RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5907
(56 letters)
>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of
chromatin subfamily...; structural DNA-binding protein
BRAF35, DNA-bending; NMR {Mus musculus}
Length = 92
Score = 60.9 bits (148), Expect = 8e-15
Identities = 16/53 (30%), Positives = 31/53 (58%)
Query: 1 MPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y+R+ + +Q++ ++ DL EI K++G W L +K Y+++ E+EK
Sbjct: 13 TGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQPAEKQRYLDEAEKEK 65
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box
domain, structural genomics, NPPSFA; NMR {Mus musculus}
Length = 102
Score = 56.3 bits (136), Expect = 9e-13
Identities = 17/52 (32%), Positives = 24/52 (46%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y + R +K QN + E+ KI+ MW L E+QK Y + E K
Sbjct: 24 AYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQVYKKKTEAAK 75
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding
protein; NMR {Homo sapiens} SCOP: a.21.1.1
Length = 99
Score = 55.1 bits (133), Expect = 2e-12
Identities = 13/52 (25%), Positives = 33/52 (63%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
PY R+ + + + ++ ++ KI+ + +++LPE +K +Y++D+++EK
Sbjct: 17 PYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQREK 68
>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA
recognition, chromatin, DNA binding protein; NMR
{Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A
1lwm_A
Length = 93
Score = 50.8 bits (122), Expect = 1e-10
Identities = 14/52 (26%), Positives = 30/52 (57%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
YM ++ + D V+++N D+ ++GK +G+ W+ L ++K Y + +K
Sbjct: 27 AYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPEEKQPYEAKAQADK 78
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 49.0 bits (117), Expect = 4e-10
Identities = 10/52 (19%), Positives = 22/52 (42%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+ + Q +N L + I ++W+ L E++K +Y E ++
Sbjct: 14 ASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSEEEKLKYEEKATKDL 65
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A
1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A
Length = 77
Score = 48.4 bits (116), Expect = 6e-10
Identities = 10/52 (19%), Positives = 25/52 (48%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+ + + ++K ++ L + ++ K +G+MW + D K Y + + K
Sbjct: 13 AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLK 64
>2yrq_A High mobility group protein B1; HMG box domain, DNA binding,
helix-turn-helix motif, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 173
Score = 48.8 bits (116), Expect = 3e-09
Identities = 10/52 (19%), Positives = 25/52 (48%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+ + + ++K ++ L + ++ K +G+MW + D K Y + + K
Sbjct: 108 AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLK 159
Score = 34.6 bits (79), Expect = 4e-04
Identities = 8/54 (14%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLW--EIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y + + ++ K ++ D + E K + W+ + +K ++ + + +K
Sbjct: 22 SYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADK 75
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: a.21.1.1
Length = 90
Score = 46.2 bits (110), Expect = 5e-09
Identities = 12/51 (23%), Positives = 25/51 (49%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+S + Q++ + +L E+ +++ +MW DL E +K +Y K
Sbjct: 28 MFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEKKKAKYKAREAALK 78
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group,
transcription, LSP1, mitochon transcription-DNA
complex; HET: DNA; 2.50A {Homo sapiens}
Length = 238
Score = 47.9 bits (113), Expect = 9e-09
Identities = 20/52 (38%), Positives = 30/52 (57%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y+R+S++ KAQN D K E+ + I Q WR+LP+ +K Y + Y E
Sbjct: 48 SYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDSKKKIYQDAYRAEW 99
Score = 39.0 bits (90), Expect = 1e-05
Identities = 9/54 (16%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 1 MPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEKI 54
Y Y + + + K + E K + + W++L + +K Y++ ++++
Sbjct: 152 SAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDSEKELYIQHAKEDET 201
>3tq6_A Transcription factor A, mitochondrial; transcription,
transcription regulation, mitochondrion; HET: DNA BRU
1PE; 2.45A {Homo sapiens}
Length = 214
Score = 47.4 bits (112), Expect = 1e-08
Identities = 20/52 (38%), Positives = 30/52 (57%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y+R+S++ KAQN D K E+ + I Q WR+LP+ +K Y + Y E
Sbjct: 16 SYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDSKKKIYQDAYRAEW 67
Score = 37.0 bits (85), Expect = 6e-05
Identities = 9/54 (16%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 1 MPYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEKI 54
