Psyllid ID: psy6235

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70------
Protein Sequence
MTDFFFMKSNLGSENESPPRGPSHLLTPCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTIH
Secondary Structure (PSIPRED)
cccHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEcccccccccccccccccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHcccccccHHHHHcc
Coil and Loop (DISEMBL)
MTDFFFMKsnlgsenespprgpshlltpctdkEKRIRREIANSNERRRMQSINAGFQSLRTllphhegeklsktih
Flexible Loop (DISEMBL)
MTDFFFMKSNlgsenespprgpshlltpctdkekrIRREIansnerrrmqSINAGFQSlrtllphhegeklsktih
Low Complexity Region (SEG)
MTDFFFMKSNLGSENESPPRGPSHLLTPCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTIH
Disordered region (IsUnstruct)
****************************************************************************
Disordered Region (DISOPRED)
*TDFFF********************************************SINAGFQSLRTLLPHH**********
Disordered Region (DISEMBL)
MTDFFFMKSN***********PSHLLTPCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHE*********
Disordered Region (DISPRO)
*TDFFF*KSN**********************EKRIRREIANSNERRRMQSINAGFQSLRTLLPH***********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MTDFFFMKSNLGSENESPPRGPSHLLTPCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTIH
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	76	2.2.26 [Sep-21-2011]
Q01664	338	Transcription factor AP-4	yes	N/A	0.644	0.144	0.803	7e-16
P34474	431	Helix-loop-helix protein	yes	N/A	0.565	0.099	0.744	8e-12

>sp|Q01664|TFAP4_HUMAN Transcription factor AP-4 OS=Homo sapiens GN=TFAP4 PE=1 SV=2

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 41/51 (80%), Positives = 46/51 (90%), Gaps = 2/51 (3%)

Query: 26 LTPCT--DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
          LTP T  D+E+RIRREIANSNERRRMQSINAGFQSL+TL+PH +GEKLSK 
Sbjct: 36 LTPETQRDQERRIRREIANSNERRRMQSINAGFQSLKTLIPHTDGEKLSKA 86

Transcription factor that activates both viral and cellular genes by binding to the symmetrical DNA sequence 5'-CAGCTG-3'.
Homo sapiens (taxid: 9606)

>sp|P34474|HLH11_CAEEL Helix-loop-helix protein 11 OS=Caenorhabditis elegans GN=hlh-11 PE=4 SV=3

 Score = 68.9 bits (167), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 32/43 (74%), Positives = 36/43 (83%)

Query: 31  DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
           D+  R+RR+IAN NERRRMQSINAGF +LR LLP  EGEKLSK
Sbjct: 107 DRRSRMRRQIANCNERRRMQSINAGFLALRALLPRKEGEKLSK 149

Caenorhabditis elegans (taxid: 6239)

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	76
332026059	427	Transcription factor AP-4 [Acromyrmex ec	0.592	0.105	0.911	6e-16
195035809	679	GH10096 [Drosophila grimshawi] gi|193905	0.605	0.067	0.891	1e-15
195114846	659	GI14377 [Drosophila mojavensis] gi|19391	0.605	0.069	0.891	1e-15
322784882	136	hypothetical protein SINV_09403 [Solenop	0.578	0.323	0.909	2e-15
194857773	629	GG24179 [Drosophila erecta] gi|190660896	0.618	0.074	0.851	2e-15
380012925	136	PREDICTED: helix-loop-helix protein 11-l	0.565	0.316	0.930	2e-15
195343118	608	GM17917 [Drosophila sechellia] gi|194132	0.618	0.077	0.851	3e-15
110749113	537	PREDICTED: hypothetical protein LOC72672	0.565	0.080	0.930	3e-15
195475392	632	GE19372 [Drosophila yakuba] gi|194176069	0.618	0.074	0.851	3e-15
350404782	534	PREDICTED: hypothetical protein LOC10074	0.565	0.080	0.930	3e-15

>gi|332026059|gb|EGI66210.1| Transcription factor AP-4 [Acromyrmex echinatior]

 Score = 88.2 bits (217), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 41/45 (91%), Positives = 45/45 (100%)

Query: 31  DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI 75
           ++EKR+RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT+
Sbjct: 194 EQEKRMRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTV 238

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195035809|ref|XP_001989364.1| GH10096 [Drosophila grimshawi] gi|193905364|gb|EDW04231.1| GH10096 [Drosophila grimshawi]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 41/46 (89%), Positives = 42/46 (91%)

Query: 28  PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
           P  D EKRIRREIANSNERRRMQSINAGFQSLR+LLP HEGEKLSK
Sbjct: 98  PILDTEKRIRREIANSNERRRMQSINAGFQSLRSLLPRHEGEKLSK 143

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195114846|ref|XP_002001978.1| GI14377 [Drosophila mojavensis] gi|193912553|gb|EDW11420.1| GI14377 [Drosophila mojavensis]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 41/46 (89%), Positives = 42/46 (91%)

Query: 28  PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
           P  D EKRIRREIANSNERRRMQSINAGFQSLR+LLP HEGEKLSK
Sbjct: 88  PILDTEKRIRREIANSNERRRMQSINAGFQSLRSLLPRHEGEKLSK 133

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322784882|gb|EFZ11662.1| hypothetical protein SINV_09403 [Solenopsis invicta]

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 40/44 (90%), Positives = 43/44 (97%)

Query: 31  DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
           ++EKR+RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 
Sbjct: 84  EQEKRMRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKV 127

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194857773|ref|XP_001969029.1| GG24179 [Drosophila erecta] gi|190660896|gb|EDV58088.1| GG24179 [Drosophila erecta]

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 40/47 (85%), Positives = 42/47 (89%)

Query: 28  PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
           P  D EKR+RREIANSNERRRMQSINAGFQSLR+LLP HEGEKLSK 
Sbjct: 88  PLVDSEKRMRREIANSNERRRMQSINAGFQSLRSLLPRHEGEKLSKA 134

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380012925|ref|XP_003690523.1| PREDICTED: helix-loop-helix protein 11-like, partial [Apis florea]

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 40/43 (93%), Positives = 43/43 (100%)

Query: 31  DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
           ++EKR+RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK
Sbjct: 94  EQEKRMRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 136

