKALQELVPSSNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGGAGAVAQ 226

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVAD+PL  A+EGE+ +GGS+Q  W+KWSNDGTE++VAKLMEED+GAAMQFLQSKALCIM
Sbjct: 227 LVADIPLP-AVEGETGEGGSNQQAWDKWSNDGTEREVAKLMEEDVGAAMQFLQSKALCIM 285

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTPS 166
           PISLA+AIY   Q D P  +KPE + PS
Sbjct: 286 PISLAAAIYPAHQTDTPTLIKPEPNAPS 313

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|223702396|gb|ACN21629.1| putative basic helix-loop-helix protein BHLH2 [Lotus japonicus] gi|388506732|gb|AFK41432.1| unknown [Lotus japonicus]

 Score =  241 bits (616), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 120/146 (82%), Positives = 132/146 (90%), Gaps = 1/146 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RMRALQELVPS NK+DRAAMLDEIVDYVKFLRLQVKVLSMSRLG AGAVAQ
Sbjct: 196 RLRRERIAERMRALQELVPSINKSDRAAMLDEIVDYVKFLRLQVKVLSMSRLGGAGAVAQ 255

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVADVPL SA+EGE I+GG+S+  W KWSNDGTEQQVAKLMEED+GAAMQFLQSKALCIM
Sbjct: 256 LVADVPL-SAVEGEDIEGGASEQAWSKWSNDGTEQQVAKLMEEDVGAAMQFLQSKALCIM 314

Query: 139 PISLASAIYRTRQPDAPAFVKPESST 164
           PISLASAI+R  Q +A   +KPES +
Sbjct: 315 PISLASAIFRMPQSEASTTIKPESDS 340

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147771925|emb|CAN66761.1| hypothetical protein VITISV_032727 [Vitis vinifera]

 Score =  241 bits (614), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 117/148 (79%), Positives = 132/148 (89%), Gaps = 1/148 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRRERIA+RM+ALQELVPS NKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLG AGAVAQ
Sbjct: 191 RLRRERIAERMKALQELVPSSNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGGAGAVAQ 250

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVAD+PL  A+EGE+ +GGS+Q  W+KWSNDGTE++VAKLMEED+GAAMQFLQSKALCIM
Sbjct: 251 LVADIPLP-AVEGETGEGGSNQQAWDKWSNDGTEREVAKLMEEDVGAAMQFLQSKALCIM 309

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTPS 166
           PISLA+AIY   Q D P  +KPE + PS
Sbjct: 310 PISLAAAIYPAHQTDTPTLIKPEPNAPS 337

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123420|ref|XP_002319074.1| predicted protein [Populus trichocarpa] gi|222857450|gb|EEE94997.1| predicted protein [Populus trichocarpa]

 Score =  237 bits (604), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 115/148 (77%), Positives = 132/148 (89%), Gaps = 1/148 (0%)

Query: 19  QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRLGAAGAVAQ 78
           +LRR RI +R++ALQELVP+CNKTDRAAMLDEIVDYVKFLRLQ+KVLSMSRLGAAGAVAQ
Sbjct: 32  RLRRVRITERVKALQELVPTCNKTDRAAMLDEIVDYVKFLRLQIKVLSMSRLGAAGAVAQ 91

Query: 79  LVADVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
           LVADVPLSS ++GE  +GG++Q  WE WSND TEQ+VAKLMEED+GAAMQFLQSKALCIM
Sbjct: 92  LVADVPLSS-IKGEGNEGGANQQSWENWSNDDTEQEVAKLMEEDVGAAMQFLQSKALCIM 150

Query: 139 PISLASAIYRTRQPDAPAFVKPESSTPS 166
           PISLASAI+R R P+A   +  ES+TPS
Sbjct: 151 PISLASAIFRARPPNASTLINTESNTPS 178

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	166
TAIR|locus:2132303	310	UNE12 "AT4G02590" [Arabidopsis	0.885	0.474	0.689	4.1e-49
UNIPROTKB|Q7Y1H4	294	OSJNBa0094F01.11 "Putative unc	0.879	0.496	0.702	2e-47
TAIR|locus:2007534	302	AT1G03040 "AT1G03040" [Arabido	0.849	0.466	0.662	1.2e-44
TAIR|locus:2047555	350	LRL1 "AT2G24260" [Arabidopsis	0.771	0.365	0.585	2.6e-31
UNIPROTKB|Q6K8Y4	463	OJ1695_H09.18 "Basic helix-loo	0.765	0.274	0.566	1.4e-30
TAIR|locus:2126624	310	LRL2 "AT4G30980" [Arabidopsis	0.813	0.435	0.530	2.3e-30
TAIR|locus:2147760	297	LRL3 "AT5G58010" [Arabidopsis	0.873	0.488	0.486	1.9e-28
UNIPROTKB|Q6EPZ6	499	P0014G10.34 "BHLH transcriptio	0.759	0.252	0.553	1.1e-27
UNIPROTKB|Q69Y51	401	P0698A06.26-2 "Putative bHLH t	0.849	0.351	0.472	3.2e-26
UNIPROTKB|Q6Z7E7	524	P0020C11.18 "Putative bHLH tra	0.849	0.269	0.471	9e-26

TAIR|locus:2132303 UNE12 "AT4G02590" [Arabidopsis thaliana (taxid:3702)]

 Score = 512 (185.3 bits), Expect = 4.1e-49, P = 4.1e-49
 Identities = 102/148 (68%), Positives = 122/148 (82%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXX 78
             +LRRERIA+R+RALQELVP+ NKTDRAAM+DEIVDYVKFLRLQVKVLSMSR         
Sbjct:   162 RLRRERIAERIRALQELVPTVNKTDRAAMIDEIVDYVKFLRLQVKVLSMSRLGGAGAVAP 221

Query:    79 XXXDVPLSSALEGESIDGGSS-QPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCI 137
                D+PLSS++E E+ +GG + QP WEKWSNDGTE+QVAKLMEE++GAAMQ LQSKALC+
Sbjct:   222 LVTDMPLSSSVEDETGEGGRTPQPAWEKWSNDGTERQVAKLMEENVGAAMQLLQSKALCM 281

Query:   138 MPISLASAIYRTRQPDAPAFVKPESSTP 165
             MPISLA AIY ++ PD  + VKPE++ P
Sbjct:   282 MPISLAMAIYHSQPPDTSSVVKPENNPP 309

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0009567 "double fertilization forming a zygote and endosperm" evidence=IMP

GO:0031347 "regulation of defense response" evidence=IMP

UNIPROTKB|Q7Y1H4 OSJNBa0094F01.11 "Putative uncharacterized protein OSJNBa0094F01.11" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 496 (179.7 bits), Expect = 2.0e-47, P = 2.0e-47
 Identities = 104/148 (70%), Positives = 117/148 (79%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXX 78
             +LRRERIA+RMRALQELVP+ NKTDRAAMLDEI+DYVKFLRLQVKVLSMSR         
Sbjct:   149 RLRRERIAERMRALQELVPNTNKTDRAAMLDEILDYVKFLRLQVKVLSMSRLGGAGAVAQ 208

Query:    79 XXXDVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
                D+PLS  ++GE+ D G +Q  WEKWS DGTE+QVAKLMEEDIGAAMQFLQSKALC+M
Sbjct:   209 LVADIPLS--VKGEASDSGGNQQIWEKWSTDGTERQVAKLMEEDIGAAMQFLQSKALCMM 266

