Psyllid ID: psy15840

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-
Protein Sequence
MHVPAITLQQVLAGEVLTELEEFDFKQTNQDPREEFDTNYDSNYDRQYCDSISNEDMLTVPREFKPILISHASSNPRRRRRNSAPSGSVPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANSGCR
Secondary Structure (PSIPRED)
ccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHccccHHHHHHccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHccHHHHHHHHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
MHVPAITLQQVLAGEVLTEleefdfkqtnqdpreefdtnydsnydrqycdsisnedmltvprefkpilishassnprrrrrnsapsgsvpppqvmKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANSGCR
Flexible Loop (DISEMBL)
mhvpaitlqqvlagEVLTELEEFdfkqtnqdpreefdtnydsnyDRQYCDSISNEDMLTVPREFKPILishassnprrrrrnsapsgsvpppqvmkkrrlaanarerrrmsglneafdrLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLtsansgcr
Low Complexity Region (SEG)
MHVPAITLQQVLAGEVLTELEEFDFKQTNQDPREEFDTNYDSNYDRQYCDSISNEDMLTVPREFKPILISHassnprrrrrnsapsGSVPPPQVMKKrrlaanarerrrMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANSGCR
Disordered region (IsUnstruct)
*****ITLQQVLAGEVLTELEEFD*******************YDRQYCDSIS***MLTVPREFKPIL**********************************************EAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL********
Disordered Region (DISOPRED)
*******************************************************************************************************ARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD**********
Disordered Region (DISEMBL)
MHVPAITLQQVLAGEVLTELEEFDFKQTNQDPREEFDTNYDSNYDRQYCDSISNEDMLTVPREFKPILISHAS****************************ANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANSGCR
Disordered Region (DISPRO)
*HVPAITLQQVLAGEVLTELEEFDFKQTNQDPREEFDTNYDSNYD***C******************************************PQVMKKR******RERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHVPAITLQQVLAGEVLTELEEFDFKQTNQDPREEFDTNYDSNYDRQYCDSISNEDMLTVPREFKPILISHASSNPRRRRRNSAPSGSVPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANSGCR
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	161	2.2.26 [Sep-21-2011]
P48987	312	Protein atonal OS=Drosoph	no	N/A	0.478	0.246	0.585	2e-19
P48985	351	Protein atonal homolog 1	yes	N/A	0.409	0.188	0.666	5e-18
Q5IS79	356	Protein atonal homolog 1	yes	N/A	0.409	0.185	0.651	1e-17
Q92858	354	Protein atonal homolog 1	yes	N/A	0.409	0.186	0.651	1e-17
Q9Y0A7	198	Basic helix-loop-helix tr	no	N/A	0.385	0.313	0.661	1e-17
O57598	151	Protein atonal homolog 7	yes	N/A	0.372	0.397	0.683	7e-16
O13126	138	Protein atonal homolog 7-	N/A	N/A	0.372	0.434	0.683	2e-15
Q8AW52	134	Protein atonal homolog 7	no	N/A	0.378	0.455	0.622	3e-15
Q10574	142	Protein lin-32 OS=Caenorh	yes	N/A	0.403	0.457	0.615	6e-15
O13125	138	Protein atonal homolog 7-	N/A	N/A	0.372	0.434	0.65	1e-14

>sp|P48987|ATO_DROME Protein atonal OS=Drosophila melanogaster GN=ato PE=2 SV=2

 Score = 95.1 bits (235), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 48/82 (58%), Positives = 59/82 (71%), Gaps = 5/82 (6%)

Query: 72  ASSNPRRRRRNSAPSGSVPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEH 131
           A+    ++RR     G    P V +KRRLAANARERRRM  LN+AFDRLR+ +PC+G + 
Sbjct: 235 AAGGSGKKRR-----GKQITPVVKRKRRLAANARERRRMQNLNQAFDRLRQYLPCLGNDR 289

Query: 132 KLSKFETLQMAQTYIHSLRDLL 153
           +LSK ETLQMAQTYI +L DLL
Sbjct: 290 QLSKHETLQMAQTYISALGDLL 311

Developmental protein involved in neurogenesis. Required for the formation of chordotonal organs and photoreceptors. Seems to bind to E boxes. Specifically required for the photoreceptor R8 selection.
Drosophila melanogaster (taxid: 7227)

>sp|P48985|ATOH1_MOUSE Protein atonal homolog 1 OS=Mus musculus GN=Atoh1 PE=2 SV=1

 Score = 90.1 bits (222), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 44/66 (66%), Positives = 52/66 (78%)

Query: 94  VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           V K+RRLAANARERRRM GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct: 153 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 212

Query: 154 TSANSG 159
            + N G
Sbjct: 213 QTPNVG 218

Transcriptional regulator. Activates E box-dependent transcription in collaboration with TCF3/E47, but the activity is completely antagonized by the negative regulator of neurogenesis HES1. Plays a role in the differentiation of subsets of neural cells by activating E box-dependent transcription.

Mus musculus (taxid: 10090)

>sp|Q5IS79|ATOH1_PANTR Protein atonal homolog 1 OS=Pan troglodytes GN=ATOH1 PE=2 SV=1

 Score = 89.0 bits (219), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 43/66 (65%), Positives = 52/66 (78%)

Query: 94  VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           V K+RRLAANARERRRM GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct: 158 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 217

Query: 154 TSANSG 159
            + + G
Sbjct: 218 QTPSGG 223

Transcriptional regulator. Activates E box-dependent transcription in collaboration with TCF3/E47, but the activity is completely antagonized by the negative regulator of neurogenesis HES1. Plays a role in the differentiation of subsets of neural cells by activating E box-dependent transcription.

Pan troglodytes (taxid: 9598)

>sp|Q92858|ATOH1_HUMAN Protein atonal homolog 1 OS=Homo sapiens GN=ATOH1 PE=2 SV=1

 Score = 89.0 bits (219), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 43/66 (65%), Positives = 52/66 (78%)

Query: 94  VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           V K+RRLAANARERRRM GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct: 156 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 215

Query: 154 TSANSG 159
            + + G
Sbjct: 216 QTPSGG 221

Transcriptional regulator. Activates E box-dependent transcription in collaboration with TCF3/E47, but the activity is completely antagonized by the negative regulator of neurogenesis HES1. Plays a role in the differentiation of subsets of neural cells by activating E box-dependent transcription.

Homo sapiens (taxid: 9606)

>sp|Q9Y0A7|AMOS_DROME Basic helix-loop-helix transcription factor amos OS=Drosophila melanogaster GN=amos PE=1 SV=2

 Score = 89.0 bits (219), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 41/62 (66%), Positives = 53/62 (85%)

Query: 93  QVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDL 152
           +V+KKRRLAANARERRRM+ LN+AFD+LR+V+P +G + +LSK+ETLQMAQ YI  L  L
Sbjct: 134 EVLKKRRLAANARERRRMNSLNDAFDKLRDVVPSLGHDRRLSKYETLQMAQAYIGDLVTL 193

Query: 153 LT 154
           L+
Sbjct: 194 LS 195

Transcription factor involved in early neurogenesis; sensillum basiconica formation and maybe sensillum trichodea development. Promotes multiple dendritic (MD) neuron formation. Required for olfactory sensilla; regulated by lozenge (lz).

Drosophila melanogaster (taxid: 7227)

>sp|O57598|ATOH7_CHICK Protein atonal homolog 7 OS=Gallus gallus GN=ATOH7 PE=1 SV=2

 Score = 83.2 bits (204), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 41/60 (68%), Positives = 48/60 (80%)

Query: 97  KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA 156
           KRRLAANARERRRM GLN AFDRLR+V+P  G + KLSK+ETLQMA +YI +L  +L  A
Sbjct: 39  KRRLAANARERRRMQGLNTAFDRLRKVVPQWGQDKKLSKYETLQMALSYIMALTRILAEA 98

Transcription factor involved in the differentiation of retinal ganglion cells. During retinal neurogenesis, activates its own transcription, as well as the transcription of CHRNB3 and BRN3.

Gallus gallus (taxid: 9031)

>sp|O13126|ATO7B_XENLA Protein atonal homolog 7-B OS=Xenopus laevis GN=atoh7-b PE=1 SV=1

 Score = 82.0 bits (201), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 41/60 (68%), Positives = 48/60 (80%)

Query: 97  KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA 156
           KRRLAANARERRRM GLN AFD LR+V+P  G + KLSK+ETLQMA +YI +L  +LT A
Sbjct: 33  KRRLAANARERRRMQGLNTAFDSLRKVVPQWGEDKKLSKYETLQMALSYIMALSRILTEA 92

Transcription factor involved in the differentiation of retinal ganglion cells and olfactory receptor neurons. During retinal neurogenesis, activates the transcription of several genes such as brn3d, coe3, cbfa2t2, glis2, elrC and xgadd45-gamma.

Xenopus laevis (taxid: 8355)

>sp|Q8AW52|ATOH7_DANRE Protein atonal homolog 7 OS=Danio rerio GN=atoh7 PE=1 SV=1

 Score = 80.9 bits (198), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 38/61 (62%), Positives = 49/61 (80%)

Query: 97  KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA 156
           +RR+AANARER+RM GLN AFDRLR+V+P  G + KLSK+ETLQMA +YI +L  +L+ A
Sbjct: 28  RRRMAANARERKRMQGLNTAFDRLRKVVPQWGQDKKLSKYETLQMALSYIMALNRILSDA 87

Query: 157 N 157
            
Sbjct: 88  G 88

Transcription factor involved in the differentiation of retinal ganglion cells.

