Psyllid ID: psy6789

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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-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-
Protein Sequence
MEYASLEPMELKPPGQFSPMEPCQTSSHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLESLQPSEWGDDYSGQNSTETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEIFASDTISRKSIHRRKWKSSRRIRFPGNLSWSMRLMI
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccHHHHHHHHHHcccccccccccccHHHHccccccccccccccccccccccEEcccccHHHHHccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccEEEEccHHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHccccccEEEccccccccEEccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHcccHcccccccHHcHHccccccccEEEccccccccccEEEEcccccccccccHHHHHHcccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccEEEEEEcccccHHHHHHHHcccccEEEcccccccEEEHcc
Coil and Loop (DISEMBL)
meyaslepmelkppgqfspmepcqtsshkpepsqsevedrccpshakthrkppftYTELIEQALKEKHQLTVSGIYQWIserfpyynqnddrwknsvrhnlsinphfrkgvkasqgaghlwnlsdmepvedasksnwkKNRLKTYLEslqpsewgddysgqnstetpapsmetmpqpqpqplntmslahdplqpfevysqesktfpyeeckdvlyiqsndnvlytphedhklyhndnvlytpgedhklyqyepsknLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEIFAsdtisrksihrrkwkssrrirfpgnlswsmrlmi
Flexible Loop (DISEMBL)
meyaslepmelkppgqfsPMEPCQTSSHKPEPSQSEVEDRCCPShakthrkppfTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDasksnwkkNRLKTYLEslqpsewgddysGQNSTETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEifasdtisrksihrrkwkssrrirfpgnlswsmrlmi
Low Complexity Region (SEG)
MEYASLEPMELKPPGQFSPMEPCQTSSHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLESLQPSEWGDDYSGQNSTETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEIFASDTISRKSIHRRKWKSSRRIRFPGNLSWSMRLMI
Disordered region (IsUnstruct)
*****************************************************FTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA**GAGHLWN**************************************************************************VY****KTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEIFASDTISR**I*************************
Disordered Region (DISOPRED)
******************************************************TYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDA*********************************************************************************************************************************************SDTISKNLIMAAYDGGQEKVEIFASDTISRKS**********RIRFPGNLSWSMRLMI
Disordered Region (DISEMBL)
*********ELKPPGQFS*****************************THRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLESLQPSEWG***********************PQPLNTMSLAHDPLQPFEVYSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEIFASDTIS***********SRRIRFPGNLSWSMRLMI
Disordered Region (DISPRO)
********************************************HAKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLK*********************************************************************************TPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEIFASDTISRKSIHRRKWKSSRRIRFPGNLSWSMRLMI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEYASLEPMELKPPGQFSPMEPCQTSSHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLESLQPSEWGDDYSGQNSTETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEKVEIFASDTISRKSIHRRKWKSSRRIRFPGNLSWSMRLMI
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	331	2.2.26 [Sep-21-2011]
P25364	564	Forkhead transcription fa	yes	N/A	0.317	0.186	0.344	2e-14
P35583	459	Hepatocyte nuclear factor	yes	N/A	0.229	0.165	0.462	1e-13
Q7T1R4	434	Forkhead box protein A2 O	yes	N/A	0.229	0.175	0.462	1e-13
Q9Y261	457	Hepatocyte nuclear factor	yes	N/A	0.229	0.166	0.462	1e-13
Q91765	434	Forkhead box protein A2-A	N/A	N/A	0.229	0.175	0.462	1e-13
P23512	466	Hepatocyte nuclear factor	yes	N/A	0.226	0.160	0.468	1e-13
Q07342	409	Forkhead box protein A2 O	yes	N/A	0.359	0.290	0.349	1e-13
P55317	472	Hepatocyte nuclear factor	no	N/A	0.226	0.158	0.468	1e-13
P85037	733	Forkhead box protein K1 O	no	N/A	0.280	0.126	0.421	2e-13
P35582	468	Hepatocyte nuclear factor	no	N/A	0.226	0.160	0.468	2e-13

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

 Score = 80.1 bits (196), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/125 (34%), Positives = 63/125 (50%), Gaps = 20/125 (16%)

Query: 19  PMEPCQTSSHKPEPSQSEVEDRCCPSHA------------------KTHRKPPFTYTELI 60
           P+ P  +S   P  ++ +  D C  S+                   +  +KPP++Y  LI
Sbjct: 59  PLSPDHSSPIAPSKAKRQRSDTCARSNGNLTLEEILQSLERRRINGELAKKPPYSYATLI 118

Query: 61  EQAL--KEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAG 118
             A+   ++ +LT+S IY WI   FPYY Q D  W+NS+RHNLS+N  F K  K+  G G
Sbjct: 119 CLAILQSQEGKLTLSQIYHWIHVHFPYYKQKDASWQNSIRHNLSLNDAFIKTEKSCDGKG 178

Query: 119 HLWNL 123
           H W +
Sbjct: 179 HFWEV 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|P35583|FOXA2_MOUSE Hepatocyte nuclear factor 3-beta OS=Mus musculus GN=Foxa2 PE=1 SV=2

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/80 (46%), Positives = 50/80 (62%), Gaps = 4/80 (5%)

Query: 48  THRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           TH KPP++Y  LI  A+++     LT+S IYQWI + FP+Y QN  RW+NS+RH+LS N 
Sbjct: 156 THAKPPYSYISLITMAIQQSPNKMLTLSEIYQWIMDLFPFYRQNQQRWQNSIRHSLSFND 215

Query: 106 HFRKGVKASQ--GAGHLWNL 123
            F K  ++    G G  W L
Sbjct: 216 CFLKVPRSPDKPGKGSFWTL 235

Transcription factor that is involved in embryonic development, establishment of tissue-specific gene expression and regulation of gene expression in differentiated tissues. Is thought to act as a 'pioneer' factor opening the compacted chromatin for other proteins through interactions with nucleosomal core histones and thereby replacing linker histones at target enhancer and/or promoter sites. Binds DNA with the consensus sequence 5'-[AC]A[AT]T[AG]TT[GT][AG][CT]T[CT]-3' (By similarity). In embryonic development is required for notochord formation. Involved in the development of multiple endoderm-derived organ systems such as the liver, pancreas and lungs; Foxa1 and Foxa2 seem to have at least in part redundant roles. FOXA1 and FOXA2 are essential for hepatic specification. FOXA1 and FOXA2 are required for morphogenesis and cell differentiation during formation of the lung. FOXA1 and FOXA2 are involved in bile duct formation; they positively regulate the binding glucocorticoid receptor/NR3C1 to the IL6 promoter. FOXA1 and FOXA2 regulate multiple phases of midbrain dopaminergic neuron development; they regulate expression of NEUROG2 at the beginning of mDA neurogenesis and of NR4A2 and EN1 in immature mDA neurons. Modulates the transcriptional activity of nuclear hormone receptors; inhibits AR-mediated transcription from the LCN5 promoter. Binds to fibrinogen beta promoter and is involved in IL6-induced fibrinogen beta transcriptional activation. Originally discribed as a transcription activator for a number of liver genes such as AFP, albumin, tyrosine aminotransferase, PEPCK, etc. Interacts with the cis-acting regulatory regions of these genes. Involved in glucose homeostasis; regulates the expression of genes important for glucose sensing in pancreatic beta-cells and glucose homeostasis. In pancratic beta cells activates transcription of potassium channel subunits KCNJ11 and ABCC8. Involved in regulation of fat metabolism; activates transcriptional programs of lipid metabolism and ketogenesis at low insulin state. Involved in transcriptional regulation of MUC2 in the intestine.

Mus musculus (taxid: 10090)

>sp|Q7T1R4|FOXA2_XENTR Forkhead box protein A2 OS=Xenopus tropicalis GN=foxa2 PE=2 SV=1

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/80 (46%), Positives = 50/80 (62%), Gaps = 4/80 (5%)

Query: 48  THRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           TH KPP++Y  LI  A+++     LT+S IYQWI + FP+Y QN  RW+NS+RH+LS N 
Sbjct: 146 THAKPPYSYISLITMAIQQSPNKMLTLSEIYQWIMDLFPFYRQNQQRWQNSIRHSLSFND 205

Query: 106 HFRKGVKASQ--GAGHLWNL 123
            F K  ++    G G  W L
Sbjct: 206 CFLKVPRSPDKPGKGSFWTL 225

Acts as a transcriptional activator during early development, limiting the extent of mesoderm formation in the gastrula. Binds to DNA via the target sequence 5'-GT[AC]AACA-3', with 5'-GTAAACA-3' being the preferred binding site.

Xenopus tropicalis (taxid: 8364)

>sp|Q9Y261|FOXA2_HUMAN Hepatocyte nuclear factor 3-beta OS=Homo sapiens GN=FOXA2 PE=1 SV=1

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/80 (46%), Positives = 50/80 (62%), Gaps = 4/80 (5%)

Query: 48  THRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           TH KPP++Y  LI  A+++     LT+S IYQWI + FP+Y QN  RW+NS+RH+LS N 
Sbjct: 156 THAKPPYSYISLITMAIQQSPNKMLTLSEIYQWIMDLFPFYRQNQQRWQNSIRHSLSFND 215

Query: 106 HFRKGVKASQ--GAGHLWNL 123
            F K  ++    G G  W L
Sbjct: 216 CFLKVPRSPDKPGKGSFWTL 235

Transcription factor that is involved in embryonic development, establishment of tissue-specific gene expression and regulation of gene expression in differentiated tissues. Is thought to act as a 'pioneer' factor opening the compacted chromatin for other proteins through interactions with nucleosomal core histones and thereby replacing linker histones at target enhancer and/or promoter sites. Binds DNA with the consensus sequence 5'-[AC]A[AT]T[AG]TT[GT][AG][CT]T[CT]-3' (By similarity). In embryonic development is required for notochord formation. Involved in the development of multiple endoderm-derived organ systems such as the liver, pancreas and lungs; FOXA1 and FOXA2 seem to have at least in part redundant roles. Originally discribed as a transcription activator for a number of liver genes such as AFP, albumin, tyrosine aminotransferase, PEPCK, etc. Interacts with the cis-acting regulatory regions of these genes. Involved in glucose homeostasis; regulates the expression of genes important for glucose sensing in pancreatic beta-cells and glucose homeostasis. Involved in regulation of fat metabolism. Binds to fibrinogen beta promoter and is involved in IL6-induced fibrinogen beta transcriptional activation.

Homo sapiens (taxid: 9606)

>sp|Q91765|FXA2A_XENLA Forkhead box protein A2-A OS=Xenopus laevis GN=foxa2-a PE=1 SV=1

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/80 (46%), Positives = 50/80 (62%), Gaps = 4/80 (5%)

Query: 48  THRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           TH KPP++Y  LI  A+++     LT+S IYQWI + FP+Y QN  RW+NS+RH+LS N 
Sbjct: 146 THAKPPYSYISLITMAIQQSPNKMLTLSEIYQWIMDLFPFYRQNQQRWQNSIRHSLSFND 205

Query: 106 HFRKGVKASQ--GAGHLWNL 123
            F K  ++    G G  W L
Sbjct: 206 CFLKVPRSPDKPGKGSFWTL 225

Acts as a transcriptional activator during early development, limiting the extent of mesoderm formation in the gastrula. Binds to DNA via the target sequence 5'-GT[AC]AACA-3', with 5'-GTAAACA-3' being the preferred binding site.

Xenopus laevis (taxid: 8355)

>sp|P23512|FOXA1_RAT Hepatocyte nuclear factor 3-alpha OS=Rattus norvegicus GN=Foxa1 PE=1 SV=1

 Score = 77.4 bits (189), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 49/79 (62%), Gaps = 4/79 (5%)

Query: 49  HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
           H KPP++Y  LI  A+++     LT+S IYQWI + FPYY QN  RW+NS+RH+LS N  
Sbjct: 168 HAKPPYSYISLITMAIQQAPSKMLTLSEIYQWIMDLFPYYRQNQQRWQNSIRHSLSFNAC 227

Query: 107 FRKGVKASQ--GAGHLWNL 123
           F K  ++    G G  W L
Sbjct: 228 FVKVARSPDKPGKGSYWTL 246

Transcription factor that is involved in embryonic development, establishment of tissue-specific gene expression and regulation of gene expression in differentiated tissues. Is thought to act as a 'pioneer' factor opening the compacted chromatin for other proteins through interactions with nucleosomal core histones and thereby replacing linker histones at target enhancer and/or promoter sites. Binds DNA with the consensus sequence 5'-[AC]A[AT]T[AG]TT[GT][AG][CT]T[CT]-3'. Proposed to play a role in translating the epigenetic signatures into cell type-specific enhancer-driven transcriptional programs. Involved in glucose homeostasis; activates the GCG promoter. Involved in the development of multiple endoderm-derived organ systems such as the liver, pancreas, lungs and prostate; FOXA1 and FOXA2 seem to have at least in part redundant roles. Modulates the transcriptional activity of nuclear hormone receptors. Is required for maximal gene activation mediated by AR in the prostate. Negatively regulates AR transactivation via competition with coactivators such as NCOA2. Is involved in ESR1-mediated transcription. Involved in regulation of apoptosis. Involved in cell cycle regulation. Originally discribed as a transcription activator for a number of liver genes such as AFP, albumin, tyrosine aminotransferase, PEPCK, etc. Interacts with the cis-acting regulatory regions of these genes.

Rattus norvegicus (taxid: 10116)

>sp|Q07342|FOXA2_DANRE Forkhead box protein A2 OS=Danio rerio GN=foxa2 PE=2 SV=1

 Score = 77.4 bits (189), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 44/126 (34%), Positives = 65/126 (51%), Gaps = 7/126 (5%)

Query: 5   SLEPMELKPPGQFSPMEPCQTSSHKPEPSQSEVEDRCCPS---HAKTHRKPPFTYTELIE 61
           ++ PM  + P   +       ++  P   QS +     P     + TH KPP++Y  LI 
Sbjct: 102 TMSPMAAQAPSMNALTSYSNMNAMSPMYGQSNINRSRDPKTYRRSYTHAKPPYSYISLIT 161

Query: 62  QALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GA 117
            A+++     LT+S IYQWI + FP+Y QN  RW+NS+RH+LS N  F K  ++    G 
Sbjct: 162 MAIQQSPSKMLTLSEIYQWIMDLFPFYRQNQQRWQNSIRHSLSFNDCFLKVPRSPDKPGK 221

Query: 118 GHLWNL 123
           G  W L
Sbjct: 222 GSFWTL 227

May play a crucial role in specification of both the axial mesendoderm and the ventral nervous system.

Danio rerio (taxid: 7955)

>sp|P55317|FOXA1_HUMAN Hepatocyte nuclear factor 3-alpha OS=Homo sapiens GN=FOXA1 PE=1 SV=2

 Score = 77.4 bits (189), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 49/79 (62%), Gaps = 4/79 (5%)

Query: 49  HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
           H KPP++Y  LI  A+++     LT+S IYQWI + FPYY QN  RW+NS+RH+LS N  
Sbjct: 168 HAKPPYSYISLITMAIQQAPSKMLTLSEIYQWIMDLFPYYRQNQQRWQNSIRHSLSFNDC 227

Query: 107 FRKGVKASQ--GAGHLWNL 123
           F K  ++    G G  W L
Sbjct: 228 FVKVARSPDKPGKGSYWTL 246

Transcription factor that is involved in embryonic development, establishment of tissue-specific gene expression and regulation of gene expression in differentiated tissues. Is thought to act as a 'pioneer' factor opening the compacted chromatin for other proteins through interactions with nucleosomal core histones and thereby replacing linker histones at target enhancer and/or promoter sites. Binds DNA with the consensus sequence 5'-[AC]A[AT]T[AG]TT[GT][AG][CT]T[CT]-3' (By similarity). Proposed to play a role in translating the epigenetic signatures into cell type-specific enhancer-driven transcriptional programs. Its differential recruitment to chromatin is dependent on distribution of histone H3 methylated at 'Lys-5' (H3K4me2) in estrogen-regulated genes. Involved in the development of multiple endoderm-derived organ systems such as liver, pancreas, lung and prostate; FOXA1 and FOXA2 seem to have at least in part redundant roles (By similarity). Modulates the transcriptional activity of nuclear hormone receptors. Is involved in ESR1-mediated transcription; required for ESR1 binding to the NKX2-1 promoter in breast cancer cells; binds to the RPRM promter and is required for the estrogen-induced repression of RPRM. Involved in regulation of apoptosis by inhibiting the expression of BCL2. Involved in cell cycle regulation by activating expression of CDKN1B, alone or in conjunction with BRCA1. Originally discribed as a transcription activator for a number of liver genes such as AFP, albumin, tyrosine aminotransferase, PEPCK, etc. Interacts with the cis-acting regulatory regions of these genes. Involved in glucose homeostasis.

