Psyllid ID: psy15415

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
MALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWVSIKVTGVKRTGWLAFGYYSERPKYDMLNTSGVLRTCMCNSNETYMLCRKCKGMPVQK
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHcccccccccccccHHHHccccccccEEccccccccccccEEcccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHcccccccccccccccEEcccccHHEEEcccccccccEEEEEccccccccccccccccccccccccccEEEEcccccccccccEcccccEEEccccccHHHHHHHHcccccccc
Coil and Loop (DISEMBL)
MALTANLrlffhrerfpyynqnddrwknsvrhnlsinphfrkgvkasqgaghlwnlsdmepvedasksnWVSIKVTGVKRTGWLafgyyserpkydmlntsgvlrtcmcnsnetymlcrkckgmpvqk
Flexible Loop (DISEMBL)
maltanlrlffhrerfpyynqnddrwkNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWvsikvtgvkrtgWLAFGYYSERPKYDMLNTSGVLRTCMCnsnetymlcrkckgmpvqk
Low Complexity Region (SEG)
MALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWVSIKVTGVKRTGWLAFGYYSERPKYDMLNTSGVLRTCMCNSNETYMLCRKCKGMPVQK
Disordered region (IsUnstruct)
****ANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSD********KSNWVSIKVTGVKRTGWLAFGYYSERPKYDMLNTSGVLRTCMCNSNETYMLCRKCK******
Disordered Region (DISOPRED)
*ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME********************************************************************
Disordered Region (DISEMBL)
MALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWVSIKVTGVKRTGWLAFGYYSERPKYDMLNTSGVLRTCMCNSNETYMLCRKCKGMPVQK
Disordered Region (DISPRO)
*ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWVSIKVTGVKRTGWLAFGYYSERPKYDMLNTSGVLRTCMCNSNETYMLCRKCKGM****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWVSIKVTGVKRTGWLAFGYYSERPKYDMLNTSGVLRTCMCNSNETYMLCRKCKGMPVQK
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	128	2.2.26 [Sep-21-2011]
P25364	564	Forkhead transcription fa	yes	N/A	0.320	0.072	0.536	1e-07
Q8K3Q3	521	Forkhead box protein N4 O	yes	N/A	0.421	0.103	0.457	8e-07
P39521	936	Pre-rRNA-processing prote	no	N/A	0.343	0.047	0.543	8e-07
Q96NZ1	517	Forkhead box protein N4 O	yes	N/A	0.546	0.135	0.368	1e-06
Q64733	428	Forkhead box protein B2 O	no	N/A	0.359	0.107	0.479	1e-05
Q5VYV0	432	Forkhead box protein B2 O	no	N/A	0.359	0.106	0.479	1e-05
O15353	648	Forkhead box protein N1 O	no	N/A	0.359	0.070	0.490	2e-05
Q61575	648	Forkhead box protein N1 O	no	N/A	0.359	0.070	0.490	2e-05
Q66J77	430	Forkhead box protein N2 O	N/A	N/A	0.320	0.095	0.477	2e-05
Q61850	494	Forkhead box protein C2 O	no	N/A	0.359	0.093	0.437	3e-05

>sp|P25364|HCM1_YEAST Forkhead transcription factor HCM1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=HCM1 PE=1 SV=3

 Score = 55.5 bits (132), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/41 (53%), Positives = 27/41 (65%)

Query: 16  FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
           FPYY Q D  W+NS+RHNLS+N  F K  K+  G GH W +
Sbjct: 143 FPYYKQKDASWQNSIRHNLSLNDAFIKTEKSCDGKGHFWEV 183

Transcription factor regulating the cell cycle specific transcription of a spindle pole body (SPB) calmodulin binding protein SPC110. Required for full induction of SPC110 transcription in late G1. Binds to DNA consensus sequence 5'-[AT]AA[TC]AAACAA[AT]-3'. Dosage dependent suppressor of calmodulin mutants which have specific defects in SPB assembly.
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q8K3Q3|FOXN4_MOUSE Forkhead box protein N4 OS=Mus musculus GN=Foxn4 PE=2 SV=1

 Score = 52.4 bits (124), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 27/59 (45%), Positives = 36/59 (61%), Gaps = 5/59 (8%)

Query: 11  FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGA---GHLW--NLSDMEPVED 64
           F +E FPY+    D WKNSVRHNLS+N  F K    S G+   G LW  NL+ ++ +E+
Sbjct: 226 FMKEHFPYFKTAPDGWKNSVRHNLSLNKCFEKVETKSSGSSRKGCLWALNLARIDKMEE 284

Mus musculus (taxid: 10090)

>sp|P39521|FHL1_YEAST Pre-rRNA-processing protein FHL1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=FHL1 PE=1 SV=1

 Score = 52.4 bits (124), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 25/46 (54%), Positives = 30/46 (65%), Gaps = 2/46 (4%)

Query: 13  RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSD 58
           RE FPYY    D W++SVRHNLS+N  FRK  K  +G G LW L +
Sbjct: 493 RELFPYYKYCPDGWQSSVRHNLSLNKSFRKVSK--EGKGWLWGLDE 536

Controls the pre-rRNA processing machinery in conjunction with IFH1. Presumably acts as a transcriptional regulator of genes specifically involved in that process. IFH1 convert FHL1 from a repressor to an activator.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q96NZ1|FOXN4_HUMAN Forkhead box protein N4 OS=Homo sapiens GN=FOXN4 PE=2 SV=2

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 6/76 (7%)

Query: 11  FHRERFPYYNQNDDRWKNSVRHNLSINPHFRK---GVKASQGAGHLW--NLSDMEPVEDA 65
           F +E FPY+    D WKNSVRHNLS+N  F K    +  S   G LW  NL+ ++ +E+ 
Sbjct: 222 FMKEHFPYFKTAPDGWKNSVRHNLSLNKCFEKVENKMSGSSRKGCLWALNLARIDKMEE- 280

Query: 66  SKSNWVSIKVTGVKRT 81
               W    +  + R+
Sbjct: 281 EMHKWKRKDLAAIHRS 296

Homo sapiens (taxid: 9606)

>sp|Q64733|FOXB2_MOUSE Forkhead box protein B2 OS=Mus musculus GN=Foxb2 PE=2 SV=1

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/48 (47%), Positives = 28/48 (58%), Gaps = 2/48 (4%)

Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
          F  ERFPYY ++  RW+NS+RHNLS N  F K  +     G G  W L
Sbjct: 42 FIMERFPYYREHTQRWQNSLRHNLSFNDCFIKIPRRPDQPGKGSFWAL 89

Transcription factor.

Mus musculus (taxid: 10090)

>sp|Q5VYV0|FOXB2_HUMAN Forkhead box protein B2 OS=Homo sapiens GN=FOXB2 PE=2 SV=1

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/48 (47%), Positives = 28/48 (58%), Gaps = 2/48 (4%)

Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
          F  ERFPYY ++  RW+NS+RHNLS N  F K  +     G G  W L
Sbjct: 42 FIMERFPYYREHTQRWQNSLRHNLSFNDCFIKIPRRPDQPGKGSFWAL 89

Transcription factor.

Homo sapiens (taxid: 9606)

>sp|O15353|FOXN1_HUMAN Forkhead box protein N1 OS=Homo sapiens GN=FOXN1 PE=2 SV=1

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/51 (49%), Positives = 30/51 (58%), Gaps = 5/51 (9%)

Query: 11  FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGA----GHLWNLS 57
           F  E FPY+    D WKNSVRHNLS+N  F K V+   G+    G LW L+
Sbjct: 300 FMTEHFPYFKTAPDGWKNSVRHNLSLNKCFEK-VENKSGSSSRKGCLWALN 349

Transcriptional regulator involved in development.

Homo sapiens (taxid: 9606)

>sp|Q61575|FOXN1_MOUSE Forkhead box protein N1 OS=Mus musculus GN=Foxn1 PE=2 SV=1

 Score = 47.8 bits (112), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/51 (49%), Positives = 30/51 (58%), Gaps = 5/51 (9%)

Query: 11  FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGA----GHLWNLS 57
           F  E FPY+    D WKNSVRHNLS+N  F K V+   G+    G LW L+
Sbjct: 300 FMTEHFPYFKTAPDGWKNSVRHNLSLNKCFEK-VENKSGSSSRKGCLWALN 349

Transcriptional regulator involved in development.

Mus musculus (taxid: 10090)

>sp|Q66J77|FOXN2_XENLA Forkhead box protein N2 OS=Xenopus laevis GN=foxn2 PE=2 SV=1

 Score = 47.4 bits (111), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/44 (47%), Positives = 29/44 (65%), Gaps = 3/44 (6%)

Query: 14  ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS---QGAGHLW 54
           +RFPY++     WKNSVRHNLS+N +F+K  ++     G G LW
Sbjct: 140 DRFPYFSTAPTGWKNSVRHNLSLNKYFQKVERSHGKVNGKGSLW 183

Xenopus laevis (taxid: 8355)

>sp|Q61850|FOXC2_MOUSE Forkhead box protein C2 OS=Mus musculus GN=Foxc2 PE=2 SV=2

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/48 (43%), Positives = 29/48 (60%), Gaps = 2/48 (4%)

Query: 11  FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
           F  +RFP+Y +N   W+NS+RHNLS+N  F K  +  +  G G  W L
Sbjct: 100 FIMDRFPFYRENKQGWQNSIRHNLSLNECFVKVPRDDKKPGKGSYWTL 147

Transcriptional activator. Might be involved in the formation of special mesenchymal tissues.