Danio rerio (taxid: 7955)

>sp|Q10574|LIN32_CAEEL Protein lin-32 OS=Caenorhabditis elegans GN=lin-32 PE=1 SV=2

 Score = 80.1 bits (196), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 40/65 (61%), Positives = 47/65 (72%)

Query: 89  VPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHS 148
            P PQ+++ RR AAN RERRRM+ LN A+D LREV+P I    KLSKFETLQMAQ YI  
Sbjct: 64  TPSPQLLRMRRSAANERERRRMNTLNVAYDELREVLPEIDSGKKLSKFETLQMAQKYIEC 123

Query: 149 LRDLL 153
           L  +L
Sbjct: 124 LSQIL 128

Essential for the specification of the neuroblast cell fate in the development of peripheral sense organs.

Caenorhabditis elegans (taxid: 6239)

>sp|O13125|ATO7A_XENLA Protein atonal homolog 7-A OS=Xenopus laevis GN=atoh7-a PE=1 SV=1

 Score = 79.0 bits (193), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/60 (65%), Positives = 48/60 (80%)

Query: 97  KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA 156
           KRRLAANARERRRM GLN AFD LR+V+P  G + +LSK+ETLQMA +YI +L  +L+ A
Sbjct: 33  KRRLAANARERRRMQGLNTAFDSLRKVVPQWGEDKQLSKYETLQMALSYIMALSRILSEA 92

Transcription factor involved in the differentiation of retinal ganglion cells and olfactory receptor neurons. During retinal neurogenesis, activates the transcription of several genes such as brn3d, coe3, cbfa2t2, glis2, elrC and xgadd45-gamma.

Xenopus laevis (taxid: 8355)

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	161
242010070	267	hypothetical protein Phum_PHUM221120 [Pe	0.440	0.265	0.788	5e-25
91078382	168	PREDICTED: cousin of atonal [Tribolium c	0.689	0.660	0.523	4e-22
307187218	261	Basic helix-loop-helix transcription fac	0.546	0.337	0.592	5e-22
322798895	259	hypothetical protein SINV_11255 [Solenop	0.577	0.359	0.574	6e-22
270003884	311	hypothetical protein TcasGA2_TC003171 [T	0.726	0.376	0.515	7e-22
332018835	261	Basic helix-loop-helix transcription fac	0.472	0.291	0.687	8e-22
345488317	925	PREDICTED: transcription initiation fact	0.403	0.070	0.772	9e-22
380025192	259	PREDICTED: uncharacterized protein LOC10	0.403	0.250	0.757	1e-21
383862383	259	PREDICTED: uncharacterized protein LOC10	0.403	0.250	0.757	2e-21
328790789	145	PREDICTED: neurogenic differentiation fa	0.403	0.448	0.757	2e-21

>gi|242010070|ref|XP_002425799.1| hypothetical protein Phum_PHUM221120 [Pediculus humanus corporis] gi|212509732|gb|EEB13061.1| hypothetical protein Phum_PHUM221120 [Pediculus humanus corporis]

 Score =  119 bits (297), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 56/71 (78%), Positives = 62/71 (87%)

Query: 89  VPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHS 148
            PPP V+KKRRLAANARERRRM+GLNEAFDRLREVIP +G +HKLSKFETLQMAQ+YIH+
Sbjct: 195 TPPPAVLKKRRLAANARERRRMNGLNEAFDRLREVIPSLGADHKLSKFETLQMAQSYIHA 254

Query: 149 LRDLLTSANSG 159
           L DLL    SG
Sbjct: 255 LCDLLEREKSG 265

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91078382|ref|XP_974243.1| PREDICTED: cousin of atonal [Tribolium castaneum]

 Score =  109 bits (273), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 68/130 (52%), Positives = 85/130 (65%), Gaps = 19/130 (14%)

Query: 27  QTNQDPREEFDTN-YDSNYDRQYCDSISN--EDMLTVPREFKPILISHASSNPRRRRRNS 83
           Q+  DP E +D N +DS     +  + S+  ED     +E K         N R R+R+ 
Sbjct: 49  QSGYDPPETYDINTFDS-----FVSTTSSLSEDNFKQHQEQK---------NTRGRKRSV 94

Query: 84  APSGSVPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQ 143
                +P P VMK+RRLAANARERRRM+GLNEAFDRLR+VIP +  +HKLSKFETLQMAQ
Sbjct: 95  --RERLPSPTVMKRRRLAANARERRRMNGLNEAFDRLRQVIPSLDADHKLSKFETLQMAQ 152

Query: 144 TYIHSLRDLL 153
           TYI +LR+LL
Sbjct: 153 TYIAALRELL 162

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307187218|gb|EFN72435.1| Basic helix-loop-helix transcription factor amos [Camponotus floridanus]

 Score =  108 bits (271), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 61/103 (59%), Positives = 75/103 (72%), Gaps = 15/103 (14%)

Query: 52  ISNEDMLTVPREFKPILISHASSNPRRRRRNSAPSGSVPP-PQVMKKRRLAANARERRRM 110
           IS + M T P    P+       +PR+ RR S     VPP P V+K+RRLAANARERRRM
Sbjct: 166 ISTQKMPTTP----PV-------SPRKGRRRSR---DVPPSPTVLKRRRLAANARERRRM 211

Query: 111 SGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           +GLN+AFD+LREV+P +G +HKLSKFETLQMAQ+YI +L DLL
Sbjct: 212 NGLNDAFDKLREVVPSLGTDHKLSKFETLQMAQSYIAALCDLL 254

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322798895|gb|EFZ20406.1| hypothetical protein SINV_11255 [Solenopsis invicta]

 Score =  108 bits (271), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 62/108 (57%), Positives = 77/108 (71%), Gaps = 15/108 (13%)

Query: 52  ISNEDMLTVPREFKPILISHASSNPRRRRRNSAPSGSVPP-PQVMKKRRLAANARERRRM 110
           IS + M T P    P+       +PR+ RR S     VPP P V+K+RRLAANARERRRM
Sbjct: 164 ISTQRMTTTP----PV-------SPRKGRRRSR---DVPPSPTVLKRRRLAANARERRRM 209

Query: 111 SGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANS 158
           +GLN+AFD+LREV+P +G +HKLSKFETLQMAQ+YI +L DLL   +S
Sbjct: 210 NGLNDAFDKLREVVPSLGTDHKLSKFETLQMAQSYIAALCDLLQRHDS 257

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270003884|gb|EFA00332.1| hypothetical protein TcasGA2_TC003171 [Tribolium castaneum]

 Score =  108 bits (270), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 68/132 (51%), Positives = 84/132 (63%), Gaps = 15/132 (11%)

Query: 23  FDFKQTNQDPREEFDTN-YDSNYDRQYCDSISNEDMLTVPREFKPILISHASSNPRRRRR 81
           +   Q+  DP E +D N +DS        S  +ED     +E K         N R R+R
Sbjct: 188 YHHPQSGYDPPETYDINTFDSFVS---TTSSLSEDNFKQHQEQK---------NTRGRKR 235

Query: 82  NSAPSGSVPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQM 141
           +      +P P VMK+RRLAANARERRRM+GLNEAFDRLR+VIP +  +HKLSKFETLQM
Sbjct: 236 SV--RERLPSPTVMKRRRLAANARERRRMNGLNEAFDRLRQVIPSLDADHKLSKFETLQM 293

Query: 142 AQTYIHSLRDLL 153
           AQTYI +LR+LL
Sbjct: 294 AQTYIAALRELL 305

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332018835|gb|EGI59393.1| Basic helix-loop-helix transcription factor amos [Acromyrmex echinatior]

 Score =  108 bits (270), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 55/80 (68%), Positives = 67/80 (83%), Gaps = 4/80 (5%)

Query: 75  NPRRRRRNSAPSGSVPP-PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKL 133
           +PR+ RR S     VPP P V+K+RRLAANARERRRM+GLN+AFD+LREV+P +G +HKL
Sbjct: 178 SPRKGRRRSR---DVPPSPTVLKRRRLAANARERRRMNGLNDAFDKLREVVPSLGTDHKL 234

Query: 134 SKFETLQMAQTYIHSLRDLL 153
           SKFETLQMAQ+YI +L DLL
Sbjct: 235 SKFETLQMAQSYIAALCDLL 254

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345488317|ref|XP_001605730.2| PREDICTED: transcription initiation factor TFIID subunit 5 [Nasonia vitripennis]

 Score =  108 bits (269), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 51/66 (77%), Positives = 60/66 (90%), Gaps = 1/66 (1%)

Query: 89  VPP-PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIH 147
           VPP P V+K+RRLAANARERRRM+GLN+AFD+LREV+P +G +HKLSKFETLQMAQTYI 
Sbjct: 853 VPPSPSVLKRRRLAANARERRRMNGLNDAFDKLREVVPSLGADHKLSKFETLQMAQTYIA 912

Query: 148 SLRDLL 153
           +L DLL
Sbjct: 913 ALCDLL 918

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380025192|ref|XP_003696361.1| PREDICTED: uncharacterized protein LOC100863736 [Apis florea]

 Score =  107 bits (268), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 50/66 (75%), Positives = 60/66 (90%), Gaps = 1/66 (1%)

Query: 89  VPP-PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIH 147
           +PP P V+K+RRLAANARERRRM+GLN+AFD+LREV+P +G +HKLSKFETLQMAQTYI 
Sbjct: 186 IPPSPSVLKRRRLAANARERRRMNGLNDAFDKLREVVPSLGADHKLSKFETLQMAQTYIA 245

Query: 148 SLRDLL 153
           +L DLL
Sbjct: 246 ALCDLL 251

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862383|ref|XP_003706663.1| PREDICTED: uncharacterized protein LOC100883932 [Megachile rotundata]

 Score =  107 bits (266), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 50/66 (75%), Positives = 60/66 (90%), Gaps = 1/66 (1%)

Query: 89  VPP-PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIH 147
           +PP P V+K+RRLAANARERRRM+GLN+AFD+LREV+P +G +HKLSKFETLQMAQTYI 
Sbjct: 186 IPPSPSVLKRRRLAANARERRRMNGLNDAFDKLREVVPSLGADHKLSKFETLQMAQTYIA 245

