Psyllid ID: psy13711

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580

MFLRQATHYQVDLTGGPDSLITDEHTHYQVDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLETPELHLGLSSTTSSTPTPSGTGNKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMATQQSLIMSTTSEHSGDGNNNIGTPDSSTGCQTKPRSTVKKDTHSPPLKRSLNKTLVVMSSPPLVASSNSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLETPELHLGLSSTTSSTPTPSGTGNKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMASVGGGGEKTASDISDSNSNQSSSAVESAMSVLQLIPSRLPDGQVVFILPNYMAPSTSPPCKDDLKSSPPPLSNLDQPLDFSIKRDDSMWRPW

cccccccEEEEEccccccccccccccEEEEEccccccEEEEEEccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccccHHccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccc

ccHHHccEEEEEcccccccccccccccEEEEccccccEEEEEEEccHccccccccHHHHHccccHHcccccccccccccccccccccccccccccccHHHHHHHHcccccccHHHHHHHHHHHHHcccccccccccccEEEEcccccccccccccccEEEcccccccccEEEEcccccccccccccccEEccccccccccEEEEEcccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccc

mflrqathyqvdltggpdslitdehthyqvdltggpdqVYLIVSDwskgfplcppqvsrfletpelhlglssttsstptpsgtgnkalplpskptpsslalaslmsgepvidsgVRQRLFRHLENCMSEIDLDFSasaeklgitqdfsseddsafpmlrvrpepdsstttllpvthptptkpnvtppkkksktkmaTQQSLIMSttsehsgdgnnnigtpdsstgcqtkprstvkkdthspplkrslnKTLVvmsspplvassnsippalkrankpLMEKRRRARINQSLALLKALILDSaktentkhsklekaDILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFletpelhlglssttsstptpsgtgnkalplpskptpsslalaslmsgepvidsgVRQRLFRHLENCMSEIDLDFSasaeklgitqdfsseddsafpmlrvrpepdsstttllpvthptptkpnvtppkkksktkmasvggggektasdisdsnsnqssSAVESAMSVLQLIpsrlpdgqvvfilpnymapstsppckddlkssppplsnldqpldfsikrddsmwrpw

MFLRQATHYQVDLTGGPDSLITDEHTHYQVDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLETPELHLGlssttsstptpsgtgnkalplpsKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRpepdsstttllpvthptptkpnvtppkkksktkmaTQQSLIMSttsehsgdgnnnigtpdsstgcqtkprstvkkdthspplkrslnKTLVVMSSPplvassnsippalkrankplmeKRRRARINQSLALLKALILdsaktentkhsklekadilelTVRHLqrqkilssdirskyKAGYEECSREVSRFLETPELHlglssttsstptpsgtgnkalplpsKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRpepdsstttllpvthptptkpnvtppkkksktkmasvggggektasdisdsnsNQSSSAVESAMSVLQLIPSRLPDGQVVFILPNYMAPSTSPPCKDDLKSSPpplsnldqpldfsikrddsmwrpw

MFLRQATHYQVDLTGGPDSLITDEHTHYQVDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLETPELHLGLssttsstptpsgtgNKalplpskptpsslalaslmsGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEPDSStttllpvthptptkpnvtppkkksktkmatQQSLIMSTTSEHSGDGNNNIGTPDSSTGCQTKPRSTVKKDTHSPPLKRSLNKTLVVMSSPPLVASSNSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLETPELHLGLssttsstptpsgtgNKalplpskptpsslalaslmsGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEPDSStttllpvthptptkpnvtppkkksktkMASVGGGGEKTAsdisdsnsnqsssavesamsvLQLIPSRLPDGQVVFILPNYMAPSTSPPCKDDLKSSPPPLSNLDQPLDFSIKRDDSMWRPW

*******HYQVDLTGGPDSLITDEHTHYQVDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLET***********************************************IDSGVRQRLFRHLENCMSEIDLDFS*********************************************************************************************************************************************************SLALLKALILD**************ADILELTVRHLQRQKILSSDIRSKYKAGYEEC*********************************************************IDSGVRQRLFRHLENCMSEIDLDFS*******************************************************************************************VLQLIPSRLPDGQVVFILPNYM****************************************

*******HYQVDLTGGPDSLITDEHTHYQVDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLETPELHLGLSSTTSSTP***********************************GVRQRLFRHLENCMSEIDLDFSASA************************************************************************************************************************************************RARINQSLALLKALILDSA************ADILELTVRHLQR************KAGYEECSREVSRFLET*****************************************************************************************************************************************************************************DGQVVFIL**************************************SMWRPW

MFLRQATHYQVDLTGGPDSLITDEHTHYQVDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLETPELHLG***************NKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTH***********************SLIMS********GNNNIGTPD*********************LKRSLNKTLVVMSSPPLVASSNSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLETPELHLG***************NKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTH************************************************MSVLQLIPSRLPDGQVVFILPNYMAPS*************PPLSNLDQPLDFSIKRDDSMWRPW

MFLRQATHYQVDLTGGPDSLITDEHTHYQVDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLETPELHL**********************P***TP**L****LMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMATQQSLIMSTTSEHSGDGNNNIGTP**********************************************PP*L**ANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLETPELHLGLSSTTSSTPTPS****************************VIDSGVRQRLFRHLENCMSEIDL**********************************STTTLLPVTHPTPTKPNV************************************VESAMSVLQLIPSRLPDGQVVFILPNYMAPSTSPPCKDDLKSS*************************

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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	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		580	2.2.26 [Sep-21-2011]
Q26263		435	Protein deadpan OS=Drosop	no	N/A	0.325	0.434	0.337	2e-26
Q6IRB2		267	Transcription factor HES-	N/A	N/A	0.187	0.408	0.391	2e-23
Q04666		281	Transcription factor HES-	yes	N/A	0.187	0.387	0.397	2e-23
Q3ZBG4		280	Transcription factor HES-	yes	N/A	0.187	0.389	0.397	2e-23
Q14469		280	Transcription factor HES-	yes	N/A	0.187	0.389	0.397	2e-23
Q5PPM5		267	Transcription factor HES-	yes	N/A	0.187	0.408	0.397	3e-23
P35428		282	Transcription factor HES-	yes	N/A	0.187	0.386	0.397	3e-23
Q90Z12		281	Transcription factor HES-	N/A	N/A	0.15	0.309	0.568	1e-22
Q8AVU4		267	Transcription factor HES-	N/A	N/A	0.186	0.404	0.393	1e-22
Q90VV1		277	Transcription factor HES-	N/A	N/A	0.365	0.765	0.284	3e-22

>sp\|Q26263\|DPN_DROME Protein deadpan OS=Drosophila melanogaster GN=dpn PE=1 SV=2	Back alignment and function desciption