Homo sapiens (taxid: 9606)

>sp|P85037|FOXK1_HUMAN Forkhead box protein K1 OS=Homo sapiens GN=FOXK1 PE=1 SV=1

 Score = 77.0 bits (188), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 43/102 (42%), Positives = 61/102 (59%), Gaps = 9/102 (8%)

Query: 47  KTHRKPPFTYTELIEQAL--KEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSIN 104
           K   KPPF+Y +LI QA+   +  QLT+SGIY  I++ +PYY   D  W+NS+RHNLS+N
Sbjct: 301 KDESKPPFSYAQLIVQAISSAQDRQLTLSGIYAHITKHYPYYRTADKGWQNSIRHNLSLN 360

Query: 105 PHFRKGVKASQ---GAGHLWNL---SDMEPVEDASKSNWKKN 140
            +F K V  SQ   G G  W +   S+ + VE A +   ++ 
Sbjct: 361 RYFIK-VPRSQEEPGKGSFWRIDPASEAKLVEQAFRKRRQRG 401

Transcriptional regulator that binds to the upstream enhancer region (CCAC box) of myoglobin gene. Has a role in myogenic differentiation and in remodeling processes of adult muscles that occur in response to physiological stimuli.

Homo sapiens (taxid: 9606)

>sp|P35582|FOXA1_MOUSE Hepatocyte nuclear factor 3-alpha OS=Mus musculus GN=Foxa1 PE=1 SV=2

 Score = 77.0 bits (188), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 49/79 (62%), Gaps = 4/79 (5%)

Query: 49  HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
           H KPP++Y  LI  A+++     LT+S IYQWI + FPYY QN  RW+NS+RH+LS N  
Sbjct: 168 HAKPPYSYISLITMAIQQAPSKMLTLSEIYQWIMDLFPYYRQNQQRWQNSIRHSLSFNDC 227

Query: 107 FRKGVKASQ--GAGHLWNL 123
           F K  ++    G G  W L
Sbjct: 228 FVKVARSPDKPGKGSYWTL 246

Transcription factor that is involved in embryonic development, establishment of tissue-specific gene expression and regulation of gene expression in differentiated tissues. Is thought to act as a 'pioneer' factor opening the compacted chromatin for other proteins through interactions with nucleosomal core histones and thereby replacing linker histones at target enhancer and/or promoter sites. Binds DNA with the consensus sequence 5'-[AC]A[AT]T[AG]TT[GT][AG][CT]T[CT]-3' (By similarity). Proposed to play a role in translating the epigenetic signatures into cell type-specific enhancer-driven transcriptional programs. Involved in the development of multiple endoderm-derived organ systems such as the liver, pancreas, lungs and prostate; FOXA1 and FOXA2 seem to have at least in part redundant roles. Plays a role in prostate morphogenesis and epithelial cell differentiation. FOXA1 and FOXA2 are essential for hepatic specification. FOXA1 and FOXA2 are required for morphogenesis and cell differentiation during formation of the lung. FOXA1 and FOXA2 are involved in bile duct formation; they positively regulate the binding of glucocorticoid receptor/NR3C1 to the IL6 promoter. FOXA1 and FOXA2 regulate multiple phases of midbrain dopaminergic neuron development; they regulate expression of NEUROG2 at the beginning of mDA neurogenesis and of NR4A2 and EN1 in immature mDA neurons. Modulates the transcriptional activity of nuclear hormone receptors. Is involved in ESR1-mediated transcription. Inhibits NKX2-1-mediated transcription from the SFTPC promoter in lung epithel independently from DNA-binding. Involved in regulation of apoptosis. Involved in cell cycle regulation. Originally discribed as a transcription activator for a number of liver genes such as AFP, albumin, tyrosine aminotransferase, PEPCK, etc. Interacts with the cis-acting regulatory regions of these genes. Involved in glucose homeostasis; activates the GCG promoter.

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	331
195168651	806	GL26743 [Drosophila persimilis] gi|19410	0.308	0.126	0.676	7e-34
195340944	353	GM12307 [Drosophila sechellia] gi|194131	0.314	0.294	0.679	7e-34
115646534	360	RT01015p [Drosophila melanogaster]	0.314	0.288	0.679	8e-34
195446617	392	GK25470 [Drosophila willistoni] gi|19416	0.350	0.295	0.620	8e-34
195133820	754	GI16052 [Drosophila mojavensis] gi|19390	0.323	0.141	0.648	1e-33
194887862	359	GG18672 [Drosophila erecta] gi|190648470	0.311	0.286	0.685	1e-33
442615105	744	forkhead domain 3F [Drosophila melanogas	0.308	0.137	0.676	1e-33
198471282	354	GA23037, partial [Drosophila pseudoobscu	0.314	0.293	0.679	1e-33
195477295	734	GE16312 [Drosophila yakuba] gi|194187681	0.323	0.145	0.648	1e-33
195399165	732	GJ15628 [Drosophila virilis] gi|19415061	0.308	0.139	0.676	1e-33

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

 Score =  150 bits (379), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 69/102 (67%), Positives = 80/102 (78%)

Query: 46  AKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           +K  +KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNSVRHNLSINP
Sbjct: 457 SKAPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNSVRHNLSINP 516

Query: 106 HFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           HFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 517 HFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 558

Source: Drosophila persimilis

Species: Drosophila persimilis

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 =  150 bits (379), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 72/106 (67%), Positives = 82/106 (77%), Gaps = 2/106 (1%)

Query: 44  SHAKTHR--KPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNL 101
           +H KT R  KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNSVRHNL
Sbjct: 8   NHRKTSRPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNSVRHNL 67

Query: 102 SINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           SINPHFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 68  SINPHFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 113

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 =  150 bits (379), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 72/106 (67%), Positives = 82/106 (77%), Gaps = 2/106 (1%)

Query: 44  SHAKTHR--KPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNL 101
           +H KT R  KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNSVRHNL
Sbjct: 8   NHRKTSRPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNSVRHNL 67

Query: 102 SINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           SINPHFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 68  SINPHFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 113

Source: Drosophila melanogaster

Species: Drosophila melanogaster

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 =  150 bits (379), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 77/124 (62%), Positives = 88/124 (70%), Gaps = 8/124 (6%)

Query: 32  PSQSEVEDRCCPS------HAKTHR--KPPFTYTELIEQALKEKHQLTVSGIYQWISERF 83
           P QSE  +   P+      H KT R  KPPFTYTELIE AL++K +LTVSGIYQWIS+RF
Sbjct: 8   PIQSEYTEITPPTQRIGNHHRKTSRPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRF 67

Query: 84  PYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLK 143
           PYY  NDDRWKNSVRHNLSINPHFRKGVKA QGAGHLW +S  +  E+      KK RL 
Sbjct: 68  PYYKSNDDRWKNSVRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLD 127

Query: 144 TYLE 147
            + +
Sbjct: 128 LFFK 131

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  150 bits (378), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 72/111 (64%), Positives = 84/111 (75%), Gaps = 4/111 (3%)

Query: 37  VEDRCCPSHAKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNS 96
           VED    + +K  +KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNS
Sbjct: 399 VED----TASKAPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNS 454

Query: 97  VRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           VRHNLSINPHFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 455 VRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 505

Source: Drosophila mojavensis

Species: Drosophila mojavensis

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 =  150 bits (378), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 72/105 (68%), Positives = 81/105 (77%), Gaps = 2/105 (1%)

Query: 45  HAKTHR--KPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLS 102
           H KT R  KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNSVRHNLS
Sbjct: 9   HRKTSRPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNSVRHNLS 68

Query: 103 INPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           INPHFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 69  INPHFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 113

Source: Drosophila erecta

Species: Drosophila erecta

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 =  150 bits (378), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 69/102 (67%), Positives = 80/102 (78%)

Query: 46  AKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           +K  +KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNSVRHNLSINP
Sbjct: 396 SKAPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNSVRHNLSINP 455

Query: 106 HFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           HFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 456 HFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 497

Source: Drosophila melanogaster

Species: Drosophila melanogaster

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 =  150 bits (378), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 72/106 (67%), Positives = 82/106 (77%), Gaps = 2/106 (1%)

Query: 44  SHAKTHR--KPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNL 101
           +H KT R  KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNSVRHNL
Sbjct: 5   NHRKTSRPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNSVRHNL 64

Query: 102 SINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           SINPHFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 65  SINPHFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 110

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

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 =  149 bits (377), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 72/111 (64%), Positives = 84/111 (75%), Gaps = 4/111 (3%)

Query: 37  VEDRCCPSHAKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNS 96
           VED    + +K  +KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNS
Sbjct: 389 VED----TSSKAPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNS 444

Query: 97  VRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           VRHNLSINPHFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 445 VRHNLSINPHFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 495

Source: Drosophila yakuba

Species: Drosophila yakuba

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 =  149 bits (377), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 69/102 (67%), Positives = 80/102 (78%)

Query: 46  AKTHRKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           +K  +KPPFTYTELIE AL++K +LTVSGIYQWIS+RFPYY  NDDRWKNSVRHNLSINP
Sbjct: 406 SKAPKKPPFTYTELIEYALEDKGELTVSGIYQWISDRFPYYKSNDDRWKNSVRHNLSINP 465

Query: 106 HFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLE 147
           HFRKGVKA QGAGHLW +S  +  E+      KK RL  + +
Sbjct: 466 HFRKGVKAPQGAGHLWAISSGDSAENVLAWEHKKQRLDLFFK 507

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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	331
UNIPROTKB|Q3Y598	351	FOXA3 "Hepatocyte nuclear fact	0.474	0.447	0.352	2.6e-17
UNIPROTKB|F1RM41	350	FOXA3 "Uncharacterized protein	0.471	0.445	0.347	9.7e-17
FB|FBgn0031086	260	fd19B "forkhead domain 19B" [D	0.371	0.473	0.365	1.7e-16
UNIPROTKB|E2RNB4	350	FOXA3 "Uncharacterized protein	0.471	0.445	0.347	4.4e-16
MGI|MGI:1347477	353	Foxa3 "forkhead box A3" [Mus m	0.477	0.447	0.335	4.7e-16
UNIPROTKB|Q6LD29	429	foxa1-a "Forkhead box protein	0.788	0.608	0.251	6.2e-16
UNIPROTKB|Q5J7N5	305	FOXL2 "Transcription factor FO	0.634	0.688	0.299	1.1e-15
UNIPROTKB|H9L130	264	FOXA2 "Uncharacterized protein	0.362	0.454	0.374	1.4e-15
UNIPROTKB|E2R718	241	FOXL2 "Uncharacterized protein	0.377	0.518	0.369	1.4e-15
ZFIN|ZDB-GENE-081022-71	260	zgc:194189 "zgc:194189" [Danio	0.350	0.446	0.368	1.9e-15

UNIPROTKB|Q3Y598 FOXA3 "Hepatocyte nuclear factor 3-gamma" [Bos taurus (taxid:9913)]

 Score = 226 (84.6 bits), Expect = 2.6e-17, P = 2.6e-17
 Identities = 60/170 (35%), Positives = 85/170 (50%)

Query:    49 HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
             H KPP++Y  LI  A+++     LT+S IYQWI + FPYY +N  RW+NS+RH+LS N  
Sbjct:   116 HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 175

Query:   107 FRKGVKASQ--GAGHLWNL--SDMEPVEDASKSNWKKNRLKTYLESLQPSEWGDDYS--- 159
             F K  ++    G G  W L  S     E+      +K R K   E ++    G   S   
Sbjct:   176 FVKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQK-RFKLE-EKVKKGGGGSSASRNS 233

Query:   160 -GQNSTET-PAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPY 207
              G  ST T PA ++ + PQPQP P    +   D +   +  S  + + PY
Sbjct:   234 AGSASTATAPAATVASTPQPQPPPPEPEAQGGDEVGALDCGSPAAPSTPY 283

GO:0070368 "positive regulation of hepatocyte differentiation" evidence=IBA

GO:0060487 "lung epithelial cell differentiation" evidence=IRD

GO:0060441 "epithelial tube branching involved in lung morphogenesis" evidence=IRD

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

GO:0048665 "neuron fate specification" evidence=IBA

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

GO:0021999 "neural plate anterior/posterior regionalization" evidence=IBA

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

GO:0009790 "embryo development" evidence=IBA

GO:0009267 "cellular response to starvation" evidence=IBA

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

GO:0008285 "negative regulation of cell proliferation" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0007420 "brain development" evidence=IBA

GO:0005667 "transcription factor complex" 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:0001678 "cellular glucose homeostasis" evidence=IBA

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

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

GO:0007283 "spermatogenesis" evidence=IEA

UNIPROTKB|F1RM41 FOXA3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 222 (83.2 bits), Expect = 9.7e-17, P = 9.7e-17
 Identities = 59/170 (34%), Positives = 85/170 (50%)

Query:    49 HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
             H KPP++Y  LI  A+++     LT+S IYQWI + FPYY +N  RW+NS+RH+LS N  
Sbjct:   116 HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 175

Query:   107 FRKGVKASQ--GAGHLWNL--SDMEPVEDASKSNWKKNRLKTYLESLQPSEWGDDYS--- 159
             F K  ++    G G  W L  S     E+      +K R K   E ++    G   S   
Sbjct:   176 FVKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQK-RFKLE-EKVKKGGGGTSASRNS 233

Query:   160 --GQNSTETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPY 207
                 +ST TPA  + + P+PQP P    + + + +   +  S  S T PY
Sbjct:   234 AGSASSTSTPAAPVTSPPKPQPPPAEPEAQSAEDVGALDCGSPPSST-PY 282

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

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

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

GO:0009267 "cellular response to starvation" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0001678 "cellular glucose homeostasis" evidence=IEA

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

GO:0008134 "transcription factor binding" evidence=IEA

FB|FBgn0031086 fd19B "forkhead domain 19B" [Drosophila melanogaster (taxid:7227)]

 Score = 206 (77.6 bits), Expect = 1.7e-16, P = 1.7e-16
 Identities = 49/134 (36%), Positives = 70/134 (52%)

Query:    18 SPMEPCQTSSHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQAL--KEKHQLTVSGI 75
             SP+    + S     S S          AK++ KP FTY+ LI  A+    + +LT+SGI
Sbjct:    25 SPISKHNSGSSFSSCSSSSSNSSSDSMAAKSNAKPAFTYSALIVMAIWSSSEKRLTLSGI 84

Query:    76 YQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLS----DMEPV 129
              +WI++ FPYY      W+NS+RHNLS+NP F +  +A    G GH W L     D+   
Sbjct:    85 CKWIADNFPYYRTRKSVWQNSIRHNLSLNPFFVRVPRALDDPGRGHYWALDPYAEDLSIG 144

Query:   130 EDASK---SNWKKN 140
             E   +   SNW++N
Sbjct:   145 ETTGRLRRSNWQQN 158

GO:0005634 "nucleus" evidence=ISS

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

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

GO:0022008 "neurogenesis" evidence=IMP

GO:0016199 "axon midline choice point recognition" evidence=IBA

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

GO:0048665 "neuron fate specification" evidence=IBA

GO:0002052 "positive regulation of neuroblast proliferation" evidence=IBA

GO:0007346 "regulation of mitotic cell cycle" evidence=IBA

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

GO:0008134 "transcription factor binding" evidence=IBA

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

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

GO:0045787 "positive regulation of cell cycle" evidence=IBA

GO:0009888 "tissue development" evidence=IBA

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

GO:0035058 "nonmotile primary cilium assembly" evidence=IBA

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

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IBA

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0009953 "dorsal/ventral pattern formation" evidence=IBA

GO:0007380 "specification of segmental identity, head" evidence=IBA

UNIPROTKB|E2RNB4 FOXA3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 217 (81.4 bits), Expect = 4.4e-16, P = 4.4e-16
 Identities = 59/170 (34%), Positives = 83/170 (48%)

Query:    49 HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
             H KPP++Y  LI  A+++     LT+S IYQWI + FPYY +N  RW+NS+RH+LS N  
Sbjct:   116 HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 175

Query:   107 FRKGVKASQ--GAGHLWNL--SDMEPVEDASKSNWKKNRLKTYLESLQPSEWGDDYSGQN 162
             F K  ++    G G  W L  S     E+      +K R K   E ++    G   S  +
Sbjct:   176 FVKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQK-RFKLE-EKVKKGTGGTSTSKNS 233

Query:   163 -----STETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPY 207
                  S  TPA  + + PQPQP P    +   + +   +  S  S T PY
Sbjct:   234 AGAAASATTPAAQVTSPPQPQPPPPEPEAPGGEDVGALDCGSPPSST-PY 282