Mus musculus (taxid: 10090)

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	128
195133820	754	GI16052 [Drosophila mojavensis] gi|19390	0.398	0.067	0.764	8e-18
195168651	806	GL26743 [Drosophila persimilis] gi|19410	0.398	0.063	0.764	1e-17
195399165	732	GJ15628 [Drosophila virilis] gi|19415061	0.398	0.069	0.764	1e-17
442615105	744	forkhead domain 3F [Drosophila melanogas	0.398	0.068	0.764	2e-17
195477295	734	GE16312 [Drosophila yakuba] gi|194187681	0.398	0.069	0.764	2e-17
195446617	392	GK25470 [Drosophila willistoni] gi|19416	0.398	0.130	0.764	3e-17
195340944	353	GM12307 [Drosophila sechellia] gi|194131	0.406	0.147	0.75	2e-16
115646534	360	RT01015p [Drosophila melanogaster]	0.406	0.144	0.75	2e-16
194887862	359	GG18672 [Drosophila erecta] gi|190648470	0.406	0.144	0.75	2e-16
198471282	354	GA23037, partial [Drosophila pseudoobscu	0.406	0.146	0.75	2e-16

>gi|195133820|ref|XP_002011337.1| GI16052 [Drosophila mojavensis] gi|193907312|gb|EDW06179.1| GI16052 [Drosophila mojavensis]

 Score = 95.1 bits (235), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query: 14  ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVED 64
           +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+
Sbjct: 439 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAEN 489

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195168651|ref|XP_002025144.1| GL26743 [Drosophila persimilis] gi|194108589|gb|EDW30632.1| GL26743 [Drosophila persimilis]

 Score = 94.7 bits (234), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query: 14  ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVED 64
           +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+
Sbjct: 492 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAEN 542

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195399165|ref|XP_002058191.1| GJ15628 [Drosophila virilis] gi|194150615|gb|EDW66299.1| GJ15628 [Drosophila virilis]

 Score = 94.7 bits (234), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query: 14  ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVED 64
           +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+
Sbjct: 441 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAEN 491

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442615105|ref|NP_726889.3| forkhead domain 3F [Drosophila melanogaster] gi|440216417|gb|AAF45895.4| forkhead domain 3F [Drosophila melanogaster]

 Score = 94.0 bits (232), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query: 14  ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVED 64
           +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+
Sbjct: 431 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAEN 481

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195477295|ref|XP_002100157.1| GE16312 [Drosophila yakuba] gi|194187681|gb|EDX01265.1| GE16312 [Drosophila yakuba]

 Score = 93.6 bits (231), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query: 14  ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVED 64
           +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+
Sbjct: 429 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAEN 479

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195446617|ref|XP_002070848.1| GK25470 [Drosophila willistoni] gi|194166933|gb|EDW81834.1| GK25470 [Drosophila willistoni]

 Score = 93.2 bits (230), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query: 14  ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVED 64
           +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+
Sbjct: 65  DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAEN 115

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195340944|ref|XP_002037072.1| GM12307 [Drosophila sechellia] gi|194131188|gb|EDW53231.1| GM12307 [Drosophila sechellia]

 Score = 90.9 bits (224), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/52 (75%), Positives = 43/52 (82%)

Query: 14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDA 65
          +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+ 
Sbjct: 47 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAENV 98

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|115646534|gb|ABF85764.2| RT01015p [Drosophila melanogaster]

 Score = 90.9 bits (224), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/52 (75%), Positives = 43/52 (82%)

Query: 14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDA 65
          +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+ 
Sbjct: 47 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAENV 98

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194887862|ref|XP_001976821.1| GG18672 [Drosophila erecta] gi|190648470|gb|EDV45748.1| GG18672 [Drosophila erecta]

 Score = 90.9 bits (224), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/52 (75%), Positives = 43/52 (82%)

Query: 14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDA 65
          +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+ 
Sbjct: 47 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAENV 98

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198471282|ref|XP_002133704.1| GA23037, partial [Drosophila pseudoobscura pseudoobscura] gi|198145849|gb|EDY72331.1| GA23037, partial [Drosophila pseudoobscura pseudoobscura]

 Score = 90.5 bits (223), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/52 (75%), Positives = 43/52 (82%)

Query: 14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDA 65
          +RFPYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+ 
Sbjct: 44 DRFPYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAENV 95

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	128
UNIPROTKB|Q2V896	329	FoxQ2 "Forkhead transcription	0.437	0.170	0.368	7.3e-08
SGD|S000000661	564	HCM1 "Forkhead transcription f	0.320	0.072	0.536	8.8e-08
UNIPROTKB|Q70VZ2	475	foxB "FoxB protein" [Ciona int	0.335	0.090	0.488	8.8e-08
ZFIN|ZDB-GENE-050208-663	263	foxq2 "forkhead box Q2" [Danio	0.773	0.376	0.314	9.1e-08
MGI|MGI:1096329	372	Foxi1 "forkhead box I1" [Mus m	0.335	0.115	0.422	9.1e-08
UNIPROTKB|Q12951	378	FOXI1 "Forkhead box protein I1	0.335	0.113	0.422	1.5e-07
UNIPROTKB|Q75EM9	453	AAR050C "AAR050Cp" [Ashbya gos	0.320	0.090	0.536	1.7e-07
CGD|CAL0005400	579	HCM1 [Candida albicans (taxid:	0.320	0.070	0.512	3.1e-07
MGI|MGI:2151057	521	Foxn4 "forkhead box N4" [Mus m	0.546	0.134	0.381	4.4e-07
UNIPROTKB|H9L1F8	113	H9L1F8 "Uncharacterized protei	0.546	0.619	0.355	4.8e-07

UNIPROTKB|Q2V896 FoxQ2 "Forkhead transcription factor Q2" [Strongylocentrotus purpuratus (taxid:7668)]

 Score = 129 (50.5 bits), Expect = 7.3e-08, P = 7.3e-08
 Identities = 21/57 (36%), Positives = 36/57 (63%)

Query:    14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNW 70
             +RFP++  N+  W+NS+RHNLS+N  F K  ++  G GH W +     +ED ++ ++
Sbjct:   107 KRFPFFKDNERSWRNSIRHNLSLNECFIKAGRSGDGRGHFWAIHPAN-LEDFARGDY 162

GO:0003690 "double-stranded DNA binding" evidence=IBA

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0008301 "DNA binding, bending" evidence=IBA

GO:0009790 "embryo development" evidence=IBA

GO:0009888 "tissue development" evidence=IBA

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

SGD|S000000661 HCM1 "Forkhead transcription factor" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 132 (51.5 bits), Expect = 8.8e-08, P = 8.8e-08
 Identities = 22/41 (53%), Positives = 27/41 (65%)

Query:    16 FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
             FPYY Q D  W+NS+RHNLS+N  F K  K+  G GH W +
Sbjct:   143 FPYYKQKDASWQNSIRHNLSLNDAFIKTEKSCDGKGHFWEV 183

GO:0005634 "nucleus" evidence=IEA;IDA

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

GO:0000790 "nuclear chromatin" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA;IDA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0051300 "spindle pole body organization" evidence=IGI

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

GO:0008134 "transcription factor binding" evidence=IBA

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0003690 "double-stranded DNA binding" evidence=IBA

GO:0090418 "positive regulation of transcription involved in S-phase of mitotic cell cycle" evidence=IMP

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

GO:0034599 "cellular response to oxidative stress" evidence=IMP

GO:0007005 "mitochondrion organization" evidence=IMP

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

UNIPROTKB|Q70VZ2 foxB "FoxB protein" [Ciona intestinalis (taxid:7719)]

 Score = 115 (45.5 bits), Expect = 8.8e-08, Sum P(2) = 8.8e-08
 Identities = 22/45 (48%), Positives = 28/45 (62%)

Query:    14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
             +RFP+Y  N  RW+NS+RHNLS N  F K  +     G G LW+L
Sbjct:    45 DRFPFYRNNTQRWQNSLRHNLSFNDCFVKVPRRGDQPGKGSLWSL 89

GO:0003690 "double-stranded DNA binding" evidence=IBA

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0008301 "DNA binding, bending" evidence=IBA

GO:0009790 "embryo development" evidence=IBA

GO:0009888 "tissue development" evidence=IBA

GO:0048513 "organ development" evidence=IBA

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

ZFIN|ZDB-GENE-050208-663 foxq2 "forkhead box Q2" [Danio rerio (taxid:7955)]

 Score = 126 (49.4 bits), Expect = 9.1e-08, P = 9.1e-08
 Identities = 34/108 (31%), Positives = 51/108 (47%)

Query:    14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWVSI 73
             + +PY+   D  W+NSVRHNLS+N  F K  ++  G GH W +      +D S  ++   
Sbjct:   138 DHYPYFKSKDKNWRNSVRHNLSLNECFIKAGRSDNGKGHFWAIHPAN-FQDFSNGDYHRR 196