 Score =  120 bits (302), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 97/287 (33%), Positives = 134/287 (46%), Gaps = 98/287 (34%)

Query: 270 LKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHL---QR 326
           L++ NKP+MEKRRRARIN  L  LK+LIL++ K +  +H+KLEKADILE+TV+HL   QR
Sbjct: 40  LRKTNKPIMEKRRRARINHCLNELKSLILEAMKKDPARHTKLEKADILEMTVKHLQSVQR 99

Query: 327 QKI---LSSD--IRSKYKAGYEECSREVSRFLETPELHLGLSSTTSSTPTPSGTGNKALP 381
           Q++   + SD  +  K+K G+ EC+ EV+R++                            
Sbjct: 100 QQLNMAIQSDPSVVQKFKTGFVECAEEVNRYV---------------------------- 131

Query: 382 LPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSS 441
                        S M G   ID+GVRQRL  HL  C + +        E++G   +FS+
Sbjct: 132 -------------SQMDG---IDTGVRQRLSAHLNQCANSL--------EQIGSMSNFSN 167

Query: 442 EDDSA-FPMLRVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMASVGGGGEKTASD 500
                 FP   V                PTP  P++  P+                   D
Sbjct: 168 GYRGGLFPATAV-------------TAAPTPLFPSL--PQ-------------------D 193

Query: 501 ISDSNSNQSSSAVESAMSVLQLIPSRLPDGQVVFILPNYMAPSTSPP 547
           + ++NS   SSA    M  LQLIPSRLP G+   I+PN    S +PP
Sbjct: 194 L-NNNSRTESSAPAIQMGGLQLIPSRLPSGEFALIMPN--TGSAAPP 237

Transcriptional repressor of genes that require a bHLH protein for their transcription. Likely to be involved in the functional rather than the morphological differentiation of neurons. Loss of DPN function results in weak motor activity, lethargic behavior, and death. Implicated in sex determination as Groucho-DPN complex act directly to repress SXL transcription.
Drosophila melanogaster (taxid: 7227)

>sp\|Q6IRB2\|HES1A_XENLA Transcription factor HES-1-A OS=Xenopus laevis GN=hes1-a PE=1 SV=1	Back alignment and function description

>sp\|Q04666\|HES1_RAT Transcription factor HES-1 OS=Rattus norvegicus GN=Hes1 PE=1 SV=1	Back alignment and function description

>sp\|Q3ZBG4\|HES1_BOVIN Transcription factor HES-1 OS=Bos taurus GN=HES1 PE=2 SV=1	Back alignment and function description

>sp\|Q14469\|HES1_HUMAN Transcription factor HES-1 OS=Homo sapiens GN=HES1 PE=1 SV=1	Back alignment and function description

>sp\|Q5PPM5\|HES1_XENTR Transcription factor HES-1 OS=Xenopus tropicalis GN=hes1 PE=2 SV=1	Back alignment and function description

>sp\|P35428\|HES1_MOUSE Transcription factor HES-1 OS=Mus musculus GN=Hes1 PE=1 SV=1	Back alignment and function description

>sp\|Q90Z12\|HES4A_XENLA Transcription factor HES-4-A OS=Xenopus laevis GN=hes4-a PE=1 SV=2	Back alignment and function description

>sp\|Q8AVU4\|HES1B_XENLA Transcription factor HES-1-B OS=Xenopus laevis GN=hes1-b PE=2 SV=1	Back alignment and function description

>sp\|Q90VV1\|HES4B_XENLA Transcription factor HES-4-B OS=Xenopus laevis GN=hes4-b PE=1 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		580
328708610		332	PREDICTED: transcription factor HES-1-A-	0.436	0.762	0.470	1e-62
350403399		486	PREDICTED: hypothetical protein LOC10074	0.401	0.479	0.4	3e-44
340727086		530	PREDICTED: hypothetical protein LOC10064	0.401	0.439	0.4	3e-44
110758644		560	PREDICTED: hypothetical protein LOC72533	0.403	0.417	0.407	5e-44
380017532		432	PREDICTED: uncharacterized protein LOC10	0.398	0.534	0.405	2e-43
332021122		448	Transcription factor HES-4 [Acromyrmex e	0.379	0.491	0.409	4e-43
307198205		482	Transcription factor HES-4 [Harpegnathos	0.4	0.481	0.407	8e-43
242024219		403	hypothetical protein Phum_PHUM590030 [Pe	0.475	0.684	0.345	1e-40
345484850		383	PREDICTED: protein hairy-like [Nasonia v	0.356	0.540	0.371	5e-37
91083981		232	PREDICTED: similar to transcription fact	0.201	0.504	0.525	8e-35

>gi\|328708610\|ref\|XP_001945055.2\| PREDICTED: transcription factor HES-1-A-like [Acyrthosiphon pisum]	Back alignment and taxonomy information

 Score =  247 bits (631), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 149/317 (47%), Positives = 192/317 (60%), Gaps = 64/317 (20%)

Query: 271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKIL 330
           KRANKPLMEKRRRARINQSLALLK LILDS +TENTKHSKLEKADILELTVRHLQRQK+L
Sbjct: 73  KRANKPLMEKRRRARINQSLALLKTLILDSTRTENTKHSKLEKADILELTVRHLQRQKVL 132

Query: 331 SSDIRSKYKAGYEECSREVSRFLETPELHLGLSSTTSSTPTPSGTGNKALPLPSKPTPSS 390
           SSD+R KY+AG++EC+REV+RFLE PELH+            +GTG              
Sbjct: 133 SSDVRDKYRAGFQECAREVTRFLECPELHM----------CSTGTG-------------- 168

Query: 391 LALASLMSGEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPML 450
                L +G  VI+  V+QRL RHL+ C SEIDLDFS S   + I  D    D+      
Sbjct: 169 ---TLLSAGSTVIEPAVKQRLLRHLDTCSSEIDLDFSNST--VVIPDDIIGGDE------ 217

Query: 451 RVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMASVGGG----GEKTASDISDSNS 506
                 +S+ +T+         +    PPKK++++K   V       G  TAS +    +
Sbjct: 218 ------ESNCSTI----DSKNDRIKCEPPKKRARSKSVGVEDKVIDRGGLTASVVVAPTN 267

Query: 507 NQSSSAVESAMSVLQLIPSRLPDGQVVFILPNYMAPSTSPPCKDDLKSSPPPLSNLDQPL 566
           + +       +SV+Q+IPS+LPDGQVVF+LP++        C+ +  + P P    D+P+
Sbjct: 268 DPT-----QPLSVVQVIPSQLPDGQVVFLLPSHYV-----HCQQNQGAEPRPPG--DEPI 315

