Psyllid ID: psy5860

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------14
Protein Sequence
MSYNSGYHPPPLYTADLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDIISIDDFKADLSNHSSHRKNKSQYDSPSEISSNQSSQYVMDPSCQQYTSPALFS
Secondary Structure (PSIPRED)
cccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccEcccHHHcccccccccc
Coil and Loop (DISEMBL)
msynsgyhppplytadlpiirVVKRRNTANKKERRRTQSINNAFSDLrecipnvpsdtklskiktLRLATSYISYLMKILetddiisiddfkadlsnhsshrknksqydspseissnqssqyvmdpscqqytspalfs
Flexible Loop (DISEMBL)
msynsgyhppplytadlpiirVVKRRntankkerrrtqsinnafsdlrecipnvpsdtklskiktlRLATSYISYLMKILETDDIISIDDFKADLSNHSshrknksqydspseISSNQSSQYVMDPSCQQYTSPALFS
Low Complexity Region (SEG)
MSYNSGYHPPPLYTADLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDIISIDDFKADLSNHSSHRKNKSQYDspseissnqssQYVMDPSCQQYTSPALFS
Disordered region (IsUnstruct)
***********LYTADLPIIRVVK*********************DLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDIISIDDFK**********************************************
Disordered Region (DISOPRED)
********************************ERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKI***********************************************************
Disordered Region (DISEMBL)
MSYNSGYHPPPLYTADLPIIRVVKRRN********RTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDIISIDDFKADLS*************************YVMDPSCQ*********
Disordered Region (DISPRO)
*****GYHP*PL****LPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD***********************************************YTSP*LF*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSYNSGYHPPPLYTADLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDIISIDDFKADLSNHSSHRKNKSQYDSPSEISSNQSSQYVMDPSCQQYTSPALFS
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	138	2.2.26 [Sep-21-2011]
P57102	208	Heart- and neural crest d	yes	N/A	0.543	0.360	0.723	4e-25
P61295	217	Heart- and neural crest d	yes	N/A	0.528	0.336	0.729	5e-25
Q61039	217	Heart- and neural crest d	yes	N/A	0.528	0.336	0.729	5e-25
P61296	217	Heart- and neural crest d	yes	N/A	0.528	0.336	0.729	5e-25
Q90690	216	Heart- and neural crest d	yes	N/A	0.528	0.337	0.729	6e-25
P97832	216	Heart- and neural crest d	no	N/A	0.673	0.430	0.563	1e-24
Q64279	216	Heart- and neural crest d	no	N/A	0.695	0.444	0.556	2e-24
P57101	210	Heart- and neural crest d	N/A	N/A	0.543	0.357	0.710	5e-24
Q28555	204	Heart- and neural crest d	N/A	N/A	0.644	0.436	0.566	1e-23
Q0VCE2	218	Heart- and neural crest d	no	N/A	0.644	0.408	0.566	2e-23

>sp|P57102|HAND2_DANRE Heart- and neural crest derivatives-expressed protein 2 OS=Danio rerio GN=hand2 PE=2 SV=1

 Score =  113 bits (282), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/76 (72%), Positives = 65/76 (85%), Gaps = 1/76 (1%)

Query: 21  RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM IL
Sbjct: 87  RTVKRRPTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDIL 146

Query: 81  ETDDI-ISIDDFKADL 95
           + D+     + FKA+ 
Sbjct: 147 DKDEQNGETEAFKAEF 162

Essential for myocardial and pectoral fin differentiation, patterning and morphogenesis.
Danio rerio (taxid: 7955)

>sp|P61295|HAND2_RAT Heart- and neural crest derivatives-expressed protein 2 OS=Rattus norvegicus GN=Hand2 PE=2 SV=1

 Score =  112 bits (281), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 54/74 (72%), Positives = 64/74 (86%), Gaps = 1/74 (1%)

Query: 23  VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET 82
           VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L  
Sbjct: 98  VKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLLAK 157

Query: 83  DDI-ISIDDFKADL 95
           DD     + FKA++
Sbjct: 158 DDQNGEAEAFKAEI 171

Essential for cardiac morphogenesis, particularly for the formation of the right ventricle and of the aortic arch arteries. Required for vascular development and regulation of angiogenesis, possibly through a VEGF signaling pathway. Plays also an important role in limb development, particularly in the establishment of anterior-posterior polarization, acting as an upstream regulator of sonic hedgehog (SHH) induction in the limb bud. Is involved in the development of branchial arches, which give rise to unique structures in the head and neck. Binds DNA on E-box consensus sequence 5'-CANNTG-3'.

Rattus norvegicus (taxid: 10116)

>sp|Q61039|HAND2_MOUSE Heart- and neural crest derivatives-expressed protein 2 OS=Mus musculus GN=Hand2 PE=1 SV=3

 Score =  112 bits (281), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 54/74 (72%), Positives = 64/74 (86%), Gaps = 1/74 (1%)

Query: 23  VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET 82
           VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L  
Sbjct: 98  VKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLLAK 157

Query: 83  DDI-ISIDDFKADL 95
           DD     + FKA++
Sbjct: 158 DDQNGEAEAFKAEI 171

Essential for cardiac morphogenesis, particularly for the formation of the right ventricle and of the aortic arch arteries. Required for vascular development and regulation of angiogenesis, possibly through a VEGF signaling pathway. Plays also an important role in limb development, particularly in the establishment of anterior-posterior polarization, acting as an upstream regulator of sonic hedgehog (SHH) induction in the limb bud. Is involved in the development of branchial arches, which give rise to unique structures in the head and neck. Binds DNA on E-box consensus sequence 5'-CANNTG-3'.

Mus musculus (taxid: 10090)

>sp|P61296|HAND2_HUMAN Heart- and neural crest derivatives-expressed protein 2 OS=Homo sapiens GN=HAND2 PE=1 SV=1

 Score =  112 bits (281), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 54/74 (72%), Positives = 64/74 (86%), Gaps = 1/74 (1%)

Query: 23  VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET 82
           VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L  
Sbjct: 98  VKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLLAK 157

Query: 83  DDI-ISIDDFKADL 95
           DD     + FKA++
Sbjct: 158 DDQNGEAEAFKAEI 171

Essential for cardiac morphogenesis, particularly for the formation of the right ventricle and of the aortic arch arteries. Required for vascular development and regulation of angiogenesis, possibly through a VEGF signaling pathway. Plays also an important role in limb development, particularly in the establishment of anterior-posterior polarization, acting as an upstream regulator of sonic hedgehog (SHH) induction in the limb bud. Is involved in the development of branchial arches, which give rise to unique structures in the head and neck. Binds DNA on E-box consensus sequence 5'-CANNTG-3'.

Homo sapiens (taxid: 9606)

>sp|Q90690|HAND2_CHICK Heart- and neural crest derivatives-expressed protein 2 OS=Gallus gallus GN=HAND2 PE=2 SV=1

 Score =  112 bits (280), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 54/74 (72%), Positives = 64/74 (86%), Gaps = 1/74 (1%)

Query: 23  VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET 82
           VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L  
Sbjct: 97  VKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLLPK 156

Query: 83  DDI-ISIDDFKADL 95
           DD     + FKA++
Sbjct: 157 DDQNGEAEAFKAEI 170

Essential for cardiac morphogenesis. Binds DNA on E-box consensus sequence 5'-CANNTG-3' (By similarity). Plays an important role in limb development, particularly in the establishment of anterior-posterior polarization of the limb bud.

Gallus gallus (taxid: 9031)

>sp|P97832|HAND1_RAT Heart- and neural crest derivatives-expressed protein 1 OS=Rattus norvegicus GN=Hand1 PE=2 SV=2

 Score =  111 bits (278), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/94 (56%), Positives = 71/94 (75%), Gaps = 1/94 (1%)

Query: 21  RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           R+ +R+ +  KKERRRT+SIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct: 91  RLPRRKGSGPKKERRRTESINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDVL 150

Query: 81  ETDDIIS-IDDFKADLSNHSSHRKNKSQYDSPSE 113
             D      + FKA+L      R++K + +SP +
Sbjct: 151 AKDAQAGDPEAFKAELKKTDGGRESKRKRESPQQ 184

Transcription factor that plays an essential role in both trophoblast-giant cells differentiation and in cardiac morphogenesis. In the adult, could be required for ongoing expression of cardiac-specific genes. Binds the DNA sequence 5'-NRTCTG-3' (non-canonical E-box).

Rattus norvegicus (taxid: 10116)

>sp|Q64279|HAND1_MOUSE Heart- and neural crest derivatives-expressed protein 1 OS=Mus musculus GN=Hand1 PE=1 SV=1

 Score =  110 bits (276), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/97 (55%), Positives = 71/97 (73%), Gaps = 1/97 (1%)

Query: 21  RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           R+ KR+ +  KKERRRT+SIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct: 91  RLPKRKGSGPKKERRRTESINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDVL 150

Query: 81  ETDDIIS-IDDFKADLSNHSSHRKNKSQYDSPSEISS 116
             D      + FKA+L      R++K + + P +  S
Sbjct: 151 AKDAQAGDPEAFKAELKKTDGGRESKRKRELPQQPES 187

Transcription factor that plays an essential role in both trophoblast-giant cells differentiation and in cardiac morphogenesis. In the adult, could be required for ongoing expression of cardiac-specific genes. Binds the DNA sequence 5'-NRTCTG-3' (non-canonical E-box).

Mus musculus (taxid: 10090)

>sp|P57101|HAND2_XENLA Heart- and neural crest derivatives-expressed protein 2 OS=Xenopus laevis GN=hand2 PE=2 SV=1

 Score =  109 bits (272), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 54/76 (71%), Positives = 64/76 (84%), Gaps = 1/76 (1%)

Query: 21  RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           R VKRR TAN+KERRRT SIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct: 89  RPVKRRGTANRKERRRTISINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 148

Query: 81  ETDDI-ISIDDFKADL 95
             DD     + FKA++
Sbjct: 149 AKDDQNGETEAFKAEI 164

Essential for cardiac morphogenesis and for the development of branchial arches. Binds DNA on E-box consensus sequence 5'-CANNTG-3'.

Xenopus laevis (taxid: 8355)

>sp|Q28555|HAND1_SHEEP Heart- and neural crest derivatives-expressed protein 1 OS=Ovis aries GN=HAND1 PE=2 SV=1

 Score =  108 bits (269), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/90 (56%), Positives = 68/90 (75%), Gaps = 1/90 (1%)

Query: 21  RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           R+ +R+ +  KKERRRT+SIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct: 97  RLGRRKGSGPKKERRRTESINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDVL 156

Query: 81  ETDDIIS-IDDFKADLSNHSSHRKNKSQYD 109
             D      + FKA+L      R++K + +
Sbjct: 157 AKDAQAGDPEAFKAELKKADGGRESKRKRE 186

Transcription factor that plays an essential role in both trophoblast-giant cells differentiation and in cardiac morphogenesis. In the adult, could be required for ongoing expression of cardiac-specific genes. Binds the DNA sequence 5'-NRTCTG-3' (non-canonical E-box).