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

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

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

GO:0009267 "cellular response to starvation" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0001678 "cellular glucose homeostasis" evidence=IEA

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

GO:0008134 "transcription factor binding" evidence=IEA

MGI|MGI:1347477 Foxa3 "forkhead box A3" [Mus musculus (taxid:10090)]

 Score = 217 (81.4 bits), Expect = 4.7e-16, P = 4.7e-16
 Identities = 57/170 (33%), Positives = 85/170 (50%)

Query:    49 HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
             H KPP++Y  LI  A+++     LT+S IYQWI + FPYY +N  RW+NS+RH+LS N  
Sbjct:   117 HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 176

Query:   107 FRKGVKASQ--GAGHLWNL--SDMEPVEDAS----KSNWK-KNRLKTYLESLQPSEWGDD 157
             F K  ++    G G  W L  S     E+      +  +K + + K    +   S  G  
Sbjct:   177 FVKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQKRFKLEEKAKKGNSATSASRNGTA 236

Query:   158 YSGQNSTETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPY 207
              S  ++T T A ++ +  QPQP P    + + D +   +  S  S T PY
Sbjct:   237 GSATSATTTAATAVTSPAQPQPTPSEPEAQSGDDVGGLDCASPPSST-PY 285

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

GO:0001678 "cellular glucose homeostasis" evidence=IMP

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

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=IDA

GO:0005667 "transcription factor complex" evidence=IBA

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

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

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

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IMP

GO:0007420 "brain development" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

GO:0008285 "negative regulation of cell proliferation" evidence=ISO;IBA

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

GO:0009267 "cellular response to starvation" evidence=IMP

GO:0009790 "embryo development" evidence=IBA

GO:0016568 "chromatin modification" evidence=IEA

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

GO:0021999 "neural plate anterior/posterior regionalization" evidence=IBA

GO:0030154 "cell differentiation" evidence=IEA

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

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

GO:0044428 "nuclear part" evidence=ISO

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

GO:0048665 "neuron fate specification" evidence=IBA

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

GO:0070368 "positive regulation of hepatocyte differentiation" evidence=ISO;IBA

UNIPROTKB|Q6LD29 foxa1-a "Forkhead box protein A1-A" [Xenopus laevis (taxid:8355)]

 Score = 219 (82.2 bits), Expect = 6.2e-16, P = 6.2e-16
 Identities = 70/278 (25%), Positives = 122/278 (43%)

Query:    17 FSPMEPCQTSSHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKE--KHQLTVSG 74
             +S M P  +       + +   D      +  H KPP++Y  LI  A+++     LT+S 
Sbjct:   125 YSSMNPGMSPMAYGSSNMNRARDTKTFRRSYPHAKPPYSYISLITMAIQQAPSKMLTLSE 184

Query:    75 IYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNLS-DMEPVED 131
             IYQWI + FPYY QN  RW+NS+RH+LS N  F K  ++    G G  W L  D   + +
Sbjct:   185 IYQWIMDLFPYYRQNQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSYWTLHPDSGNMFE 244

Query:   132 ASKSNWKKNRLKTYLESLQPSEWGDDYSGQNSTETPAPSMETMPQPQPQPLNTMSLAHDP 191
                   ++ R K   E  Q  +   D  G+     P+  ++ +     Q  ++ S+++  
Sbjct:   245 NGCYLRRQKRFKC--EKTQGGKGNQD--GRKDHSGPSSPLQRVHGKSSQMDSSSSMSNPS 300

Query:   192 LQPFEVYSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQY 251
               P  +    S      E K  +    +    +  H  H L H  ++ +  G+ H  + +
Sbjct:   301 SSPQALEHNGSNG----EMKPQVAAGPSPLSSHQNHSTHSLAHESHI-HLKGDPHYSFNH 355

Query:   252 EPSKNLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGG 289
               S N +M++ +  Q K++  A +   +    ++Y GG
Sbjct:   356 PFSINNLMSSSEQ-QHKLDFKAYEQALQQY--SSYGGG 390

GO:0003677 "DNA binding" evidence=NAS

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

GO:0005634 "nucleus" evidence=NAS

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

UNIPROTKB|Q5J7N5 FOXL2 "Transcription factor FOXL2" [Gallus gallus (taxid:9031)]

 Score = 210 (79.0 bits), Expect = 1.1e-15, P = 1.1e-15
 Identities = 70/234 (29%), Positives = 107/234 (45%)

Query:    27 SHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFP 84
             S +PE  + E+     P      +KPP++Y  LI  A++E  + +LT+SGIYQ+I  +FP
Sbjct:    23 SKEPERGKEELSAEKGPEKPDPSQKPPYSYVALIAMAIRESAEKRLTLSGIYQYIISKFP 82

Query:    85 YYNQNDDRWKNSVRHNLSINPHFRKGVKASQGA--GHLWNLSDMEPV-EDA-SKSNWKKN 140
             +Y +N   W+NS+RHNLS+N  F K  +   G   G+ W L   +P  ED   K N+++ 
Sbjct:    83 FYEKNKKGWQNSIRHNLSLNECFIKVPREGGGERKGNYWTL---DPACEDMFEKGNYRRR 139

Query:   141 R-LKTYLES----LQPSE--WGDDYSGQNSTETPAPS--MET---MPQPQ-PQPLNTMSL 187
             R +K          QP +  +G D  G  S      S  M     +PQP  P P  +  +
Sbjct:   140 RRMKRPFRPPPTHFQPGKSLFGPDGYGYLSPPKYLQSTFMNNSWPLPQPPAPVPYASCQM 199

Query:   188 AHDPLQPFEV--YSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVL 239
             +   + P  V   S  +   PY   + V      ++     H  H   H+   L
Sbjct:   200 SGGSVSPVNVKGLSGPASYGPYSRVQSVALPGMVNSYNGVAHPHHPHAHHPQQL 253

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

GO:0001541 "ovarian follicle development" evidence=IBA

GO:0002074 "extraocular skeletal muscle development" 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:0006309 "apoptotic DNA fragmentation" evidence=ISS;IBA

GO:0006917 "induction of apoptosis" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

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

GO:0019101 "female somatic sex determination" evidence=IBA

GO:0030331 "estrogen receptor binding" evidence=IBA

GO:0031624 "ubiquitin conjugating enzyme binding" evidence=IBA

GO:0043028 "cysteine-type endopeptidase regulator activity involved in apoptotic process" evidence=ISS;IBA

GO:0043280 "positive regulation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=ISS;IBA

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

GO:0048048 "embryonic eye morphogenesis" evidence=IBA

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

GO:0042703 "menstruation" evidence=IEA

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

GO:0060014 "granulosa cell differentiation" evidence=IEA

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

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

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0043065 "positive regulation of apoptotic process" evidence=ISS

UNIPROTKB|H9L130 FOXA2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 198 (74.8 bits), Expect = 1.4e-15, P = 1.4e-15
 Identities = 49/131 (37%), Positives = 66/131 (50%)

Query:     4 ASLEPMELKPPGQFSPME---P-CQTSSHKPEPSQSEVEDRCCPS---HAKTHRKPPFTY 56
             A L P  +   GQ   M    P    +S  P   QS +     P     + TH KPP++Y
Sbjct:     6 AHLSPSMISMGGQAGSMNALAPYTNMNSMSPIYGQSNLNRSRDPKTYRRSYTHAKPPYSY 65

Query:    57 TELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS 114
               LI  A+++     LT+S IYQWI + FP+Y QN  RW+NS+RH+LS N  F K  ++ 
Sbjct:    66 ISLITMAIQQSPNKMLTLSEIYQWIMDLFPFYRQNQQRWQNSIRHSLSFNDCFLKVPRSP 125

Query:   115 Q--GAGHLWNL 123
                G G  W L
Sbjct:   126 DKPGKGSFWTL 136

GO:0008134 "transcription factor binding" evidence=IEA

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

GO:0000432 "positive regulation of transcription from RNA polymerase II promoter by glucose" evidence=IEA

GO:0000433 "negative regulation of transcription from RNA polymerase II promoter by glucose" evidence=IEA

GO:0000978 "RNA polymerase II core promoter proximal region sequence-specific DNA binding" evidence=IEA

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

GO:0001705 "ectoderm formation" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0008344 "adult locomotory behavior" evidence=IEA

GO:0010719 "negative regulation of epithelial to mesenchymal transition" evidence=IEA

GO:0021533 "cell differentiation in hindbrain" evidence=IEA

GO:0021904 "dorsal/ventral neural tube patterning" evidence=IEA

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IEA

GO:0030193 "regulation of blood coagulation" evidence=IEA

GO:0031018 "endocrine pancreas development" evidence=IEA

GO:0032525 "somite rostral/caudal axis specification" evidence=IEA

GO:0033132 "negative regulation of glucokinase activity" evidence=IEA

GO:0040019 "positive regulation of embryonic development" evidence=IEA

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

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

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

GO:0045945 "positive regulation of transcription from RNA polymerase III promoter" evidence=IEA

GO:0048468 "cell development" evidence=IEA

GO:0048665 "neuron fate specification" evidence=IEA

GO:0060441 "epithelial tube branching involved in lung morphogenesis" evidence=IEA

GO:0060487 "lung epithelial cell differentiation" evidence=IEA

GO:0061178 "regulation of insulin secretion involved in cellular response to glucose stimulus" evidence=IEA

GO:0071542 "dopaminergic neuron differentiation" evidence=IEA

GO:0090009 "primitive streak formation" evidence=IEA

GO:2000543 "positive regulation of gastrulation" evidence=IEA

GO:2000971 "negative regulation of detection of glucose" evidence=IEA

GO:2000976 "regulation of transcription from RNA polymerase II promoter involved in detection of glucose" evidence=IEA

UNIPROTKB|E2R718 FOXL2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 198 (74.8 bits), Expect = 1.4e-15, P = 1.4e-15
 Identities = 51/138 (36%), Positives = 75/138 (54%)

Query:    11 LKP-PGQFSPMEPCQTSSHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKE--K 67
             L P PG+ +  EP   +   P PS         P      +KPP++Y  LI  A++E  +
Sbjct:    16 LAPEPGR-AAKEP--EAPPPPPPSPGGGGAGAAPEKPDPAQKPPYSYVALIAMAIRESAE 72

Query:    68 HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGA--GHLWNLSD 125
              +LT+SGIYQ+I  +FP+Y +N   W+NS+RHNLS+N  F K  +   G   G+ W L  
Sbjct:    73 KRLTLSGIYQYIIAKFPFYEKNKKGWQNSIRHNLSLNECFIKVPREGGGERKGNYWTL-- 130

Query:   126 MEPV-EDA-SKSNWKKNR 141
              +P  ED   K N+++ R
Sbjct:   131 -DPACEDMFEKGNYRRRR 147

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

GO:0005634 "nucleus" evidence=IEA

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

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

ZFIN|ZDB-GENE-081022-71 zgc:194189 "zgc:194189" [Danio rerio (taxid:7955)]

 Score = 197 (74.4 bits), Expect = 1.9e-15, P = 1.9e-15
 Identities = 46/125 (36%), Positives = 68/125 (54%)

Query:    42 CPSHAKTHRKPPFTYTELIEQALKEKH--QLTVSGIYQWISERFPYYNQNDDRWKNSVRH 99
             CP  A    KPP++Y  LI  A++E    +LT++ IY +I  +FPYY +N   W+NS+RH
Sbjct:    26 CPGAAPAPEKPPYSYVALIAMAIRESEDKKLTLNDIYSYIISKFPYYEKNKKGWQNSIRH 85

Query:   100 NLSINPHFRKGVKASQGA--GHLWNLSDMEPVEDASKSNWKKNRL--KTYLESLQPS--E 153
             NLS+N  F K  + S G   G+ W L D    +   K N+++ R   + Y  +  PS   
Sbjct:    86 NLSLNECFVKIPRESGGERKGNFWTL-DPAFNDMFEKGNYRRRRRVKRPYRPAALPSGYN 144

Query:   154 WGDDY 158
             + D Y
Sbjct:   145 FADPY 149

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

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

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

GO:0005634 "nucleus" evidence=IEA

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

GO:0003677 "DNA binding" 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	331
cd00059	78	cd00059, FH, Forkhead (FH), also known as a "winge	1e-24
smart00339	89	smart00339, FH, FORKHEAD	2e-23
pfam00250	96	pfam00250, Fork_head, Fork head domain	6e-23
COG5025	610	COG5025, COG5025, Transcription factor of the Fork	3e-10
COG5025	610	COG5025, COG5025, Transcription factor of the Fork	2e-07

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

 Score = 94.5 bits (236), Expect = 1e-24
 Identities = 33/77 (42%), Positives = 47/77 (61%), Gaps = 4/77 (5%)

Query: 51  KPPFTYTELIEQALKEKH--QLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y+ LI  A++     +LT+S IY+WIS+ FPY+      W+NS+RHNLS+N  F 
Sbjct: 1   KPPYSYSALIAMAIQSSPEKRLTLSEIYKWISDNFPYFRDAPAGWQNSIRHNLSLNKCFV 60

Query: 109 KGVKAS--QGAGHLWNL 123
           K  +     G G  W L
Sbjct: 61  KVPREPDEPGKGSYWTL 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|214627 smart00339, FH, FORKHEAD

 Score = 91.9 bits (229), Expect = 2e-23
 Identities = 33/75 (44%), Positives = 44/75 (58%), Gaps = 4/75 (5%)

Query: 51  KPPFTYTELIEQALKEKH--QLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+      +LT+S IY+WI + FPYY +N   W+NS+RHNLS+N  F 
Sbjct: 1   KPPYSYIALIAMAILSSPDKRLTLSEIYKWIEDNFPYYRENRAGWQNSIRHNLSLNDCFV 60

Query: 109 K--GVKASQGAGHLW 121
           K        G G  W
Sbjct: 61  KVPREGDRPGKGSYW 75

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

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

 Score = 90.8 bits (226), Expect = 6e-23
 Identities = 38/80 (47%), Positives = 49/80 (61%), Gaps = 6/80 (7%)

Query: 51  KPPFTYTELIEQALK---EKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHF 107
           KPP++Y  LI  A++   EK  LT+S IYQWI + FPYY QN   W+NS+RHNLS+N  F
Sbjct: 1   KPPYSYIALITMAIQQSPEK-MLTLSEIYQWIMDLFPYYRQNKQGWQNSIRHNLSLNKCF 59

Query: 108 RKGVKA--SQGAGHLWNLSD 125
            K  ++    G G  W L  
Sbjct: 60  IKVPRSPDKPGKGSYWTLDP 79

Length = 96

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

 Score = 60.6 bits (147), Expect = 3e-10
 Identities = 31/109 (28%), Positives = 44/109 (40%), Gaps = 2/109 (1%)

Query: 47  KTHRKPPFTYTELIEQALKEKHQ--LTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSIN 104
               KP F+Y   I QA+       +T+S IY WIS   PYY      W+NS+RHNLS+N
Sbjct: 333 NRTSKPAFSYANSITQAILSSPSGKMTLSEIYSWISSNLPYYRHKPTAWQNSIRHNLSLN 392

Query: 105 PHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLESLQPSE 153
             F K  +++   G               +S       K    +    +
Sbjct: 393 KSFEKVPRSASQPGKGCFWKIDYSYIYEKESKRNPRSPKKSPSAHSVHQ 441

Length = 610

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

 Score = 52.5 bits (126), Expect = 2e-07
 Identities = 30/78 (38%), Positives = 41/78 (52%), Gaps = 4/78 (5%)

Query: 48  THRKPPFTYTELIEQALKEKH--QLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP 105
           T+  PP++Y      A+       LT+S IY WI   F YY +   RW+NS+RHNLS+N 
Sbjct: 83  TYYVPPYSYATGRGLAILNSPDKPLTLSKIYTWIHNTFFYYAKVVSRWQNSIRHNLSLND 142

Query: 106 HFRKGVKAS--QGAGHLW 121
            F K    +  +  GH W
Sbjct: 143 AFIKIEGRNGAKVKGHFW 160

Length = 610

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	331
KOG3563|consensus	454		100.0
cd00059	78	FH Forkhead (FH), also known as a "winged helix".	100.0
PF00250	96	Fork_head: Fork head domain; InterPro: IPR001766 T	100.0
smart00339	89	FH FORKHEAD. FORKHEAD, also known as a "winged hel	99.98
KOG2294|consensus	454		99.96
KOG3562|consensus	277		99.95
KOG4385|consensus	581		99.84
COG5025	610	Transcription factor of the Forkhead/HNF3 family [	99.76
COG5025	610	Transcription factor of the Forkhead/HNF3 family [	99.3
PF09354	65	HNF_C: HNF3 C-terminal domain; InterPro: IPR018533	98.83
PF00538	77	Linker_histone: linker histone H1 and H5 family; I	94.28
smart00526	66	H15 Domain in histone families 1 and 5.	92.59
cd00073	88	H15 linker histone 1 and histone 5 domains; the ba	91.03
KOG4012|consensus	243		83.73
PF05066	72	HARE-HTH: HB1, ASXL, restriction endonuclease HTH	80.51