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195343118|ref|XP_002038145.1| GM17917 [Drosophila sechellia] gi|194132995|gb|EDW54563.1| GM17917 [Drosophila sechellia]

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 40/47 (85%), Positives = 42/47 (89%)

Query: 28  PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
           P  D EKR+RREIANSNERRRMQSINAGFQSLR+LLP HEGEKLSK 
Sbjct: 88  PLVDSEKRMRREIANSNERRRMQSINAGFQSLRSLLPRHEGEKLSKA 134

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110749113|ref|XP_001122450.1| PREDICTED: hypothetical protein LOC726729 [Apis mellifera]

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 40/43 (93%), Positives = 43/43 (100%)

Query: 31  DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
           ++EKR+RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK
Sbjct: 94  EQEKRMRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 136

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195475392|ref|XP_002089968.1| GE19372 [Drosophila yakuba] gi|194176069|gb|EDW89680.1| GE19372 [Drosophila yakuba]

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 40/47 (85%), Positives = 42/47 (89%)

Query: 28  PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
           P  D EKR+RREIANSNERRRMQSINAGFQSLR+LLP HEGEKLSK 
Sbjct: 88  PLVDSEKRMRREIANSNERRRMQSINAGFQSLRSLLPRHEGEKLSKA 134

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350404782|ref|XP_003487219.1| PREDICTED: hypothetical protein LOC100748243 [Bombus impatiens]

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 40/43 (93%), Positives = 43/43 (100%)

Query: 31  DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
           ++EKR+RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK
Sbjct: 94  EQEKRMRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 136

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	76
UNIPROTKB|J9NTH7	304	TFAP4 "Uncharacterized protein	0.631	0.157	0.82	8.1e-16
ZFIN|ZDB-GENE-090810-1	335	tfap4 "transcription factor AP	0.631	0.143	0.82	1.2e-15
UNIPROTKB|A6QLV4	335	TFAP4 "Uncharacterized protein	0.631	0.143	0.82	1.5e-15
UNIPROTKB|E2R4Y0	337	TFAP4 "Uncharacterized protein	0.631	0.142	0.82	1.6e-15
UNIPROTKB|Q01664	338	TFAP4 "Transcription factor AP	0.631	0.142	0.82	1.6e-15
RGD|1308357	338	Tfap4 "transcription factor AP	0.631	0.142	0.82	1.6e-15
FB|FBgn0001994	631	crp "cropped" [Drosophila mela	0.605	0.072	0.869	2.4e-15
WB|WBGene00001955	431	hlh-11 [Caenorhabditis elegans	0.763	0.134	0.606	1.5e-11
UNIPROTKB|I3L254	115	TFAP4 "Transcription factor AP	0.328	0.217	0.84	1.6e-06
UNIPROTKB|E1C082	166	BHLHA15 "Uncharacterized prote	0.815	0.373	0.380	4.3e-06

UNIPROTKB|J9NTH7 TFAP4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 198 (74.8 bits), Expect = 8.1e-16, P = 8.1e-16
 Identities = 41/50 (82%), Positives = 46/50 (92%)

Query:    26 LTPCT--DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             LTP T  D+E+RIRREIANSNERRRMQSINAGFQSL+TL+PH +GEKLSK
Sbjct:    36 LTPETQRDQERRIRREIANSNERRRMQSINAGFQSLKTLIPHTDGEKLSK 85

GO:0046983 "protein dimerization activity" evidence=IEA

ZFIN|ZDB-GENE-090810-1 tfap4 "transcription factor AP-4 (activating enhancer binding protein 4)" [Danio rerio (taxid:7955)]

 Score = 199 (75.1 bits), Expect = 1.2e-15, P = 1.2e-15
 Identities = 41/50 (82%), Positives = 46/50 (92%)

Query:    26 LTPCT--DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             LTP T  D+E+RIRREIANSNERRRMQSINAGFQSL+TL+PH +GEKLSK
Sbjct:    36 LTPETARDQERRIRREIANSNERRRMQSINAGFQSLKTLIPHSDGEKLSK 85

GO:0046983 "protein dimerization activity" evidence=IEA

UNIPROTKB|A6QLV4 TFAP4 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 198 (74.8 bits), Expect = 1.5e-15, P = 1.5e-15
 Identities = 41/50 (82%), Positives = 46/50 (92%)

Query:    26 LTPCT--DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             LTP T  D+E+RIRREIANSNERRRMQSINAGFQSL+TL+PH +GEKLSK
Sbjct:    36 LTPETQRDQERRIRREIANSNERRRMQSINAGFQSLKTLIPHTDGEKLSK 85

GO:0071549 "cellular response to dexamethasone stimulus" evidence=IEA

GO:0071157 "negative regulation of cell cycle arrest" evidence=IEA

GO:0070888 "E-box binding" evidence=IEA

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

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA

GO:0043923 "positive regulation by host of viral transcription" evidence=IEA

GO:0043922 "negative regulation by host of viral transcription" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0043392 "negative regulation of DNA binding" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0043065 "positive regulation of apoptotic process" evidence=IEA

GO:0042826 "histone deacetylase binding" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0017053 "transcriptional repressor complex" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0007090 "regulation of S phase of mitotic cell cycle" evidence=IEA

GO:0006978 "DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator" evidence=IEA

GO:0006461 "protein complex assembly" evidence=IEA

GO:0003705 "RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity" evidence=IEA

UNIPROTKB|E2R4Y0 TFAP4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 198 (74.8 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 41/50 (82%), Positives = 46/50 (92%)

Query:    26 LTPCT--DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             LTP T  D+E+RIRREIANSNERRRMQSINAGFQSL+TL+PH +GEKLSK
Sbjct:    36 LTPETQRDQERRIRREIANSNERRRMQSINAGFQSLKTLIPHTDGEKLSK 85

GO:0046983 "protein dimerization activity" evidence=IEA

UNIPROTKB|Q01664 TFAP4 "Transcription factor AP-4" [Homo sapiens (taxid:9606)]

 Score = 198 (74.8 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 41/50 (82%), Positives = 46/50 (92%)

Query:    26 LTPCT--DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             LTP T  D+E+RIRREIANSNERRRMQSINAGFQSL+TL+PH +GEKLSK
Sbjct:    36 LTPETQRDQERRIRREIANSNERRRMQSINAGFQSLKTLIPHTDGEKLSK 85