Query:   139 PISLASAIYRTRQPDAPAFVKPESSTPS 166
             PISLA AIY T+Q      VK E +TPS
Sbjct:   267 PISLAMAIYDTQQTQDGQPVKHEPNTPS 294

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2007534 AT1G03040 "AT1G03040" [Arabidopsis thaliana (taxid:3702)]

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 98/148 (66%), Positives = 117/148 (79%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXX 78
             +LRRERIA+R+R+LQELVP+ NKTDRAAM+DEIVDYVKFLRLQVKVLSMSR         
Sbjct:   160 RLRRERIAERIRSLQELVPTVNKTDRAAMIDEIVDYVKFLRLQVKVLSMSRLGGAGAVAP 219

Query:    79 XXXDVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
                ++PLSS++E E+      Q  WEKWSNDGTE+QVAKLMEE++GAAMQ LQSKALCIM
Sbjct:   220 LVTEMPLSSSVEDET------QAVWEKWSNDGTERQVAKLMEENVGAAMQLLQSKALCIM 273

Query:   139 PISLASAIYRTRQPD-APAFVKPESSTP 165
             PISLA AIY ++ PD + + VKPE + P
Sbjct:   274 PISLAMAIYHSQPPDTSSSIVKPEMNPP 301

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2047555 LRL1 "AT2G24260" [Arabidopsis thaliana (taxid:3702)]

 Score = 344 (126.2 bits), Expect = 2.6e-31, P = 2.6e-31
 Identities = 75/128 (58%), Positives = 91/128 (71%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXX 78
             +LRRERIA+RM+ALQELVP+ NKTD+A+MLDEI+DYVKFL+LQVKVLSMSR         
Sbjct:   154 RLRRERIAERMKALQELVPNGNKTDKASMLDEIIDYVKFLQLQVKVLSMSRLGGAASVSS 213

Query:    79 XXXDVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
                +   S      ++ GGS        S   TE QVAKLMEED+G+AMQ+LQ K LC+M
Sbjct:   214 QISEAGGSHGNASSAMVGGSQTAGNSNDSVTMTEHQVAKLMEEDMGSAMQYLQGKGLCLM 273

Query:   139 PISLASAI 146
             PISLA+AI
Sbjct:   274 PISLATAI 281

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

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

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

UNIPROTKB|Q6K8Y4 OJ1695_H09.18 "Basic helix-loop-helix (BHLH)-like" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 337 (123.7 bits), Expect = 1.4e-30, P = 1.4e-30
 Identities = 77/136 (56%), Positives = 96/136 (70%)

Query:    20 LRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXXX 79
             LRRERIA+RM+ALQELVP+ NKTD+A+MLDEI+DYVKFL+LQVKVLSMSR          
Sbjct:   251 LRRERIAERMKALQELVPNANKTDKASMLDEIIDYVKFLQLQVKVLSMSRLGGASAVAPL 310

Query:    80 XXDVP---------LSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFL 130
               ++           SS+  GE+ +G S+       +   TEQQVAKLMEED+G+AMQ+L
Sbjct:   311 VANMSSESNGNGNATSSSGNGEAANGSSNGDNNGGGTLRVTEQQVAKLMEEDMGSAMQYL 370

Query:   131 QSKALCIMPISLASAI 146
             Q K LC+MPISLA+AI
Sbjct:   371 QGKGLCLMPISLATAI 386

GO:0005634 "nucleus" evidence=IC

TAIR|locus:2126624 LRL2 "AT4G30980" [Arabidopsis thaliana (taxid:3702)]

 Score = 335 (123.0 bits), Expect = 2.3e-30, P = 2.3e-30
 Identities = 78/147 (53%), Positives = 98/147 (66%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXX 78
             +LRRERIA+RM++LQELVP+ NKTD+A+MLDEI+DYVKFL+LQVKVLSMSR         
Sbjct:   146 RLRRERIAERMKSLQELVPNGNKTDKASMLDEIIDYVKFLQLQVKVLSMSRLGGAASA-- 203

Query:    79 XXXDVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSKALCIM 138
                    SS +  ++  GGS +          TE QVAKLMEED+G+AMQ+LQ K LC+M
Sbjct:   204 -------SSQISEDA--GGSHENTSSSGEAKMTEHQVAKLMEEDMGSAMQYLQGKGLCLM 254

Query:   139 PISLASAIYRTRQPDAPAFVKPESSTP 165
             PISLA+ I     P    FVK ++  P
Sbjct:   255 PISLATTISTATCPSRSPFVK-DTGVP 280

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

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

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

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

 Score = 317 (116.6 bits), Expect = 1.9e-28, P = 1.9e-28
 Identities = 74/152 (48%), Positives = 98/152 (64%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXX 78
             +LRRERIA+RM++LQELVP+ NKTD+A+MLDEI++YV+FL+LQVKVLSMSR         
Sbjct:   115 RLRRERIAERMKSLQELVPNTNKTDKASMLDEIIEYVRFLQLQVKVLSMSRLGGAGSVGP 174

Query:    79 XXXDVPLSS-----ALEG--ESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQ 131
                 +   +     AL      ++G  +       S   TEQ+VAKLMEED+G+AMQ+LQ
Sbjct:   175 RLNGLSAEAGGRLNALTAPCNGLNGNGNATGSSNESLRSTEQRVAKLMEEDMGSAMQYLQ 234

Query:   132 SKALCIMPISLASAIYRTRQPDAPAFVKPESS 163
              K LC+MPISLA+AI  +      +   P SS
Sbjct:   235 GKGLCLMPISLATAISSSTTHSRGSLFNPISS 266

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

UNIPROTKB|Q6EPZ6 P0014G10.34 "BHLH transcription factor PTF1-like protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 313 (115.2 bits), Expect = 1.1e-27, P = 1.1e-27
 Identities = 78/141 (55%), Positives = 93/141 (65%)

Query:    19 QLRRERIADRMRALQELVPSCNK---TDRAAMLDEIVDYVKFLRLQVK----------VL 65
             +LRRERIA+RM+ALQELVP+ NK   TD+A+MLDEI+DYVKFL+LQVK          VL
Sbjct:   266 RLRRERIAERMKALQELVPNANKLMQTDKASMLDEIIDYVKFLQLQVKASTYTKLLIHVL 325

Query:    66 SMSRXXXXXXXXXXXXDVPLSSALEGESIDGGSSQPEWEKWSNDGTEQQVAKLMEEDIGA 125
             SMSR            D+  S    G + +GG+        S   TEQQVAKLMEED+G 
Sbjct:   326 SMSRLGGAAAVAPLVADMS-SEGRGGGAANGGAPAAAGSD-SLTVTEQQVAKLMEEDMGT 383

Query:   126 AMQFLQSKALCIMPISLASAI 146
             AMQ+LQ K LC+MPISLASAI
Sbjct:   384 AMQYLQGKGLCLMPISLASAI 404

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|Q69Y51 P0698A06.26-2 "Putative bHLH transcription factor PTF1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 70/148 (47%), Positives = 94/148 (63%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXX- 77
             +LRRE+I++RM+ LQ LVP+ NK D+A+MLDEI+DYVKFL+LQVKVLSMSR         
Sbjct:   255 RLRREKISERMKNLQVLVPNSNKADKASMLDEIIDYVKFLQLQVKVLSMSRLGAPGAVLP 314

Query:    78 ---XXXXDVPLSSALEGESIDGGS-SQPEWEKWSNDGTEQQVAKLMEEDIGAAMQFLQSK 133
                    +   + +L   +I  G    P+ E   +   EQ+V KLME  I +AMQ+LQ+K
Sbjct:   315 LLRESQTECHSNPSLSASTISQGPPDMPDSE--DSSAFEQEVVKLMETSIISAMQYLQNK 372