>KOG3563|consensus

Probab=100.00  E-value=9.4e-53  Score=407.01  Aligned_cols=223  Identities=28%  Similarity=0.391  Sum_probs=154.0

Q ss_pred             CCCCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcce
Q psy6789          45 HAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHL  120 (331)
Q Consensus        45 ~~~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~  120 (331)
                      ..-++.||||||+.||+|||+.  .++|||+|||+||++.|||||.+.+.|||||||.||+|+||+||.|.  -+|||+|
T Consensus       167 RsY~haKPPYSYISLITMAIQ~~pskmLTLSEIYqwIMDLFPyYrqNQQRWQNSIRHSLSFNDCFVKVaRSPDKPGKGSf  246 (454)
T KOG3563|consen  167 RSYTHAKPPYSYISLITMAIQQAPSKMLTLSEIYQWIMDLFPYYRQNQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSF  246 (454)
T ss_pred             ccccCCCCChhHHHHHHHHHHhCCccceeHHHHHHHHHHhhhHhhhhHHHHHhhhhhhccccceeeeccCCCCCCCCccc
Confidence            3457889999999999999986  79999999999999999999999999999999999999999999995  5899999


Q ss_pred             EeecCC--CchhhhhhhhhhhhhhhhhhhccC-CCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy6789         121 WNLSDM--EPVEDASKSNWKKNRLKTYLESLQ-PSEWGDDYSGQ--------NSTETPAPSMETMPQPQPQPLNTMSLAH  189 (331)
Q Consensus       121 Wtl~~~--~~~e~~~~~~~kr~R~~~~~~s~~-P~~~g~~~sg~--------~s~e~paps~~s~P~p~p~Pl~t~S~a~  189 (331)
                      |||+++  ...|+++..+|+    |+|..... +...+.+.++.        .+.+..+-.+...+  .+.|+++    .
T Consensus       247 WTLHpdsGNMFENGCYLRRQ----KRFK~ekk~~~~~~~gas~s~~~~~~~~~k~~~~~~~~t~p~--~~sp~Ga----p  316 (454)
T KOG3563|consen  247 WTLHPDSGNMFENGCYLRRQ----KRFKCEKKEASKGGSGASGSGLNGTGGGPKSTTDAATATSPP--QPSPAGA----P  316 (454)
T ss_pred             eeecCCcCcccccchhehhh----hhhhhhhhhccccCCCCccccccccCCCcccccCcccCCCCC--CCCCCCC----C
Confidence            999985  456776654433    33322222 11222222211        11111111111112  2222222    1


Q ss_pred             CCCCCCcCCCcccc---CCCccccccccccccCCCcc----------cCCCCCCccCCCCCcCCCCCCCCcccCCCcchh
Q psy6789         190 DPLQPFEVYSQESK---TFPYEECKDVLYIQSNDNVL----------YTPHEDHKLYHNDNVLYTPGEDHKLYQYEPSKN  256 (331)
Q Consensus       190 ~P~~p~~~~~q~~k---~~P~~~~k~~~~~~~~~~~~----------~~p~~~h~l~~~~~~~hlk~d~hy~fn~pfsin  256 (331)
                      .|..-.++..++++   +.--.+|+-+++....+...          +....-|.+.+|..++|||.|+||+||||||||
T Consensus       317 ap~~~ae~~~~~ha~~a~~ga~~l~~~pas~t~~~~~~~~pg~~~s~~~~~~~~~~~~h~sq~~lk~~~~Yafnhpfsin  396 (454)
T KOG3563|consen  317 APSPEAEPKEGLHAVDATGGALELGLTPASSTPPPTGLSQPGSVASSAATLGAHGLAPHTSQAHLKLDPHYAFNHPFSIN  396 (454)
T ss_pred             CCCcccchhhhhhhhhhcccccccCCCCcccCCCCcCCCCcchhhhhhhccCCCcCCCCccccccccCCCccccCchhhh
Confidence            22222333334444   34445566555555544432          233333778888888999999999999999999


Q ss_pred             hhhhcccCCcceeeccccchhh
Q psy6789         257 LIMAAYDGGQEKVEIFASDTIS  278 (331)
Q Consensus       257 nlmss~~~qq~k~d~ka~~~~~  278 (331)
                      |||++++ |+|||||||-|+.+
T Consensus       397 nlmss~q-~~~kld~k~Y~~~~  417 (454)
T KOG3563|consen  397 NLMSSSQ-QAHKLDVKAYEQTS  417 (454)
T ss_pred             hhccccc-cccccchhhhhhhc
Confidence            9999999 88999999988764

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

Probab=100.00  E-value=2.8e-35  Score=232.85  Aligned_cols=74  Identities=45%  Similarity=0.955  Sum_probs=71.6

Q ss_pred             CCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeec
Q psy6789          51 KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLS  124 (331)
Q Consensus        51 KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~  124 (331)
                      ||||||++||++||++  +++|||+|||+||+++|||||.++.|||||||||||+|+||+||+|+  +.|||+||+||
T Consensus         1 kP~~sY~~LI~~Ai~~sp~~~lTL~eIy~~I~~~~pyyr~~~~gWknSIRHnLS~n~~F~kv~r~~~~~gkg~~W~i~   78 (78)
T cd00059           1 KPPYSYSALIAMAIQSSPEKRLTLSEIYKWISDNFPYFRDAPAGWQNSIRHNLSLNKCFVKVPREPDEPGKGSYWTLD   78 (78)
T ss_pred             CCCCCHHHHHHHHHHhCCCCCeeHHHHHHHHHHhCCccccCCCCCccceeEecccccceEECCCCCCCCCCCCeeeeC
Confidence            8999999999999986  79999999999999999999999999999999999999999999997  78999999996

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=100.00  E-value=1.5e-34  Score=236.17  Aligned_cols=80  Identities=44%  Similarity=0.869  Sum_probs=71.9

Q ss_pred             CCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCcc--CCCCCcceEeecCC
Q psy6789          51 KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVK--ASQGAGHLWNLSDM  126 (331)
Q Consensus        51 KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r--~~~GKG~~Wtl~~~  126 (331)
                      ||||||++||++||++  +++|||+|||+||+++||||+.+.++||||||||||+|+||+||++  +..|||++|+|+++
T Consensus         1 KPp~sY~~LI~~Ai~~sp~~~Ltl~eIy~~i~~~~pyyr~~~~~WknSIRHnLS~~~~F~kv~~~~~~~gkg~~W~i~~~   80 (96)
T PF00250_consen    1 KPPYSYATLIAMAILSSPDKRLTLSEIYEWIEENFPYYRDASKGWKNSIRHNLSLNKCFVKVPRDPSEPGKGSYWTIDPE   80 (96)
T ss_dssp             -SSS-HHHHHHHHHHTSTTSEBEHHHHHHHHHHHCGHHHCTHCHHHHHHHHHHHHSTTEEEESCCTSSSSSSEEEEE-CT
T ss_pred             CCCCcHHHHHHHHHHhCCCCCccHHHHHHHHHHhhccccccchhhhhHHhhhccccceeeecCcCCCCCCCceeEEeCHH
Confidence            8999999999999986  7999999999999999999999999999999999999999999999  46899999999997


Q ss_pred             Cchh
Q psy6789         127 EPVE  130 (331)
Q Consensus       127 ~~~e  130 (331)
                      +..+
T Consensus        81 ~~~~   84 (96)
T PF00250_consen   81 AIEE   84 (96)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

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=99.98  E-value=3.3e-33  Score=225.68  Aligned_cols=79  Identities=43%  Similarity=0.864  Sum_probs=74.1

Q ss_pred             CCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeecCC
Q psy6789          51 KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSDM  126 (331)
Q Consensus        51 KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~~~  126 (331)
                      ||||||++||++||.+  +++|||+|||+||+++||||+.+.+|||||||||||+|+||+|+++.  ++|||++|+|+++
T Consensus         1 kP~~sY~~lI~~ai~~sp~~~ltl~~Iy~~I~~~~pyy~~~~~~WknSIRHnLS~n~~F~kv~~~~~~~gkg~~W~i~~~   80 (89)
T smart00339        1 KPPYSYIALIAMAILSSPDKRLTLSEIYKWIEDNFPYYRENRAGWQNSIRHNLSLNDCFVKVPREGDRPGKGSYWTLDPD   80 (89)
T ss_pred             CCCCCHHHHHHHHHHhCCCCCeeHHHHHHHHHHhCchhhcCccccccccccccchhhceeecCcCCCCCCCCCEEEECcc
Confidence            8999999999999986  79999999999999999999999999999999999999999999984  5699999999997


Q ss_pred             Cch
Q psy6789         127 EPV  129 (331)
Q Consensus       127 ~~~  129 (331)
                      +..
T Consensus        81 ~~~   83 (89)
T smart00339       81 AEN   83 (89)
T ss_pred             HHH
Confidence            543

FORKHEAD, also known as a "winged helix"

>KOG2294|consensus

Probab=99.96  E-value=6.5e-31  Score=257.57  Aligned_cols=95  Identities=36%  Similarity=0.707  Sum_probs=81.3

Q ss_pred             CCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHh-cCCCCCCCC-cccccccccccccccccccCccC--CCCCcce
Q psy6789          47 KTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISE-RFPYYNQND-DRWKNSVRHNLSINPHFRKGVKA--SQGAGHL  120 (331)
Q Consensus        47 ~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~-~fPyyr~~~-~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~  120 (331)
                      +...||||||++||+|||+.  +++|||+|||+||.. +|||||+++ .|||||||||||||+||+||+|+  .+|||+|
T Consensus       126 ~~~~kpp~SY~~LI~mAI~~Sp~krLtLs~Iy~~i~~~~fpyyr~~~~~gWqNSIRHNLSLn~cF~Kvpr~~~~~gKg~~  205 (454)
T KOG2294|consen  126 GAGVKPPYSYSGLIAMAIRLSPGKRLTLGGIYFYILLEHFPYYRDANMPGWKNSIRHNLSLNKCFVKVPRERGRPGKGNY  205 (454)
T ss_pred             CCCcCCccccccccccccccCCCcceeecCeeEEEEeccccccccCCCccchhhcccccccccCccccCCcccCCCCCCc
Confidence            45789999999999999985  899999999999995 999999999 99999999999999999999996  3699999


Q ss_pred             EeecCCCchhhhhhhhhhhhh
Q psy6789         121 WNLSDMEPVEDASKSNWKKNR  141 (331)
Q Consensus       121 Wtl~~~~~~e~~~~~~~kr~R  141 (331)
                      |+||++...+.+..+.++|+|
T Consensus       206 W~ldP~~~~~~~~~g~~~rr~  226 (454)
T KOG2294|consen  206 WTLDPDDENNMFDNGSFRRRR  226 (454)
T ss_pred             cccCcchhccccccccccccc
Confidence            999996443344434444433

>KOG3562|consensus

Probab=99.95  E-value=1.1e-29  Score=234.32  Aligned_cols=87  Identities=39%  Similarity=0.761  Sum_probs=79.1

Q ss_pred             CCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEe
Q psy6789          47 KTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWN  122 (331)
Q Consensus        47 ~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wt  122 (331)
                      -.++||||||+.|.+|||+.  ++.|.|+|||+||+++|||||.+.+.||||+|||||+|+||+||+|.  .+|||+||+
T Consensus         9 Y~dQKPPYSYIsLTaMAI~~SpekmLPLseIYkfImDrFPfYRkNTQrWQNSLRHNLSFNDCFIKiPRr~drpGKGsyWa   88 (277)
T KOG3562|consen    9 YGDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPFYRKNTQRWQNSLRHNLSFNDCFIKIPRRPDRPGKGSYWA   88 (277)
T ss_pred             ccccCCCceeeehhhHHhhcChhhcCcHHHHHHHHHhhCchhhhchHHHHHHhhccccccceeeecCCCCCCCCCcccee
Confidence            35789999999999999986  89999999999999999999999999999999999999999999995  689999999


Q ss_pred             ecCCC--chhhhh
Q psy6789         123 LSDME--PVEDAS  133 (331)
Q Consensus       123 l~~~~--~~e~~~  133 (331)
                      |++.+  ..|++.
T Consensus        89 lHP~a~dMFENGS  101 (277)
T KOG3562|consen   89 LHPSAFDMFENGS  101 (277)
T ss_pred             eccchhhhcccch
Confidence            99964  344443

>KOG4385|consensus

Probab=99.84  E-value=1.8e-22  Score=202.22  Aligned_cols=76  Identities=41%  Similarity=0.847  Sum_probs=72.1

Q ss_pred             CCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccCCCCCcceEeecC
Q psy6789          48 THRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSD  125 (331)
Q Consensus        48 ~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~~Wtl~~  125 (331)
                      .+.||||+|+.||.+||.+  +++|||+|||.|+.+.|.|||.+...|||+||||||++|||++|+.   -||..|++|+
T Consensus       365 ~dvRPPfTYAsLIRqAIlESpdkQLTLNEIY~WFTrtFAYFRRNaATWKnAVRHNLSLHKCF~RVEn---vkgavwtvDe  441 (581)
T KOG4385|consen  365 ADVRPPFTYASLIRQAILESPDKQLTLNEIYNWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN---VKGAVWTVDE  441 (581)
T ss_pred             cccCCchhHHHHHHHHHhcCchhhccHHHHHHHHHHHHHHHhccchhHhHHHhhhhHHHHHHHHHHH---Hhcceeeeeh
Confidence            5679999999999999986  8999999999999999999999999999999999999999999987   4999999997


Q ss_pred             C
Q psy6789         126 M  126 (331)
Q Consensus       126 ~  126 (331)
                      .
T Consensus       442 ~  442 (581)
T KOG4385|consen  442 R  442 (581)
T ss_pred             h
Confidence            4

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

Probab=99.76  E-value=1.2e-19  Score=187.96  Aligned_cols=96  Identities=36%  Similarity=0.684  Sum_probs=86.3

Q ss_pred             CCCCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcce
Q psy6789          45 HAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHL  120 (331)
Q Consensus        45 ~~~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~  120 (331)
                      ..+...||+++|+.||++||..  .++|+|++||.||..+|||||.+..+|+||||||||+|++|.||+++  .+|||+|
T Consensus       331 ~~~~~~kP~~sya~~iT~ail~s~~~kmsls~Iy~~i~s~~pyYr~~p~~w~nSiRhnlSlNksf~kvP~sa~~pGKg~f  410 (610)
T COG5025         331 DVNRTSKPAFSYANSITQAILSSPSGKMTLSEIYSWISSNLPYYRHKPTAWQNSIRHNLSLNKSFEKVPRSASQPGKGCF  410 (610)
T ss_pred             ccccCccCCcchhhhhHHHhhcCcccccccccccccccccchhhccCCcccCchhhhhhhhccccccCCCCcCCCCCccc
Confidence            3456789999999999999986  78999999999999999999999999999999999999999999996  6899999


Q ss_pred             EeecCCCchhhhhhhhhhhh
Q psy6789         121 WNLSDMEPVEDASKSNWKKN  140 (331)
Q Consensus       121 Wtl~~~~~~e~~~~~~~kr~  140 (331)
                      |.++.++..+++.++.+++.
T Consensus       411 w~i~~s~~~~~~sk~~~~s~  430 (610)
T COG5025         411 WKIDYSYIYEKESKRNPRSP  430 (610)
T ss_pred             CccChhhhhhhcccccccCc
Confidence            99999888888766554433

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

Probab=99.30  E-value=2.1e-13  Score=141.94  Aligned_cols=86  Identities=35%  Similarity=0.597  Sum_probs=77.6

Q ss_pred             CCCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceE
Q psy6789          46 AKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLW  121 (331)
Q Consensus        46 ~~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~W  121 (331)
                      ..+.-+|||+|+.+|.+||.+  +++|||..||.||-..|.||.....+|+|||||||++|+.|.|+.+.  ..|||.||
T Consensus        81 ~~t~~v~~~s~a~gr~~~il~s~~~~lt~s~~~~~~~~~~~~~~k~~~~~~~sIr~Nls~~~a~~~i~g~~g~~~~g~~~  160 (610)
T COG5025          81 NWTYYVPPYSYATGRGLAILNSPDKPLTLSKIYTWIHNTFFYYAKVVSRWQNSIRHNLSLNDAFIKIEGRNGAKVKGHFW  160 (610)
T ss_pred             CcccccCCeeeeeccccccccCcccCCcccceeeeeeecccccccccchhhhhhhcccccCceEEEEeccCCccccceee
Confidence            457789999999999999986  89999999999999999999999999999999999999999999875  46899999


Q ss_pred             eecCCCchhh
Q psy6789         122 NLSDMEPVED  131 (331)
Q Consensus       122 tl~~~~~~e~  131 (331)
                      .|.++.....
T Consensus       161 ~igP~~~~~~  170 (610)
T COG5025         161 SIGPGHETQF  170 (610)
T ss_pred             ccCCCcccee
Confidence            9999744333

>PF09354 HNF_C: HNF3 C-terminal domain; InterPro: IPR018533 This presumed domain is found in the C-terminal region of Hepatocyte Nuclear Factor 3 alpha and beta chains

Probab=98.83  E-value=6.2e-10  Score=86.10  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=22.3

Q ss_pred             CCCcchhhhhhcccCCcceeeccccchh
Q psy6789         250 QYEPSKNLIMAAYDGGQEKVEIFASDTI  277 (331)
Q Consensus       250 n~pfsinnlmss~~~qq~k~d~ka~~~~  277 (331)
                      ||||||||||++++  |||+||||-|..
T Consensus         1 nHPFSI~nLms~eq--q~k~dlK~Ye~~   26 (65)
T PF09354_consen    1 NHPFSINNLMSSEQ--QHKMDLKMYEQM   26 (65)
T ss_pred             CCCcchhhhccccc--ccchhHHHHHHH
Confidence            89999999996665  499999998765

Its specific function is uncertain. The N-terminal region of this presumed domain contains an EH1 (engrailed homology 1) motif, that is characterised by the FxIxxIL sequence [].