Ovis aries (taxid: 9940)

>sp|Q0VCE2|HAND1_BOVIN Heart- and neural crest derivatives-expressed protein 1 OS=Bos taurus GN=HAND1 PE=2 SV=1

 Score =  107 bits (267), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 51/90 (56%), Positives = 68/90 (75%), Gaps = 1/90 (1%)

Query: 21  RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           R+ +R+ +  KKERRRT+SIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct: 94  RLGRRKGSGPKKERRRTESINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDVL 153

Query: 81  ETDDIIS-IDDFKADLSNHSSHRKNKSQYD 109
             D      + FKA+L      R++K + +
Sbjct: 154 AKDAQAGDPEAFKAELKKADGGRESKRKRE 183

Transcription factor that plays an essential role in both trophoblast-giant cells differentiation and in cardiac morphogenesis. In the adult, could be required for ongoing expression of cardiac-specific genes. Binds the DNA sequence 5'-NRTCTG-3' (non-canonical E-box).

Bos taurus (taxid: 9913)

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	138
242005999	156	dhand, putative [Pediculus humanus corpo	0.557	0.493	0.794	1e-27
322802822	296	hypothetical protein SINV_10287 [Solenop	0.608	0.283	0.720	2e-27
332023986	290	Heart- and neural crest derivatives-expr	0.586	0.279	0.746	2e-27
193632021	445	PREDICTED: hypothetical protein LOC10016	0.543	0.168	0.815	5e-27
307179435	267	Heart- and neural crest derivatives-expr	0.594	0.307	0.714	7e-27
91076044	172	PREDICTED: similar to heart and neural c	0.615	0.494	0.709	1e-26
345481651	264	PREDICTED: hypothetical protein LOC10012	0.652	0.340	0.663	2e-26
345481649	262	PREDICTED: hypothetical protein LOC10012	0.652	0.343	0.663	2e-26
307215253	303	Heart- and neural crest derivatives-expr	0.586	0.267	0.698	2e-26
350397475	285	PREDICTED: hypothetical protein LOC10074	0.659	0.319	0.645	3e-26

>gi|242005999|ref|XP_002423846.1| dhand, putative [Pediculus humanus corporis] gi|212507068|gb|EEB11108.1| dhand, putative [Pediculus humanus corporis]

 Score =  127 bits (320), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 62/78 (79%), Positives = 70/78 (89%), Gaps = 1/78 (1%)

Query: 19 IIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMK 78
          I+RVVKRRNTANKKERRRTQSINNAF+DLR+CIPNVP+DTKLSKIKTLRLATSYI YLM 
Sbjct: 8  IVRVVKRRNTANKKERRRTQSINNAFADLRDCIPNVPADTKLSKIKTLRLATSYIGYLMG 67

Query: 79 ILETDDIISID-DFKADL 95
          +L +DD   I  +F+ADL
Sbjct: 68 VLASDDPNVIQTEFRADL 85

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322802822|gb|EFZ23021.1| hypothetical protein SINV_10287 [Solenopsis invicta]

 Score =  127 bits (318), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 62/86 (72%), Positives = 71/86 (82%), Gaps = 2/86 (2%)

Query: 21  RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           R  KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLA SYI YLM +L
Sbjct: 164 RPPKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLAASYIGYLMAVL 223

Query: 81  ETDDIISIDDFKADLSNHSSHRKNKS 106
           E+D+      F+A++   S+ R+NK+
Sbjct: 224 ESDEGEEPQTFRAEIL--SNGRRNKA 247

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332023986|gb|EGI64204.1| Heart- and neural crest derivatives-expressed protein 2 [Acromyrmex echinatior]

 Score =  126 bits (317), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 62/83 (74%), Positives = 70/83 (84%), Gaps = 2/83 (2%)

Query: 24  KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD 83
           KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLA SYI YLM +LE+D
Sbjct: 161 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLAASYIGYLMAVLESD 220

Query: 84  DIISIDDFKADLSNHSSHRKNKS 106
           +      F+A++   SS R+NK+
Sbjct: 221 EGEEPQTFRAEIL--SSGRRNKA 241

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193632021|ref|XP_001945320.1| PREDICTED: hypothetical protein LOC100168554 [Acyrthosiphon pisum]

 Score =  125 bits (314), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 62/76 (81%), Positives = 67/76 (88%), Gaps = 1/76 (1%)

Query: 27  NTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDII 86
           NTANKKERRRTQSINNAFSDLR+CIPNVPSDTKLSKIKTLRLATSYI YLM +L++DD  
Sbjct: 309 NTANKKERRRTQSINNAFSDLRDCIPNVPSDTKLSKIKTLRLATSYIGYLMTVLDSDD-P 367

Query: 87  SIDDFKADLSNHSSHR 102
             D FKADLS H+S R
Sbjct: 368 DTDGFKADLSAHTSKR 383

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307179435|gb|EFN67759.1| Heart- and neural crest derivatives-expressed protein 2 [Camponotus floridanus]

 Score =  125 bits (313), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 60/84 (71%), Positives = 71/84 (84%), Gaps = 2/84 (2%)

Query: 24  KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD 83
           KRRNTANKKERRRTQSINNAFSDLR+CIPNVP+DTKLSKIKTLRLA SYI YLM +LE+D
Sbjct: 139 KRRNTANKKERRRTQSINNAFSDLRDCIPNVPADTKLSKIKTLRLAASYIGYLMAVLESD 198

Query: 84  DIISIDDFKADLSNHSSHRKNKSQ 107
           +      F+A++   S+ R+NK+Q
Sbjct: 199 EGEEPQTFRAEIL--SNGRRNKTQ 220

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91076044|ref|XP_972310.1| PREDICTED: similar to heart and neural crest derivatives expressed transcript 2 [Tribolium castaneum] gi|270014677|gb|EFA11125.1| hypothetical protein TcasGA2_TC004726 [Tribolium castaneum]

 Score =  124 bits (311), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 61/86 (70%), Positives = 71/86 (82%), Gaps = 1/86 (1%)

Query: 11  PLYTADLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLAT 70
           PL    +P +RVVKRR TANKKERRRTQSINNA++DLR+CIPNVP DTKLSKIKTLRLAT
Sbjct: 32  PLQHVQVPFVRVVKRRTTANKKERRRTQSINNAYADLRDCIPNVPPDTKLSKIKTLRLAT 91

Query: 71  SYISYLMKILETDDIISIDDFKADLS 96
           SYI+YL+K LE+DD  +   F A+L 
Sbjct: 92  SYINYLVKALESDD-PAPGSFTAELG 116

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345481651|ref|XP_001605828.2| PREDICTED: hypothetical protein LOC100122225 isoform 1 [Nasonia vitripennis]

 Score =  124 bits (310), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 61/92 (66%), Positives = 74/92 (80%), Gaps = 2/92 (2%)

Query: 16  DLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISY 75
            L ++   KRRNTANKKERRRTQSINNAF+DLR+CIPNVP+DTKLSKIKTLRLA SYI Y
Sbjct: 130 GLGLVVRPKRRNTANKKERRRTQSINNAFADLRDCIPNVPADTKLSKIKTLRLAASYIGY 189

Query: 76  LMKILETDDIISIDDFKADLSNHSSHRKNKSQ 107
           LM +L++D+      F+A++   SS R+NKSQ
Sbjct: 190 LMAVLDSDEGEEPQTFRAEIL--SSGRRNKSQ 219

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345481649|ref|XP_003424421.1| PREDICTED: hypothetical protein LOC100122225 isoform 2 [Nasonia vitripennis]

 Score =  123 bits (309), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 61/92 (66%), Positives = 74/92 (80%), Gaps = 2/92 (2%)

Query: 16  DLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISY 75
            L ++   KRRNTANKKERRRTQSINNAF+DLR+CIPNVP+DTKLSKIKTLRLA SYI Y
Sbjct: 128 GLGLVVRPKRRNTANKKERRRTQSINNAFADLRDCIPNVPADTKLSKIKTLRLAASYIGY 187

Query: 76  LMKILETDDIISIDDFKADLSNHSSHRKNKSQ 107
           LM +L++D+      F+A++   SS R+NKSQ
Sbjct: 188 LMAVLDSDEGEEPQTFRAEIL--SSGRRNKSQ 217

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307215253|gb|EFN90007.1| Heart- and neural crest derivatives-expressed protein 2 [Harpegnathos saltator]

 Score =  123 bits (308), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 58/83 (69%), Positives = 70/83 (84%), Gaps = 2/83 (2%)

Query: 24  KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD 83
           KRRNTANKKERRRTQSINNAF+DLR+CIPNVP+DTKLSKIKTLRLA SYI YLM +LE+D
Sbjct: 174 KRRNTANKKERRRTQSINNAFADLRDCIPNVPADTKLSKIKTLRLAASYIGYLMAVLESD 233

Query: 84  DIISIDDFKADLSNHSSHRKNKS 106
           +      F+A++   S+ R+NK+
Sbjct: 234 EGEEPQTFRAEIL--SNGRRNKA 254

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350397475|ref|XP_003484889.1| PREDICTED: hypothetical protein LOC100740604 [Bombus impatiens]

 Score =  122 bits (307), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 60/93 (64%), Positives = 74/93 (79%), Gaps = 2/93 (2%)

Query: 14  TADLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYI 73
           T D  ++   KRRNTANKKERRRTQSINNAF+DLR+CIPNVP+DTKLSKIKTLRLA SYI
Sbjct: 146 TRDGGVVVRPKRRNTANKKERRRTQSINNAFADLRDCIPNVPADTKLSKIKTLRLAASYI 205

Query: 74  SYLMKILETDDIISIDDFKADLSNHSSHRKNKS 106
            YLM +LE+D+      F+A++   S+ R+NK+
Sbjct: 206 GYLMAVLESDEGEEPQTFRAEIL--SNGRRNKT 236

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	138
ZFIN|ZDB-GENE-000511-1	208	hand2 "heart and neural crest	0.644	0.427	0.630	8.7e-24
UNIPROTKB|Q90690	216	HAND2 "Heart- and neural crest	0.630	0.402	0.640	1.8e-23
UNIPROTKB|F1MLT3	191	LOC781874 "Uncharacterized pro	0.630	0.455	0.640	1.8e-23
UNIPROTKB|F1PX30	222	HAND2 "Uncharacterized protein	0.630	0.391	0.640	1.8e-23
UNIPROTKB|P61296	217	HAND2 "Heart- and neural crest	0.630	0.400	0.640	1.8e-23
UNIPROTKB|F1RJ02	176	HAND2 "Uncharacterized protein	0.630	0.494	0.640	1.8e-23
MGI|MGI:103580	217	Hand2 "heart and neural crest	0.630	0.400	0.640	1.8e-23
RGD|621207	217	Hand2 "heart and neural crest	0.630	0.400	0.640	1.8e-23
UNIPROTKB|P61295	217	Hand2 "Heart- and neural crest	0.630	0.400	0.640	1.8e-23
UNIPROTKB|E1C225	216	E1C225 "Uncharacterized protei	0.630	0.402	0.629	7.8e-23