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0071549 "cellular response to dexamethasone stimulus" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IMP;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0070888 "E-box binding" evidence=IDA

GO:0006461 "protein complex assembly" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0046982 "protein heterodimerization activity" evidence=IMP

GO:0071157 "negative regulation of cell cycle arrest" evidence=IMP

GO:0008285 "negative regulation of cell proliferation" evidence=IMP

GO:0043065 "positive regulation of apoptotic process" evidence=IDA

GO:0007090 "regulation of S phase of mitotic cell cycle" evidence=IDA

GO:0042826 "histone deacetylase binding" evidence=IPI

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

GO:0043392 "negative regulation of DNA binding" evidence=IDA

GO:0043922 "negative regulation by host of viral transcription" evidence=NAS;IDA

GO:0017053 "transcriptional repressor complex" evidence=ISS

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0043565 "sequence-specific DNA binding" evidence=IDA

GO:0003705 "RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity" evidence=IDA

GO:0043923 "positive regulation by host of viral transcription" evidence=IDA

GO:0003713 "transcription coactivator activity" evidence=IDA

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

GO:0003677 "DNA binding" evidence=IDA

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IDA

GO:0006978 "DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator" evidence=IDA

RGD|1308357 Tfap4 "transcription factor AP-4" [Rattus norvegicus (taxid:10116)]

 Score = 198 (74.8 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 41/50 (82%), Positives = 46/50 (92%)

Query:    26 LTPCT--DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             LTP T  D+E+RIRREIANSNERRRMQSINAGFQSL+TL+PH +GEKLSK
Sbjct:    36 LTPETQRDQERRIRREIANSNERRRMQSINAGFQSLKTLIPHTDGEKLSK 85

GO:0003677 "DNA binding" evidence=ISO

GO:0003705 "RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=ISO

GO:0006461 "protein complex assembly" evidence=IEA;ISO

GO:0006978 "DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator" evidence=IEA;ISO

GO:0007090 "regulation of S phase of mitotic cell cycle" evidence=IEA;ISO

GO:0008285 "negative regulation of cell proliferation" evidence=IEA;ISO

GO:0010629 "negative regulation of gene expression" evidence=ISO

GO:0017053 "transcriptional repressor complex" evidence=IEA;ISO

GO:0042803 "protein homodimerization activity" evidence=IEA;ISO

GO:0042826 "histone deacetylase binding" evidence=IEA;ISO

GO:0043065 "positive regulation of apoptotic process" evidence=IEA;ISO

GO:0043066 "negative regulation of apoptotic process" evidence=IEA;ISO

GO:0043392 "negative regulation of DNA binding" evidence=IEA;ISO

GO:0043565 "sequence-specific DNA binding" evidence=IEA;ISO

GO:0043922 "negative regulation by host of viral transcription" evidence=IEA;ISO

GO:0043923 "positive regulation by host of viral transcription" evidence=IEA;ISO

GO:0044212 "transcription regulatory region DNA binding" evidence=ISO

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA;ISO

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA;ISO

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA;ISO

GO:0070888 "E-box binding" evidence=IEA;ISO

GO:0071157 "negative regulation of cell cycle arrest" evidence=IEA;ISO

GO:0071549 "cellular response to dexamethasone stimulus" evidence=IEA;ISO

GO:0003713 "transcription coactivator activity" evidence=ISO

GO:0046982 "protein heterodimerization activity" evidence=ISO

FB|FBgn0001994 crp "cropped" [Drosophila melanogaster (taxid:7227)]

 Score = 203 (76.5 bits), Expect = 2.4e-15, P = 2.4e-15
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:    28 PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             P  D EKR+RREIANSNERRRMQSINAGFQSLR+LLP HEGEKLSK
Sbjct:    88 PLVDSEKRMRREIANSNERRRMQSINAGFQSLRSLLPRHEGEKLSK 133

GO:0005634 "nucleus" evidence=ISS;IDA

GO:0043565 "sequence-specific DNA binding" evidence=IDA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

WB|WBGene00001955 hlh-11 [Caenorhabditis elegans (taxid:6239)]

 Score = 165 (63.1 bits), Expect = 1.5e-11, P = 1.5e-11
 Identities = 37/61 (60%), Positives = 44/61 (72%)

Query:    13 SENESPPRGPSHLLTPCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLS 72
             S ++  P  P+ L  P  D+  R+RR+IAN NERRRMQSINAGF +LR LLP  EGEKLS
Sbjct:    92 SLSQPAPLSPTSL-DP--DRRSRMRRQIANCNERRRMQSINAGFLALRALLPRKEGEKLS 148

Query:    73 K 73
             K
Sbjct:   149 K 149

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0043652 "engulfment of apoptotic cell" evidence=IMP

UNIPROTKB|I3L254 TFAP4 "Transcription factor AP-4" [Homo sapiens (taxid:9606)]

 Score = 110 (43.8 bits), Expect = 1.6e-06, P = 1.6e-06
 Identities = 21/25 (84%), Positives = 24/25 (96%)

Query:    49 MQSINAGFQSLRTLLPHHEGEKLSK 73
             MQSINAGFQSL+TL+PH +GEKLSK
Sbjct:     1 MQSINAGFQSLKTLIPHTDGEKLSK 25

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0006461 "protein complex assembly" evidence=IEA

GO:0017053 "transcriptional repressor complex" evidence=IEA

GO:0042826 "histone deacetylase binding" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0070888 "E-box binding" evidence=IEA

GO:0071549 "cellular response to dexamethasone stimulus" evidence=IEA

UNIPROTKB|E1C082 BHLHA15 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 24/63 (38%), Positives = 35/63 (55%)

Query:    12 GSENESPPRGPSHLLTPCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGE-K 70
             G   ES     +    P + K++ +RR  +N  ER+RM  +N  FQ+LR ++PH   E K
Sbjct:    42 GGSKESSRIAAARAKHPWSSKDRLLRRLESNERERQRMHKLNNAFQALREVIPHVRAENK 101

Query:    71 LSK 73
             LSK
Sbjct:   102 LSK 104

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006851 "mitochondrial calcium ion transport" evidence=IEA