Query:    74 KVTG-VKR-TGWLAFGYYSERPKYDMLNTSGVLRT-CMCNSNETYMLC 118
             +    ++R TG L    Y+    Y  L    + RT C C      +LC
Sbjct:   197 RARRRIRRVTGQLP---YALPAHYQTLGR--LKRTPCWCCPPSHPLLC 239

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

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

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0008301 "DNA binding, bending" evidence=IBA

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

GO:0009790 "embryo development" evidence=IBA

GO:0009888 "tissue development" evidence=IBA

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

GO:0003690 "double-stranded DNA binding" evidence=IBA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

MGI|MGI:1096329 Foxi1 "forkhead box I1" [Mus musculus (taxid:10090)]

 Score = 107 (42.7 bits), Expect = 9.1e-08, Sum P(2) = 9.1e-08
 Identities = 19/45 (42%), Positives = 29/45 (64%)

Query:    14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
             + FP+YN++   W+NS+RHNLS+N  F+K  +     G G+ W L
Sbjct:   149 DNFPFYNKSKAGWQNSIRHNLSLNDCFKKVPRDEDDPGKGNYWTL 193

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

GO:0003677 "DNA binding" evidence=IEA

GO:0003690 "double-stranded DNA binding" evidence=IBA

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

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

GO:0005634 "nucleus" evidence=IC

GO:0005667 "transcription factor complex" evidence=IBA

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

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

GO:0007389 "pattern specification process" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0008301 "DNA binding, bending" evidence=IBA

GO:0009957 "epidermal cell fate specification" evidence=IBA

GO:0042472 "inner ear morphogenesis" evidence=IMP

GO:0043049 "otic placode formation" evidence=IBA

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

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

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

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

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

UNIPROTKB|Q12951 FOXI1 "Forkhead box protein I1" [Homo sapiens (taxid:9606)]

 Score = 107 (42.7 bits), Expect = 1.5e-07, Sum P(2) = 1.5e-07
 Identities = 19/45 (42%), Positives = 29/45 (64%)

Query:    14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
             + FP+YN++   W+NS+RHNLS+N  F+K  +     G G+ W L
Sbjct:   155 DNFPFYNKSKAGWQNSIRHNLSLNDCFKKVPRDEDDPGKGNYWTL 199

GO:0009790 "embryo development" evidence=NAS

GO:0008301 "DNA binding, bending" evidence=IBA;NAS

GO:0003690 "double-stranded DNA binding" evidence=IBA

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0009957 "epidermal cell fate specification" evidence=IBA

GO:0043049 "otic placode formation" evidence=IBA

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

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

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

GO:0005634 "nucleus" evidence=IC

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

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

UNIPROTKB|Q75EM9 AAR050C "AAR050Cp" [Ashbya gossypii ATCC 10895 (taxid:284811)]

 Score = 128 (50.1 bits), Expect = 1.7e-07, P = 1.7e-07
 Identities = 22/41 (53%), Positives = 27/41 (65%)

Query:    16 FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
             FPYY   D  W+NS+RHNLS+N  F KG K+  G GH W +
Sbjct:   114 FPYYRLCDAGWQNSIRHNLSLNEAFVKGGKSLDGKGHFWEI 154

GO:0000790 "nuclear chromatin" evidence=IBA

GO:0003690 "double-stranded DNA binding" evidence=IBA

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

CGD|CAL0005400 HCM1 [Candida albicans (taxid:5476)]

 Score = 127 (49.8 bits), Expect = 3.1e-07, P = 3.1e-07
 Identities = 21/41 (51%), Positives = 27/41 (65%)

Query:    14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLW 54
             + F YY + D  W+NS+RHNLS+N  F KG K+  G GH W
Sbjct:   179 DTFKYYKKGDVGWQNSIRHNLSLNKAFIKGEKSKDGKGHFW 219

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0051300 "spindle pole body organization" evidence=IEA

GO:0090418 "positive regulation of transcription involved in S-phase of mitotic cell cycle" evidence=IEA

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

GO:0034599 "cellular response to oxidative stress" evidence=IEA

GO:0007005 "mitochondrion organization" evidence=IEA

MGI|MGI:2151057 Foxn4 "forkhead box N4" [Mus musculus (taxid:10090)]

 Score = 125 (49.1 bits), Expect = 4.4e-07, P = 4.4e-07
 Identities = 29/76 (38%), Positives = 41/76 (53%)

Query:    11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGA---GHLW--NLSDMEPVEDA 65
             F +E FPY+    D WKNSVRHNLS+N  F K    S G+   G LW  NL+ ++ +E+ 
Sbjct:   226 FMKEHFPYFKTAPDGWKNSVRHNLSLNKCFEKVETKSSGSSRKGCLWALNLARIDKMEE- 284

Query:    66 SKSNWVSIKVTGVKRT 81
                 W    +  + R+
Sbjct:   285 EMHKWKRKDLAAIHRS 300

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

GO:0003677 "DNA binding" evidence=IEA

GO:0003690 "double-stranded DNA binding" evidence=IBA

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IBA

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

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

GO:0007389 "pattern specification process" evidence=IBA

GO:0008016 "regulation of heart contraction" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0008301 "DNA binding, bending" evidence=IBA

GO:0009790 "embryo development" evidence=IBA

GO:0009888 "tissue development" evidence=IBA

GO:0030154 "cell differentiation" evidence=IMP

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

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

GO:0048513 "organ development" evidence=IBA

GO:0048663 "neuron fate commitment" evidence=IGI

GO:0048675 "axon extension" evidence=IBA

GO:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

UNIPROTKB|H9L1F8 H9L1F8 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 27/76 (35%), Positives = 39/76 (51%)

Query:    11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGA---GHLW--NLSDMEPVEDA 65
             F +E FPY+    D WKNSVRHNLS+N  F K      G    G LW  N + ++ +E+ 
Sbjct:    35 FMKEHFPYFKTAPDGWKNSVRHNLSLNKCFEKVENKMSGTSRKGCLWALNPAKIDKMEEE 94

Query:    66 SKSNWVSIKVTGVKRT 81
              +  W    +  + R+
Sbjct:    95 MQK-WKRKDLAAIHRS 109

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

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

GO:0005634 "nucleus" evidence=IEA

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

GO:0048663 "neuron fate commitment" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	128
pfam00250	96	pfam00250, Fork_head, Fork head domain	4e-13
smart00339	89	smart00339, FH, FORKHEAD	4e-13
cd00059	78	cd00059, FH, Forkhead (FH), also known as a "winge	9e-13
COG5025	610	COG5025, COG5025, Transcription factor of the Fork	1e-05
COG5025	610	COG5025, COG5025, Transcription factor of the Fork	2e-05

>gnl|CDD|189470 pfam00250, Fork_head, Fork head domain

 Score = 60.4 bits (147), Expect = 4e-13
 Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 13 RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSD 58
           + FPYY QN   W+NS+RHNLS+N  F K  ++    G G  W L  
Sbjct: 32 MDLFPYYRQNKQGWQNSIRHNLSLNKCFIKVPRSPDKPGKGSYWTLDP 79

Length = 96

>gnl|CDD|214627 smart00339, FH, FORKHEAD

 Score = 59.9 bits (146), Expect = 4e-13
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 14 ERFPYYNQNDDRWKNSVRHNLSINPHFRK--GVKASQGAGHLW 54
          + FPYY +N   W+NS+RHNLS+N  F K        G G  W
Sbjct: 33 DNFPYYRENRAGWQNSIRHNLSLNDCFVKVPREGDRPGKGSYW 75

FORKHEAD, also known as a "winged helix". Length = 89

>gnl|CDD|238016 cd00059, FH, Forkhead (FH), also known as a "winged helix"

 Score = 58.7 bits (143), Expect = 9e-13
 Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

Query: 13 RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS--QGAGHLWNL 56
           + FPY+      W+NS+RHNLS+N  F K  +     G G  W L
Sbjct: 32 SDNFPYFRDAPAGWQNSIRHNLSLNKCFVKVPREPDEPGKGSYWTL 77

FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as monomers, are also found in the Hepatocyte nuclear factor (HNF) proteins, which provide tissue-specific gene regulation. The structure contains 2 flexible loops or "wings" in the C-terminal region, hence the term winged helix. Length = 78

>gnl|CDD|227358 COG5025, COG5025, Transcription factor of the Forkhead/HNF3 family [Transcription]

 Score = 42.9 bits (101), Expect = 1e-05
 Identities = 26/91 (28%), Positives = 36/91 (39%), Gaps = 3/91 (3%)

Query: 13  RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS--QGAGHLWNLSDMEPVEDASKSNW 70
               PYY      W+NS+RHNLS+N  F K  +++   G G  W +      E  SK N 
Sbjct: 368 SSNLPYYRHKPTAWQNSIRHNLSLNKSFEKVPRSASQPGKGCFWKIDYSYIYEKESKRNP 427

Query: 71  VSIKVTGVKRTGWLAFGYYSERPKYDMLNTS 101
            S K +    +       +     Y    TS
Sbjct: 428 RSPKKSPSAHSVHQKLSLHVNDL-YQSPATS 457

Length = 610

>gnl|CDD|227358 COG5025, COG5025, Transcription factor of the Forkhead/HNF3 family [Transcription]