ZFIN|ZDB-GENE-000511-1 hand2 "heart and neural crest derivatives expressed transcript 2" [Danio rerio (taxid:7955)]

 Score = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 58/92 (63%), Positives = 71/92 (77%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM IL
Sbjct:    87 RTVKRRPTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDIL 146

Query:    81 ETDDIIS-IDDFKADL--SNHSSHRKNKSQYD 109
             + D+     + FKA+   ++    R+ K   D
Sbjct:   147 DKDEQNGGTEAFKAEFKKTDAKEERRKKEMND 178

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0003144 "embryonic heart tube formation" evidence=IMP

GO:0003142 "cardiogenic plate morphogenesis" evidence=IMP

GO:0035118 "embryonic pectoral fin morphogenesis" evidence=IMP

GO:0035051 "cardiocyte differentiation" evidence=IMP

GO:0030859 "polarized epithelial cell differentiation" evidence=IMP

GO:0003007 "heart morphogenesis" evidence=IMP

GO:0060047 "heart contraction" evidence=IMP

GO:0003342 "proepicardium development" evidence=IMP

GO:0048703 "embryonic viscerocranium morphogenesis" evidence=IMP

GO:0030878 "thyroid gland development" evidence=IMP

GO:0071908 "determination of intestine left/right asymmetry" evidence=IMP

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

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

GO:0010002 "cardioblast differentiation" evidence=IMP

UNIPROTKB|Q90690 HAND2 "Heart- and neural crest derivatives-expressed protein 2" [Gallus gallus (taxid:9031)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:    95 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 154

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   155 PKDDQNGEAEAFKAEIKKTDVKEEKRKKE 183

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

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

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1MLT3 LOC781874 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:    70 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 129

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   130 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 158

GO:2000764 "positive regulation of semaphorin-plexin signaling pathway involved in outflow tract morphogenesis" evidence=IEA

GO:2000763 "positive regulation of transcription from RNA polymerase II promoter involved in norepinephrine biosynthetic process" evidence=IEA

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=IEA

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

GO:0061325 "cell proliferation involved in outflow tract morphogenesis" evidence=IEA

GO:0061032 "visceral serous pericardium development" evidence=IEA

GO:0060982 "coronary artery morphogenesis" evidence=IEA

GO:0060536 "cartilage morphogenesis" evidence=IEA

GO:0060021 "palate development" evidence=IEA

GO:0048935 "peripheral nervous system neuron development" evidence=IEA

GO:0048538 "thymus development" evidence=IEA

GO:0048485 "sympathetic nervous system development" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IEA

GO:0043586 "tongue development" evidence=IEA

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

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

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

GO:0042475 "odontogenesis of dentin-containing tooth" evidence=IEA

GO:0010667 "negative regulation of cardiac muscle cell apoptotic process" evidence=IEA

GO:0010463 "mesenchymal cell proliferation" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0003680 "AT DNA binding" evidence=IEA

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

GO:0003253 "cardiac neural crest cell migration involved in outflow tract morphogenesis" evidence=IEA

GO:0003219 "cardiac right ventricle formation" evidence=IEA

GO:0001967 "suckling behavior" evidence=IEA

GO:0001947 "heart looping" evidence=IEA

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

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

GO:0000977 "RNA polymerase II regulatory region sequence-specific DNA binding" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

UNIPROTKB|F1PX30 HAND2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:   101 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 160

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   161 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 189

GO:0046983 "protein dimerization activity" evidence=IEA

UNIPROTKB|P61296 HAND2 "Heart- and neural crest derivatives-expressed protein 2" [Homo sapiens (taxid:9606)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:    96 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 155

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   156 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 184

GO:0001525 "angiogenesis" evidence=IEA

GO:0001967 "suckling behavior" evidence=IEA

GO:0003219 "cardiac right ventricle formation" evidence=IEA

GO:0003253 "cardiac neural crest cell migration involved in outflow tract morphogenesis" evidence=IEA

GO:0010463 "mesenchymal cell proliferation" evidence=IEA

GO:0042475 "odontogenesis of dentin-containing tooth" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

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

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0043586 "tongue development" evidence=IEA

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0048485 "sympathetic nervous system development" evidence=IEA

GO:0048935 "peripheral nervous system neuron development" evidence=IEA

GO:0060021 "palate development" evidence=IEA

GO:0060536 "cartilage morphogenesis" evidence=IEA

GO:0060982 "coronary artery morphogenesis" evidence=IEA

GO:0061032 "visceral serous pericardium development" evidence=IEA

GO:0061325 "cell proliferation involved in outflow tract morphogenesis" evidence=IEA

GO:0003680 "AT DNA binding" evidence=IDA

GO:0007507 "heart development" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

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

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

GO:0043234 "protein complex" 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=IDA

GO:0000790 "nuclear chromatin" evidence=IDA

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=IDA

GO:0003357 "noradrenergic neuron differentiation" evidence=NAS

GO:0000977 "RNA polymerase II regulatory region sequence-specific DNA binding" evidence=IDA

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

GO:0048538 "thymus development" evidence=ISS

GO:0010667 "negative regulation of cardiac muscle cell apoptotic process" evidence=ISS

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

GO:0003713 "transcription coactivator activity" evidence=ISS

GO:0008134 "transcription factor binding" evidence=ISS

GO:0033613 "activating transcription factor binding" evidence=ISS

GO:0001947 "heart looping" evidence=ISS

GO:0005667 "transcription factor complex" evidence=ISS

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

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

GO:0042803 "protein homodimerization activity" evidence=ISS

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

GO:0003007 "heart morphogenesis" evidence=ISS

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

GO:0006915 "apoptotic process" evidence=ISS

GO:0014032 "neural crest cell development" evidence=ISS

GO:0007512 "adult heart development" evidence=IEP

GO:2000763 "positive regulation of transcription from RNA polymerase II promoter involved in norepinephrine biosynthetic process" evidence=ISS

GO:2000764 "positive regulation of semaphorin-plexin signaling pathway involved in outflow tract morphogenesis" evidence=ISS

UNIPROTKB|F1RJ02 HAND2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:    55 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 114

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   115 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 143

GO:2000764 "positive regulation of semaphorin-plexin signaling pathway involved in outflow tract morphogenesis" evidence=IEA

GO:2000763 "positive regulation of transcription from RNA polymerase II promoter involved in norepinephrine biosynthetic process" evidence=IEA

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=IEA

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

GO:0061325 "cell proliferation involved in outflow tract morphogenesis" evidence=IEA

GO:0061032 "visceral serous pericardium development" evidence=IEA

GO:0060982 "coronary artery morphogenesis" evidence=IEA

GO:0060536 "cartilage morphogenesis" evidence=IEA

GO:0060021 "palate development" evidence=IEA

GO:0048935 "peripheral nervous system neuron development" evidence=IEA

GO:0048538 "thymus development" evidence=IEA

GO:0048485 "sympathetic nervous system development" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IEA

GO:0043586 "tongue development" evidence=IEA

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

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

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

GO:0042475 "odontogenesis of dentin-containing tooth" evidence=IEA

GO:0010667 "negative regulation of cardiac muscle cell apoptotic process" evidence=IEA

GO:0010463 "mesenchymal cell proliferation" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0003680 "AT DNA binding" evidence=IEA

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

GO:0003253 "cardiac neural crest cell migration involved in outflow tract morphogenesis" evidence=IEA

GO:0003219 "cardiac right ventricle formation" evidence=IEA

GO:0001967 "suckling behavior" evidence=IEA

GO:0001947 "heart looping" evidence=IEA

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

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

GO:0000977 "RNA polymerase II regulatory region sequence-specific DNA binding" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

MGI|MGI:103580 Hand2 "heart and neural crest derivatives expressed transcript 2" [Mus musculus (taxid:10090)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:    96 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 155

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   156 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 184

GO:0000790 "nuclear chromatin" evidence=ISO

GO:0000977 "RNA polymerase II regulatory region sequence-specific DNA binding" evidence=ISO

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

GO:0001525 "angiogenesis" evidence=IEA

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

GO:0001947 "heart looping" evidence=IMP

GO:0001967 "suckling behavior" evidence=IMP

GO:0003007 "heart morphogenesis" evidence=IMP

GO:0003219 "cardiac right ventricle formation" evidence=IMP

GO:0003253 "cardiac neural crest cell migration involved in outflow tract morphogenesis" evidence=IMP

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

GO:0003677 "DNA binding" evidence=IEA

GO:0003680 "AT DNA binding" evidence=ISO

GO:0003713 "transcription coactivator activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005667 "transcription factor complex" evidence=IDA

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

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

GO:0006915 "apoptotic process" evidence=IMP

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007507 "heart development" evidence=IGI

GO:0007512 "adult heart development" evidence=IMP

GO:0008134 "transcription factor binding" evidence=ISO;IPI

GO:0010463 "mesenchymal cell proliferation" evidence=IMP

GO:0010667 "negative regulation of cardiac muscle cell apoptotic process" evidence=IMP

GO:0014032 "neural crest cell development" evidence=IMP

GO:0019904 "protein domain specific binding" evidence=ISO

GO:0030154 "cell differentiation" evidence=IEA

GO:0033613 "activating transcription factor binding" evidence=ISO

GO:0042475 "odontogenesis of dentin-containing tooth" evidence=IGI

GO:0042733 "embryonic digit morphogenesis" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IPI

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

GO:0043234 "protein complex" evidence=ISO

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

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IDA

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

GO:0043586 "tongue development" evidence=IMP

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

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IMP;IDA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IGI;IDA

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

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0048485 "sympathetic nervous system development" evidence=IDA

GO:0048538 "thymus development" evidence=IMP

GO:0048935 "peripheral nervous system neuron development" evidence=IDA

GO:0060021 "palate development" evidence=IMP

GO:0060485 "mesenchyme development" evidence=IGI

GO:0060536 "cartilage morphogenesis" evidence=IGI

GO:0060982 "coronary artery morphogenesis" evidence=IMP

GO:0061032 "visceral serous pericardium development" evidence=IMP

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

GO:0061325 "cell proliferation involved in outflow tract morphogenesis" evidence=IMP

GO:0061371 "determination of heart left/right asymmetry" evidence=IMP

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

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=ISO

GO:2000763 "positive regulation of transcription from RNA polymerase II promoter involved in norepinephrine biosynthetic process" evidence=IMP

GO:2000764 "positive regulation of semaphorin-plexin signaling pathway involved in outflow tract morphogenesis" evidence=IMP

RGD|621207 Hand2 "heart and neural crest derivatives expressed 2" [Rattus norvegicus (taxid:10116)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:    96 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 155

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   156 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 184

