RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15601
(144 letters)
>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 = 135 bits (341), Expect = 2e-42
Identities = 59/73 (80%), Positives = 67/73 (91%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLHKCFMRVENVKGAVWTV 60
+I+ES D+QLTLNEIY+WF TF YFRRNAATWKNAVRHNLSLHKCF+RVENVKGAVWTV
Sbjct: 15 AIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFVRVENVKGAVWTV 74
Query: 61 DEVEFYKRRPQRM 73
DEVE+ KRR Q++
Sbjct: 75 DEVEYQKRRSQKI 87
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR
{Rattus norvegicus} SCOP: a.4.5.14
Length = 109
Score = 92.8 bits (231), Expect = 1e-25
Identities = 30/85 (35%), Positives = 48/85 (56%), Gaps = 12/85 (14%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLHKCFMRV-----ENVKG 55
+I++SP K+LTL+ I + N F Y+R W+N++RHNLSL+ CF+++ KG
Sbjct: 15 AILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKG 74
Query: 56 AVWTVD-------EVEFYKRRPQRM 73
WT+D + + RR +R
Sbjct: 75 NYWTLDPQSEDMFDNGSFLRRRKRF 99
>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 = 92.3 bits (230), Expect = 1e-25
Identities = 31/84 (36%), Positives = 48/84 (57%), Gaps = 12/84 (14%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLHKCFMRV-----ENVKG 55
+I ++P K LTL+EIY W + F Y+R N W+N++RH+LS + CF++V + KG
Sbjct: 15 AIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCFVKVARSPDKPGKG 74
Query: 56 AVWTVD---EVEF----YKRRPQR 72
+ W + F Y RR +R
Sbjct: 75 SYWALHPSSGNMFENGCYLRRQKR 98
>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 = 91.9 bits (229), Expect = 1e-25
Identities = 30/83 (36%), Positives = 47/83 (56%), Gaps = 12/83 (14%)
Query: 2 IIESPDKQLTLNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLHKCFMRV-----ENVKGA 56
I++SP K+LTL+ I + N F Y+R W+N++RHNLSL+ CF+++ KG
Sbjct: 15 ILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGN 74
Query: 57 VWTVD-------EVEFYKRRPQR 72
WT+D + + RR +R
Sbjct: 75 YWTLDPQSEDMFDNGSFLRRRKR 97
>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 = 92.0 bits (229), Expect = 2e-25
Identities = 31/84 (36%), Positives = 48/84 (57%), Gaps = 12/84 (14%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLHKCFMRV-----ENVKG 55
+I +PDKQLTLN IY + Y+R W+N++RHNLSL++ F++V E KG
Sbjct: 28 AITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKG 87
Query: 56 AVWTVD---EVEF----YKRRPQR 72
+ W +D E + +++R R
Sbjct: 88 SFWRIDPASESKLIEQAFRKRRPR 111
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 92.2 bits (229), Expect = 5e-25
Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 10/82 (12%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFRRNAAT-WKNAVRHNLSLHKCFMRV--ENVKGAV 57
+I + K++TL +IY W ++ F YF+ A WKN++RHNLSLH F+R N K +
Sbjct: 30 AINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDMFVRETSANGKVSF 89
Query: 58 WTVD-------EVEFYKRRPQR 72
WT+ ++ +
Sbjct: 90 WTIHPSANRYLTLDQVFKPLDP 111
>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 = 90.0 bits (224), Expect = 1e-24
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 13/84 (15%)
Query: 2 IIESPDKQLTLNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLHKCFMRVE------NVKG 55
I +S +LTL EI + F +FR + W+N+VRHNLSL+ CF++V K
Sbjct: 15 IRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKD 74
Query: 56 AVWTVD---EVEF----YKRRPQR 72
W ++ E F ++RR R
Sbjct: 75 NYWMLNPNSEYTFADGVFRRRRYR 98
>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 = 88.9 bits (221), Expect = 2e-24
Identities = 28/69 (40%), Positives = 43/69 (62%), Gaps = 8/69 (11%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFR-----RNAATWKNAVRHNLSLHKCFMRVENV-- 53