>PF00538 Linker_histone: linker histone H1 and H5 family; InterPro: IPR005818 Histone proteins have central roles in both chromatin organisation (as structural units of the nucleosome) and gene regulation (as dynamic components that have a direct impact on DNA transcription and replication)

Probab=94.28  E-value=0.044  Score=42.79  Aligned_cols=33  Identities=24%  Similarity=0.645  Sum_probs=28.7

Q ss_pred             CCCCCHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCC
Q psy6789          51 KPPFTYTELIEQALKE---KHQLTVSGIYQWISERFPY   85 (331)
Q Consensus        51 KPPySYa~LI~~AI~~---~krLTL~eIY~~I~~~fPy   85 (331)
                      .||  |..||.+||.+   .+..++..|..||+++|+.
T Consensus         2 hP~--y~~mI~eAI~~l~er~GsS~~aI~kyI~~~y~~   37 (77)
T PF00538_consen    2 HPP--YSDMILEAIKALKERKGSSLQAIKKYIKAKYKV   37 (77)
T ss_dssp             SSC--HHHHHHHHHHHCCSSSSEEHHHHHHHHHHHSSC
T ss_pred             CCC--HHHHHHHHHHHcCCCCCCCHHHHHHHHHHhcCc
Confidence            355  99999999975   4789999999999999965

Eukaryotic DNA wraps around a histone octamer to form a nucleosome, the first order of compaction of eukaryotic chromatin. The core histone octamer is composed of a central H3-H4 tetramer and two flanking H2A-H2B dimers. Each of the core histone contains a common structural motif, called the histone fold, which facilitates the interactions between the individual core histones. In addition to the core histones, there is a "linker histone" called H1 (or H5 in avian species). The linker histones present in all multicellular eukaryotes are the most divergent group of histones, with numerous cell type- and stage-specific variant. Linker histone H1 is an essential component of chromatin structure. H1 links nucleosomes into higher order structures. Histone H5 performs the same function as histone H1, and replaces H1 in certain cells. The structure of GH5, the globular domain of the linker histone H5 is known [, ]. The fold is similar to the DNA-binding domain of the catabolite gene activator protein, CAP, thus providing a possible model for the binding of GH5 to DNA. The linker histones, which do not contain the histone fold motif, are critical to the higher-order compaction of chromatin, because they bind to internucleosomal DNA and facilitate interactions between individual nucleosomes. In addition, H1 variants have been shown to be involved in the regulation of developmental genes. A common feature of this protein family is a tripartite structure in which a globular (H15) domain of about 80 amino acids is flanked by two less structured N- and C-terminal tails. The H15 domain is also characterised by high sequence homology among the family of linker histones. The highly conserved H15 domain is essential for the binding of H1 or H5 to the nucleosome. It consists of a three helix bundle (I-III), with a beta-hairpin at the C terminus. There is also a short three-residue stretch between helices I and II that is in the beta-strand conformation. Together with the C-terminal beta-hairpin, this strand forms the third strand of an antiparallel beta-sheet [, , , ]. Proteins known to contain a H15 domain are: - Eukaryotic histone H1. The histones H1 constitute a family with many variants, differing in their affinity for chromatin. Several variants are simultaneously present in a single cell. For example, the nucleated erythrocytes of birds contain both H1 and H5, the latter being an extreme variant of H1. - Eukaryotic MHYST family of histone acetyltransferase. Histone acetyltransferases transfer an acetyl group from acetyl-CoA to the epsylon- amino group of lysine within the basic NH2-termini of histones, which bind the acidic phosphates of DNA []. This entry represents the H15 domain.; GO: 0003677 DNA binding, 0006334 nucleosome assembly, 0000786 nucleosome, 0005634 nucleus; PDB: 2LSO_A 2RQP_A 1UHM_A 1UST_A 1GHC_A 1HST_A 1YQA_A 1USS_A.

>smart00526 H15 Domain in histone families 1 and 5

Probab=92.59  E-value=0.17  Score=38.21  Aligned_cols=30  Identities=20%  Similarity=0.527  Sum_probs=26.8

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFP   84 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fP   84 (331)
                      +|..||..||..   .+..++..|..||+.+|.
T Consensus         6 ~~~~mI~eAI~~l~er~GsS~~aI~kyi~~~~~   38 (66)
T smart00526        6 PYSEMITEAISALKERKGSSLQAIKKYIEANYK   38 (66)
T ss_pred             CHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhCC
Confidence            599999999975   477999999999999965

>cd00073 H15 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber

Probab=91.03  E-value=0.29  Score=39.31  Aligned_cols=32  Identities=19%  Similarity=0.502  Sum_probs=28.2

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFPYY   86 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fPyy   86 (331)
                      +|..||.+||..   .+..++..|..||+.+|+.-
T Consensus         6 ~y~~MI~eAI~~l~er~GsS~~aI~kyI~~~y~~~   40 (88)
T cd00073           6 PYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD   40 (88)
T ss_pred             CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCcc
Confidence            599999999975   57899999999999998753

>KOG4012|consensus

Probab=83.73  E-value=3.2  Score=39.97  Aligned_cols=71  Identities=21%  Similarity=0.419  Sum_probs=48.3

Q ss_pred             CCCCCCCCCCCHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCCCCCCCccccccccccccccc-----ccccCccCCCC
Q psy6789          45 HAKTHRKPPFTYTELIEQALKE---KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINP-----HFRKGVKASQG  116 (331)
Q Consensus        45 ~~~~~~KPPySYa~LI~~AI~~---~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk-----~F~Kv~r~~~G  116 (331)
                      .......|+  |+.||..||..   .....+.-|+.||..+|+-|.-..    |--|.+++|+.     .|+++    .|
T Consensus        38 ~k~~a~~P~--~~~mi~eAi~a~keR~GsS~aAikK~i~~~Y~g~~v~k----~n~~lk~alK~~v~~g~l~Qt----kG  107 (243)
T KOG4012|consen   38 VKKKAAHPP--YSEMITEAISALKERKGSSLAAIKKYIAANYPGDDVEK----NNSRLKLALKKGVSKGVLVQT----KG  107 (243)
T ss_pred             cccccCCCc--HHHHHHHHHHHhhhcccchHHHHHHHHhhcCccchhhh----hhHHHHHHHHhhhccCceeee----cc
Confidence            334455666  99999999975   578999999999999998775432    12355555543     33332    37


Q ss_pred             CcceEeecC
Q psy6789         117 AGHLWNLSD  125 (331)
Q Consensus       117 KG~~Wtl~~  125 (331)
                      .|.-|....
T Consensus       108 ~GAsGsFk~  116 (243)
T KOG4012|consen  108 TGASGSFKL  116 (243)
T ss_pred             CCccccccc
Confidence            777776654

>PF05066 HARE-HTH: HB1, ASXL, restriction endonuclease HTH domain; InterPro: IPR007759 DNA-directed RNA polymerases 2

Probab=80.51  E-value=1.4  Score=33.61  Aligned_cols=57  Identities=23%  Similarity=0.286  Sum_probs=37.1

Q ss_pred             CCHHHHHHHHHhc-CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccc-----cccccccCc
Q psy6789          54 FTYTELIEQALKE-KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLS-----INPHFRKGV  111 (331)
Q Consensus        54 ySYa~LI~~AI~~-~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLS-----lnk~F~Kv~  111 (331)
                      +||..++...|++ ++.|+.+||++.|++.--| ...++...++|+-.|.     .+..|+++.
T Consensus         1 mt~~eaa~~vL~~~~~pm~~~eI~~~i~~~~~~-~~~~k~p~~~i~a~ly~~~~~~d~~F~~vg   63 (72)
T PF05066_consen    1 MTFKEAAYEVLEEAGRPMTFKEIWEEIQERGLY-KKSGKTPEATIAAQLYTDIKNEDSRFVKVG   63 (72)
T ss_dssp             S-HHHHHHHHHHHH-S-EEHHHHHHHHHHHHTS----GGGGGHHHH-HHHHHHH-T-SS-EESS
T ss_pred             CCHHHHHHHHHHhcCCCcCHHHHHHHHHHhCCC-CcccCCHHHHHHHHHHHHcccCCCCEEEeC
Confidence            4788888888887 7889999999999987655 2226667777774443     345788875

7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The delta protein is a dispensable subunit of Bacillus subtilis RNA polymerase (RNAP) that has major effects on the biochemical properties of the purified enzyme. In the presence of delta, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling []. The delta protein, contains two distinct regions, an N-terminal domain and a glutamate and aspartate residue-rich C-terminal region [].; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent; PDB: 2KRC_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	331
1vtn_C	102	Co-Crystal Structure Of The Hnf-3FORK HEAD DNA-Reco		1e-13
2a3s_A	101	Solution Structure And Dynamics Of Dna-Binding Doma		2e-13
1d5v_A	94	Solution Structure Of The Forkhead Domain Of The Ad		2e-12
2kiu_A	87	Solution Structure And Backbone Dynamics Of The Dna		2e-12
2c6y_A	111	Crystal Structure Of Interleukin Enhancer-Binding F		3e-12
1jxs_A	98	Solution Structure Of The Dna-Binding Domain Of Int		4e-12
2a07_F	93	Crystal Structure Of Foxp2 Bound Specifically To Dn		7e-12
2hfh_A	109	The Nmr Structures Of A Winged Helix Protein: Genes		8e-12
2hdc_A	97	Structure Of Transcription Factor GenesisDNA COMPLE		1e-11
3qrf_F	82	Structure Of A Domain-Swapped Foxp3 Dimer Length =		8e-09
3g73_A	142	Structure Of The Foxm1 Dna Binding Length = 142		4e-08
1e17_A	150	Solution Structure Of The Dna Binding Domain Of The		5e-07
3l2c_A	110	Crystal Structure Of The Dna Binding Domain Of Foxo		5e-07
1kq8_A	100	Solution Structure Of Winged Helix Protein Hfh-1 Le		6e-07
3co7_C	117	Crystal Structure Of Foxo1 Dbd Bound To Dbe2 Dna Le		2e-06
3co6_C	100	Crystal Structure Of Foxo1 Dbd Bound To Dbe1 Dna Le		2e-06
2uzk_A	97	Crystal Structure Of The Human Foxo3a-Dbd Bound To		4e-06
2k86_A	103	Solution Structure Of Foxo3a Forkhead Domain Length		5e-06

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 49/79 (62%), Gaps = 4/79 (5%)
Query: 49  HRKPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
           H KPP++Y  LI  A+++     LT+S IYQWI + FPYY +N  RW+NS+RH+LS N  
Sbjct: 1   HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 60
Query: 107 FRKGVKASQ--GAGHLWNL 123
           F K  ++    G G  W L
Sbjct: 61  FVKVARSPDKPGKGSYWAL 79

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

Iteration: 1
 Score = 73.2 bits (178), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 38/89 (42%), Positives = 57/89 (64%), Gaps = 7/89 (7%)
Query: 51  KPPFTYTELIEQAL--KEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y +LI QA+   +  QLT+SGIY  I++ +PYY   D  W+NS+RHNLS+N +F 
Sbjct: 3   KPPYSYAQLIVQAISSAQDRQLTLSGIYAHITKHYPYYRTADKGWQNSIRHNLSLNRYFI 62
Query: 109 KGVKASQ--GAGHLWNL---SDMEPVEDA 132
           K  ++ +  G G  W +   S+ + VE A
Sbjct: 63  KVPRSQEEPGKGSFWRIDPASEAKLVEQA 91

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

Iteration: 1
 Score = 70.1 bits (170), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 51/77 (66%), Gaps = 4/77 (5%)
Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A++   + ++T++GIYQ+I +RFP+Y +N   W+NS+RHNLS+N  F 
Sbjct: 4   KPPYSYIALITMAIQNAPEKKITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECFV 63
Query: 109 KGVKASQ--GAGHLWNL 123
           K  +  +  G G  W L
Sbjct: 64  KVPRDDKKPGKGSYWTL 80

>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 = 69.7 bits (169), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 34/79 (43%), Positives = 51/79 (64%), Gaps = 5/79 (6%)
Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           +PPFTY  LI QA+ E  + QLT++ IY W +  FPY+ +N   WKN+VRHNLS++ +F 
Sbjct: 4   RPPFTYASLIRQAILESPEKQLTLNEIYNWFTRMFPYFRRNAATWKNAVRHNLSLHKYF- 62
Query: 109 KGVKASQGAGHLWNLSDME 127
             V+     G +W + ++E
Sbjct: 63  --VRVENVKGAVWTVDEVE 79

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

Iteration: 1
 Score = 69.3 bits (168), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 50/77 (64%), Gaps = 4/77 (5%)
Query: 51  KPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y +LI QA+      QLT++GIY  I++ +PYY   D  W+NS+RHNLS+N +F 
Sbjct: 16  KPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFI 75
Query: 109 KGVKASQ--GAGHLWNL 123
           K  ++ +  G G  W +
Sbjct: 76  KVPRSQEEPGKGSFWRI 92

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

Iteration: 1
 Score = 68.9 bits (167), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 50/77 (64%), Gaps = 4/77 (5%)
Query: 51  KPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y +LI QA+      QLT++GIY  I++ +PYY   D  W+NS+RHNLS+N +F 
Sbjct: 3   KPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFI 62
Query: 109 KGVKASQ--GAGHLWNL 123
           K  ++ +  G G  W +
Sbjct: 63  KVPRSQEEPGKGSFWRI 79

>pdb|2A07|F Chain F, Crystal Structure Of Foxp2 Bound Specifically To Dna. Length = 93

Iteration: 1
 Score = 68.2 bits (165), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 33/79 (41%), Positives = 48/79 (60%), Gaps = 5/79 (6%)
Query: 51  KPPFTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           +PPFTY  LI QA+ E    QLT++ IY W +  F Y+ +N   WKN+VRHNLS++  F 
Sbjct: 3   RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCF- 61
Query: 109 KGVKASQGAGHLWNLSDME 127
             V+     G +W + ++E
Sbjct: 62  --VRVENVKGAVWTVDEVE 78

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

Iteration: 1
 Score = 67.8 bits (164), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 35/77 (45%), Positives = 49/77 (63%), Gaps = 4/77 (5%)
Query: 51  KPPFTYTELIEQALKEKHQ--LTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+ +  Q  LT+SGI ++IS RFPYY +    W+NS+RHNLS+N  F 
Sbjct: 3   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62
Query: 109 KGVK--ASQGAGHLWNL 123
           K  +   + G G+ W L
Sbjct: 63  KIPREPGNPGKGNYWTL 79