GO:0000790 "nuclear chromatin" evidence=ISO

GO:0000977 "RNA polymerase II regulatory region sequence-specific DNA binding" evidence=ISO

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

GO:0001525 "angiogenesis" evidence=IEA

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

GO:0001947 "heart looping" evidence=ISO

GO:0001967 "suckling behavior" evidence=ISO

GO:0003007 "heart morphogenesis" evidence=ISO

GO:0003219 "cardiac right ventricle formation" evidence=ISO

GO:0003253 "cardiac neural crest cell migration involved in outflow tract morphogenesis" evidence=ISO

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

GO:0003677 "DNA binding" evidence=IEA

GO:0003680 "AT DNA binding" evidence=ISO

GO:0003713 "transcription coactivator activity" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

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

GO:0005667 "transcription factor complex" evidence=ISO

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

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

GO:0006915 "apoptotic process" evidence=ISO

GO:0007507 "heart development" evidence=ISO;IEP

GO:0007512 "adult heart development" evidence=ISO

GO:0008134 "transcription factor binding" evidence=ISO;IPI

GO:0010463 "mesenchymal cell proliferation" evidence=ISO

GO:0010667 "negative regulation of cardiac muscle cell apoptotic process" evidence=ISO

GO:0014032 "neural crest cell development" evidence=ISO

GO:0019904 "protein domain specific binding" evidence=IDA

GO:0030154 "cell differentiation" evidence=IEA

GO:0033613 "activating transcription factor binding" evidence=IPI

GO:0042475 "odontogenesis of dentin-containing tooth" evidence=ISO

GO:0042733 "embryonic digit morphogenesis" evidence=ISO

GO:0042803 "protein homodimerization activity" evidence=ISO

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

GO:0043234 "protein complex" evidence=ISO

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

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=ISO

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

GO:0043586 "tongue development" evidence=ISO

GO:0045668 "negative regulation of osteoblast differentiation" evidence=ISO

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

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

GO:0046982 "protein heterodimerization activity" evidence=ISO

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0048485 "sympathetic nervous system development" evidence=ISO

GO:0048538 "thymus development" evidence=ISO

GO:0048935 "peripheral nervous system neuron development" evidence=ISO

GO:0060021 "palate development" evidence=ISO

GO:0060485 "mesenchyme development" evidence=ISO

GO:0060536 "cartilage morphogenesis" evidence=ISO

GO:0060982 "coronary artery morphogenesis" evidence=ISO

GO:0061032 "visceral serous pericardium development" evidence=ISO

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

GO:0061325 "cell proliferation involved in outflow tract morphogenesis" evidence=ISO

GO:0061371 "determination of heart left/right asymmetry" evidence=ISO

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

GO:0071300 "cellular response to retinoic acid" evidence=IEP

GO:0071407 "cellular response to organic cyclic compound" evidence=IEP

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=ISO

GO:2000763 "positive regulation of transcription from RNA polymerase II promoter involved in norepinephrine biosynthetic process" evidence=ISO

GO:2000764 "positive regulation of semaphorin-plexin signaling pathway involved in outflow tract morphogenesis" evidence=ISO

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

UNIPROTKB|P61295 Hand2 "Heart- and neural crest derivatives-expressed protein 2" [Rattus norvegicus (taxid:10116)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 57/89 (64%), Positives = 68/89 (76%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRLATSYI+YLM +L
Sbjct:    96 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLATSYIAYLMDLL 155

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   156 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 184

GO:0046983 "protein dimerization activity" evidence=IEA

UNIPROTKB|E1C225 E1C225 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 56/89 (62%), Positives = 67/89 (75%)

Query:    21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
             R VKRR TAN+KERRRTQSIN+AF++LRECIPNVP+DTKLSKIKTLRL TSYI+YLM +L
Sbjct:    95 RPVKRRGTANRKERRRTQSINSAFAELRECIPNVPADTKLSKIKTLRLFTSYIAYLMDLL 154

Query:    81 ETDDIIS-IDDFKADLSNHS-SHRKNKSQ 107
               DD     + FKA++        K K +
Sbjct:   155 AKDDQNGEAEAFKAEIKKTDVKEEKRKKE 183

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0048485 "sympathetic nervous system development" evidence=IEA

GO:0048538 "thymus development" evidence=IEA

GO:0048935 "peripheral nervous system neuron development" evidence=IEA

GO:0060021 "palate development" evidence=IEA

GO:0060536 "cartilage morphogenesis" evidence=IEA

GO:0060982 "coronary artery morphogenesis" evidence=IEA

GO:0061032 "visceral serous pericardium development" evidence=IEA

GO:0061325 "cell proliferation involved in outflow tract morphogenesis" evidence=IEA

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

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=IEA

GO:2000763 "positive regulation of transcription from RNA polymerase II promoter involved in norepinephrine biosynthetic process" evidence=IEA

GO:2000764 "positive regulation of semaphorin-plexin signaling pathway involved in outflow tract morphogenesis" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0000977 "RNA polymerase II regulatory region sequence-specific DNA binding" evidence=IEA

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

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

GO:0001947 "heart looping" evidence=IEA

GO:0001967 "suckling behavior" evidence=IEA

GO:0003219 "cardiac right ventricle formation" evidence=IEA

GO:0003253 "cardiac neural crest cell migration involved in outflow tract morphogenesis" evidence=IEA

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

GO:0003680 "AT DNA binding" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007512 "adult heart development" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0010463 "mesenchymal cell proliferation" evidence=IEA

GO:0010667 "negative regulation of cardiac muscle cell apoptotic process" evidence=IEA

GO:0042475 "odontogenesis of dentin-containing tooth" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

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

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0043586 "tongue development" evidence=IEA

GO:0045668 "negative regulation of osteoblast differentiation" 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)
P61296	HAND2_HUMAN	No assigned EC number	0.7297	0.5289	0.3364	yes	N/A
P61295	HAND2_RAT	No assigned EC number	0.7297	0.5289	0.3364	yes	N/A
Q61039	HAND2_MOUSE	No assigned EC number	0.7297	0.5289	0.3364	yes	N/A
P57102	HAND2_DANRE	No assigned EC number	0.7236	0.5434	0.3605	yes	N/A
P57100	HAND1_RABIT	No assigned EC number	0.5666	0.6449	0.4139	yes	N/A
Q90691	HAND1_CHICK	No assigned EC number	0.5454	0.6956	0.4752	yes	N/A
Q90690	HAND2_CHICK	No assigned EC number	0.7297	0.5289	0.3379	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	138
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	4e-18
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	8e-17
smart00353	53	smart00353, HLH, helix loop helix domain	5e-16

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

 Score = 72.1 bits (178), Expect = 4e-18
 Identities = 27/52 (51%), Positives = 35/52 (67%), Gaps = 1/52 (1%)

Query: 25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYL 76
          RR   N++ERRR   IN+AF +LRE +P  P + KLSK + LRLA  YI +L
Sbjct: 1  RRKAHNERERRRRDRINDAFEELRELLPT-PPNKKLSKAEILRLAIEYIKHL 51

Length = 52

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

 Score = 69.2 bits (170), Expect = 8e-17
 Identities = 26/59 (44%), Positives = 36/59 (61%)

Query: 23 VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE 81
            RR   N +ERRR + IN+AF +LR  +P +P   KLSK + LR A  YI  L ++L+
Sbjct: 2  KSRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60

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

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

 Score = 66.9 bits (164), Expect = 5e-16
 Identities = 25/53 (47%), Positives = 34/53 (64%)

Query: 30 NKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET 82
          N +ERRR + IN AF +LR  +P +P + KLSK + LRLA  YI  L + L+ 
Sbjct: 1  NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQK 53

Length = 53

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	138
KOG4029|consensus	228		99.76
KOG3960|consensus	284		99.75
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.64
KOG3898|consensus	254		99.63
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.58
smart00353	53	HLH helix loop helix domain.	99.48
KOG4395|consensus	285		99.42
KOG4447|consensus	173		99.35
KOG0561|consensus	373		99.27
KOG3910|consensus	632		99.25
KOG1319|consensus	229		99.02
KOG1318|consensus	411		98.82
KOG2483|consensus	232		98.36
KOG2588|consensus	953		98.2
KOG3561|consensus	803		97.88
KOG4304|consensus	250		97.76
KOG4447|consensus	173		97.31
PLN03217	93	transcription factor ATBS1; Provisional	95.87
KOG3558|consensus	768		91.21
KOG3560|consensus	712		81.9

>KOG4029|consensus

Probab=99.76  E-value=1.8e-18  Score=138.36  Aligned_cols=65  Identities=49%  Similarity=0.777  Sum_probs=61.0

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCC-CCCCCHHHHHHHHHHHHHHHHHHHhhcCCC
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPS-DTKLSKIKTLRLATSYISYLMKILETDDII   86 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~-~~klSKi~tLr~Ai~YI~~L~~~L~~~~~~   86 (138)
                      ...+|..+|+|||.|++.||.+|..||.+||..+. ++||||++|||.||.||.+|+++|+.+...
T Consensus       106 ~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~  171 (228)
T KOG4029|consen  106 TSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAP  171 (228)
T ss_pred             hhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccC
Confidence            56788899999999999999999999999999888 999999999999999999999999887753

>KOG3960|consensus

Probab=99.75  E-value=6.5e-18  Score=137.82  Aligned_cols=64  Identities=36%  Similarity=0.588  Sum_probs=58.3

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCC
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDII   86 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~~~~   86 (138)
                      .++||++|..|||+|.++||+||+.|+++.-..| +++|.||||||.||+||..||.+|++....
T Consensus       115 svDRRKAATMRERRRLkKVNEAFE~LKRrT~~NP-NQRLPKVEILRsAI~YIE~Lq~LL~~~~~~  178 (284)
T KOG3960|consen  115 SVDRRKAATMRERRRLKKVNEAFETLKRRTSSNP-NQRLPKVEILRSAIRYIERLQALLQEQDQA  178 (284)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc-cccccHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            5799999999999999999999999988875444 789999999999999999999999887663

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

Probab=99.64  E-value=7.5e-16  Score=98.08  Aligned_cols=53  Identities=45%  Similarity=0.687  Sum_probs=49.5

Q ss_pred             HHhHhhHHHHHhHHHHHHHHHHHHhhCCCC--CCCCCCCHHHHHHHHHHHHHHHH
Q psy5860          25 RRNTANKKERRRTQSINNAFSDLRECIPNV--PSDTKLSKIKTLRLATSYISYLM   77 (138)
Q Consensus        25 rR~~aN~rER~R~~~iN~af~~LR~~vP~~--~~~~klSKi~tLr~Ai~YI~~L~   77 (138)
                      +|..||.+||.|+..||.+|+.|+.+||..  ....|++|++||+.||+||.+||
T Consensus         1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq   55 (55)
T PF00010_consen    1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ   55 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence            588999999999999999999999999984  36789999999999999999996

; 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 ....