GO:0007030 "Golgi organization" evidence=IEA

GO:0007186 "G-protein coupled receptor signaling pathway" evidence=IEA

GO:0007267 "cell-cell signaling" evidence=IEA

GO:0019722 "calcium-mediated signaling" evidence=IEA

GO:0042593 "glucose homeostasis" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0048312 "intracellular distribution of mitochondria" evidence=IEA

GO:0048469 "cell maturation" evidence=IEA

---

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)
P34474	HLH11_CAEEL	No assigned EC number	0.7441	0.5657	0.0997	yes	N/A
Q01664	TFAP4_HUMAN	No assigned EC number	0.8039	0.6447	0.1449	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	76
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	2e-10
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	7e-07
smart00353	53	smart00353, HLH, helix loop helix domain	2e-06

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

 Score = 50.2 bits (121), Expect = 2e-10
 Identities = 19/37 (51%), Positives = 22/37 (59%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
          RR+  N  ERRR   IN  F+ LR LLP    +KLSK
Sbjct: 1  RRKAHNERERRRRDRINDAFEELRELLPTPPNKKLSK 37

Length = 52

>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 = 41.4 bits (98), Expect = 7e-07
 Identities = 20/38 (52%), Positives = 23/38 (60%), Gaps = 1/38 (2%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLP-HHEGEKLSK 73
          RRE  N  ERRR + IN  F  LR+LLP     +KLSK
Sbjct: 4  RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSK 41

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

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

 Score = 40.3 bits (95), Expect = 2e-06
 Identities = 17/33 (51%), Positives = 22/33 (66%), Gaps = 1/33 (3%)

Query: 42 NSNERRRMQSINAGFQSLRTLLP-HHEGEKLSK 73
          N+ ERRR + IN  F  LR+LLP   + +KLSK
Sbjct: 1  NARERRRRRKINEAFDELRSLLPTLPKNKKLSK 33

Length = 53

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	76
KOG3898|consensus	254		99.34
KOG4029|consensus	228		99.18
KOG4447|consensus	173		99.07
KOG0561|consensus	373		99.04
KOG4395|consensus	285		98.92
KOG3960|consensus	284		98.56
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	98.49
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	98.18
smart00353	53	HLH helix loop helix domain.	98.13
KOG3910|consensus	632		97.61
KOG4447|consensus	173		95.42
KOG1319|consensus	229		95.0
KOG1318|consensus	411		91.75

>KOG3898|consensus

Probab=99.34  E-value=3.5e-13  Score=99.93  Aligned_cols=43  Identities=40%  Similarity=0.560  Sum_probs=39.7

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCC-CCCCccc
Q psy6235          33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEG-EKLSKTI   75 (76)
Q Consensus        33 ~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~-~KLSKi~   75 (76)
                      .++.+|.++|+|||+|||+||+|||.||.+||+.+. .|||||.
T Consensus        68 ~~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIe  111 (254)
T KOG3898|consen   68 ALTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIE  111 (254)
T ss_pred             hhhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcch
Confidence            678999999999999999999999999999998774 5999984

>KOG4029|consensus

Probab=99.18  E-value=2.6e-11  Score=87.34  Aligned_cols=46  Identities=39%  Similarity=0.621  Sum_probs=40.7

Q ss_pred             ChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC--CCCCCccc
Q psy6235          30 TDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHE--GEKLSKTI   75 (76)
Q Consensus        30 ~~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p--~~KLSKi~   75 (76)
                      .......+|.++|+|||.||++||.||++||.+||+.+  ++|||||.
T Consensus       102 ~~~~~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKve  149 (228)
T KOG4029|consen  102 KSSQTSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVE  149 (228)
T ss_pred             cccchhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCccc
Confidence            34456778999999999999999999999999999987  46999985

>KOG4447|consensus

Probab=99.07  E-value=3.4e-10  Score=81.06  Aligned_cols=62  Identities=37%  Similarity=0.468  Sum_probs=50.0

Q ss_pred             CCCCCCCCCCCCCC-------CCChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          14 ENESPPRGPSHLLT-------PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        14 e~~~~~~g~s~~~~-------~~~~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      +..+|..|.+....       .....+.+.+|.-+|.|||.|.++||.||..||..||+.|.+|||||+
T Consensus        48 ~pgspa~gk~~~ktlr~~~~~~~~~dE~q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiq  116 (173)
T KOG4447|consen   48 EPGSPADGKRGKKTLRIGTDSIQSLDELQKQRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQ  116 (173)
T ss_pred             CCCCCCcccccccccccCCCchhhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCcccccccc
Confidence            44455555554431       112467788999999999999999999999999999999999999996

>KOG0561|consensus

Probab=99.04  E-value=1.3e-10  Score=90.42  Aligned_cols=47  Identities=79%  Similarity=1.088  Sum_probs=44.2

Q ss_pred             CChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          29 CTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        29 ~~~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      ..+.+++.||.-||..||+||+.||.+|..||.+||...++||||.|
T Consensus        52 ~~D~erRmRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAA   98 (373)
T KOG0561|consen   52 SLDPERRMRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAA   98 (373)
T ss_pred             ccCHHHHHHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHH
Confidence            35788999999999999999999999999999999999999999975

>KOG4395|consensus

Probab=98.92  E-value=8.3e-10  Score=83.98  Aligned_cols=43  Identities=42%  Similarity=0.633  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCC-CCCCcc
Q psy6235          32 KEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEG-EKLSKT   74 (76)
Q Consensus        32 ~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~-~KLSKi   74 (76)
                      ...+.+|.++|+|||+||+.||.|||.||.+||.... +||||-
T Consensus       169 ~v~~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSky  212 (285)
T KOG4395|consen  169 SVNSHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKY  212 (285)
T ss_pred             hHHHhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhh
Confidence            3466889999999999999999999999999999875 699984

>KOG3960|consensus

Probab=98.56  E-value=1.3e-07  Score=72.08  Aligned_cols=70  Identities=23%  Similarity=0.347  Sum_probs=53.0