Query: 567 DFSIKRD---DSMWRPW 580
           DFS+KR+   DSMWRPW
Sbjct: 316 DFSVKREHEHDSMWRPW 332

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi\|350403399\|ref\|XP_003486792.1\| PREDICTED: hypothetical protein LOC100747799 [Bombus impatiens]	Back alignment and taxonomy information

>gi\|340727086\|ref\|XP_003401882.1\| PREDICTED: hypothetical protein LOC100643547 [Bombus terrestris]	Back alignment and taxonomy information

>gi\|110758644\|ref\|XP_001121191.1\| PREDICTED: hypothetical protein LOC725331 [Apis mellifera]	Back alignment and taxonomy information

>gi\|380017532\|ref\|XP_003692707.1\| PREDICTED: uncharacterized protein LOC100865781 [Apis florea]	Back alignment and taxonomy information

>gi\|332021122\|gb\|EGI61509.1\| Transcription factor HES-4 [Acromyrmex echinatior]	Back alignment and taxonomy information

>gi\|307198205\|gb\|EFN79220.1\| Transcription factor HES-4 [Harpegnathos saltator]	Back alignment and taxonomy information

>gi\|242024219\|ref\|XP_002432526.1\| hypothetical protein Phum_PHUM590030 [Pediculus humanus corporis] gi\|212517978\|gb\|EEB19788.1\| hypothetical protein Phum_PHUM590030 [Pediculus humanus corporis]	Back alignment and taxonomy information

>gi\|345484850\|ref\|XP_001601600.2\| PREDICTED: protein hairy-like [Nasonia vitripennis]	Back alignment and taxonomy information

>gi\|91083981\|ref\|XP_975187.1\| PREDICTED: similar to transcription factor HES-1 (Hairy and enhancer of split 1), putative [Tribolium castaneum]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		580
UNIPROTKB\|Q6PBD4		281	hes4 "Transcription factor HES	0.15	0.309	0.547	2e-35
UNIPROTKB\|O57337		290	HES1 "Transcription factor HES	0.15	0.3	0.568	2.2e-35
FB\|FBgn0032741		507	Side "similar to Deadpan" [Dro	0.182	0.209	0.603	1.4e-34
ZFIN\|ZDB-GENE-980526-144		334	her6 "hairy-related 6" [Danio	0.203	0.353	0.456	2.1e-34
MGI\|MGI:104853		282	Hes1 "hairy and enhancer of sp	0.189	0.390	0.487	1.4e-33
UNIPROTKB\|G3N2D5		304	HES1 "Transcription factor HES	0.189	0.361	0.487	2.2e-33
RGD\|62081		281	Hes1 "hairy and enhancer of sp	0.189	0.391	0.487	2.3e-33
UNIPROTKB\|Q90Z12		281	hes4-a "Transcription factor H	0.206	0.427	0.463	2.8e-33
UNIPROTKB\|Q3ZBG4		280	HES1 "Transcription factor HES	0.189	0.392	0.487	7.7e-33
UNIPROTKB\|Q14469		280	HES1 "Transcription factor HES	0.189	0.392	0.487	7.7e-33

UNIPROTKB\|Q6PBD4 hes4 "Transcription factor HES-4" [Xenopus (Silurana) tropicalis (taxid:8364)]	Back alignment and assigned GO terms

 Score = 252 (93.8 bits), Expect = 2.0e-35, Sum P(5) = 2.0e-35
 Identities = 52/95 (54%), Positives = 74/95 (77%)

Query:   271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQR-QKI 329
             ++++KP+MEKRRRARIN+SL  LK LILD+ K ++++HSKLEKADILE+TV+HL+  Q++
Sbjct:    35 RKSSKPIMEKRRRARINESLGQLKTLILDALKKDSSRHSKLEKADILEMTVKHLRNLQRV 94

Query:   330 -----LSSD--IRSKYKAGYEECSREVSRFLETPE 357
                  L++D  +  KY+AG+ EC  EV+RFL T E
Sbjct:    95 QMTAALTADPSVLGKYRAGFNECMNEVTRFLSTCE 129

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

GO:0002088 "lens development in camera-type eye" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0008283 "cell proliferation" evidence=ISS

GO:0014029 "neural crest formation" evidence=ISS

GO:0021501 "prechordal plate formation" evidence=ISS

GO:0033504 "floor plate development" evidence=ISS

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

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

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

GO:0046982 "protein heterodimerization activity" evidence=ISS

GO:0048642 "negative regulation of skeletal muscle tissue development" evidence=ISS

UNIPROTKB\|O57337 HES1 "Transcription factor HES-1" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

FB\|FBgn0032741 Side "similar to Deadpan" [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-980526-144 her6 "hairy-related 6" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

MGI\|MGI:104853 Hes1 "hairy and enhancer of split 1 (Drosophila)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

 Score = 259 (96.2 bits), Expect = 1.4e-33, Sum P(3) = 1.4e-33
 Identities = 59/121 (48%), Positives = 85/121 (70%)

Query:   248 NKTLVVMSSPPLVASSNSIPPAL---KRANKPLMEKRRRARINQSLALLKALILDSAKTE 304
             N +  V ++P  V ++   P      ++++KP+MEKRRRARIN+SL+ LK LILD+ K +
Sbjct:     9 NSSSPVAATPASVNTTPDKPKTASEHRKSSKPIMEKRRRARINESLSQLKTLILDALKKD 68

Query:   305 NTKHSKLEKADILELTVRHL---QRQKI---LSSD--IRSKYKAGYEECSREVSRFLETP 356
             +++HSKLEKADILE+TV+HL   QR ++   LS+D  +  KY+AG+ EC  EV+RFL T 
Sbjct:    69 SSRHSKLEKADILEMTVKHLRNLQRAQMTAALSTDPSVLGKYRAGFSECMNEVTRFLSTC 128

Query:   357 E 357
             E
Sbjct:   129 E 129

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

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

GO:0001078 "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" evidence=IDA

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

GO:0001889 "liver development" evidence=IMP

GO:0003143 "embryonic heart tube morphogenesis" evidence=IMP

GO:0003151 "outflow tract morphogenesis" evidence=IMP

GO:0003266 "regulation of secondary heart field cardioblast proliferation" evidence=IMP

GO:0003281 "ventricular septum development" evidence=IMP

GO:0003677 "DNA binding" evidence=IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0005622 "intracellular" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

