Psyllid ID: psy13925

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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-------340----
Protein Sequence
MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLENELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEQHTKLSEPSDSEIKKSSTSVKRPFDIENLISTDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCSTFLAATISPWFSLGILPSLCVCNIDQWTNP
Secondary Structure (PSIPRED)
ccccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHcccccccccccHHHHHHccccccccEEccccccccccccccccccccccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHccHHHHHHHHccccccccEEEEcccccccccccEEEEccccccccccccHHHHHHHccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccHHHHHcHHccEEEEcccccccc
Coil and Loop (DISEMBL)
mprpcrdtygdqkppysyISLTAMAiwsspekmlplsdIYRFIadrfpyyrrnTQRWQNSlrhnlsfndcfvkiprrpdrpgkgaywalhpnaldmfengslLRRRRRFKLMKSDKDKLENELAALANVNriylssqspttsddfehpespisnfdedeeidvihdfspktldyslknlnyspksidkspepmesshakpfdfsinsnslissshleqhtklsepsdseikksstsvkrpfdienlistdsftsqahclspyllqqplmflpppgllshpsyfptqpnllrfpplsypsipssllhpfslkscstflaatispwfslgilpslcvcnidqwtnp
Flexible Loop (DISEMBL)
mprpcrdtygdqkppySYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWqnslrhnlsfndCFVKIPRRPDRPGKgaywalhpnaldmfengslLRRRRRFKLMKSDKDKLENELAALANVNRIYLSsqspttsddfehPESPisnfdedeeIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEqhtklsepsdseikksstsvkrpfDIENLISTDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCSTFLAATISPWFSLGILPSLCVCNIDQWTNP
Low Complexity Region (SEG)
MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSllrrrrrFKLMKSDKDKLENELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFsinsnslisssHLEQHTKLSEPSDSEIKKSSTSVKRPFDIENLISTDSFTSQAHCLSpyllqqplmflpppgllSHPSYFPTQPNLLRFpplsypsipssllHPFSLKSCSTFLAATISPWFSLGILPSLCVCNIDQWTNP
Disordered region (IsUnstruct)
***************YSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRR**F*************LAALANVNRIY*****************************VIHDF***************************************************************************IENLISTDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCSTFLAATISPWFSLGILPSLCVCNIDQW***
Disordered Region (DISOPRED)
*****************YISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSL**************************************************************************************************************************************************************************************************************************ISPWFSLGILPSLCVCNID*W***
Disordered Region (DISEMBL)
********YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLENELAALANVNRIYLSSQ************SPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKS************AKPFDFSINSNSLISSS***********************KRPFDIENLISTDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCSTFLAATISPWFSLGILPSLCVCNIDQWTNP
Disordered Region (DISPRO)
******DTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKS****************************************************************************************************************D*EIKKSSTSVKRPFDIENLISTDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCSTFLAATISPWFSLGILPSLCVCNIDQWTNP
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRxxxxxxxxxxxxxxxxxxxxxNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEQHTKLSEPSDSEIKKSSTSVKRPFDIENLISTDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCSTFLAATISPWFSLGILPSLCVCNIDQWTNP
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	344	2.2.26 [Sep-21-2011]
P32028	372	Fork head domain-containi	yes	N/A	0.665	0.615	0.547	1e-66
Q99853	325	Forkhead box protein B1 O	yes	N/A	0.334	0.353	0.834	1e-55
Q64732	325	Forkhead box protein B1 O	yes	N/A	0.334	0.353	0.834	1e-55
O93529	319	Forkhead box protein B1 O	N/A	N/A	0.334	0.360	0.826	7e-55
Q64733	428	Forkhead box protein B2 O	no	N/A	0.351	0.282	0.743	1e-52
Q5VYV0	432	Forkhead box protein B2 O	no	N/A	0.348	0.277	0.75	1e-52
P32029	271	Fork head domain-containi	no	N/A	0.398	0.505	0.661	9e-51
Q8JIT6	317	Forkhead box protein B2 O	N/A	N/A	0.299	0.324	0.815	1e-47
P34683	237	Protein lin-31 OS=Caenorh	yes	N/A	0.299	0.434	0.757	3e-43
Q6P839	399	Forkhead box protein A4 O	no	N/A	0.482	0.416	0.488	5e-43

>sp|P32028|FD4_DROME Fork head domain-containing protein FD4 OS=Drosophila melanogaster GN=fd96Ca PE=2 SV=2

 Score =  253 bits (646), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 138/252 (54%), Positives = 172/252 (68%), Gaps = 23/252 (9%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YG+QKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGEQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DKD L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKDLLN 120

Query: 121 NELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLN 180
            EL ALAN+NR + ++++  ++       SP+           +++ +   LD   ++  
Sbjct: 121 EELTALANLNRFFFTTRNGGSAAHM----SPLD----------MNNAAAMRLDPLPRSTA 166

Query: 181 YSPKSIDKS-PEPMESSHAKPFDFSINSNSLISSSHLEQHTKLSEPSDSEIKKS-STSVK 238
           + P S+    P P    H  P   S   ++ ++   L   T L   + SEI+   S   K
Sbjct: 167 HMPNSLGPGVPLP----HVMPASMSGADHTNLADMGL---TNLPALTSSEIEGPLSLRPK 219

Query: 239 RPFDIENLISTD 250
           R F IE+LI+ D
Sbjct: 220 RSFTIESLITPD 231

Involved in development during embryogenesis.
Drosophila melanogaster (taxid: 7227)

>sp|Q99853|FOXB1_HUMAN Forkhead box protein B1 OS=Homo sapiens GN=FOXB1 PE=2 SV=3

 Score =  217 bits (552), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 96/115 (83%), Positives = 107/115 (93%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R+TY DQKPPYSYISLTAMAI SSPEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct: 1   MPRPGRNTYSDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSD 115
           LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS LRRR+RFK++KSD
Sbjct: 61  LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVLKSD 115

Homo sapiens (taxid: 9606)

>sp|Q64732|FOXB1_MOUSE Forkhead box protein B1 OS=Mus musculus GN=Foxb1 PE=2 SV=2

 Score =  216 bits (551), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 96/115 (83%), Positives = 107/115 (93%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R+TY DQKPPYSYISLTAMAI SSPEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct: 1   MPRPGRNTYSDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSD 115
           LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS LRRR+RFK++KSD
Sbjct: 61  LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVLKSD 115

Mus musculus (taxid: 10090)

>sp|O93529|FOXB1_XENLA Forkhead box protein B1 OS=Xenopus laevis GN=foxb1 PE=2 SV=1

 Score =  214 bits (545), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 95/115 (82%), Positives = 104/115 (90%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R+TY DQKPPYSYISLTAMAI  S EKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct: 1   MPRPGRNTYSDQKPPYSYISLTAMAIQGSQEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSD 115
           LRHNLSFNDCF+KIPRRPD+PGKG++WALHP   DMFENGS LRRR+RFK+MKSD
Sbjct: 61  LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPRCGDMFENGSFLRRRKRFKVMKSD 115

Probable transcription factor. May be involved in the early anteroposterior patterning of the neuroectoderm.

Xenopus laevis (taxid: 8355)

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

 Score =  207 bits (526), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 90/121 (74%), Positives = 106/121 (87%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP + +Y DQKPPYSYISLTAMAI  S EKMLPLSDIY+FI +RFPYYR +TQRWQNS
Sbjct: 1   MPRPGKSSYSDQKPPYSYISLTAMAIQHSAEKMLPLSDIYKFIMERFPYYREHTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS LRRR+RFK++++D   L 
Sbjct: 61  LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPDCGDMFENGSFLRRRKRFKVLRADHAHLH 120

Query: 121 N 121
           +
Sbjct: 121 S 121

Transcription factor.

Mus musculus (taxid: 10090)

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

 Score =  207 bits (526), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 90/120 (75%), Positives = 105/120 (87%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP + +Y DQKPPYSYISLTAMAI  S EKMLPLSDIY+FI +RFPYYR +TQRWQNS
Sbjct: 1   MPRPGKSSYSDQKPPYSYISLTAMAIQHSAEKMLPLSDIYKFIMERFPYYREHTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS LRRR+RFK++++D   L 
Sbjct: 61  LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPDCGDMFENGSFLRRRKRFKVLRADHTHLH 120

Transcription factor.

Homo sapiens (taxid: 9606)

>sp|P32029|FD5_DROME Fork head domain-containing protein FD5 OS=Drosophila melanogaster GN=fd96Cb PE=2 SV=2

 Score =  201 bits (510), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 92/139 (66%), Positives = 113/139 (81%), Gaps = 2/139 (1%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP + +YGDQKPPYSYISLTAMAI  SP+++LPLS+IYRFI D+FP+YR+NTQ+WQNS
Sbjct: 1   MPRPLKMSYGDQKPPYSYISLTAMAIIHSPQRLLPLSEIYRFIMDQFPFYRKNTQKWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PR   + GKG+YW LHP A DMFENGSLLRRR+RF++ + +KD   
Sbjct: 61  LRHNLSFNDCFIKVPRNVTKAGKGSYWTLHPMAFDMFENGSLLRRRKRFRVKQLEKDISN 120

Query: 121 NELAALANVNRI--YLSSQ 137
            +LAA AN   +  YL  Q
Sbjct: 121 WKLAAAANTEMVTHYLDDQ 139

Involved in development during embryogenesis.

Drosophila melanogaster (taxid: 7227)

>sp|Q8JIT6|FOXB2_XENLA Forkhead box protein B2 OS=Xenopus laevis GN=foxb2 PE=2 SV=1

 Score =  190 bits (482), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 84/103 (81%), Positives = 92/103 (89%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP + +Y +QKPPYSYISLTAMAI  S EKMLPLSDIY+FI DRFPYYR NTQRWQNS
Sbjct: 1   MPRPGKSSYSEQKPPYSYISLTAMAIQGSQEKMLPLSDIYKFIMDRFPYYRENTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLL 103
           LRHNLSFNDCF+KIPRRPD+PGKG++WALHPN  DMFENGS L
Sbjct: 61  LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPNCGDMFENGSFL 103

Transcription factor.

Xenopus laevis (taxid: 8355)

>sp|P34683|LIN31_CAEEL Protein lin-31 OS=Caenorhabditis elegans GN=lin-31 PE=4 SV=1

 Score =  176 bits (445), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 78/103 (75%), Positives = 91/103 (88%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP +D+Y +QKPPYSYI LT MAI  S +KMLPL++IY++I DRFP+YR+NTQRWQNS
Sbjct: 1   MPRPGKDSYDEQKPPYSYIWLTYMAIQDSDDKMLPLTEIYKYIMDRFPFYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLL 103
           LRHNLSFNDCF+KIPRR DRPGKG+YWA+HPNA  MFENGS L
Sbjct: 61  LRHNLSFNDCFIKIPRRADRPGKGSYWAVHPNASGMFENGSCL 103

Lin-31 regulates how vulval precursor cells choose their fate. It helps specify three alternative cell fates in vulval development.

Caenorhabditis elegans (taxid: 6239)

>sp|Q6P839|FOXA4_XENTR Forkhead box protein A4 OS=Xenopus tropicalis GN=foxa4 PE=2 SV=1

 Score =  175 bits (443), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 83/170 (48%), Positives = 112/170 (65%), Gaps = 4/170 (2%)

Query: 2   PRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSL 61
           PR  R  Y   KPPYSYISL  MAI  +P KM+ L++IY++I D FPYYR+N QRWQNS+
Sbjct: 108 PRTYRRNYSHAKPPYSYISLITMAIQQAPNKMMTLNEIYQWIIDLFPYYRQNQQRWQNSI 167

Query: 62  RHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLEN 121
           RH+LSFNDCFVK+PR P++PGKG+YW LHP + +MFENG  LRR++RFK  +S   + E 
Sbjct: 168 RHSLSFNDCFVKVPRSPEKPGKGSYWTLHPESGNMFENGCYLRRQKRFKCERSKSGEREK 227

Query: 122 ELAALANVNRIYLSSQSPTTSDDF---EHPESPISNFDEDEEIDVIHDFS 168
           ++    + N   L  ++P   DD      P++P+++   D     IH  S
Sbjct: 228 KVNKPGDENGGSL-KETPVGYDDCSSSRSPQAPVNDGGRDSTGSSIHQAS 276

Transcriptional repressor involved in embryonic nervous system development. Plays a role in the induction and patterning of the anterior-posterior neural axis. Involved in the establishment of floor plate differentiation from neural plate cells during gastrulation. Binds the anf1 promoter sequence to restrict expression of anf1 to the anterior of the neural plate, thereby patterning the forebrain. Can bind to the HNF-3-alpha DNA target sequence. Cooperates with t/bra in a dose-dependent manner to specify dorsal mesoderm formation, including notochord. May be involved in the dorso-ventral patterning of the mesoderm. Binds to DNA via the target sequence 5'-[GA]TAAA[TC]A-3', with 5'-GTAAATA-3' being the preferred binding site.