Query:   134 ALCIMPISLASAIYRTRQPDAPAFVKPE 161
              LC+MPI+LASAI   +   A A + PE
Sbjct:   373 GLCLMPIALASAISNQKGMAAAAAIPPE 400

GO:0005634 "nucleus" evidence=IC

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

 Score = 297 (109.6 bits), Expect = 9.0e-26, P = 9.0e-26
 Identities = 75/159 (47%), Positives = 102/159 (64%)

Query:    19 QLRRERIADRMRALQELVPSCNKTDRAAMLDEIVDYVKFLRLQVKVLSMSRXXXXXXXXX 78
             +LRRE+I+DRM+ LQELVP+ NKT++A+MLDEI+DYVKFL+LQVKVLSMSR         
Sbjct:   330 RLRREKISDRMKDLQELVPNSNKTNKASMLDEIIDYVKFLQLQVKVLSMSRLGAAEAVVP 389

Query:    79 XXXDV----------PLSSALEGES----IDGG--SSQPEWEKWSNDGTEQQVAKLMEED 122
                +           P SS+ E ++    + GG    QPE         EQ+V KLME++
Sbjct:   390 LLTETQTESPGFLLSPRSSSGERQAGAGAVTGGLPGDQPELLD-GGAMFEQEVVKLMEDN 448

Query:   123 IGAAMQFLQSKALCIMPISLASAIYRTRQPDAPAFVKPE 161
             +  AMQ+LQSK LC+MP++LASAI   ++  + A V+PE
Sbjct:   449 MTTAMQYLQSKGLCLMPVALASAI-SAQKGTSSAAVRPE 486

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O22768	UNE12_ARATH	No assigned EC number	0.7481	0.8072	0.4322	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	166
smart00353	53	smart00353, HLH, helix loop helix domain	4e-08
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	4e-07
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	6e-06

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

 Score = 47.2 bits (113), Expect = 4e-08
 Identities = 12/46 (26%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 21 RRERIADRMRALQELVPSCN---KTDRAAMLDEIVDYVKFLRLQVK 63
          RR +I +    L+ L+P+     K  +A +L   ++Y+K L+ +++
Sbjct: 7  RRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQ 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 = 44.5 bits (106), Expect = 4e-07
 Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 3/46 (6%)

Query: 21 RRERIADRMRALQELVPSC---NKTDRAAMLDEIVDYVKFLRLQVK 63
          RRERI D    L+ L+P+     K  +A +L + VDY+K L+  ++
Sbjct: 15 RRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 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 = 41.3 bits (98), Expect = 6e-06
 Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 2/41 (4%)

Query: 21 RRERIADRMRALQELVPSCN--KTDRAAMLDEIVDYVKFLR 59
          RR+RI D    L+EL+P+    K  +A +L   ++Y+K L+
Sbjct: 12 RRDRINDAFEELRELLPTPPNKKLSKAEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	166
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.52
smart00353	53	HLH helix loop helix domain.	99.45
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.44
KOG1318	411	consensus Helix loop helix transcription factor EB	99.16
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	98.75
KOG4304	250	consensus Transcriptional repressors of the hairy/	98.45
KOG3561	803	consensus Aryl-hydrocarbon receptor nuclear transl	98.24
KOG2588	953	consensus Predicted DNA-binding protein [Transcrip	98.06
PLN03217	93	transcription factor ATBS1; Provisional	97.86
KOG2483	232	consensus Upstream transcription factor 2/L-myc-2	97.68
KOG0561	373	consensus bHLH transcription factor [Transcription	97.3
KOG4029	228	consensus Transcription factor HAND2/Transcription	97.0
KOG3960	284	consensus Myogenic helix-loop-helix transcription	96.97
KOG4447	173	consensus Transcription factor TWIST [Transcriptio	94.34
KOG3910	632	consensus Helix loop helix transcription factor [T	91.29
KOG3558	768	consensus Hypoxia-inducible factor 1/Neuronal PAS	82.02

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

Probab=99.52  E-value=1.9e-14  Score=95.13  Aligned_cols=54  Identities=31%  Similarity=0.450  Sum_probs=50.8

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCC---CCCChhhHHHHHHHHHHHHHHHH
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSC---NKTDRAAMLDEIVDYVKFLRLQV   62 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~---~K~DkasVL~eAI~YIk~Lq~qV   62 (166)
                      ..+..|+..||.||++||+.|..|+.+||+.   .|+||++||+.||+||++|+.++
T Consensus         3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~   59 (60)
T cd00083           3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL   59 (60)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence            4567899999999999999999999999998   78999999999999999999876

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=99.45  E-value=2.6e-13  Score=88.34  Aligned_cols=49  Identities=24%  Similarity=0.437  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHHHHHHHHHhhcCCC---CCCCChhhHHHHHHHHHHHHHHHHH
Q 040019           15 FFVVQLRRERIADRMRALQELVPS---CNKTDRAAMLDEIVDYVKFLRLQVK   63 (166)
Q Consensus        15 s~aER~RRerIneri~aLq~LVP~---~~K~DkasVL~eAI~YIk~Lq~qVk   63 (166)
                      +..||+||++||+.|..|+.+||+   ..|+||++||.+||+||+.|+.+++
T Consensus         1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~   52 (53)
T smart00353        1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ   52 (53)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            468999999999999999999995   5689999999999999999999875

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

Probab=99.44  E-value=1.6e-13  Score=90.67  Aligned_cols=49  Identities=37%  Similarity=0.574  Sum_probs=46.0

Q ss_pred             cccchHHHHHHHHHHHHHHHHHhhcCCCC-----CCCChhhHHHHHHHHHHHHH
Q 040019           11 MFSLFFVVQLRRERIADRMRALQELVPSC-----NKTDRAAMLDEIVDYVKFLR   59 (166)
Q Consensus        11 ~~~hs~aER~RRerIneri~aLq~LVP~~-----~K~DkasVL~eAI~YIk~Lq   59 (166)
                      +..|+..||+||++||+.|..|+++||..     .|+||++||+.||+||+.||
T Consensus         2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    2 RQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            45699999999999999999999999987     47999999999999999997

; 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=99.16  E-value=3.9e-11  Score=108.74  Aligned_cols=56  Identities=30%  Similarity=0.561  Sum_probs=51.6

Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHhhcCCCCC----CCChhhHHHHHHHHHHHHHHHHH
Q 040019            8 HQQMFSLFFVVQLRRERIADRMRALQELVPSCN----KTDRAAMLDEIVDYVKFLRLQVK   63 (166)
Q Consensus         8 ~~a~~~hs~aER~RRerIneri~aLq~LVP~~~----K~DkasVL~eAI~YIk~Lq~qVk   63 (166)
                      .++++.|+..|||||++||++|++|..|||.+.    |..|..||..+++||+.||+.-+
T Consensus       231 r~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q  290 (411)
T KOG1318|consen  231 RRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ  290 (411)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence            578899999999999999999999999999985    56799999999999999998555

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=98.75  E-value=7.9e-09  Score=86.24  Aligned_cols=59  Identities=31%  Similarity=0.478  Sum_probs=51.4

Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHhhcCCCCC-------CCChhhHHHHHHHHHHHHHHHHHHhc
Q 040019            8 HQQMFSLFFVVQLRRERIADRMRALQELVPSCN-------KTDRAAMLDEIVDYVKFLRLQVKVLS   66 (166)
Q Consensus         8 ~~a~~~hs~aER~RRerIneri~aLq~LVP~~~-------K~DkasVL~eAI~YIk~Lq~qVk~Ls   66 (166)
                      .+-+..|.-+||+||+.|+.....||.|||.|.       |+.+|.||..+|+||.||+.++..-+
T Consensus        60 ~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe  125 (229)
T KOG1319|consen   60 DRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQE  125 (229)
T ss_pred             HHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344678999999999999999999999999764       67799999999999999998766544

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

Probab=98.45  E-value=1.4e-07  Score=80.79  Aligned_cols=57  Identities=21%  Similarity=0.360  Sum_probs=48.8

Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHhhcCCCC--------CCCChhhHHHHHHHHHHHHHHHHHH
Q 040019            8 HQQMFSLFFVVQLRRERIADRMRALQELVPSC--------NKTDRAAMLDEIVDYVKFLRLQVKV   64 (166)
Q Consensus         8 ~~a~~~hs~aER~RRerIneri~aLq~LVP~~--------~K~DkasVL~eAI~YIk~Lq~qVk~   64 (166)
                      .-.|..|-+.||+||.|||+-+..|+.||+..        .|++||.||+-|++|++.||.+...
T Consensus        30 ~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~   94 (250)
T KOG4304|consen   30 QYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA   94 (250)
T ss_pred             HHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence            34466788999999999999999999999954        4678999999999999999975443

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

Probab=98.24  E-value=1.3e-06  Score=85.02  Aligned_cols=53  Identities=23%  Similarity=0.370  Sum_probs=49.5

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCCC----CCChhhHHHHHHHHHHHHHHH
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSCN----KTDRAAMLDEIVDYVKFLRLQ   61 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~~----K~DkasVL~eAI~YIk~Lq~q   61 (166)
                      .+..+|+.+||+||+++|--|.+|.+|||.+.    |+||-.||.+||++||.++++
T Consensus        19 ~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~   75 (803)
T KOG3561|consen   19 KKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ   75 (803)
T ss_pred             hccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence            45678999999999999999999999999886    899999999999999999875

>KOG2588 consensus Predicted DNA-binding protein [Transcription]

Probab=98.06  E-value=2e-06  Score=84.62  Aligned_cols=58  Identities=24%  Similarity=0.389  Sum_probs=53.1

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCCC-CCChhhHHHHHHHHHHHHHHHHHHhc
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSCN-KTDRAAMLDEIVDYVKFLRLQVKVLS   66 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~~-K~DkasVL~eAI~YIk~Lq~qVk~Ls   66 (166)
                      .++.+|+++||+-|--|||||.+|+++||+.. |..|..+|..||+||++|+..-+.+.
T Consensus       275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk  333 (953)
T KOG2588|consen  275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLK  333 (953)
T ss_pred             cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccc
Confidence            45889999999999999999999999999876 89999999999999999998766654

>PLN03217 transcription factor ATBS1; Provisional

Probab=97.86  E-value=3.5e-05  Score=57.20  Aligned_cols=50  Identities=28%  Similarity=0.485  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHHHHhhcCCCC------CCCChhhHHHHHHHHHHHHHHHHHHhchh
Q 040019           19 QLRRERIADRMRALQELVPSC------NKTDRAAMLDEIVDYVKFLRLQVKVLSMS   68 (166)
Q Consensus        19 R~RRerIneri~aLq~LVP~~------~K~DkasVL~eAI~YIk~Lq~qVk~Ls~~   68 (166)
                      |---+.|+|-+..||+|+|..      .|...+-||+||..||+.||.+|..|+..
T Consensus        16 risddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSer   71 (93)
T PLN03217         16 RISEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSER   71 (93)
T ss_pred             CCCHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334577999999999999964      35667889999999999999999999864

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

Probab=97.68  E-value=8.8e-05  Score=63.29  Aligned_cols=55  Identities=18%  Similarity=0.252  Sum_probs=46.6

Q ss_pred             ccccchHHHHHHHHHHHHHHHHHhhcCCCCC--CCC-hhhHHHHHHHHHHHHHHHHHH
Q 040019           10 QMFSLFFVVQLRRERIADRMRALQELVPSCN--KTD-RAAMLDEIVDYVKFLRLQVKV   64 (166)
Q Consensus        10 a~~~hs~aER~RRerIneri~aLq~LVP~~~--K~D-kasVL~eAI~YIk~Lq~qVk~   64 (166)
                      ....|+.-||+||..|.+.|..|+.+||...  +.. +++||+.|+.||+.|+.+...
T Consensus        59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~  116 (232)
T KOG2483|consen   59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSAT  116 (232)
T ss_pred             chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHH
Confidence            3456899999999999999999999999875  233 699999999999999875443

>KOG0561 consensus bHLH transcription factor [Transcription]

Probab=97.30  E-value=0.00026  Score=63.12  Aligned_cols=52  Identities=25%  Similarity=0.315  Sum_probs=45.9

Q ss_pred             hHHHHHHHHHHHHHHHHHhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHhc
Q 040019           15 FFVVQLRRERIADRMRALQELVPSC--NKTDRAAMLDEIVDYVKFLRLQVKVLS   66 (166)
Q Consensus        15 s~aER~RRerIneri~aLq~LVP~~--~K~DkasVL~eAI~YIk~Lq~qVk~Ls   66 (166)
                      +..||||=+-||..|..|+.|+|.-  .|..||.||+.+.+||..|..+...|=
T Consensus        65 NsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll  118 (373)
T KOG0561|consen   65 NSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELL  118 (373)
T ss_pred             cchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccc
Confidence            4469999999999999999999964  489999999999999999988766653

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

Probab=97.00  E-value=0.00071  Score=56.42  Aligned_cols=59  Identities=15%  Similarity=0.229  Sum_probs=49.2

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCC----CCCCChhhHHHHHHHHHHHHHHHHHHhch
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPS----CNKTDRAAMLDEIVDYVKFLRLQVKVLSM   67 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~----~~K~DkasVL~eAI~YIk~Lq~qVk~Ls~   67 (166)
                      .....++..||.|=+-+|..|..|+.+||.    ..|..|..+|..||.||++|+.-++.-..
T Consensus       108 ~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~  170 (228)
T KOG4029|consen  108 AQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEA  170 (228)
T ss_pred             hhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhccccc
Confidence            344556777999999999999999999995    34788999999999999999976665443

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

Probab=96.97  E-value=0.0025  Score=55.60  Aligned_cols=54  Identities=11%  Similarity=0.232  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHHHHHHHHHhhc-CCCCC-CCChhhHHHHHHHHHHHHHHHHHHhchh
Q 040019           15 FFVVQLRRERIADRMRALQEL-VPSCN-KTDRAAMLDEIVDYVKFLRLQVKVLSMS   68 (166)
Q Consensus        15 s~aER~RRerIneri~aLq~L-VP~~~-K~DkasVL~eAI~YIk~Lq~qVk~Ls~~   68 (166)
                      .+-||||=.|+||-|.+|+.= .++-+ ++-|.-||..||+||..||.-++.+...
T Consensus       123 TMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~  178 (284)
T KOG3960|consen  123 TMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQA  178 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            456999999999999999764 44444 6889999999999999999988888753

>KOG4447 consensus Transcription factor TWIST [Transcription]

Probab=94.34  E-value=0.025  Score=46.27  Aligned_cols=48  Identities=19%  Similarity=0.352  Sum_probs=43.7