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

Iteration: 1
 Score = 67.4 bits (163), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/77 (45%), Positives = 49/77 (63%), Gaps = 4/77 (5%)
Query: 51  KPPFTYTELIEQALKEKHQ--LTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+ +  Q  LT+SGI ++IS RFPYY +    W+NS+RHNLS+N  F 
Sbjct: 2   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 109 KGVK--ASQGAGHLWNL 123
           K  +   + G G+ W L
Sbjct: 62  KIPREPGNPGKGNYWTL 78

>pdb|3QRF|F Chain F, Structure Of A Domain-Swapped Foxp3 Dimer Length = 82

Iteration: 1
 Score = 57.8 bits (138), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 28/79 (35%), Positives = 46/79 (58%), Gaps = 5/79 (6%)
Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           +PPFTY  LI  A+ E  + Q T++ IY W +  F ++  +   WKN++RHNLS++  F 
Sbjct: 2   RPPFTYATLIRWAILEAPEKQRTLNEIYHWFTRMFAFFRNHPATWKNAIRHNLSLHKCF- 60
Query: 109 KGVKASQGAGHLWNLSDME 127
             V+     G +W + ++E
Sbjct: 61  --VRVESEKGAVWTVDELE 77

>pdb|3G73|A Chain A, Structure Of The Foxm1 Dna Binding Length = 142

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 45/76 (59%), Gaps = 4/76 (5%)
Query: 51  KPPFTYTELIEQALK--EKHQLTVSGIYQWISERFPYYNQ-NDDRWKNSVRHNLSINPHF 107
           +PP++Y  +I+ A+   E+ ++T+  IY WI + FPY+       WKNS+RHNLS++  F
Sbjct: 18  RPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDMF 77
Query: 108 RKGVKASQGAGHLWNL 123
            +   A+ G    W +
Sbjct: 78  VRETSAN-GKVSFWTI 92

>pdb|3L2C|A Chain A, Crystal Structure Of The Dna Binding Domain Of Foxo4 Bound To Dna Length = 110

Iteration: 1
 Score = 51.6 bits (122), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 55  TYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDR-----WKNSVRHNLSINPHF 107
           +Y ELI QA++   + +LT++ IY+W+    PY+    D      WKNS+RHNLS++  F
Sbjct: 28  SYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 87
Query: 108 RKGVKASQGAGHLWNL 123
            K    + G    W L
Sbjct: 88  IKVHNEATGKSSWWML 103

>pdb|1KQ8|A Chain A, Solution Structure Of Winged Helix Protein Hfh-1 Length = 100

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/61 (39%), Positives = 41/61 (67%), Gaps = 2/61 (3%)
Query: 51  KPPFTYTELIEQALKEKH--QLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+++    +LT++ I +++  +FP++  +   W+NSVRHNLS+N  F 
Sbjct: 2   KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 109 K 109
           K
Sbjct: 62  K 62

>pdb|3CO7|C Chain C, Crystal Structure Of Foxo1 Dbd Bound To Dbe2 Dna Length = 117

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 7/77 (9%)
Query: 54  FTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDR-----WKNSVRHNLSINPH 106
            +Y +LI +A++   + +LT+S IY+W+ +  PY+    D      WKNS+RHNLS++  
Sbjct: 14  LSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSK 73
Query: 107 FRKGVKASQGAGHLWNL 123
           F +      G    W L
Sbjct: 74  FIRVQNEGTGKSSWWML 90

>pdb|3CO6|C Chain C, Crystal Structure Of Foxo1 Dbd Bound To Dbe1 Dna Length = 100

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 7/77 (9%)
Query: 54  FTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDR-----WKNSVRHNLSINPH 106
            +Y +LI +A++   + +LT+S IY+W+ +  PY+    D      WKNS+RHNLS++  
Sbjct: 14  LSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSK 73
Query: 107 FRKGVKASQGAGHLWNL 123
           F +      G    W L
Sbjct: 74  FIRVQNEGTGKSSWWML 90

>pdb|2UZK|A Chain A, Crystal Structure Of The Human Foxo3a-Dbd Bound To Dna Length = 97

Iteration: 1
 Score = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 54  FTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDR-----WKNSVRHNLSINPH 106
            +Y +LI +A++     +LT+S IY+W+    PY+    D      WKNS+RHNLS++  
Sbjct: 4   LSYADLITRAIESSPDKRLTLSQIYEWMVRCVPYFKDKGDSNSSAGWKNSIRHNLSLHSR 63
Query: 107 FRKGVKASQGAGHLW 121
           F +      G    W
Sbjct: 64  FMRVQNEGTGKSSWW 78

>pdb|2K86|A Chain A, Solution Structure Of Foxo3a Forkhead Domain Length = 103

Iteration: 1
 Score = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 54  FTYTELIEQALKEK--HQLTVSGIYQWISERFPYYNQNDDR-----WKNSVRHNLSINPH 106
            +Y +LI +A++     +LT+S IY+W+    PY+    D      WKNS+RHNLS++  
Sbjct: 12  LSYADLITRAIESSPDKRLTLSQIYEWMVRCVPYFKDKGDSNSSAGWKNSIRHNLSLHSR 71
Query: 107 FRKGVKASQGAGHLW 121
           F +      G    W
Sbjct: 72  FMRVQNEGTGKSSWW 86

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	331
2a07_F	93	Forkhead box protein P2; double-helix, swapping, h	3e-27
1vtn_C	102	HNF-3/FORK head DNA-recognition motif; protein-DNA	1e-25
2c6y_A	111	Forkhead box protein K2; transcription regulation,	5e-25
2hdc_A	97	Protein (transcription factor); structure, dyanami	2e-24
2hfh_A	109	Genesis, HFH-2; HNF-3 homologues, winged helix pro	3e-24
3bpy_A	85	FORK head domain, forkhead transcription factor FO	5e-24
1kq8_A	100	HFH-1, hepatocyte nuclear factor 3 forkhead homolo	6e-24
3l2c_A	110	Forkhead box protein O4; winged helix, transcripti	5e-23
3g73_A	142	Forkhead box protein M1; DNA-binding domain, forkh	2e-22
1e17_A	150	AFX; DNA binding domain, winged helix; NMR {Homo s	1e-21
3coa_C	117	Forkhead box protein O1; winged helix, forkhead do	4e-21

>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 =  101 bits (254), Expect = 3e-27
 Identities = 33/79 (41%), Positives = 48/79 (60%), Gaps = 5/79 (6%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           +PPFTY  LI QA+ E    QLT++ IY W +  F Y+ +N   WKN+VRHNLS++  F 
Sbjct: 3   RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCF- 61

Query: 109 KGVKASQGAGHLWNLSDME 127
             V+     G +W + ++E
Sbjct: 62  --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 = 97.7 bits (244), Expect = 1e-25
 Identities = 36/79 (45%), Positives = 49/79 (62%), Gaps = 4/79 (5%)

Query: 49  HRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
           H KPP++Y  LI  A+++     LT+S IYQWI + FPYY +N  RW+NS+RH+LS N  
Sbjct: 1   HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 60

Query: 107 FRKGVKASQ--GAGHLWNL 123
           F K  ++    G G  W L
Sbjct: 61  FVKVARSPDKPGKGSYWAL 79

>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 = 96.2 bits (240), Expect = 5e-25
 Identities = 33/84 (39%), Positives = 51/84 (60%), Gaps = 4/84 (4%)

Query: 44  SHAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNL 101
               +  KPP++Y +LI QA+      QLT++GIY  I++ +PYY   D  W+NS+RHNL
Sbjct: 9   MGRGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNL 68

Query: 102 SINPHFRKGVKASQ--GAGHLWNL 123
           S+N +F K  ++ +  G G  W +
Sbjct: 69  SLNRYFIKVPRSQEEPGKGSFWRI 92

>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 = 94.2 bits (235), Expect = 2e-24
 Identities = 34/77 (44%), Positives = 49/77 (63%), Gaps = 4/77 (5%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+ +  + +LT+SGI ++IS RFPYY +    W+NS+RHNLS+N  F 
Sbjct: 2   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61

Query: 109 KGVKASQ--GAGHLWNL 123
           K  +     G G+ W L
Sbjct: 62  KIPREPGNPGKGNYWTL 78

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

 Score = 93.9 bits (234), Expect = 3e-24
 Identities = 34/77 (44%), Positives = 49/77 (63%), Gaps = 4/77 (5%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+ +  + +LT+SGI ++IS RFPYY +    W+NS+RHNLS+N  F 
Sbjct: 3   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62

Query: 109 KGVKASQ--GAGHLWNL 123
           K  +     G G+ W L
Sbjct: 63  KIPREPGNPGKGNYWTL 79

>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 = 92.8 bits (231), Expect = 5e-24
 Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 7/84 (8%)

Query: 47  KTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYY-----NQNDDRWKNSVRH 99
           + +     +Y ELI QA++   + +LT++ IY+W+    PY+     + +   WKNS+RH
Sbjct: 1   RRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRH 60

Query: 100 NLSINPHFRKGVKASQGAGHLWNL 123
           NLS++  F K    + G    W L
Sbjct: 61  NLSLHSKFIKVHNEATGKSSWWML 84

>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 = 93.1 bits (232), Expect = 6e-24
 Identities = 27/78 (34%), Positives = 47/78 (60%), Gaps = 5/78 (6%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+++    +LT++ I +++  +FP++  +   W+NSVRHNLS+N  F 
Sbjct: 2   KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61

Query: 109 KGVKAS---QGAGHLWNL 123
           K ++      G  + W L
Sbjct: 62  KVLRDPSRPWGKDNYWML 79

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

 Score = 91.0 bits (226), Expect = 5e-23
 Identities = 27/88 (30%), Positives = 46/88 (52%), Gaps = 7/88 (7%)

Query: 43  PSHAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYY-----NQNDDRWKN 95
              ++ +     +Y ELI QA++   + +LT++ IY+W+    PY+     + +   WKN
Sbjct: 16  KGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKN 75

Query: 96  SVRHNLSINPHFRKGVKASQGAGHLWNL 123
           S+RHNLS++  F K    + G    W L
Sbjct: 76  SIRHNLSLHSKFIKVHNEATGKSSWWML 103

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

 Score = 90.3 bits (224), Expect = 2e-22
 Identities = 26/84 (30%), Positives = 46/84 (54%), Gaps = 4/84 (4%)

Query: 43  PSHAKTHRKPPFTYTELIEQALK--EKHQLTVSGIYQWISERFPYY-NQNDDRWKNSVRH 99
                   +PP++Y  +I+ A+   E+ ++T+  IY WI + FPY+ +     WKNS+RH
Sbjct: 10  SWQNSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRH 69

Query: 100 NLSINPHFRKGVKASQGAGHLWNL 123
           NLS++  F +   ++ G    W +
Sbjct: 70  NLSLHDMFVR-ETSANGKVSFWTI 92

>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 = 86.0 bits (213), Expect = 4e-21
 Identities = 26/87 (29%), Positives = 47/87 (54%), Gaps = 7/87 (8%)

Query: 44  SHAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYY-----NQNDDRWKNS 96
           S ++ +     +Y +LI +A++   + +LT+S IY+W+ +  PY+     + +   WKNS
Sbjct: 4   SSSRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNS 63

Query: 97  VRHNLSINPHFRKGVKASQGAGHLWNL 123
           +RHNLS++  F +      G    W L
Sbjct: 64  IRHNLSLHSKFIRVQNEGTGKSSWWML 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	331
1vtn_C	102	HNF-3/FORK head DNA-recognition motif; protein-DNA	100.0
2c6y_A	111	Forkhead box protein K2; transcription regulation,	100.0
2hdc_A	97	Protein (transcription factor); structure, dyanami	100.0
2hfh_A	109	Genesis, HFH-2; HNF-3 homologues, winged helix pro	100.0
1kq8_A	100	HFH-1, hepatocyte nuclear factor 3 forkhead homolo	100.0
3coa_C	117	Forkhead box protein O1; winged helix, forkhead do	100.0
3bpy_A	85	FORK head domain, forkhead transcription factor FO	100.0
3l2c_A	110	Forkhead box protein O4; winged helix, transcripti	100.0
2a07_F	93	Forkhead box protein P2; double-helix, swapping, h	100.0
1e17_A	150	AFX; DNA binding domain, winged helix; NMR {Homo s	100.0
3g73_A	142	Forkhead box protein M1; DNA-binding domain, forkh	99.97
1uss_A	88	Histone H1; DNA binding protein, linker histone, D	87.58
1uhm_A	78	Histone H1, histone HHO1P; winged helix-turn-helix	87.57
2rqp_A	88	Heterochromatin protein 1-binding protein 3; histo	87.32
1hst_A	90	Histone H5; chromosomal protein; 2.60A {Gallus gal	85.04
1ust_A	93	Histone H1; DNA binding protein, linker histone, D	82.87

>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=100.00  E-value=5.4e-38  Score=258.58  Aligned_cols=79  Identities=46%  Similarity=0.920  Sum_probs=74.9

Q ss_pred             CCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeec
Q psy6789          49 HRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLS  124 (331)
Q Consensus        49 ~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~  124 (331)
                      |.||||||++||+|||++  +++|||+|||+||+++||||+.+..|||||||||||||+||+||+++  ++|||+||+|+
T Consensus         1 h~KPp~SY~~LI~~AI~~sp~~~LtL~eIY~~I~~~fpyyr~~~~gWqNSIRHNLSln~~F~kv~r~~~~~GKG~~W~l~   80 (102)
T 1vtn_C            1 HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSYWALH   80 (102)
T ss_dssp             CCCCSSCHHHHHHHHHHTSTTSCBCHHHHHHHHHHHCGGGGSCHHHHHHHHHHHHHHCTTEEEECCCSCSSCSSCEEEEC
T ss_pred             CcCcCCCHHHHHHHHHHhCCCCCCcHHHHHHHHHHcCCccccCCCchhhhhhhhhhhccceEecCCCCCCCCCcceEEEC
Confidence            589999999999999986  79999999999999999999999999999999999999999999984  68999999999


Q ss_pred             CCC
Q psy6789         125 DME  127 (331)
Q Consensus       125 ~~~  127 (331)
                      ++.
T Consensus        81 p~~   83 (102)
T 1vtn_C           81 PSS   83 (102)
T ss_dssp             GGG
T ss_pred             cCH
Confidence            864

>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=100.00  E-value=7.3e-38  Score=261.30  Aligned_cols=96  Identities=36%  Similarity=0.741  Sum_probs=83.1

Q ss_pred             CCCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceE
Q psy6789          46 AKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLW  121 (331)
Q Consensus        46 ~~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~W  121 (331)
                      ...+.||||||++||++||++  +++|||+|||+||+++||||+.+..|||||||||||||+||+||+|.  ++|||+||
T Consensus        11 ~~~~~KPp~SYa~LI~~AI~~sp~~~LtL~eIY~~I~~~fPyyr~~~~gWqNSIRHNLSln~~F~Kv~r~~~~~GKG~~W   90 (111)
T 2c6y_A           11 RGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFW   90 (111)
T ss_dssp             ---CCCCSSCHHHHHHHHHHTSTTSCEEHHHHHHHHHHHCTTSCTTCHHHHHHHHHHHHHSTTEEEECCCTTSCCSSCEE
T ss_pred             CCCCCCCCCCHHHHHHHHHHhCCCCCCcHHHHHHHHHHcCCccccCCCeeecchhHHhhhhhhhccccCCCCCCCCcceE
Confidence            356799999999999999986  79999999999999999999999999999999999999999999985  58999999


Q ss_pred             eecCCCchhhhhhhhhhhhhh
Q psy6789         122 NLSDMEPVEDASKSNWKKNRL  142 (331)
Q Consensus       122 tl~~~~~~e~~~~~~~kr~R~  142 (331)
                      +|+++ ...++.++.++|+|.
T Consensus        91 ~l~p~-~~~~~~~~~~r~rr~  110 (111)
T 2c6y_A           91 RIDPA-SESKLIEQAFRKRRP  110 (111)
T ss_dssp             EECHH-HHHHHHHHHTCCCCC
T ss_pred             EeChh-HHHhhhcccccccCC
Confidence            99985 344555666666653

>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=100.00  E-value=4.9e-38  Score=256.74  Aligned_cols=91  Identities=38%  Similarity=0.750  Sum_probs=80.9

Q ss_pred             CCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeecC
Q psy6789          50 RKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSD  125 (331)
Q Consensus        50 ~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~~  125 (331)
                      .||||||++||+|||++  +++|||+|||+||+++||||+.+..|||||||||||||+||+||+++  ++|||+||+|++
T Consensus         1 ~KPp~SY~~LI~~AI~~sp~~~ltL~eIY~~i~~~fpyyr~~~~gWqNSIRHNLSln~~F~Kv~r~~~~~gKg~~W~l~p   80 (97)
T 2hdc_A            1 VKPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDP   80 (97)
T ss_dssp             CCCCCCHHHHHHHHHHTCTTTCBCHHHHHHHHHHHCHHHHHHCSSHHHHHHHHHHHHHCCEEECSCTTCSSSCCEEECCT
T ss_pred             CcCCCCHHHHHHHHHHhCCCCCCCHHHHHHHHHHhchhhccCCcceehhhhhhhhhhhheeecCCCCCCCCCcceEEECc
Confidence            49999999999999986  79999999999999999999999999999999999999999999986  579999999999