Xenopus tropicalis (taxid: 8364)

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	344
242009395	269	Fork head domain-containing protein FD5,	0.686	0.877	0.507	7e-70
195388582	392	GJ23595 [Drosophila virilis] gi|19415104	0.691	0.607	0.568	2e-68
347967916	436	AGAP013297-PA [Anopheles gambiae str. PE	0.401	0.316	0.855	1e-67
312375901	506	hypothetical protein AND_13431 [Anophele	0.401	0.272	0.855	1e-67
157133403	344	forkhead protein/ forkhead protein domai	0.441	0.441	0.775	7e-67
194742399	374	GF17887 [Drosophila ananassae] gi|190626	0.645	0.593	0.536	5e-66
170054988	360	fork head domain-containing protein FD4	0.401	0.383	0.847	5e-66
195038954	395	GH18035 [Drosophila grimshawi] gi|193895	0.409	0.356	0.808	6e-66
195451547	389	GK13404 [Drosophila willistoni] gi|19416	0.401	0.354	0.826	7e-66
195151673	379	GL21898 [Drosophila persimilis] gi|19411	0.412	0.374	0.802	2e-65

>gi|242009395|ref|XP_002425473.1| Fork head domain-containing protein FD5, putative [Pediculus humanus corporis] gi|212509309|gb|EEB12735.1| Fork head domain-containing protein FD5, putative [Pediculus humanus corporis]

 Score =  270 bits (690), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 161/317 (50%), Positives = 182/317 (57%), Gaps = 81/317 (25%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFI +RFPYYRRNTQRWQNS
Sbjct: 1   MPRPSRESYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFITERFPYYRRNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRR+RFKLMKSDKD+LE
Sbjct: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRKRFKLMKSDKDRLE 120

Query: 121 NELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLN 180
           NEL+ LAN+NR   +    TTS                                      
Sbjct: 121 NELSTLANLNRFMFAPPQQTTS-------------------------------------- 142

Query: 181 YSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEQHTKLSEPSDSEIKKSSTSVKRP 240
                 +  P+P  S    P  F+  +  L + +  ++H                  KRP
Sbjct: 143 ------EPPPQPSRSQCKSPITFTSQTVILANDNDKKEH----------------RTKRP 180

Query: 241 FDIENLISTDSFTSQAHCLSP--------------YLLQQPLMFLPPPGLLSHPSYFPTQ 286
           F IE+LIS D  +S      P              YL   P  + PP   L HP Y P Q
Sbjct: 181 FTIESLISDDRPSSNGGSPEPEEATLVPASSQVPSYLGSHPTCYGPP---LVHPPYIP-Q 236

Query: 287 PNLLRFPPLSYPSIPSS 303
           P LL    L +P + SS
Sbjct: 237 PLLLG---LMHPQVNSS 250

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195388582|ref|XP_002052958.1| GJ23595 [Drosophila virilis] gi|194151044|gb|EDW66478.1| GJ23595 [Drosophila virilis]

 Score =  265 bits (677), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 145/255 (56%), Positives = 180/255 (70%), Gaps = 17/255 (6%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DK+ L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKNLLN 120

Query: 121 NELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLN 180
            EL ALAN+NR + +++  T S+  + P   +SN   + E  V+       L +S   L+
Sbjct: 121 EELTALANINRFFFTAR--TGSNISQMPTLDVSNTTMNVESSVV-------LSHSSNRLS 171

Query: 181 YSPKSIDKSPEPMESSHAKPFDFSINSNSLISS--SHLEQHTKLSE--PSDSEIKK-SST 235
            SP      P P    H+     S   NSL +   +HL + T+ ++  P++ E++  +S 
Sbjct: 172 PSPAMAQHCPLP--PGHSATLSQS-RHNSLTNGENTHLTEITRRNQRSPANFELEGINSY 228

Query: 236 SVKRPFDIENLISTD 250
             KR F IE+LI+ D
Sbjct: 229 RPKRLFTIESLITPD 243

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|347967916|ref|XP_003436136.1| AGAP013297-PA [Anopheles gambiae str. PEST] gi|333468245|gb|EGK96877.1| AGAP013297-PA [Anopheles gambiae str. PEST]

 Score =  263 bits (671), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 118/138 (85%), Positives = 128/138 (92%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP RDTYGDQKPPYSYISLTAMAIWSSP+KMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRDTYGDQKPPYSYISLTAMAIWSSPDKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DKD L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKTDKDILN 120

Query: 121 NELAALANVNRIYLSSQS 138
            ELAALAN+NRI+L+  S
Sbjct: 121 EELAALANINRIFLAQNS 138

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312375901|gb|EFR23152.1| hypothetical protein AND_13431 [Anopheles darlingi]

 Score =  262 bits (670), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 118/138 (85%), Positives = 128/138 (92%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP RDTYGDQKPPYSYISLTAMAIWSSP+KMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 46  MPRPSRDTYGDQKPPYSYISLTAMAIWSSPDKMLPLSDIYKFITDRFPYYRKNTQRWQNS 105

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DKD L 
Sbjct: 106 LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKTDKDILN 165

Query: 121 NELAALANVNRIYLSSQS 138
            ELAALAN+NRI+L+  S
Sbjct: 166 EELAALANINRIFLAQNS 183

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157133403|ref|XP_001656241.1| forkhead protein/ forkhead protein domain [Aedes aegypti] gi|108881578|gb|EAT45803.1| AAEL002951-PA [Aedes aegypti]

 Score =  260 bits (664), Expect = 7e-67,   Method: Compositional matrix adjust.
 Identities = 124/160 (77%), Positives = 135/160 (84%), Gaps = 8/160 (5%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DKD L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKDILN 120

Query: 121 NELAALANVNRIYLSSQS------PTTSDDFEHP--ESPI 152
            ELAALAN+NRI+L+  S      PT  D    P   SPI
Sbjct: 121 EELAALANINRIFLAQNSGADAYCPTMVDPIHQPMLHSPI 160

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194742399|ref|XP_001953690.1| GF17887 [Drosophila ananassae] gi|190626727|gb|EDV42251.1| GF17887 [Drosophila ananassae]

 Score =  257 bits (657), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 134/250 (53%), Positives = 166/250 (66%), Gaps = 28/250 (11%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YG+QKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGEQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DKD L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKDLLN 120

Query: 121 NELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLN 180
            EL ALAN+NR + ++++  +                          +P  ++     L+
Sbjct: 121 EELTALANLNRFFFTTRNGGSGA----------------------HMAPLDMNAGAMRLD 158

Query: 181 YSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEQHTKLSEPSDSEIKKSSTSVKRP 240
             P++ +  P  +   HA P   S   ++ +S   L     L+  SD E++      KR 
Sbjct: 159 PMPRTPNHMPNSLGMPHAIPGSISSADHTNLSDMGLTSLPSLTS-SDIELRP-----KRS 212

Query: 241 FDIENLISTD 250
           F IE+LI+ D
Sbjct: 213 FTIESLITPD 222

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170054988|ref|XP_001863379.1| fork head domain-containing protein FD4 [Culex quinquefasciatus] gi|167875123|gb|EDS38506.1| fork head domain-containing protein FD4 [Culex quinquefasciatus]

 Score =  257 bits (657), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 117/138 (84%), Positives = 127/138 (92%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YGDQKPPYSYISLTAMAIWSS EKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGDQKPPYSYISLTAMAIWSSAEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL KSDKD L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKSDKDILN 120

Query: 121 NELAALANVNRIYLSSQS 138
            ELAALAN+NRI+L+  S
Sbjct: 121 EELAALANINRIFLAQNS 138

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195038954|ref|XP_001990840.1| GH18035 [Drosophila grimshawi] gi|193895036|gb|EDV93902.1| GH18035 [Drosophila grimshawi]

 Score =  257 bits (656), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 114/141 (80%), Positives = 129/141 (91%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DK+ L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKNLLN 120

Query: 121 NELAALANVNRIYLSSQSPTT 141
            EL ALAN+NR + +++S +T
Sbjct: 121 EELTALANINRFFFTARSGST 141

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195451547|ref|XP_002072971.1| GK13404 [Drosophila willistoni] gi|194169056|gb|EDW83957.1| GK13404 [Drosophila willistoni]

 Score =  257 bits (656), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 114/138 (82%), Positives = 127/138 (92%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DKD L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKDLLN 120

Query: 121 NELAALANVNRIYLSSQS 138
            EL ALAN+NR + +++S
Sbjct: 121 EELTALANLNRFFFTARS 138

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195151673|ref|XP_002016763.1| GL21898 [Drosophila persimilis] gi|194111820|gb|EDW33863.1| GL21898 [Drosophila persimilis]

 Score =  256 bits (653), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 114/142 (80%), Positives = 129/142 (90%)

Query: 1   MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
           MPRP R++YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct: 1   MPRPSRESYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLE 120
           LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGSLLRRR+RFKL K+DKD L 
Sbjct: 61  LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKDILN 120

Query: 121 NELAALANVNRIYLSSQSPTTS 142
            EL ALAN+NR + ++++ + S
Sbjct: 121 EELTALANLNRFFFTNRNGSVS 142

Source: Drosophila persimilis

Species: Drosophila persimilis

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	344
FB|FBgn0004897	372	fd96Ca "forkhead domain 96Ca"	0.401	0.370	0.768	1.6e-61
UNIPROTKB|B0JZ54	322	foxb1 "Uncharacterized protein	0.334	0.357	0.791	2e-51
UNIPROTKB|E1B7H0	325	FOXB1 "Uncharacterized protein	0.334	0.353	0.791	5.4e-51
UNIPROTKB|E2R277	325	FOXB1 "Uncharacterized protein	0.334	0.353	0.791	5.4e-51
UNIPROTKB|Q99853	325	FOXB1 "Forkhead box protein B1	0.334	0.353	0.791	5.4e-51
UNIPROTKB|D2HLR1	325	FOXB1 "Uncharacterized protein	0.334	0.353	0.791	5.4e-51
MGI|MGI:1927549	325	Foxb1 "forkhead box B1" [Mus m	0.334	0.353	0.791	5.4e-51
UNIPROTKB|C1K2Y2	313	Ola.4950 "Forkhead box B1.2" [	0.389	0.428	0.666	1.4e-50
UNIPROTKB|O93529	319	foxb1 "Forkhead box protein B1	0.334	0.360	0.782	1.8e-50
ZFIN|ZDB-GENE-990616-47	297	foxb1.2 "forkhead box B1.2" [D	0.334	0.387	0.773	2.9e-50

FB|FBgn0004897 fd96Ca "forkhead domain 96Ca" [Drosophila melanogaster (taxid:7227)]

 Score = 601 (216.6 bits), Expect = 1.6e-61, Sum P(2) = 1.6e-61
 Identities = 106/138 (76%), Positives = 120/138 (86%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R++YG+QKPPYSYISLTAMAIWSSPEKMLPLSDIY+FI DRFPYYR+NTQRWQNS
Sbjct:     1 MPRPSRESYGEQKPPYSYISLTAMAIWSSPEKMLPLSDIYKFITDRFPYYRKNTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSDKDKLE 120
             LRHNLSFNDCF+K+PRRPDRPGKGAYWALHP A DMFENGS       FKL K+DKD L 
Sbjct:    61 LRHNLSFNDCFIKVPRRPDRPGKGAYWALHPQAFDMFENGSLLRRRKRFKLHKNDKDLLN 120

Query:   121 NELAALANVNRIYLSSQS 138
              EL ALAN+NR + ++++
Sbjct:   121 EELTALANLNRFFFTTRN 138

GO:0005634 "nucleus" evidence=ISS;NAS

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

GO:0009790 "embryo development" evidence=IBA;NAS

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

GO:0008134 "transcription factor binding" evidence=IBA

GO:0048806 "genitalia development" evidence=IBA

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

GO:0009888 "tissue development" evidence=IBA

GO:0048813 "dendrite morphogenesis" evidence=IBA

GO:0005667 "transcription factor complex" evidence=IBA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" 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:0051090 "regulation of sequence-specific DNA binding transcription factor activity" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

UNIPROTKB|B0JZ54 foxb1 "Uncharacterized protein" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 503 (182.1 bits), Expect = 2.0e-51, Sum P(2) = 2.0e-51
 Identities = 91/115 (79%), Positives = 100/115 (86%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI SS EKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSSQEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS       FK+MKSD
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVMKSD 115

GO:0001756 "somitogenesis" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0007412 "axon target recognition" evidence=ISS

GO:0008542 "visual learning" evidence=ISS

GO:0021767 "mammillary body development" evidence=ISS

GO:0021855 "hypothalamus cell migration" evidence=ISS

GO:0022029 "telencephalon cell migration" evidence=ISS

GO:0030901 "midbrain development" evidence=ISS

GO:0033504 "floor plate development" evidence=ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

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

GO:0061374 "mammillothalamic axonal tract development" evidence=ISS

GO:0061379 "inferior colliculus development" evidence=ISS

GO:0061381 "cell migration in diencephalon" evidence=ISS

UNIPROTKB|E1B7H0 FOXB1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 508 (183.9 bits), Expect = 5.4e-51, Sum P(2) = 5.4e-51
 Identities = 91/115 (79%), Positives = 101/115 (87%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI SSPEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS       FK++KSD
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVLKSD 115