Q ss_pred             cchHHHHHHHHHHHHHHHHHhhcCC--CCCCCChhhHHHHHHHHHHHHHH
Q 040019           13 SLFFVVQLRRERIADRMRALQELVP--SCNKTDRAAMLDEIVDYVKFLRL   60 (166)
Q Consensus        13 ~hs~aER~RRerIneri~aLq~LVP--~~~K~DkasVL~eAI~YIk~Lq~   60 (166)
                      -|++-||+|-..+|+-|.+||.++|  +..|..|.-.|.-|-.||-||-.
T Consensus        81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~  130 (173)
T KOG4447|consen   81 MANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQ  130 (173)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhh
Confidence            4788899999999999999999999  56788999999999999999864

>KOG3910 consensus Helix loop helix transcription factor [Transcription]

Probab=91.29  E-value=0.19  Score=47.80  Aligned_cols=54  Identities=19%  Similarity=0.191  Sum_probs=44.1

Q ss_pred             cchHHHHHHHHHHHHHHHHHhhcCCCCCCC----ChhhHHHHHHHHHHHHHHHHHHhc
Q 040019           13 SLFFVVQLRRERIADRMRALQELVPSCNKT----DRAAMLDEIVDYVKFLRLQVKVLS   66 (166)
Q Consensus        13 ~hs~aER~RRerIneri~aLq~LVP~~~K~----DkasVL~eAI~YIk~Lq~qVk~Ls   66 (166)
                      ..+.-||.|=.-|||-|++|..+.=---|.    .|--||..||.-|-.|++||.+-.
T Consensus       529 aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN  586 (632)
T KOG3910|consen  529 ANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN  586 (632)
T ss_pred             hhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence            356668888888999999999887644343    477999999999999999999854

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

Probab=82.02  E-value=1.3  Score=43.57  Aligned_cols=47  Identities=17%  Similarity=0.289  Sum_probs=39.0

Q ss_pred             cccchHHHHHHHHHHHHHHHHHhhcCCCC----CCCChhhHHHHHHHHHHH
Q 040019           11 MFSLFFVVQLRRERIADRMRALQELVPSC----NKTDRAAMLDEIVDYVKF   57 (166)
Q Consensus        11 ~~~hs~aER~RRerIneri~aLq~LVP~~----~K~DkasVL~eAI~YIk~   57 (166)
                      |..-.-+.|.||.|=|+-|.+|..++|--    ..+|||+|+.-||-|+|-
T Consensus        47 kEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl   97 (768)
T KOG3558|consen   47 KEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL   97 (768)
T ss_pred             hhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence            33344567999999999999999999943    268999999999999974

---

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	166
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	1e-10
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	3e-07
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	1e-05
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	6e-05
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	5e-04

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

 Score = 53.9 bits (130), Expect = 1e-10
 Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 21 RRERIADRMRALQELVPSCN-KTDRAAMLDEIVDYVKFLRLQVKVLSM 67
           R  I D++  L++LV     K +++A+L + +DY++FL+   + L  
Sbjct: 17 YRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQ 64

>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 = 44.6 bits (106), Expect = 3e-07
 Identities = 10/49 (20%), Positives = 23/49 (46%), Gaps = 6/49 (12%)

Query: 21 RRERIADRMRALQELVPSCN------KTDRAAMLDEIVDYVKFLRLQVK 63
          RR++I + +  L +++P  +         +  +L +  DY++ LR    
Sbjct: 16 RRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64

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

 Score = 40.8 bits (96), Expect = 1e-05
 Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 2/47 (4%)

Query: 21 RRERIADRMRALQELVPSCN--KTDRAAMLDEIVDYVKFLRLQVKVL 65
          RR+ I D   +L++ VPS    K  RA +LD+  +Y++++R +    
Sbjct: 23 RRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTH 69

>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 = 38.9 bits (91), Expect = 6e-05
 Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 2/47 (4%)

Query: 21 RRERIADRMRALQELVPSCN--KTDRAAMLDEIVDYVKFLRLQVKVL 65
          RR+ I D   +L++ VPS    K  RA +LD+  +Y++++R +    
Sbjct: 13 RRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTH 59

>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 = 36.5 bits (85), Expect = 5e-04
 Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 21 RRERIADRMRALQELVPSCN---KTDRAAMLDEIVDYVKFLRLQVKVL 65
          RR  +     AL++ +P      K  +  +L +   Y+  ++ + + L
Sbjct: 17 RRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKL 64

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	166
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.69
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.64
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.64
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.62
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.59
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.57
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.51
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.51
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.47
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.42
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.3
4f3l_A	361	Mclock, circadian locomoter output cycles protein	99.1
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	99.03
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.02
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	98.98
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.75
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.	97.9

>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=99.69  E-value=2e-17  Score=118.20  Aligned_cols=61  Identities=23%  Similarity=0.386  Sum_probs=57.0

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCC-CCCChhhHHHHHHHHHHHHHHHHHHhchhh
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSC-NKTDRAAMLDEIVDYVKFLRLQVKVLSMSR   69 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~-~K~DkasVL~eAI~YIk~Lq~qVk~Ls~~~   69 (166)
                      +.+.+|+.+||+||++||++|.+|+.|||++ .|+||++||.+||+||++||.+++.|....
T Consensus         5 ~rr~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~   66 (82)
T 1am9_A            5 EKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQEN   66 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4577899999999999999999999999998 799999999999999999999999998654

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

Probab=99.64  E-value=2.6e-16  Score=110.75  Aligned_cols=58  Identities=17%  Similarity=0.275  Sum_probs=53.6

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCC-CCCChhhHHHHHHHHHHHHHHHHHHhc
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSC-NKTDRAAMLDEIVDYVKFLRLQVKVLS   66 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~-~K~DkasVL~eAI~YIk~Lq~qVk~Ls   66 (166)
                      +.+.+|+.+||+||++||++|.+|+.|||+. .|+||++||+.||+||++||.++.-|+
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            4567899999999999999999999999975 499999999999999999999988775

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

Probab=99.64  E-value=3.2e-16  Score=118.95  Aligned_cols=59  Identities=25%  Similarity=0.397  Sum_probs=51.0

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCCC----CCChhhHHHHHHHHHHHHHHHHHHhch
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSCN----KTDRAAMLDEIVDYVKFLRLQVKVLSM   67 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~~----K~DkasVL~eAI~YIk~Lq~qVk~Ls~   67 (166)
                      +.+.+|+++||+||++||++|.+|+.|||++.    |++|++||+.||+||++||.+++.|..
T Consensus        26 ~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~l~~   88 (118)
T 4ati_A           26 QKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKD   88 (118)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57889999999999999999999999999875    678999999999999999999999975

>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=99.62  E-value=5.3e-17  Score=111.36  Aligned_cols=54  Identities=22%  Similarity=0.327  Sum_probs=48.8

Q ss_pred             ccccchHHHHHHHHHHHHHHHHHhhcCCCC-------CCCChhhHHHHHHHHHHHHHHHHH
Q 040019           10 QMFSLFFVVQLRRERIADRMRALQELVPSC-------NKTDRAAMLDEIVDYVKFLRLQVK   63 (166)
Q Consensus        10 a~~~hs~aER~RRerIneri~aLq~LVP~~-------~K~DkasVL~eAI~YIk~Lq~qVk   63 (166)
                      .+.+|+++||+||++||+.|..|+.|||++       .|.+||+||+.||+||++||++++
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            467899999999999999999999999965       466799999999999999998763

>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=99.59  E-value=2.9e-16  Score=107.01  Aligned_cols=54  Identities=20%  Similarity=0.364  Sum_probs=50.2