>KOG3898|consensus

Probab=99.63  E-value=3.1e-16  Score=128.20  Aligned_cols=65  Identities=43%  Similarity=0.579  Sum_probs=60.2

Q ss_pred             HHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC
Q psy5860          21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDI   85 (138)
Q Consensus        21 ~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~~~   85 (138)
                      ....+|.++|+|||+|||+||+||+.||.+||.++.+.||+||+||+.|-+||..|+.++.....
T Consensus        68 ~~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~~ls~~~  132 (254)
T KOG3898|consen   68 ALTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEVLLSGIA  132 (254)
T ss_pred             hhhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccccccCCC
Confidence            35678999999999999999999999999999989999999999999999999999998876655

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

Probab=99.58  E-value=1.2e-14  Score=92.75  Aligned_cols=57  Identities=46%  Similarity=0.747  Sum_probs=53.2

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL   80 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L   80 (138)
                      .+|..||..||.|+..||.+|+.|+..||....+.|++|+.||+.|++||.+|+..+
T Consensus         3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~   59 (60)
T cd00083           3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL   59 (60)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence            578889999999999999999999999998766889999999999999999999865

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

>smart00353 HLH helix loop helix domain

Probab=99.48  E-value=1.6e-13  Score=86.14  Aligned_cols=52  Identities=48%  Similarity=0.780  Sum_probs=48.1

Q ss_pred             hHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          30 NKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        30 N~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      |..||.|+..||.+|+.|+..||......|++|+.||..|++||..|+..++
T Consensus         1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~   52 (53)
T smart00353        1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ   52 (53)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            6789999999999999999999986668899999999999999999998764

>KOG4395|consensus

Probab=99.42  E-value=2.7e-13  Score=111.00  Aligned_cols=63  Identities=43%  Similarity=0.566  Sum_probs=58.8

Q ss_pred             HHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC
Q psy5860          23 VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDI   85 (138)
Q Consensus        23 ~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~~~   85 (138)
                      +.||.++|+|||+||+.||.||+.||..||....++||||.+||+.|-.||..|..+|.....
T Consensus       172 ~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~~~~~  234 (285)
T KOG4395|consen  172 SHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLDLPMS  234 (285)
T ss_pred             HhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhcCccc
Confidence            467889999999999999999999999999999999999999999999999999999966544

>KOG4447|consensus

Probab=99.35  E-value=3.6e-13  Score=103.29  Aligned_cols=61  Identities=56%  Similarity=0.889  Sum_probs=57.1

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD   83 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~   83 (138)
                      -..+|.-||.|||+|.++||+||..||..||++|.+ |||||.||++|..||.+|..+|..+
T Consensus        75 ~q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPsd-klSkiqtLklA~ryidfl~~vl~s~  135 (173)
T KOG4447|consen   75 LQKQRVMANVRERQRTQSLNEAFAALRKIIPTLPSD-KLSKIQTLKLAARYIDFLYQVLQSD  135 (173)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCcc-ccccccchhhcccCCchhhhccccc
Confidence            345899999999999999999999999999998865 9999999999999999999999877

>KOG0561|consensus

Probab=99.27  E-value=1.6e-11  Score=103.03  Aligned_cols=63  Identities=41%  Similarity=0.516  Sum_probs=54.3

Q ss_pred             CCCchhHHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q psy5860          15 ADLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKI   79 (138)
Q Consensus        15 ~~~~~~~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~   79 (138)
                      ...+..|+ -||.-||..||+||++||.+|..||.+||. -.++||||..||+...+||..|...
T Consensus        51 t~~D~erR-mRReIANsNERRRMQSINAGFqsLr~LlPr-~eGEKLSKAAILQQTa~yI~~Le~~  113 (373)
T KOG0561|consen   51 TSLDPERR-MRREIANSNERRRMQSINAGFQSLRALLPR-KEGEKLSKAAILQQTADYIHQLEGH  113 (373)
T ss_pred             cccCHHHH-HHHHhhcchHHHHHHhhhHHHHHHHHhcCc-ccchhhHHHHHHHHHHHHHHHHHhc
Confidence            34445444 578889999999999999999999999997 4567999999999999999999863

>KOG3910|consensus

Probab=99.25  E-value=8.7e-12  Score=109.94  Aligned_cols=73  Identities=29%  Similarity=0.361  Sum_probs=64.1

Q ss_pred             hHHHHHHhHhhHHHHHhHHHHHHHHHHH-HhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCchhHHH
Q psy5860          20 IRVVKRRNTANKKERRRTQSINNAFSDL-RECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDIISIDDFK   92 (138)
Q Consensus        20 ~~~~~rR~~aN~rER~R~~~iN~af~~L-R~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~~~~~~~~~~   92 (138)
                      .|.++||.+.|+|||.|+++||+||.+| |.|.-++..+|-.+|+-||..|+..|-.|++++++...++.....
T Consensus       521 eREkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERNLNPKaacl  594 (632)
T KOG3910|consen  521 EREKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERNLNPKAACL  594 (632)
T ss_pred             hHHHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHccCChhhhhh
Confidence            4578899999999999999999999999 666666778999999999999999999999999988777754433

>KOG1319|consensus

Probab=99.02  E-value=1.3e-09  Score=86.46  Aligned_cols=69  Identities=25%  Similarity=0.487  Sum_probs=56.0

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCC----CCCCCHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHh
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPS----DTKLSKIKTLRLATSYISYLMKILETDDIISIDDFKA   93 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~----~~klSKi~tLr~Ai~YI~~L~~~L~~~~~~~~~~~~~   93 (138)
                      +||.+|..-||+|+.-||.+|+.|+.+||....    +.|+||..||+++|+||.+|.+...+.++ +...+++
T Consensus        61 rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~-e~s~L~k  133 (229)
T KOG1319|consen   61 RRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEE-EVSTLRK  133 (229)
T ss_pred             HHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            356679999999999999999999999998443    45999999999999999999886655544 3334443

>KOG1318|consensus

Probab=98.82  E-value=1.5e-08  Score=88.05  Aligned_cols=66  Identities=30%  Similarity=0.470  Sum_probs=56.5

Q ss_pred             CCchhHHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          16 DLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNV-PSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        16 ~~~~~~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~-~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      ..-..|-++||..||+.||+|+-.||..+.+|..+||.. ..+-|+.|-.||+.+++||+.|++.++
T Consensus       224 ~~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q  290 (411)
T KOG1318|consen  224 ATALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ  290 (411)
T ss_pred             cchhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence            344455677788899999999999999999999999983 356688899999999999999998665

>KOG2483|consensus

Probab=98.36  E-value=8.9e-07  Score=72.06  Aligned_cols=59  Identities=22%  Similarity=0.371  Sum_probs=51.7

Q ss_pred             HHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          23 VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        23 ~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      ...|..||+-||+|+..|...|+.||+.||.+..+++-.-+.||++|.+||..|+....
T Consensus        57 ~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~  115 (232)
T KOG2483|consen   57 ASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSA  115 (232)
T ss_pred             CcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHH
Confidence            45799999999999999999999999999987655555589999999999999987543

>KOG2588|consensus

Probab=98.20  E-value=2.8e-06  Score=79.91  Aligned_cols=56  Identities=32%  Similarity=0.491  Sum_probs=51.3

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      .+|.+||..|++.+.+||+.+.+||+.||.  .+-|+.|-++||.||+||++|+...+
T Consensus       275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g--~~aKl~kSavLr~ai~~i~dl~~~nq  330 (953)
T KOG2588|consen  275 EKRTAHNIIEKRYRSSINDKIIELKDLVPG--TEAKLNKSAVLRKAIDYIEDLQGYNQ  330 (953)
T ss_pred             cccchhhHHHHHhhcchhHHHHHHHHhcCc--cHhhhhhhhhHHHHHHHHHHhhcccc
Confidence            579999999999999999999999999984  56799999999999999999997543

>KOG3561|consensus

Probab=97.88  E-value=2.1e-05  Score=73.40  Aligned_cols=59  Identities=24%  Similarity=0.406  Sum_probs=52.8

Q ss_pred             HHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCC-CCCCCCCHHHHHHHHHHHHHHHHHH
Q psy5860          21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNV-PSDTKLSKIKTLRLATSYISYLMKI   79 (138)
Q Consensus        21 ~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~-~~~~klSKi~tLr~Ai~YI~~L~~~   79 (138)
                      +.+..|..+|.-||+|+.++|..+++|-..||.. .-.+|+-|..|||+||..|+.+..+
T Consensus        16 k~r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~   75 (803)
T KOG3561|consen   16 KDRKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ   75 (803)
T ss_pred             hhhhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence            4456799999999999999999999999999983 3568999999999999999988875

>KOG4304|consensus

Probab=97.76  E-value=2.7e-05  Score=64.00  Aligned_cols=55  Identities=25%  Similarity=0.428  Sum_probs=47.0

Q ss_pred             HHhHhhHHHHHhHHHHHHHHHHHHhhCCCC-CC----CCCCCHHHHHHHHHHHHHHHHHH
Q psy5860          25 RRNTANKKERRRTQSINNAFSDLRECIPNV-PS----DTKLSKIKTLRLATSYISYLMKI   79 (138)
Q Consensus        25 rR~~aN~rER~R~~~iN~af~~LR~~vP~~-~~----~~klSKi~tLr~Ai~YI~~L~~~   79 (138)
                      |+..+-.-||+|+.-||+.+++||++|+.. ..    -.||-|.+||.++++|.+.|+..
T Consensus        32 rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~   91 (250)
T KOG4304|consen   32 RKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRS   91 (250)
T ss_pred             hhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcc
Confidence            444567889999999999999999999972 22    26999999999999999999874

>KOG4447|consensus

Probab=97.31  E-value=0.00013  Score=56.36  Aligned_cols=57  Identities=28%  Similarity=0.363  Sum_probs=49.2

Q ss_pred             HHHHHhHhhHH-HHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q psy5860          22 VVKRRNTANKK-ERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKI   79 (138)
Q Consensus        22 ~~~rR~~aN~r-ER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~   79 (138)
                      .+..|.-+|.+ ||.|.+.+|.+|.-|+..+|..|.+ +.+|+.+|+.+..||.+|.++
T Consensus        18 ~~~~~~~~r~~~e~~R~~~ls~~s~l~g~l~pgspa~-gk~~~ktlr~~~~~~~~~dE~   75 (173)
T KOG4447|consen   18 GVSEEECDRQRKERGRKRRLSDASTLLGKLEPGSPAD-GKRGKKTLRIGTDSIQSLDEL   75 (173)
T ss_pred             chhhhhhhhhHHHHhHHhhhhhhhhhccccCCCCCCc-ccccccccccCCCchhhHHHH
Confidence            44556666677 9999999999999999999987765 789999999999999999874

>PLN03217 transcription factor ATBS1; Provisional

Probab=95.87  E-value=0.024  Score=40.05  Aligned_cols=48  Identities=21%  Similarity=0.374  Sum_probs=39.3