Q ss_pred             CCchhhhhhhhhhhhh
Q psy6789         126 MEPVEDASKSNWKKNR  141 (331)
Q Consensus       126 ~~~~e~~~~~~~kr~R  141 (331)
                      +. .+.+..+.++|||
T Consensus        81 ~~-~~~f~~g~~~rrr   95 (97)
T 2hdc_A           81 QS-EDMFDNGSFLRRR   95 (97)
T ss_dssp             TH-HHHHHHSCCCSSS
T ss_pred             CH-HHHHhCCCccCCC
Confidence            63 4445556665554

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

Probab=100.00  E-value=1.4e-37  Score=258.80  Aligned_cols=92  Identities=38%  Similarity=0.739  Sum_probs=79.1

Q ss_pred             CCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeecC
Q psy6789          50 RKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSD  125 (331)
Q Consensus        50 ~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~~  125 (331)
                      .||||||++||+|||++  +++|||+|||+||+++||||+.++.|||||||||||||+||+||+|+  ++|||+||+|++
T Consensus         2 ~KPp~SYa~LI~~AI~~sp~~~LtL~eIY~~I~~~fPyyr~~~~gWqNSIRHNLSln~~F~Kv~r~~~~~GKG~~W~l~p   81 (109)
T 2hfh_A            2 VKPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDP   81 (109)
T ss_dssp             CCCCCCHHHHHHHHHHTCSSSCBCHHHHHHHHHTTCHHHHTTCGGGHHHHHHHHHHHTCCBCCTTCTTSCSSCCCBBCCT
T ss_pred             CCCCCCHHHHHHHHHHhCCCCCCcHHHHHHHHHHhcchhccCCcccchhhhhhhhhhhhhhcCCCCCCCCCCceeEEECc
Confidence            69999999999999986  79999999999999999999999999999999999999999999986  589999999999


Q ss_pred             CCchhhhhhhhhhhhhh
Q psy6789         126 MEPVEDASKSNWKKNRL  142 (331)
Q Consensus       126 ~~~~e~~~~~~~kr~R~  142 (331)
                      +.. +.+..+.++|||.
T Consensus        82 ~~~-~~f~~g~~~Rrr~   97 (109)
T 2hfh_A           82 QSE-DMFDNGSFLRRRK   97 (109)
T ss_dssp             TCC-HHHHSSSCC----
T ss_pred             cHH-HHHhCCCcccCcc
Confidence            743 3444455544444

>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=100.00  E-value=2e-37  Score=254.31  Aligned_cols=91  Identities=31%  Similarity=0.649  Sum_probs=67.0

Q ss_pred             CCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--C-CCCcceEeec
Q psy6789          50 RKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--S-QGAGHLWNLS  124 (331)
Q Consensus        50 ~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~-~GKG~~Wtl~  124 (331)
                      +||||||++||+|||++  +++|||+|||+||+++||||+.+..|||||||||||||+||+||+++  + .|||+||+|+
T Consensus         1 ~KPp~SY~~LI~~AI~~sp~~~ltL~eIY~~i~~~fpyyr~~~~gWqNSIRHNLSln~~F~kv~r~~~~p~gkg~~W~l~   80 (100)
T 1kq8_A            1 PKPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKDNYWMLN   80 (100)
T ss_dssp             ------CHHHHHHHHTTSSSSCBCHHHHHHHHHHHCTTGGGTCSCCHHHHHHHHHHHTCCEECSSCSCCSSSCCCCEECC
T ss_pred             CcCCCCHHHHHHHHHHhCCCCCCcHHHHHHHHHHhCccccCCCCceecccchheehhheeeecCCCCCCCCCCCeEEEEC
Confidence            49999999999999986  79999999999999999999999999999999999999999999985  3 4999999999


Q ss_pred             CCCchhhhhhhhhhhhh
Q psy6789         125 DMEPVEDASKSNWKKNR  141 (331)
Q Consensus       125 ~~~~~e~~~~~~~kr~R  141 (331)
                      ++.. +.+..+.++|+|
T Consensus        81 p~~~-~~f~~g~~~rrr   96 (100)
T 1kq8_A           81 PNSE-YTFADGVFRRRR   96 (100)
T ss_dssp             C----------------
T ss_pred             cCHH-HHHhCCCcccCC
Confidence            8643 333344554444

>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=100.00  E-value=3.1e-36  Score=253.52  Aligned_cols=81  Identities=31%  Similarity=0.690  Sum_probs=75.3

Q ss_pred             CCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCC-----cccccccccccccccccccCccCCCCCcc
Q psy6789          47 KTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQND-----DRWKNSVRHNLSINPHFRKGVKASQGAGH  119 (331)
Q Consensus        47 ~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~-----~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~  119 (331)
                      ..+.||||||++||+|||++  +++|||+|||+||+++||||++++     .|||||||||||||+||+||+++++|||+
T Consensus         7 ~~n~kPp~SYa~LI~~AI~~sp~~~LTL~eIY~~I~~~fPyyr~~~d~~s~~gWqNSIRHNLSln~~F~Kv~~~~~GKg~   86 (117)
T 3coa_C            7 RRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIRVQNEGTGKSS   86 (117)
T ss_dssp             CCBTTBSCCHHHHHHHHHHTSTTSCBCHHHHHHHHHHHCGGGTTCCSHHHHHHHHHHHHHHHHHCTTEEEECCSSTTCCC
T ss_pred             CCCCCCCCCHHHHHHHHHHhCCCCCccHHHHHHHHHHhCcccccCCCCcccccchhccchheecchhhcccccCCCCCcc
Confidence            45689999999999999986  799999999999999999999986     79999999999999999999999999999


Q ss_pred             eEeecCCC
Q psy6789         120 LWNLSDME  127 (331)
Q Consensus       120 ~Wtl~~~~  127 (331)
                      ||+|++++
T Consensus        87 ~W~l~p~~   94 (117)
T 3coa_C           87 WWMLNPEG   94 (117)
T ss_dssp             EEEECC--
T ss_pred             eEEECccc
Confidence            99999964

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

Probab=100.00  E-value=3.5e-36  Score=240.44  Aligned_cols=77  Identities=35%  Similarity=0.714  Sum_probs=72.7

Q ss_pred             CCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCC-----cccccccccccccccccccCccCCCCCcce
Q psy6789          48 THRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQND-----DRWKNSVRHNLSINPHFRKGVKASQGAGHL  120 (331)
Q Consensus        48 ~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~-----~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~~  120 (331)
                      .+.||||||++||+|||++  +++|||+|||+||+++||||+.++     .|||||||||||||+||+||+++++|||+|
T Consensus         2 rn~kp~~SY~~LI~~Ai~~sp~~~ltL~eIY~~i~~~fpyy~~~~~~~s~~gWqNSIRHNLSln~~F~Kv~r~~~GKg~~   81 (85)
T 3bpy_A            2 RNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSW   81 (85)
T ss_dssp             CBTTBSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCCSTTCCCE
T ss_pred             CCCcCCCCHHHHHHHHHHhCCcCCccHHHHHHHHHHhCcchhcCccCccCCCcchhhhhhccHhhhheeCCCCCCCCCCc
Confidence            4689999999999999986  799999999999999999999874     699999999999999999999999999999


Q ss_pred             Eeec
Q psy6789         121 WNLS  124 (331)
Q Consensus       121 Wtl~  124 (331)
                      |+||
T Consensus        82 W~ld   85 (85)
T 3bpy_A           82 WMLN   85 (85)
T ss_dssp             EEEC
T ss_pred             eecC
Confidence            9996

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

Probab=100.00  E-value=1.5e-35  Score=246.99  Aligned_cols=81  Identities=33%  Similarity=0.676  Sum_probs=73.9

Q ss_pred             CCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCC-----cccccccccccccccccccCccCCCCCcc
Q psy6789          47 KTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQND-----DRWKNSVRHNLSINPHFRKGVKASQGAGH  119 (331)
Q Consensus        47 ~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~-----~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~  119 (331)
                      ....||||||++||+|||++  +++|||+|||+||+++||||+.++     .|||||||||||||+||+||+++++|||+
T Consensus        20 ~~~~kPpySY~~LI~~AI~~sp~~~LtL~eIY~~I~~~fPyyr~~~~~~s~~gWqNSIRHNLSln~~F~Kv~r~~~GKG~   99 (110)
T 3l2c_A           20 RRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSS   99 (110)
T ss_dssp             CCBTTBSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCCSTTCCC
T ss_pred             CCCCCCCCCHHHHHHHHHHhCCccCcCHHHHHHHHHHhCchhhcCccccCCCCcccchhhhccHhhhheeCCCCCCCCCc
Confidence            46689999999999999986  789999999999999999999874     69999999999999999999999999999


Q ss_pred             eEeecCCC
Q psy6789         120 LWNLSDME  127 (331)
Q Consensus       120 ~Wtl~~~~  127 (331)
                      ||+|+++.
T Consensus       100 ~W~l~p~~  107 (110)
T 3l2c_A          100 WWMLNPEG  107 (110)
T ss_dssp             EEEEC---
T ss_pred             eEEECccc
Confidence            99999963

>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=100.00  E-value=1.2e-35  Score=241.03  Aligned_cols=74  Identities=42%  Similarity=0.879  Sum_probs=70.5

Q ss_pred             CCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccCCCCCcceEeecCC
Q psy6789          50 RKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDM  126 (331)
Q Consensus        50 ~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~~Wtl~~~  126 (331)
                      .||||||++||++||++  +++|||+|||+||+++||||+.+.+|||||||||||+|+||+||++   |||+||+||++
T Consensus         2 ~KPp~SY~~LI~~AI~~sp~~~ltL~eIY~~i~~~fpyyr~~~~gWkNSIRHNLSln~~F~kv~~---gkG~~W~l~~~   77 (93)
T 2a07_F            2 VRPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN---VKGAVWTVDEV   77 (93)
T ss_dssp             CCCSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCTTBCCEEC---SSSEECCBCHH
T ss_pred             CCCCCCHHHHHHHHHHhCCCCCccHHHHHHHHHHhCCccccCCCccccccceeeehhhceeecCC---CCCCeeEEChH
Confidence            69999999999999986  7999999999999999999999999999999999999999999974   89999999973

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

Probab=99.97  E-value=1e-33  Score=245.16  Aligned_cols=83  Identities=30%  Similarity=0.777  Sum_probs=75.2

Q ss_pred             CCCCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCC-CCcccccccccccccccccccCccCCCCCcceEe
Q psy6789          46 AKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQ-NDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWN  122 (331)
Q Consensus        46 ~~~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~-~~~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~~Wt  122 (331)
                      .....||||||++||+|||++  +++|||+|||+||+++||||+. +..|||||||||||||+||+|+. ++.|||+||+
T Consensus        13 ~~~~~KPpySYa~LI~~AI~~sp~~~LTL~eIY~~I~~~fPyyr~~~~~gWqNSIRHNLSln~~F~r~~-~~~GKg~~W~   91 (142)
T 3g73_A           13 NSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDMFVRET-SANGKVSFWT   91 (142)
T ss_dssp             -CTTSCCSSCHHHHHHHHHHTSTTSEECHHHHHHHHHHHCTHHHHTSCTTHHHHHHHHHHHCTTEEEEE-CTTSCCEEEE
T ss_pred             ccCCCCCCCCHHHHHHHHHHhCCCCCcCHHHHHHHHHHhCCCccccCCCCccchhhhhhhhhhhheecC-CCCCCCceEE
Confidence            345689999999999999986  7899999999999999999998 88999999999999999999864 5689999999


Q ss_pred             ecCCCch
Q psy6789         123 LSDMEPV  129 (331)
Q Consensus       123 l~~~~~~  129 (331)
                      |+++...
T Consensus        92 i~p~~~~   98 (142)
T 3g73_A           92 IHPSANR   98 (142)
T ss_dssp             ECTTTCC
T ss_pred             ECccccc
Confidence            9997543

>1uss_A Histone H1; DNA binding protein, linker histone, DNA binding domain; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13 PDB: 1yqa_A

Probab=87.58  E-value=0.45  Score=37.42  Aligned_cols=31  Identities=16%  Similarity=0.354  Sum_probs=27.2

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFPY   85 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fPy   85 (331)
                      +|..||..||..   .+..++..|..||+.+|+.
T Consensus         9 ~y~~MI~eAI~alker~GsS~~AIkKyI~~~y~~   42 (88)
T 1uss_A            9 TYKEMILKSMPQLNDGKGSSRIVLKKYVKDTFSS   42 (88)
T ss_dssp             CHHHHHHHHHHHSCCTTSBCHHHHHHHHHHHTTT
T ss_pred             CHHHHHHHHHHHhccCCCcCHHHHHHHHHHhCCC
Confidence            499999999975   5789999999999999653

>1uhm_A Histone H1, histone HHO1P; winged helix-turn-helix, linker histone, riken structural genomics/proteomics initiative, RSGI; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13

Probab=87.57  E-value=0.38  Score=36.91  Aligned_cols=31  Identities=26%  Similarity=0.546  Sum_probs=27.4

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFPY   85 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fPy   85 (331)
                      +|..||..||..   .+..++..|-.||+.+|+.
T Consensus         6 ~y~~MI~eAI~~lker~GsS~~AIkKyI~~~y~~   39 (78)
T 1uhm_A            6 SYRELIIEGLTALKERKGSSRPALKKFIKENYPI   39 (78)
T ss_dssp             CHHHHHHHHHHHHCCSSCEEHHHHHHHHHTTSCT
T ss_pred             CHHHHHHHHHHHhccCCCcCHHHHHHHHHHHCCC
Confidence            499999999975   5789999999999999764

>2rqp_A Heterochromatin protein 1-binding protein 3; histone H1, alternative splicing, chromosomal protein, DNA-binding, nucleus, phosphoprotein; NMR {Homo sapiens}

Probab=87.32  E-value=0.41  Score=37.50  Aligned_cols=31  Identities=23%  Similarity=0.480  Sum_probs=27.5

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFPY   85 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fPy   85 (331)
                      +|..||..||..   .+..++..|..||+.+|+-
T Consensus        11 ~y~~MI~eAI~~Lker~GsS~~AI~KyI~~~y~~   44 (88)
T 2rqp_A           11 KMDAILTEAIKACFQKSGASVVAIRKYIIHKYPS   44 (88)
T ss_dssp             CHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHCST
T ss_pred             CHHHHHHHHHHHhccCCCcCHHHHHHHHHHhCCC
Confidence            499999999975   5789999999999999873

>1hst_A Histone H5; chromosomal protein; 2.60A {Gallus gallus} SCOP: a.4.5.13

Probab=85.04  E-value=0.6  Score=37.00  Aligned_cols=30  Identities=23%  Similarity=0.506  Sum_probs=26.8

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFP   84 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fP   84 (331)
                      +|..||..||..   .+..++..|-.||+.+|.
T Consensus         9 ~y~~MI~eAI~~lker~GsS~~AI~KyI~~~y~   41 (90)
T 1hst_A            9 TYSEMIAAAIRAEKSRGGSSRQSIQKYIKSHYK   41 (90)
T ss_dssp             CHHHHHHHHHHTCCCSSCEEHHHHHHHHHHHSC
T ss_pred             CHHHHHHHHHHHhccCCCCCHHHHHHHHHHHcc
Confidence            499999999975   567999999999999976

---

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	331
d2c6ya1	98	a.4.5.14 (A:1-98) Interleukin enhancer binding fac	6e-22
d2a07f1	82	a.4.5.14 (F:503-584) Forkhead box protein P2, FOXP	2e-21
d2hdca_	97	a.4.5.14 (A:) Genesis {Rat (Rattus norvegicus) [Ta	3e-21
d1d5va_	94	a.4.5.14 (A:) Adipocyte-transcription factor FREAC	9e-21
d3bpya1	85	a.4.5.14 (A:93-177) Afx (Foxo4) {Human (Homo sapie	3e-19
d1kq8a_	75	a.4.5.14 (A:) HFH-1 (HNF-3 forkhead homolog-1) {Ra	3e-18