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCCC------CCChhhHHHHHHHHHHHHHHHH
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSCN------KTDRAAMLDEIVDYVKFLRLQV   62 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~~------K~DkasVL~eAI~YIk~Lq~qV   62 (166)
                      +.+..|+.+||+||++||+.|..|+.|||++.      |+||++||.+||+||++||.+.
T Consensus         4 ~rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~~   63 (65)
T 1an4_A            4 KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHHh
Confidence            56789999999999999999999999999876      6899999999999999999865

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

Probab=99.57  E-value=5.8e-16  Score=109.22  Aligned_cols=53  Identities=26%  Similarity=0.371  Sum_probs=48.7

Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHhhcCCCC----CCCChhhHHHHHHHHHHHHHH
Q 040019            8 HQQMFSLFFVVQLRRERIADRMRALQELVPSC----NKTDRAAMLDEIVDYVKFLRL   60 (166)
Q Consensus         8 ~~a~~~hs~aER~RRerIneri~aLq~LVP~~----~K~DkasVL~eAI~YIk~Lq~   60 (166)
                      .+.+.+|+.+||+||++||+.|.+|+.|||.+    .|+|||+||+.||+||+.|+.
T Consensus         7 ~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            7 KNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhc
Confidence            35678899999999999999999999999976    699999999999999999873

>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=99.51  E-value=1.5e-14  Score=102.40  Aligned_cols=61  Identities=25%  Similarity=0.428  Sum_probs=56.2

Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHhchh
Q 040019            8 HQQMFSLFFVVQLRRERIADRMRALQELVPSC--NKTDRAAMLDEIVDYVKFLRLQVKVLSMS   68 (166)
Q Consensus         8 ~~a~~~hs~aER~RRerIneri~aLq~LVP~~--~K~DkasVL~eAI~YIk~Lq~qVk~Ls~~   68 (166)
                      .+.+..|+..||+||..||+.|..|+.+||.+  .|++|++||..||+||++|+.+++.|...
T Consensus        10 ~~~R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~L~~e   72 (80)
T 1hlo_A           10 ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQD   72 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677899999999999999999999999976  58999999999999999999999999764

>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=99.51  E-value=1.8e-14  Score=102.32  Aligned_cols=57  Identities=26%  Similarity=0.446  Sum_probs=53.3

Q ss_pred             cccchHHHHHHHHHHHHHHHHHhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHhch
Q 040019           11 MFSLFFVVQLRRERIADRMRALQELVPSC--NKTDRAAMLDEIVDYVKFLRLQVKVLSM   67 (166)
Q Consensus        11 ~~~hs~aER~RRerIneri~aLq~LVP~~--~K~DkasVL~eAI~YIk~Lq~qVk~Ls~   67 (166)
                      +..|+..||+||++||+.|..|+++||.+  .|++|++||..||+||++|+.+++.|..
T Consensus         3 R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~iL~~Ai~YI~~L~~~~~~l~~   61 (83)
T 1nkp_B            3 RAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ   61 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46799999999999999999999999974  6899999999999999999999999875

>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=99.47  E-value=5.7e-14  Score=101.69  Aligned_cols=58  Identities=16%  Similarity=0.260  Sum_probs=53.4

Q ss_pred             ccccchHHHHHHHHHHHHHHHHHhhcCCCC---CCCChhhHHHHHHHHHHHHHHHHHHhch
Q 040019           10 QMFSLFFVVQLRRERIADRMRALQELVPSC---NKTDRAAMLDEIVDYVKFLRLQVKVLSM   67 (166)
Q Consensus        10 a~~~hs~aER~RRerIneri~aLq~LVP~~---~K~DkasVL~eAI~YIk~Lq~qVk~Ls~   67 (166)
                      ....|+..||+||+.||+.|..|+.+||..   .|.+|++||..||+||++|+.+.+.+..
T Consensus         6 ~R~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~~l~~   66 (88)
T 1nkp_A            6 KRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLIS   66 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456799999999999999999999999975   5999999999999999999999988764

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

Probab=99.42  E-value=1.3e-13  Score=97.80  Aligned_cols=58  Identities=19%  Similarity=0.234  Sum_probs=49.7

Q ss_pred             ccccchHHHHHHHHHHHHHHHHHhhcCCC---CCCC-ChhhHHHHHHHHHHHHHHHHHHhch
Q 040019           10 QMFSLFFVVQLRRERIADRMRALQELVPS---CNKT-DRAAMLDEIVDYVKFLRLQVKVLSM   67 (166)
Q Consensus        10 a~~~hs~aER~RRerIneri~aLq~LVP~---~~K~-DkasVL~eAI~YIk~Lq~qVk~Ls~   67 (166)
                      .+..|+..||+||+.||+.|..|+.+||.   ..|. .|+.||..||+||++||.+++++..
T Consensus         5 rR~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~   66 (76)
T 3u5v_A            5 KRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNL   66 (76)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             HHhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45679999999999999999999999995   4455 6889999999999999999999875

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

Probab=99.30  E-value=6e-12  Score=89.72  Aligned_cols=57  Identities=16%  Similarity=0.090  Sum_probs=52.0

Q ss_pred             ccchHHHHHHHHHHHHHHHHHhhcCCCC---CCCChhhHHHHHHHHHHHHHHHHHHhchh
Q 040019           12 FSLFFVVQLRRERIADRMRALQELVPSC---NKTDRAAMLDEIVDYVKFLRLQVKVLSMS   68 (166)
Q Consensus        12 ~~hs~aER~RRerIneri~aLq~LVP~~---~K~DkasVL~eAI~YIk~Lq~qVk~Ls~~   68 (166)
                      ..|+..||+||..|++.|.+|+++||..   .|.+|++||..|++||+.|+.+.+.|...
T Consensus         3 ~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~~l~~e   62 (80)
T 1nlw_A            3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQ   62 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999965   57889999999999999999999988653

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

Probab=99.10  E-value=7.9e-11  Score=100.54  Aligned_cols=55  Identities=16%  Similarity=0.314  Sum_probs=43.1

Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHhhcCC-CCCCCChhhHHHHHHHHHHHHHHHH
Q 040019            8 HQQMFSLFFVVQLRRERIADRMRALQELVP-SCNKTDRAAMLDEIVDYVKFLRLQV   62 (166)
Q Consensus         8 ~~a~~~hs~aER~RRerIneri~aLq~LVP-~~~K~DkasVL~eAI~YIk~Lq~qV   62 (166)
                      ...+.+|+.+||+||++||+.|.+|+.||| +..|+||++||..||.|||.|+..-
T Consensus        10 ~~~~~~~~~~e~~rr~~~n~~~~~l~~~~p~~~~~~dk~~il~~~~~~~~~~~~~~   65 (361)
T 4f3l_A           10 KAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKETT   65 (361)
T ss_dssp             ---------CHHHHHHHHHHHHHHHHHTCCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhhHHHHHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhhc
Confidence            456788999999999999999999999999 5669999999999999999998653

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

Probab=99.03  E-value=1.5e-10  Score=100.16  Aligned_cols=54  Identities=24%  Similarity=0.275  Sum_probs=49.7

Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHhhcCC----CCCCCChhhHHHHHHHHHHHHHHH
Q 040019            8 HQQMFSLFFVVQLRRERIADRMRALQELVP----SCNKTDRAAMLDEIVDYVKFLRLQ   61 (166)
Q Consensus         8 ~~a~~~hs~aER~RRerIneri~aLq~LVP----~~~K~DkasVL~eAI~YIk~Lq~q   61 (166)
                      .+++.+|+.+||+||++||+.|.+|..|||    ...|+||++||..||.|||.|+..
T Consensus        11 ~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~~   68 (387)
T 4f3l_B           11 KNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA   68 (387)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHCC
T ss_pred             hhhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhcc
Confidence            456889999999999999999999999999    667999999999999999999843