Q ss_pred             cccccCCCCCCCCCCCCC-CCCCCCCC---------hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235           5 FFMKSNLGSENESPPRGP-SHLLTPCT---------DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT   74 (76)
Q Consensus         5 ~~~~~~~g~e~~~~~~g~-s~~~~~~~---------~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi   74 (76)
                      ++-.++...|.+-.+.+- -|+.++|.         +.....||.+|..|||+|.+.||.||+.|++.--..|+.+|-|+
T Consensus        76 ~p~~~~~Ede~v~ap~~~shh~~g~cl~wackackrks~svDRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKV  155 (284)
T KOG3960|consen   76 HPAPGSDEDEHVRAPSVDSHHQAGQCLLWACKACKRKSTSVDRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKV  155 (284)
T ss_pred             ccCCCCcccccccCCCCCcccCCcchHHHhhhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHH
Confidence            344455555666555553 34455552         33457799999999999999999999999999988999999886

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

Probab=98.49  E-value=1.9e-07  Score=53.86  Aligned_cols=38  Identities=50%  Similarity=0.699  Sum_probs=33.9

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCCC---CCCCCCcc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPHH---EGEKLSKT   74 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~---p~~KLSKi   74 (76)
                      +|...|.+||.|...||.+|+.|+.+||..   ...|++|+
T Consensus         1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~   41 (55)
T PF00010_consen    1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKA   41 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHH
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHH
Confidence            578899999999999999999999999996   34588885

; 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 ....

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

Probab=98.18  E-value=3.5e-06  Score=48.23  Aligned_cols=39  Identities=51%  Similarity=0.710  Sum_probs=34.6

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCcc
Q psy6235          36 IRREIANSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKT   74 (76)
Q Consensus        36 ~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi   74 (76)
                      .+|...|..||.|...||.+|+.|+.+||... ..|++|+
T Consensus         3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~   42 (60)
T cd00083           3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKA   42 (60)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHH
Confidence            46778999999999999999999999999987 5688875

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=98.13  E-value=2.9e-06  Score=47.99  Aligned_cols=34  Identities=50%  Similarity=0.730  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCccc
Q psy6235          42 NSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKTI   75 (76)
Q Consensus        42 N~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi~   75 (76)
                      |..||.|...+|.+|+.|+.+||... ..|++|+.
T Consensus         1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~   35 (53)
T smart00353        1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAE   35 (53)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH
Confidence            67899999999999999999999975 66888753

>KOG3910|consensus

Probab=97.61  E-value=3.5e-05  Score=63.65  Aligned_cols=33  Identities=30%  Similarity=0.471  Sum_probs=29.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCC
Q psy6235          33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPH   65 (76)
Q Consensus        33 ~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~   65 (76)
                      ..+.||.+.|+|||.||+.||.||.+|-+++-.
T Consensus       522 REkERR~aNNARERlRVRDINeAfKELGRMCql  554 (632)
T KOG3910|consen  522 REKERRMANNARERLRVRDINEAFKELGRMCQL  554 (632)
T ss_pred             HHHHHHhhhhhhhheehhhHHHHHHHHHHHHHH
Confidence            357799999999999999999999999887654

>KOG4447|consensus

Probab=95.42  E-value=0.023  Score=41.14  Aligned_cols=40  Identities=18%  Similarity=0.165  Sum_probs=31.5

Q ss_pred             HHHHHHHhHH-HHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235          35 RIRREIANSN-ERRRMQSINAGFQSLRTLLPHHEGEKLSKT   74 (76)
Q Consensus        35 ~~rR~~aN~R-ER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi   74 (76)
                      ...+.-+|.| ||.|...+|.||+-|+.++|..|..+.+++
T Consensus        19 ~~~~~~~r~~~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~   59 (173)
T KOG4447|consen   19 VSEEECDRQRKERGRKRRLSDASTLLGKLEPGSPADGKRGK   59 (173)
T ss_pred             hhhhhhhhhHHHHhHHhhhhhhhhhccccCCCCCCcccccc
Confidence            3345556666 999999999999999999999986655544

>KOG1319|consensus

Probab=95.00  E-value=0.062  Score=40.19  Aligned_cols=41  Identities=39%  Similarity=0.639  Sum_probs=31.4

Q ss_pred             HHHHHHH-hHHHHHHHHHHHHHHHHHHhhCCCC-CC----CCCCccc
Q psy6235          35 RIRREIA-NSNERRRMQSINAGFQSLRTLLPHH-EG----EKLSKTI   75 (76)
Q Consensus        35 ~~rR~~a-N~RER~Rm~~lN~AF~~LR~~lP~~-p~----~KLSKi~   75 (76)
                      +.+|.++ ..=||.|-.-||.+|+.|..+||.. +.    .||||.+
T Consensus        59 k~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~  105 (229)
T KOG1319|consen   59 KDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAI  105 (229)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHH
Confidence            3444444 4559999999999999999999996 32    3888853

>KOG1318|consensus

Probab=91.75  E-value=0.87  Score=36.80  Aligned_cols=43  Identities=33%  Similarity=0.446  Sum_probs=34.5

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC--CCCCCc
Q psy6235          31 DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHE--GEKLSK   73 (76)
Q Consensus        31 ~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p--~~KLSK   73 (76)
                      ....+.+|.--|+=||+|--+||....+|-++||...  +.|+.|
T Consensus       227 ~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nK  271 (411)
T KOG1318|consen  227 LERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNK  271 (411)
T ss_pred             hHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhccc
Confidence            4455667777899999999999999999999999973  235544

---

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	76
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	2e-10
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	2e-09
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	9e-09
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	4e-07
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	5e-07
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	4e-06
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	7e-04

>2ql2_B Neurod1, neurogenic differentiation factor 1; basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus} Length = 60

 Score = 49.9 bits (120), Expect = 2e-10
 Identities = 17/38 (44%), Positives = 25/38 (65%), Gaps = 1/38 (2%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHH-EGEKLSK 73
          RR  AN+ ER RM  +NA   +LR ++P + + +KLSK
Sbjct: 2  RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSK 39

>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 = 48.1 bits (115), Expect = 2e-09
 Identities = 15/45 (33%), Positives = 22/45 (48%)

Query: 29 CTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
             +    +R   N+ ER+R   I   F SLR  +P  +GEK S+
Sbjct: 4  IEVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASR 48

>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* Length = 68

 Score = 45.8 bits (109), Expect = 9e-09
 Identities = 12/37 (32%), Positives = 21/37 (56%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
          RR+ A   ERRR+  +N  F++L+     +  ++L K
Sbjct: 12 RRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPK 48