 Score = 42.1 bits (99), Expect = 2e-05
 Identities = 21/53 (39%), Positives = 25/53 (47%), Gaps = 9/53 (16%)

Query: 16  FPYYNQNDDRWKNSVRHNLSINPHF-----RKGVKASQGAGHLW-NLSDMEPV 62
           F YY +   RW+NS+RHNLS+N  F     R G K     GH W      E  
Sbjct: 120 FFYYAKVVSRWQNSIRHNLSLNDAFIKIEGRNGAK---VKGHFWSIGPGHETQ 169

Length = 610

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	128
cd00059	78	FH Forkhead (FH), also known as a "winged helix".	99.97
PF00250	96	Fork_head: Fork head domain; InterPro: IPR001766 T	99.96
smart00339	89	FH FORKHEAD. FORKHEAD, also known as a "winged hel	99.95
KOG3563|consensus	454		99.94
KOG2294|consensus	454		99.93
KOG3562|consensus	277		99.92
COG5025	610	Transcription factor of the Forkhead/HNF3 family [	99.68
KOG4385|consensus	581		99.65
COG5025	610	Transcription factor of the Forkhead/HNF3 family [	99.1

>cd00059 FH Forkhead (FH), also known as a "winged helix"

Probab=99.97  E-value=2.8e-31  Score=181.46  Aligned_cols=56  Identities=36%  Similarity=0.688  Sum_probs=54.2

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeC
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLS   57 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~   57 (128)
                      +|||+|||+||+++||||+.+++|||||||||||+|+||+||+++  ++|||+||+||
T Consensus        21 ~lTL~eIy~~I~~~~pyyr~~~~gWknSIRHnLS~n~~F~kv~r~~~~~gkg~~W~i~   78 (78)
T cd00059          21 RLTLSEIYKWISDNFPYFRDAPAGWQNSIRHNLSLNKCFVKVPREPDEPGKGSYWTLD   78 (78)
T ss_pred             CeeHHHHHHHHHHhCCccccCCCCCccceeEecccccceEECCCCCCCCCCCCeeeeC
Confidence            699999999999999999999999999999999999999999997  68999999997

FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as monomers, are also found in the Hepatocyte nuclear factor (HNF) proteins, which provide tissue-specific gene regulation. The structure contains 2 flexible loops or "wings" in the C-terminal region, hence the term winged helix.

>PF00250 Fork_head: Fork head domain; InterPro: IPR001766 The fork head protein of Drosophila melanogaster, a transcription factor that promotes terminal rather than segmental development, contains neither homeodomains nor zinc-fingers characteristic of other transcription factors []

Probab=99.96  E-value=3.5e-30  Score=181.69  Aligned_cols=67  Identities=36%  Similarity=0.653  Sum_probs=58.1

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCcccccccc--cCCCCcceEeeCCCchHHHhhhcc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVK--ASQGAGHLWNLSDMEPVEDASKSN   69 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r--~~~Gkg~~W~i~~~~~~e~~~~~~   69 (128)
                      +|||+|||+||+++||||+.+.+|||||||||||+|+||+||++  +++|||+||+|+++. .+...+..
T Consensus        21 ~Ltl~eIy~~i~~~~pyyr~~~~~WknSIRHnLS~~~~F~kv~~~~~~~gkg~~W~i~~~~-~~~~~~~~   89 (96)
T PF00250_consen   21 RLTLSEIYEWIEENFPYYRDASKGWKNSIRHNLSLNKCFVKVPRDPSEPGKGSYWTIDPEA-IEEFEKGR   89 (96)
T ss_dssp             EBEHHHHHHHHHHHCGHHHCTHCHHHHHHHHHHHHSTTEEEESCCTSSSSSSEEEEE-CTH-HHHHHHSC
T ss_pred             CccHHHHHHHHHHhhccccccchhhhhHHhhhccccceeeecCcCCCCCCCceeEEeCHHH-HHHHhcch
Confidence            69999999999999999999999999999999999999999999  458999999999973 44444333

Instead, it contains a distinct type of DNA-binding region, containing around 100 amino acids, which has since been identified in a number of transcription factors (including D. melanogaster FD1-5, mammalian HNF-3, human HTLF, Saccharomyces cerevisiae HCM1, etc.). This is referred to as the fork head domain but is also known as a 'winged helix' [, , ]. The fork head domain binds B-DNA as a monomer [], but shows no similarity to previously identified DNA-binding motifs. Although the domain is found in several different transcription factors, a common function is their involvement in early developmental decisions of cell fates during embryogenesis [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2UZK_A 2K86_A 1JXS_A 2C6Y_A 2A3S_A 2D2W_A 2KIU_A 1VTN_C 2A07_J 2AS5_F ....

>smart00339 FH FORKHEAD

Probab=99.95  E-value=2.4e-29  Score=175.39  Aligned_cols=59  Identities=37%  Similarity=0.678  Sum_probs=56.0

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDME   60 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~   60 (128)
                      +|||+|||+||+++||||+.+++|||||||||||+|+||+||++.  ++|||+||+|+|+.
T Consensus        21 ~ltl~~Iy~~I~~~~pyy~~~~~~WknSIRHnLS~n~~F~kv~~~~~~~gkg~~W~i~~~~   81 (89)
T smart00339       21 RLTLSEIYKWIEDNFPYYRENRAGWQNSIRHNLSLNDCFVKVPREGDRPGKGSYWTLDPDA   81 (89)
T ss_pred             CeeHHHHHHHHHHhCchhhcCccccccccccccchhhceeecCcCCCCCCCCCEEEECccH
Confidence            799999999999999999999999999999999999999999985  46999999999974

FORKHEAD, also known as a "winged helix"

>KOG3563|consensus

Probab=99.94  E-value=2.4e-28  Score=205.74  Aligned_cols=76  Identities=32%  Similarity=0.533  Sum_probs=67.1

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhhcccccccccccc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASKSNWVSIKVTGVK   79 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~~~~~~rk~~~~~   79 (128)
                      +|||+|||+||++.|||||.+...|||||||.||+|+||+||+|.  -+|||+||++.|+  ...+|...+.-||++++|
T Consensus       193 mLTLSEIYqwIMDLFPyYrqNQQRWQNSIRHSLSFNDCFVKVaRSPDKPGKGSfWTLHpd--sGNMFENGCYLRRQKRFK  270 (454)
T KOG3563|consen  193 MLTLSEIYQWIMDLFPYYRQNQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSFWTLHPD--SGNMFENGCYLRRQKRFK  270 (454)
T ss_pred             ceeHHHHHHHHHHhhhHhhhhHHHHHhhhhhhccccceeeeccCCCCCCCCccceeecCC--cCcccccchhehhhhhhh
Confidence            699999999999999999999999999999999999999999996  4899999999996  467776666666665554

>KOG2294|consensus

Probab=99.93  E-value=6.8e-27  Score=196.38  Aligned_cols=66  Identities=35%  Similarity=0.615  Sum_probs=58.4

Q ss_pred             CcccHHHHHHHHHh-cCCCccCCC-cchhhhhhhhcccCcccccccccC--CCCcceEeeCCCchHHHhhh
Q psy15415          1 MALTANLRLFFHRE-RFPYYNQND-DRWKNSVRHNLSINPHFRKGVKAS--QGAGHLWNLSDMEPVEDASK   67 (128)
Q Consensus         1 ~rLTL~eIY~~I~~-~fPyyr~~~-~gWkNSIRHNLSln~~F~Kv~r~~--~Gkg~~W~i~~~~~~e~~~~   67 (128)
                      .+|||+|||+||.. +|||||.+. .|||||||||||||+||+||+++.  +|||+||+|||+. ...+|.
T Consensus       149 krLtLs~Iy~~i~~~~fpyyr~~~~~gWqNSIRHNLSLn~cF~Kvpr~~~~~gKg~~W~ldP~~-~~~~~~  218 (454)
T KOG2294|consen  149 KRLTLGGIYFYILLEHFPYYRDANMPGWKNSIRHNLSLNKCFVKVPRERGRPGKGNYWTLDPDD-ENNMFD  218 (454)
T ss_pred             cceeecCeeEEEEeccccccccCCCccchhhcccccccccCccccCCcccCCCCCCccccCcch-hccccc
Confidence            38999999999995 999999999 999999999999999999999963  6999999999962 332555

>KOG3562|consensus

Probab=99.92  E-value=2e-26  Score=184.41  Aligned_cols=67  Identities=36%  Similarity=0.592  Sum_probs=61.1

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhhccc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASKSNW   70 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~~~~   70 (128)
                      +|.|+|||+||+++|||||.+...||||+|||||+|+||+||||+  .+|||+||++.|.  +-++|..+.
T Consensus        33 mLPLseIYkfImDrFPfYRkNTQrWQNSLRHNLSFNDCFIKiPRr~drpGKGsyWalHP~--a~dMFENGS  101 (277)
T KOG3562|consen   33 MLPLSEIYKFIMDRFPFYRKNTQRWQNSLRHNLSFNDCFIKIPRRPDRPGKGSYWALHPS--AFDMFENGS  101 (277)
T ss_pred             cCcHHHHHHHHHhhCchhhhchHHHHHHhhccccccceeeecCCCCCCCCCccceeeccc--hhhhcccch
Confidence            588999999999999999999999999999999999999999996  5899999999995  667776544