>1mdy_A Protein (MYOD BHLH domain); protein-DNA complex, transcription/DNA complex; HET: DNA; 2.80A {Mus musculus} SCOP: a.38.1.1 PDB: 1mdy_B*

Probab=99.02  E-value=4.4e-10  Score=78.06  Aligned_cols=52  Identities=12%  Similarity=0.206  Sum_probs=47.2

Q ss_pred             cccchHHHHHHHHHHHHHHHHHhhcCCCC--CCCChhhHHHHHHHHHHHHHHHH
Q 040019           11 MFSLFFVVQLRRERIADRMRALQELVPSC--NKTDRAAMLDEIVDYVKFLRLQV   62 (166)
Q Consensus        11 ~~~hs~aER~RRerIneri~aLq~LVP~~--~K~DkasVL~eAI~YIk~Lq~qV   62 (166)
                      ...|+.-||+|+..||+.|..|+.+||..  .|+.|..+|..||+||.+|++.+
T Consensus        13 R~~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~tLr~Ai~YI~~L~~~L   66 (68)
T 1mdy_A           13 RKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALL   66 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             hhHhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            45689999999999999999999999964  58899999999999999999754

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

Probab=98.98  E-value=8.4e-10  Score=74.86  Aligned_cols=52  Identities=15%  Similarity=0.187  Sum_probs=46.9

Q ss_pred             ccchHHHHHHHHHHHHHHHHHhhcCCCCC---CCChhhHHHHHHHHHHHHHHHHH
Q 040019           12 FSLFFVVQLRRERIADRMRALQELVPSCN---KTDRAAMLDEIVDYVKFLRLQVK   63 (166)
Q Consensus        12 ~~hs~aER~RRerIneri~aLq~LVP~~~---K~DkasVL~eAI~YIk~Lq~qVk   63 (166)
                      ..|+.-||.|+..||+.|..|+.+||...   |..|..+|..||+||.+|++.++
T Consensus         4 ~~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   58 (60)
T 2ql2_B            4 MKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILR   58 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHh
Confidence            35889999999999999999999999653   78999999999999999998653

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

Probab=98.75  E-value=1.4e-08  Score=73.43  Aligned_cols=46  Identities=28%  Similarity=0.499  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHhhcCCCCC----CCChhhHHHHHHHHHHHHHHHHHHhch
Q 040019           22 RERIADRMRALQELVPSCN----KTDRAAMLDEIVDYVKFLRLQVKVLSM   67 (166)
Q Consensus        22 RerIneri~aLq~LVP~~~----K~DkasVL~eAI~YIk~Lq~qVk~Ls~   67 (166)
                      |..||++|.+|..|||++.    |.+|++||..||+||++||..++.+..
T Consensus         4 R~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~r~~e   53 (83)
T 4ath_A            4 RFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKD   53 (83)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHHHHHH
T ss_pred             hhhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999753    688999999999999999998887764

>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=4.8e-08  Score=68.23  Aligned_cols=46  Identities=20%  Similarity=0.301  Sum_probs=41.1

Q ss_pred             hHHHHHHHHHHHHHHHHHhhcCCCC---CCCChhhHHHHHHHHHHHHHH
Q 040019           15 FFVVQLRRERIADRMRALQELVPSC---NKTDRAAMLDEIVDYVKFLRL   60 (166)
Q Consensus        15 s~aER~RRerIneri~aLq~LVP~~---~K~DkasVL~eAI~YIk~Lq~   60 (166)
                      +.-||+|...||+-|..|+.+||..   .|+.|..+|.-||+||..||.
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   478999999999999999984

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

Probab=97.90  E-value=2.8e-05  Score=57.45  Aligned_cols=48  Identities=25%  Similarity=0.379  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCC---CCCChhhHHHHHHHHHHHHHHHHHHh
Q 040019           18 VQLRRERIADRMRALQELVPSC---NKTDRAAMLDEIVDYVKFLRLQVKVL   65 (166)
Q Consensus        18 ER~RRerIneri~aLq~LVP~~---~K~DkasVL~eAI~YIk~Lq~qVk~L   65 (166)
                      ||.|=..||+-|..|+.+||..   .|+.|..+|.-||+||.+|+..++.-
T Consensus        33 ~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~~   83 (97)
T 4aya_A           33 PMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDSH   83 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            5677778999999999999964   37899999999999999999877653

---

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	166
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	2e-13
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	5e-08
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	5e-08
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	8e-08
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	2e-07
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	7e-07
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	8e-07
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	3e-06

>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 = 59.4 bits (144), Expect = 2e-13
 Identities = 13/47 (27%), Positives = 26/47 (55%), Gaps = 1/47 (2%)

Query: 22 RERIADRMRALQELVPSCN-KTDRAAMLDEIVDYVKFLRLQVKVLSM 67
          R  I D++  L++LV   + K  ++ +L + +DY+K+L+     L  
Sbjct: 1  RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQ 47

>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 = 45.6 bits (108), Expect = 5e-08
 Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 7/50 (14%)

Query: 21 RRERIADRMRALQELVPSCN-------KTDRAAMLDEIVDYVKFLRLQVK 63
          RR R+A  +  L  L+P+            +A  ++    Y++ L+    
Sbjct: 13 RRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGS 62

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

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

 Score = 46.1 bits (109), Expect = 5e-08
 Identities = 9/54 (16%), Positives = 22/54 (40%), Gaps = 3/54 (5%)

Query: 19 QLRRERIADRMRALQELVPSCN---KTDRAAMLDEIVDYVKFLRLQVKVLSMSR 69
          + RR  +     AL++ +P      K  +  +L +   Y+  ++ + + L    
Sbjct: 15 RQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEE 68

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

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

 Score = 45.2 bits (107), Expect = 8e-08
 Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 19 QLRRERIADRMRALQELVPSCN--KTDRAAMLDEIVDYVKFLRLQVKVLSM 67
          + RR+ I D   +L++ VPS    K  RA +LD+  +Y++++R +      
Sbjct: 11 RKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ 61

>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 = 44.2 bits (104), Expect = 2e-07
 Identities = 14/48 (29%), Positives = 29/48 (60%), Gaps = 1/48 (2%)

Query: 19 QLRRERIADRMRALQELVPSCN-KTDRAAMLDEIVDYVKFLRLQVKVL 65
          +  R  I D++  L++LV     K +++A+L + +DY++FL+   + L
Sbjct: 15 KRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKL 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 = 42.6 bits (100), Expect = 7e-07
 Identities = 6/47 (12%), Positives = 20/47 (42%), Gaps = 2/47 (4%)

Query: 19 QLRRERIADRMRALQELVPSCN--KTDRAAMLDEIVDYVKFLRLQVK 63
          + R  ++ +    L+    S    +  +  +L   + Y++ L+  ++
Sbjct: 21 RRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR 67

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

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

 Score = 42.5 bits (100), Expect = 8e-07
 Identities = 10/51 (19%), Positives = 24/51 (47%), Gaps = 6/51 (11%)