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

 Score = 42.0 bits (99), Expect = 4e-07
 Identities = 15/37 (40%), Positives = 21/37 (56%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
          +R   N+ ER+R   I   F SLR  +P  +GEK S+
Sbjct: 2  KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASR 38

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

 Score = 41.9 bits (99), Expect = 5e-07
 Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 1/42 (2%)

Query: 33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPH-HEGEKLSK 73
             ++R   N  ER+R   +   F +LR  +P     EK  K
Sbjct: 2  HMNVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPK 43

>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 = 39.3 bits (92), Expect = 4e-06
 Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 32 KEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
          + +  +R   N+ E+R   SIN     L+ L+   E  KL+K
Sbjct: 1  QSRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEA-KLNK 41

>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 = 33.5 bits (77), Expect = 7e-04
 Identities = 14/43 (32%), Positives = 16/43 (37%), Gaps = 4/43 (9%)

Query: 35 RIRREIANSNERRRMQSINAGFQSLRTLLPHHEGE----KLSK 73
            RR   N  ERRR   IN     L  ++P    E      SK
Sbjct: 3  EKRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSK 45

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	76
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.59
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	99.58
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	99.33
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	99.12
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	98.93
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	98.86
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	98.84
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	98.62
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	98.38
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	98.17
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	97.97
4h10_B	71	Circadian locomoter output cycles protein kaput; B	97.43
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	97.36
1a0a_A	63	BHLH, protein (phosphate system positive regulator	97.1
4ati_A	118	MITF, microphthalmia-associated transcription fact	97.07
4f3l_A	361	Mclock, circadian locomoter output cycles protein	96.4
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	93.18

>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=99.59  E-value=1.2e-15  Score=93.62  Aligned_cols=44  Identities=27%  Similarity=0.456  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          32 KEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        32 ~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      .....+|.++|+|||.||++||.||+.||.+||..|++|||||.
T Consensus         7 ~~~~~rR~~aN~rER~R~~~iN~af~~LR~~iP~~~~~KlSKi~   50 (68)
T 1mdy_A            7 TTNADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVE   50 (68)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHH
T ss_pred             CCchhhhhHhhHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHH
Confidence            45678999999999999999999999999999998888999974

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

Probab=99.58  E-value=1.5e-15  Score=91.08  Aligned_cols=39  Identities=44%  Similarity=0.616  Sum_probs=36.4

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCccc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKTI   75 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi~   75 (76)
                      +|.++|+|||.||++||.||+.||.+||..| ++|||||.
T Consensus         2 rR~~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~   41 (60)
T 2ql2_B            2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIE   41 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHH
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHH
Confidence            7899999999999999999999999999987 57999984

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

Probab=99.33  E-value=6.2e-14  Score=86.91  Aligned_cols=36  Identities=22%  Similarity=0.296  Sum_probs=33.2

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHhhCCCCCC-CCCCccc
Q psy6235          40 IANSNERRRMQSINAGFQSLRTLLPHHEG-EKLSKTI   75 (76)
Q Consensus        40 ~aN~RER~Rm~~lN~AF~~LR~~lP~~p~-~KLSKi~   75 (76)
                      .||+|||.||++||.||+.||.+||+.|. +|||||.
T Consensus        17 ~a~erER~Rm~~lN~aF~~LR~~VP~~p~~kKLSKiE   53 (68)
T 2lfh_A           17 PAAEEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVE   53 (68)
T ss_dssp             CCBCCCSCSSSHHHHHHHHHHHHCCCCCTTCCCCHHH
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHCCCCCCCCCccHHH
Confidence            57899999999999999999999999985 6999984

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

Probab=99.12  E-value=2.2e-11  Score=79.60  Aligned_cols=42  Identities=21%  Similarity=0.297  Sum_probs=29.9

Q ss_pred             HHHHHHHH-hHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCccc
Q psy6235          34 KRIRREIA-NSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKTI   75 (76)
Q Consensus        34 ~~~rR~~a-N~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi~   75 (76)
                      ....|.++ ..+||.||++||.||+.||.+||+.| ++|||||.
T Consensus        21 ~~i~R~k~~~~~~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIE   64 (97)
T 4aya_A           21 LGISRSKTPVDDPMSLLYNMNDCYSKLKELVPSIPQNKKVSKME   64 (97)
T ss_dssp             ----------CCHHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHH
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHHHHHHCCCCCCCCcccHHH
Confidence            33344433 46679999999999999999999987 56999984

>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=98.93  E-value=6.5e-10  Score=68.57  Aligned_cols=42  Identities=36%  Similarity=0.507  Sum_probs=38.2

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      ...+|...|.+||.|+..||.+|+.|+.+||..++.|+||+.
T Consensus         9 ~~~~R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~   50 (80)
T 1hlo_A            9 DADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQ   50 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSGGGTTSCCCHHH
T ss_pred             hHHHHHHhhHHHHHHHHHHHHHHHHHHHHCcCCCCCCccHHH
Confidence            356889999999999999999999999999998888999864

>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=98.86  E-value=1.3e-09  Score=67.42  Aligned_cols=39  Identities=38%  Similarity=0.579  Sum_probs=36.1

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      +|...|.+||.|+..||.+|+.|+.+||..++.|+||+.
T Consensus         2 rR~~hn~~Er~RR~~in~~f~~Lr~lvP~~~~~k~sK~~   40 (83)
T 1nkp_B            2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQ   40 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHH
T ss_pred             hhhHhhhHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHH
Confidence            688999999999999999999999999998888999863

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

Probab=98.84  E-value=4.1e-10  Score=70.04  Aligned_cols=39  Identities=28%  Similarity=0.394  Sum_probs=29.9

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHhhCCC-CCCCCC-Ccc
Q psy6235          36 IRREIANSNERRRMQSINAGFQSLRTLLPH-HEGEKL-SKT   74 (76)
Q Consensus        36 ~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~-~p~~KL-SKi   74 (76)
                      .+|...|++||.|+..||.+|+.||.+||. .+++|. ||+
T Consensus         4 ~rR~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~   44 (76)
T 3u5v_A            4 DKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKL   44 (76)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHH
T ss_pred             hHHhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHH
Confidence            578899999999999999999999999995 555554 786

