Psyllid ID: psy10347

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60-------
Protein Sequence
MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQNIDSIFR
Secondary Structure (PSIPRED)
cHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHccHHHHHc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHcccccHHHccHcHHHHHHHHHHHHHHHcccccccccccccccHHHHcccccHHHcc
Coil and Loop (DISEMBL)
MTAYITELsdmvptcsalarkpdkLTILRMAVAHMKALRVTAVNTfrhhsqpwlfvhfgqnIDSIFR
Flexible Loop (DISEMBL)
mtayitelsdmvptcsalarkpDKLTILRMAVAHMKALRVTAVNTFRHHsqpwlfvhfgqniDSIFR
Low Complexity Region (SEG)
MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQNIDSIFR
Disordered region (IsUnstruct)
****ITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQNIDS***
Disordered Region (DISOPRED)
*TAYITELSDMVPTCSALARKPDKLTILRMAVAHMKA***********HSQPWLFVHFGQNIDSIFR
Disordered Region (DISEMBL)
MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQNIDSIFR
Disordered Region (DISPRO)
*TAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQNIDSIFR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQNIDSIFR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	67	2.2.26 [Sep-21-2011]
O15945	642	Aryl hydrocarbon receptor	yes	N/A	0.626	0.065	0.952	6e-16
Q9BE97	790	Aryl hydrocarbon receptor	yes	N/A	0.626	0.053	0.904	1e-15
P27540	789	Aryl hydrocarbon receptor	yes	N/A	0.626	0.053	0.904	1e-15
P53762	791	Aryl hydrocarbon receptor	yes	N/A	0.626	0.053	0.904	2e-15
P41739	800	Aryl hydrocarbon receptor	yes	N/A	0.626	0.052	0.904	2e-15
P79832	723	Aryl hydrocarbon receptor	N/A	N/A	0.582	0.053	0.948	2e-15
O02748	790	Aryl hydrocarbon receptor	yes	N/A	0.626	0.053	0.880	3e-15
Q9DG12	737	Aryl hydrocarbon receptor	no	N/A	0.626	0.056	0.857	4e-15
Q61324	712	Aryl hydrocarbon receptor	no	N/A	0.626	0.058	0.857	5e-15
Q78E60	712	Aryl hydrocarbon receptor	no	N/A	0.626	0.058	0.857	5e-15

>sp|O15945|ARNT_DROME Aryl hydrocarbon receptor nuclear translocator homolog OS=Drosophila melanogaster GN=tgo PE=1 SV=3

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
          MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 29 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 70

Heterodimers of tgo/trh are involved in the control of breathless expression. Plays a role in the cellular or tissue response to oxygen deprivation.
Drosophila melanogaster (taxid: 7227)

>sp|Q9BE97|ARNT_BOVIN Aryl hydrocarbon receptor nuclear translocator OS=Bos taurus GN=ARNT PE=2 SV=1

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 38/42 (90%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T 
Sbjct: 105 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG 146

Required for activity of the Ah (dioxin) receptor. This protein is required for the ligand-binding subunit to translocate from the cytosol to the nucleus after ligand binding. The complex then initiates transcription of genes involved in the activation of PAH procarcinogens (By similarity). The heterodimer with HIF1A or EPAS1/HIF2A functions as a transcriptional regulator of the adaptive response to hypoxia.

Bos taurus (taxid: 9913)

>sp|P27540|ARNT_HUMAN Aryl hydrocarbon receptor nuclear translocator OS=Homo sapiens GN=ARNT PE=1 SV=1

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 38/42 (90%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T 
Sbjct: 105 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG 146

Required for activity of the Ah (dioxin) receptor. This protein is required for the ligand-binding subunit to translocate from the cytosol to the nucleus after ligand binding. The complex then initiates transcription of genes involved in the activation of PAH procarcinogens. The heterodimer with HIF1A or EPAS1/HIF2A functions as a transcriptional regulator of the adaptive response to hypoxia.

Homo sapiens (taxid: 9606)

>sp|P53762|ARNT_MOUSE Aryl hydrocarbon receptor nuclear translocator OS=Mus musculus GN=Arnt PE=1 SV=3

 Score = 81.3 bits (199), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 38/42 (90%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T 
Sbjct: 105 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG 146

Required for activity of the Ah (dioxin) receptor. This protein is required for the ligand-binding subunit to translocate from the cytosol to the nucleus after ligand binding. The complex then initiates transcription of genes involved in the activation of PAH procarcinogens. The heterodimer with HIF1A or EPAS1/HIF2A functions as a transcriptional regulator of the adaptive response to hypoxia.

Mus musculus (taxid: 10090)

>sp|P41739|ARNT_RAT Aryl hydrocarbon receptor nuclear translocator OS=Rattus norvegicus GN=Arnt PE=1 SV=2

 Score = 81.3 bits (199), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 38/42 (90%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T 
Sbjct: 105 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG 146

Required for activity of the Ah (dioxin) receptor. This protein is required for the ligand-binding subunit to translocate from the cytosol to the nucleus after ligand binding. The complex then initiates transcription of genes involved in the activation of PAH procarcinogens. The heterodimer with HIF1A or EPAS1/HIF2A functions as a transcriptional regulator of the adaptive response to hypoxia.

Rattus norvegicus (taxid: 10116)

>sp|P79832|ARNT_ONCMY Aryl hydrocarbon receptor nuclear translocator OS=Oncorhynchus mykiss GN=arnt PE=1 SV=1

 Score = 81.3 bits (199), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 37/39 (94%), Positives = 39/39 (100%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
           MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR
Sbjct: 81  MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLR 119

Isoform 1 specifically recognizes the xenobiotic response element (XRE), functions positively in AHR-mediated signaling and activates transcription. Isoform 2 has reduced affinity for the XRE and functions negatively in AHR-mediated signaling by disrupting the binding of dimers formed by isoform 1 and AHR to the XRE.

Oncorhynchus mykiss (taxid: 8022)

>sp|O02748|ARNT_RABIT Aryl hydrocarbon receptor nuclear translocator OS=Oryctolagus cuniculus GN=ARNT PE=2 SV=1

 Score = 80.1 bits (196), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 37/42 (88%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSD+VPTCSALARKPDKLTILRMAV+HMK+LR T 
Sbjct: 105 MTAYITELSDIVPTCSALARKPDKLTILRMAVSHMKSLRGTG 146

Required for activity of the Ah (dioxin) receptor. This protein is required for the ligand-binding subunit to translocate from the cytosol to the nucleus after ligand binding. The complex then initiates transcription of genes involved in the activation of PAH procarcinogens. The heterodimer with HIF1A or EPAS1/HIF2A functions as a transcriptional regulator of the adaptive response to hypoxia.