Query: 19 QLRRERIADRMRALQELVPSCN------KTDRAAMLDEIVDYVKFLRLQVK 63
          + RR++I + +  L +++P  +         +  +L +  DY++ LR    
Sbjct: 14 RRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 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 = 41.4 bits (97), Expect = 3e-06
 Identities = 9/54 (16%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 19 QLRRERIADRMRALQELVPSCN---KTDRAAMLDEIVDYVKFLRLQVKVLSMSR 69
          + RR  +   +  L+ LVP      +    ++L +   ++K L    +      
Sbjct: 10 KNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQI 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	166
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.58
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.55
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.51
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.5
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.47
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	99.47
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.46

>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=99.58  E-value=5e-16  Score=104.13  Aligned_cols=52  Identities=23%  Similarity=0.349  Sum_probs=48.0

Q ss_pred             cccchHHHHHHHHHHHHHHHHHhhcCCC-------CCCCChhhHHHHHHHHHHHHHHHH
Q 040019           11 MFSLFFVVQLRRERIADRMRALQELVPS-------CNKTDRAAMLDEIVDYVKFLRLQV   62 (166)
Q Consensus        11 ~~~hs~aER~RRerIneri~aLq~LVP~-------~~K~DkasVL~eAI~YIk~Lq~qV   62 (166)
                      +..|+.+||+||++||+.|..|+.|||+       ..|++|++||+.||+||++||++|
T Consensus         3 R~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k~sKa~iL~~Av~yI~~Lq~~v   61 (63)
T d1a0aa_           3 RESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             TTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCcccccHHHHHHHHHHHHHHHHHhh
Confidence            5679999999999999999999999994       468999999999999999999875

>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=99.58  E-value=9.6e-16  Score=106.81  Aligned_cols=61  Identities=23%  Similarity=0.393  Sum_probs=55.6

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCCC-CCChhhHHHHHHHHHHHHHHHHHHhchhh
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSCN-KTDRAAMLDEIVDYVKFLRLQVKVLSMSR   69 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~~-K~DkasVL~eAI~YIk~Lq~qVk~Ls~~~   69 (166)
                      +.+..|+.+||+||++||+.|..|++|||+.. |+||++||..||+||++|+.+++.|....
T Consensus         5 ~kR~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~e~   66 (80)
T d1am9a_           5 EKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQEN   66 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45678999999999999999999999999864 89999999999999999999999987643

>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=99.55  E-value=1.2e-15  Score=103.95  Aligned_cols=55  Identities=11%  Similarity=0.226  Sum_probs=49.8

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHH
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSC--NKTDRAAMLDEIVDYVKFLRLQVK   63 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~--~K~DkasVL~eAI~YIk~Lq~qVk   63 (166)
                      ..+..|+..||+||++||+.|..|++|||++  .|+||++||..||+||++||.+|+
T Consensus        11 ~rR~~hn~~Er~Rr~~in~~~~~L~~llP~~~~~k~sK~~iL~~Ai~YI~~Lq~~l~   67 (68)
T d1mdya_          11 DRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR   67 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            4456799999999999999999999999985  478999999999999999998764

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

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

Probab=99.51  E-value=1.5e-14  Score=100.00  Aligned_cols=57  Identities=16%  Similarity=0.080  Sum_probs=52.4

Q ss_pred             ccchHHHHHHHHHHHHHHHHHhhcCCCCC---CCChhhHHHHHHHHHHHHHHHHHHhchh
Q 040019           12 FSLFFVVQLRRERIADRMRALQELVPSCN---KTDRAAMLDEIVDYVKFLRLQVKVLSMS   68 (166)
Q Consensus        12 ~~hs~aER~RRerIneri~aLq~LVP~~~---K~DkasVL~eAI~YIk~Lq~qVk~Ls~~   68 (166)
                      ..|+..||+||++||+.|..|+++||++.   |++|++||.+||+||++|+.+++.|...
T Consensus         3 ~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~   62 (79)
T d1nlwa_           3 STHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQ   62 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46999999999999999999999999753   7899999999999999999999988654

>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=99.50  E-value=1.4e-14  Score=100.97  Aligned_cols=58  Identities=26%  Similarity=0.447  Sum_probs=53.1

Q ss_pred             ccccchHHHHHHHHHHHHHHHHHhhcCCCC--CCCChhhHHHHHHHHHHHHHHHHHHhch
Q 040019           10 QMFSLFFVVQLRRERIADRMRALQELVPSC--NKTDRAAMLDEIVDYVKFLRLQVKVLSM   67 (166)
Q Consensus        10 a~~~hs~aER~RRerIneri~aLq~LVP~~--~K~DkasVL~eAI~YIk~Lq~qVk~Ls~   67 (166)
                      .+..|+..||+||++||+.|..|+++||+.  .|++|++||..||+||++|+.+++.|..
T Consensus         2 rR~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~   61 (83)
T d1nkpb_           2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQ   61 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356799999999999999999999999964  5899999999999999999999998864

>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=99.47  E-value=2.3e-14  Score=100.90  Aligned_cols=59  Identities=15%  Similarity=0.257  Sum_probs=53.6

Q ss_pred             ccccchHHHHHHHHHHHHHHHHHhhcCCCC---CCCChhhHHHHHHHHHHHHHHHHHHhchh
Q 040019           10 QMFSLFFVVQLRRERIADRMRALQELVPSC---NKTDRAAMLDEIVDYVKFLRLQVKVLSMS   68 (166)
Q Consensus        10 a~~~hs~aER~RRerIneri~aLq~LVP~~---~K~DkasVL~eAI~YIk~Lq~qVk~Ls~~   68 (166)
                      .+..|+.+||+||++||+.|..|+++||+.   .|.+|++||..||+||++|+.+++.|...
T Consensus         6 rR~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l~~~   67 (88)
T d1nkpa_           6 KRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISE   67 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356799999999999999999999999975   47899999999999999999999998753

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

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

Probab=99.47  E-value=6.9e-15  Score=98.11  Aligned_cols=49  Identities=27%  Similarity=0.520  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHhhcCCCCC-CCChhhHHHHHHHHHHHHHHHHHHhchhhc
Q 040019           22 RERIADRMRALQELVPSCN-KTDRAAMLDEIVDYVKFLRLQVKVLSMSRL   70 (166)
Q Consensus        22 RerIneri~aLq~LVP~~~-K~DkasVL~eAI~YIk~Lq~qVk~Ls~~~l   70 (166)
                      |++||++|.+|+++||++. |+||++||.+||+||++||.|++.|...+.
T Consensus         1 R~~in~~f~~L~~lvP~~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L~~e~~   50 (61)
T d1uklc_           1 RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENM   50 (61)
T ss_dssp             CCCHHHHHHHHHHHHSCSSCCCCTTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6789999999999999875 999999999999999999999999987653

>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=99.46  E-value=1e-14  Score=98.10  Aligned_cols=54  Identities=20%  Similarity=0.364  Sum_probs=48.8

Q ss_pred             cccccchHHHHHHHHHHHHHHHHHhhcCCCC------CCCChhhHHHHHHHHHHHHHHHH
Q 040019            9 QQMFSLFFVVQLRRERIADRMRALQELVPSC------NKTDRAAMLDEIVDYVKFLRLQV   62 (166)
Q Consensus         9 ~a~~~hs~aER~RRerIneri~aLq~LVP~~------~K~DkasVL~eAI~YIk~Lq~qV   62 (166)
                      +.+..|+.+||+||++||+.|..|+.|||.+      .|++|+.||..||+||++||++.
T Consensus         4 ~rR~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~~~   63 (65)
T d1an4a_           4 KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSN   63 (65)
T ss_dssp             CCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            4567899999999999999999999999965      38899999999999999999753