>COG5025 Transcription factor of the Forkhead/HNF3 family [Transcription]

Probab=99.68  E-value=5.6e-18  Score=150.79  Aligned_cols=66  Identities=32%  Similarity=0.585  Sum_probs=61.1

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhh
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASK   67 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~   67 (128)
                      +|+|.+||.||..+|||||.++.+|+||||||||+|++|.|||++  ++|||+||.|++++..+...+
T Consensus       357 kmsls~Iy~~i~s~~pyYr~~p~~w~nSiRhnlSlNksf~kvP~sa~~pGKg~fw~i~~s~~~~~~sk  424 (610)
T COG5025         357 KMTLSEIYSWISSNLPYYRHKPTAWQNSIRHNLSLNKSFEKVPRSASQPGKGCFWKIDYSYIYEKESK  424 (610)
T ss_pred             ccccccccccccccchhhccCCcccCchhhhhhhhccccccCCCCcCCCCCcccCccChhhhhhhccc
Confidence            589999999999999999999999999999999999999999997  589999999999876666554

>KOG4385|consensus

Probab=99.65  E-value=1.1e-17  Score=145.42  Aligned_cols=55  Identities=33%  Similarity=0.623  Sum_probs=52.3

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCcccccccccCCCCcceEeeCCC
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDM   59 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~~~   59 (128)
                      +|||+|||.|+++.|.|||.+.+.|||+||||||+++||++|+.   -||.-|++|+.
T Consensus       388 QLTLNEIY~WFTrtFAYFRRNaATWKnAVRHNLSLHKCF~RVEn---vkgavwtvDe~  442 (581)
T KOG4385|consen  388 QLTLNEIYNWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN---VKGAVWTVDER  442 (581)
T ss_pred             hccHHHHHHHHHHHHHHHhccchhHhHHHhhhhHHHHHHHHHHH---Hhcceeeeehh
Confidence            69999999999999999999999999999999999999999877   48999999984

>COG5025 Transcription factor of the Forkhead/HNF3 family [Transcription]

Probab=99.10  E-value=1.2e-11  Score=110.61  Aligned_cols=65  Identities=32%  Similarity=0.506  Sum_probs=57.5

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhh
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASK   67 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~   67 (128)
                      .|||..||.||-..|.||.....+|+|||||||++++.|.||.+.  ..++|.||.|.|.. .+.+++
T Consensus       106 ~lt~s~~~~~~~~~~~~~~k~~~~~~~sIr~Nls~~~a~~~i~g~~g~~~~g~~~~igP~~-~~~~l~  172 (610)
T COG5025         106 PLTLSKIYTWIHNTFFYYAKVVSRWQNSIRHNLSLNDAFIKIEGRNGAKVKGHFWSIGPGH-ETQFLK  172 (610)
T ss_pred             CCcccceeeeeeecccccccccchhhhhhhcccccCceEEEEeccCCccccceeeccCCCc-cceeec
Confidence            689999999999999999999999999999999999999999876  35999999999973 333433

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	128
1d5v_A	94	Solution Structure Of The Forkhead Domain Of The Ad		2e-05
2kiu_A	87	Solution Structure And Backbone Dynamics Of The Dna		4e-05
2a3s_A	101	Solution Structure And Dynamics Of Dna-Binding Doma		4e-05
1vtn_C	102	Co-Crystal Structure Of The Hnf-3FORK HEAD DNA-Reco		5e-05
2hfh_A	109	The Nmr Structures Of A Winged Helix Protein: Genes		8e-05
2c6y_A	111	Crystal Structure Of Interleukin Enhancer-Binding F		9e-05
2hdc_A	97	Structure Of Transcription Factor GenesisDNA COMPLE		1e-04
1jxs_A	98	Solution Structure Of The Dna-Binding Domain Of Int		1e-04

>pdb|1D5V|A Chain A, Solution Structure Of The Forkhead Domain Of The Adipocyte- Transcription Factor Freac-11 (S12) Length = 94

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 3  LTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNLS 57
          +T N    F  +RFP+Y +N   W+NS+RHNLS+N  F K  +  +  G G  W L 
Sbjct: 25 ITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECFVKVPRDDKKPGKGSYWTLD 81

>pdb|2KIU|A Chain A, Solution Structure And Backbone Dynamics Of The Dna-Binding Domain Of Foxp1: Insight Into Its Domain Swapping Length = 87

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 29/45 (64%), Gaps = 3/45 (6%)
Query: 16 FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME 60
          FPY+ +N   WKN+VRHNLS++ +F   V+     G +W + ++E
Sbjct: 38 FPYFRRNAATWKNAVRHNLSLHKYF---VRVENVKGAVWTVDEVE 79

>pdb|2A3S|A Chain A, Solution Structure And Dynamics Of Dna-Binding Domain Of Myocyte Nuclear Factor Length = 101

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 16 FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL---SDMEPVEDA 65
          +PYY   D  W+NS+RHNLS+N +F K  ++ +  G G  W +   S+ + VE A
Sbjct: 37 YPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPASEAKLVEQA 91

>pdb|1VTN|C Chain C, Co-Crystal Structure Of The Hnf-3FORK HEAD DNA-Recognition Motif Resembles Histone H5 Length = 102

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 16 FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
          FPYY +N  RW+NS+RH+LS N  F K  ++    G G  W L
Sbjct: 37 FPYYRENQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSYWAL 79

>pdb|2HFH|A Chain A, The Nmr Structures Of A Winged Helix Protein: Genesis, 20 Structures Length = 109

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVK--ASQGAGHLWNL 56
          F   RFPYY +    W+NS+RHNLS+N  F K  +   + G G+ W L
Sbjct: 32 FISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTL 79

>pdb|2C6Y|A Chain A, Crystal Structure Of Interleukin Enhancer-Binding Factor 1 Bound To Dna Length = 111

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 16  FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL---SDMEPVEDA 65
           +PYY   D  W+NS+RHNLS+N +F K  ++ +  G G  W +   S+ + +E A
Sbjct: 50  YPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQA 104

>pdb|2HDC|A Chain A, Structure Of Transcription Factor GenesisDNA COMPLEX Length = 97

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVK--ASQGAGHLWNL 56
          F   RFPYY +    W+NS+RHNLS+N  F K  +   + G G+ W L
Sbjct: 31 FISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTL 78

>pdb|1JXS|A Chain A, Solution Structure Of The Dna-Binding Domain Of Interleukin Enhancer Binding Factor Length = 98

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 16 FPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
          +PYY   D  W+NS+RHNLS+N +F K  ++ +  G G  W +
Sbjct: 37 YPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRI 79

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	128
2a07_F	93	Forkhead box protein P2; double-helix, swapping, h	3e-13
1vtn_C	102	HNF-3/FORK head DNA-recognition motif; protein-DNA	1e-12
2hfh_A	109	Genesis, HFH-2; HNF-3 homologues, winged helix pro	2e-12
1kq8_A	100	HFH-1, hepatocyte nuclear factor 3 forkhead homolo	2e-12
2hdc_A	97	Protein (transcription factor); structure, dyanami	3e-12
2c6y_A	111	Forkhead box protein K2; transcription regulation,	4e-12
3bpy_A	85	FORK head domain, forkhead transcription factor FO	2e-11
3g73_A	142	Forkhead box protein M1; DNA-binding domain, forkh	3e-11
3l2c_A	110	Forkhead box protein O4; winged helix, transcripti	5e-11
1e17_A	150	AFX; DNA binding domain, winged helix; NMR {Homo s	2e-09
3coa_C	117	Forkhead box protein O1; winged helix, forkhead do	3e-09

>2a07_F Forkhead box protein P2; double-helix, swapping, homodimer, monomer, winged-helix, magnesium, transcription/DNA complex; 1.90A {Homo sapiens} SCOP: a.4.5.14 PDB: 2as5_F 2kiu_A 3qrf_F Length = 93

 Score = 60.0 bits (146), Expect = 3e-13
 Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 3/47 (6%)

Query: 14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME 60
            F Y+ +N   WKN+VRHNLS++  F   V+     G +W + ++E
Sbjct: 35 RTFAYFRRNAATWKNAVRHNLSLHKCF---VRVENVKGAVWTVDEVE 78

>1vtn_C HNF-3/FORK head DNA-recognition motif; protein-DNA complex, double helix, transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} PDB: 1d5v_A Length = 102

 Score = 58.8 bits (143), Expect = 1e-12
 Identities = 20/48 (41%), Positives = 28/48 (58%), Gaps = 2/48 (4%)

Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
          +  + FPYY +N  RW+NS+RH+LS N  F K  ++    G G  W L
Sbjct: 32 WIMDLFPYYRENQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSYWAL 79

>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus norvegicus} SCOP: a.4.5.14 Length = 109

 Score = 58.1 bits (141), Expect = 2e-12
 Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
          F   RFPYY +    W+NS+RHNLS+N  F K  +     G G+ W L
Sbjct: 32 FISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTL 79

>1kq8_A HFH-1, hepatocyte nuclear factor 3 forkhead homolog 1, winged; winged helix protein, structure, transcription; NMR {Rattus norvegicus} SCOP: a.4.5.14 Length = 100