Oryctolagus cuniculus (taxid: 9986)

>sp|Q9DG12|ARNT2_DANRE Aryl hydrocarbon receptor nuclear translocator 2 OS=Danio rerio GN=arnt2 PE=1 SV=2

 Score = 79.7 bits (195), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 36/42 (85%), Positives = 39/42 (92%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MT YITELSDMVPTCSALARKPDKLTILRMAV+HMK++R T 
Sbjct: 94  MTQYITELSDMVPTCSALARKPDKLTILRMAVSHMKSMRGTG 135

Specifically recognizes the xenobiotic response element (XRE). Isoform 1 acts as a transcriptional activator. Isoform 3 acts as a transcriptional repressor.

Danio rerio (taxid: 7955)

>sp|Q61324|ARNT2_MOUSE Aryl hydrocarbon receptor nuclear translocator 2 OS=Mus musculus GN=Arnt2 PE=1 SV=2

 Score = 79.7 bits (195), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 36/42 (85%), Positives = 39/42 (92%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MT YITELSDMVPTCSALARKPDKLTILRMAV+HMK++R T 
Sbjct: 79  MTQYITELSDMVPTCSALARKPDKLTILRMAVSHMKSMRGTG 120

Specifically recognizes the xenobiotic response element (XRE).

Mus musculus (taxid: 10090)

>sp|Q78E60|ARNT2_RAT Aryl hydrocarbon receptor nuclear translocator 2 OS=Rattus norvegicus GN=Arnt2 PE=2 SV=1

 Score = 79.7 bits (195), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 36/42 (85%), Positives = 39/42 (92%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MT YITELSDMVPTCSALARKPDKLTILRMAV+HMK++R T 
Sbjct: 79  MTQYITELSDMVPTCSALARKPDKLTILRMAVSHMKSMRGTG 120

Specifically recognizes the xenobiotic response element (XRE).

Rattus norvegicus (taxid: 10116)

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	67
242021051	671	conserved hypothetical protein [Pediculu	0.626	0.062	0.952	6e-15
389614612	304	tango protein [Papilio polytes]	0.626	0.138	0.952	8e-15
345481068	690	PREDICTED: aryl hydrocarbon receptor nuc	0.626	0.060	0.952	1e-14
332018235	612	Aryl hydrocarbon receptor nuclear transl	0.776	0.084	0.788	1e-14
383856080	668	PREDICTED: aryl hydrocarbon receptor nuc	0.626	0.062	0.928	1e-14
427794165	700	Putative tango, partial [Rhipicephalus p	0.626	0.06	0.928	1e-14
357628246	641	putative arylhydrocarbon receptor nuclea	0.626	0.065	0.952	1e-14
189233619	661	PREDICTED: similar to arylhydrocarbon re	0.626	0.063	0.952	1e-14
307168322	612	Aryl hydrocarbon receptor nuclear transl	0.626	0.068	0.952	1e-14
270014664	679	hypothetical protein TcasGA2_TC004710 [T	0.626	0.061	0.952	1e-14

>gi|242021051|ref|XP_002430960.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212516180|gb|EEB18222.1| conserved hypothetical protein [Pediculus humanus corporis]

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 87  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 128

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389614612|dbj|BAM20342.1| tango protein [Papilio polytes]

 Score = 84.3 bits (207), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 68  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 109

Source: Papilio polytes

Species: Papilio polytes

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345481068|ref|XP_001605013.2| PREDICTED: aryl hydrocarbon receptor nuclear translocator homolog [Nasonia vitripennis]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 68  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 109

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332018235|gb|EGI58840.1| Aryl hydrocarbon receptor nuclear translocator-like protein [Acromyrmex echinatior]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 41/52 (78%), Positives = 44/52 (84%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQP 52
          MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T   +  +  +P
Sbjct: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTGNTSTDNAYKP 52

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383856080|ref|XP_003703538.1| PREDICTED: aryl hydrocarbon receptor nuclear translocator homolog [Megachile rotundata]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 39/42 (92%), Positives = 40/42 (95%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
          MTAYITELSDMVPTCSALARKPDKLTILRMAVAHM+ALR T 
Sbjct: 55 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMRALRGTG 96

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427794165|gb|JAA62534.1| Putative tango, partial [Rhipicephalus pulchellus]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 39/42 (92%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMK+LR T 
Sbjct: 169 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKSLRGTG 210

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357628246|gb|EHJ77636.1| putative arylhydrocarbon receptor nuclear translocator-like protein b [Danaus plexippus]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 68  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 109

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189233619|ref|XP_970422.2| PREDICTED: similar to arylhydrocarbon receptor nuclear translocator homolog b [Tribolium castaneum]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 93  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 134

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307168322|gb|EFN61528.1| Aryl hydrocarbon receptor nuclear translocator-like protein [Camponotus floridanus]

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
          MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 42

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270014664|gb|EFA11112.1| hypothetical protein TcasGA2_TC004710 [Tribolium castaneum]

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 40/42 (95%), Positives = 40/42 (95%)

Query: 1   MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA 42
           MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T 
Sbjct: 127 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG 168

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	67
UNIPROTKB|K7GSB9	133	ARNT "Uncharacterized protein"	0.656	0.330	0.888	4.2e-15
FB|FBgn0264075	642	tgo "tango" [Drosophila melano	0.656	0.068	0.933	1.1e-14
UNIPROTKB|K7GQY6	347	ARNT "Uncharacterized protein"	0.656	0.126	0.888	1.1e-14
UNIPROTKB|A6NGV6	416	ARNT "Aryl hydrocarbon recepto	0.656	0.105	0.888	2e-14
UNIPROTKB|G3N3F0	207	G3N3F0 "Uncharacterized protei	0.611	0.198	0.878	3.8e-14
UNIPROTKB|F1RIF2	208	ARNT2 "Uncharacterized protein	0.611	0.197	0.878	3.8e-14
UNIPROTKB|F6V057	781	ARNT "Uncharacterized protein"	0.656	0.056	0.888	6.6e-14
UNIPROTKB|F1SS94	781	ARNT "Uncharacterized protein"	0.656	0.056	0.888	6.6e-14
UNIPROTKB|F1MYI1	782	ARNT "Aryl hydrocarbon recepto	0.656	0.056	0.888	6.7e-14
UNIPROTKB|E9PTS2	785	Arnt "Aryl hydrocarbon recepto	0.656	0.056	0.888	6.7e-14

UNIPROTKB|K7GSB9 ARNT "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 191 (72.3 bits), Expect = 4.2e-15, P = 4.2e-15
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T  NT
Sbjct:    82 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG-NT 125

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

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

FB|FBgn0264075 tgo "tango" [Drosophila melanogaster (taxid:7227)]