GO:0061381 "cell migration in diencephalon" evidence=ISS

GO:0061379 "inferior colliculus development" evidence=ISS

GO:0061377 "mammary gland lobule development" evidence=ISS

GO:0061374 "mammillothalamic axonal tract development" evidence=ISS

GO:0021767 "mammillary body development" evidence=ISS

GO:0008542 "visual learning" evidence=ISS

GO:0022029 "telencephalon cell migration" evidence=ISS

GO:0001756 "somitogenesis" evidence=ISS

GO:0033504 "floor plate development" evidence=ISS

GO:0021855 "hypothalamus cell migration" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

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

GO:0061030 "epithelial cell differentiation involved in mammary gland alveolus development" evidence=ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

GO:0030901 "midbrain development" evidence=ISS

GO:0007595 "lactation" evidence=ISS

GO:0007412 "axon target recognition" evidence=ISS

GO:0021794 "thalamus development" evidence=IEA

GO:0021510 "spinal cord development" evidence=IEA

GO:0001655 "urogenital system development" evidence=IEA

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

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

UNIPROTKB|E2R277 FOXB1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 508 (183.9 bits), Expect = 5.4e-51, Sum P(2) = 5.4e-51
 Identities = 91/115 (79%), Positives = 101/115 (87%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI SSPEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS       FK++KSD
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVLKSD 115

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

UNIPROTKB|Q99853 FOXB1 "Forkhead box protein B1" [Homo sapiens (taxid:9606)]

 Score = 508 (183.9 bits), Expect = 5.4e-51, Sum P(2) = 5.4e-51
 Identities = 91/115 (79%), Positives = 101/115 (87%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI SSPEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS       FK++KSD
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVLKSD 115

GO:0001655 "urogenital system development" evidence=IEA

GO:0021510 "spinal cord development" evidence=IEA

GO:0021794 "thalamus development" evidence=IEA

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

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

GO:0005667 "transcription factor complex" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

GO:0007420 "brain development" evidence=IBA

GO:0008134 "transcription factor binding" evidence=IBA

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

GO:0009790 "embryo development" evidence=IBA

GO:0009888 "tissue development" evidence=IBA

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

GO:0007412 "axon target recognition" evidence=ISS

GO:0007595 "lactation" evidence=ISS

GO:0030901 "midbrain development" evidence=ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

GO:0061030 "epithelial cell differentiation involved in mammary gland alveolus development" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISS

GO:0021855 "hypothalamus cell migration" evidence=ISS

GO:0033504 "floor plate development" evidence=ISS

GO:0001756 "somitogenesis" evidence=ISS

GO:0022029 "telencephalon cell migration" evidence=ISS

GO:0008542 "visual learning" evidence=ISS

GO:0021767 "mammillary body development" evidence=ISS

GO:0061374 "mammillothalamic axonal tract development" evidence=ISS

GO:0061377 "mammary gland lobule development" evidence=ISS

GO:0061379 "inferior colliculus development" evidence=ISS

GO:0061381 "cell migration in diencephalon" evidence=ISS

UNIPROTKB|D2HLR1 FOXB1 "Uncharacterized protein" [Ailuropoda melanoleuca (taxid:9646)]

 Score = 508 (183.9 bits), Expect = 5.4e-51, Sum P(2) = 5.4e-51
 Identities = 91/115 (79%), Positives = 101/115 (87%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI SSPEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS       FK++KSD
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVLKSD 115

GO:0001756 "somitogenesis" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0007412 "axon target recognition" evidence=ISS

GO:0007595 "lactation" evidence=ISS

GO:0008542 "visual learning" evidence=ISS

GO:0021767 "mammillary body development" evidence=ISS

GO:0021855 "hypothalamus cell migration" evidence=ISS

GO:0022029 "telencephalon cell migration" evidence=ISS

GO:0030901 "midbrain development" evidence=ISS

GO:0033504 "floor plate development" evidence=ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

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

GO:0061030 "epithelial cell differentiation involved in mammary gland alveolus development" evidence=ISS

GO:0061374 "mammillothalamic axonal tract development" evidence=ISS

GO:0061377 "mammary gland lobule development" evidence=ISS

GO:0061379 "inferior colliculus development" evidence=ISS

GO:0061381 "cell migration in diencephalon" evidence=ISS

MGI|MGI:1927549 Foxb1 "forkhead box B1" [Mus musculus (taxid:10090)]

 Score = 508 (183.9 bits), Expect = 5.4e-51, Sum P(2) = 5.4e-51
 Identities = 91/115 (79%), Positives = 101/115 (87%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI SSPEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS       FK++KSD
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVLKSD 115

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

GO:0001756 "somitogenesis" evidence=IMP

GO:0003677 "DNA binding" evidence=IEA

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

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005667 "transcription factor complex" evidence=IBA

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

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

GO:0007412 "axon target recognition" evidence=IMP

GO:0007595 "lactation" evidence=IMP

GO:0008134 "transcription factor binding" evidence=IBA

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

GO:0008542 "visual learning" evidence=IMP

GO:0021767 "mammillary body development" evidence=IMP

GO:0021855 "hypothalamus cell migration" evidence=IMP

GO:0022029 "telencephalon cell migration" evidence=IMP

GO:0030901 "midbrain development" evidence=IMP

GO:0033504 "floor plate development" evidence=IMP

GO:0043524 "negative regulation of neuron apoptotic process" evidence=IMP

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

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

GO:0061030 "epithelial cell differentiation involved in mammary gland alveolus development" evidence=IMP

GO:0061374 "mammillothalamic axonal tract development" evidence=IMP

GO:0061377 "mammary gland lobule development" evidence=IMP

GO:0061379 "inferior colliculus development" evidence=IMP

GO:0061381 "cell migration in diencephalon" evidence=IMP

UNIPROTKB|C1K2Y2 Ola.4950 "Forkhead box B1.2" [Oryzias latipes (taxid:8090)]

 Score = 494 (179.0 bits), Expect = 1.4e-50, Sum P(2) = 1.4e-50
 Identities = 92/138 (66%), Positives = 107/138 (77%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI S PEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSCPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSDKDKLE 120
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHPN  DMFENGS       FK++ +    + 
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPNCGDMFENGSFLRRRKRFKVLAASDTLIP 120

Query:   121 NELAALANVNRIYLSSQS 138
              + +  A+    YL  Q+
Sbjct:   121 TKQSDAAH----YLQQQA 134

GO:0001756 "somitogenesis" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0007412 "axon target recognition" evidence=ISS

GO:0008542 "visual learning" evidence=ISS

GO:0021767 "mammillary body development" evidence=ISS

GO:0021855 "hypothalamus cell migration" evidence=ISS

GO:0022029 "telencephalon cell migration" evidence=ISS

GO:0030901 "midbrain development" evidence=ISS

GO:0033504 "floor plate development" evidence=ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

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

GO:0061374 "mammillothalamic axonal tract development" evidence=ISS

GO:0061379 "inferior colliculus development" evidence=ISS

GO:0061381 "cell migration in diencephalon" evidence=ISS

UNIPROTKB|O93529 foxb1 "Forkhead box protein B1" [Xenopus laevis (taxid:8355)]

 Score = 498 (180.4 bits), Expect = 1.8e-50, Sum P(2) = 1.8e-50
 Identities = 90/115 (78%), Positives = 98/115 (85%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI  S EKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQGSQEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP   DMFENGS       FK+MKSD
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPRCGDMFENGSFLRRRKRFKVMKSD 115

GO:0001756 "somitogenesis" evidence=ISS

GO:0003677 "DNA binding" evidence=NAS

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

GO:0005634 "nucleus" evidence=ISS;NAS

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

GO:0007398 "ectoderm development" evidence=IEP

GO:0007412 "axon target recognition" evidence=ISS

GO:0008542 "visual learning" evidence=ISS

GO:0021767 "mammillary body development" evidence=ISS

GO:0021855 "hypothalamus cell migration" evidence=ISS

GO:0022008 "neurogenesis" evidence=IEP

GO:0022029 "telencephalon cell migration" evidence=ISS

GO:0030901 "midbrain development" evidence=ISS

GO:0033504 "floor plate development" evidence=ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

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

GO:0061374 "mammillothalamic axonal tract development" evidence=ISS

GO:0061379 "inferior colliculus development" evidence=ISS

GO:0061381 "cell migration in diencephalon" evidence=ISS

ZFIN|ZDB-GENE-990616-47 foxb1.2 "forkhead box B1.2" [Danio rerio (taxid:7955)]

 Score = 496 (179.7 bits), Expect = 2.9e-50, Sum P(2) = 2.9e-50
 Identities = 89/115 (77%), Positives = 99/115 (86%)

Query:     1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNS 60
             MPRP R+TY DQKPPYSYISLTAMAI S PEKMLPLS+IY+FI DRFPYYR NTQRWQNS
Sbjct:     1 MPRPGRNTYSDQKPPYSYISLTAMAIQSCPEKMLPLSEIYKFIMDRFPYYRENTQRWQNS 60

Query:    61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKLMKSD 115
             LRHNLSFNDCF+KIPRRPD+PGKG++WALHP+  DMFENGS       FK+M S+
Sbjct:    61 LRHNLSFNDCFIKIPRRPDQPGKGSFWALHPSCGDMFENGSFLRRRKRFKVMTSE 115

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

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

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

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

GO:0005667 "transcription factor complex" evidence=IBA

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

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

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

GO:0008134 "transcription factor binding" evidence=IBA

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

GO:0009888 "tissue development" evidence=IBA

GO:0007420 "brain development" evidence=IBA

GO:0007389 "pattern specification process" evidence=IBA

GO:0009790 "embryo development" evidence=IBA

GO:0033504 "floor plate development" evidence=ISS

GO:0061374 "mammillothalamic axonal tract development" evidence=ISS

GO:0061379 "inferior colliculus development" evidence=ISS

GO:0008542 "visual learning" evidence=ISS

GO:0007412 "axon target recognition" evidence=ISS

GO:0001756 "somitogenesis" evidence=ISS

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

GO:0061381 "cell migration in diencephalon" evidence=ISS

GO:0021855 "hypothalamus cell migration" evidence=ISS

GO:0022029 "telencephalon cell migration" evidence=ISS

GO:0003677 "DNA binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P34683	LIN31_CAEEL	No assigned EC number	0.7572	0.2994	0.4345	yes	N/A
P32028	FD4_DROME	No assigned EC number	0.5476	0.6656	0.6155	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	344
pfam00250	96	pfam00250, Fork_head, Fork head domain	4e-58
smart00339	89	smart00339, FH, FORKHEAD	2e-49
cd00059	78	cd00059, FH, Forkhead (FH), also known as a "winge	2e-46
COG5025	610	COG5025, COG5025, Transcription factor of the Fork	2e-17
COG5025	610	COG5025, COG5025, Transcription factor of the Fork	2e-12

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

 Score =  182 bits (464), Expect = 4e-58
 Identities = 64/96 (66%), Positives = 78/96 (81%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  SPEKML LS+IY++I D FPYYR+N Q WQNS+RHNLS N CF+
Sbjct: 1   KPPYSYIALITMAIQQSPEKMLTLSEIYQWIMDLFPYYRQNKQGWQNSIRHNLSLNKCFI 60

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
           K+PR PD+PGKG+YW L P + +MFENG  L+RR+R
Sbjct: 61  KVPRSPDKPGKGSYWTLDPESENMFENGKYLKRRKR 96

Length = 96

>gnl|CDD|214627 smart00339, FH, FORKHEAD

 Score =  160 bits (406), Expect = 2e-49
 Identities = 62/89 (69%), Positives = 72/89 (80%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L AMAI SSP+K L LS+IY++I D FPYYR N   WQNS+RHNLS NDCFV
Sbjct: 1   KPPYSYIALIAMAILSSPDKRLTLSEIYKWIEDNFPYYRENRAGWQNSIRHNLSLNDCFV 60

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGS 101
           K+PR  DRPGKG+YW L P A +MFENG+
Sbjct: 61  KVPREGDRPGKGSYWTLDPAAENMFENGN 89

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

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

 Score =  152 bits (386), Expect = 2e-46
 Identities = 52/78 (66%), Positives = 61/78 (78%)

Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
          KPPYSY +L AMAI SSPEK L LS+IY++I+D FPY+R     WQNS+RHNLS N CFV
Sbjct: 1  KPPYSYSALIAMAIQSSPEKRLTLSEIYKWISDNFPYFRDAPAGWQNSIRHNLSLNKCFV 60

Query: 73 KIPRRPDRPGKGAYWALH 90
          K+PR PD PGKG+YW L 
Sbjct: 61 KVPREPDEPGKGSYWTLD 78

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

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

 Score = 82.6 bits (204), Expect = 2e-17
 Identities = 51/149 (34%), Positives = 69/149 (46%), Gaps = 13/149 (8%)

Query: 12  QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCF 71
            KP +SY +    AI SSP   + LS+IY +I+   PYYR     WQNS+RHNLS N  F
Sbjct: 336 SKPAFSYANSITQAILSSPSGKMTLSEIYSWISSNLPYYRHKPTAWQNSIRHNLSLNKSF 395

Query: 72  VKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLENELAALANVNR 131
            K+PR   +PGKG +W +  + +   E+     R  +                   +VN 
Sbjct: 396 EKVPRSASQPGKGCFWKIDYSYIYEKES-KRNPRSPKKSPSAHSV-----HQKLSLHVND 449

Query: 132 IYLSSQSPTTSDDFEHPESPISNFDEDEE 160
           +Y   QSP TSD      S  S  +   E
Sbjct: 450 LY---QSPATSD----IASSSSQVNSQPE 471

Length = 610

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

 Score = 67.9 bits (166), Expect = 2e-12
 Identities = 41/92 (44%), Positives = 53/92 (57%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
            PPYSY +   +AI +SP+K L LS IY +I + F YY +   RWQNS+RHNLS ND F+
Sbjct: 86  VPPYSYATGRGLAILNSPDKPLTLSKIYTWIHNTFFYYAKVVSRWQNSIRHNLSLNDAFI 145

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSLLR 104
           KI  R     KG +W++ P     F    L  
Sbjct: 146 KIEGRNGAKVKGHFWSIGPGHETQFLKSGLRL 177

Length = 610

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	344
KOG3562|consensus	277		100.0
KOG3563|consensus	454		100.0
PF00250	96	Fork_head: Fork head domain; InterPro: IPR001766 T	100.0
cd00059	78	FH Forkhead (FH), also known as a "winged helix".	100.0
smart00339	89	FH FORKHEAD. FORKHEAD, also known as a "winged hel	100.0
KOG2294|consensus	454		99.98
KOG4385|consensus	581		99.85
COG5025	610	Transcription factor of the Forkhead/HNF3 family [	99.78
COG5025	610	Transcription factor of the Forkhead/HNF3 family [	99.44
PF00538	77	Linker_histone: linker histone H1 and H5 family; I	91.53
smart00526	66	H15 Domain in histone families 1 and 5.	90.21
cd00073	88	H15 linker histone 1 and histone 5 domains; the ba	85.96
PF05066	72	HARE-HTH: HB1, ASXL, restriction endonuclease HTH	80.76

>KOG3562|consensus

Probab=100.00  E-value=1.6e-44  Score=334.36  Aligned_cols=133  Identities=77%  Similarity=1.352  Sum_probs=126.4

Q ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCC
Q psy13925          1 MPRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDR   80 (344)
Q Consensus         1 ~~r~~R~~~~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~   80 (344)
                      |||+.|+.|++|||||||+.|.+|||.++|+|+|.|+|||++|+++|||||.+.+.||||+|||||+|+||+||+|..++
T Consensus         1 MPRP~k~sY~dQKPPYSYIsLTaMAI~~SpekmLPLseIYkfImDrFPfYRkNTQrWQNSLRHNLSFNDCFIKiPRr~dr   80 (277)
T KOG3562|consen    1 MPRPGKNSYGDQKPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPFYRKNTQRWQNSLRHNLSFNDCFIKIPRRPDR   80 (277)
T ss_pred             CCCCccccccccCCCceeeehhhHHhhcChhhcCcHHHHHHHHHhhCchhhhchHHHHHHhhccccccceeeecCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcceEEeCCCchhhcccCccccccccccccc-hhHHHHHHHHHHHHhhhhhc
Q psy13925         81 PGKGAYWALHPNALDMFENGSLLRRRRRFKLMK-SDKDKLENELAALANVNRIY  133 (344)
Q Consensus        81 pGKGs~W~l~pea~~~fe~G~~rRRRrr~k~~k-s~~~~l~eelaala~~~r~~  133 (344)
                      +|||+||+|+|.|.+|||+|...|||||++..+ .+++..+.++.+.+++.+..
T Consensus        81 pGKGsyWalHP~a~dMFENGS~LRRrKRFrv~k~~d~d~~n~~l~a~a~~~~v~  134 (277)
T KOG3562|consen   81 PGKGSYWALHPSAFDMFENGSLLRRRKRFRVLKSDDKDPSNTHLPAMANAAYVA  134 (277)
T ss_pred             CCCccceeeccchhhhcccchHHHHhhhhhhccccccCcccccccccccchhee
Confidence            999999999999999999999999999999988 45666777888888877643

>KOG3563|consensus

Probab=100.00  E-value=3.6e-40  Score=321.43  Aligned_cols=113  Identities=63%  Similarity=1.194  Sum_probs=108.1

Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCC
Q psy13925          2 PRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRP   81 (344)
Q Consensus         2 ~r~~R~~~~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~p   81 (344)
                      |.-.|+.|.+.||||||+.||+|||+.+|.|+|||+|||+||++.|||||.+.+.|||||||.||+|+|||||+|.+|++
T Consensus       162 pktyRRsY~haKPPYSYISLITMAIQ~~pskmLTLSEIYqwIMDLFPyYrqNQQRWQNSIRHSLSFNDCFVKVaRSPDKP  241 (454)
T KOG3563|consen  162 PKTYRRSYTHAKPPYSYISLITMAIQQAPSKMLTLSEIYQWIMDLFPYYRQNQQRWQNSIRHSLSFNDCFVKVARSPDKP  241 (454)
T ss_pred             CceeeccccCCCCChhHHHHHHHHHHhCCccceeHHHHHHHHHHhhhHhhhhHHHHHhhhhhhccccceeeeccCCCCCC
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcceEEeCCCchhhcccCccccccccccccch
Q psy13925         82 GKGAYWALHPNALDMFENGSLLRRRRRFKLMKS  114 (344)
Q Consensus        82 GKGs~W~l~pea~~~fe~G~~rRRRrr~k~~ks  114 (344)
                      |||+||+|+|++.+|||+|-+.||+||+|..|+
T Consensus       242 GKGSfWTLHpdsGNMFENGCYLRRQKRFK~ekk  274 (454)
T KOG3563|consen  242 GKGSFWTLHPDSGNMFENGCYLRRQKRFKCEKK  274 (454)
T ss_pred             CCccceeecCCcCcccccchhehhhhhhhhhhh
Confidence            999999999999999999999999999986543

>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=1e-37  Score=255.55  Aligned_cols=96  Identities=59%  Similarity=1.199  Sum_probs=90.3

Q ss_pred             CCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCCC
Q psy13925         13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPN   92 (344)
Q Consensus        13 KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~pe   92 (344)
                      ||||||++||++||+++|+++|||+|||+||+++||||+.+.+|||||||||||+|+||+||+|..++.|||+||+|+++
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            89999999999999999999999999999999999999999999999999999999999999998888899999999999


Q ss_pred             chhhcccCcccccccc
Q psy13925         93 ALDMFENGSLLRRRRR  108 (344)
Q Consensus        93 a~~~fe~G~~rRRRrr  108 (344)
                      +...|++|.++++|||
T Consensus        81 ~~~~~~~~~~~~~~~~   96 (96)
T PF00250_consen   81 AIEEFEKGRFKRRRKR   96 (96)
T ss_dssp             HHHHHHHSCCSSSSSS
T ss_pred             HHHHHhcchhhhhhcc
Confidence            9999999999988875

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 ....

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

Probab=100.00  E-value=2.8e-36  Score=239.50  Aligned_cols=78  Identities=67%  Similarity=1.265  Sum_probs=76.6

Q ss_pred             CCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeC
Q psy13925         13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALH   90 (344)
Q Consensus        13 KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~   90 (344)
                      ||||||++||++||+++|+++|||+|||+||+++|||||.+.+|||||||||||+|+||+||+|..+++|||+||+||
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            899999999999999999999999999999999999999999999999999999999999999999889999999996

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.

>smart00339 FH FORKHEAD

Probab=100.00  E-value=2.2e-35  Score=239.06  Aligned_cols=88  Identities=70%  Similarity=1.308  Sum_probs=83.5

Q ss_pred             CCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCCC
Q psy13925         13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPN   92 (344)
Q Consensus        13 KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~pe   92 (344)
                      ||||||++||++||+++|+++|||+|||+||+++|||||.+.+|||||||||||+|+||+||+|..+.+|||+||+|+++
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            89999999999999999999999999999999999999999999999999999999999999998888899999999999


Q ss_pred             chhhcccC
Q psy13925         93 ALDMFENG  100 (344)
Q Consensus        93 a~~~fe~G  100 (344)
                      +..+|+.+
T Consensus        81 ~~~~~~~~   88 (89)
T smart00339       81 AENMFENG   88 (89)
T ss_pred             HHHHHhcC
Confidence            98755543

FORKHEAD, also known as a "winged helix"

>KOG2294|consensus

Probab=99.98  E-value=3.3e-34  Score=279.69  Aligned_cols=103  Identities=55%  Similarity=0.982  Sum_probs=96.9

Q ss_pred             CCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHh-cCCCcccCc-cccccccccccccccccccccCCCCCCCCcceE
Q psy13925         10 GDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIAD-RFPYYRRNT-QRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYW   87 (344)
Q Consensus        10 ~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~-~fPYyr~~~-~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W   87 (344)
                      ..+||||||++||+|||+.+|+|+|||+|||+||+. +|||||++. .|||||||||||||+||+||+|..+++|||+||
T Consensus       127 ~~~kpp~SY~~LI~mAI~~Sp~krLtLs~Iy~~i~~~~fpyyr~~~~~gWqNSIRHNLSLn~cF~Kvpr~~~~~gKg~~W  206 (454)
T KOG2294|consen  127 AGVKPPYSYSGLIAMAIRLSPGKRLTLGGIYFYILLEHFPYYRDANMPGWKNSIRHNLSLNKCFVKVPRERGRPGKGNYW  206 (454)
T ss_pred             CCcCCccccccccccccccCCCcceeecCeeEEEEeccccccccCCCccchhhcccccccccCccccCCcccCCCCCCcc
Confidence            468999999999999999999999999999999995 999999999 999999999999999999999988889999999


Q ss_pred             EeCCCchh-hcccCcccccccccccc
Q psy13925         88 ALHPNALD-MFENGSLLRRRRRFKLM  112 (344)
Q Consensus        88 ~l~pea~~-~fe~G~~rRRRrr~k~~  112 (344)
                      +|+|++.+ +|++|.++|||++.+..
T Consensus       207 ~ldP~~~~~~~~~g~~~rr~~~~~~~  232 (454)
T KOG2294|consen  207 TLDPDDENNMFDNGSFRRRRRSKSNG  232 (454)
T ss_pred             ccCcchhccccccccccccccccccc
Confidence            99999999 99999998888875543

>KOG4385|consensus

Probab=99.85  E-value=9.8e-23  Score=205.06  Aligned_cols=81  Identities=42%  Similarity=0.920  Sum_probs=76.4

Q ss_pred             CCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEe
Q psy13925         10 GDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWAL   89 (344)
Q Consensus        10 ~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l   89 (344)
                      .|.+|||+|+.||.+||+++|++.|||+|||.|+.+.|.|||.+...|||+||||||+++||++|+.     -||.-|++
T Consensus       365 ~dvRPPfTYAsLIRqAIlESpdkQLTLNEIY~WFTrtFAYFRRNaATWKnAVRHNLSLHKCF~RVEn-----vkgavwtv  439 (581)
T KOG4385|consen  365 ADVRPPFTYASLIRQAILESPDKQLTLNEIYNWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN-----VKGAVWTV  439 (581)
T ss_pred             cccCCchhHHHHHHHHHhcCchhhccHHHHHHHHHHHHHHHhccchhHhHHHhhhhHHHHHHHHHHH-----Hhcceeee
Confidence            4899999999999999999999999999999999999999999999999999999999999999953     69999999


Q ss_pred             CCCchh
Q psy13925         90 HPNALD   95 (344)
Q Consensus        90 ~pea~~   95 (344)
                      |.....
T Consensus       440 De~e~~  445 (581)
T KOG4385|consen  440 DEREFQ  445 (581)
T ss_pred             ehhhhh
Confidence            987653

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

Probab=99.78  E-value=7.1e-20  Score=190.09  Aligned_cols=96  Identities=41%  Similarity=0.758  Sum_probs=89.0

Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEE
Q psy13925          9 YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWA   88 (344)
Q Consensus         9 ~~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~   88 (344)
                      ....||+++|+.||+.||+.++.++|+|.+||.||..+|||||....+||||||||||+|++|.||+|...++|||+||.
T Consensus       333 ~~~~kP~~sya~~iT~ail~s~~~kmsls~Iy~~i~s~~pyYr~~p~~w~nSiRhnlSlNksf~kvP~sa~~pGKg~fw~  412 (610)
T COG5025         333 NRTSKPAFSYANSITQAILSSPSGKMTLSEIYSWISSNLPYYRHKPTAWQNSIRHNLSLNKSFEKVPRSASQPGKGCFWK  412 (610)
T ss_pred             ccCccCCcchhhhhHHHhhcCcccccccccccccccccchhhccCCcccCchhhhhhhhccccccCCCCcCCCCCcccCc
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCCchhhcccCcccc
Q psy13925         89 LHPNALDMFENGSLLR  104 (344)
Q Consensus        89 l~pea~~~fe~G~~rR  104 (344)
                      ++.+..+.++.-..++
T Consensus       413 i~~s~~~~~~sk~~~~  428 (610)
T COG5025         413 IDYSYIYEKESKRNPR  428 (610)
T ss_pred             cChhhhhhhccccccc
Confidence            9999998665443333

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

Probab=99.44  E-value=1.1e-14  Score=151.76  Aligned_cols=95  Identities=43%  Similarity=0.775  Sum_probs=88.0

Q ss_pred             CCCCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceE
Q psy13925          8 TYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYW   87 (344)
Q Consensus         8 ~~~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W   87 (344)
                      .|.--||||+|+.+|.++|..+++++|||..||.||...|.||.....+|+|+|||||+++++|.|+.+..+-.+||+||
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            34557999999999999999999999999999999999999999999999999999999999999999998888999999


Q ss_pred             EeCCCchhhcccCcc
Q psy13925         88 ALHPNALDMFENGSL  102 (344)
Q Consensus        88 ~l~pea~~~fe~G~~  102 (344)
                      .+.|+....|..+..
T Consensus       161 ~igP~~~~~~l~~g~  175 (610)
T COG5025         161 SIGPGHETQFLKSGL  175 (610)
T ss_pred             ccCCCccceeecccc
Confidence            999998877755544

>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=91.53  E-value=0.22  Score=39.11  Aligned_cols=33  Identities=24%  Similarity=0.323  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHhcCCC-CCCCHHHHHHHHHhcCCC
Q psy13925         17 SYISLTAMAIWSSPE-KMLPLSDIYRFIADRFPY   49 (344)
Q Consensus        17 SYa~LIa~AI~sSP~-krLTLsEIYewI~~~fPY   49 (344)
                      +|.+||..||.+..+ +..++..|..||+++|+.
T Consensus         4 ~y~~mI~eAI~~l~er~GsS~~aI~kyI~~~y~~   37 (77)
T PF00538_consen    4 PYSDMILEAIKALKERKGSSLQAIKKYIKAKYKV   37 (77)
T ss_dssp             CHHHHHHHHHHHCCSSSSEEHHHHHHHHHHHSSC
T ss_pred             CHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhcCc
Confidence            799999999997554 889999999999999964

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=90.21  E-value=0.32  Score=36.89  Aligned_cols=32  Identities=25%  Similarity=0.341  Sum_probs=28.3

Q ss_pred             CHHHHHHHHHhcCCC-CCCCHHHHHHHHHhcCC
Q psy13925         17 SYISLTAMAIWSSPE-KMLPLSDIYRFIADRFP   48 (344)
Q Consensus        17 SYa~LIa~AI~sSP~-krLTLsEIYewI~~~fP   48 (344)
                      +|..||..||.+..+ +..+.+.|..||+++|+
T Consensus         6 ~~~~mI~eAI~~l~er~GsS~~aI~kyi~~~~~   38 (66)
T smart00526        6 PYSEMITEAISALKERKGSSLQAIKKYIEANYK   38 (66)
T ss_pred             CHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhCC
Confidence            899999999997654 66899999999999965

>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=85.96  E-value=1.2  Score=36.05  Aligned_cols=33  Identities=21%  Similarity=0.339  Sum_probs=28.9

Q ss_pred             CHHHHHHHHHhc-CCCCCCCHHHHHHHHHhcCCC
Q psy13925         17 SYISLTAMAIWS-SPEKMLPLSDIYRFIADRFPY   49 (344)
Q Consensus        17 SYa~LIa~AI~s-SP~krLTLsEIYewI~~~fPY   49 (344)
                      +|..||..||.. ...+..++..|..||+++|+.
T Consensus         6 ~y~~MI~eAI~~l~er~GsS~~aI~kyI~~~y~~   39 (88)
T cd00073           6 PYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKV   39 (88)
T ss_pred             CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCc
Confidence            899999999986 446778999999999999874

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

Probab=80.76  E-value=0.89  Score=34.89  Aligned_cols=57  Identities=14%  Similarity=0.259  Sum_probs=36.7

Q ss_pred             CCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccc-----cccccccc
Q psy13925         16 YSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLS-----FNDCFVKI   74 (344)
Q Consensus        16 ySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLS-----lNk~FvKV   74 (344)
                      +||..++...|+... +-|+.+||++.|.+.--| ...++...++|+-.|.     .+..|++|
T Consensus         1 mt~~eaa~~vL~~~~-~pm~~~eI~~~i~~~~~~-~~~~k~p~~~i~a~ly~~~~~~d~~F~~v   62 (72)
T PF05066_consen    1 MTFKEAAYEVLEEAG-RPMTFKEIWEEIQERGLY-KKSGKTPEATIAAQLYTDIKNEDSRFVKV   62 (72)
T ss_dssp             S-HHHHHHHHHHHH--S-EEHHHHHHHHHHHHTS----GGGGGHHHH-HHHHHHH-T-SS-EES
T ss_pred             CCHHHHHHHHHHhcC-CCcCHHHHHHHHHHhCCC-CcccCCHHHHHHHHHHHHcccCCCCEEEe
Confidence            367788888887777 888999999999976543 3336677778874443     44589988

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	344
1vtn_C	102	Co-Crystal Structure Of The Hnf-3FORK HEAD DNA-Reco		1e-35
1d5v_A	94	Solution Structure Of The Forkhead Domain Of The Ad		2e-31
2hfh_A	109	The Nmr Structures Of A Winged Helix Protein: Genes		6e-30
2hdc_A	97	Structure Of Transcription Factor GenesisDNA COMPLE		1e-29
2c6y_A	111	Crystal Structure Of Interleukin Enhancer-Binding F		1e-19
1jxs_A	98	Solution Structure Of The Dna-Binding Domain Of Int		2e-19
1kq8_A	100	Solution Structure Of Winged Helix Protein Hfh-1 Le		3e-19
2a3s_A	101	Solution Structure And Dynamics Of Dna-Binding Doma		6e-19
3g73_A	142	Structure Of The Foxm1 Dna Binding Length = 142		9e-14
2kiu_A	87	Solution Structure And Backbone Dynamics Of The Dna		3e-13
2a07_F	93	Crystal Structure Of Foxp2 Bound Specifically To Dn		2e-12
3qrf_F	82	Structure Of A Domain-Swapped Foxp3 Dimer Length =		9e-11
1e17_A	150	Solution Structure Of The Dna Binding Domain Of The		2e-10
3l2c_A	110	Crystal Structure Of The Dna Binding Domain Of Foxo		8e-10
3co6_C	100	Crystal Structure Of Foxo1 Dbd Bound To Dbe1 Dna Le		1e-09
3co7_C	117	Crystal Structure Of Foxo1 Dbd Bound To Dbe2 Dna Le		2e-09
2k86_A	103	Solution Structure Of Foxo3a Forkhead Domain Length		4e-08
2uzk_A	97	Crystal Structure Of The Human Foxo3a-Dbd Bound To		4e-08

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

Iteration: 1
 Score =  146 bits (369), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 66/99 (66%), Positives = 78/99 (78%)
Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYISL  MAI  +P KML LS+IY++I D FPYYR N QRWQNS+RH+LSFNDCFV
Sbjct: 3   KPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCFV 62
Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSXXXXXXXFKL 111
           K+ R PD+PGKG+YWALHP++ +MFENG        FKL
Sbjct: 63  KVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQKRFKL 101

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

Iteration: 1
 Score =  133 bits (334), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 57/89 (64%), Positives = 72/89 (80%)
Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI ++PEK + L+ IY+FI DRFP+YR N Q WQNS+RHNLS N+CFV
Sbjct: 4   KPPYSYIALITMAIQNAPEKKITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECFV 63
Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGS 101
           K+PR   +PGKG+YW L P++ +MFENGS
Sbjct: 64  KVPRDDKKPGKGSYWTLDPDSYNMFENGS 92

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

Iteration: 1
 Score =  128 bits (321), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 59/89 (66%), Positives = 66/89 (74%)
Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  SP+K L LS I  FI++RFPYYR     WQNS+RHNLS NDCFV
Sbjct: 3   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62
Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGS 101
           KIPR P  PGKG YW L P + DMF+NGS
Sbjct: 63  KIPREPGNPGKGNYWTLDPQSEDMFDNGS 91

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

Iteration: 1
 Score =  127 bits (318), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 59/89 (66%), Positives = 66/89 (74%)
Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  SP+K L LS I  FI++RFPYYR     WQNS+RHNLS NDCFV
Sbjct: 2   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGS 101
           KIPR P  PGKG YW L P + DMF+NGS
Sbjct: 62  KIPREPGNPGKGNYWTLDPQSEDMFDNGS 90

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

Iteration: 1
 Score = 93.6 bits (231), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 41/81 (50%), Positives = 53/81 (65%)
Query: 11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDC 70
          D KPPYSY  L   AI  +P+K L L+ IY  I   +PYYR   + WQNS+RHNLS N  
Sbjct: 14 DSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRY 73
Query: 71 FVKIPRRPDRPGKGAYWALHP 91
          F+K+PR  + PGKG++W + P
Sbjct: 74 FIKVPRSQEEPGKGSFWRIDP 94

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

Iteration: 1
 Score = 92.8 bits (229), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 41/81 (50%), Positives = 53/81 (65%)
Query: 11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDC 70
          D KPPYSY  L   AI  +P+K L L+ IY  I   +PYYR   + WQNS+RHNLS N  
Sbjct: 1  DSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRY 60
Query: 71 FVKIPRRPDRPGKGAYWALHP 91
          F+K+PR  + PGKG++W + P
Sbjct: 61 FIKVPRSQEEPGKGSFWRIDP 81

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

Iteration: 1
 Score = 92.8 bits (229), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 45/89 (50%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  S    L L++I  ++  +FP++R +   W+NS+RHNLS NDCFV
Sbjct: 2   KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 73  KIPRRPDRP-GKGAYWALHPNALDMFENG 100
           K+ R P RP GK  YW L+PN+   F +G
Sbjct: 62  KVLRDPSRPWGKDNYWMLNPNSEYTFADG 90

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

Iteration: 1
 Score = 91.7 bits (226), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 40/81 (49%), Positives = 53/81 (65%)
Query: 11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDC 70
          + KPPYSY  L   AI S+ ++ L LS IY  I   +PYYR   + WQNS+RHNLS N  
Sbjct: 1  ESKPPYSYAQLIVQAISSAQDRQLTLSGIYAHITKHYPYYRTADKGWQNSIRHNLSLNRY 60
Query: 71 FVKIPRRPDRPGKGAYWALHP 91
          F+K+PR  + PGKG++W + P
Sbjct: 61 FIKVPRSQEEPGKGSFWRIDP 81

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

Iteration: 1
 Score = 74.3 bits (181), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 36/83 (43%), Positives = 54/83 (65%), Gaps = 4/83 (4%)
Query: 12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQ-RWQNSLRHNLSFNDC 70
          ++PPYSY+++   AI S+  K + L DIY +I D FPY++   +  W+NS+RHNLS +D 
Sbjct: 17 ERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDM 76
Query: 71 FVKIPRRPDRPGKGAYWALHPNA 93
          FV   R     GK ++W +HP+A
Sbjct: 77 FV---RETSANGKVSFWTIHPSA 96

>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 = 72.4 bits (176), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 34/77 (44%), Positives = 48/77 (62%), Gaps = 5/77 (6%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
          +PP++Y SL   AI  SPEK L L++IY +    FPY+RRN   W+N++RHNLS +  FV
Sbjct: 4  RPPFTYASLIRQAILESPEKQLTLNEIYNWFTRMFPYFRRNAATWKNAVRHNLSLHKYFV 63
Query: 73 KIPRRPDRPGKGAYWAL 89
          ++        KGA W +
Sbjct: 64 RVENV-----KGAVWTV 75

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 30/77 (38%), Positives = 47/77 (61%), Gaps = 5/77 (6%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
          +PP++Y +L   AI  S ++ L L++IY +    F Y+RRN   W+N++RHNLS + CFV
Sbjct: 3  RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 62
Query: 73 KIPRRPDRPGKGAYWAL 89
          ++        KGA W +
Sbjct: 63 RVENV-----KGAVWTV 74

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

Iteration: 1
 Score = 64.3 bits (155), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 5/77 (6%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
          +PP++Y +L   AI  +PEK   L++IY +    F ++R +   W+N++RHNLS + CFV
Sbjct: 2  RPPFTYATLIRWAILEAPEKQRTLNEIYHWFTRMFAFFRNHPATWKNAIRHNLSLHKCFV 61
Query: 73 KIPRRPDRPGKGAYWAL 89
          ++        KGA W +
Sbjct: 62 RVESE-----KGAVWTV 73

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

Iteration: 1
 Score = 61.2 bits (147), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 33/91 (36%), Positives = 54/91 (59%), Gaps = 11/91 (12%)
Query: 6   RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
           R+ +G+Q    SY  L + AI S+PEK L L+ IY ++    PY++      ++  W+NS
Sbjct: 21  RNAWGNQ----SYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNS 76
Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHP 91
           +RHNLS +  F+K+    +  GK ++W L+P
Sbjct: 77  IRHNLSLHSKFIKV--HNEATGKSSWWMLNP 105

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 32/93 (34%), Positives = 52/93 (55%), Gaps = 11/93 (11%)
Query: 6  RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
          R+ +G+     SY  L   AI SS EK L LS IY ++    PY++      ++  W+NS
Sbjct: 8  RNAWGN----LSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNS 63
Query: 61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNA 93
          +RHNLS +  F+++  + +  GK ++W L+P  
Sbjct: 64 IRHNLSLHSKFIRV--QNEGTGKSSWWMLNPEG 94

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/93 (34%), Positives = 52/93 (55%), Gaps = 11/93 (11%)
Query: 6  RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
          R+ +G+     SY  L   AI SS EK L LS IY ++    PY++      ++  W+NS
Sbjct: 8  RNAWGN----LSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNS 63
Query: 61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNA 93
          +RHNLS +  F+++  + +  GK ++W L+P  
Sbjct: 64 IRHNLSLHSKFIRV--QNEGTGKSSWWMLNPEG 94

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 54/93 (58%), Gaps = 11/93 (11%)
Query: 6  RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
          R+ +G+     SY  L   AI SSP+K L LS IY ++    PY++      ++  W+NS
Sbjct: 6  RNAWGN----LSYADLITRAIESSPDKRLTLSQIYEWMVRCVPYFKDKGDSNSSAGWKNS 61
Query: 61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNA 93
          +RHNLS +  F+++  + +  GK ++W ++P+ 
Sbjct: 62 IRHNLSLHSRFMRV--QNEGTGKSSWWIINPDG 92

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 49/82 (59%), Gaps = 7/82 (8%)
Query: 17 SYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNSLRHNLSFNDCF 71
          SY  L   AI SSP+K L LS IY ++    PY++      ++  W+NS+RHNLS +  F
Sbjct: 5  SYADLITRAIESSPDKRLTLSQIYEWMVRCVPYFKDKGDSNSSAGWKNSIRHNLSLHSRF 64
Query: 72 VKIPRRPDRPGKGAYWALHPNA 93
          +++  + +  GK ++W ++P+ 
Sbjct: 65 MRV--QNEGTGKSSWWIINPDG 84
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	344
1vtn_C	102	HNF-3/FORK head DNA-recognition motif; protein-DNA	1e-66
2hfh_A	109	Genesis, HFH-2; HNF-3 homologues, winged helix pro	2e-66
2c6y_A	111	Forkhead box protein K2; transcription regulation,	5e-66
2hdc_A	97	Protein (transcription factor); structure, dyanami	3e-64
1kq8_A	100	HFH-1, hepatocyte nuclear factor 3 forkhead homolo	5e-61
3g73_A	142	Forkhead box protein M1; DNA-binding domain, forkh	2e-51
2a07_F	93	Forkhead box protein P2; double-helix, swapping, h	6e-47
3coa_C	117	Forkhead box protein O1; winged helix, forkhead do	7e-45
3bpy_A	85	FORK head domain, forkhead transcription factor FO	1e-43
3l2c_A	110	Forkhead box protein O4; winged helix, transcripti	6e-43
1e17_A	150	AFX; DNA binding domain, winged helix; NMR {Homo s	8e-43
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05

>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 =  204 bits (520), Expect = 1e-66
 Identities = 70/100 (70%), Positives = 84/100 (84%)

Query: 12  QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCF 71
            KPPYSYISL  MAI  +P KML LS+IY++I D FPYYR N QRWQNS+RH+LSFNDCF
Sbjct: 2   AKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCF 61

Query: 72  VKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKL 111
           VK+ R PD+PGKG+YWALHP++ +MFENG  LRR++RFKL
Sbjct: 62  VKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQKRFKL 101

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

 Score =  203 bits (518), Expect = 2e-66
 Identities = 66/103 (64%), Positives = 76/103 (73%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  SP+K L LS I  FI++RFPYYR     WQNS+RHNLS NDCFV
Sbjct: 3   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSD 115
           KIPR P  PGKG YW L P + DMF+NGS LRRR+RFK ++  
Sbjct: 63  KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKRFKRLQHH 105

>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 =  202 bits (517), Expect = 5e-66
 Identities = 44/103 (42%), Positives = 59/103 (57%)

Query: 6   RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNL 65
                D KPPYSY  L   AI  +P+K L L+ IY  I   +PYYR   + WQNS+RHNL
Sbjct: 9   MGRGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNL 68

Query: 66  SFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
           S N  F+K+PR  + PGKG++W + P +       +  +RR R
Sbjct: 69  SLNRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRPR 111

>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 =  197 bits (504), Expect = 3e-64
 Identities = 64/96 (66%), Positives = 72/96 (75%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  SP+K L LS I  FI++RFPYYR     WQNS+RHNLS NDCFV
Sbjct: 2   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
           KIPR P  PGKG YW L P + DMF+NGS LRRR+R
Sbjct: 62  KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKR 97

>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 =  189 bits (482), Expect = 5e-61
 Identities = 49/98 (50%), Positives = 64/98 (65%), Gaps = 1/98 (1%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  S    L L++I  ++  +FP++R +   W+NS+RHNLS NDCFV
Sbjct: 2   KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61

Query: 73  KIPRRPDRP-GKGAYWALHPNALDMFENGSLLRRRRRF 109
           K+ R P RP GK  YW L+PN+   F +G   RRR R 
Sbjct: 62  KVLRDPSRPWGKDNYWMLNPNSEYTFADGVFRRRRYRL 99

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

 Score =  166 bits (422), Expect = 2e-51
 Identities = 37/110 (33%), Positives = 56/110 (50%), Gaps = 4/110 (3%)

Query: 2   PRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRR-NTQRWQNS 60
           P         ++PPYSY+++   AI S+  K + L DIY +I D FPY++      W+NS
Sbjct: 7   PSASWQNSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNS 66

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFK 110
           +RHNLS +D FV   R     GK ++W +HP+A        + +      
Sbjct: 67  IRHNLSLHDMFV---RETSANGKVSFWTIHPSANRYLTLDQVFKPLDPGS 113

>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 =  153 bits (388), Expect = 6e-47
 Identities = 34/103 (33%), Positives = 54/103 (52%), Gaps = 14/103 (13%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           +PP++Y +L   AI  S ++ L L++IY +    F Y+RRN   W+N++RHNLS + CFV
Sbjct: 3   RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 62

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSD 115
           ++        KGA W +              ++RR  K+  S 
Sbjct: 63  RVEN-----VKGAVWTVDEVE---------YQKRRSQKITGSP 91

>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 =  148 bits (376), Expect = 7e-45
 Identities = 34/110 (30%), Positives = 55/110 (50%), Gaps = 10/110 (9%)

Query: 6   RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
             +  +     SY  L   AI SS EK L LS IY ++    PY++      ++  W+NS
Sbjct: 4   SSSRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNS 63

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFK 110
           +RHNLS +  F+++    +  GK ++W L+P   +  ++G   RRR    
Sbjct: 64  IRHNLSLHSKFIRVQN--EGTGKSSWWMLNP---EGGKSGKSPRRRAASM 108

>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 =  144 bits (366), Expect = 1e-43
 Identities = 29/85 (34%), Positives = 48/85 (56%), Gaps = 7/85 (8%)

Query: 11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNSLRHNL 65
          +     SY  L + AI S+PEK L L+ IY ++    PY++      ++  W+NS+RHNL
Sbjct: 3  NAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNL 62

Query: 66 SFNDCFVKIPRRPDRPGKGAYWALH 90
          S +  F+K+    +  GK ++W L+
Sbjct: 63 SLHSKFIKVHN--EATGKSSWWMLN 85

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

 Score =  143 bits (363), Expect = 6e-43
 Identities = 30/93 (32%), Positives = 50/93 (53%), Gaps = 7/93 (7%)

Query: 6   RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
             +  +     SY  L + AI S+PEK L L+ IY ++    PY++      ++  W+NS
Sbjct: 17  GGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNS 76

Query: 61  LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNA 93
           +RHNLS +  F+K+    +  GK ++W L+P  
Sbjct: 77  IRHNLSLHSKFIKVHN--EATGKSSWWMLNPEG 107

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

 Score = 44.8 bits (105), Expect = 3e-05
 Identities = 41/271 (15%), Positives = 69/271 (25%), Gaps = 81/271 (29%)

Query: 90  HPNALDMFENGSLLR----RRRRFKLMKSDKDKLENELAALANVNRIYLSSQSPTTSDDF 145
           +P  L +      +R        +K +  DK         L  +    L+   P    ++
Sbjct: 326 NPRRLSII--AESIRDGLATWDNWKHVNCDK---------LTTIIESSLNVLEP---AEY 371

Query: 146 EH--------PES-PIS---------NFDEDEEIDVIHDFSPKTL-DYSLKNLNYSPKSI 186
                     P S  I          +  + + + V++     +L +   K    S  SI
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431

Query: 187 D----KSPEPMESSHAK------------PFDFSINSNSLISSSHLEQHTKLSEPSD--- 227
                   E   + H                D           SH+  H K  E  +   
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491

Query: 228 -------------SEIKKSSTSVKRPFDIENLIST----DSFTSQAHCLSPYLLQQPLMF 270
                         +I+  ST+      I N +        +          L+   L F
Sbjct: 492 LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF 551

Query: 271 LPPPG--LLSHPSYFPTQPNLLRFPPLSYPS 299
           LP     L+          +LLR   L    
Sbjct: 552 LPKIEENLICSKY-----TDLLRI-ALMAED 576

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	344
1vtn_C	102	HNF-3/FORK head DNA-recognition motif; protein-DNA	100.0
2hdc_A	97	Protein (transcription factor); structure, dyanami	100.0
1kq8_A	100	HFH-1, hepatocyte nuclear factor 3 forkhead homolo	100.0
2hfh_A	109	Genesis, HFH-2; HNF-3 homologues, winged helix pro	100.0
2c6y_A	111	Forkhead box protein K2; transcription regulation,	100.0
3coa_C	117	Forkhead box protein O1; winged helix, forkhead do	100.0
3l2c_A	110	Forkhead box protein O4; winged helix, transcripti	100.0
1e17_A	150	AFX; DNA binding domain, winged helix; NMR {Homo s	100.0
3bpy_A	85	FORK head domain, forkhead transcription factor FO	100.0
2a07_F	93	Forkhead box protein P2; double-helix, swapping, h	100.0
3g73_A	142	Forkhead box protein M1; DNA-binding domain, forkh	99.98

>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=5.1e-43  Score=289.58  Aligned_cols=101  Identities=69%  Similarity=1.279  Sum_probs=97.7

Q ss_pred             CCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeC
Q psy13925         11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALH   90 (344)
Q Consensus        11 ~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~   90 (344)
                      ++||||||++||+|||+++|+++|||+|||+||+++||||+.+.+|||||||||||+|+||+||+|..+++|||+||+|+
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            47999999999999999999999999999999999999999999999999999999999999999998999999999999


Q ss_pred             CCchhhcccCccccccccccc
Q psy13925         91 PNALDMFENGSLLRRRRRFKL  111 (344)
Q Consensus        91 pea~~~fe~G~~rRRRrr~k~  111 (344)
                      |++.++|++|.++|||+|.+.
T Consensus        81 p~~~~~f~~g~~~rr~~~~~~  101 (102)
T 1vtn_C           81 PSSGNMFENGCYLRRQKRFKL  101 (102)
T ss_dssp             GGGCSTTCSSCSSSCSSCCCC
T ss_pred             cCHHHHhhcCCeecccccccc
Confidence            999999999999999988764

>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=9.2e-43  Score=285.76  Aligned_cols=97  Identities=66%  Similarity=1.223  Sum_probs=94.2

Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCC
Q psy13925         12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHP   91 (344)
Q Consensus        12 ~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~p   91 (344)
                      .||||||++||+|||+++|+++|||+|||+||+++||||+.+.+|||||||||||||+||+||+|..+++|||+||+|+|
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            49999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             CchhhcccCcccccccc
Q psy13925         92 NALDMFENGSLLRRRRR  108 (344)
Q Consensus        92 ea~~~fe~G~~rRRRrr  108 (344)
                      +++++|++|.++|||+|
T Consensus        81 ~~~~~f~~g~~~rrr~r   97 (97)
T 2hdc_A           81 QSEDMFDNGSFLRRRKR   97 (97)
T ss_dssp             THHHHHHHSCCCSSSCC
T ss_pred             CHHHHHhCCCccCCCCC
Confidence            99999999999888875

>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=1.9e-42  Score=285.29  Aligned_cols=98  Identities=50%  Similarity=0.973  Sum_probs=72.9

Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCC-CCcceEEeC
Q psy13925         12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRP-GKGAYWALH   90 (344)
Q Consensus        12 ~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~p-GKGs~W~l~   90 (344)
                      +||||||++||+|||+++|+++|||+|||+||+++||||+.+.+|||||||||||||+||+||+|..+++ |||+||+|+
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            5999999999999999999999999999999999999999999999999999999999999999998887 999999999


Q ss_pred             CCchhhcccCccccccccc
Q psy13925         91 PNALDMFENGSLLRRRRRF  109 (344)
Q Consensus        91 pea~~~fe~G~~rRRRrr~  109 (344)
                      |+++++|++|.++|||+|+
T Consensus        81 p~~~~~f~~g~~~rrr~r~   99 (100)
T 1kq8_A           81 PNSEYTFADGVFRRRRYRL   99 (100)
T ss_dssp             C------------------
T ss_pred             cCHHHHHhCCCcccCCCCC
Confidence            9999999999999988875

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

Probab=100.00  E-value=3.7e-42  Score=287.63  Aligned_cols=101  Identities=65%  Similarity=1.211  Sum_probs=90.7

Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCC
Q psy13925         12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHP   91 (344)
Q Consensus        12 ~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~p   91 (344)
                      +||||||++||+|||+++|+++|||+|||+||+++||||+.+++|||||||||||||+||+||+|..+++|||+||+|+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhhcccCcccccccccccc
Q psy13925         92 NALDMFENGSLLRRRRRFKLM  112 (344)
Q Consensus        92 ea~~~fe~G~~rRRRrr~k~~  112 (344)
                      +++++|++|.++|||++.+..
T Consensus        82 ~~~~~f~~g~~~Rrr~~~~~~  102 (109)
T 2hfh_A           82 QSEDMFDNGSFLRRRKRFKRL  102 (109)
T ss_dssp             TCCHHHHSSSCC---------
T ss_pred             cHHHHHhCCCcccCccccccc
Confidence            999999999999988876643

>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=9e-42  Score=286.00  Aligned_cols=100  Identities=44%  Similarity=0.880  Sum_probs=95.2

Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEE
Q psy13925          9 YGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWA   88 (344)
Q Consensus         9 ~~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~   88 (344)
                      ..++||||||++||++||+++|+++|||+|||+||+++||||+.+.+|||||||||||||+||+||+|..+++|||+||+
T Consensus        12 ~~~~KPp~SYa~LI~~AI~~sp~~~LtL~eIY~~I~~~fPyyr~~~~gWqNSIRHNLSln~~F~Kv~r~~~~~GKG~~W~   91 (111)
T 2c6y_A           12 GSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWR   91 (111)
T ss_dssp             --CCCCSSCHHHHHHHHHHTSTTSCEEHHHHHHHHHHHCTTSCTTCHHHHHHHHHHHHHSTTEEEECCCTTSCCSSCEEE
T ss_pred             CCCCCCCCCHHHHHHHHHHhCCCCCCcHHHHHHHHHHcCCccccCCCeeecchhHHhhhhhhhccccCCCCCCCCcceEE
Confidence            46899999999999999999999999999999999999999999999999999999999999999999988999999999


Q ss_pred             eCCCchhhcccCcccccccc
Q psy13925         89 LHPNALDMFENGSLLRRRRR  108 (344)
Q Consensus        89 l~pea~~~fe~G~~rRRRrr  108 (344)
                      |+|+++++|++|.++|||+|
T Consensus        92 l~p~~~~~~~~~~~r~rr~r  111 (111)
T 2c6y_A           92 IDPASESKLIEQAFRKRRPR  111 (111)
T ss_dssp             ECHHHHHHHHHHHTCCCCCC
T ss_pred             eChhHHHhhhcccccccCCC
Confidence            99999999999999888765

>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=3.6e-37  Score=260.24  Aligned_cols=91  Identities=36%  Similarity=0.685  Sum_probs=76.3

Q ss_pred             CCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCc-----cccccccccccccccccccccCCCCCCCCc
Q psy13925         10 GDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNT-----QRWQNSLRHNLSFNDCFVKIPRRPDRPGKG   84 (344)
Q Consensus        10 ~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~-----~GWKNSIRHNLSlNk~FvKVpR~~~~pGKG   84 (344)
                      .+.||||||++||+|||+++|+++|||+|||+||+++||||++++     .|||||||||||||+||+||+|  +++|||
T Consensus         8 ~n~kPp~SYa~LI~~AI~~sp~~~LTL~eIY~~I~~~fPyyr~~~d~~s~~gWqNSIRHNLSln~~F~Kv~~--~~~GKg   85 (117)
T 3coa_C            8 RNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIRVQN--EGTGKS   85 (117)
T ss_dssp             CBTTBSCCHHHHHHHHHHTSTTSCBCHHHHHHHHHHHCGGGTTCCSHHHHHHHHHHHHHHHHHCTTEEEECC--SSTTCC
T ss_pred             CCCCCCCCHHHHHHHHHHhCCCCCccHHHHHHHHHHhCcccccCCCCcccccchhccchheecchhhccccc--CCCCCc
Confidence            567999999999999999999999999999999999999999886     7999999999999999999987  468999


Q ss_pred             ceEEeCCCchhhcccCccccc
Q psy13925         85 AYWALHPNALDMFENGSLLRR  105 (344)
Q Consensus        85 s~W~l~pea~~~fe~G~~rRR  105 (344)
                      +||+|+|++.   +.|+.+||
T Consensus        86 ~~W~l~p~~~---~~~~~~Rr  103 (117)
T 3coa_C           86 SWWMLNPEGG---KSGKSPRR  103 (117)
T ss_dssp             CEEEECC--------------
T ss_pred             ceEEECcccc---ccCccccc
Confidence            9999999986   34444443

>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=2.1e-36  Score=253.00  Aligned_cols=90  Identities=33%  Similarity=0.633  Sum_probs=75.7

Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccC-----ccccccccccccccccccccccCC
Q psy13925          3 RPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRN-----TQRWQNSLRHNLSFNDCFVKIPRR   77 (344)
Q Consensus         3 r~~R~~~~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~-----~~GWKNSIRHNLSlNk~FvKVpR~   77 (344)
                      |+.+..-.+.||||||++||+|||+++|+++|||+|||+||+++|||||.+     ..|||||||||||||+||+||+|.
T Consensus        14 ~~~~~~~~~~kPpySY~~LI~~AI~~sp~~~LtL~eIY~~I~~~fPyyr~~~~~~s~~gWqNSIRHNLSln~~F~Kv~r~   93 (110)
T 3l2c_A           14 PRKGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNE   93 (110)
T ss_dssp             ------CCBTTBSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCC
T ss_pred             CCCCccCCCCCCCCCHHHHHHHHHHhCCccCcCHHHHHHHHHHhCchhhcCccccCCCCcccchhhhccHhhhheeCCCC
Confidence            344445567899999999999999999999999999999999999999987     469999999999999999999874


Q ss_pred             CCCCCCcceEEeCCCch
Q psy13925         78 PDRPGKGAYWALHPNAL   94 (344)
Q Consensus        78 ~~~pGKGs~W~l~pea~   94 (344)
                        ++|||+||+|+|+++
T Consensus        94 --~~GKG~~W~l~p~~~  108 (110)
T 3l2c_A           94 --ATGKSSWWMLNPEGG  108 (110)
T ss_dssp             --STTCCCEEEEC----
T ss_pred             --CCCCCceEEECcccc
Confidence              689999999999985

>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=5.2e-36  Score=240.37  Aligned_cols=78  Identities=37%  Similarity=0.729  Sum_probs=73.8

Q ss_pred             CCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCc-----cccccccccccccccccccccCCCCCCCCcc
Q psy13925         11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNT-----QRWQNSLRHNLSFNDCFVKIPRRPDRPGKGA   85 (344)
Q Consensus        11 ~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~-----~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs   85 (344)
                      +.||||||++||+|||+++|+++|||+|||+||+++||||+.++     .|||||||||||||+||+||+|.  ++|||+
T Consensus         3 n~kp~~SY~~LI~~Ai~~sp~~~ltL~eIY~~i~~~fpyy~~~~~~~s~~gWqNSIRHNLSln~~F~Kv~r~--~~GKg~   80 (85)
T 3bpy_A            3 NAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNE--ATGKSS   80 (85)
T ss_dssp             BTTBSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCC--STTCCC
T ss_pred             CCcCCCCHHHHHHHHHHhCCcCCccHHHHHHHHHHhCcchhcCccCccCCCcchhhhhhccHhhhheeCCCC--CCCCCC
Confidence            57999999999999999999999999999999999999999874     59999999999999999999874  689999


Q ss_pred             eEEeC
Q psy13925         86 YWALH   90 (344)
Q Consensus        86 ~W~l~   90 (344)
                      ||+||
T Consensus        81 ~W~ld   85 (85)
T 3bpy_A           81 WWMLN   85 (85)
T ss_dssp             EEEEC
T ss_pred             ceecC
Confidence            99996

>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=5.7e-36  Score=244.07  Aligned_cols=78  Identities=38%  Similarity=0.871  Sum_probs=74.5

Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCC
Q psy13925         12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHP   91 (344)
Q Consensus        12 ~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~p   91 (344)
                      +||||||++||++||+++|+++|||+|||+||+++||||+.+.+|||||||||||+|+||+||++     |||+||+|++
T Consensus         2 ~KPp~SY~~LI~~AI~~sp~~~ltL~eIY~~i~~~fpyyr~~~~gWkNSIRHNLSln~~F~kv~~-----gkG~~W~l~~   76 (93)
T 2a07_F            2 VRPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN-----VKGAVWTVDE   76 (93)
T ss_dssp             CCCSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCTTBCCEEC-----SSSEECCBCH
T ss_pred             CCCCCCHHHHHHHHHHhCCCCCccHHHHHHHHHHhCCccccCCCccccccceeeehhhceeecCC-----CCCCeeEECh
Confidence            69999999999999999999999999999999999999999999999999999999999999963     7999999998


Q ss_pred             Cch
Q psy13925         92 NAL   94 (344)
Q Consensus        92 ea~   94 (344)
                      ++.
T Consensus        77 ~~~   79 (93)
T 2a07_F           77 VEY   79 (93)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            653

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

Probab=99.98  E-value=5.6e-34  Score=247.70  Aligned_cols=96  Identities=36%  Similarity=0.747  Sum_probs=80.9

Q ss_pred             CCCCCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCccc-CccccccccccccccccccccccCCCCCCCCcce
Q psy13925          8 TYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRR-NTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAY   86 (344)
Q Consensus         8 ~~~~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~-~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~   86 (344)
                      ...++||||||++||+|||+++|+++|||+|||+||+++|||||. +..|||||||||||+|+||+|+   .+++|||+|
T Consensus        13 ~~~~~KPpySYa~LI~~AI~~sp~~~LTL~eIY~~I~~~fPyyr~~~~~gWqNSIRHNLSln~~F~r~---~~~~GKg~~   89 (142)
T 3g73_A           13 NSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDMFVRE---TSANGKVSF   89 (142)
T ss_dssp             -CTTSCCSSCHHHHHHHHHHTSTTSEECHHHHHHHHHHHCTHHHHTSCTTHHHHHHHHHHHCTTEEEE---ECTTSCCEE
T ss_pred             ccCCCCCCCCHHHHHHHHHHhCCCCCcCHHHHHHHHHHhCCCccccCCCCccchhhhhhhhhhhheec---CCCCCCCce
Confidence            446889999999999999999999999999999999999999998 8899999999999999999987   356899999


Q ss_pred             EEeCCCchhhc-ccCcccccc
Q psy13925         87 WALHPNALDMF-ENGSLLRRR  106 (344)
Q Consensus        87 W~l~pea~~~f-e~G~~rRRR  106 (344)
                      |+|+|+++..+ .++.+++.+
T Consensus        90 W~i~p~~~~~l~~d~~~k~~~  110 (142)
T 3g73_A           90 WTIHPSANRYLTLDQVFKPLD  110 (142)
T ss_dssp             EEECTTTCCCCCCC-------
T ss_pred             EEECccccccchhhhhhcccc
Confidence            99999997544 444444433

---

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	344
d2c6ya1	98	a.4.5.14 (A:1-98) Interleukin enhancer binding fac	1e-46
d2hdca_	97	a.4.5.14 (A:) Genesis {Rat (Rattus norvegicus) [Ta	2e-46
d1d5va_	94	a.4.5.14 (A:) Adipocyte-transcription factor FREAC	1e-43
d1kq8a_	75	a.4.5.14 (A:) HFH-1 (HNF-3 forkhead homolog-1) {Ra	3e-33
d2a07f1	82	a.4.5.14 (F:503-584) Forkhead box protein P2, FOXP	2e-32
d3bpya1	85	a.4.5.14 (A:93-177) Afx (Foxo4) {Human (Homo sapie	3e-31

>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 =  151 bits (383), Expect = 1e-46
 Identities = 44/98 (44%), Positives = 59/98 (60%)

Query: 11  DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDC 70
           D KPPYSY  L   AI  +P+K L L+ IY  I   +PYYR   + WQNS+RHNLS N  
Sbjct: 1   DSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRY 60

Query: 71  FVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
           F+K+PR  + PGKG++W + P +       +  +RR R
Sbjct: 61  FIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRPR 98

>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 =  151 bits (382), Expect = 2e-46
 Identities = 64/96 (66%), Positives = 72/96 (75%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI  SP+K L LS I  FI++RFPYYR     WQNS+RHNLS NDCFV
Sbjct: 2   KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
           KIPR P  PGKG YW L P + DMF+NGS LRRR+R
Sbjct: 62  KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKR 97

>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 =  143 bits (363), Expect = 1e-43
 Identities = 58/91 (63%), Positives = 73/91 (80%)

Query: 13  KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
           KPPYSYI+L  MAI ++PEK + L+ IY+FI DRFP+YR N Q WQNS+RHNLS N+CFV
Sbjct: 4   KPPYSYIALITMAIQNAPEKKITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECFV 63

Query: 73  KIPRRPDRPGKGAYWALHPNALDMFENGSLL 103
           K+PR   +PGKG+YW L P++ +MFENGS L
Sbjct: 64  KVPRDDKKPGKGSYWTLDPDSYNMFENGSFL 94

>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 =  116 bits (291), Expect = 3e-33
 Identities = 37/75 (49%), Positives = 50/75 (66%), Gaps = 1/75 (1%)

Query: 18 YISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRR 77
          YI+L  MAI  S    L L++I  ++  +FP++R +   W+NS+RHNLS NDCFVK+ R 
Sbjct: 1  YIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRD 60

Query: 78 PDRP-GKGAYWALHP 91
          P RP GK  YW L+P
Sbjct: 61 PSRPWGKDNYWMLNP 75

>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 =  114 bits (286), Expect = 2e-32
 Identities = 30/81 (37%), Positives = 47/81 (58%), Gaps = 5/81 (6%)

Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
          +PP++Y +L   AI  S ++ L L++IY +    F Y+RRN   W+N++RHNLS + CFV
Sbjct: 2  RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 61

Query: 73 KIPRRPDRPGKGAYWALHPNA 93
          ++        KGA W +    
Sbjct: 62 RVEN-----VKGAVWTVDEVE 77

>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 =  110 bits (277), Expect = 3e-31
 Identities = 29/83 (34%), Positives = 47/83 (56%), Gaps = 7/83 (8%)

Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNSLRHNLSF 67
              SY  L + AI S+PEK L L+ IY ++    PY++      ++  W+NS+RHNLS 
Sbjct: 5  WGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSL 64

Query: 68 NDCFVKIPRRPDRPGKGAYWALH 90
          +  F+K+    +  GK ++W L+
Sbjct: 65 HSKFIKVHN--EATGKSSWWMLN 85

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	344
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
d1kq8a_	75	HFH-1 (HNF-3 forkhead homolog-1) {Rat (Rattus norv	100.0
d2a07f1	82	Forkhead box protein P2, FOXP2 {Human (Homo sapien	100.0
d3bpya1	85	Afx (Foxo4) {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1ussa_	88	Histone H1 homologue Hho1p {Baker's yeast (Sacchar	90.23
d1hsta_	74	Histone H5, globular domain {Chicken (Gallus gallu	88.18
d1usta_	92	Histone H1 homologue Hho1p {Baker's yeast (Sacchar	87.05

>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=7.9e-41  Score=272.70  Aligned_cols=98  Identities=45%  Similarity=0.910  Sum_probs=93.7

Q ss_pred             CCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeC
Q psy13925         11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALH   90 (344)
Q Consensus        11 ~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~   90 (344)
                      ++||||||++||++||+++|+++|||+|||+||+++|||||.+..|||||||||||+|+||+||+|..+++|||+||+|+
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCchhhcccCcccccccc
Q psy13925         91 PNALDMFENGSLLRRRRR  108 (344)
Q Consensus        91 pea~~~fe~G~~rRRRrr  108 (344)
                      |++...|.++.+++||+|
T Consensus        81 p~~~~~~~~~~~~krr~r   98 (98)
T d2c6ya1          81 PASESKLIEQAFRKRRPR   98 (98)
T ss_dssp             HHHHHHHHHHHTCCCCCC
T ss_pred             ccHHhhhhcchhhccCCC
Confidence            999999998888777654

>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=1.1e-40  Score=271.48  Aligned_cols=97  Identities=66%  Similarity=1.223  Sum_probs=93.7

Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCC
Q psy13925         12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHP   91 (344)
Q Consensus        12 ~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~p   91 (344)
                      .||||||++||++||+++|+++|||+|||+||+++||||+.+.+|||||||||||+|+||+||+|..+++|||+||+|+|
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            59999999999999999999999999999999999999999999999999999999999999999988899999999999


Q ss_pred             CchhhcccCcccccccc
Q psy13925         92 NALDMFENGSLLRRRRR  108 (344)
Q Consensus        92 ea~~~fe~G~~rRRRrr  108 (344)
                      ++++.|++|.++|||+|
T Consensus        81 ~~~~~~~~~~~~rrrkr   97 (97)
T d2hdca_          81 QSEDMFDNGSFLRRRKR   97 (97)
T ss_dssp             THHHHHHHSCCCSSSCC
T ss_pred             cHHHHhhcCCccccCCC
Confidence            99999999999888765

>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=4.5e-39  Score=260.68  Aligned_cols=91  Identities=63%  Similarity=1.237  Sum_probs=88.9

Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCC
Q psy13925         12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHP   91 (344)
Q Consensus        12 ~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~p   91 (344)
                      .||||||++||++||+++|+++|||+|||+||+++|||||.+..|||||||||||+|+||+||+|..+++|||+||+|+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhhcccCcc
Q psy13925         92 NALDMFENGSL  102 (344)
Q Consensus        92 ea~~~fe~G~~  102 (344)
                      ++++.|++|.+
T Consensus        83 ~~~~~f~~g~~   93 (94)
T d1d5va_          83 DSYNMFENGSF   93 (94)
T ss_dssp             SCSSTTSCSSC
T ss_pred             cHHHHHhcCCC
Confidence            99999999975

>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=100.00  E-value=8.8e-35  Score=226.90  Aligned_cols=74  Identities=50%  Similarity=1.017  Sum_probs=71.9

Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCC-CCcceEEeCC
Q psy13925         18 YISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRP-GKGAYWALHP   91 (344)
Q Consensus        18 Ya~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~p-GKGs~W~l~p   91 (344)
                      |++||++||+++|+++|||+|||+||+++|||||.+.+|||||||||||+|+||+||+|..+++ |||+||+|+|
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            8999999999999999999999999999999999999999999999999999999999988777 9999999987

>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=100.00  E-value=4.1e-35  Score=232.21  Aligned_cols=78  Identities=38%  Similarity=0.871  Sum_probs=74.2

Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCccccccccccccccccccccccCCCCCCCCcceEEeCC
Q psy13925         12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHP   91 (344)
Q Consensus        12 ~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs~W~l~p   91 (344)
                      .||||||++||++||+++|+++|||+|||+||+++|||||.+.+|||||||||||+|+||+||+|     |||+||+|||
T Consensus         1 vKP~~sY~~LI~~Ai~~sp~~~LtL~eIy~~i~~~fpyyr~~~~gWkNSIRHnLS~n~~F~kv~~-----~kG~~W~i~~   75 (82)
T d2a07f1           1 VRPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN-----VKGAVWTVDE   75 (82)
T ss_dssp             CCCSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCTTBCCEEC-----SSSEECCBCH
T ss_pred             CcCCCcHHHHHHHHHHhCCCCCccHHHHHHHHHHhCcccccCCcccchhHhHhcccccceEeCCC-----CCCCEEEECH
Confidence            59999999999999999999999999999999999999999999999999999999999999964     7999999998


Q ss_pred             Cch
Q psy13925         92 NAL   94 (344)
Q Consensus        92 ea~   94 (344)
                      +..
T Consensus        76 ~~~   78 (82)
T d2a07f1          76 VEY   78 (82)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>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=99.97  E-value=1.9e-33  Score=224.04  Aligned_cols=78  Identities=37%  Similarity=0.729  Sum_probs=71.8

Q ss_pred             CCCCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHhcCCCcccCc-----cccccccccccccccccccccCCCCCCCCcc
Q psy13925         11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNT-----QRWQNSLRHNLSFNDCFVKIPRRPDRPGKGA   85 (344)
Q Consensus        11 ~~KPPySYa~LIa~AI~sSP~krLTLsEIYewI~~~fPYyr~~~-----~GWKNSIRHNLSlNk~FvKVpR~~~~pGKGs   85 (344)
                      +.||++||++||++||+++|+++|||+|||+||+++|||||+.+     .|||||||||||+|+||+||+|.  +.|||+
T Consensus         3 n~~~~~SY~~LI~~Ai~~sp~~~ltL~eIY~~i~~~fPyyr~~~~~~~~~gWkNSIRHnLSl~~~F~kv~r~--~~gKg~   80 (85)
T d3bpya1           3 NAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNE--ATGKSS   80 (85)
T ss_dssp             BTTBSCCHHHHHHHHHHHSTTSCBCHHHHHHHHHHHCGGGTTCTTCCTTSHHHHHHHHHHHHCTTEEEECCC--STTCCC
T ss_pred             CCCCCcCHHHHHHHHHHhCCCCCccHHHHHHHHHHhChhhhccCcccccccchhhHHHHhhHhhheeeCCCC--CCCCCc
Confidence            45678899999999999999999999999999999999999654     58999999999999999999875  569999


Q ss_pred             eEEeC
Q psy13925         86 YWALH   90 (344)
Q Consensus        86 ~W~l~   90 (344)
                      ||+||
T Consensus        81 ~W~i~   85 (85)
T d3bpya1          81 WWMLN   85 (85)
T ss_dssp             EEEEC
T ss_pred             eeecC
Confidence            99996

>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=90.23  E-value=0.12  Score=39.30  Aligned_cols=34  Identities=12%  Similarity=0.142  Sum_probs=30.2

Q ss_pred             CCHHHHHHHHHhcCC-CCCCCHHHHHHHHHhcCCC
Q psy13925         16 YSYISLTAMAIWSSP-EKMLPLSDIYRFIADRFPY   49 (344)
Q Consensus        16 ySYa~LIa~AI~sSP-~krLTLsEIYewI~~~fPY   49 (344)
                      .+|..||..||.+.. .+.-++..|-.||+.+||.
T Consensus         8 ~sy~~MI~eAI~~L~er~GsS~~aI~KyI~~~y~~   42 (88)
T d1ussa_           8 LTYKEMILKSMPQLNDGKGSSRIVLKKYVKDTFSS   42 (88)
T ss_dssp             CCHHHHHHHHHHHSCCTTSBCHHHHHHHHHHHTTT
T ss_pred             CCHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCc
Confidence            489999999999844 5788999999999999985

>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=88.18  E-value=0.19  Score=36.76  Aligned_cols=32  Identities=19%  Similarity=0.304  Sum_probs=28.3

Q ss_pred             CHHHHHHHHHhcCC-CCCCCHHHHHHHHHhcCC
Q psy13925         17 SYISLTAMAIWSSP-EKMLPLSDIYRFIADRFP   48 (344)
Q Consensus        17 SYa~LIa~AI~sSP-~krLTLsEIYewI~~~fP   48 (344)
                      +|.+||..||.+.. .+.-++..|..||+++|+
T Consensus         4 ~y~~MI~eAI~al~er~GsS~~AI~kyI~~~y~   36 (74)
T d1hsta_           4 TYSEMIAAAIRAEKSRGGSSRQSIQKYIKSHYK   36 (74)
T ss_dssp             CHHHHHHHHHHTCCCSSCEEHHHHHHHHHHHSC
T ss_pred             CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCC
Confidence            79999999999755 456799999999999986

>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=87.05  E-value=0.17  Score=38.52  Aligned_cols=33  Identities=21%  Similarity=0.311  Sum_probs=28.9

Q ss_pred             CCHHHHHHHHHhcC-CCCCCCHHHHHHHHHhcCC
Q psy13925         16 YSYISLTAMAIWSS-PEKMLPLSDIYRFIADRFP   48 (344)
Q Consensus        16 ySYa~LIa~AI~sS-P~krLTLsEIYewI~~~fP   48 (344)
                      -+|.+||..||... ..+..++..|..||+.+||
T Consensus         7 pty~~MI~eAI~~l~er~GsS~~aI~KyI~~~y~   40 (92)
T d1usta_           7 KSYRELIIEGLTALKERKGSSRPALKKFIKENYP   40 (92)
T ss_dssp             CCHHHHHHHHHTTTTTTSCEEHHHHHHHHHHHCH
T ss_pred             CCHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHCc
Confidence            39999999999864 4567799999999999998