RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14921
(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 = 143 bits (363), Expect = 1e-45
Identities = 46/74 (62%), Positives = 53/74 (71%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYREANAGWKNSIRHNLSLNKCFTKVAR 74
SY SLI +AI AP +TL+EIYQ+I FPYYRE W+NSIRH+LS N CF KVAR
Sbjct: 7 SYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCFVKVAR 66
Query: 75 PKDDPGKGSYWAID 88
D PGKGSYWA+
Sbjct: 67 SPDKPGKGSYWALH 80
>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 = 143 bits (362), Expect = 1e-45
Identities = 41/77 (53%), Positives = 55/77 (71%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYREANAGWKNSIRHNLSLNKCFTKVAR 74
SY +LI +AI +PQ ++TL+ I +FI++ FPYYRE W+NSIRHNLSLN CF K+ R
Sbjct: 6 SYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPR 65
Query: 75 PKDDPGKGSYWAIDYNH 91
+PGKG+YW +D
Sbjct: 66 EPGNPGKGNYWTLDPQS 82
>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 = 143 bits (362), Expect = 2e-45
Identities = 45/77 (58%), Positives = 56/77 (72%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYREANAGWKNSIRHNLSLNKCFTKVAR 74
SYA LI AI+ AP ++TLN IY IT +PYYR A+ GW+NSIRHNLSLN+ F KV R
Sbjct: 20 SYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPR 79
Query: 75 PKDDPGKGSYWAIDYNH 91
+++PGKGS+W ID
Sbjct: 80 SQEEPGKGSFWRIDPAS 96
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR
{Rattus norvegicus} SCOP: a.4.5.14
Length = 109
Score = 142 bits (359), Expect = 5e-45
Identities = 41/77 (53%), Positives = 55/77 (71%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYREANAGWKNSIRHNLSLNKCFTKVAR 74
SY +LI +AI +PQ ++TL+ I +FI++ FPYYRE W+NSIRHNLSLN CF K+ R
Sbjct: 7 SYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPR 66
Query: 75 PKDDPGKGSYWAIDYNH 91
+PGKG+YW +D
Sbjct: 67 EPGNPGKGNYWTLDPQS 83
>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 = 135 bits (341), Expect = 2e-42
Identities = 37/78 (47%), Positives = 53/78 (67%), Gaps = 1/78 (1%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYREANAGWKNSIRHNLSLNKCFTKVAR 74
SY +LI +AI ++ GR+TL EI +++ FP++R + GW+NS+RHNLSLN CF KV R
Sbjct: 6 SYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLR 65
Query: 75 PKDDP-GKGSYWAIDYNH 91
P GK +YW ++ N
Sbjct: 66 DPSRPWGKDNYWMLNPNS 83
>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 = 130 bits (328), Expect = 1e-40
Identities = 36/74 (48%), Positives = 49/74 (66%), Gaps = 5/74 (6%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYREANAGWKNSIRHNLSLNKCFTKVAR 74
+YA+LIR AI + ++TLNEIY + T TF Y+R A WKN++RHNLSL+KCF +V
Sbjct: 7 TYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVEN 66
Query: 75 PKDDPGKGSYWAID 88
KG+ W +D
Sbjct: 67 -----VKGAVWTVD 75
>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 = 128 bits (324), Expect = 5e-40
Identities = 37/79 (46%), Positives = 54/79 (68%), Gaps = 7/79 (8%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYRE-----ANAGWKNSIRHNLSLNKCF 69
SYA LI AI +AP+ R+TL +IY+++ T PY+++ ++AGWKNSIRHNLSL+ F
Sbjct: 9 SYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 68
Query: 70 TKVARPKDDPGKGSYWAID 88
KV + GK S+W ++
Sbjct: 69 IKV--HNEATGKSSWWMLN 85
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 127 bits (321), Expect = 6e-39
Identities = 40/124 (32%), Positives = 59/124 (47%), Gaps = 4/124 (3%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYREAN-AGWKNSIRHNLSLNKCFTKVA 73
SY ++I+ AI++ + RMTL +IY +I FPY++ GWKNSIRHNLSL+ F
Sbjct: 22 SYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDMFV--- 78
Query: 74 RPKDDPGKGSYWAIDYNHTADDGPSKKKVKLPRVSPYSPVECNNSNSSSDVHNSKPPTSI 133
R GK S+W I + + L SP P + + + T
Sbjct: 79 RETSANGKVSFWTIHPSANRYLTLDQVFKPLDPGSPQLPEHLESQQKRPNPELRRNMTIK 138
Query: 134 SSVP 137
+ +P
Sbjct: 139 TELP 142
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 124 bits (313), Expect = 4e-38
Identities = 37/79 (46%), Positives = 54/79 (68%), Gaps = 7/79 (8%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYRE-----ANAGWKNSIRHNLSLNKCF 69
SYA LI AI +AP+ R+TL +IY+++ T PY+++ ++AGWKNSIRHNLSL+ F
Sbjct: 28 SYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 87
Query: 70 TKVARPKDDPGKGSYWAID 88
KV + GK S+W ++
Sbjct: 88 IKV--HNEATGKSSWWMLN 104
>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 = 119 bits (299), Expect = 7e-36
Identities = 35/92 (38%), Positives = 58/92 (63%), Gaps = 8/92 (8%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYRE-----ANAGWKNSIRHNLSLNKCF 69
SYA LI AI ++ + R+TL++IY+++ + PY+++ ++AGWKNSIRHNLSL+ F
Sbjct: 15 SYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 74
Query: 70 TKVARPKDDPGKGSYWAIDYNHTADDGPSKKK 101
+V + GK S+W ++ G S ++
Sbjct: 75 IRV--QNEGTGKSSWWMLNPEG-GKSGKSPRR 103
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 117 bits (295), Expect = 6e-35
Identities = 37/81 (45%), Positives = 54/81 (66%), Gaps = 7/81 (8%)
Query: 15 SYASLIRLAISNAPQGRMTLNEIYQFITHTFPYYRE-----ANAGWKNSIRHNLSLNKCF 69
SYA LI AI +AP+ R+TL +IY+++ T PY+++ ++AGWKNSIRHNLSL+ F
Sbjct: 44 SYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 103
Query: 70 TKVARPKDDPGKGSYWAIDYN 90
KV + GK S+W ++
Sbjct: 104 IKV--HNEATGKSSWWMLNPE 122
>3g9x_A Haloalkane dehalogenase; alpha/beta hydrolase, helical CAP domain,
catalytic triad (A His272, Glu130), mutant, I135F,
haloalkanes; 0.95A {Rhodococcus SP} PDB: 3fwh_A 3fbw_A
3rlt_A 3rk4_A 1bn6_A 1bn7_A 1cqw_A 2v9z_A
Length = 299
Score = 26.1 bits (58), Expect = 5.4
Identities = 12/59 (20%), Positives = 20/59 (33%)
Query: 21 RLAISNAPQGRMTLNEIYQFITHTFPYYREANAGWKNSIRHNLSLNKCFTKVARPKDDP 79
+A + T +E +F TF +R A+ G + I N + K
Sbjct: 125 GIACMEFIRPFPTWDEWPEFARETFQAFRTADVGRELIIDQNAFIEGALPKCVVRPLTE 183
>2vhw_A Alanine dehydrogenase; NAD, secreted, oxidoreductase; HET: NAI;
2.0A {Mycobacterium tuberculosis} PDB: 2vhx_A* 2vhy_A
2vhz_A* 2vhv_A* 2voe_A 2voj_A*
Length = 377
Score = 25.9 bits (58), Expect = 5.4
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 44 TFPYYRE-ANAGWKNSIRHNLSLNK 67
T PY E A+ GW+ + R N +L K
Sbjct: 317 TMPYVLELADHGWRAACRSNPALAK 341
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
0.314 0.129 0.397
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: 2,108,193
Number of extensions: 107537
Number of successful extensions: 151
Number of sequences better than 10.0: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 14
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 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.3 bits)