 Score = 57.7 bits (140), Expect = 2e-12
 Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 3/49 (6%)

Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS---QGAGHLWNL 56
          +   +FP++  +   W+NSVRHNLS+N  F K ++      G  + W L
Sbjct: 31 YLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKDNYWML 79

>2hdc_A Protein (transcription factor); structure, dyanamics, genesis, winged helix protein, protein/DNA complex; HET: DNA; NMR {Rattus norvegicus} SCOP: a.4.5.14 Length = 97

 Score = 57.6 bits (140), Expect = 3e-12
 Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
          F   RFPYY +    W+NS+RHNLS+N  F K  +     G G+ W L
Sbjct: 31 FISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTL 78

>2c6y_A Forkhead box protein K2; transcription regulation, DNA-binding domain, forkhead transcription factors, interleukin enhancer binding factor; 2.4A {Homo sapiens} SCOP: a.4.5.14 PDB: 1jxs_A 2a3s_A 2d2w_A Length = 111

 Score = 57.7 bits (140), Expect = 4e-12
 Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 2/48 (4%)

Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
             + +PYY   D  W+NS+RHNLS+N +F K  ++ +  G G  W +
Sbjct: 45 HITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRI 92

>3bpy_A FORK head domain, forkhead transcription factor FOXO4, DNA binding domain; forkhead BOX, winged helix; 1.87A {Homo sapiens} SCOP: a.4.5.14 Length = 85

 Score = 55.0 bits (133), Expect = 2e-11
 Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)

Query: 14 ERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
             PY+     + +   WKNS+RHNLS++  F K    + G    W L
Sbjct: 37 RTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWML 84

>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens} Length = 142

 Score = 56.0 bits (135), Expect = 3e-11
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)

Query: 14 ERFPYY-NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
          + FPY+ +     WKNS+RHNLS++  F +   ++ G    W +
Sbjct: 50 DHFPYFKHIAKPGWKNSIRHNLSLHDMFVR-ETSANGKVSFWTI 92

>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP; 1.87A {Homo sapiens} PDB: 3co6_C* Length = 110

 Score = 54.4 bits (131), Expect = 5e-11
 Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)

Query: 14  ERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
              PY+     + +   WKNS+RHNLS++  F K    + G    W L
Sbjct: 56  RTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWML 103

>3coa_C Forkhead box protein O1; winged helix, forkhead domain, chromosomal rearrangement; HET: DNA; 2.20A {Homo sapiens} PDB: 3co7_C* 2k86_A 2uzk_A Length = 117

 Score = 50.2 bits (120), Expect = 3e-09
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 5/48 (10%)

Query: 14 ERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
          +  PY+     + +   WKNS+RHNLS++  F +      G    W L
Sbjct: 43 KSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIRVQNEGTGKSSWWML 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	128
1vtn_C	102	HNF-3/FORK head DNA-recognition motif; protein-DNA	99.98
2hdc_A	97	Protein (transcription factor); structure, dyanami	99.97
2c6y_A	111	Forkhead box protein K2; transcription regulation,	99.97
2hfh_A	109	Genesis, HFH-2; HNF-3 homologues, winged helix pro	99.97
1kq8_A	100	HFH-1, hepatocyte nuclear factor 3 forkhead homolo	99.97
3bpy_A	85	FORK head domain, forkhead transcription factor FO	99.97
3l2c_A	110	Forkhead box protein O4; winged helix, transcripti	99.97
3coa_C	117	Forkhead box protein O1; winged helix, forkhead do	99.96
1e17_A	150	AFX; DNA binding domain, winged helix; NMR {Homo s	99.96
2a07_F	93	Forkhead box protein P2; double-helix, swapping, h	99.95
3g73_A	142	Forkhead box protein M1; DNA-binding domain, forkh	99.94

>1vtn_C HNF-3/FORK head DNA-recognition motif; protein-DNA complex, double helix, transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} PDB: 1d5v_A

Probab=99.98  E-value=7.4e-34  Score=201.89  Aligned_cols=75  Identities=29%  Similarity=0.516  Sum_probs=65.5

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhhccccccccccc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASKSNWVSIKVTGV   78 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~~~~~~rk~~~~   78 (128)
                      +|||+|||+||+++||||+.++.|||||||||||||+||+||+++  ++|||+||+|+|+  .++.|..+...|++++.
T Consensus        23 ~LtL~eIY~~I~~~fpyyr~~~~gWqNSIRHNLSln~~F~kv~r~~~~~GKG~~W~l~p~--~~~~f~~g~~~rr~~~~   99 (102)
T 1vtn_C           23 MLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSYWALHPS--SGNMFENGCYLRRQKRF   99 (102)
T ss_dssp             CBCHHHHHHHHHHHCGGGGSCHHHHHHHHHHHHHHCTTEEEECCCSCSSCSSCEEEECGG--GCSTTCSSCSSSCSSCC
T ss_pred             CCcHHHHHHHHHHcCCccccCCCchhhhhhhhhhhccceEecCCCCCCCCCcceEEECcC--HHHHhhcCCeecccccc
Confidence            699999999999999999999999999999999999999999985  5799999999996  46677766555555443

>2hdc_A Protein (transcription factor); structure, dyanamics, genesis, winged helix protein, protein/DNA complex; HET: DNA; NMR {Rattus norvegicus} SCOP: a.4.5.14

Probab=99.97  E-value=7.7e-34  Score=200.22  Aligned_cols=71  Identities=35%  Similarity=0.557  Sum_probs=62.9

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhhccccccc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASKSNWVSIK   74 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~~~~~~rk   74 (128)
                      +|||+|||+||+++||||+.++.|||||||||||||+||+||+++  ++|||+||+|+|+  .++.|..+..+|+
T Consensus        22 ~ltL~eIY~~i~~~fpyyr~~~~gWqNSIRHNLSln~~F~Kv~r~~~~~gKg~~W~l~p~--~~~~f~~g~~~rr   94 (97)
T 2hdc_A           22 KLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDPQ--SEDMFDNGSFLRR   94 (97)
T ss_dssp             CBCHHHHHHHHHHHCHHHHHHCSSHHHHHHHHHHHHHCCEEECSCTTCSSSCCEEECCTT--HHHHHHHSCCCSS
T ss_pred             CCCHHHHHHHHHHhchhhccCCcceehhhhhhhhhhhheeecCCCCCCCCCcceEEECcC--HHHHHhCCCccCC
Confidence            799999999999999999999999999999999999999999986  5799999999996  5677765444333

>2c6y_A Forkhead box protein K2; transcription regulation, DNA-binding domain, forkhead transcription factors, interleukin enhancer binding factor; 2.4A {Homo sapiens} SCOP: a.4.5.14 PDB: 1jxs_A 2a3s_A 2d2w_A

Probab=99.97  E-value=2.5e-33  Score=201.84  Aligned_cols=58  Identities=36%  Similarity=0.678  Sum_probs=55.7

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCC
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDM   59 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~   59 (128)
                      +|||+|||+||+++||||+.++.|||||||||||||+||+||+++  ++|||+||+|+|+
T Consensus        36 ~LtL~eIY~~I~~~fPyyr~~~~gWqNSIRHNLSln~~F~Kv~r~~~~~GKG~~W~l~p~   95 (111)
T 2c6y_A           36 QLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPA   95 (111)
T ss_dssp             CEEHHHHHHHHHHHCTTSCTTCHHHHHHHHHHHHHSTTEEEECCCTTSCCSSCEEEECHH
T ss_pred             CCcHHHHHHHHHHcCCccccCCCeeecchhHHhhhhhhhccccCCCCCCCCcceEEeChh
Confidence            699999999999999999999999999999999999999999985  5899999999995

>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus norvegicus} SCOP: a.4.5.14

Probab=99.97  E-value=1.9e-33  Score=201.96  Aligned_cols=72  Identities=35%  Similarity=0.540  Sum_probs=62.0

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhhcccccccc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASKSNWVSIKV   75 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~~~~~~rk~   75 (128)
                      +|||+|||+||+++||||+.+++|||||||||||||+||+||+++  ++|||+||+|+|+  .++.|.++..+|++
T Consensus        23 ~LtL~eIY~~I~~~fPyyr~~~~gWqNSIRHNLSln~~F~Kv~r~~~~~GKG~~W~l~p~--~~~~f~~g~~~Rrr   96 (109)
T 2hfh_A           23 KLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDPQ--SEDMFDNGSFLRRR   96 (109)
T ss_dssp             CBCHHHHHHHHHTTCHHHHTTCGGGHHHHHHHHHHHTCCBCCTTCTTSCSSCCCBBCCTT--CCHHHHSSSCC---
T ss_pred             CCcHHHHHHHHHHhcchhccCCcccchhhhhhhhhhhhhhcCCCCCCCCCCceeEEECcc--HHHHHhCCCcccCc
Confidence            799999999999999999999999999999999999999999986  5899999999996  45667654444443

>1kq8_A HFH-1, hepatocyte nuclear factor 3 forkhead homolog 1, winged; winged helix protein, structure, transcription; NMR {Rattus norvegicus} SCOP: a.4.5.14