>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=98.62  E-value=2.8e-08  Score=62.74  Aligned_cols=42  Identities=31%  Similarity=0.502  Sum_probs=37.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCccc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKTI   75 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi~   75 (76)
                      ...+|...|..||.|...||.+|+.|+.+||..+ +.|+||+.
T Consensus         3 d~~~R~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~   45 (88)
T 1nkp_A            3 MNVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVV   45 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHH
T ss_pred             ChhhhhhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH
Confidence            3457999999999999999999999999999986 57999863

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

Probab=98.38  E-value=4.5e-07  Score=56.46  Aligned_cols=37  Identities=19%  Similarity=0.339  Sum_probs=33.8

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCcc
Q psy6235          38 REIANSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKT   74 (76)
Q Consensus        38 R~~aN~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi   74 (76)
                      |...|..||.|...||.+|+.|+.+||..+ ..|+||+
T Consensus         2 R~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~   39 (80)
T 1nlw_A            2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTL   39 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHH
Confidence            678899999999999999999999999986 4699986

>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=98.17  E-value=1.4e-06  Score=51.49  Aligned_cols=39  Identities=33%  Similarity=0.343  Sum_probs=33.2

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCC----CCCCccc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPHHEG----EKLSKTI   75 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~----~KLSKi~   75 (76)
                      +|...|..||.|...||.+|++|+.+||....    .|+||+.
T Consensus         5 rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~   47 (65)
T 1an4_A            5 RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGG   47 (65)
T ss_dssp             CCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTT
T ss_pred             HHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHH
Confidence            56678999999999999999999999998753    2788864

>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=97.97  E-value=4.8e-06  Score=51.59  Aligned_cols=40  Identities=30%  Similarity=0.363  Sum_probs=34.3

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT   74 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi   74 (76)
                      ...+|...|..||.|...||.+|..|+.+||.. +.|++|+
T Consensus         3 ~~~rr~~H~~~ErrRR~~in~~f~~L~~lvP~~-~~k~~Ka   42 (82)
T 1am9_A            3 RGEKRTAHNAIEKRYRSSINDKIIELKDLVVGT-EAKLNKS   42 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS-SCCCCHH
T ss_pred             hhHHHHhhhhHHHHHHHHHHHHHHHHHHhccCC-CCCCCHH
Confidence            356788999999999999999999999999973 4577775

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

Probab=97.43  E-value=0.00013  Score=44.81  Aligned_cols=40  Identities=25%  Similarity=0.477  Sum_probs=33.8

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT   74 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi   74 (76)
                      ...+|..-|.-||+|-..||..|.+|+.+||. +..|++|.
T Consensus         5 ~~~kR~~Hn~iErrRRd~IN~~i~eL~~LvP~-~~~K~dK~   44 (71)
T 4h10_B            5 DKAKRVSRNKSEKKRRDQFNVLIKELGSMLPG-NARKMDKS   44 (71)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSS-CCSCCCHH
T ss_pred             hhHHhhhhhHHHhhHHHHHHHHHHHHHHhCCC-CCCCCcHH
Confidence            45688889999999999999999999999994 23477764

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

Probab=97.36  E-value=0.00012  Score=44.84  Aligned_cols=42  Identities=29%  Similarity=0.374  Sum_probs=35.2

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCC--CCCCCCcc
Q psy6235          33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPHH--EGEKLSKT   74 (76)
Q Consensus        33 ~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~--p~~KLSKi   74 (76)
                      ....+|...|.-||+|-..||..|++|+.+||..  +..||+|+
T Consensus         5 k~~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKa   48 (73)
T 4h10_A            5 RIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKL   48 (73)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHH
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHH
Confidence            3456778889999999999999999999999974  24588875

>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=97.10  E-value=0.00046  Score=40.96  Aligned_cols=38  Identities=24%  Similarity=0.365  Sum_probs=30.9

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC-----CCCCCcc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPHHE-----GEKLSKT   74 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p-----~~KLSKi   74 (76)
                      +|..-+.=||.|...||.+|++|+.+||...     ..|+||.
T Consensus         2 kr~~H~~aEr~RR~rIn~~~~~L~~LlP~~~~~~~~~~k~sKa   44 (63)
T 1a0a_A            2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKA   44 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHCCCcccccccCCcccHH
Confidence            3455677799999999999999999999742     3588886

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

Probab=97.07  E-value=0.00037  Score=45.73  Aligned_cols=41  Identities=32%  Similarity=0.450  Sum_probs=29.5

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC--CCCCCcc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHE--GEKLSKT   74 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p--~~KLSKi   74 (76)
                      ...+|...|.-||.|-..||..|..|+.+||...  +.|++|.
T Consensus        24 ~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka   66 (118)
T 4ati_A           24 ERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKG   66 (118)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHH
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHH
Confidence            4457778899999999999999999999999864  3488875

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

Probab=96.40  E-value=0.0017  Score=47.37  Aligned_cols=41  Identities=24%  Similarity=0.475  Sum_probs=26.2

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235          33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT   74 (76)
Q Consensus        33 ~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi   74 (76)
                      ....+|...|.-||+|-..+|..|.+|+.+|| ....||.|+
T Consensus         8 ~~~~~~~~~~~~e~~rr~~~n~~~~~l~~~~p-~~~~~~dk~   48 (361)
T 4f3l_A            8 KDKAKRVSRNKSEKKRRDQFNVLIKELGSMLP-GNARKMDKS   48 (361)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHTCC-SSSCCCCHH
T ss_pred             ccchhhhhhhHHHHHHHHHHHHHHHHHHHhCC-CCCCCcCHH
Confidence            35667888899999999999999999999999 334588775

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

Probab=93.18  E-value=0.03  Score=41.36  Aligned_cols=41  Identities=29%  Similarity=0.404  Sum_probs=33.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC--CCCCCcc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHE--GEKLSKT   74 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p--~~KLSKi   74 (76)
                      .+.+|...|.-||+|-..+|..|.+|+.+||...  ..||.|+
T Consensus        10 ~~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~   52 (387)
T 4f3l_B           10 IKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKL   52 (387)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHH
T ss_pred             hhhhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHH
Confidence            4556778889999999999999999999999753  3477765

---

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	76
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	1e-06
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	1e-06
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	1e-05
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	2e-05
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	8e-05
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	0.001

>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 = 39.5 bits (92), Expect = 1e-06
 Identities = 12/40 (30%), Positives = 21/40 (52%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTIH 76
          RR+ A   ERRR+  +N  F++L+     +  ++L K   
Sbjct: 12 RRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEI 51