Query: 148 SLRDLL 153
           +L DLL
Sbjct: 246 ALCDLL 251

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328790789|ref|XP_003251461.1| PREDICTED: neurogenic differentiation factor 6-like [Apis mellifera]

 Score =  106 bits (265), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 50/66 (75%), Positives = 60/66 (90%), Gaps = 1/66 (1%)

Query: 89  VPP-PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIH 147
           +PP P V+K+RRLAANARERRRM+GLN+AFD+LREV+P +G +HKLSKFETLQMAQTYI 
Sbjct: 72  IPPSPSVLKRRRLAANARERRRMNGLNDAFDKLREVVPSLGADHKLSKFETLQMAQTYIA 131

Query: 148 SLRDLL 153
           +L DLL
Sbjct: 132 ALCDLL 137

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

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	161
FB|FBgn0024249	189	cato "cousin of atonal" [Droso	0.409	0.349	0.515	6.4e-12
FB|FBgn0010433	312	ato "atonal" [Drosophila melan	0.385	0.198	0.516	5.1e-11
FB|FBgn0003270	198	amos "absent MD neurons and ol	0.385	0.313	0.467	3.2e-10
UNIPROTKB|A4IFC1	352	ATOH1 "ATOH1 protein" [Bos tau	0.409	0.187	0.484	6.9e-10
MGI|MGI:104654	351	Atoh1 "atonal homolog 1 (Droso	0.409	0.188	0.484	8.8e-10
UNIPROTKB|Q91616	352	neurod1 "Neurogenic differenti	0.304	0.139	0.510	1.7e-09
UNIPROTKB|F1RWW1	353	ATOH1 "Uncharacterized protein	0.409	0.186	0.469	1.9e-09
UNIPROTKB|Q92858	354	ATOH1 "Protein atonal homolog	0.409	0.186	0.469	1.9e-09
UNIPROTKB|E2RG90	356	ATOH1 "Uncharacterized protein	0.409	0.185	0.469	1.9e-09
UNIPROTKB|Q5IS79	356	ATOH1 "Protein atonal homolog	0.409	0.185	0.469	1.9e-09

FB|FBgn0024249 cato "cousin of atonal" [Drosophila melanogaster (taxid:7227)]

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 34/66 (51%), Positives = 43/66 (65%)

Query:    92 PQVMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
             P V K+            M+GLN AF+RLREV+P   I+ KLSKFETLQMAQ+YI +L D
Sbjct:    98 PTVQKRRRQAANARERKRMNGLNAAFERLREVVPAPSIDQKLSKFETLQMAQSYILALCD 157

Query:   152 LLTSAN 157
             LL + +
Sbjct:   158 LLNNGD 163

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

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

GO:0005634 "nucleus" evidence=ISS

GO:0007423 "sensory organ development" evidence=IMP;TAS

GO:0046983 "protein dimerization activity" evidence=IEA

FB|FBgn0010433 ato "atonal" [Drosophila melanogaster (taxid:7227)]

 Score = 157 (60.3 bits), Expect = 5.1e-11, P = 5.1e-11
 Identities = 32/62 (51%), Positives = 40/62 (64%)

Query:    92 PQVMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
             P V +K            M  LN+AFDRLR+ +PC+G + +LSK ETLQMAQTYI +L D
Sbjct:   250 PVVKRKRRLAANARERRRMQNLNQAFDRLRQYLPCLGNDRQLSKHETLQMAQTYISALGD 309

Query:   152 LL 153
             LL
Sbjct:   310 LL 311

GO:0007460 "R8 cell fate commitment" evidence=NAS;IMP

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

GO:0005634 "nucleus" evidence=IDA;NAS

GO:0007399 "nervous system development" evidence=NAS;TAS

GO:0045165 "cell fate commitment" evidence=IMP

GO:0001748 "optic lobe placode development" evidence=IMP

GO:0007423 "sensory organ development" evidence=IMP;NAS;TAS

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

GO:0003677 "DNA binding" evidence=NAS

GO:0016360 "sensory organ precursor cell fate determination" evidence=IMP;IDA;TAS

GO:0001746 "Bolwig's organ morphogenesis" evidence=IEP

GO:0001745 "compound eye morphogenesis" evidence=TAS

GO:0007420 "brain development" evidence=IMP

GO:0007224 "smoothened signaling pathway" evidence=IGI

GO:0007173 "epidermal growth factor receptor signaling pathway" evidence=IGI

GO:0007605 "sensory perception of sound" evidence=IMP

GO:0045433 "male courtship behavior, veined wing generated song production" evidence=IMP

GO:0045464 "R8 cell fate specification" evidence=NAS;TAS

GO:0016330 "second mitotic wave involved in compound eye morphogenesis" evidence=TAS

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

GO:0000187 "activation of MAPK activity" evidence=TAS

GO:0048800 "antennal morphogenesis" evidence=IMP

GO:0007438 "oenocyte development" evidence=IMP

GO:0048801 "antennal joint morphogenesis" evidence=IMP

GO:0045465 "R8 cell differentiation" evidence=TAS

GO:0008038 "neuron recognition" evidence=IMP

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

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

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0048813 "dendrite morphogenesis" evidence=IMP

GO:0048666 "neuron development" evidence=IMP

GO:0007455 "eye-antennal disc morphogenesis" evidence=IMP

FB|FBgn0003270 amos "absent MD neurons and olfactory sensilla" [Drosophila melanogaster (taxid:7227)]

 Score = 145 (56.1 bits), Expect = 3.2e-10, P = 3.2e-10
 Identities = 29/62 (46%), Positives = 41/62 (66%)

Query:    93 QVMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDL 152
             +V+KK            M+ LN+AFD+LR+V+P +G + +LSK+ETLQMAQ YI  L  L
Sbjct:   134 EVLKKRRLAANARERRRMNSLNDAFDKLRDVVPSLGHDRRLSKYETLQMAQAYIGDLVTL 193

Query:   153 LT 154
             L+
Sbjct:   194 LS 195

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

GO:0005634 "nucleus" evidence=ISS

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

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0016360 "sensory organ precursor cell fate determination" evidence=IMP;IDA;TAS

GO:0001012 "RNA polymerase II regulatory region DNA binding" evidence=IPI

GO:0007399 "nervous system development" evidence=NAS

GO:0007423 "sensory organ development" evidence=IMP;TAS

GO:0008052 "sensory organ boundary specification" evidence=IMP

UNIPROTKB|A4IFC1 ATOH1 "ATOH1 protein" [Bos taurus (taxid:9913)]

 Score = 148 (57.2 bits), Expect = 6.9e-10, P = 6.9e-10
 Identities = 32/66 (48%), Positives = 41/66 (62%)

Query:    94 VMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
             V K+            M GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct:   154 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 213

Query:   154 TSANSG 159
              + +SG
Sbjct:   214 QTPSSG 219

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

GO:0045609 "positive regulation of auditory receptor cell differentiation" evidence=IEA

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

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

GO:0042667 "auditory receptor cell fate specification" evidence=IEA

GO:0042472 "inner ear morphogenesis" evidence=IEA

GO:0031490 "chromatin DNA binding" evidence=IEA

GO:0021987 "cerebral cortex development" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

MGI|MGI:104654 Atoh1 "atonal homolog 1 (Drosophila)" [Mus musculus (taxid:10090)]

 Score = 147 (56.8 bits), Expect = 8.8e-10, P = 8.8e-10
 Identities = 32/66 (48%), Positives = 40/66 (60%)

Query:    94 VMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
             V K+            M GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct:   153 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 212

Query:   154 TSANSG 159
              + N G
Sbjct:   213 QTPNVG 218

GO:0001764 "neuron migration" evidence=IMP

GO:0003677 "DNA binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

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

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

GO:0006915 "apoptotic process" evidence=IMP

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0007411 "axon guidance" evidence=IMP

GO:0007420 "brain development" evidence=IMP

GO:0021987 "cerebral cortex development" evidence=IMP

GO:0030154 "cell differentiation" evidence=IMP

GO:0030182 "neuron differentiation" evidence=IMP

GO:0031490 "chromatin DNA binding" evidence=IDA

GO:0042472 "inner ear morphogenesis" evidence=IMP

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

GO:0042667 "auditory receptor cell fate specification" evidence=IMP

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

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

GO:0045609 "positive regulation of auditory receptor cell differentiation" evidence=IDA

GO:0045664 "regulation of neuron differentiation" evidence=IDA

GO:0045666 "positive regulation of neuron differentiation" evidence=IDA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0048839 "inner ear development" evidence=IMP

GO:2000982 "positive regulation of inner ear receptor cell differentiation" evidence=IMP

UNIPROTKB|Q91616 neurod1 "Neurogenic differentiation factor 1" [Xenopus laevis (taxid:8355)]

 Score = 127 (49.8 bits), Expect = 1.7e-09, Sum P(2) = 1.7e-09
 Identities = 25/49 (51%), Positives = 34/49 (69%)

Query:   110 MSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANS 158
             M GLN+A D LR+V+PC     KLSK ETL++A+ YI +L ++L S  S
Sbjct:   115 MHGLNDALDSLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRSGKS 163

GO:0046982 "protein heterodimerization activity" evidence=IPI

UNIPROTKB|F1RWW1 ATOH1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 144 (55.7 bits), Expect = 1.9e-09, P = 1.9e-09
 Identities = 31/66 (46%), Positives = 40/66 (60%)

Query:    94 VMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
             V K+            M GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct:   155 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 214

Query:   154 TSANSG 159
              + + G
Sbjct:   215 QTPSGG 220

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

GO:0045609 "positive regulation of auditory receptor cell differentiation" evidence=IEA