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

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

GO:0006461 "protein complex assembly" evidence=IDA

GO:0007155 "cell adhesion" evidence=IGI

GO:0007219 "Notch signaling pathway" evidence=ISO;NAS;TAS

GO:0007224 "smoothened signaling pathway" evidence=IDA

GO:0007262 "STAT protein import into nucleus" evidence=IDA

GO:0007389 "pattern specification process" evidence=IGI;IMP

GO:0008134 "transcription factor binding" evidence=NAS

GO:0008284 "positive regulation of cell proliferation" evidence=IMP

GO:0016477 "cell migration" evidence=IGI

GO:0021537 "telencephalon development" evidence=IGI;IMP

GO:0021555 "midbrain-hindbrain boundary morphogenesis" evidence=IGI

GO:0021557 "oculomotor nerve development" evidence=IGI

GO:0021558 "trochlear nerve development" evidence=IGI

GO:0021575 "hindbrain morphogenesis" evidence=IGI

GO:0021861 "forebrain radial glial cell differentiation" evidence=ISO

GO:0021915 "neural tube development" evidence=IGI

GO:0021983 "pituitary gland development" evidence=IGI;IMP

GO:0021984 "adenohypophysis development" evidence=IMP

GO:0030324 "lung development" evidence=IMP

GO:0030513 "positive regulation of BMP signaling pathway" evidence=IGI

GO:0030901 "midbrain development" evidence=IGI

GO:0031016 "pancreas development" evidence=IMP

GO:0035019 "somatic stem cell maintenance" evidence=IMP

GO:0035909 "aorta morphogenesis" evidence=IMP

GO:0035910 "ascending aorta morphogenesis" evidence=IMP

GO:0042102 "positive regulation of T cell proliferation" evidence=IMP

GO:0042491 "auditory receptor cell differentiation" evidence=IMP

GO:0042517 "positive regulation of tyrosine phosphorylation of Stat3 protein" evidence=IDA

GO:0042668 "auditory receptor cell fate determination" evidence=IMP

GO:0042803 "protein homodimerization activity" evidence=IDA

GO:0042826 "histone deacetylase binding" evidence=ISO

GO:0043388 "positive regulation of DNA binding" evidence=IDA

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

GO:0045165 "cell fate commitment" evidence=IMP

GO:0045596 "negative regulation of cell differentiation" evidence=IMP

GO:0045598 "regulation of fat cell differentiation" evidence=IMP

GO:0045608 "negative regulation of auditory receptor cell differentiation" evidence=IMP

GO:0045665 "negative regulation of neuron differentiation" evidence=IGI;IMP

GO:0045747 "positive regulation of Notch signaling pathway" evidence=IMP

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

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

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IGI;IMP

GO:0045977 "positive regulation of mitotic cell cycle, embryonic" evidence=IMP

GO:0046331 "lateral inhibition" evidence=IMP

GO:0046427 "positive regulation of JAK-STAT cascade" evidence=IDA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0048469 "cell maturation" evidence=IGI

GO:0048505 "regulation of timing of cell differentiation" evidence=IMP

GO:0048538 "thymus development" evidence=IMP

GO:0048667 "cell morphogenesis involved in neuron differentiation" evidence=IGI

GO:0048711 "positive regulation of astrocyte differentiation" evidence=IDA

GO:0048715 "negative regulation of oligodendrocyte differentiation" evidence=IDA

GO:0048844 "artery morphogenesis" evidence=IMP

GO:0050767 "regulation of neurogenesis" evidence=IGI

GO:0060037 "pharyngeal system development" evidence=IMP

GO:0060164 "regulation of timing of neuron differentiation" evidence=IGI;IMP

GO:0060253 "negative regulation of glial cell proliferation" evidence=IDA

GO:0060412 "ventricular septum morphogenesis" evidence=IMP

GO:0060716 "labyrinthine layer blood vessel development" evidence=IMP

GO:0061009 "common bile duct development" evidence=IMP

GO:0061106 "negative regulation of stomach neuroendocrine cell differentiation" evidence=IMP

GO:0061309 "cardiac neural crest cell development involved in outflow tract morphogenesis" evidence=IMP

GO:0071820 "N-box binding" evidence=IDA

GO:0090102 "cochlea development" evidence=IGI;IMP

GO:0097084 "vascular smooth muscle cell development" evidence=IMP

GO:0097150 "neuronal stem cell maintenance" evidence=ISO;IMP

GO:2000227 "negative regulation of pancreatic A cell differentiation" evidence=IMP

GO:2000737 "negative regulation of stem cell differentiation" evidence=ISO

GO:2000974 "negative regulation of pro-B cell differentiation" evidence=ISO

GO:2000978 "negative regulation of forebrain neuron differentiation" evidence=ISO

GO:2000981 "negative regulation of inner ear receptor cell differentiation" evidence=IMP

UNIPROTKB\|G3N2D5 HES1 "Transcription factor HES-1" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

RGD\|62081 Hes1 "hairy and enhancer of split 1 (Drosophila)" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

 Score = 259 (96.2 bits), Expect = 2.3e-33, Sum P(3) = 2.3e-33
 Identities = 59/121 (48%), Positives = 85/121 (70%)

Query:   248 NKTLVVMSSPPLVASSNSIPPAL---KRANKPLMEKRRRARINQSLALLKALILDSAKTE 304
             N +  V ++P  V ++   P      ++++KP+MEKRRRARIN+SL+ LK LILD+ K +
Sbjct:     9 NSSSPVAATPASVNTTPDKPKTASEHRKSSKPIMEKRRRARINESLSQLKTLILDALKKD 68

Query:   305 NTKHSKLEKADILELTVRHL---QRQKI---LSSD--IRSKYKAGYEECSREVSRFLETP 356
             +++HSKLEKADILE+TV+HL   QR ++   LS+D  +  KY+AG+ EC  EV+RFL T 
Sbjct:    69 SSRHSKLEKADILEMTVKHLRNLQRAQMTAALSTDPSVLGKYRAGFSECMNEVTRFLSTC 128

Query:   357 E 357
             E
Sbjct:   129 E 129

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

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

GO:0001078 "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" evidence=ISO;ISS

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

GO:0001889 "liver development" evidence=ISO

GO:0003143 "embryonic heart tube morphogenesis" evidence=ISO

GO:0003151 "outflow tract morphogenesis" evidence=ISO

GO:0003266 "regulation of secondary heart field cardioblast proliferation" evidence=ISO

GO:0003281 "ventricular septum development" evidence=ISO

GO:0003677 "DNA binding" evidence=IEA;ISO

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

GO:0005515 "protein binding" evidence=IPI

GO:0005622 "intracellular" evidence=ISO

GO:0005634 "nucleus" evidence=IEA;ISO;ISS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005737 "cytoplasm" evidence=ISO