 Score = 197 (74.4 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 42/45 (93%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR T  NT
Sbjct:    29 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTG-NT 72

GO:0007422 "peripheral nervous system development" evidence=TAS

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

GO:0001077 "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=TAS;IPI

GO:0005634 "nucleus" evidence=IC;ISS;IDA

GO:0000981 "sequence-specific DNA binding RNA polymerase II transcription factor activity" evidence=ISS

GO:0007417 "central nervous system development" evidence=IMP

GO:0007424 "open tracheal system development" evidence=TAS

GO:0007425 "epithelial cell fate determination, open tracheal system" evidence=NAS;TAS

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0004871 "signal transducer activity" evidence=IEA

GO:0007420 "brain development" evidence=IMP

GO:0048666 "neuron development" evidence=IMP

GO:0007517 "muscle organ development" evidence=IMP

GO:0048813 "dendrite morphogenesis" evidence=IMP

GO:0071456 "cellular response to hypoxia" evidence=IDA

GO:0032869 "cellular response to insulin stimulus" evidence=IDA

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

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP

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

GO:0005515 "protein binding" evidence=IPI

GO:0043234 "protein complex" evidence=IPI

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

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0008347 "glial cell migration" evidence=IMP

UNIPROTKB|K7GQY6 ARNT "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 191 (72.3 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T  NT
Sbjct:   105 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG-NT 148

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

GO:0003677 "DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0004871 "signal transducer activity" evidence=IEA

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

UNIPROTKB|A6NGV6 ARNT "Aryl hydrocarbon receptor nuclear translocator" [Homo sapiens (taxid:9606)]

 Score = 191 (72.3 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T  NT
Sbjct:   105 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG-NT 148

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

GO:0004871 "signal transducer activity" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=IDA

UNIPROTKB|G3N3F0 G3N3F0 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 36/41 (87%), Positives = 39/41 (95%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT 41
             MT YITELSDMVPTCSALARKPDKLTILRMAV+HMK++R T
Sbjct:    69 MTQYITELSDMVPTCSALARKPDKLTILRMAVSHMKSMRGT 109

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

GO:0003677 "DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0004871 "signal transducer activity" evidence=IEA

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

UNIPROTKB|F1RIF2 ARNT2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 36/41 (87%), Positives = 39/41 (95%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT 41
             MT YITELSDMVPTCSALARKPDKLTILRMAV+HMK++R T
Sbjct:    70 MTQYITELSDMVPTCSALARKPDKLTILRMAVSHMKSMRGT 110

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

GO:0017162 "aryl hydrocarbon receptor binding" evidence=IEA

GO:0007417 "central nervous system development" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0004871 "signal transducer activity" evidence=IEA

UNIPROTKB|F6V057 ARNT "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 191 (72.3 bits), Expect = 6.6e-14, P = 6.6e-14
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T  NT
Sbjct:    96 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG-NT 139

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

GO:0003677 "DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0004871 "signal transducer activity" evidence=IEA

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

UNIPROTKB|F1SS94 ARNT "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 191 (72.3 bits), Expect = 6.6e-14, P = 6.6e-14
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T  NT
Sbjct:    96 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG-NT 139

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

GO:0003677 "DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0004871 "signal transducer activity" evidence=IEA

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

UNIPROTKB|F1MYI1 ARNT "Aryl hydrocarbon receptor nuclear translocator" [Bos taurus (taxid:9913)]

 Score = 191 (72.3 bits), Expect = 6.7e-14, P = 6.7e-14
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T  NT
Sbjct:    97 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG-NT 140

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0046886 "positive regulation of hormone biosynthetic process" evidence=IEA

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

GO:0043619 "regulation of transcription from RNA polymerase II promoter in response to oxidative stress" evidence=IEA

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

GO:0033235 "positive regulation of protein sumoylation" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0017162 "aryl hydrocarbon receptor binding" evidence=IEA

GO:0010575 "positive regulation vascular endothelial growth factor production" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0004874 "aryl hydrocarbon receptor activity" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

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

GO:0001892 "embryonic placenta development" evidence=IEA

GO:0001666 "response to hypoxia" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

UNIPROTKB|E9PTS2 Arnt "Aryl hydrocarbon receptor nuclear translocator" [Rattus norvegicus (taxid:10116)]

 Score = 191 (72.3 bits), Expect = 6.7e-14, P = 6.7e-14
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query:     1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNT 45
             MTAYITELSDMVPTCSALARKPDKLTILRMAV+HMK+LR T  NT
Sbjct:    90 MTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTG-NT 133

GO:0003677 "DNA binding" evidence=IEA

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

GO:0004871 "signal transducer activity" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0046983 "protein dimerization activity" 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)
P53762	ARNT_MOUSE	No assigned EC number	0.9047	0.6268	0.0530	yes	N/A
O15945	ARNT_DROME	No assigned EC number	0.9523	0.6268	0.0654	yes	N/A
Q9BE97	ARNT_BOVIN	No assigned EC number	0.9047	0.6268	0.0531	yes	N/A
O02748	ARNT_RABIT	No assigned EC number	0.8809	0.6268	0.0531	yes	N/A
O02219	AHA1_CAEEL	No assigned EC number	0.7179	0.5820	0.0860	yes	N/A
P79832	ARNT_ONCMY	No assigned EC number	0.9487	0.5820	0.0539	N/A	N/A
P27540	ARNT_HUMAN	No assigned EC number	0.9047	0.6268	0.0532	yes	N/A
P41739	ARNT_RAT	No assigned EC number	0.9047	0.6268	0.0525	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	67
smart00353	53	smart00353, HLH, helix loop helix domain	6e-07
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	2e-05
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	2e-05

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

 Score = 41.1 bits (97), Expect = 6e-07
 Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 1/39 (2%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +     EL  ++PT     +K  K  ILR+A+ ++K+L+
Sbjct: 11 INEAFDELRSLLPTLPK-NKKLSKAEILRLAIEYIKSLQ 48

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 = 37.2 bits (87), Expect = 2e-05
 Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 1/39 (2%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +     EL  ++PT    ++K  K  ILR AV ++K+L+
Sbjct: 19 INDAFDELRSLLPT-LPPSKKLSKAEILRKAVDYIKSLQ 56

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

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

 Score = 37.1 bits (87), Expect = 2e-05
 Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 2/39 (5%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +     EL +++PT     +K  K  ILR+A+ ++K L+
Sbjct: 16 INDAFEELRELLPTPPN--KKLSKAEILRLAIEYIKHLQ 52