Probab=99.97  E-value=4.7e-33  Score=197.15  Aligned_cols=71  Identities=28%  Similarity=0.447  Sum_probs=54.5

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCcccccccccC--C-CCcceEeeCCCchHHHhhhccccccc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS--Q-GAGHLWNLSDMEPVEDASKSNWVSIK   74 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~~--~-Gkg~~W~i~~~~~~e~~~~~~~~~rk   74 (128)
                      +|||+|||+||+++||||+.+.+|||||||||||||+||+||+++.  + |||+||+|+|+  .+..|..+..+|+
T Consensus        22 ~ltL~eIY~~i~~~fpyyr~~~~gWqNSIRHNLSln~~F~kv~r~~~~p~gkg~~W~l~p~--~~~~f~~g~~~rr   95 (100)
T 1kq8_A           22 RLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKDNYWMLNPN--SEYTFADGVFRRR   95 (100)
T ss_dssp             CBCHHHHHHHHHHHCTTGGGTCSCCHHHHHHHHHHHTCCEECSSCSCCSSSCCCCEECCC----------------
T ss_pred             CCcHHHHHHHHHHhCccccCCCCceecccchheehhheeeecCCCCCCCCCCCeEEEECcC--HHHHHhCCCcccC
Confidence            7999999999999999999999999999999999999999999863  3 99999999996  5666765444443

>3bpy_A FORK head domain, forkhead transcription factor FOXO4, DNA binding domain; forkhead BOX, winged helix; 1.87A {Homo sapiens}

Probab=99.97  E-value=6.1e-32  Score=186.41  Aligned_cols=56  Identities=32%  Similarity=0.587  Sum_probs=53.4

Q ss_pred             cccHHHHHHHHHhcCCCccCC-----CcchhhhhhhhcccCcccccccccCCCCcceEeeC
Q psy15415          2 ALTANLRLFFHRERFPYYNQN-----DDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLS   57 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~-----~~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~   57 (128)
                      +|||+|||+||+++||||+.+     ..|||||||||||||+||+||+++++|||+||+||
T Consensus        25 ~ltL~eIY~~i~~~fpyy~~~~~~~s~~gWqNSIRHNLSln~~F~Kv~r~~~GKg~~W~ld   85 (85)
T 3bpy_A           25 RLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWMLN   85 (85)
T ss_dssp             CBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCCSTTCCCEEEEC
T ss_pred             CccHHHHHHHHHHhCcchhcCccCccCCCcchhhhhhccHhhhheeCCCCCCCCCCceecC
Confidence            699999999999999999976     46999999999999999999999999999999997

>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP; 1.87A {Homo sapiens} SCOP: a.4.5.14 PDB: 3co6_C*

Probab=99.97  E-value=1.7e-31  Score=191.98  Aligned_cols=59  Identities=31%  Similarity=0.537  Sum_probs=53.8

Q ss_pred             cccHHHHHHHHHhcCCCccCC-----CcchhhhhhhhcccCcccccccccCCCCcceEeeCCCc
Q psy15415          2 ALTANLRLFFHRERFPYYNQN-----DDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME   60 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~-----~~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~~~~   60 (128)
                      +|||+|||+||+++||||+.+     ..|||||||||||||+||+||+++++|||+||+|||+.
T Consensus        44 ~LtL~eIY~~I~~~fPyyr~~~~~~s~~gWqNSIRHNLSln~~F~Kv~r~~~GKG~~W~l~p~~  107 (110)
T 3l2c_A           44 RLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWMLNPEG  107 (110)
T ss_dssp             CBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCCSTTCCCEEEEC---
T ss_pred             CcCHHHHHHHHHHhCchhhcCccccCCCCcccchhhhccHhhhheeCCCCCCCCCceEEECccc
Confidence            699999999999999999976     47999999999999999999999999999999999963

>3coa_C Forkhead box protein O1; winged helix, forkhead domain, chromosomal rearrangement; HET: DNA; 2.20A {Homo sapiens} PDB: 3co7_C* 2k86_A 2uzk_A

Probab=99.96  E-value=2.1e-31  Score=193.34  Aligned_cols=59  Identities=29%  Similarity=0.543  Sum_probs=55.2

Q ss_pred             cccHHHHHHHHHhcCCCccCCC-----cchhhhhhhhcccCcccccccccCCCCcceEeeCCCc
Q psy15415          2 ALTANLRLFFHRERFPYYNQND-----DRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME   60 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~-----~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~~~~   60 (128)
                      +|||+|||+||+++||||+.++     .|||||||||||||+||+||+++++|||+||+|+|+.
T Consensus        31 ~LTL~eIY~~I~~~fPyyr~~~d~~s~~gWqNSIRHNLSln~~F~Kv~~~~~GKg~~W~l~p~~   94 (117)
T 3coa_C           31 RLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIRVQNEGTGKSSWWMLNPEG   94 (117)
T ss_dssp             CBCHHHHHHHHHHHCGGGTTCCSHHHHHHHHHHHHHHHHHCTTEEEECCSSTTCCCEEEECC--
T ss_pred             CccHHHHHHHHHHhCcccccCCCCcccccchhccchheecchhhcccccCCCCCcceEEECccc
Confidence            7999999999999999999876     7999999999999999999999989999999999974

>2a07_F Forkhead box protein P2; double-helix, swapping, homodimer, monomer, winged-helix, magnesium, transcription/DNA complex; 1.90A {Homo sapiens} SCOP: a.4.5.14 PDB: 2as5_F 2kiu_A 3qrf_F

Probab=99.95  E-value=1.1e-30  Score=182.97  Aligned_cols=55  Identities=33%  Similarity=0.645  Sum_probs=52.5

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCcccccccccCCCCcceEeeCCC
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDM   59 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~~~   59 (128)
                      +|||+|||+||+++||||+.+++|||||||||||+|+||+||++   |||+||+|||+
T Consensus        23 ~ltL~eIY~~i~~~fpyyr~~~~gWkNSIRHNLSln~~F~kv~~---gkG~~W~l~~~   77 (93)
T 2a07_F           23 QLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN---VKGAVWTVDEV   77 (93)
T ss_dssp             CBCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCTTBCCEEC---SSSEECCBCHH
T ss_pred             CccHHHHHHHHHHhCCccccCCCccccccceeeehhhceeecCC---CCCCeeEEChH
Confidence            79999999999999999999999999999999999999999974   89999999984

>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}

Probab=99.94  E-value=1.9e-28  Score=182.88  Aligned_cols=58  Identities=28%  Similarity=0.619  Sum_probs=54.2

Q ss_pred             cccHHHHHHHHHhcCCCccC-CCcchhhhhhhhcccCcccccccccCCCCcceEeeCCCc
Q psy15415          2 ALTANLRLFFHRERFPYYNQ-NDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME   60 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~-~~~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~~~~   60 (128)
                      +|||+|||+||+++||||+. +..|||||||||||||+||+|+. +++|||+||+|+|+.
T Consensus        38 ~LTL~eIY~~I~~~fPyyr~~~~~gWqNSIRHNLSln~~F~r~~-~~~GKg~~W~i~p~~   96 (142)
T 3g73_A           38 RMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDMFVRET-SANGKVSFWTIHPSA   96 (142)
T ss_dssp             EECHHHHHHHHHHHCTHHHHTSCTTHHHHHHHHHHHCTTEEEEE-CTTSCCEEEEECTTT
T ss_pred             CcCHHHHHHHHHHhCCCccccCCCCccchhhhhhhhhhhheecC-CCCCCCceEEECccc
Confidence            69999999999999999998 88999999999999999999964 468999999999985

---

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	128
d1kq8a_	75	a.4.5.14 (A:) HFH-1 (HNF-3 forkhead homolog-1) {Ra	4e-09
d2a07f1	82	a.4.5.14 (F:503-584) Forkhead box protein P2, FOXP	1e-08
d2c6ya1	98	a.4.5.14 (A:1-98) Interleukin enhancer binding fac	2e-08
d2hdca_	97	a.4.5.14 (A:) Genesis {Rat (Rattus norvegicus) [Ta	6e-08
d1d5va_	94	a.4.5.14 (A:) Adipocyte-transcription factor FREAC	3e-07
d3bpya1	85	a.4.5.14 (A:93-177) Afx (Foxo4) {Human (Homo sapie	5e-07

>d1kq8a_ a.4.5.14 (A:) HFH-1 (HNF-3 forkhead homolog-1) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 75

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: HFH-1 (HNF-3 forkhead homolog-1)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 47.6 bits (113), Expect = 4e-09
 Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 3/47 (6%)

Query: 13 RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA---SQGAGHLWNL 56
            +FP++  +   W+NSVRHNLS+N  F K ++      G  + W L
Sbjct: 27 MGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKDNYWML 73

>d2a07f1 a.4.5.14 (F:503-584) Forkhead box protein P2, FOXP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Forkhead box protein P2, FOXP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.7 bits (111), Expect = 1e-08
 Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 3/48 (6%)

Query: 13 RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME 60
             F Y+ +N   WKN+VRHNLS++  F   V+     G +W + ++E
Sbjct: 33 TRTFAYFRRNAATWKNAVRHNLSLHKCF---VRVENVKGAVWTVDEVE 77