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

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

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

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

GO:0007155 "cell adhesion" evidence=ISO

GO:0007219 "Notch signaling pathway" evidence=ISO

GO:0007224 "smoothened signaling pathway" evidence=ISO

GO:0007262 "STAT protein import into nucleus" evidence=ISO;ISS

GO:0007389 "pattern specification process" evidence=ISO

GO:0008284 "positive regulation of cell proliferation" evidence=ISO

GO:0016477 "cell migration" evidence=ISO

GO:0021537 "telencephalon development" evidence=ISO

GO:0021555 "midbrain-hindbrain boundary morphogenesis" evidence=ISO

GO:0021557 "oculomotor nerve development" evidence=ISO

GO:0021558 "trochlear nerve development" evidence=ISO

GO:0021575 "hindbrain morphogenesis" evidence=ISO

GO:0021861 "forebrain radial glial cell differentiation" evidence=IDA

GO:0021915 "neural tube development" evidence=ISO

GO:0021983 "pituitary gland development" evidence=ISO

GO:0021984 "adenohypophysis development" evidence=ISO

GO:0030324 "lung development" evidence=ISO

GO:0030513 "positive regulation of BMP signaling pathway" evidence=ISO

GO:0030901 "midbrain development" evidence=ISO

GO:0031016 "pancreas development" evidence=ISO

GO:0035019 "somatic stem cell maintenance" evidence=ISO

GO:0035909 "aorta morphogenesis" evidence=ISO

GO:0035910 "ascending aorta morphogenesis" evidence=ISO

GO:0042102 "positive regulation of T cell proliferation" evidence=ISO

GO:0042491 "auditory receptor cell differentiation" evidence=ISO

GO:0042517 "positive regulation of tyrosine phosphorylation of Stat3 protein" evidence=ISO;ISS

GO:0042668 "auditory receptor cell fate determination" evidence=ISO

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

GO:0042826 "histone deacetylase binding" evidence=ISO

GO:0043388 "positive regulation of DNA binding" evidence=ISO;ISS

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

GO:0045165 "cell fate commitment" evidence=ISO

GO:0045596 "negative regulation of cell differentiation" evidence=ISO

GO:0045598 "regulation of fat cell differentiation" evidence=ISO

GO:0045608 "negative regulation of auditory receptor cell differentiation" evidence=ISO

GO:0045665 "negative regulation of neuron differentiation" evidence=ISO

GO:0045747 "positive regulation of Notch signaling pathway" evidence=ISO

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

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

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

GO:0045977 "positive regulation of mitotic cell cycle, embryonic" evidence=ISO

GO:0046331 "lateral inhibition" evidence=ISO

GO:0046427 "positive regulation of JAK-STAT cascade" evidence=ISO;ISS

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0048469 "cell maturation" evidence=ISO

GO:0048505 "regulation of timing of cell differentiation" evidence=ISO

GO:0048538 "thymus development" evidence=ISO

GO:0048667 "cell morphogenesis involved in neuron differentiation" evidence=ISO

GO:0048711 "positive regulation of astrocyte differentiation" evidence=ISO;ISS

GO:0048715 "negative regulation of oligodendrocyte differentiation" evidence=ISO;ISS

GO:0048844 "artery morphogenesis" evidence=ISO

GO:0050767 "regulation of neurogenesis" evidence=ISO

GO:0060037 "pharyngeal system development" evidence=ISO

GO:0060164 "regulation of timing of neuron differentiation" evidence=ISO

GO:0060253 "negative regulation of glial cell proliferation" evidence=ISO;ISS

GO:0060412 "ventricular septum morphogenesis" evidence=ISO

GO:0060716 "labyrinthine layer blood vessel development" evidence=ISO

GO:0061009 "common bile duct development" evidence=ISO

GO:0061106 "negative regulation of stomach neuroendocrine cell differentiation" evidence=ISO

GO:0061309 "cardiac neural crest cell development involved in outflow tract morphogenesis" evidence=ISO

GO:0071820 "N-box binding" evidence=ISO;ISS

GO:0090102 "cochlea development" evidence=ISO

GO:0097084 "vascular smooth muscle cell development" evidence=ISO

GO:0097150 "neuronal stem cell maintenance" evidence=ISO;IDA

GO:2000227 "negative regulation of pancreatic A cell differentiation" evidence=ISO

GO:2000737 "negative regulation of stem cell differentiation" evidence=ISO

GO:2000974 "negative regulation of pro-B cell differentiation" evidence=ISO;ISS

GO:2000978 "negative regulation of forebrain neuron differentiation" evidence=IDA

GO:2000981 "negative regulation of inner ear receptor cell differentiation" evidence=ISO

UNIPROTKB\|Q90Z12 hes4-a "Transcription factor HES-4-A" [Xenopus laevis (taxid:8355)]	Back alignment and assigned GO terms

UNIPROTKB\|Q3ZBG4 HES1 "Transcription factor HES-1" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|Q14469 HES1 "Transcription factor HES-1" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

 Score = 259 (96.2 bits), Expect = 7.7e-33, Sum P(3) = 7.7e-33
 Identities = 59/121 (48%), Positives = 85/121 (70%)

Query:   248 NKTLVVMSSPPLVASSNSIPPAL---KRANKPLMEKRRRARINQSLALLKALILDSAKTE 304
             N +  V ++P  V ++   P      ++++KP+MEKRRRARIN+SL+ LK LILD+ K +
Sbjct:     9 NSSSPVAATPASVNTTPDKPKTASEHRKSSKPIMEKRRRARINESLSQLKTLILDALKKD 68

Query:   305 NTKHSKLEKADILELTVRHL---QRQKI---LSSD--IRSKYKAGYEECSREVSRFLETP 356
             +++HSKLEKADILE+TV+HL   QR ++   LS+D  +  KY+AG+ EC  EV+RFL T 
Sbjct:    69 SSRHSKLEKADILEMTVKHLRNLQRAQMTAALSTDPSVLGKYRAGFSECMNEVTRFLSTC 128

Query:   357 E 357
             E
Sbjct:   129 E 129

GO:0001889 "liver development" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0007155 "cell adhesion" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=IEA

GO:0016477 "cell migration" evidence=IEA

GO:0021537 "telencephalon development" evidence=IEA

GO:0021555 "midbrain-hindbrain boundary morphogenesis" evidence=IEA

GO:0021557 "oculomotor nerve development" evidence=IEA

GO:0021558 "trochlear nerve development" evidence=IEA

GO:0021575 "hindbrain morphogenesis" evidence=IEA

GO:0021984 "adenohypophysis development" evidence=IEA

GO:0030324 "lung development" evidence=IEA

GO:0030513 "positive regulation of BMP signaling pathway" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0035019 "somatic stem cell maintenance" evidence=IEA

GO:0042102 "positive regulation of T cell proliferation" evidence=IEA

GO:0042668 "auditory receptor cell fate determination" evidence=IEA

GO:0045598 "regulation of fat cell differentiation" evidence=IEA

GO:0045608 "negative regulation of auditory receptor cell differentiation" evidence=IEA