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	67
KOG3561|consensus	803		99.62
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	98.99
smart00353	53	HLH helix loop helix domain.	98.96
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	98.93
KOG3560|consensus	712		98.77
KOG4029|consensus	228		97.56
KOG3558|consensus	768		97.55
KOG4304|consensus	250		97.31
KOG1318|consensus	411		97.06
KOG3898|consensus	254		96.07
KOG3559|consensus	598		96.01
KOG4395|consensus	285		95.35
KOG3960|consensus	284		92.1
KOG1319|consensus	229		91.89
KOG2588|consensus	953		86.37

>KOG3561|consensus

Probab=99.62  E-value=2.5e-16  Score=130.41  Aligned_cols=41  Identities=59%  Similarity=0.953  Sum_probs=40.1

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||.||+|||+|||.|..++|||||+|||||||+|||.+||.
T Consensus        35 ~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~   75 (803)
T KOG3561|consen   35 MNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ   75 (803)
T ss_pred             HHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence            79999999999999999999999999999999999999996

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

Probab=98.99  E-value=5.7e-10  Score=63.08  Aligned_cols=39  Identities=31%  Similarity=0.606  Sum_probs=34.8

Q ss_pred             ChHHHHHHHhcCCCC-CccCCCCcHHHHHHHHHHHHHHhh
Q psy10347          1 MTAYITELSDMVPTC-SALARKPDKLTILRMAVAHMKALR   39 (67)
Q Consensus         1 mN~~I~ELssMVP~c-~~~~RKLDKLTVLRmAV~hLk~lr   39 (67)
                      ||..+++|.++||.| .+..+|+||.+||+.|++||+.|+
T Consensus        16 i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen   16 INDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            589999999999986 356799999999999999999874

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

>smart00353 HLH helix loop helix domain

Probab=98.96  E-value=1.2e-09  Score=60.44  Aligned_cols=40  Identities=30%  Similarity=0.460  Sum_probs=36.5

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..+++|.++||.|. ..+|+||.+||..|++|++.+.+.
T Consensus        11 ~n~~~~~L~~lip~~~-~~~k~~k~~iL~~ai~yi~~L~~~   50 (53)
T smart00353       11 INEAFDELRSLLPTLP-NNKKLSKAEILRLAIEYIKSLQEE   50 (53)
T ss_pred             HHHHHHHHHHHCCCCC-CCCCCCHHHHHHHHHHHHHHHHHH
Confidence            6889999999999665 789999999999999999999864

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

Probab=98.93  E-value=1.7e-09  Score=60.44  Aligned_cols=39  Identities=33%  Similarity=0.452  Sum_probs=35.2

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      ||..+++|.++||.+. ...|+||.+||++|++||+.++.
T Consensus        19 ~n~~~~~L~~llp~~~-~~~k~~k~~iL~~a~~yI~~L~~   57 (60)
T cd00083          19 INDAFDELRSLLPTLP-PSKKLSKAEILRKAVDYIKSLQE   57 (60)
T ss_pred             HHHHHHHHHHHCCCCC-CCCCCCHHHHHHHHHHHHHHHHH
Confidence            6899999999999554 67999999999999999999975

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

>KOG3560|consensus

Probab=98.77  E-value=2.7e-09  Score=88.24  Aligned_cols=37  Identities=27%  Similarity=0.526  Sum_probs=35.7

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHH
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKA   37 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~   37 (67)
                      +|++++.||+++|+.++...|||||||||++|+|||.
T Consensus        40 LNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~   76 (712)
T KOG3560|consen   40 LNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRV   76 (712)
T ss_pred             hhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHH
Confidence            6999999999999999999999999999999999985

>KOG4029|consensus

Probab=97.56  E-value=6e-05  Score=53.03  Aligned_cols=40  Identities=25%  Similarity=0.400  Sum_probs=34.6

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      .|.-..||+..||......+||.|+.+||+|+.||+-|..
T Consensus       124 vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~  163 (228)
T KOG4029|consen  124 VNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTK  163 (228)
T ss_pred             hhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHH
Confidence            4788999999999444349999999999999999998874

>KOG3558|consensus

Probab=97.55  E-value=8.3e-05  Score=62.84  Aligned_cols=41  Identities=20%  Similarity=0.412  Sum_probs=37.1

Q ss_pred             hHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhcc
Q psy10347          2 TAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA   42 (67)
Q Consensus         2 N~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~~   42 (67)
                      |-.+.||+.++|...+...-|||.+|+|+||+|||-.+=.+
T Consensus        62 n~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRlrk~a~  102 (768)
T KOG3558|consen   62 NEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRLRKFAG  102 (768)
T ss_pred             hHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHHHHHhh
Confidence            66789999999999999999999999999999999888433

>KOG4304|consensus

Probab=97.31  E-value=0.00011  Score=54.23  Aligned_cols=45  Identities=24%  Similarity=0.455  Sum_probs=38.9

Q ss_pred             ChHHHHHHHhcCCCCCccC----CCCcHHHHHHHHHHHHHHhhhccCCC
Q psy10347          1 MTAYITELSDMVPTCSALA----RKPDKLTILRMAVAHMKALRVTAVNT   45 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~----RKLDKLTVLRmAV~hLk~lrg~~~~~   45 (67)
                      +|..++||..+||.+-...    .||+|=.||-|||.|||.++......
T Consensus        47 IN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~   95 (250)
T KOG4304|consen   47 INRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAA   95 (250)
T ss_pred             HHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccccc
Confidence            5999999999999777664    89999999999999999999654433

>KOG1318|consensus

Probab=97.06  E-value=0.00054  Score=54.38  Aligned_cols=41  Identities=29%  Similarity=0.488  Sum_probs=38.2

Q ss_pred             hHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhcc
Q psy10347          2 TAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA   42 (67)
Q Consensus         2 N~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~~   42 (67)
                      |.-|.||+.|||-|....-|.-|=+||..+++|+|.|+-..
T Consensus       249 N~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~  289 (411)
T KOG1318|consen  249 NDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTL  289 (411)
T ss_pred             HHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHH
Confidence            78899999999999999999999999999999999998643

>KOG3898|consensus

Probab=96.07  E-value=0.0045  Score=45.39  Aligned_cols=39  Identities=23%  Similarity=0.364  Sum_probs=36.1

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      +|..++.|.+.|| |....+||.|+..||+|-.|+.++..
T Consensus        87 LNdAld~LReviP-~~~~~~klskIetl~~a~~yi~als~  125 (254)
T KOG3898|consen   87 LNDALDALREVIP-HGLHPPKLSKIETLRLAANYIAALSE  125 (254)
T ss_pred             hhHHHHHhHhhcc-CcCCCCCCCcchhHHhhhcchhhhcc
Confidence            5999999999999 68899999999999999999998863

>KOG3559|consensus

Probab=96.01  E-value=0.005  Score=50.85  Aligned_cols=38  Identities=26%  Similarity=0.419  Sum_probs=35.5