+I +P+K+LTL +IY W T YF+ ++A WKN++RHNLSLH F++V N
Sbjct: 17 AIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEAT 76
Query: 54 -KGAVWTVD 61
K + W ++
Sbjct: 77 GKSSWWMLN 85
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 87.9 bits (218), Expect = 8e-24
Identities = 28/69 (40%), Positives = 43/69 (62%), Gaps = 8/69 (11%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFR-----RNAATWKNAVRHNLSLHKCFMRVENV-- 53
+I +P+K+LTL +IY W T YF+ ++A WKN++RHNLSLH F++V N
Sbjct: 36 AIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEAT 95
Query: 54 -KGAVWTVD 61
K + W ++
Sbjct: 96 GKSSWWMLN 104
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 88.5 bits (219), Expect = 2e-23
Identities = 30/85 (35%), Positives = 46/85 (54%), Gaps = 13/85 (15%)
Query: 2 IIESPDKQLTLNEIYNWFQNTFCYFR-----RNAATWKNAVRHNLSLHKCFMRV---ENV 53
I +P+K+LTL +IY W T YF+ ++A WKN++RHNLSLH F++V
Sbjct: 53 IESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATG 112
Query: 54 KGAVWTVD-----EVEFYKRRPQRM 73
K + W ++ + +RR M
Sbjct: 113 KSSWWMLNPEGGKSGKAPRRRAASM 137
>3coa_C Forkhead box protein O1; winged helix, forkhead domain, chromosomal
rearrangement; HET: DNA; 2.20A {Homo sapiens} PDB:
3co7_C* 2k86_A 2uzk_A
Length = 117
Score = 86.4 bits (214), Expect = 4e-23
Identities = 31/86 (36%), Positives = 49/86 (56%), Gaps = 13/86 (15%)
Query: 1 SIIESPDKQLTLNEIYNWFQNTFCYFR-----RNAATWKNAVRHNLSLHKCFMRVENV-- 53
+I S +K+LTL++IY W + YF+ ++A WKN++RHNLSLH F+RV+N
Sbjct: 23 AIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIRVQNEGT 82
Query: 54 -KGAVWTVD-----EVEFYKRRPQRM 73
K + W ++ + +RR M
Sbjct: 83 GKSSWWMLNPEGGKSGKSPRRRAASM 108
>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 = 29.8 bits (66), Expect = 0.29
Identities = 24/175 (13%), Positives = 54/175 (30%), Gaps = 47/175 (26%)
Query: 12 LNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLHKCFMRVENV-KGAVWTVDEVE-----F 65
L Y + + + + + + K V +
Sbjct: 87 LRINYKFLMSPIKT--EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL 144
Query: 66 YKRRPQR------ML-SGQTYLCTNVLCDTKTISDRFG----WLMMPNSSRDGT------ 108
+ RP + +L SG+T++ +V K + + WL + N + T
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYK-VQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 109 ----------SPVADQGSMTLFLHLSTYRTYLS----------ILLILINLKSNQ 143
+ +D S + L + + + L LL+L+N+++ +
Sbjct: 204 KLLYQIDPNWTSRSDH-SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK 257
Score = 25.6 bits (55), Expect = 8.1
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 3/38 (7%)
Query: 95 FGWLMMPNSSR-DGTSPVADQGSMTLFLHLSTYRTYLS 131
F +L R D T+ A + L Y+ Y+
Sbjct: 500 FRFL--EQKIRHDSTAWNASGSILNTLQQLKFYKPYIC 535
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.2 bits (65), Expect = 0.45
Identities = 24/162 (14%), Positives = 47/162 (29%), Gaps = 49/162 (30%)
Query: 6 PDKQLTLNEIYNWFQNTFCYFR------------RNAATWKNAVRHNLSLHKCFMRVENV 53
+ TL + +N Y N+A ++ N L F
Sbjct: 110 QENDTTLVKTKELIKN---YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF------ 160
Query: 54 KG-----AVWTVDE-VEFYKR-RP--QRMLSGQTYLCTNVLCDTKTISDRFG-------W 97
G + +E + Y+ ++ + ++ T F W
Sbjct: 161 -GGQGNTDDY-FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW 218
Query: 98 LMMPNSSRDG----TSPVADQGSMTL--FLHLSTYRTYLSIL 133
L P+++ D + P+ S L + L+ Y +L
Sbjct: 219 LENPSNTPDKDYLLSIPI----SCPLIGVIQLAHYVVTAKLL 256
Score = 28.1 bits (62), Expect = 1.2
Identities = 13/112 (11%), Positives = 37/112 (33%), Gaps = 14/112 (12%)
Query: 34 KNAVRHNLSLHKCFMRVENVKGAVWTVD-EVEFYKRRPQRMLSGQTYLCTNVLCDTKTIS 92
+ C++ ++ + E + + + ++ + Y+ ++
Sbjct: 85 NLCLTE---FENCYLEGNDIHALAAKLLQENDTTLVKTKELI--KNYITARIMAKRPFDK 139
Query: 93 DRFGWLMMPNSSRDGTSPVAD----QGSMTLFLH-L-STYRTYLSILLILIN 138
L + +G + + QG+ + L Y+TY ++ LI
Sbjct: 140 KSNSALF--RAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIK 189
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor,
homeodomain, domain swapping, structural oxford protein
production facility, OPPF; 2.70A {Homo sapiens}
Length = 66
Score = 24.8 bits (54), Expect = 4.3
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 7/30 (23%)
Query: 10 LTLNEIYNWFQNTFCYFRRNAATWKNAVRH 39
L +EI WF + R + + H
Sbjct: 43 LARSEIKKWFSD-----HR--YRCQRGIVH 65
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor,
homeodomain, structural genomics, oxford production
facility, OPPF, transcription; 2.60A {Homo sapiens}
Length = 96
Score = 25.1 bits (54), Expect = 4.7
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 10 LTLNEIYNWFQNTFCYFRRNAATW 33
L +I +WF +T ++ W
Sbjct: 64 LARTDIVSWFGDTRYAWKNGNLKW 87
>3jqq_A Ferredoxin NADP reductase; FAD, oxidoreductase; HET: FAD A2P; 2.20A
{Plasmodium falciparum} PDB: 2ok8_A* 2ok7_A* 3jqr_A*
3jqp_A*
Length = 316
Score = 25.5 bits (56), Expect = 6.6
Identities = 8/58 (13%), Positives = 20/58 (34%), Gaps = 8/58 (13%)
Query: 59 TVDEVEFYKRRPQRMLSGQTYLCTNVLCDTKT-----ISDRFGWLMMPNSSRDGTSPV 111
+ + E + P G C+ + + K ++ G+ +PN + +
Sbjct: 119 KIHKYEQTENAPNITNYG---YCSGFIKNLKINDDIYLTGAHGYFNLPNDAIQKNTNF 173
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein,
KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 76
Score = 24.3 bits (53), Expect = 7.3
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 7/30 (23%)
Query: 10 LTLNEIYNWFQNTFCYFRRNAATWKNAVRH 39
L+ E+ WF + RR +N
Sbjct: 47 LSTREVRKWFSD-----RR--YHCRNLKGS 69
>2khv_A Phage integrase; solution structure, GFT, NESG, structural
genomics, unknown function, PSI-2, protein structure
initiative; NMR {Nitrosospira multiformis atcc 25196}
Length = 106
Score = 24.9 bits (54), Expect = 7.5
Identities = 6/33 (18%), Positives = 12/33 (36%)
Query: 12 LNEIYNWFQNTFCYFRRNAATWKNAVRHNLSLH 44
+ + +W N A W+ + H+ H
Sbjct: 74 IESVLDWATVRGYREGDNPARWRGYLEHHHHHH 106
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription
factor, structural genomics, loop insertion, NPPSFA;
NMR {Homo sapiens} SCOP: a.4.1.1
Length = 95
Score = 24.6 bits (53), Expect = 8.4
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 5 SPDKQLTLNEIYNWFQN 21
S +++T ++YNWF N
Sbjct: 56 SDLERVTSLKVYNWFAN 72
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain,
transcription factor, leucine zipper- containing
factor, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: a.4.1.1
Length = 76
Score = 24.2 bits (52), Expect = 9.9
Identities = 7/24 (29%), Positives = 9/24 (37%)
Query: 10 LTLNEIYNWFQNTFCYFRRNAATW 33
L EI WF +T + W
Sbjct: 42 LPRPEIIQWFGDTRYALKHGQLKW 65
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
0.323 0.134 0.424
Gapped
Lambda K H
0.267 0.0646 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,079,079
Number of extensions: 103121
Number of successful extensions: 232
Number of sequences better than 10.0: 1
Number of HSP's gapped: 227
Number of HSP's successfully gapped: 28
Length of query: 144
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 59
Effective length of database: 4,328,508
Effective search space: 255381972
Effective search space used: 255381972
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.0 bits)