GO:0045747 "positive regulation of Notch signaling pathway" evidence=IEA

GO:0046331 "lateral inhibition" evidence=IEA

GO:0048469 "cell maturation" evidence=IEA

GO:0048667 "cell morphogenesis involved in neuron differentiation" evidence=IEA

GO:0060164 "regulation of timing of neuron differentiation" evidence=IEA

GO:0060675 "ureteric bud morphogenesis" evidence=IEA

GO:0060716 "labyrinthine layer blood vessel development" evidence=IEA

GO:0061009 "common bile duct development" evidence=IEA

GO:0061106 "negative regulation of stomach neuroendocrine cell differentiation" evidence=IEA

GO:0072012 "glomerulus vasculature development" evidence=IEA

GO:0072049 "comma-shaped body morphogenesis" evidence=IEA

GO:0072050 "S-shaped body morphogenesis" evidence=IEA

GO:0072141 "renal interstitial cell development" evidence=IEA

GO:0072282 "metanephric nephron tubule morphogenesis" evidence=IEA

GO:0090102 "cochlea development" evidence=IEA

GO:2000227 "negative regulation of pancreatic A cell differentiation" evidence=IEA

GO:0007219 "Notch signaling pathway" evidence=IMP;IDA;TAS

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

GO:0048711 "positive regulation of astrocyte differentiation" evidence=ISS

GO:0048715 "negative regulation of oligodendrocyte differentiation" evidence=ISS

GO:0060253 "negative regulation of glial cell proliferation" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:2000974 "negative regulation of pro-B cell differentiation" evidence=IMP

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

GO:0042803 "protein homodimerization activity" evidence=ISS

GO:0006461 "protein complex assembly" evidence=ISS

GO:0042517 "positive regulation of tyrosine phosphorylation of Stat3 protein" evidence=ISS

GO:0001078 "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription" evidence=ISS

GO:0071820 "N-box binding" evidence=ISS

GO:0007262 "STAT protein import into nucleus" evidence=ISS

GO:0043388 "positive regulation of DNA binding" evidence=ISS

GO:0046427 "positive regulation of JAK-STAT cascade" evidence=ISS

GO:2000978 "negative regulation of forebrain neuron differentiation" evidence=ISS

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

GO:0021861 "forebrain radial glial cell differentiation" evidence=ISS

GO:0097150 "neuronal stem cell maintenance" evidence=IEP

GO:2000737 "negative regulation of stem cell differentiation" evidence=IMP

GO:0008134 "transcription factor binding" evidence=NAS

GO:0003677 "DNA binding" evidence=TAS

GO:0007399 "nervous system development" evidence=TAS

GO:0031018 "endocrine pancreas development" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0042826 "histone deacetylase binding" evidence=IPI

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

GO:0003143 "embryonic heart tube morphogenesis" evidence=ISS

GO:0035910 "ascending aorta morphogenesis" evidence=ISS

GO:0045977 "positive regulation of mitotic cell cycle, embryonic" evidence=ISS

GO:0060412 "ventricular septum morphogenesis" evidence=ISS

GO:0003266 "regulation of secondary heart field cardioblast proliferation" evidence=ISS

GO:0061309 "cardiac neural crest cell development involved in outflow tract morphogenesis" evidence=ISS

GO:0003151 "outflow tract morphogenesis" evidence=ISS

GO:0003281 "ventricular septum development" evidence=ISS

GO:0008284 "positive regulation of cell proliferation" evidence=ISS

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

GO:0048538 "thymus development" evidence=ISS

GO:0048844 "artery morphogenesis" evidence=ISS

GO:0060037 "pharyngeal system development" evidence=ISS

GO:0097084 "vascular smooth muscle cell development" evidence=ISS

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		580
cd00083		60	cd00083, HLH, Helix-loop-helix domain, found in sp	1e-12
pfam00010		52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	2e-12
smart00353		53	smart00353, HLH, helix loop helix domain	2e-08
pfam07527		42	pfam07527, Hairy_orange, Hairy Orange	7e-05

>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	Back alignment and domain information

 Score = 62.6 bits (153), Expect = 1e-12
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 5/60 (8%)

Query: 271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKIL 330
           +R    L E+RRR RIN +   L++L+            KL KA+IL   V +++  + L
Sbjct: 4   RREAHNLRERRRRERINDAFDELRSLLP-----TLPPSKKLSKAEILRKAVDYIKSLQEL 58

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	Back alignment and domain information

>gnl\|CDD\|197674 smart00353, HLH, helix loop helix domain	Back alignment and domain information

>gnl\|CDD\|219453 pfam07527, Hairy_orange, Hairy Orange	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		580
KOG4304\|consensus		250		100.0
PF07527		43	Hairy_orange: Hairy Orange; InterPro: IPR003650 Th	99.23
PF00010		55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.15
smart00511		45	ORANGE Orange domain. This domain confers specific	99.1
cd00083		60	HLH Helix-loop-helix domain, found in specific DNA	99.06
PF07527		43	Hairy_orange: Hairy Orange; InterPro: IPR003650 Th	98.91
smart00353		53	HLH helix loop helix domain.	98.87
smart00511		45	ORANGE Orange domain. This domain confers specific	98.74
KOG1318\|consensus		411		98.61
KOG3561\|consensus		803		98.56
KOG4304\|consensus		250		97.83
KOG1319\|consensus		229		97.53
KOG3560\|consensus		712		97.29
KOG2483\|consensus		232		95.02
KOG2588\|consensus		953		94.92
KOG0561\|consensus		373		93.01
KOG4029\|consensus		228		90.55
KOG3960\|consensus		284		89.88
KOG3910\|consensus		632		89.51

>KOG4304\|consensus	Back alignment and domain information

Probab=100.00  E-value=5.9e-38  Score=304.62  Aligned_cols=120  Identities=40%  Similarity=0.628  Sum_probs=107.0

Q ss_pred             CCCchhhhhccCchhHHhhHHHHHHhHHHHHHHhhhhhccccccccchhhhHHHHHHHHHHHhhhcc------c---hhh
Q psy13711        264 NSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKIL------S---SDI  334 (580)
Q Consensus       264 ss~~~~~RK~~KPLmEKRRRARIN~SLdELKsLLpda~k~d~~~~SKLEKADILEMTVkHLQrlQal------a---s~~  334 (580)
                      ..+..++||++|||||||||||||+||+|||+||+++.+++.++++||||||||||||+|||+++..      .   ...
T Consensus        25 ~~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~~~~~~~~~~  104 (250)
T KOG4304|consen   25 SSKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAAAQAAPAALP  104 (250)
T ss_pred             chhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccccccccccccc
Confidence            3567899999999999999999999999999999999999999999999999999999999987642      1   245