Q ss_pred             hHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhh
Q psy10347          2 TAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR   39 (67)
Q Consensus         2 N~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lr   39 (67)
                      |..+-||+.++|...+....+||.||.|+|-+|||..+
T Consensus        17 N~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr~   54 (598)
T KOG3559|consen   17 NYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMRN   54 (598)
T ss_pred             cchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHHH
Confidence            77899999999999998888999999999999999876

>KOG4395|consensus

Probab=95.35  E-value=0.026  Score=43.62  Aligned_cols=38  Identities=26%  Similarity=0.281  Sum_probs=35.6

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR   39 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lr   39 (67)
                      +|..+++|...|| |.+..+||.|...|.||..|+-.+-
T Consensus       189 LN~AfD~Lr~v~p-~~~~d~~LSkyetLqmaq~yi~~l~  226 (285)
T KOG4395|consen  189 LNSAFDRLRLVVP-DGDSDKKLSKYETLQMAQGYILALG  226 (285)
T ss_pred             HHHHHHHHHHhcC-CCCccchhhhhhHHHHHHHHHhhhH
Confidence            5899999999999 8889999999999999999998875

>KOG3960|consensus

Probab=92.10  E-value=0.16  Score=39.29  Aligned_cols=36  Identities=25%  Similarity=0.296  Sum_probs=25.1

Q ss_pred             hHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhh
Q psy10347          2 TAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR   39 (67)
Q Consensus         2 N~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lr   39 (67)
                      |..++-|-.=  +|..-..+|-|..|||.||+||..|.
T Consensus       134 NEAFE~LKRr--T~~NPNQRLPKVEILRsAI~YIE~Lq  169 (284)
T KOG3960|consen  134 NEAFETLKRR--TSSNPNQRLPKVEILRSAIRYIERLQ  169 (284)
T ss_pred             HHHHHHHHhh--cCCCccccccHHHHHHHHHHHHHHHH
Confidence            4444444332  23344689999999999999998874

>KOG1319|consensus

Probab=91.89  E-value=0.17  Score=38.23  Aligned_cols=36  Identities=28%  Similarity=0.467  Sum_probs=31.5

Q ss_pred             HHHHHhcCCCCCccC---CCCcHHHHHHHHHHHHHHhhh
Q psy10347          5 ITELSDMVPTCSALA---RKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         5 I~ELssMVP~c~~~~---RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      -+.|-.+||.|.+..   .||.|--||..|++||.-|+.
T Consensus        81 YddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~  119 (229)
T KOG1319|consen   81 YDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHK  119 (229)
T ss_pred             hHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHH
Confidence            367899999999865   699999999999999988864

>KOG2588|consensus

Probab=86.37  E-value=0.64  Score=40.85  Aligned_cols=40  Identities=30%  Similarity=0.409  Sum_probs=36.0

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhccC
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAV   43 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~~~   43 (67)
                      .|.=|.||..+||   +..-|+-|..|||.|++|++-+.+.+.
T Consensus       291 INDKI~eLk~lV~---g~~aKl~kSavLr~ai~~i~dl~~~nq  330 (953)
T KOG2588|consen  291 INDKIIELKDLVP---GTEAKLNKSAVLRKAIDYIEDLQGYNQ  330 (953)
T ss_pred             hhHHHHHHHHhcC---ccHhhhhhhhhHHHHHHHHHHhhcccc
Confidence            3777999999999   899999999999999999999987643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	67
4f3l_B	387	Crystal Structure Of The Heterodimeric Clock:bmal1		6e-10
4h10_A	73	Intermolecular Recognition Revealed By The Complex		1e-09

>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1 Transcriptional Activator Complex Length = 387

Iteration: 1
 Score = 58.9 bits (141), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 25/39 (64%), Positives = 33/39 (84%)
Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          M ++I EL+ +VPTC+A++RK DKLT+LRMAV HMK LR
Sbjct: 28 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66

>pdb|4H10|A Chain A, Intermolecular Recognition Revealed By The Complex Structure Of Human Clock-bmal1 Basic Helix-loop-helix Domains With E-box Dna Length = 73

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/39 (64%), Positives = 33/39 (84%)
Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          M ++I EL+ +VPTC+A++RK DKLT+LRMAV HMK LR
Sbjct: 24 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	67
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	9e-14
4f3l_A	361	Mclock, circadian locomoter output cycles protein	3e-11
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	2e-09
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	4e-05
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	9e-05
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	2e-04
1a0a_A	63	BHLH, protein (phosphate system positive regulator	6e-04

>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Length = 387

 Score = 62.7 bits (152), Expect = 9e-14
 Identities = 26/57 (45%), Positives = 36/57 (63%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVH 57
          M ++I EL+ +VPTC+A++RK DKLT+LRMAV HMK LR         + +P     
Sbjct: 28 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGATNPYTEANYKPTFLSD 84

>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Length = 361

 Score = 55.7 bits (134), Expect = 3e-11
 Identities = 14/63 (22%), Positives = 26/63 (41%), Gaps = 3/63 (4%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQ 60
              I EL  M+P  +   RK DK T+L+ ++  ++  + T   +     +      F  
Sbjct: 27 FNVLIKELGSMLPGNA---RKMDKSTVLQKSIDFLRKHKETTAQSDASEIRQDWKPTFLS 83

Query: 61 NID 63
          N +
Sbjct: 84 NEE 86

>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 = 47.3 bits (113), Expect = 2e-09
 Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 1  MTAYITELSDMVPTCSALAR--KPDKLTILRMAVAHMKALR 39
          +  +I +LS ++P  S  +      K  IL  A  +++ LR
Sbjct: 20 INNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60

>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 = 36.5 bits (85), Expect = 4e-05
 Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 2/35 (5%)

Query: 5  ITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
             L D VP+      K  +  IL  A  +++ +R
Sbjct: 31 FHSLRDSVPSLQ--GEKASRAQILDKATEYIQYMR 63

>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 = 35.8 bits (83), Expect = 9e-05
 Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 3/35 (8%)

Query: 5  ITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          I EL D+V    A   K +K  +LR A+ +++ L+
Sbjct: 25 IIELKDLVVGTEA---KLNKSAVLRKAIDYIRFLQ 56

>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 = 35.0 bits (81), Expect = 2e-04
 Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 2/35 (5%)

Query: 5  ITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
             L D VP+      K  +  IL  A  +++ +R
Sbjct: 21 FHSLRDSVPSLQ--GEKASRAQILDKATEYIQYMR 53

>1a0a_A BHLH, protein (phosphate system positive regulatory protein PHO4); transcription factor, basic helix loop helix; HET: DNA; 2.80A {Saccharomyces cerevisiae} SCOP: a.38.1.1 Length = 63