>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 = 39.9 bits (93), Expect = 1e-06
 Identities = 15/37 (40%), Positives = 21/37 (56%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
          +R   N+ ER+R   I   F SLR  +P  +GEK S+
Sbjct: 2  KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASR 38

>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 = 36.8 bits (85), Expect = 1e-05
 Identities = 7/39 (17%), Positives = 15/39 (38%)

Query: 36 IRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
          ++RE     E+ R   +      L +L+P    ++    
Sbjct: 1  MKRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSA 39

>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 = 36.3 bits (84), Expect = 2e-05
 Identities = 14/41 (34%), Positives = 16/41 (39%), Gaps = 4/41 (9%)

Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGE----KLSK 73
          RR   N  ERRR   IN     L  ++P    E      SK
Sbjct: 5  RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSK 45

>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 = 35.3 bits (81), Expect = 8e-05
 Identities = 9/33 (27%), Positives = 15/33 (45%)

Query: 34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHH 66
            ++R   N  ER+R   +   F +LR  +P  
Sbjct: 3  MNVKRRTHNVLERQRRNELKRSFFALRDQIPEL 35

>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 = 31.8 bits (72), Expect = 0.001
 Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 1/37 (2%)

Query: 38 REIANSNERRRMQSINAGFQSLRTLLPHH-EGEKLSK 73
          R   N  E+ R   +    + L+ L+P   +  + + 
Sbjct: 2  RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTT 38

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	76
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	98.98
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	98.74
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	98.55
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	98.55
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	98.51
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	98.34
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	98.05
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	94.95

>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=98.98  E-value=2.8e-10  Score=67.42  Aligned_cols=43  Identities=28%  Similarity=0.466  Sum_probs=38.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        33 ~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      ....+|...|.+||.|...||.+|+.|+.+||..+.+|+||+.
T Consensus         8 ~~~~rR~~hn~~Er~Rr~~in~~~~~L~~llP~~~~~k~sK~~   50 (68)
T d1mdya_           8 TNADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVE   50 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCTTSCCCHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHH
Confidence            3456788999999999999999999999999999888999863

>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=98.74  E-value=2.6e-09  Score=64.43  Aligned_cols=39  Identities=38%  Similarity=0.579  Sum_probs=36.0

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      +|...|.+||.|...||.+|+.|+.+||..++.|+||+.
T Consensus         2 rR~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~k~sK~~   40 (83)
T d1nkpb_           2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQ   40 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSGGGTTSCCCHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHH
Confidence            688899999999999999999999999988888999863

>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=98.55  E-value=2.5e-08  Score=60.52  Aligned_cols=42  Identities=31%  Similarity=0.502  Sum_probs=36.6

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCccc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKTI   75 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi~   75 (76)
                      ...+|...|.+||.|...||.+|+.|+.+||..+ ..|+||++
T Consensus         3 ~~~rR~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~   45 (88)
T d1nkpa_           3 MNVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVV   45 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHH
Confidence            3467889999999999999999999999999876 46899863

>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=98.55  E-value=4.1e-08  Score=58.51  Aligned_cols=38  Identities=18%  Similarity=0.312  Sum_probs=34.1

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHhhCCCCCC-CCCCccc
Q psy6235          38 REIANSNERRRMQSINAGFQSLRTLLPHHEG-EKLSKTI   75 (76)
Q Consensus        38 R~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~-~KLSKi~   75 (76)
                      |...|..||.|...||.+|+.|+.+||..+. .|+||+.
T Consensus         2 R~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~   40 (79)
T d1nlwa_           2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLS   40 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHH
Confidence            6788999999999999999999999998774 5899864

>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=98.51  E-value=3e-08  Score=57.37  Aligned_cols=39  Identities=23%  Similarity=0.378  Sum_probs=34.0

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCC-----CCCCCCCccc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPH-----HEGEKLSKTI   75 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~-----~p~~KLSKi~   75 (76)
                      +|...|..||.|...||.+|++|+.+||.     .++.|+||+.
T Consensus         2 rR~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k~sKa~   45 (63)
T d1a0aa_           2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKAT   45 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTH
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCcccccHHH
Confidence            57789999999999999999999999995     3456999863

>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=98.34  E-value=1.5e-07  Score=54.62  Aligned_cols=39  Identities=33%  Similarity=0.364  Sum_probs=33.5

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC----CCCCCccc
Q psy6235          37 RREIANSNERRRMQSINAGFQSLRTLLPHHE----GEKLSKTI   75 (76)
Q Consensus        37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p----~~KLSKi~   75 (76)
                      +|...|..||.|...||.+|+.|+.+||...    +.|+||+.
T Consensus         5 rR~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~   47 (65)
T d1an4a_           5 RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGG   47 (65)
T ss_dssp             CCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHH
Confidence            5677899999999999999999999999853    34888863

>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=98.05  E-value=2e-06  Score=51.27  Aligned_cols=40  Identities=30%  Similarity=0.363  Sum_probs=33.6

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235          34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT   74 (76)
Q Consensus        34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi   74 (76)
                      +..+|...|..||.|...||.+|+.|+.+||.. ..|+||+
T Consensus         3 ~~~kR~~H~~~Er~RR~~in~~~~~L~~llP~~-~~k~~K~   42 (80)
T d1am9a_           3 RGEKRTAHNAIEKRYRSSINDKIIELKDLVVGT-EAKLNKS   42 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS-SCCCCHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC-CCCCCHH
Confidence            345788899999999999999999999999963 3467764

>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=94.95  E-value=0.0068  Score=33.87  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235          51 SINAGFQSLRTLLPHHEGEKLSKTI   75 (76)
Q Consensus        51 ~lN~AF~~LR~~lP~~p~~KLSKi~   75 (76)
                      .||..|..|+.+||.. ..|+||++
T Consensus         3 ~in~~f~~L~~lvP~~-~~K~~Ka~   26 (61)
T d1uklc_           3 SINDKIIELKDLVMGT-DAKMHKSG   26 (61)
T ss_dssp             CHHHHHHHHHHHHSCS-SCCCCTTT
T ss_pred             HHHHHHHHHHhhCCCC-CCcccHHH
Confidence            4899999999999954 34777753