Q ss_pred             hhHHHHHHHHHHHHHhhccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCchhHHhhhcCCCCCCChhHHHHHHHH
Q psy13711        335 RSKYKAGYEECSREVSRFLETPELHLGLSSTTSSTPTPSGTGNKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRH  414 (580)
Q Consensus       335 ~drFraGFrECa~EVsRFLSs~E~~lGl~~~~~~~~~p~~tgn~~~~~~~~~tp~~~~~~~l~s~~~~vd~~vr~RLl~H  414 (580)
                      .+.|+.||++|+.||.|||+.+++                                            +|.+++.||+.|
T Consensus       105 ~d~f~~Gf~ec~~EVsr~ls~~~~--------------------------------------------~~~~~~~~L~~H  140 (250)
T KOG4304|consen  105 VDSFRAGFRECAAEVSRYLSICPG--------------------------------------------MDAAKGTRLLTH  140 (250)
T ss_pred             chhhhccHHHHHHHHHHHHhhCCC--------------------------------------------CChHHHhHHHHH
Confidence            799999999999999999998753                                            556999999999


Q ss_pred             HHHhhhccccccc
Q psy13711        415 LENCMSEIDLDFS  427 (580)
Q Consensus       415 L~~c~s~i~~~~~  427 (580)
                      |.+|++++.....
T Consensus       141 L~~~~~~~~~~~~  153 (250)
T KOG4304|consen  141 LQAHLAQLEQSTA  153 (250)
T ss_pred             HHHHhhcccCccC
Confidence            9999999887443

>PF07527 Hairy_orange: Hairy Orange; InterPro: IPR003650 This domain confers specificity among members of the Hairy/E(SPL) family	Back alignment and domain information

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

>smart00511 ORANGE Orange domain	Back alignment and domain information

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

>PF07527 Hairy_orange: Hairy Orange; InterPro: IPR003650 This domain confers specificity among members of the Hairy/E(SPL) family	Back alignment and domain information

>smart00353 HLH helix loop helix domain	Back alignment and domain information

>smart00511 ORANGE Orange domain	Back alignment and domain information

>KOG1318\|consensus	Back alignment and domain information

>KOG3561\|consensus	Back alignment and domain information

>KOG4304\|consensus	Back alignment and domain information

>KOG1319\|consensus	Back alignment and domain information

>KOG3560\|consensus	Back alignment and domain information

>KOG2483\|consensus	Back alignment and domain information

>KOG2588\|consensus	Back alignment and domain information

>KOG0561\|consensus	Back alignment and domain information

>KOG4029\|consensus	Back alignment and domain information

>KOG3960\|consensus	Back alignment and domain information

>KOG3910\|consensus	Back alignment and domain information

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	Alignment Graph	Length	Definition	E-value
Query		580
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1a0a_A		63	BHLH, protein (phosphate system positive regulator	4e-07
1an4_A		65	Protein (upstream stimulatory factor); protein-DNA	5e-07
1am9_A		82	Srebp-1A, protein (sterol regulatory element bindi	9e-06
1nkp_B		83	MAX protein, MYC proto-oncogene protein; transcrip	8e-05
1nkp_A		88	C-MYC, MYC proto-oncogene protein; transcription,	2e-04
1hlo_A		80	Protein (transcription factor MAX); transcriptiona	2e-04
1nlw_A		80	MAD protein, MAX dimerizer; transcription factor,	8e-04

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

 Score = 61.8 bits (149), Expect = 4e-10
 Identities = 87/543 (16%), Positives = 151/543 (27%), Gaps = 156/543 (28%)

Query: 107 GEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEP-D 165
                 SG   RLF  L +   E+   F                 +  F M  ++ E   
Sbjct: 56  MSKDAVSGTL-RLFWTLLSKQEEMVQKFVEEVL----------RINYKFLMSPIKTEQRQ 104

Query: 166 SSTTTLLPVTHPTP--------TKPNVTPPKKKSKTKMATQQ------------------ 199
            S  T + +              K NV+  +   K + A  +                  
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164

Query: 200 SLIMSTTSEHSGDGNNNIGTPDSSTGCQTKPRSTVKK-DTHSPPLKRSLNKTLVVMSSPP 258
            + +     +      +      +      P + ++        +  +        S+  
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 259 LVASSNSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKA-D-- 315
           L    +SI   L+R    L++ +        L     L+L      N +++K   A +  
Sbjct: 225 L--RIHSIQAELRR----LLKSKPYEN---CL-----LVLL-----NVQNAKAWNAFNLS 265

Query: 316 --ILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLETPELHLGLSSTTSSTPTPS 373
             IL LT R  Q    LS+   +             S  L   E+   L           
Sbjct: 266 CKIL-LTTRFKQVTDFLSAATTT------HISLDHHSMTLTPDEV-KSLLLKYLDCRP-- 315

Query: 374 GTGNKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENC--MSEIDLDFSASAE 431
               + LP     T +   L+  +  E + D       ++H+ NC  ++ I     +S  
Sbjct: 316 ----QDLP-REVLTTNPRRLS--IIAESIRDGLATWDNWKHV-NCDKLTTI---IESSLN 364

Query: 432 KLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMASV- 490
            L       +E    F  L V P                    +   P     T + S+ 
Sbjct: 365 VLE-----PAEYRKMFDRLSVFPP-------------------SAHIP-----TILLSLI 395

Query: 491 -GGGGEKTASDISDSNSNQS---SSAVESAMSV--LQLIPSRLPDGQVVF---ILPNYMA 541
                +     + +     S       ES +S+  + L      + +      I+ +Y  
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455

Query: 542 PSTSPPCKDDLKSSPPP------------LSNLDQP----------LDFS-----IKRDD 574
           P T     DDL   PP             L N++ P          LDF      I+ D 
Sbjct: 456 PKTF--DSDDL--IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDS 511