Q ss_pred             HhHHHHHHHHHHHHhhCCCCC---CCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          35 RRTQSINNAFSDLRECIPNVP---SDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        35 ~R~~~iN~af~~LR~~vP~~~---~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ---..||+-...|+..||...   ...|.|-..+|+.++.||+.|+..+++
T Consensus        17 isddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDd   67 (93)
T PLN03217         17 ISEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDD   67 (93)
T ss_pred             CCHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHH
Confidence            334579999999999999843   345888889999999999999986654

>KOG3558|consensus

Probab=91.21  E-value=0.35  Score=45.23  Aligned_cols=52  Identities=31%  Similarity=0.553  Sum_probs=42.1

Q ss_pred             HHHHHhHHHHHHHHHHHHhhCCCCCC--CCCCCHHHHHHHHHHHHHHHHHHHhhcC
Q psy5860          31 KKERRRTQSINNAFSDLRECIPNVPS--DTKLSKIKTLRLATSYISYLMKILETDD   84 (138)
Q Consensus        31 ~rER~R~~~iN~af~~LR~~vP~~~~--~~klSKi~tLr~Ai~YI~~L~~~L~~~~   84 (138)
                      .--|.|+.+=|.-|.+|..+|| +|.  .-.|-|+.|+|+||.|.+ |.+++...+
T Consensus        52 dAARsRRsKEn~~FyeLa~~lP-lp~aisshLDkaSimRLtISyLR-lrk~a~~g~  105 (768)
T KOG3558|consen   52 DAARSRRSKENEEFYELAKLLP-LPAAISSHLDKASIMRLTISYLR-LRKFAGAGD  105 (768)
T ss_pred             hhhhhhcccchHHHHHHHHhCC-CcchhhhhhhhHHHHHHHHHHHH-HHHHhhcCC
Confidence            3457888999999999999999 553  458999999999999997 566664443

>KOG3560|consensus

Probab=81.90  E-value=1.4  Score=40.65  Aligned_cols=45  Identities=31%  Similarity=0.617  Sum_probs=36.5

Q ss_pred             HHHHHHHHHhhCCCCCCC--CCCCHHHHHHHHHHHHH---HHHHHHhhcCC
Q psy5860          40 INNAFSDLRECIPNVPSD--TKLSKIKTLRLATSYIS---YLMKILETDDI   85 (138)
Q Consensus        40 iN~af~~LR~~vP~~~~~--~klSKi~tLr~Ai~YI~---~L~~~L~~~~~   85 (138)
                      ||.-++.|..+||. +.+  -||-|+.|||+++.|++   +.+-+|+....
T Consensus        40 LNaELD~lAsLLPf-pqdiisKLDkLSVLRLSVSyLr~KSfFqvvl~~s~~   89 (712)
T KOG3560|consen   40 LNAELDHLASLLPF-PQDIISKLDKLSVLRLSVSYLRVKSFFQVVLHQSSR   89 (712)
T ss_pred             hhhHHHHHHHhcCC-CHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHhcCcc
Confidence            89999999999996 443  49999999999999997   45666665544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	138
2ql2_B	60	Crystal Structure Of The Basic-Helix-Loop-Helix Dom		1e-07

>pdb|2QL2|B Chain B, Crystal Structure Of The Basic-Helix-Loop-Helix Domains Of The Heterodimer E47NEUROD1 BOUND TO DNA Length = 60

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 36/59 (61%)
Query: 25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD 83
          RR  AN +ER R   +N A  +LR+ +P      KLSKI+TLRLA +YI  L +IL + 
Sbjct: 2  RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRSG 60

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	138
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	6e-28
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	6e-22
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	4e-15
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	4e-12
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	2e-09
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	2e-09
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	5e-09
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	3e-08
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	3e-08
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	1e-04

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

 Score = 96.6 bits (241), Expect = 6e-28
 Identities = 27/58 (46%), Positives = 36/58 (62%)

Query: 25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET 82
          RR  AN +ER R   +N A  +LR+ +P      KLSKI+TLRLA +YI  L +IL +
Sbjct: 2  RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRS 59

>1mdy_A Protein (MYOD BHLH domain); protein-DNA complex, transcription/DNA complex; HET: DNA; 2.80A {Mus musculus} SCOP: a.38.1.1 PDB: 1mdy_B* Length = 68

 Score = 82.0 bits (203), Expect = 6e-22
 Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 20 IRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKI 79
               RR  A  +ERRR   +N AF  L+    + P+  +L K++ LR A  YI  L  +
Sbjct: 7  TTNADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQ-RLPKVEILRNAIRYIEGLQAL 65

Query: 80 LE 81
          L 
Sbjct: 66 LR 67

>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB: 2ql2_A* Length = 76

 Score = 64.5 bits (157), Expect = 4e-15
 Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 23 VKRRNTANKKERRRTQSINNAFSDL-RECIPNVPSDTKLSKIKTLRLATSYISYL 76
            +R   N  ER+R + IN AF +L R C  ++ SD   +K+  L+ A   I  L
Sbjct: 3  ADKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGL 57

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

 Score = 57.3 bits (139), Expect = 4e-12
 Identities = 18/54 (33%), Positives = 30/54 (55%)

Query: 25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMK 78
          +R T N  ER+R   +  +F  LR+ IP + ++ K  K+  L+ AT+YI  +  
Sbjct: 6  KRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQA 59

>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 = 50.5 bits (121), Expect = 2e-09
 Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMK 78
          +R   N  ER+R   I ++F  LR+ +P++    K S+ + L  AT YI Y+ +
Sbjct: 2  KRAHHNALERKRRDHIKDSFHSLRDSVPSL-QGEKASRAQILDKATEYIQYMRR 54

>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 = 50.0 bits (120), Expect = 2e-09
 Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 1/63 (1%)

Query: 16 DLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISY 75
          D+ +     +R   N  ER+R   I ++F  LR+ +P++    K S+ + L  AT YI Y
Sbjct: 3  DIEVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSL-QGEKASRAQILDKATEYIQY 61

Query: 76 LMK 78
          + +
Sbjct: 62 MRR 64

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

 Score = 49.1 bits (117), Expect = 5e-09
 Identities = 12/53 (22%), Positives = 24/53 (45%)

Query: 26 RNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMK 78
          R+T N+ E+ R   +  +   L+  +P  P  ++ + +  L  A  +I  L  
Sbjct: 2  RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLED 54

>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 = 47.0 bits (112), Expect = 3e-08
 Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 2/53 (3%)

Query: 24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYL 76
          ++R   N  E+R   SIN+   +L++ +    ++ KL+K   LR A  YI +L
Sbjct: 5  EKRTAHNAIEKRYRSSINDKIIELKDLVVG--TEAKLNKSAVLRKAIDYIRFL 55

>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 = 46.6 bits (111), Expect = 3e-08
 Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 3/56 (5%)

Query: 24 KRRNTANKKERRRTQSINNAFSDLRECIPNV---PSDTKLSKIKTLRLATSYISYL 76
          KRR   N+ ERRR   INN    L + IP+     + +  SK   L  A+ YI  L
Sbjct: 4  KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQEL 59

>2lfh_A DNA-binding protein inhibitor ID-3; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Length = 68

 Score = 37.0 bits (85), Expect = 1e-04
 Identities = 16/56 (28%), Positives = 29/56 (51%)

Query: 21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYL 76
           +   +  A ++       +N+ +S LRE +P VP  T+LS+++ L+    YI  L
Sbjct: 10 HMGGGKGPAAEEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDL 65

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	138
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	99.92
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.91
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	99.85
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	99.84
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.78
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.7
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.69
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.67
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.66
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.55
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.51
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.46
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.46
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.45
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.4
4f3l_A	361	Mclock, circadian locomoter output cycles protein	98.9
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.68
4ath_A	83	MITF, microphthalmia-associated transcription fact	98.25
3muj_A	138	Transcription factor COE3; immunoglobulin like fol	94.45

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

Probab=99.92  E-value=2.2e-25  Score=145.64  Aligned_cols=58  Identities=47%  Similarity=0.679  Sum_probs=56.1

Q ss_pred             HHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        25 rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      +|.+||+|||+||++||.||+.||++||..+.++||||++||+.||+||.+|+++|++
T Consensus         2 rR~~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   59 (60)
T 2ql2_B            2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRS   59 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTTC
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHhc
Confidence            6889999999999999999999999999999999999999999999999999999975

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

Probab=99.91  E-value=2.7e-24  Score=143.66  Aligned_cols=60  Identities=35%  Similarity=0.568  Sum_probs=56.3

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ..++|.+||+|||+||++||.||+.||++||..+ ++||||++||+.||+||.+|+++|++
T Consensus         9 ~~~rR~~aN~rER~R~~~iN~af~~LR~~iP~~~-~~KlSKi~tLr~Ai~YI~~L~~~L~~   68 (68)
T 1mdy_A            9 NADRRKAATMRERRRLSKVNEAFETLKRSTSSNP-NQRLPKVEILRNAIRYIEGLQALLRD   68 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCT-TSCCCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             chhhhhHhhHHHHHHHHHHHHHHHHHHHhcCCCC-CCCCCHHHHHHHHHHHHHHHHHHHcC
Confidence            5688999999999999999999999999999865 78999999999999999999999864

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

Probab=99.85  E-value=2.2e-22  Score=134.25  Aligned_cols=52  Identities=31%  Similarity=0.480  Sum_probs=49.7

Q ss_pred             hHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy5860          27 NTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMK   78 (138)
Q Consensus        27 ~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~   78 (138)
                      ..+|+|||+||++||.||+.||++||.++.++|||||+|||.||+||.+||.
T Consensus        16 ~~a~erER~Rm~~lN~aF~~LR~~VP~~p~~kKLSKiEtLr~Ai~YI~~Lq~   67 (68)
T 2lfh_A           16 GPAAEEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQV   67 (68)
T ss_dssp             CCCBCCCSCSSSHHHHHHHHHHHHCCCCCTTCCCCHHHHHHHHHHHHHHHHC
T ss_pred             CCccHHHHHHHHHHHHHHHHHHHHCCCCCCCCCccHHHHHHHHHHHHHHHHc
Confidence            4679999999999999999999999999999999999999999999999985

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

Probab=99.84  E-value=3.1e-21  Score=136.71  Aligned_cols=62  Identities=26%  Similarity=0.417  Sum_probs=52.6

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETDDI   85 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~~~   85 (138)
                      .|++....+||.||+.||.||+.||++||..+.++|||||+|||.||+||.+|+++|++.+.
T Consensus        24 ~R~k~~~~~~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~~~~   85 (97)
T 4aya_A           24 SRSKTPVDDPMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDSHLK   85 (97)
T ss_dssp             -------CCHHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHTTTS
T ss_pred             HHHhcccccHHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            34444456779999999999999999999999999999999999999999999999998766

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

Probab=99.78  E-value=1.6e-19  Score=122.77  Aligned_cols=64  Identities=27%  Similarity=0.339  Sum_probs=52.9