 Score = 33.2 bits (76), Expect = 6e-04
 Identities = 8/42 (19%), Positives = 20/42 (47%), Gaps = 3/42 (7%)

Query: 1  MTAYITELSDMVPTC---SALARKPDKLTILRMAVAHMKALR 39
          +   + EL+ ++P       ++  P K T +  A  +++ L+
Sbjct: 17 LAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQ 58

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	67
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.35
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	99.33
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.21
4f3l_A	361	Mclock, circadian locomoter output cycles protein	99.12
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	98.98
4ati_A	118	MITF, microphthalmia-associated transcription fact	98.84
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	98.8
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	98.79
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	98.78
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	98.73
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	98.71
1a0a_A	63	BHLH, protein (phosphate system positive regulator	98.69
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	98.61
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	98.49
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	98.45
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	98.38
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.35
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	98.12

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

Probab=99.35  E-value=2e-13  Score=83.79  Aligned_cols=42  Identities=60%  Similarity=0.931  Sum_probs=38.8

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhcc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA   42 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~~   42 (67)
                      +|..|+||++|||.|....+|+||.+||++||+||+.+++..
T Consensus        24 IN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~~~   65 (73)
T 4h10_A           24 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGAW   65 (73)
T ss_dssp             HHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSCC-
T ss_pred             HHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhcCc
Confidence            589999999999999888899999999999999999999853

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

Probab=99.33  E-value=2.8e-13  Score=97.54  Aligned_cols=42  Identities=60%  Similarity=0.964  Sum_probs=39.1

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhcc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVTA   42 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~~   42 (67)
                      +|.+|+||++|||.|....+||||++|||+||+|||.++|..
T Consensus        28 ~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~~~   69 (387)
T 4f3l_B           28 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGAT   69 (387)
T ss_dssp             HHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhccc
Confidence            599999999999999989999999999999999999999754

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

Probab=99.21  E-value=1.1e-11  Score=76.25  Aligned_cols=38  Identities=32%  Similarity=0.497  Sum_probs=35.3

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|..|.||++|||   +..+|+||.+||++||+||+.+++.
T Consensus        23 IN~~i~eL~~LvP---~~~~K~dK~sIL~~aI~yik~Lq~~   60 (71)
T 4h10_B           23 FNVLIKELGSMLP---GNARKMDKSTVLQKSIDFLRKHKEI   60 (71)
T ss_dssp             HHHHHHHHHTTSS---SCCSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC---CCCCCCcHHHHHHHHHHHHHHHHHh
Confidence            5999999999999   5678999999999999999999975

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

Probab=99.12  E-value=4.6e-11  Score=84.61  Aligned_cols=38  Identities=34%  Similarity=0.524  Sum_probs=35.4

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|.+|.||++|||   +..+||||.+|||+||+|||.++..
T Consensus        27 ~n~~~~~l~~~~p---~~~~~~dk~~il~~~~~~~~~~~~~   64 (361)
T 4f3l_A           27 FNVLIKELGSMLP---GNARKMDKSTVLQKSIDFLRKHKET   64 (361)
T ss_dssp             HHHHHHHHHHTCC---SSSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC---CCCCCcCHHHHHHHHHHHHHHHHhh
Confidence            5999999999999   6789999999999999999999864

>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=98.98  E-value=6.8e-11  Score=68.93  Aligned_cols=41  Identities=27%  Similarity=0.383  Sum_probs=36.7

Q ss_pred             ChHHHHHHHhcCCCCCccC--CCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALA--RKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~--RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..|.+|.++||.|....  .|+||.+||++||+||+.|+..
T Consensus        20 in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~   62 (65)
T 1an4_A           20 INNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQS   62 (65)
T ss_dssp             HHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHH
Confidence            5899999999999888753  5899999999999999999865

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

Probab=98.84  E-value=2.4e-09  Score=69.65  Aligned_cols=41  Identities=24%  Similarity=0.362  Sum_probs=34.4

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|..|.+|.++||.|.....|+||.+||++||+||+.|+..
T Consensus        42 In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~   82 (118)
T 4ati_A           42 INDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQRE   82 (118)
T ss_dssp             HHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHH
Confidence            48899999999999988889999999999999999999753

>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=98.80  E-value=3.5e-09  Score=64.08  Aligned_cols=39  Identities=23%  Similarity=0.342  Sum_probs=34.7

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..+++|.++||.|.  ..|+||.+||++|++||+.+...
T Consensus        17 in~~f~~Lr~lvP~~~--~~k~sK~~iL~~Ai~YI~~L~~~   55 (83)
T 1nkp_B           17 IKDSFHSLRDSVPSLQ--GEKASRAQILDKATEYIQYMRRK   55 (83)
T ss_dssp             HHHHHHHHHTTSGGGT--TSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCC--CCCCCHHHHHHHHHHHHHHHHHH
Confidence            5889999999999654  58999999999999999999853

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

Probab=98.79  E-value=5.4e-09  Score=64.65  Aligned_cols=39  Identities=21%  Similarity=0.358  Sum_probs=35.1

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      ||..+++|..+||. .+..+||.|+.+||+|++||+.|..
T Consensus        29 lN~aF~~LR~~VP~-~p~~kKLSKiEtLr~Ai~YI~~Lq~   67 (68)
T 2lfh_A           29 MNHCYSRLRELVPG-VPRGTQLSQVEILQRVIDYILDLQV   67 (68)
T ss_dssp             HHHHHHHHHHHCCC-CCTTCCCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCC-CCCCCCccHHHHHHHHHHHHHHHHc
Confidence            58999999999995 4577999999999999999999864

>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=98.78  E-value=4.2e-09  Score=63.63  Aligned_cols=39  Identities=23%  Similarity=0.342  Sum_probs=34.5

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..+++|.++||.|.  ..|++|.+||++|++||+.|...
T Consensus        27 in~~f~~Lr~lvP~~~--~~k~sK~~iL~~Ai~YI~~L~~~   65 (80)
T 1hlo_A           27 IKDSFHSLRDSVPSLQ--GEKASRAQILDKATEYIQYMRRK   65 (80)
T ss_dssp             HHHHHHHHHHHSGGGT--TSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCcCCC--CCCccHHHHHHHHHHHHHHHHHH
Confidence            5889999999999655  47999999999999999999853

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

Probab=98.73  E-value=1.3e-08  Score=60.02  Aligned_cols=39  Identities=28%  Similarity=0.365  Sum_probs=34.9

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      +|..+++|..+||. .+..+||.|+.+||+|++||+.|..
T Consensus        17 iN~af~~LR~~lP~-~~~~~klSKi~tLr~Ai~YI~~L~~   55 (60)
T 2ql2_B           17 LNAALDNLRKVVPC-YSKTQKLSKIETLRLAKNYIWALSE   55 (60)
T ss_dssp             HHHHHHHHHHTSSS-CCSSSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccC-CCCcCcCCHHHHHHHHHHHHHHHHH
Confidence            58999999999994 4568999999999999999999874