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

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

GO:0042667 "auditory receptor cell fate specification" evidence=IEA

GO:0042472 "inner ear morphogenesis" evidence=IEA

GO:0031490 "chromatin DNA binding" evidence=IEA

GO:0021987 "cerebral cortex development" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

UNIPROTKB|Q92858 ATOH1 "Protein atonal homolog 1" [Homo sapiens (taxid:9606)]

 Score = 144 (55.7 bits), Expect = 1.9e-09, P = 1.9e-09
 Identities = 31/66 (46%), Positives = 40/66 (60%)

Query:    94 VMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
             V K+            M GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct:   156 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 215

Query:   154 TSANSG 159
              + + G
Sbjct:   216 QTPSGG 221

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0021987 "cerebral cortex development" evidence=IEA

GO:0031490 "chromatin DNA binding" evidence=IEA

GO:0042472 "inner ear morphogenesis" evidence=IEA

GO:0042667 "auditory receptor cell fate specification" evidence=IEA

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

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

GO:0045609 "positive regulation of auditory receptor cell differentiation" evidence=IEA

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

GO:0045666 "positive regulation of neuron differentiation" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

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

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

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

UNIPROTKB|E2RG90 ATOH1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 144 (55.7 bits), Expect = 1.9e-09, P = 1.9e-09
 Identities = 31/66 (46%), Positives = 40/66 (60%)

Query:    94 VMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
             V K+            M GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct:   158 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 217

Query:   154 TSANSG 159
              + + G
Sbjct:   218 QTPSGG 223

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

GO:0045609 "positive regulation of auditory receptor cell differentiation" evidence=IEA

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

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

GO:0042667 "auditory receptor cell fate specification" evidence=IEA

GO:0042472 "inner ear morphogenesis" evidence=IEA

GO:0031490 "chromatin DNA binding" evidence=IEA

GO:0021987 "cerebral cortex development" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

UNIPROTKB|Q5IS79 ATOH1 "Protein atonal homolog 1" [Pan troglodytes (taxid:9598)]

 Score = 144 (55.7 bits), Expect = 1.9e-09, P = 1.9e-09
 Identities = 31/66 (46%), Positives = 40/66 (60%)

Query:    94 VMKKXXXXXXXXXXXXMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
             V K+            M GLN AFD+LR VIP    + KLSK+ETLQMAQ YI++L +LL
Sbjct:   158 VQKQRRLAANARERRRMHGLNHAFDQLRNVIPSFNNDKKLSKYETLQMAQIYINALSELL 217

Query:   154 TSANSG 159
              + + G
Sbjct:   218 QTPSGG 223

GO:0005634 "nucleus" evidence=ISS

GO:0045666 "positive regulation of neuron differentiation" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q10574	LIN32_CAEEL	No assigned EC number	0.6153	0.4037	0.4577	yes	N/A
Q5IS79	ATOH1_PANTR	No assigned EC number	0.6515	0.4099	0.1853	yes	N/A
P48985	ATOH1_MOUSE	No assigned EC number	0.6666	0.4099	0.1880	yes	N/A
Q92858	ATOH1_HUMAN	No assigned EC number	0.6515	0.4099	0.1864	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	161
cd00083	60	cd00083, HLH, Helix-loop-helix domain, found in sp	2e-16
pfam00010	52	pfam00010, HLH, Helix-loop-helix DNA-binding domai	4e-14
smart00353	53	smart00353, HLH, helix loop helix domain	5e-14

>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 = 68.4 bits (168), Expect = 2e-16
 Identities = 30/58 (51%), Positives = 38/58 (65%)

Query: 96  KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           K RR A N RERRR   +N+AFD LR ++P +    KLSK E L+ A  YI SL++LL
Sbjct: 2   KSRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59

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

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

 Score = 62.5 bits (153), Expect = 4e-14
 Identities = 26/53 (49%), Positives = 35/53 (66%), Gaps = 1/53 (1%)

Query: 98  RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLR 150
           RR A N RERRR   +N+AF+ LRE++P    + KLSK E L++A  YI  L+
Sbjct: 1   RRKAHNERERRRRDRINDAFEELRELLPTPPNK-KLSKAEILRLAIEYIKHLQ 52

Length = 52

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

 Score = 62.2 bits (152), Expect = 5e-14
 Identities = 27/51 (52%), Positives = 35/51 (68%)

Query: 103 NARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           NARERRR   +NEAFD LR ++P +    KLSK E L++A  YI SL++ L
Sbjct: 1   NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEEL 51

Length = 53

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	161
KOG4029|consensus	228		99.74
KOG3898|consensus	254		99.72
KOG3960|consensus	284		99.64
PF00010	55	HLH: Helix-loop-helix DNA-binding domain only nucl	99.55
KOG4395|consensus	285		99.54
cd00083	60	HLH Helix-loop-helix domain, found in specific DNA	99.47
smart00353	53	HLH helix loop helix domain.	99.39
KOG4447|consensus	173		99.37
KOG0561|consensus	373		99.16
KOG3910|consensus	632		99.03
KOG1319|consensus	229		98.46
KOG1318|consensus	411		98.37
KOG2483|consensus	232		97.82
KOG3561|consensus	803		97.06
KOG4304|consensus	250		96.92
KOG4447|consensus	173		96.87
KOG2588|consensus	953		96.47
KOG3558|consensus	768		92.87
PLN03217	93	transcription factor ATBS1; Provisional	92.83
KOG3560|consensus	712		90.48

>KOG4029|consensus

Probab=99.74  E-value=2.3e-18  Score=142.29  Aligned_cols=64  Identities=42%  Similarity=0.614  Sum_probs=60.0

Q ss_pred             HHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCC-CCCCCHHHHHHHHHHHHHHHHHHHhhcc
Q psy15840         94 VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGI-EHKLSKFETLQMAQTYIHSLRDLLTSAN  157 (161)
Q Consensus        94 ~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~-~~kLSKietLr~Ai~YI~~L~~~L~~~~  157 (161)
                      ....+|.++|+|||.||+.||.||..||.+||..+. ++|||||+|||+||.||.+|+++|+.++
T Consensus       105 ~~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~  169 (228)
T KOG4029|consen  105 QTSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQE  169 (228)
T ss_pred             chhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccc
Confidence            345788899999999999999999999999999888 9999999999999999999999999876

>KOG3898|consensus

Probab=99.72  E-value=3e-18  Score=144.89  Aligned_cols=64  Identities=53%  Similarity=0.678  Sum_probs=60.1

Q ss_pred             HHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcc
Q psy15840         94 VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSAN  157 (161)
Q Consensus        94 ~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~~  157 (161)
                      .++.||+++|+|||+|||+||+||+.||.+||++..+.||||||||++|-+||..|++++..+.
T Consensus        68 ~~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~~ls~~  131 (254)
T KOG3898|consen   68 ALTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEVLLSGI  131 (254)
T ss_pred             hhhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccccccCC
Confidence            5678999999999999999999999999999998999999999999999999999999887653

>KOG3960|consensus

Probab=99.64  E-value=3.3e-16  Score=132.77  Aligned_cols=62  Identities=39%  Similarity=0.552  Sum_probs=54.5

Q ss_pred             HHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcc
Q psy15840         95 MKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSAN  157 (161)
Q Consensus        95 ~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~~  157 (161)
                      ...||.+|..|||+|+++||+||+.|+++- ...++++|.||||||.||.||..|+.||++.+
T Consensus       115 svDRRKAATMRERRRLkKVNEAFE~LKRrT-~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~  176 (284)
T KOG3960|consen  115 SVDRRKAATMRERRRLKKVNEAFETLKRRT-SSNPNQRLPKVEILRSAIRYIERLQALLQEQD  176 (284)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHhhc-CCCccccccHHHHHHHHHHHHHHHHHHHHHhh
Confidence            357999999999999999999999996553 23457999999999999999999999998764

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

Probab=99.55  E-value=1.4e-14  Score=95.12  Aligned_cols=53  Identities=49%  Similarity=0.726  Sum_probs=49.2

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCCC--CCCCCCCHHHHHHHHHHHHHHHH
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPCI--GIEHKLSKFETLQMAQTYIHSLR  150 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~~--~~~~kLSKietLr~Ai~YI~~L~  150 (161)
                      ||..+|.+||.|+..||.+|+.|+..||..  ....|++|++||..||+||.+|+
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            578899999999999999999999999984  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 ....