Q ss_pred             HHHHhHhhHHHHHhHHHHHHHHHHHHhhCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCC
Q psy5860          23 VKRRNTANKKERRRTQSINNAFSDLRECIPN-VPSDTKLSKIKTLRLATSYISYLMKILETDDII   86 (138)
Q Consensus        23 ~~rR~~aN~rER~R~~~iN~af~~LR~~vP~-~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~~~~   86 (138)
                      .++|..||++||+|+..||.+|++||++||. .+.++++||++||+.||+||.+|++.|++.+..
T Consensus         3 ~~rR~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~~   67 (76)
T 3u5v_A            3 ADKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNLN   67 (76)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             hhHHhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            3689999999999999999999999999995 556666799999999999999999999877664

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

Probab=99.70  E-value=4.6e-17  Score=113.11  Aligned_cols=59  Identities=31%  Similarity=0.435  Sum_probs=55.3

Q ss_pred             HHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          23 VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        23 ~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      ..+|..||+.||+|+..||.+|+.||++||.++.+.|+||+.||+.||+||.+|+....
T Consensus         4 ~~~R~~Hn~~ER~RR~~ln~~f~~Lr~~vP~~~~~~K~sK~~iL~~A~~YI~~L~~~~~   62 (88)
T 1nkp_A            4 NVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQ   62 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            46899999999999999999999999999998878999999999999999999998654

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

Probab=99.69  E-value=3.7e-17  Score=111.27  Aligned_cols=60  Identities=32%  Similarity=0.536  Sum_probs=54.7

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ...+|..||++||+|+..||.+|+.||.+||..+ +.|+||++||+.||+||.+|+..++.
T Consensus         9 ~~~~R~~hn~~Er~RR~~in~~f~~Lr~lvP~~~-~~k~sK~~iL~~Ai~YI~~L~~~~~~   68 (80)
T 1hlo_A            9 DADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQ-GEKASRAQILDKATEYIQYMRRKNHT   68 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSGGGT-TSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHhhHHHHHHHHHHHHHHHHHHHHCcCCC-CCCccHHHHHHHHHHHHHHHHHHHHH
Confidence            4678999999999999999999999999999865 46899999999999999999987654

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

Probab=99.67  E-value=1e-16  Score=109.49  Aligned_cols=58  Identities=33%  Similarity=0.571  Sum_probs=52.6

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ++|..||.+||+|+..||.+|+.||.+||..+ +.|+||++||+.||+||.+|+..++.
T Consensus         1 ~rR~~hn~~Er~RR~~in~~f~~Lr~lvP~~~-~~k~sK~~iL~~Ai~YI~~L~~~~~~   58 (83)
T 1nkp_B            1 DKRAHHNALERKRRDHIKDSFHSLRDSVPSLQ-GEKASRAQILDKATEYIQYMRRKNHT   58 (83)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHTTSGGGT-TSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChhhHhhhHHHHHHHHHHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            37899999999999999999999999999855 56899999999999999999976543

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

Probab=99.66  E-value=1.9e-16  Score=108.33  Aligned_cols=57  Identities=21%  Similarity=0.278  Sum_probs=53.4

Q ss_pred             HHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        25 rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      .|..||+.||+|+..||.+|+.||+.||.++.+.|+||+.||+.|++||..|+....
T Consensus         1 ~R~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~   57 (80)
T 1nlw_A            1 SRSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDR   57 (80)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            378999999999999999999999999998888999999999999999999998554

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

Probab=99.55  E-value=1e-14  Score=99.84  Aligned_cols=60  Identities=28%  Similarity=0.409  Sum_probs=54.4

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD   83 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~   83 (138)
                      ...+|..||..||+|+..||.+|.+|+.+||.  .+.|++|+.||..||+||.+|+..++.-
T Consensus         3 ~~~rr~~H~~~ErrRR~~in~~f~~L~~lvP~--~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L   62 (82)
T 1am9_A            3 RGEKRTAHNAIEKRYRSSINDKIIELKDLVVG--TEAKLNKSAVLRKAIDYIRFLQHSNQKL   62 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--SSCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhhHHHHHHHHHHHHHHHHHHhccC--CCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            45789999999999999999999999999996  3579999999999999999999977654

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

Probab=99.51  E-value=1.9e-15  Score=98.91  Aligned_cols=56  Identities=38%  Similarity=0.453  Sum_probs=50.5

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCC---CCCCHHHHHHHHHHHHHHHHHH
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSD---TKLSKIKTLRLATSYISYLMKI   79 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~---~klSKi~tLr~Ai~YI~~L~~~   79 (138)
                      .+|..||..||+|+..||.+|.+|+.+||.....   .|++|+.||+.||+||.+|+..
T Consensus         4 ~rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~   62 (65)
T 1an4_A            4 KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQS   62 (65)
T ss_dssp             CCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTT
T ss_pred             HHHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHH
Confidence            4788999999999999999999999999985543   5899999999999999999863

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

Probab=99.46  E-value=1.8e-13  Score=91.92  Aligned_cols=59  Identities=20%  Similarity=0.321  Sum_probs=53.5

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ...+|..+|..||+|+..||..|.+|+.+||.  .+.|+.|..||+.||+||..|+..+.-
T Consensus         5 ~~~kR~~Hn~iErrRRd~IN~~i~eL~~LvP~--~~~K~dK~sIL~~aI~yik~Lq~~~~~   63 (71)
T 4h10_B            5 DKAKRVSRNKSEKKRRDQFNVLIKELGSMLPG--NARKMDKSTVLQKSIDFLRKHKEITAW   63 (71)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSS--CCSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHhhhhhHHHhhHHHHHHHHHHHHHHhCCC--CCCCCcHHHHHHHHHHHHHHHHHhhhH
Confidence            45789999999999999999999999999994  457999999999999999999987654

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

Probab=99.46  E-value=1.1e-13  Score=100.60  Aligned_cols=67  Identities=24%  Similarity=0.365  Sum_probs=47.3

Q ss_pred             CCCchhHHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          15 ADLPIIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVP-SDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        15 ~~~~~~~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~-~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      ......+...+|..||..||+|+..||..|..|+.+||... .+.|++|..||..||+||.+|+...+
T Consensus        17 ~~~~~~k~~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~   84 (118)
T 4ati_A           17 EARALAKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQ   84 (118)
T ss_dssp             --------------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHH
Confidence            33445566778889999999999999999999999999753 36799999999999999999998654

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

Probab=99.45  E-value=1.3e-14  Score=95.08  Aligned_cols=56  Identities=25%  Similarity=0.282  Sum_probs=50.1

Q ss_pred             HHhHhhHHHHHhHHHHHHHHHHHHhhCCCCC----CCCCCCHHHHHHHHHHHHHHHHHHH
Q psy5860          25 RRNTANKKERRRTQSINNAFSDLRECIPNVP----SDTKLSKIKTLRLATSYISYLMKIL   80 (138)
Q Consensus        25 rR~~aN~rER~R~~~iN~af~~LR~~vP~~~----~~~klSKi~tLr~Ai~YI~~L~~~L   80 (138)
                      +|..|+.-||.|+..||.+|++|+.+||...    .+.|+||.+||..||+||.+|++.+
T Consensus         2 kr~~H~~aEr~RR~rIn~~~~~L~~LlP~~~~~~~~~~k~sKa~iL~~Ai~YIk~Lq~~~   61 (63)
T 1a0a_A            2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHCCCcccccccCCcccHHHHHHHHHHHHHHHHHHh
Confidence            5788999999999999999999999999632    2579999999999999999998754

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

Probab=99.40  E-value=2.3e-13  Score=91.73  Aligned_cols=60  Identities=25%  Similarity=0.403  Sum_probs=52.8

Q ss_pred             hHHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCC-CCCCCCCHHHHHHHHHHHHHHHHHH
Q psy5860          20 IRVVKRRNTANKKERRRTQSINNAFSDLRECIPNV-PSDTKLSKIKTLRLATSYISYLMKI   79 (138)
Q Consensus        20 ~~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~-~~~~klSKi~tLr~Ai~YI~~L~~~   79 (138)
                      ++...+|..|+..||+|+..||.+|++|+.+||.. ....|+.|+.||+.||+||..|+..
T Consensus         4 ~k~~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~~   64 (73)
T 4h10_A            4 GRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGA   64 (73)
T ss_dssp             -CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhcC
Confidence            45677899999999999999999999999999963 3457999999999999999999754

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

Probab=98.90  E-value=1.8e-09  Score=88.94  Aligned_cols=59  Identities=19%  Similarity=0.319  Sum_probs=44.2

Q ss_pred             HHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        21 ~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      +...+|..||..||+|+..||..|.+|+.+||  ....||.|+.||++||+||+.|+.+-.
T Consensus         8 ~~~~~~~~~~~~e~~rr~~~n~~~~~l~~~~p--~~~~~~dk~~il~~~~~~~~~~~~~~~   66 (361)
T 4f3l_A            8 KDKAKRVSRNKSEKKRRDQFNVLIKELGSMLP--GNARKMDKSTVLQKSIDFLRKHKETTA   66 (361)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHTCC--SSSCCCCHHHHHHHHHHHHHHHHHHHT
T ss_pred             ccchhhhhhhHHHHHHHHHHHHHHHHHHHhCC--CCCCCcCHHHHHHHHHHHHHHHHhhcc
Confidence            45678889999999999999999999999999  346799999999999999999987643

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

Probab=98.68  E-value=1.4e-08  Score=84.79  Aligned_cols=60  Identities=25%  Similarity=0.391  Sum_probs=50.5

Q ss_pred             hhHHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCC-CCCCCCHHHHHHHHHHHHHHHHH
Q psy5860          19 IIRVVKRRNTANKKERRRTQSINNAFSDLRECIPNVP-SDTKLSKIKTLRLATSYISYLMK   78 (138)
Q Consensus        19 ~~~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~-~~~klSKi~tLr~Ai~YI~~L~~   78 (138)
                      ..|...+|..||..||+|+..||..|.+|+.+||... ...||.|..||++||+||+.|+.
T Consensus         7 ~~~~~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~   67 (387)
T 4f3l_B            7 QGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   67 (387)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHC
T ss_pred             cchhhhhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhc
Confidence            3456678899999999999999999999999999522 45799999999999999999873

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

Probab=98.25  E-value=2.5e-06  Score=58.59  Aligned_cols=44  Identities=25%  Similarity=0.372  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHhhCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy5860          38 QSINNAFSDLRECIPNV-PSDTKLSKIKTLRLATSYISYLMKILE   81 (138)
Q Consensus        38 ~~iN~af~~LR~~vP~~-~~~~klSKi~tLr~Ai~YI~~L~~~L~   81 (138)
                      -.||..|.+|...||.. ..+-|.+|-.||+.|++||.+|++..+
T Consensus         5 ~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~~   49 (83)
T 4ath_A            5 FNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQ   49 (83)
T ss_dssp             HHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTHH
T ss_pred             hhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHHH
Confidence            46999999999999963 457799999999999999999988543