>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=98.71  E-value=8.7e-09  Score=63.05  Aligned_cols=38  Identities=29%  Similarity=0.386  Sum_probs=34.2

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..|.+|.++||.   ...|+||.+||+.||+||+.|+..
T Consensus        21 in~~f~~L~~lvP~---~~~k~~Ka~IL~~Ai~YI~~Lq~~   58 (82)
T 1am9_A           21 INDKIIELKDLVVG---TEAKLNKSAVLRKAIDYIRFLQHS   58 (82)
T ss_dssp             HHHHHHHHHHHHTC---SSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC---CCCCCCHHHHHHHHHHHHHHHHHH
Confidence            58899999999994   468999999999999999999863

>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=98.69  E-value=3.9e-09  Score=62.62  Aligned_cols=41  Identities=20%  Similarity=0.334  Sum_probs=36.3

Q ss_pred             ChHHHHHHHhcCCCCCcc---CCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSAL---ARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~---~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|..+++|.++||.|...   ..|++|-+||.+||+||+.|+..
T Consensus        17 In~~~~~L~~LlP~~~~~~~~~~k~sKa~iL~~Ai~YIk~Lq~~   60 (63)
T 1a0a_A           17 LAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQN   60 (63)
T ss_dssp             HHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHCCCcccccccCCcccHHHHHHHHHHHHHHHHHH
Confidence            589999999999977554   58999999999999999999853

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

Probab=98.61  E-value=4.2e-08  Score=59.31  Aligned_cols=38  Identities=18%  Similarity=0.286  Sum_probs=34.1

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      +|..+++|.++||.+.  .+||+|+.|||+|++||..|..
T Consensus        27 iN~af~~LR~~iP~~~--~~KlSKi~tLr~Ai~YI~~L~~   64 (68)
T 1mdy_A           27 VNEAFETLKRSTSSNP--NQRLPKVEILRNAIRYIEGLQA   64 (68)
T ss_dssp             HHHHHHHHHTTSCSCT--TSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCC--CCCCCHHHHHHHHHHHHHHHHH
Confidence            5889999999999643  6899999999999999999874

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

Probab=98.49  E-value=3.1e-08  Score=60.86  Aligned_cols=41  Identities=24%  Similarity=0.250  Sum_probs=35.7

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|..+++|+.+||.|....+++.|.+||+.|++||+.|+..
T Consensus        20 IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~   60 (76)
T 3u5v_A           20 INEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQ   60 (76)
T ss_dssp             HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHH
Confidence            48899999999997766677779999999999999999753

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

Probab=98.45  E-value=1.8e-07  Score=60.75  Aligned_cols=40  Identities=23%  Similarity=0.446  Sum_probs=35.4

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|..+++|...||. .+..+||.|+.+||+|++|++.|...
T Consensus        40 lN~AF~~LR~~vP~-~p~~kKLSKIETLRlAi~YI~~Lq~~   79 (97)
T 4aya_A           40 MNDCYSKLKELVPS-IPQNKKVSKMEILQHVIDYILDLQIA   79 (97)
T ss_dssp             HHHHHHHHHHHCTT-SCSSSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCC-CCCCCcccHHHHHHHHHHHHHHHHHH
Confidence            58999999999994 45679999999999999999998743

>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=98.38  E-value=2.8e-07  Score=57.31  Aligned_cols=40  Identities=23%  Similarity=0.315  Sum_probs=34.5

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|..+.+|.++||.+. ...|+||.+||+.|+.||+.|...
T Consensus        21 ln~~f~~Lr~~vP~~~-~~~K~sK~~iL~~A~~YI~~L~~~   60 (88)
T 1nkp_A           21 LKRSFFALRDQIPELE-NNEKAPKVVILKKATAYILSVQAE   60 (88)
T ss_dssp             HHHHHHHHHTTCGGGT-TCTTCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCC-CCCCCCHHHHHHHHHHHHHHHHHH
Confidence            5889999999999543 357999999999999999999753

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

Probab=98.35  E-value=6.8e-07  Score=56.84  Aligned_cols=40  Identities=25%  Similarity=0.350  Sum_probs=37.3

Q ss_pred             hHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          2 TAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         2 N~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      |.-|.||+.+||-|++...|..|-+||+.||+|++.|+..
T Consensus         8 N~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e   47 (83)
T 4ath_A            8 NDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQRE   47 (83)
T ss_dssp             HHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHT
T ss_pred             HHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHH
Confidence            7789999999999988889999999999999999999864

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

Probab=98.12  E-value=2.4e-06  Score=52.44  Aligned_cols=40  Identities=23%  Similarity=0.348  Sum_probs=34.7

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..+++|.++||.+. ...|++|++||+.|+.||+.++..
T Consensus        16 lk~~f~~Lr~~vP~~~-~~~k~sk~~iL~kA~~yI~~L~~~   55 (80)
T 1nlw_A           16 LRLSLEKLKGLVPLGP-DSSRHTTLSLLTKAKLHIKKLEDS   55 (80)
T ss_dssp             HHHHHHHHHHSSCCCS-SSCCCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCC-CCCCCCHHHHHHHHHHHHHHHHHH
Confidence            5788999999999553 468999999999999999999753

---

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	67
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	1e-05
d1uklc_	61	a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId	3e-05
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	1e-04
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	4e-04
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	4e-04
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	0.001
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	0.002

>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 = 1e-05
 Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 1  MTAYITELSDMVPTCSALAR--KPDKLTILRMAVAHMKALR 39
          +  +I +LS ++P  S  +      K  IL  A  +++ LR
Sbjct: 20 INNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60

>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 = 35.1 bits (81), Expect = 3e-05
 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 3/39 (7%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +   I EL D+V    A   K  K  +LR A+ ++K L+
Sbjct: 4  INDKIIELKDLVMGTDA---KMHKSGVLRKAIDYIKYLQ 39

>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 = 34.1 bits (78), Expect = 1e-04
 Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 1/39 (2%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +   + +L  +VP     + +   L++L  A  H+K L 
Sbjct: 16 LRLSLEKLKGLVPLGPD-SSRHTTLSLLTKAKLHIKKLE 53

>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 = 32.5 bits (74), Expect = 4e-04
 Identities = 8/42 (19%), Positives = 20/42 (47%), Gaps = 3/42 (7%)

Query: 1  MTAYITELSDMVPTCS---ALARKPDKLTILRMAVAHMKALR 39
          +   + EL+ ++P       ++  P K T +  A  +++ L+
Sbjct: 17 LAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQ 58