>KOG4395|consensus

Probab=99.54  E-value=1.2e-14  Score=123.39  Aligned_cols=67  Identities=64%  Similarity=0.815  Sum_probs=62.4

Q ss_pred             hHHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhccCC
Q psy15840         93 QVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSANSG  159 (161)
Q Consensus        93 ~~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~~~~  159 (161)
                      .+.+.||+++|+|||+||..||.|||.||.++|....++||||.|||++|..||..|..+|+....|
T Consensus       169 ~v~~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~~~~~~  235 (285)
T KOG4395|consen  169 SVNSHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLDLPMSG  235 (285)
T ss_pred             hHHHhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhcCcccc
Confidence            4677899999999999999999999999999999999999999999999999999999999776543

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

Probab=99.47  E-value=2.3e-13  Score=89.44  Aligned_cols=57  Identities=51%  Similarity=0.723  Sum_probs=53.0

Q ss_pred             HHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q psy15840         97 KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL  153 (161)
Q Consensus        97 ~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L  153 (161)
                      .+|..+|.+||.|+..||.+|+.|+..||....+.|++|+.||..|++||..|+..+
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            467789999999999999999999999998777899999999999999999999865

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=99.39  E-value=1.5e-12  Score=84.25  Aligned_cols=52  Identities=52%  Similarity=0.749  Sum_probs=48.1

Q ss_pred             hHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840        103 NARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus       103 N~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      |.+||.|+..||.+|+.|+..||....+.+++|+.||..|++||..|+..++
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            6789999999999999999999976667999999999999999999998765

>KOG4447|consensus

Probab=99.37  E-value=5.2e-13  Score=106.41  Aligned_cols=61  Identities=48%  Similarity=0.724  Sum_probs=57.4

Q ss_pred             HHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy15840         95 MKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA  156 (161)
Q Consensus        95 ~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~  156 (161)
                      .+.+|.-||.|||+|.+.||+||..||..+|+.|. -|||||.||++|..||.+|.++|..+
T Consensus        75 ~q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPs-dklSkiqtLklA~ryidfl~~vl~s~  135 (173)
T KOG4447|consen   75 LQKQRVMANVRERQRTQSLNEAFAALRKIIPTLPS-DKLSKIQTLKLAARYIDFLYQVLQSD  135 (173)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCc-cccccccchhhcccCCchhhhccccc
Confidence            46799999999999999999999999999999876 59999999999999999999999876

>KOG0561|consensus

Probab=99.16  E-value=5.6e-11  Score=103.55  Aligned_cols=57  Identities=42%  Similarity=0.593  Sum_probs=52.3

Q ss_pred             HHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy15840         94 VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD  151 (161)
Q Consensus        94 ~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~  151 (161)
                      .++-||..||..||+||+.||.+|..||.+||. ..+.||||..||+...+||..|..
T Consensus        56 erRmRReIANsNERRRMQSINAGFqsLr~LlPr-~eGEKLSKAAILQQTa~yI~~Le~  112 (373)
T KOG0561|consen   56 ERRMRREIANSNERRRMQSINAGFQSLRALLPR-KEGEKLSKAAILQQTADYIHQLEG  112 (373)
T ss_pred             HHHHHHHhhcchHHHHHHhhhHHHHHHHHhcCc-ccchhhHHHHHHHHHHHHHHHHHh
Confidence            456799999999999999999999999999997 456899999999999999999864

>KOG3910|consensus

Probab=99.03  E-value=5.5e-10  Score=102.47  Aligned_cols=64  Identities=38%  Similarity=0.445  Sum_probs=58.0

Q ss_pred             HHHHHhhHhhHHHHHhHHHHHHHHHHH-hhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcc
Q psy15840         94 VMKKRRLAANARERRRMSGLNEAFDRL-REVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSAN  157 (161)
Q Consensus        94 ~~~~rR~~aN~RER~R~~~lN~AF~~L-R~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~~  157 (161)
                      ..+.||.+.|+|||.|+++||+||.+| |-|--++..+|.-+|+-||.+|+..|..|++.+.+.+
T Consensus       522 REkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN  586 (632)
T KOG3910|consen  522 REKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN  586 (632)
T ss_pred             HHHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence            357899999999999999999999999 6666677789999999999999999999999998754

>KOG1319|consensus

Probab=98.46  E-value=4.9e-07  Score=74.77  Aligned_cols=60  Identities=30%  Similarity=0.424  Sum_probs=51.8

Q ss_pred             HHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCC----CCCCCCHHHHHHHHHHHHHHHHHHH
Q psy15840         94 VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIG----IEHKLSKFETLQMAQTYIHSLRDLL  153 (161)
Q Consensus        94 ~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~----~~~kLSKietLr~Ai~YI~~L~~~L  153 (161)
                      ..-+||.++..-||+|+..||.+|+.|+.+||...    .+.||||.-||..||+||.+|..-.
T Consensus        58 yk~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k  121 (229)
T KOG1319|consen   58 YKDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEK  121 (229)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34567888999999999999999999999999543    3459999999999999999997643

>KOG1318|consensus

Probab=98.37  E-value=4.5e-06  Score=75.45  Aligned_cols=65  Identities=28%  Similarity=0.366  Sum_probs=56.7

Q ss_pred             chHHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy15840         92 PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCI-GIEHKLSKFETLQMAQTYIHSLRDLLTSA  156 (161)
Q Consensus        92 p~~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~-~~~~kLSKietLr~Ai~YI~~L~~~L~~~  156 (161)
                      -.+.++||..||+=||+|+.+||+.+..|...||.. ..+-++.|--||..+++||..|++.++..
T Consensus       227 ~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~  292 (411)
T KOG1318|consen  227 LERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRA  292 (411)
T ss_pred             hHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHH
Confidence            345677888899999999999999999999999954 35668889999999999999999988743

>KOG2483|consensus

Probab=97.82  E-value=4.8e-05  Score=64.33  Aligned_cols=59  Identities=27%  Similarity=0.396  Sum_probs=51.4

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      ...|..+|+-||+|...|-+.|+.||..||.....++-+-+.+|+.|..||..|+....
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            34788999999999999999999999999987665555589999999999999987654

>KOG3561|consensus

Probab=97.06  E-value=0.00096  Score=64.92  Aligned_cols=57  Identities=25%  Similarity=0.437  Sum_probs=50.8

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCC-CCCCCCCHHHHHHHHHHHHHHHHHH
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCI-GIEHKLSKFETLQMAQTYIHSLRDL  152 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~-~~~~kLSKietLr~Ai~YI~~L~~~  152 (161)
                      +..|.++|.-||+|+.++|.-+++|-..||.. .-.+|+-|..|||+||..|..+..+
T Consensus        18 r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~   75 (803)
T KOG3561|consen   18 RKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ   75 (803)
T ss_pred             hhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence            44588899999999999999999999999953 3468999999999999999988875

>KOG4304|consensus

Probab=96.92  E-value=0.001  Score=56.70  Aligned_cols=56  Identities=23%  Similarity=0.397  Sum_probs=46.4

Q ss_pred             HHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCC-CC----CCCCHHHHHHHHHHHHHHHHHH
Q psy15840         97 KRRLAANARERRRMSGLNEAFDRLREVIPCIG-IE----HKLSKFETLQMAQTYIHSLRDL  152 (161)
Q Consensus        97 ~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~-~~----~kLSKietLr~Ai~YI~~L~~~  152 (161)
                      .|+...=.=||+|+..||..++.||.+||..- .+    .||-|.+||.++++|...|+..
T Consensus        31 ~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~   91 (250)
T KOG4304|consen   31 YRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRS   91 (250)
T ss_pred             HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcc
Confidence            34555567899999999999999999999432 22    6999999999999999999864

>KOG4447|consensus

Probab=96.87  E-value=0.00072  Score=54.50  Aligned_cols=54  Identities=26%  Similarity=0.254  Sum_probs=45.8

Q ss_pred             hhHhhHH-HHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q psy15840         99 RLAANAR-ERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL  153 (161)
Q Consensus        99 R~~aN~R-ER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L  153 (161)
                      +.-+|.| ||.|.+.+|++|.-|+..+|..+. .+.+|+.||+.+..||..|.++=
T Consensus        22 ~~~~r~~~e~~R~~~ls~~s~l~g~l~pgspa-~gk~~~ktlr~~~~~~~~~dE~q   76 (173)
T KOG4447|consen   22 EECDRQRKERGRKRRLSDASTLLGKLEPGSPA-DGKRGKKTLRIGTDSIQSLDELQ   76 (173)
T ss_pred             hhhhhhHHHHhHHhhhhhhhhhccccCCCCCC-cccccccccccCCCchhhHHHHH
Confidence            3334455 999999999999999999998665 58899999999999999998854

>KOG2588|consensus

Probab=96.47  E-value=0.0061  Score=60.16  Aligned_cols=57  Identities=32%  Similarity=0.450  Sum_probs=51.5

Q ss_pred             HHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         97 KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        97 ~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      .+|.+||.=|++=+-.||+-...||+.||..  .-|+.|-++||.||+||.+|+...+.
T Consensus       275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~--~aKl~kSavLr~ai~~i~dl~~~nq~  331 (953)
T KOG2588|consen  275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGT--EAKLNKSAVLRKAIDYIEDLQGYNQK  331 (953)
T ss_pred             cccchhhHHHHHhhcchhHHHHHHHHhcCcc--HhhhhhhhhHHHHHHHHHHhhccccc
Confidence            6899999999999999999999999999964  45999999999999999999876544

>KOG3558|consensus

Probab=92.87  E-value=0.15  Score=49.33  Aligned_cols=62  Identities=26%  Similarity=0.440  Sum_probs=47.2

Q ss_pred             chHHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840         92 PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIG-IEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus        92 p~~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~-~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      |..+..|+.+-...=|.|+.+=|.-|.+|..+||.+. ....|-|+.|+|+||.|.+ |.+++.
T Consensus        40 ~~~~~~rkEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLR-lrk~a~  102 (768)
T KOG3558|consen   40 PRLQELRKEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLR-LRKFAG  102 (768)
T ss_pred             hhHHHHHhhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHH-HHHHhh
Confidence            4455556666556667888999999999999999433 3569999999999999975 344444

>PLN03217 transcription factor ATBS1; Provisional

Probab=92.83  E-value=0.22  Score=36.69  Aligned_cols=46  Identities=22%  Similarity=0.332  Sum_probs=37.7

Q ss_pred             hHHHHHHHHHHHhhcCCCCC---CCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840        109 RMSGLNEAFDRLREVIPCIG---IEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus       109 R~~~lN~AF~~LR~~lP~~~---~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      --.+||+-...|+..||...   ...|.|-..+|+.+++||..|..-++
T Consensus        18 sddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvD   66 (93)
T PLN03217         18 SEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVD   66 (93)
T ss_pred             CHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHH
Confidence            34679999999999999643   34588889999999999999876554

>KOG3560|consensus

Probab=90.48  E-value=0.23  Score=47.28  Aligned_cols=44  Identities=25%  Similarity=0.425  Sum_probs=34.7

Q ss_pred             HHHHHHHHHhhcCCCCCC-CCCCCHHHHHHHHHHHHH---HHHHHHhh
Q psy15840        112 GLNEAFDRLREVIPCIGI-EHKLSKFETLQMAQTYIH---SLRDLLTS  155 (161)
Q Consensus       112 ~lN~AF~~LR~~lP~~~~-~~kLSKietLr~Ai~YI~---~L~~~L~~  155 (161)
                      .||.-+|.|..+||+.+. -.||.|+.+||+++.|+.   +.+-.|.+
T Consensus        39 RLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~KSfFqvvl~~   86 (712)
T KOG3560|consen   39 RLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRVKSFFQVVLHQ   86 (712)
T ss_pred             HhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHhc
Confidence            379999999999997542 349999999999999975   44555544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	161
2ql2_B	60	Crystal Structure Of The Basic-Helix-Loop-Helix Dom		3e-08

>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 = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 24/47 (51%), Positives = 32/47 (68%)
Query: 110 MSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA 156
           M GLN A D LR+V+PC     KLSK ETL++A+ YI +L ++L S 
Sbjct: 14  MHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRSG 60

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	161
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	8e-25
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	2e-20
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	1e-16
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	2e-09
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	5e-08
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	2e-07
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	3e-07
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	7e-07
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	4e-06

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

 Score = 89.6 bits (223), Expect = 8e-25
 Identities = 33/59 (55%), Positives = 42/59 (71%)

Query: 98  RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA 156
           RR+ ANARER RM GLN A D LR+V+PC     KLSK ETL++A+ YI +L ++L S 
Sbjct: 2   RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRSG 60

>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 = 78.6 bits (194), Expect = 2e-20
 Identities = 25/62 (40%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 92  PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
                 RR AA  RERRR+S +NEAF+ L+          +L K E L+ A  YI  L+ 
Sbjct: 6   KTTNADRRKAATMRERRRLSKVNEAFETLKRSTSSNP-NQRLPKVEILRNAIRYIEGLQA 64

Query: 152 LL 153
           LL
Sbjct: 65  LL 66

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

 Score = 69.1 bits (169), Expect = 1e-16
 Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 97  KRRLAANARERRRMSGLNEAFDRL-REVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS 155
            +R   NA ER+R   +NEAF  L R     +  +   +K   LQ A   I  L   +  
Sbjct: 4   DKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRE 63

Query: 156 AN 157
            N
Sbjct: 64  RN 65

>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 = 50.4 bits (121), Expect = 2e-09
 Identities = 18/54 (33%), Positives = 27/54 (50%)

Query: 98  RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
           +R   N  ER+R + L  +F  LR+ IP +    K  K   L+ A  YI S++ 
Sbjct: 6   KRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQA 59

>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 = 46.9 bits (112), Expect = 5e-08
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 97  KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLR 150
            +R   NA ER+R   + ++F  LR+ +P +  E K S+ + L  A  YI  +R
Sbjct: 11  DKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGE-KASRAQILDKATEYIQYMR 63

>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 = 45.0 bits (107), Expect = 2e-07
 Identities = 21/59 (35%), Positives = 27/59 (45%), Gaps = 3/59 (5%)

Query: 96  KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEH---KLSKFETLQMAQTYIHSLRD 151
           +KRR   N  ERRR   +N    +L ++IP   +E      SK   L  A  YI  LR 
Sbjct: 3   EKRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ 61

>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 = 45.1 bits (107), Expect = 3e-07
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 2/58 (3%)

Query: 93  QVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLR 150
           Q   ++R A NA E+R  S +N+    L++++   G E KL+K   L+ A  YI  L+
Sbjct: 1   QSRGEKRTAHNAIEKRYRSSINDKIIELKDLVV--GTEAKLNKSAVLRKAIDYIRFLQ 56

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

 Score = 43.9 bits (104), Expect = 7e-07
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 98  RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
           +R   NA ER+R   + ++F  LR+ +P +  E K S+ + L  A  YI  +R 
Sbjct: 2   KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGE-KASRAQILDKATEYIQYMRR 54

>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 = 41.7 bits (98), Expect = 4e-06
 Identities = 12/53 (22%), Positives = 24/53 (45%)

Query: 99  RLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
           R   N  E+ R + L  + ++L+ ++P      + +    L  A+ +I  L D
Sbjct: 2   RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLED 54

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	161
2ql2_B	60	Neurod1, neurogenic differentiation factor 1; basi	99.91
1mdy_A	68	Protein (MYOD BHLH domain); protein-DNA complex, t	99.89
2lfh_A	68	DNA-binding protein inhibitor ID-3; structural gen	99.84
4aya_A	97	DNA-binding protein inhibitor ID-2; cell cycle; 2.	99.83
3u5v_A	76	Protein MAX, transcription factor E2-alpha chimer;	99.72
1hlo_A	80	Protein (transcription factor MAX); transcriptiona	99.63
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	99.6
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	99.59
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	99.54
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	99.41
1an4_A	65	Protein (upstream stimulatory factor); protein-DNA	99.37
4h10_B	71	Circadian locomoter output cycles protein kaput; B	99.29
1a0a_A	63	BHLH, protein (phosphate system positive regulator	99.27
4h10_A	73	ARYL hydrocarbon receptor nuclear translocator-LI	99.22
4ati_A	118	MITF, microphthalmia-associated transcription fact	99.2
4f3l_A	361	Mclock, circadian locomoter output cycles protein	98.67
4f3l_B	387	BMAL1B; BHLH, PAS, circadian rhythm proteins, tran	98.4
4ath_A	83	MITF, microphthalmia-associated transcription fact	97.74
3muj_A	138	Transcription factor COE3; immunoglobulin like fol	92.33

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

Probab=99.91  E-value=5.8e-25  Score=148.75  Aligned_cols=59  Identities=56%  Similarity=0.908  Sum_probs=56.2

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA  156 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~  156 (161)
                      ||.+||+|||+||++||+||+.||.+||+.+.++|||||+||+.||+||.+|+++|+++
T Consensus         2 rR~~~N~rER~R~~~iN~af~~LR~~lP~~~~~~klSKi~tLr~Ai~YI~~L~~~L~~g   60 (60)
T 2ql2_B            2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRSG   60 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCSSSCCCHHHHHHHHHHHHHHHHHHTTC-
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHccCCCCcCcCCHHHHHHHHHHHHHHHHHHHhcC
Confidence            78899999999999999999999999999999999999999999999999999999753

>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=99.89  E-value=1.7e-23  Score=144.82  Aligned_cols=61  Identities=41%  Similarity=0.569  Sum_probs=56.4

Q ss_pred             HHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         94 VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        94 ~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      ....+|.+||+|||+||+.||+||+.||.+||..+ ++|||||+||+.||+||.+|+++|++
T Consensus         8 ~~~~rR~~aN~rER~R~~~iN~af~~LR~~iP~~~-~~KlSKi~tLr~Ai~YI~~L~~~L~~   68 (68)
T 1mdy_A            8 TNADRRKAATMRERRRLSKVNEAFETLKRSTSSNP-NQRLPKVEILRNAIRYIEGLQALLRD   68 (68)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSCT-TSCCCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             CchhhhhHhhHHHHHHHHHHHHHHHHHHHhcCCCC-CCCCCHHHHHHHHHHHHHHHHHHHcC
Confidence            35678999999999999999999999999999755 79999999999999999999999864

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

Probab=99.84  E-value=3.6e-22  Score=138.36  Aligned_cols=50  Identities=30%  Similarity=0.454  Sum_probs=48.2

Q ss_pred             hhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy15840        102 ANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD  151 (161)
Q Consensus       102 aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~  151 (161)
                      ||+|||+||+.||+||+.||.+||+.+.++||||||||++||+||.+|+.
T Consensus        18 a~erER~Rm~~lN~aF~~LR~~VP~~p~~kKLSKiEtLr~Ai~YI~~Lq~   67 (68)
T 2lfh_A           18 AAEEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQV   67 (68)
T ss_dssp             CBCCCSCSSSHHHHHHHHHHHHCCCCCTTCCCCHHHHHHHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHCCCCCCCCCccHHHHHHHHHHHHHHHHc
Confidence            48999999999999999999999999999999999999999999999985

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

Probab=99.83  E-value=6.9e-21  Score=139.98  Aligned_cols=60  Identities=28%  Similarity=0.402  Sum_probs=51.7

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcc
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSAN  157 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~~  157 (161)
                      |+..+..+||.||+.||+||+.||.+||+.+.++|||||||||+||+||.+|+++|++.+
T Consensus        25 R~k~~~~~~r~Rm~~lN~AF~~LR~~vP~~p~~kKLSKIETLRlAi~YI~~Lq~~L~~~~   84 (97)
T 4aya_A           25 RSKTPVDDPMSLLYNMNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIALDSHL   84 (97)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHHHCTTSCSSSCCCHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHhcccccHHHHHHHHHHHHHHHHHHCCCCCCCCcccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            333445677999999999999999999999999999999999999999999999999875

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

Probab=99.72  E-value=2.7e-18  Score=120.89  Aligned_cols=63  Identities=29%  Similarity=0.339  Sum_probs=52.2

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCC-CCCCCCCCCHHHHHHHHHHHHHHHHHHHhhccC
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIP-CIGIEHKLSKFETLQMAQTYIHSLRDLLTSANS  158 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP-~~~~~~kLSKietLr~Ai~YI~~L~~~L~~~~~  158 (161)
                      ..||.++|++||+|+..||++|+.||.+|| ..+.++++||++||+.||+||..|++.|.+.+.
T Consensus         3 ~~rR~~hN~~ER~Rr~~IN~~f~~Lr~~vP~~~~~~K~~sK~~IL~~AieYI~~Lq~~l~e~~~   66 (76)
T 3u5v_A            3 ADKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNL   66 (76)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             hhHHhhchHHHhhhHHHHHHHHHHHHHHcCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            358999999999999999999999999999 456666779999999999999999999987654

>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=99.63  E-value=6e-16  Score=108.79  Aligned_cols=60  Identities=28%  Similarity=0.456  Sum_probs=54.4

Q ss_pred             HHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         95 MKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        95 ~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      ...+|..||.+||+|+..||.+|+.||.+||..+ +.|+||++||+.||+||.+|+..++.
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            3568999999999999999999999999999755 46899999999999999999987764

>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=99.60  E-value=1.8e-15  Score=108.76  Aligned_cols=59  Identities=31%  Similarity=0.372  Sum_probs=54.7

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      ..+|..||+.||+|+..||++|+.||.+||..+.+.|+||+.||+.||+||.+|+....
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            35799999999999999999999999999988878999999999999999999997643

>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=99.59  E-value=2.2e-15  Score=106.28  Aligned_cols=56  Identities=30%  Similarity=0.497  Sum_probs=51.4

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      +|..||.+||+|+..||.+|+.||.+||..+ +.|+||++||+.||+||.+|+...+
T Consensus         2 rR~~hn~~Er~RR~~in~~f~~Lr~lvP~~~-~~k~sK~~iL~~Ai~YI~~L~~~~~   57 (83)
T 1nkp_B            2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQ-GEKASRAQILDKATEYIQYMRRKNH   57 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSGGGT-TSCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHhhhHHHHHHHHHHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            6889999999999999999999999999755 5789999999999999999997554

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

Probab=99.54  E-value=1.4e-14  Score=102.59  Aligned_cols=56  Identities=21%  Similarity=0.267  Sum_probs=52.6

Q ss_pred             hhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840         99 RLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus        99 R~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      |..||+.||+|+..||.+|+.||..||..+.+.|+||+.||+.|++||..|++-..
T Consensus         2 R~~HN~~ER~RR~~lk~~f~~Lr~~vP~~~~~~k~sk~~iL~kA~~yI~~L~~~~~   57 (80)
T 1nlw_A            2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDR   57 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            67899999999999999999999999998888999999999999999999987654

>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=99.41  E-value=6.5e-13  Score=93.99  Aligned_cols=58  Identities=31%  Similarity=0.372  Sum_probs=53.1

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      ..+|..||..||+|+..||++|..|+..||..  +.|++|+.||..||+||.+|+..++.
T Consensus         4 ~~rr~~H~~~ErrRR~~in~~f~~L~~lvP~~--~~k~~Ka~IL~~Ai~YI~~Lq~~~~~   61 (82)
T 1am9_A            4 GEKRTAHNAIEKRYRSSINDKIIELKDLVVGT--EAKLNKSAVLRKAIDYIRFLQHSNQK   61 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS--SCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHhhhhHHHHHHHHHHHHHHHHHHhccCC--CCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            46889999999999999999999999999963  57999999999999999999987654

>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=99.37  E-value=1.1e-13  Score=93.54  Aligned_cols=55  Identities=36%  Similarity=0.432  Sum_probs=49.4

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCC---CCCCHHHHHHHHHHHHHHHHHH
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIE---HKLSKFETLQMAQTYIHSLRDL  152 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~---~kLSKietLr~Ai~YI~~L~~~  152 (161)
                      +|..||..||+|+..||.+|..|+.+||.....   .|++|+.||..||+||.+|+.-
T Consensus         5 rr~~H~~~Er~RR~~in~~~~~L~~lvP~~~~~~~~~k~~Ka~IL~~ai~YI~~Lq~~   62 (65)
T 1an4_A            5 RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQS   62 (65)
T ss_dssp             CCCSSHHHHHHHHHHHHHHHHHHHHHSCCCCCCSSTTCCCTTTTTTTTHHHHHHHHTT
T ss_pred             HHHhhchHHHHHHHHHHHHHHHHHHHCcCcccccccCCCCHHHHHHHHHHHHHHHHHH
Confidence            677899999999999999999999999976543   4899999999999999999863

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

Probab=99.29  E-value=1.3e-11  Score=85.87  Aligned_cols=57  Identities=21%  Similarity=0.401  Sum_probs=52.0

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      +.+|..+|..||+|...||..|..|+..||.  .+.|+.|..||+.||+||..|+..+.
T Consensus         6 ~~kR~~Hn~iErrRRd~IN~~i~eL~~LvP~--~~~K~dK~sIL~~aI~yik~Lq~~~~   62 (71)
T 4h10_B            6 KAKRVSRNKSEKKRRDQFNVLIKELGSMLPG--NARKMDKSTVLQKSIDFLRKHKEITA   62 (71)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTSSS--CCSCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHhhhhhHHHhhHHHHHHHHHHHHHHhCCC--CCCCCcHHHHHHHHHHHHHHHHHhhh
Confidence            5688899999999999999999999999994  35799999999999999999998764

>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=99.27  E-value=6.4e-13  Score=90.18  Aligned_cols=56  Identities=27%  Similarity=0.291  Sum_probs=49.5

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCCCC----CCCCCCHHHHHHHHHHHHHHHHHHH
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPCIG----IEHKLSKFETLQMAQTYIHSLRDLL  153 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~----~~~kLSKietLr~Ai~YI~~L~~~L  153 (161)
                      +|..|+.-||.|+..||.+|+.|+.+||...    .+.++||..||.+||+||.+|++.+
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            5778999999999999999999999999432    2579999999999999999998744

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

Probab=99.22  E-value=1.1e-11  Score=86.56  Aligned_cols=57  Identities=32%  Similarity=0.496  Sum_probs=51.1

Q ss_pred             HHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCC-CCCCCCCHHHHHHHHHHHHHHHHH
Q psy15840         95 MKKRRLAANARERRRMSGLNEAFDRLREVIPCI-GIEHKLSKFETLQMAQTYIHSLRD  151 (161)
Q Consensus        95 ~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~-~~~~kLSKietLr~Ai~YI~~L~~  151 (161)
                      .+.+|..++..||+|+..||.+|+.|+..||.. ....|+.|+.||++||+||..|+.
T Consensus         6 ~~~rR~~H~~~ERrRR~rIN~~l~eL~~LvP~~~~~~~KldKasIL~~tV~ylk~l~~   63 (73)
T 4h10_A            6 IKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   63 (73)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHTCSSCCCHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHhc
Confidence            456889999999999999999999999999953 345799999999999999999874

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

Probab=99.20  E-value=2.8e-11  Score=90.95  Aligned_cols=60  Identities=23%  Similarity=0.321  Sum_probs=47.5

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIG-IEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~-~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      +.+|..||.-||+|+..||+.|..|+..||... .+.|++|..||..||+||.+|+...+.
T Consensus        25 ~~kr~~Hn~~ERrRR~~In~~~~~L~~lvP~~~~~~~k~~Ka~IL~~aieYIk~Lq~~~~~   85 (118)
T 4ati_A           25 RQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQR   85 (118)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHSCCC----CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHHHHH
Confidence            457888999999999999999999999999654 367999999999999999999876543

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

Probab=98.67  E-value=2.7e-08  Score=84.49  Aligned_cols=58  Identities=22%  Similarity=0.402  Sum_probs=44.1

Q ss_pred             HHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy15840         95 MKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLT  154 (161)
Q Consensus        95 ~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~  154 (161)
                      .+.+|..+|..||+|+..||..|..|+..||  ....||.|+.||++||.||..|+.+-.
T Consensus         9 ~~~~~~~~~~~e~~rr~~~n~~~~~l~~~~p--~~~~~~dk~~il~~~~~~~~~~~~~~~   66 (361)
T 4f3l_A            9 DKAKRVSRNKSEKKRRDQFNVLIKELGSMLP--GNARKMDKSTVLQKSIDFLRKHKETTA   66 (361)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHTCC--SSSCCCCHHHHHHHHHHHHHHHHHHHT
T ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHHHHhCC--CCCCCcCHHHHHHHHHHHHHHHHhhcc
Confidence            3457888999999999999999999999999  345799999999999999999987643

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

Probab=98.40  E-value=1.9e-07  Score=80.31  Aligned_cols=57  Identities=32%  Similarity=0.496  Sum_probs=49.9

Q ss_pred             HHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCC-CCCCCCHHHHHHHHHHHHHHHHH
Q psy15840         95 MKKRRLAANARERRRMSGLNEAFDRLREVIPCIG-IEHKLSKFETLQMAQTYIHSLRD  151 (161)
Q Consensus        95 ~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~-~~~kLSKietLr~Ai~YI~~L~~  151 (161)
                      .+.+|..+|.-||+|+..||..|..|+.+||... ...||.|..||++||.||..|+.
T Consensus        10 ~~~~~~~~~~~ek~rR~~~n~~~~~L~~l~p~~~~~~~k~dk~~il~~~~~~l~~~~~   67 (387)
T 4f3l_B           10 IKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRG   67 (387)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCSSCCCHHHHHHHHHHHHHHHHC
T ss_pred             hhhhcccccchhhcchHHHHHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHHhhc
Confidence            3567889999999999999999999999999532 45799999999999999998873

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

Probab=97.74  E-value=6e-05  Score=53.73  Aligned_cols=43  Identities=21%  Similarity=0.286  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHhhcCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHH
Q psy15840        111 SGLNEAFDRLREVIPCI-GIEHKLSKFETLQMAQTYIHSLRDLL  153 (161)
Q Consensus       111 ~~lN~AF~~LR~~lP~~-~~~~kLSKietLr~Ai~YI~~L~~~L  153 (161)
                      -.||+.+..|...||.. .++.|.+|-.||+.|++||.+|++-.
T Consensus         5 ~nIN~~I~EL~~LiP~~~~~~~k~nKg~IL~ksvdYI~~Lq~e~   48 (83)
T 4ath_A            5 FNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQ   48 (83)
T ss_dssp             HHHHHHHHHHHHHSCCCCCTTCCCSHHHHHHHHHHHHHHHHHTH
T ss_pred             hhHHHhhhhhhccCCCCCCcccCcchHHHHHHHHHHHHHHHHHH
Confidence            46999999999999953 45779999999999999999997643

>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=92.33  E-value=0.24  Score=38.07  Aligned_cols=40  Identities=28%  Similarity=0.355  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHhhcCCCCC-CCCCCCHHHHHHHHHHHHHHHH
Q psy15840        111 SGLNEAFDRLREVIPCIG-IEHKLSKFETLQMAQTYIHSLR  150 (161)
Q Consensus       111 ~~lN~AF~~LR~~lP~~~-~~~kLSKietLr~Ai~YI~~L~  150 (161)
                      -.|+=+|++|.+.+|-.+ ...+|.|--+|+.|.++...|-
T Consensus        94 PtId~gfqrl~k~~pr~pgdpe~lpk~~~lkraa~l~e~~~  134 (138)
T 3muj_A           94 PTIDYGFQRLQKVIPRHPGDPERLPKEVLLKRAADLVEALY  134 (138)
T ss_dssp             CCHHHHHHHHHHHSCCCTTCCSSCCHHHHHHHHHHHHHHHH
T ss_pred             CccccchhhhccccCCCCCChhhhhHHHHHHHHHHHHHHHh
Confidence            468899999999999544 4579999999999999988774

---

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	161
d1nkpa_	88	a.38.1.1 (A:) Myc proto-oncogene protein {Human (H	1e-12
d1an4a_	65	a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien	3e-12
d1mdya_	68	a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul	5e-12
d1nlwa_	79	a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T	1e-10
d1a0aa_	63	a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa	2e-10
d1nkpb_	83	a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T	1e-09
d1am9a_	80	a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI	7e-08

>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 = 58.0 bits (140), Expect = 1e-12
 Identities = 19/59 (32%), Positives = 28/59 (47%)

Query: 95  MKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           M  +R   N  ER+R + L  +F  LR+ IP +    K  K   L+ A  YI S++   
Sbjct: 3   MNVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEE 61

>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 = 56.3 bits (136), Expect = 3e-12
 Identities = 21/58 (36%), Positives = 27/58 (46%), Gaps = 3/58 (5%)

Query: 96  KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEH---KLSKFETLQMAQTYIHSLR 150
           +KRR   N  ERRR   +N    +L ++IP   +E      SK   L  A  YI  LR
Sbjct: 3   EKRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60

>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 = 56.0 bits (135), Expect = 5e-12
 Identities = 25/58 (43%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 96  KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
             RR AA  RERRR+S +NEAF+ L+        +  L K E L+ A  YI  L+ LL
Sbjct: 10  ADRRKAATMRERRRLSKVNEAFETLKRSTSSNPNQR-LPKVEILRNAIRYIEGLQALL 66

>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 = 53.0 bits (127), Expect = 1e-10
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 99  RLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           R   N  E+ R + L  + ++L+ ++P      + +    L  A+ +I  L D  
Sbjct: 2   RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSD 56

>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 = 51.4 bits (123), Expect = 2e-10
 Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 98  RRLAANARERRRMSGLNEAFDRLREVIP----CIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           +R +    E+ R + L  A   L  +IP       +    SK  T++ A  YI  L+   
Sbjct: 2   KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNG 61

Query: 154 TS 155
           ++
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 = 49.9 bits (119), Expect = 1e-09
 Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 98  RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLL 153
           +R   NA ER+R   + ++F  LR+ +P +  E K S+ + L  A  YI  +R   
Sbjct: 2   KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGE-KASRAQILDKATEYIQYMRRKN 56

>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 = 45.3 bits (107), Expect = 7e-08
 Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 96  KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
            ++R A NA E+R  S +N+    L++++   G E KL+K   L+ A  YI  L+ 
Sbjct: 4   GEKRTAHNAIEKRYRSSINDKIIELKDLVV--GTEAKLNKSAVLRKAIDYIRFLQH 57

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	161
d1mdya_	68	Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10	99.71
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	99.57
d1nlwa_	79	Mad protein {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1a0aa_	63	Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce	99.52
d1an4a_	65	Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960	99.42
d1am9a_	80	SREBP-1a {Human (Homo sapiens) [TaxId: 9606]}	99.41
d1uklc_	61	SREBP-2 {Human (Homo sapiens) [TaxId: 9606]}	98.68

>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=99.71  E-value=1.1e-17  Score=113.29  Aligned_cols=61  Identities=41%  Similarity=0.569  Sum_probs=55.3

Q ss_pred             HHHHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         94 VMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        94 ~~~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      ....+|.+||.+||.|+..||++|+.|+..||..+ .+|+||++||+.||+||.+|+++|++
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            44568899999999999999999999999999865 46999999999999999999998864

>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=99.57  E-value=2.1e-15  Score=105.64  Aligned_cols=60  Identities=30%  Similarity=0.367  Sum_probs=55.4

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      ..+|..||++||+|+..||++|+.|+.+||..+.+.|+||++||..|++||..|++.+..
T Consensus         4 ~~rR~~Hn~~Er~RR~~in~~f~~Lr~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~   63 (88)
T d1nkpa_           4 NVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQK   63 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGTTCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHH
Confidence            357889999999999999999999999999877788999999999999999999987754

>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=99.56  E-value=4.1e-15  Score=102.24  Aligned_cols=57  Identities=21%  Similarity=0.263  Sum_probs=53.4

Q ss_pred             hhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         99 RLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        99 R~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      |..||+.||+|+..||++|+.|+.+||..+...|+||+.||..|++||..|+..+..
T Consensus         2 R~~Hn~~Er~RR~~in~~f~~L~~llP~~~~~~k~sK~~iL~~A~~yI~~L~~~~~~   58 (79)
T d1nlwa_           2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRK   58 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSSCCCSSSCCCTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            778999999999999999999999999877788999999999999999999987754

>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=99.54  E-value=6.4e-15  Score=102.13  Aligned_cols=57  Identities=30%  Similarity=0.491  Sum_probs=51.6

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      ||..||.+||.|+..||++|+.|+.+||.. .+.|+||++||+.|++||..|++.+..
T Consensus         2 rR~~Hn~~Er~RR~~in~~f~~L~~llP~~-~~~k~sK~~iL~~A~~yI~~L~~~~~~   58 (83)
T d1nkpb_           2 KRAHHNALERKRRDHIKDSFHSLRDSVPSL-QGEKASRAQILDKATEYIQYMRRKNHT   58 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSGGG-TTSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            789999999999999999999999999964 457999999999999999999876643

>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=99.52  E-value=1.7e-15  Score=100.65  Aligned_cols=56  Identities=27%  Similarity=0.322  Sum_probs=50.7

Q ss_pred             HhhHhhHHHHHhHHHHHHHHHHHhhcCCC----CCCCCCCCHHHHHHHHHHHHHHHHHHH
Q psy15840         98 RRLAANARERRRMSGLNEAFDRLREVIPC----IGIEHKLSKFETLQMAQTYIHSLRDLL  153 (161)
Q Consensus        98 rR~~aN~RER~R~~~lN~AF~~LR~~lP~----~~~~~kLSKietLr~Ai~YI~~L~~~L  153 (161)
                      +|.+||..||+|+..||++|+.|+.+||.    ...+.|++|.+||..|++||.+|++.+
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            57899999999999999999999999994    345789999999999999999998744

>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=99.42  E-value=1.3e-14  Score=96.92  Aligned_cols=55  Identities=36%  Similarity=0.431  Sum_probs=49.7

Q ss_pred             HHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCC---CCCCCCHHHHHHHHHHHHHHHHH
Q psy15840         97 KRRLAANARERRRMSGLNEAFDRLREVIPCIG---IEHKLSKFETLQMAQTYIHSLRD  151 (161)
Q Consensus        97 ~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~---~~~kLSKietLr~Ai~YI~~L~~  151 (161)
                      .+|..||..||+|+..||++|+.|+..||...   .+.|+||++||..|++||..|++
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            36788999999999999999999999999643   45799999999999999999985

>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=99.41  E-value=3.1e-13  Score=93.19  Aligned_cols=58  Identities=31%  Similarity=0.372  Sum_probs=52.1

Q ss_pred             HHHhhHhhHHHHHhHHHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840         96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus        96 ~~rR~~aN~RER~R~~~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      ..+|..||..||+|+..||++|+.|+.+||..  ..|++|++||..|++||..|+..++.
T Consensus         4 ~~kR~~H~~~Er~RR~~in~~~~~L~~llP~~--~~k~~K~~iL~~a~~yI~~L~~~~~~   61 (80)
T d1am9a_           4 GEKRTAHNAIEKRYRSSINDKIIELKDLVVGT--EAKLNKSAVLRKAIDYIRFLQHSNQK   61 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS--SCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC--CCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            45788999999999999999999999999953  46999999999999999999986653

>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=98.68  E-value=5.6e-09  Score=68.27  Aligned_cols=42  Identities=21%  Similarity=0.347  Sum_probs=37.3

Q ss_pred             HHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy15840        112 GLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS  155 (161)
Q Consensus       112 ~lN~AF~~LR~~lP~~~~~~kLSKietLr~Ai~YI~~L~~~L~~  155 (161)
                      .||+.|..||..||..  ..|.+|+.||..||+||..|+.....
T Consensus         3 ~in~~f~~L~~lvP~~--~~K~~Ka~iL~~Ai~YI~~Lq~~~~~   44 (61)
T d1uklc_           3 SINDKIIELKDLVMGT--DAKMHKSGVLRKAIDYIKYLQQVNHK   44 (61)
T ss_dssp             CHHHHHHHHHHHHSCS--SCCCCTTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCCC--CCcccHHHHHHHHHHHHHHHHHHHHH
Confidence            5899999999999954  46999999999999999999987654