>3muj_A Transcription factor COE3; immunoglobulin like fold, helix-loop-helix, structural genom consortium, SGC, DNA binding protein; 1.92A {Homo sapiens} PDB: 3mqi_A

Probab=94.45  E-value=0.078  Score=39.23  Aligned_cols=39  Identities=28%  Similarity=0.471  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHhhCCCCCC-CCCCCHHHHHHHHHHHHHHHH
Q psy5860          39 SINNAFSDLRECIPNVPS-DTKLSKIKTLRLATSYISYLM   77 (138)
Q Consensus        39 ~iN~af~~LR~~vP~~~~-~~klSKi~tLr~Ai~YI~~L~   77 (138)
                      .|+-+|.+|.+.||-.+. .++|.|--||++|.++...|-
T Consensus        95 tId~gfqrl~k~~pr~pgdpe~lpk~~~lkraa~l~e~~~  134 (138)
T 3muj_A           95 TIDYGFQRLQKVIPRHPGDPERLPKEVLLKRAADLVEALY  134 (138)
T ss_dssp             CHHHHHHHHHHHSCCCTTCCSSCCHHHHHHHHHHHHHHHH
T ss_pred             ccccchhhhccccCCCCCChhhhhHHHHHHHHHHHHHHHh
Confidence            488999999999998664 469999999999999998774

---

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	138
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	1e-13
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	2e-13
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	1e-12
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	2e-12
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	5e-12
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	2e-11
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	3e-08

>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 = 59.5 bits (144), Expect = 1e-13
 Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
              RR  A  +ERRR   +N AF  L+    + P + +L K++ LR A  YI  L  +L
Sbjct: 8  TNADRRKAATMRERRRLSKVNEAFETLKRSTSSNP-NQRLPKVEILRNAIRYIEGLQALL 66

Query: 81 E 81
           
Sbjct: 67 R 67

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

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

 Score = 59.9 bits (145), Expect = 2e-13
 Identities = 18/62 (29%), Positives = 32/62 (51%)

Query: 21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKIL 80
           +  +R T N  ER+R   +  +F  LR+ IP + ++ K  K+  L+ AT+YI  +    
Sbjct: 2  HMNVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEE 61

Query: 81 ET 82
          + 
Sbjct: 62 QK 63

>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 = 57.2 bits (138), Expect = 1e-12
 Identities = 12/56 (21%), Positives = 24/56 (42%)

Query: 26 RNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE 81
          R+T N+ E+ R   +  +   L+  +P  P  ++ + +  L  A  +I  L     
Sbjct: 2  RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDR 57

>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 = 55.9 bits (135), Expect = 2e-12
 Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 3/58 (5%)

Query: 24 KRRNTANKKERRRTQSINNAFSDLRECIPNV---PSDTKLSKIKTLRLATSYISYLMK 78
          KRR   N+ ERRR   INN    L + IP+     + +  SK   L  A+ YI  L +
Sbjct: 4  KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ 61

>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 = 55.3 bits (133), Expect = 5e-12
 Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 4/62 (6%)

Query: 25 RRNTANKKERRRTQSINNAFSDLRECIPNVP----SDTKLSKIKTLRLATSYISYLMKIL 80
          +R +    E+ R   +  A  +L   IP            SK  T+  A  YI +L +  
Sbjct: 2  KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG 61

Query: 81 ET 82
           T
Sbjct: 62 ST 63

>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 = 54.5 bits (131), Expect = 2e-11
 Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 25 RRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET 82
          +R   N  ER+R   I ++F  LR+ +P++  + K S+ + L  AT YI Y+ +   T
Sbjct: 2  KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGE-KASRAQILDKATEYIQYMRRKNHT 58

>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 = 45.7 bits (108), Expect = 3e-08
 Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILE 81
          ++R   N  E+R   SIN+   +L++ +    ++ KL+K   LR A  YI +L    +
Sbjct: 5  EKRTAHNAIEKRYRSSINDKIIELKDLVVG--TEAKLNKSAVLRKAIDYIRFLQHSNQ 60

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	138
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.76
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.66
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.62
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.54
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	98.9

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

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

Probab=99.76  E-value=8e-19  Score=115.06  Aligned_cols=61  Identities=34%  Similarity=0.557  Sum_probs=55.6

Q ss_pred             HHHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          21 RVVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        21 ~~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ....+|..||.+||.|+..||.+|+.|+.+||..+ .+|++|++||+.||+||.+|+++|++
T Consensus         8 ~~~~rR~~hn~~Er~Rr~~in~~~~~L~~llP~~~-~~k~sK~~iL~~Ai~YI~~Lq~~l~e   68 (68)
T d1mdya_           8 TNADRRKAATMRERRRLSKVNEAFETLKRSTSSNP-NQRLPKVEILRNAIRYIEGLQALLRD   68 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCT-TSCCCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHHHHHHHHHhhC
Confidence            35678999999999999999999999999999865 46999999999999999999998863

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

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

Probab=99.66  E-value=9.3e-17  Score=109.08  Aligned_cols=61  Identities=30%  Similarity=0.400  Sum_probs=55.9

Q ss_pred             HHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy5860          23 VKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD   83 (138)
Q Consensus        23 ~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~   83 (138)
                      -.+|..||++||+|+..||++|+.|+++||..+.+.|+||++||+.|++||.+|++.++.-
T Consensus         4 ~~rR~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l   64 (88)
T d1nkpa_           4 NVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKL   64 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4578899999999999999999999999998777889999999999999999999877543

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

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

Probab=99.65  E-value=1.5e-16  Score=106.02  Aligned_cols=58  Identities=21%  Similarity=0.273  Sum_probs=54.1

Q ss_pred             HhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy5860          26 RNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD   83 (138)
Q Consensus        26 R~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~   83 (138)
                      |..||+.||+|+..||.+|+.|+.+||..+...|+||++||+.|++||..|+..+...
T Consensus         2 R~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~l   59 (79)
T d1nlwa_           2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKA   59 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            7899999999999999999999999998877889999999999999999999877543

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

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

Probab=99.63  E-value=2.2e-16  Score=106.18  Aligned_cols=58  Identities=33%  Similarity=0.571  Sum_probs=52.5

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ++|..||.+||+|+..||.+|+.|+.+||..+ +.|++|++||+.|++||.+|++.+..
T Consensus         1 ~rR~~Hn~~Er~RR~~in~~f~~L~~llP~~~-~~k~sK~~iL~~A~~yI~~L~~~~~~   58 (83)
T d1nkpb_           1 DKRAHHNALERKRRDHIKDSFHSLRDSVPSLQ-GEKASRAQILDKATEYIQYMRRKNHT   58 (83)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHTTSGGGT-TSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-CCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            37899999999999999999999999999654 56999999999999999999887644

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

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

Probab=99.62  E-value=7.5e-17  Score=103.83  Aligned_cols=56  Identities=25%  Similarity=0.309  Sum_probs=50.8

Q ss_pred             HHhHhhHHHHHhHHHHHHHHHHHHhhCCC----CCCCCCCCHHHHHHHHHHHHHHHHHHH
Q psy5860          25 RRNTANKKERRRTQSINNAFSDLRECIPN----VPSDTKLSKIKTLRLATSYISYLMKIL   80 (138)
Q Consensus        25 rR~~aN~rER~R~~~iN~af~~LR~~vP~----~~~~~klSKi~tLr~Ai~YI~~L~~~L   80 (138)
                      +|..||..||+|+..||.+|++|+.+||.    ...+.|++|.+||+.|++||.+|++.+
T Consensus         2 rR~~H~~~Er~RR~~in~~~~~L~~llP~~~~~~~~~~k~sKa~iL~~Av~yI~~Lq~~v   61 (63)
T d1a0aa_           2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG   61 (63)
T ss_dssp             CTTGGGGGTHHHHHHHHHHHHHHHHTSCHHHHTSSCCCCSCTTHHHHHHHHHHHHHHTCS
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHCCCcccccCCcccccHHHHHHHHHHHHHHHHHhh
Confidence            58899999999999999999999999995    245789999999999999999998754

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

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

Probab=99.54  E-value=4.6e-16  Score=100.62  Aligned_cols=55  Identities=38%  Similarity=0.477  Sum_probs=50.0

Q ss_pred             HHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCC---CCCCCCHHHHHHHHHHHHHHHHH
Q psy5860          24 KRRNTANKKERRRTQSINNAFSDLRECIPNVP---SDTKLSKIKTLRLATSYISYLMK   78 (138)
Q Consensus        24 ~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~---~~~klSKi~tLr~Ai~YI~~L~~   78 (138)
                      .+|..||+.||+|+..||.+|+.|+.+||...   .+.|++|++||+.|++||.+|++
T Consensus         4 ~rR~~H~~~Er~RR~~in~~f~~L~~lvP~~~~~~~~~k~sK~~iL~~av~yI~~Lq~   61 (65)
T d1an4a_           4 KRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ   61 (65)
T ss_dssp             CCCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            46889999999999999999999999999743   45699999999999999999975

>d1am9a_ a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: SREBP-1a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=8.5e-15  Score=97.88  Aligned_cols=59  Identities=29%  Similarity=0.439  Sum_probs=53.2

Q ss_pred             HHHHHhHhhHHHHHhHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy5860          22 VVKRRNTANKKERRRTQSINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILET   82 (138)
Q Consensus        22 ~~~rR~~aN~rER~R~~~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~   82 (138)
                      ...+|..||..||+|+..||.+|+.|+.+||.  ...|++|++||..|++||.+|+..++.
T Consensus         3 ~~~kR~~H~~~Er~RR~~in~~~~~L~~llP~--~~~k~~K~~iL~~a~~yI~~L~~~~~~   61 (80)
T d1am9a_           3 RGEKRTAHNAIEKRYRSSINDKIIELKDLVVG--TEAKLNKSAVLRKAIDYIRFLQHSNQK   61 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--SSCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHhcCCC--CCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            35688999999999999999999999999995  356999999999999999999987654

>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=98.90  E-value=4.2e-10  Score=71.27  Aligned_cols=43  Identities=33%  Similarity=0.507  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy5860          39 SINNAFSDLRECIPNVPSDTKLSKIKTLRLATSYISYLMKILETD   83 (138)
Q Consensus        39 ~iN~af~~LR~~vP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~~   83 (138)
                      .||+.|..||++||.  .+.|.+|++||..||+||.+|+.....-
T Consensus         3 ~in~~f~~L~~lvP~--~~~K~~Ka~iL~~Ai~YI~~Lq~~~~~L   45 (61)
T d1uklc_           3 SINDKIIELKDLVMG--TDAKMHKSGVLRKAIDYIKYLQQVNHKL   45 (61)
T ss_dssp             CHHHHHHHHHHHHSC--SSCCCCTTTHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCC--CCCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence            599999999999995  3469999999999999999999977644