>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 = 32.9 bits (75), Expect = 4e-04
 Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 2/39 (5%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +      L D VP+      K  +  IL  A  +++ +R
Sbjct: 17 IKDSFHSLRDSVPSLQG--EKASRAQILDKATEYIQYMR 53

>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 = 31.5 bits (71), Expect = 0.001
 Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 3/39 (7%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +   I EL D+V        K +K  +LR A+ +++ L+
Sbjct: 21 INDKIIELKDLVVGTE---AKLNKSAVLRKAIDYIRFLQ 56

>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 = 30.6 bits (69), Expect = 0.002
 Identities = 7/39 (17%), Positives = 17/39 (43%), Gaps = 2/39 (5%)

Query: 1  MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
          +      L     +     ++  K+ ILR A+ +++ L+
Sbjct: 27 VNEAFETLKRSTSSNPN--QRLPKVEILRNAIRYIEGLQ 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	67
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	98.96
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	98.9
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	98.83
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	98.78
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	98.69
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	98.66
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	98.56
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	98.56

>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=98.96  E-value=1.2e-10  Score=66.75  Aligned_cols=41  Identities=20%  Similarity=0.391  Sum_probs=36.3

Q ss_pred             ChHHHHHHHhcCCCC---CccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTC---SALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c---~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..+++|.++||.|   ....+|+||.+||++||+||+.|+..
T Consensus        17 in~~~~~L~~llP~~~~~~~~~~k~sKa~iL~~Av~yI~~Lq~~   60 (63)
T d1a0aa_          17 LAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQN   60 (63)
T ss_dssp             HHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHCCCcccccCCcccccHHHHHHHHHHHHHHHHHh
Confidence            589999999999965   34579999999999999999999864

>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=98.90  E-value=6.9e-10  Score=64.73  Aligned_cols=38  Identities=18%  Similarity=0.286  Sum_probs=34.1

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      ||..+++|.++||.|.  .+|+||.+||++||+||+.|+.
T Consensus        27 in~~~~~L~~llP~~~--~~k~sK~~iL~~Ai~YI~~Lq~   64 (68)
T d1mdya_          27 VNEAFETLKRSTSSNP--NQRLPKVEILRNAIRYIEGLQA   64 (68)
T ss_dssp             HHHHHHHHHTTSCSCT--TSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCC--CCCCCHHHHHHHHHHHHHHHHH
Confidence            5899999999999664  4699999999999999999974

>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=98.83  E-value=2.3e-10  Score=65.90  Aligned_cols=41  Identities=27%  Similarity=0.371  Sum_probs=36.6

Q ss_pred             ChHHHHHHHhcCCCCCcc--CCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSAL--ARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~--~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      +|..+++|.++||.|...  ..|+||.+||++|+.||+.|+..
T Consensus        20 in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~~   62 (65)
T d1an4a_          20 INNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQS   62 (65)
T ss_dssp             HHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            589999999999988764  46999999999999999999854

>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=98.78  E-value=2e-09  Score=63.58  Aligned_cols=38  Identities=24%  Similarity=0.350  Sum_probs=33.4

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      ||..+++|+++||.|.  ..|+||.+||+.|+.||+.+..
T Consensus        17 in~~f~~L~~llP~~~--~~k~sK~~iL~~A~~yI~~L~~   54 (83)
T d1nkpb_          17 IKDSFHSLRDSVPSLQ--GEKASRAQILDKATEYIQYMRR   54 (83)
T ss_dssp             HHHHHHHHHTTSGGGT--TSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCC--CCCCCHHHHHHHHHHHHHHHHH
Confidence            5899999999999443  4699999999999999998864

>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=98.69  E-value=6.7e-09  Score=60.75  Aligned_cols=40  Identities=23%  Similarity=0.348  Sum_probs=34.8

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..|++|.++||.+. ...|+||.+||+.|+.||+.|...
T Consensus        16 in~~f~~L~~llP~~~-~~~k~sK~~iL~~A~~yI~~L~~~   55 (79)
T d1nlwa_          16 LRLSLEKLKGLVPLGP-DSSRHTTLSLLTKAKLHIKKLEDS   55 (79)
T ss_dssp             HHHHHHHHHHSSCCCS-SSCCCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCccCC-CCCCCCHHHHHHHHHHHHHHHHHH
Confidence            5899999999999554 457899999999999999998753

>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=98.66  E-value=7.5e-09  Score=61.08  Aligned_cols=38  Identities=29%  Similarity=0.400  Sum_probs=33.8

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||..+++|.++||   +...|+||.+||..||+||+.|...
T Consensus        21 in~~~~~L~~llP---~~~~k~~K~~iL~~a~~yI~~L~~~   58 (80)
T d1am9a_          21 INDKIIELKDLVV---GTEAKLNKSAVLRKAIDYIRFLQHS   58 (80)
T ss_dssp             HHHHHHHHHHHHT---CSSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC---CCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            5889999999999   4467999999999999999998753

>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=98.56  E-value=9.9e-09  Score=58.48  Aligned_cols=38  Identities=32%  Similarity=0.350  Sum_probs=33.8

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhhc
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRVT   41 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg~   41 (67)
                      ||.-|.+|.++||.|   ..|+||-+||..|++|++.|+..
T Consensus         4 in~~f~~L~~lvP~~---~~K~~Ka~iL~~Ai~YI~~Lq~~   41 (61)
T d1uklc_           4 INDKIIELKDLVMGT---DAKMHKSGVLRKAIDYIKYLQQV   41 (61)
T ss_dssp             HHHHHHHHHHHHSCS---SCCCCTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCCC---CCcccHHHHHHHHHHHHHHHHHH
Confidence            588999999999944   56999999999999999999864

>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=98.56  E-value=2.1e-08  Score=59.51  Aligned_cols=39  Identities=23%  Similarity=0.347  Sum_probs=34.3

Q ss_pred             ChHHHHHHHhcCCCCCccCCCCcHHHHHHHHHHHHHHhhh
Q psy10347          1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRV   40 (67)
Q Consensus         1 mN~~I~ELssMVP~c~~~~RKLDKLTVLRmAV~hLk~lrg   40 (67)
                      ||..+++|.++||.+.. ..|+||.+||+.|+.|++.|..
T Consensus        21 in~~f~~Lr~llP~~~~-~~k~sK~~iL~~A~~yI~~L~~   59 (88)
T d1nkpa_          21 LKRSFFALRDQIPELEN-NEKAPKVVILKKATAYILSVQA   59 (88)
T ss_dssp             HHHHHHHHHTTCGGGTT-CTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCC-CCccCHHHHHHHHHHHHHHHHH
Confidence            58999999999996544 4799999999999999999874