>d2c6ya1 a.4.5.14 (A:1-98) Interleukin enhancer binding factor {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Interleukin enhancer binding factor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.4 bits (110), Expect = 2e-08
 Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 2/46 (4%)

Query: 13 RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
           + +PYY   D  W+NS+RHNLS+N +F K  ++ +  G G  W +
Sbjct: 34 TKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRI 79

>d2hdca_ a.4.5.14 (A:) Genesis {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 97

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Genesis
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 45.3 bits (107), Expect = 6e-08
 Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 2/46 (4%)

Query: 13 RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
            RFPYY +    W+NS+RHNLS+N  F K  +     G G+ W L
Sbjct: 33 SNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTL 78

>d1d5va_ a.4.5.14 (A:) Adipocyte-transcription factor FREAC-11 (s12, fkh-14) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Adipocyte-transcription factor FREAC-11 (s12, fkh-14)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.3 bits (102), Expect = 3e-07
 Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 2/46 (4%)

Query: 13 RERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS--QGAGHLWNL 56
           +RFP+Y +N   W+NS+RHNLS+N  F K  +     G G  W L
Sbjct: 35 MDRFPFYRENKQGWQNSIRHNLSLNECFVKVPRDDKKPGKGSYWTL 80

>d3bpya1 a.4.5.14 (A:93-177) Afx (Foxo4) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Afx (Foxo4)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.6 bits (100), Expect = 5e-07
 Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 5/48 (10%)

Query: 14 ERFPYYNQNDDR-----WKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
             PY+    D      WKNS+RHNLS++  F K    + G    W L
Sbjct: 37 RTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWML 84

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	128
d2c6ya1	98	Interleukin enhancer binding factor {Human (Homo s	99.97
d1kq8a_	75	HFH-1 (HNF-3 forkhead homolog-1) {Rat (Rattus norv	99.97
d2hdca_	97	Genesis {Rat (Rattus norvegicus) [TaxId: 10116]}	99.96
d3bpya1	85	Afx (Foxo4) {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1d5va_	94	Adipocyte-transcription factor FREAC-11 (s12, fkh-	99.96
d2a07f1	82	Forkhead box protein P2, FOXP2 {Human (Homo sapien	99.95

>d2c6ya1 a.4.5.14 (A:1-98) Interleukin enhancer binding factor {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Interleukin enhancer binding factor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=6.6e-33  Score=194.03  Aligned_cols=58  Identities=36%  Similarity=0.678  Sum_probs=55.4

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCC
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDM   59 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~   59 (128)
                      +|||+|||+||+++||||+.+++|||||||||||+|+||+||+++  ++|||+||+|+|+
T Consensus        23 ~ltL~eIy~~i~~~fpyfr~~~~gWkNSIRHnLS~n~~F~kv~r~~~~~gKg~~W~l~p~   82 (98)
T d2c6ya1          23 QLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPA   82 (98)
T ss_dssp             CEEHHHHHHHHHHHCTTSCTTCHHHHHHHHHHHHHSTTEEEECCCTTSCCSSCEEEECHH
T ss_pred             CccHHHHHHHHHHhCcccccCCCCcchhhchhcccccceEeccCCCCCCCCCceEEECcc
Confidence            699999999999999999999999999999999999999999985  5799999999986

>d1kq8a_ a.4.5.14 (A:) HFH-1 (HNF-3 forkhead homolog-1) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: HFH-1 (HNF-3 forkhead homolog-1)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.97  E-value=1.3e-32  Score=184.47  Aligned_cols=57  Identities=33%  Similarity=0.580  Sum_probs=54.2

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCcccccccccC---CCCcceEeeCC
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS---QGAGHLWNLSD   58 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~~---~Gkg~~W~i~~   58 (128)
                      +|||+|||+||+++|||||.+..|||||||||||+|+||+||++++   .|||+||+|+|
T Consensus        16 ~ltL~eIy~~i~~~fpy~r~~~~gWkNSIRHnLS~n~~F~kv~r~~~~~~gKg~~W~l~P   75 (75)
T d1kq8a_          16 RLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKDNYWMLNP   75 (75)
T ss_dssp             CBCHHHHHHHHHHHCTTGGGTCSCCHHHHHHHHHHHTCCEECSSCSCCSSSCCCCEECCC
T ss_pred             CccHHHHHHHHHHhCcccccCCccchhHhhecccccceeEecCCCCCCCCCCccEEEeCc
Confidence            6999999999999999999999999999999999999999999964   39999999997

>d2hdca_ a.4.5.14 (A:) Genesis {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Genesis
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.96  E-value=3.4e-32  Score=190.08  Aligned_cols=65  Identities=38%  Similarity=0.632  Sum_probs=59.3

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhhc
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASKS   68 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~~   68 (128)
                      +|||+|||+||+++||||+.+++|||||||||||+|+||+||+++  ++|||+||+|+|+  .+..|..
T Consensus        22 ~ltL~eIY~~i~~~fpyfr~~~~gWkNSIRHnLSln~~F~kv~~~~~~~gKg~~W~l~p~--~~~~~~~   88 (97)
T d2hdca_          22 KLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDPQ--SEDMFDN   88 (97)
T ss_dssp             CBCHHHHHHHHHHHCHHHHHHCSSHHHHHHHHHHHHHCCEEECSCTTCSSSCCEEECCTT--HHHHHHH
T ss_pred             CccHHHHHHHHHHhCccccCCCCCchhhhhhhcchhhhhcccCCCCCCCCCCcEEEECcc--HHHHhhc
Confidence            699999999999999999999999999999999999999999986  4799999999996  5566653

>d3bpya1 a.4.5.14 (A:93-177) Afx (Foxo4) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Afx (Foxo4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=3.5e-31  Score=181.21  Aligned_cols=56  Identities=32%  Similarity=0.587  Sum_probs=52.9

Q ss_pred             cccHHHHHHHHHhcCCCccCC-----CcchhhhhhhhcccCcccccccccCCCCcceEeeC
Q psy15415          2 ALTANLRLFFHRERFPYYNQN-----DDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLS   57 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~-----~~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~   57 (128)
                      +|||+|||+||+++|||||..     ..|||||||||||+|+||+||+++++|||+||+||
T Consensus        25 ~ltL~eIY~~i~~~fPyyr~~~~~~~~~gWkNSIRHnLSl~~~F~kv~r~~~gKg~~W~i~   85 (85)
T d3bpya1          25 RLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWMLN   85 (85)
T ss_dssp             CBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCCSTTCCCEEEEC
T ss_pred             CccHHHHHHHHHHhChhhhccCcccccccchhhHHHHhhHhhheeeCCCCCCCCCceeecC
Confidence            799999999999999999954     36999999999999999999999999999999997

>d1d5va_ a.4.5.14 (A:) Adipocyte-transcription factor FREAC-11 (s12, fkh-14) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Adipocyte-transcription factor FREAC-11 (s12, fkh-14)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2e-31  Score=185.25  Aligned_cols=64  Identities=36%  Similarity=0.644  Sum_probs=58.0

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCccccccccc--CCCCcceEeeCCCchHHHhhh
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDMEPVEDASK   67 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~--~~Gkg~~W~i~~~~~~e~~~~   67 (128)
                      +|||+|||+||+++|||||.++.|||||||||||+|+||+||+++  .+|||+||+|+|+.  +..|.
T Consensus        24 ~ltL~eIY~~i~~~fpyfr~~~~gWkNSIRHnLSln~~F~kv~~~~~~~gkg~~W~l~p~~--~~~f~   89 (94)
T d1d5va_          24 KITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECFVKVPRDDKKPGKGSYWTLDPDS--YNMFE   89 (94)
T ss_dssp             SBCHHHHHHHHHHHCTHHHHCCTTHHHHHHHHHHHCSSEEECCCCTTSCSCCCCEEECCSC--SSTTS
T ss_pred             CccHHHHHHHHHHHCCccCccccchHHHHHHHccccceEEEcCcCCCCCCCCceEEECccH--HHHHh
Confidence            699999999999999999999999999999999999999999985  46999999999973  44443

>d2a07f1 a.4.5.14 (F:503-584) Forkhead box protein P2, FOXP2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Forkhead DNA-binding domain
domain: Forkhead box protein P2, FOXP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.9e-30  Score=176.45  Aligned_cols=55  Identities=33%  Similarity=0.645  Sum_probs=52.5

Q ss_pred             cccHHHHHHHHHhcCCCccCCCcchhhhhhhhcccCcccccccccCCCCcceEeeCCC
Q psy15415          2 ALTANLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDM   59 (128)
Q Consensus         2 rLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSln~~F~Kv~r~~~Gkg~~W~i~~~   59 (128)
                      +|||+|||+||+++||||+.+++|||||||||||+|+||+||++   |||+||+|||+
T Consensus        22 ~LtL~eIy~~i~~~fpyyr~~~~gWkNSIRHnLS~n~~F~kv~~---~kG~~W~i~~~   76 (82)
T d2a07f1          22 QLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN---VKGAVWTVDEV   76 (82)
T ss_dssp             CBCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCTTBCCEEC---SSSEECCBCHH
T ss_pred             CccHHHHHHHHHHhCcccccCCcccchhHhHhcccccceEeCCC---CCCCEEEECHH
Confidence            79999999999999999999999999999999999999999975   89999999974