>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 = 86.5 bits (214), Expect = 6e-22
 Identities = 36/95 (37%), Positives = 56/95 (58%), Gaps = 5/95 (5%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y +LI QA+      QLT++GIY  I++ +PYY   D  W+NS+RHNLS+N +F 
Sbjct: 3   KPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFI 62

Query: 109 KGVKASQ--GAGHLWNLSDMEPVEDASKSNWKKNR 141
           K  ++ +  G G  W + D        +  ++K R
Sbjct: 63  KVPRSQEEPGKGSFWRI-DPASESKLIEQAFRKRR 96

>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 = 84.5 bits (209), Expect = 2e-21
 Identities = 33/79 (41%), Positives = 48/79 (60%), Gaps = 5/79 (6%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           +PPFTY  LI QA+ E    QLT++ IY W +  F Y+ +N   WKN+VRHNLS++  F 
Sbjct: 2   RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCF- 60

Query: 109 KGVKASQGAGHLWNLSDME 127
             V+     G +W + ++E
Sbjct: 61  --VRVENVKGAVWTVDEVE 77

>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 = 84.6 bits (209), Expect = 3e-21
 Identities = 36/95 (37%), Positives = 56/95 (58%), Gaps = 5/95 (5%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A+ +  + +LT+SGI ++IS RFPYY +    W+NS+RHNLS+N  F 
Sbjct: 2   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61

Query: 109 KGVKASQ--GAGHLWNLSDMEPVEDASKSNWKKNR 141
           K  +     G G+ W L D +  +     ++ + R
Sbjct: 62  KIPREPGNPGKGNYWTL-DPQSEDMFDNGSFLRRR 95

>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 = 83.3 bits (206), Expect = 9e-21
 Identities = 33/77 (42%), Positives = 50/77 (64%), Gaps = 4/77 (5%)

Query: 51  KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
           KPP++Y  LI  A++   + ++T++GIYQ+I +RFP+Y +N   W+NS+RHNLS+N  F 
Sbjct: 4   KPPYSYIALITMAIQNAPEKKITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECFV 63

Query: 109 KGVKAS--QGAGHLWNL 123
           K  +     G G  W L
Sbjct: 64  KVPRDDKKPGKGSYWTL 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 = 78.8 bits (194), Expect = 3e-19
 Identities = 28/84 (33%), Positives = 44/84 (52%), Gaps = 7/84 (8%)

Query: 47  KTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDR-----WKNSVRH 99
           + +     +Y ELI QA++   + +LT++ IY+W+    PY+    D      WKNS+RH
Sbjct: 1   RRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRH 60

Query: 100 NLSINPHFRKGVKASQGAGHLWNL 123
           NLS++  F K    + G    W L
Sbjct: 61  NLSLHSKFIKVHNEATGKSSWWML 84

>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 = 75.7 bits (186), Expect = 3e-18
 Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 5/73 (6%)

Query: 56  YTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA 113
           Y  LI  A+++    +LT++ I +++  +FP++  +   W+NSVRHNLS+N  F K ++ 
Sbjct: 1   YIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRD 60

Query: 114 ---SQGAGHLWNL 123
                G  + W L
Sbjct: 61  PSRPWGKDNYWML 73

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	331
d2c6ya1	98	Interleukin enhancer binding factor {Human (Homo s	100.0
d2hdca_	97	Genesis {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1d5va_	94	Adipocyte-transcription factor FREAC-11 (s12, fkh-	100.0
d3bpya1	85	Afx (Foxo4) {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2a07f1	82	Forkhead box protein P2, FOXP2 {Human (Homo sapien	99.97
d1kq8a_	75	HFH-1 (HNF-3 forkhead homolog-1) {Rat (Rattus norv	99.97
d1ussa_	88	Histone H1 homologue Hho1p {Baker's yeast (Sacchar	92.69
d1hsta_	74	Histone H5, globular domain {Chicken (Gallus gallu	92.62
d1usta_	92	Histone H1 homologue Hho1p {Baker's yeast (Sacchar	92.29
d1ghca_	75	Histone H1, globular domain {Chicken (Gallus gallu	83.92

>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=100.00  E-value=2e-37  Score=251.58  Aligned_cols=92  Identities=38%  Similarity=0.781  Sum_probs=80.1

Q ss_pred             CCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeec
Q psy6789          49 HRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLS  124 (331)
Q Consensus        49 ~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~  124 (331)
                      +.||||||++||++||++  +++|||+|||+||+++||||+.+..|||||||||||+|+||+||++.  +.|||+||+|+
T Consensus         1 ~~KP~~sY~~LI~~Ai~~sp~~~ltL~eIy~~i~~~fpyfr~~~~gWkNSIRHnLS~n~~F~kv~r~~~~~gKg~~W~l~   80 (98)
T d2c6ya1           1 DSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRID   80 (98)
T ss_dssp             CCCCSSCHHHHHHHHHHTSTTSCEEHHHHHHHHHHHCTTSCTTCHHHHHHHHHHHHHSTTEEEECCCTTSCCSSCEEEEC
T ss_pred             CCCCCccHHHHHHHHHHhCCCCCccHHHHHHHHHHhCcccccCCCCcchhhchhcccccceEeccCCCCCCCCCceEEEC
Confidence            479999999999999986  89999999999999999999999999999999999999999999885  57999999999


Q ss_pred             CCCchhhhhhhhhhhhh
Q psy6789         125 DMEPVEDASKSNWKKNR  141 (331)
Q Consensus       125 ~~~~~e~~~~~~~kr~R  141 (331)
                      ++. .+.+.++.++|+|
T Consensus        81 p~~-~~~~~~~~~~krr   96 (98)
T d2c6ya1          81 PAS-ESKLIEQAFRKRR   96 (98)
T ss_dssp             HHH-HHHHHHHHTCCCC
T ss_pred             ccH-HhhhhcchhhccC
Confidence            853 3344444444444

>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=100.00  E-value=1.3e-36  Score=246.34  Aligned_cols=90  Identities=38%  Similarity=0.746  Sum_probs=78.1

Q ss_pred             CCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeecC
Q psy6789          50 RKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSD  125 (331)
Q Consensus        50 ~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~~  125 (331)
                      .||||||++||++||++  +++|||+|||+||+++||||+.+.+|||||||||||+|+||+||+++  .+|||+||+|++
T Consensus         1 vKPp~sY~~LI~~Ai~~sp~~~ltL~eIY~~i~~~fpyfr~~~~gWkNSIRHnLSln~~F~kv~~~~~~~gKg~~W~l~p   80 (97)
T d2hdca_           1 VKPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDP   80 (97)
T ss_dssp             CCCCCCHHHHHHHHHHTCTTTCBCHHHHHHHHHHHCHHHHHHCSSHHHHHHHHHHHHHCCEEECSCTTCSSSCCEEECCT
T ss_pred             CCCCCcHHHHHHHHHHhCCCcCccHHHHHHHHHHhCccccCCCCCchhhhhhhcchhhhhcccCCCCCCCCCCcEEEECc
Confidence            49999999999999986  89999999999999999999999999999999999999999999885  579999999999


Q ss_pred             CCchhhhhhhhhhhh
Q psy6789         126 MEPVEDASKSNWKKN  140 (331)
Q Consensus       126 ~~~~e~~~~~~~kr~  140 (331)
                      +.. +.+.++..+|+
T Consensus        81 ~~~-~~~~~~~~~rr   94 (97)
T d2hdca_          81 QSE-DMFDNGSFLRR   94 (97)
T ss_dssp             THH-HHHHHSCCCSS
T ss_pred             cHH-HHhhcCCcccc
Confidence            643 33333343333

>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=100.00  E-value=2.1e-35  Score=238.09  Aligned_cols=79  Identities=42%  Similarity=0.866  Sum_probs=74.3

Q ss_pred             CCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccC--CCCCcceEeecC
Q psy6789          50 RKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKA--SQGAGHLWNLSD  125 (331)
Q Consensus        50 ~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~--~~GKG~~Wtl~~  125 (331)
                      .||||||++||++||++  +++|||+|||+||+++|||||.+..|||||||||||+|+||+||++.  .+|||++|+|++
T Consensus         3 ~KP~~SYa~LI~~AI~~sp~~~ltL~eIY~~i~~~fpyfr~~~~gWkNSIRHnLSln~~F~kv~~~~~~~gkg~~W~l~p   82 (94)
T d1d5va_           3 VKPPYSYIALITMAIQNAPEKKITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECFVKVPRDDKKPGKGSYWTLDP   82 (94)
T ss_dssp             CCCSSCHHHHHHHHHHTCSSSSBCHHHHHHHHHHHCTHHHHCCTTHHHHHHHHHHHCSSEEECCCCTTSCSCCCCEEECC
T ss_pred             CCCCCCHHHHHHHHHHhCCCCCccHHHHHHHHHHHCCccCccccchHHHHHHHccccceEEEcCcCCCCCCCCceEEECc
Confidence            69999999999999986  89999999999999999999999999999999999999999999875  569999999999


Q ss_pred             CCc
Q psy6789         126 MEP  128 (331)
Q Consensus       126 ~~~  128 (331)
                      ++.
T Consensus        83 ~~~   85 (94)
T d1d5va_          83 DSY   85 (94)
T ss_dssp             SCS
T ss_pred             cHH
Confidence            754

>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=99.98  E-value=4e-34  Score=226.86  Aligned_cols=77  Identities=35%  Similarity=0.714  Sum_probs=72.0

Q ss_pred             CCCCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCC-----cccccccccccccccccccCccCCCCCcce
Q psy6789          48 THRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQND-----DRWKNSVRHNLSINPHFRKGVKASQGAGHL  120 (331)
Q Consensus        48 ~~~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~-----~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~~  120 (331)
                      .+.+|++||++||++||++  +++|||+|||+||+++|||||..+     .|||||||||||+|+||+||++++.|||+|
T Consensus         2 ~n~~~~~SY~~LI~~Ai~~sp~~~ltL~eIY~~i~~~fPyyr~~~~~~~~~gWkNSIRHnLSl~~~F~kv~r~~~gKg~~   81 (85)
T d3bpya1           2 RNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSW   81 (85)
T ss_dssp             CBTTBSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCCSTTCCCE
T ss_pred             CCCCCCcCHHHHHHHHHHhCCCCCccHHHHHHHHHHhChhhhccCcccccccchhhHHHHhhHhhheeeCCCCCCCCCce
Confidence            4678999999999999986  899999999999999999999653     589999999999999999999999999999


Q ss_pred             Eeec
Q psy6789         121 WNLS  124 (331)
Q Consensus       121 Wtl~  124 (331)
                      |+||
T Consensus        82 W~i~   85 (85)
T d3bpya1          82 WMLN   85 (85)
T ss_dssp             EEEC
T ss_pred             eecC
Confidence            9996

>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=99.97  E-value=1.2e-34  Score=228.46  Aligned_cols=74  Identities=42%  Similarity=0.879  Sum_probs=70.1

Q ss_pred             CCCCCCHHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccCCCCCcceEeecCC
Q psy6789          50 RKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDM  126 (331)
Q Consensus        50 ~KPPySYa~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~~~GKG~~Wtl~~~  126 (331)
                      .||||||++||++||++  +++|||+|||+||+++||||+.+.+|||||||||||+|+||+|+++   |||++|+||++
T Consensus         1 vKP~~sY~~LI~~Ai~~sp~~~LtL~eIy~~i~~~fpyyr~~~~gWkNSIRHnLS~n~~F~kv~~---~kG~~W~i~~~   76 (82)
T d2a07f1           1 VRPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN---VKGAVWTVDEV   76 (82)
T ss_dssp             CCCSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCTTBCCEEC---SSSEECCBCHH
T ss_pred             CcCCCcHHHHHHHHHHhCCCCCccHHHHHHHHHHhCcccccCCcccchhHhHhcccccceEeCCC---CCCCEEEECHH
Confidence            48999999999999986  7999999999999999999999999999999999999999999975   89999999863

>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=3.6e-33  Score=216.74  Aligned_cols=70  Identities=34%  Similarity=0.702  Sum_probs=66.3

Q ss_pred             HHHHHHHHHhc--CCCCCHHHHHHHHHhcCCCCCCCCcccccccccccccccccccCccCC---CCCcceEeecC
Q psy6789          56 YTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS---QGAGHLWNLSD  125 (331)
Q Consensus        56 Ya~LI~~AI~~--~krLTL~eIY~~I~~~fPyyr~~~~gWkNSIRHNLSlnk~F~Kv~r~~---~GKG~~Wtl~~  125 (331)
                      |++||++||++  +++|||+|||+||+++|||||.+..|||||||||||+|+||+||+|++   .|||+||+|+|
T Consensus         1 Y~~LI~~Ai~~sp~~~ltL~eIy~~i~~~fpy~r~~~~gWkNSIRHnLS~n~~F~kv~r~~~~~~gKg~~W~l~P   75 (75)
T d1kq8a_           1 YIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKDNYWMLNP   75 (75)
T ss_dssp             CHHHHHHHHTTSSSSCBCHHHHHHHHHHHCTTGGGTCSCCHHHHHHHHHHHTCCEECSSCSCCSSSCCCCEECCC
T ss_pred             CHHHHHHHHHhCCCCCccHHHHHHHHHHhCcccccCCccchhHhhecccccceeEecCCCCCCCCCCccEEEeCc
Confidence            89999999986  799999999999999999999999999999999999999999999863   39999999986

>d1ussa_ a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Linker histone H1/H5
domain: Histone H1 homologue Hho1p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.69  E-value=0.032  Score=42.31  Aligned_cols=31  Identities=16%  Similarity=0.354  Sum_probs=28.3

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFPY   85 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fPy   85 (331)
                      ||..||..||..   .+..++..|..||+.+|+.
T Consensus         9 sy~~MI~eAI~~L~er~GsS~~aI~KyI~~~y~~   42 (88)
T d1ussa_           9 TYKEMILKSMPQLNDGKGSSRIVLKKYVKDTFSS   42 (88)
T ss_dssp             CHHHHHHHHHHHSCCTTSBCHHHHHHHHHHHTTT
T ss_pred             CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCc
Confidence            599999999975   5789999999999999986

>d1hsta_ a.4.5.13 (A:) Histone H5, globular domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Linker histone H1/H5
domain: Histone H5, globular domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=92.62  E-value=0.036  Score=40.58  Aligned_cols=31  Identities=23%  Similarity=0.478  Sum_probs=27.3

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFPY   85 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fPy   85 (331)
                      +|..||..||..   .+..++..|..||+.+|+-
T Consensus         4 ~y~~MI~eAI~al~er~GsS~~AI~kyI~~~y~~   37 (74)
T d1hsta_           4 TYSEMIAAAIRAEKSRGGSSRQSIQKYIKSHYKV   37 (74)
T ss_dssp             CHHHHHHHHHHTCCCSSCEEHHHHHHHHHHHSCC
T ss_pred             CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCC
Confidence            399999999975   4679999999999999873

>d1usta_ a.4.5.13 (A:) Histone H1 homologue Hho1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Linker histone H1/H5
domain: Histone H1 homologue Hho1p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.29  E-value=0.03  Score=42.81  Aligned_cols=31  Identities=26%  Similarity=0.546  Sum_probs=27.9

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcCCC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERFPY   85 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~fPy   85 (331)
                      ||..||..||..   .+..++..|..||+.+||-
T Consensus         8 ty~~MI~eAI~~l~er~GsS~~aI~KyI~~~y~~   41 (92)
T d1usta_           8 SYRELIIEGLTALKERKGSSRPALKKFIKENYPI   41 (92)
T ss_dssp             CHHHHHHHHHTTTTTTSCEEHHHHHHHHHHHCHH
T ss_pred             CHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHCcC
Confidence            599999999975   5789999999999999984

>d1ghca_ a.4.5.13 (A:) Histone H1, globular domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Linker histone H1/H5
domain: Histone H1, globular domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=83.92  E-value=0.078  Score=38.95  Aligned_cols=29  Identities=21%  Similarity=0.320  Sum_probs=25.7

Q ss_pred             CHHHHHHHHHhc---CCCCCHHHHHHHHHhcC
Q psy6789          55 TYTELIEQALKE---KHQLTVSGIYQWISERF   83 (331)
Q Consensus        55 SYa~LI~~AI~~---~krLTL~eIY~~I~~~f   83 (331)
                      +|..||..||..   .+..++..|..||+.+|
T Consensus         5 ~y~~MI~eAI~al~er~GsS~~AI~kyI~~~~   36 (75)
T d1ghca_           5 SVTELITKAVSASKERKGLSLAALKKALAAGG   36 (75)
T ss_dssp             SHHHHHHHHHHHCSSSSCCTTSSGGGSSSSSS
T ss_pred             CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHhc
Confidence            499999999975   57899999999999875