Query: 575 SMW 577
           + W
Sbjct: 512 TAW 514

PyMOL of 1vt4

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

>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	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ, transcription/DNA complex; 2.00A {Homo sapiens} SCOP: a.38.1.1 Length = 80	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		580
4h10_A		73	ARYL hydrocarbon receptor nuclear translocator-LI	99.58
1a0a_A		63	BHLH, protein (phosphate system positive regulator	99.54
4h10_B		71	Circadian locomoter output cycles protein kaput; B	99.4
1an4_A		65	Protein (upstream stimulatory factor); protein-DNA	99.26
4ati_A		118	MITF, microphthalmia-associated transcription fact	99.15
2db7_A		64	Hairy/enhancer-OF-split related with YRPW motif 1;	99.13
1am9_A		82	Srebp-1A, protein (sterol regulatory element bindi	99.1
4f3l_A		361	Mclock, circadian locomoter output cycles protein	99.05
4f3l_B		387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	99.02
1nkp_B		83	MAX protein, MYC proto-oncogene protein; transcrip	98.92
1hlo_A		80	Protein (transcription factor MAX); transcriptiona	98.9
2db7_A		64	Hairy/enhancer-OF-split related with YRPW motif 1;	98.86
1nkp_A		88	C-MYC, MYC proto-oncogene protein; transcription,	98.56
3u5v_A		76	Protein MAX, transcription factor E2-alpha chimer;	98.5
1nlw_A		80	MAD protein, MAX dimerizer; transcription factor,	98.29
1mdy_A		68	Protein (MYOD BHLH domain); protein-DNA complex, t	97.98
2ql2_B		60	Neurod1, neurogenic differentiation factor 1; basi	97.93
2lfh_A		68	DNA-binding protein inhibitor ID-3; structural gen	97.83
4ath_A		83	MITF, microphthalmia-associated transcription fact	97.15
4aya_A		97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	96.58

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

Probab=99.58  E-value=6.6e-16  Score=126.15  Aligned_cols=58  Identities=26%  Similarity=0.398  Sum_probs=52.5

Q ss_pred             hhhhhccCchhHHhhHHHHHHhHHHHHHHhhhhhccccccccchhhhHHHHHHHHHHHhhhc
Q psy13711        268 PALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKI  329 (580)
Q Consensus       268 ~~~RK~~KPLmEKRRRARIN~SLdELKsLLpda~k~d~~~~SKLEKADILEMTVkHLQrlQa  329 (580)
                      .+.||.+|+++|||||+|||.+|++|+.|||.+.    ...+|+|||+||++||+|||.++.
T Consensus         6 ~~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~----~~~~KldKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            6 IKNAREAHSQIEKRRRDKMNSFIDELASLVPTCN----AMSRKLDKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHH----TCSSCCCHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHHHHccccc----cccccccHHHHHHHHHHHHHHHhc
Confidence            4678899999999999999999999999999875    346799999999999999999875

PyMOL of 4h10

>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	Back alignment and structure

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

>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	Back alignment and structure

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

>2db7_A Hairy/enhancer-OF-split related with YRPW motif 1; structural genomics, unknown function, DNA binding protein, NPPSFA; 1.90A {Homo sapiens} SCOP: a.273.1.1	Back alignment and structure

>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	Back alignment and structure

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

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

>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	Back alignment and structure

>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	Back alignment and structure

>2db7_A Hairy/enhancer-OF-split related with YRPW motif 1; structural genomics, unknown function, DNA binding protein, NPPSFA; 1.90A {Homo sapiens} SCOP: a.273.1.1	Back alignment and structure

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

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

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

>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*	Back alignment and structure

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

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

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

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

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		580
d1an4a_		65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	2e-11
d1a0aa_		63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	2e-10
d1nkpb_		83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	6e-09
d1am9a_		80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	2e-07
d2db7a1		55	a.273.1.1 (A:3-57) Hairy/enhancer-of-split related	4e-07
d2db7a1		55	a.273.1.1 (A:3-57) Hairy/enhancer-of-split related	0.002
d1nkpa_		88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	2e-06
d1nlwa_		79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	9e-06
d1mdya_		68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	2e-05

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


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 = 57.1 bits (138), Expect = 2e-11
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 5/61 (8%)

Query: 271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTV---RHLQRQ 327
           +RA    +E+RRR +IN  +  L  +I DS  +  +  S   K  IL       + L++ 
Sbjct: 5   RRAQHNEVERRRRDKINNWIVQLSKIIPDS--SMESTKSGQSKGGILSKASDYIQELRQS 62

Query: 328 K 328
            
Sbjct: 63  N 63

PyMOL of d1an4a_

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

>d1nkpb_ a.38.1.1 (B:) Max protein {Human (Homo sapiens) [TaxId: 9606]} Length = 83	Back information, alignment and structure

>d1am9a_ a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxId: 9606]} Length = 80	Back information, alignment and structure

>d2db7a1 a.273.1.1 (A:3-57) Hairy/enhancer-of-split related with YRPW motif protein 1; HESR-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 55	Back information, alignment and structure

>d2db7a1 a.273.1.1 (A:3-57) Hairy/enhancer-of-split related with YRPW motif protein 1; HESR-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 55	Back information, alignment and structure

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

>d1nlwa_ a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [TaxId: 9606]} Length = 79	Back information, alignment and structure

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

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		580
d1a0aa_		63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.37
d2db7a1		55	Hairy/enhancer-of-split related with YRPW motif pr	99.32
d2db7a1		55	Hairy/enhancer-of-split related with YRPW motif pr	99.24
d1an4a_		65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.12
d1am9a_		80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.05
d1mdya_		68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.01
d1nkpb_		83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	98.95
d1nlwa_		79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	98.89
d1nkpa_		88	Myc proto-oncogene protein {Human (Homo sapiens) [	98.89
d1uklc_		61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	97.93

>d1a0aa_ a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

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

Probab=99.37  E-value=1.3e-13  Score=106.32  Aligned_cols=58  Identities=26%  Similarity=0.295  Sum_probs=50.3

Q ss_pred             hhccCchhHHhhHHHHHHhHHHHHHHhhhhhccccccccchhhhHHHHHHHHHHHhhhc
Q psy13711        271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKI  329 (580)
Q Consensus       271 RK~~KPLmEKRRRARIN~SLdELKsLLpda~k~d~~~~SKLEKADILEMTVkHLQrlQa  329 (580)
                      ||..|.++||+||++||.++++|+.|||.+...+ ....|++||+||++||+|++.++.
T Consensus         2 rR~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~-~~~~k~sKa~iL~~Av~yI~~Lq~   59 (63)
T d1a0aa_           2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQ-NVSAAPSKATTVEAACRYIRHLQQ   59 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTS-SCCCCSCTTHHHHHHHHHHHHHHT
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHCCCccccc-CCcccccHHHHHHHHHHHHHHHHH
Confidence            6788999999999999999999999999754322 346799999999999999998764

PyMOL of d1a0aa_

>d2db7a1 a.273.1.1 (A:3-57) Hairy/enhancer-of-split related with YRPW motif protein 1; HESR-1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2db7a1 a.273.1.1 (A:3-57) Hairy/enhancer-of-split related with YRPW motif protein 1; HESR-1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1an4a_ a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1am9a_ a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1mdya_ a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1nkpb_ a.38.1.1 (B:) Max protein {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1nlwa_ a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1nkpa_ a.38.1.1 (A:) Myc proto-oncogene protein {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1uklc_ a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure