RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11227
(148 letters)
>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 = 188 bits (480), Expect = 2e-63
Identities = 54/101 (53%), Positives = 73/101 (72%), Gaps = 1/101 (0%)
Query: 26 EKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGPYQGWKNSIRHNLSLNECF 85
KPPYSYI+LI MAIQ +P K LTLSEIY ++ FP++R Q W+NSIRH+LS N+CF
Sbjct: 2 AKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCF 61
Query: 86 LKLPKALGRPGKGHYWTVDPDSQLMFEEGSFRRRPRGKFKV 126
+K+ ++ +PGKG YW + P S MFE G + RR + +FK+
Sbjct: 62 VKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQK-RFKL 101
>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 = 186 bits (475), Expect = 1e-62
Identities = 48/109 (44%), Positives = 71/109 (65%)
Query: 13 SGSVEKKKCTRRAEKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGPYQGWK 72
S + ++ KPPYSY LIV AI +P K+LTL+ IY+ + + +P++R +GW+
Sbjct: 2 SMTGGQQMGRGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQ 61
Query: 73 NSIRHNLSLNECFLKLPKALGRPGKGHYWTVDPDSQLMFEEGSFRRRPR 121
NSIRHNLSLN F+K+P++ PGKG +W +DP S+ E +FR+R
Sbjct: 62 NSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRP 110
>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 = 185 bits (472), Expect = 2e-62
Identities = 59/95 (62%), Positives = 73/95 (76%)
Query: 27 KPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGPYQGWKNSIRHNLSLNECFL 86
KPPYSYIALI MAI SP KKLTLS I F+ FP++R + W+NSIRHNLSLN+CF+
Sbjct: 2 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 87 KLPKALGRPGKGHYWTVDPDSQLMFEEGSFRRRPR 121
K+P+ G PGKG+YWT+DP S+ MF+ GSF RR +
Sbjct: 62 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRK 96
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus
norvegicus} SCOP: a.4.5.14
Length = 109
Score = 185 bits (472), Expect = 3e-62
Identities = 61/101 (60%), Positives = 76/101 (75%), Gaps = 1/101 (0%)
Query: 27 KPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGPYQGWKNSIRHNLSLNECFL 86
KPPYSYIALI MAI SP KKLTLS I F+ FP++R + W+NSIRHNLSLN+CF+
Sbjct: 3 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62
Query: 87 KLPKALGRPGKGHYWTVDPDSQLMFEEGSFRRRPRGKFKVE 127
K+P+ G PGKG+YWT+DP S+ MF+ GSF RR + +FK
Sbjct: 63 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRK-RFKRL 102
>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 = 180 bits (458), Expect = 3e-60
Identities = 55/96 (57%), Positives = 71/96 (73%), Gaps = 1/96 (1%)
Query: 27 KPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGPYQGWKNSIRHNLSLNECFL 86
KPPYSYIALI MAI+ S +LTL+EI +L FPFFRG Y GW+NS+RHNLSLN+CF+
Sbjct: 2 KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 87 KLPKALGRP-GKGHYWTVDPDSQLMFEEGSFRRRPR 121
K+ + RP GK +YW ++P+S+ F +G FRRR
Sbjct: 62 KVLRDPSRPWGKDNYWMLNPNSEYTFADGVFRRRRY 97
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 161 bits (408), Expect = 4e-52
Identities = 37/101 (36%), Positives = 59/101 (58%), Gaps = 4/101 (3%)
Query: 22 TRRAEKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGP-YQGWKNSIRHNLS 80
+E+PPYSY+A+I AI S+ K++TL +IY++++ FP+F+ GWKNSIRHNLS
Sbjct: 13 NSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLS 72
Query: 81 LNECFLKLPKALGRPGKGHYWTVDPDSQLMFEEGSFRRRPR 121
L++ F++ GK +WT+ P + +
Sbjct: 73 LHDMFVRET---SANGKVSFWTIHPSANRYLTLDQVFKPLD 110
>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 = 151 bits (384), Expect = 1e-48
Identities = 40/109 (36%), Positives = 58/109 (53%), Gaps = 10/109 (9%)
Query: 18 KKKCTRRAEKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFR-----GPYQGWK 72
K +RR SY LI AI+SS K+LTLS+IY ++ + P+F+ GWK
Sbjct: 2 KSSSSRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWK 61
Query: 73 NSIRHNLSLNECFLKLPKALGRPGKGHYWTVDPDSQLMFEEGSFRRRPR 121
NSIRHNLSL+ F+++ GK +W ++P+ + G RR
Sbjct: 62 NSIRHNLSLHSKFIRVQN--EGTGKSSWWMLNPEG---GKSGKSPRRRA 105
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 152 bits (386), Expect = 1e-48
Identities = 40/121 (33%), Positives = 63/121 (52%), Gaps = 10/121 (8%)
Query: 4 NNVNNNANNSGSVEKKKCTRRAEKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPF 63
+ + + +K +RR SY LI AI+S+P K+LTL++IY ++ + P+
Sbjct: 17 GSHMLEDPGAVTGPRKGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPY 76
Query: 64 FR-----GPYQGWKNSIRHNLSLNECFLKLPKALGRPGKGHYWTVDPDSQLMFEEGSFRR 118
F+ GWKNSIRHNLSL+ F+K+ GK +W ++P+ + G R
Sbjct: 77 FKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHN--EATGKSSWWMLNPEG---GKSGKAPR 131
Query: 119 R 119
R
Sbjct: 132 R 132
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 149 bits (379), Expect = 5e-48
Identities = 37/95 (38%), Positives = 56/95 (58%), Gaps = 7/95 (7%)
Query: 18 KKKCTRRAEKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFR-----GPYQGWK 72
+K +RR SY LI AI+S+P K+LTL++IY ++ + P+F+ GWK
Sbjct: 15 RKGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWK 74
Query: 73 NSIRHNLSLNECFLKLPKALGRPGKGHYWTVDPDS 107
NSIRHNLSL+ F+K+ GK +W ++P+
Sbjct: 75 NSIRHNLSLHSKFIKVHN--EATGKSSWWMLNPEG 107
>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 = 148 bits (375), Expect = 1e-47
Identities = 37/97 (38%), Positives = 55/97 (56%), Gaps = 12/97 (12%)
Query: 27 KPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGPYQGWKNSIRHNLSLNECFL 86
+PP++Y LI AI S ++LTL+EIYS+ + F +FR WKN++RHNLSL++CF+
Sbjct: 3 RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 62
Query: 87 KLPKALGRPGKGHYWTVDPDSQLMFEEGSFRRRPRGK 123
++ KG WTVD +RR +
Sbjct: 63 RVE-----NVKGAVWTVDEVEYQ-------KRRSQKI 87
>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 (365), Expect = 3e-46
Identities = 35/87 (40%), Positives = 51/87 (58%), Gaps = 7/87 (8%)
Query: 23 RRAEKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFR-----GPYQGWKNSIRH 77
RR SY LI AI+S+P K+LTL++IY ++ + P+F+ GWKNSIRH
Sbjct: 1 RRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRH 60
Query: 78 NLSLNECFLKLPKALGRPGKGHYWTVD 104
NLSL+ F+K+ GK +W ++
Sbjct: 61 NLSLHSKFIKVHN--EATGKSSWWMLN 85
>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 = 28.3 bits (62), Expect = 1.3
Identities = 17/109 (15%), Positives = 36/109 (33%), Gaps = 26/109 (23%)
Query: 25 AEKPPYSYIALIVMAIQSSPCKKLTLSEIYSFLQQGFPFFRGPYQGWKNSIRHNLSLNEC 84
+ Y ++ I++ + ++ +Y +Q + + ++N+S +
Sbjct: 86 VLRINYKFLM---SPIKTEQRQPSMMTRMYI--EQRDRLYNDN----QVFAKYNVSRLQP 136
Query: 85 FLKLPKAL------------GRPGKGHYWTV-----DPDSQLMFEEGSF 116
+LKL +AL G G G W Q + F
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
>1q14_A HST2 protein; histone deacetylase, hydrolase; 2.50A {Saccharomyces
cerevisiae} SCOP: c.31.1.5
Length = 361
Score = 25.7 bits (56), Expect = 6.5
Identities = 13/63 (20%), Positives = 18/63 (28%), Gaps = 26/63 (41%)
Query: 60 GFPFFRGPYQG-WKNSIRHNLSLNECFLKLPKALGRPGKGHYWTVDPDSQLMFEEGSFRR 118
G P FR P G + N R L P + +F+ F+
Sbjct: 44 GIPDFRSPGTGLYHNLARLKL-------------------------PYPEAVFDVDFFQS 78
Query: 119 RPR 121
P
Sbjct: 79 DPL 81
>1ovm_A Indole-3-pyruvate decarboxylase; thiamine diphosphate,
indole-3-acetic acid, TDP dependent enzyme, lyase; HET:
TPP; 2.65A {Enterobacter cloacae} SCOP: c.31.1.3
c.36.1.5 c.36.1.9
Length = 552
Score = 25.6 bits (57), Expect = 7.4
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 5/51 (9%)
Query: 85 FLKLPKALGRPGKGHYWTVDPDSQL--MFEEGSFRRRPRGKFKVEVQLGTM 133
+ +P+AL + W V QL + E+ R +EV L
Sbjct: 486 WTHIPQALSLDPQSECWRVSEAEQLADVLEK--VAHHERLSL-IEVMLPKA 533
>3glr_A NAD-dependent deacetylase sirtuin-3, mitochondria; NAD dependent
deacetylase, sirtuin, substrate peptide comple
hydrolase, metal-binding; HET: ALY; 1.80A {Homo sapiens}
PDB: 3gls_A 3glt_A* 3glu_A
Length = 285
Score = 25.4 bits (56), Expect = 7.5
Identities = 14/67 (20%), Positives = 21/67 (31%), Gaps = 26/67 (38%)
Query: 60 GFPFFRGPYQG-WKNSIRHNLSLNECFLKLPKALGRPGKGHYWTVDPDSQLMFEEGSFRR 118
G P FR P G + N +++L P + +FE F
Sbjct: 39 GIPDFRSPGSGLYSNLQQYDL-------------------------PYPEAIFELPFFFH 73
Query: 119 RPRGKFK 125
P+ F
Sbjct: 74 NPKPFFT 80
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.136 0.418
Gapped
Lambda K H
0.267 0.0654 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,225,256
Number of extensions: 119643
Number of successful extensions: 141
Number of sequences better than 10.0: 1
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 16
Length of query: 148
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 63
Effective length of database: 4,328,508
Effective search space: 272696004
Effective search space used: 272696004
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.3 bits)