Y Y + + + K + E K + + W++L + +K Y++ ++++
Sbjct: 120 SAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDSEKELYIQHAKEDET 169
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 44.6 bits (106), Expect = 2e-08
Identities = 9/54 (16%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKL--WEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y + + ++ K +N ++ + E K + W+ + +K+++ E + +K
Sbjct: 22 AYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKFDEMAKADK 75
>3nm9_A HMG-D, high mobility group protein D; DNA bending,
non-sequence-specific, HMG chromosomal protein; HET:
DNA; 2.85A {Drosophila melanogaster} PDB: 1e7j_A*
1hma_A 1qrv_A*
Length = 73
Score = 43.8 bits (104), Expect = 3e-08
Identities = 12/52 (23%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y + + +K +N +K+ E+ K G++WR + K+E+ + K
Sbjct: 10 AYALWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAK 59
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 43.8 bits (104), Expect = 5e-08
Identities = 8/54 (14%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLW--EIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y + + ++ K ++ D + E K + W+ + +K ++ + + +K
Sbjct: 14 SYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADK 67
>1ckt_A High mobility group 1 protein; high-mobility group domain, BENT
DNA, protein-drug-DNA compl regulation-DNA complex;
HET: DNA 5IU; 2.50A {Rattus norvegicus} SCOP: a.21.1.1
PDB: 1j3x_A
Length = 71
Score = 42.8 bits (101), Expect = 7e-08
Identities = 8/54 (14%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKL--WEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y + + ++ K ++ D + E K + W+ + +K ++ + + +K
Sbjct: 8 SYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADK 61
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding
protein; NMR {Drosophila melanogaster}
Length = 73
Score = 43.0 bits (102), Expect = 8e-08
Identities = 13/52 (25%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M + + +K +N +K+ EI K G+MW++L + K+++ + ++K
Sbjct: 10 AFMLWLNDTRESIKRENPGIKVTEIAKKGGEMWKELKD--KSKWEDAAAKDK 59
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG
BOX, amphoterin, DNA/structural protein complex; NMR
{Homo sapiens} SCOP: a.21.1.1 a.21.1.1
Length = 159
Score = 43.3 bits (102), Expect = 2e-07
Identities = 11/52 (21%), Positives = 28/52 (53%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
++ +SR ++ +N ++ EI K +G W+ L E +K + ++ ++ +
Sbjct: 11 AFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQ 62
Score = 39.8 bits (93), Expect = 4e-06
Identities = 10/52 (19%), Positives = 25/52 (48%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+ + + ++K ++ L + ++ K +G+MW + D K Y + + K
Sbjct: 95 AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLK 146
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 42.0 bits (99), Expect = 3e-07
Identities = 13/53 (24%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 3 YMRYSRKVWDQVKAQNLDL--KLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
YM ++++ ++ A+N ++ + IGK+IG W L +++K Y ++++
Sbjct: 30 YMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALSDEEKKPYERMSDEDR 82
>2lef_A LEF-1 HMG, protein (lymphoid enhancer-binding factor); LEF1, HMG,
TCR-A, transcription factor; HET: DNA; NMR {Mus
musculus} SCOP: a.21.1.1
Length = 86
Score = 41.4 bits (98), Expect = 3e-07
Identities = 12/51 (23%), Positives = 28/51 (54%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M Y +++ V A++ + I +I+G+ W L +++ +Y E +E+
Sbjct: 10 FMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKER 60
>1v63_A Nucleolar transcription factor 1; DNA binding, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, DNA binding protein; NMR {Mus
musculus} SCOP: a.21.1.1
Length = 101
Score = 41.4 bits (97), Expect = 6e-07
Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y ++S+++ + +L LK E IG W+ + + QK Y + E+++
Sbjct: 15 GYQKFSQELLSNGELNHLPLK--ERMVEIGSRWQRISQSQKEHYKKLAEEQQ 64
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX
domain, structural genomics, NPPSFA, riken structural
genomics/proteomics initiative; NMR {Mus musculus}
Length = 82
Score = 40.7 bits (96), Expect = 8e-07
Identities = 9/51 (17%), Positives = 23/51 (45%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
++ + ++ V+ ++ L KI+ W L +K +Y + ++ K
Sbjct: 15 FLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDPKEKQKYTDMAKEYK 65
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial
transcription, activator, DNA- binding, mitochondrion,
phosphoprotein; 1.35A {Homo sapiens}
Length = 67
Score = 40.0 bits (94), Expect = 9e-07
Identities = 9/53 (16%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEKI 54
Y Y + + + K + E K + + W++L + +K Y++ ++++
Sbjct: 9 AYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDSEKELYIQHAKEDET 57
>1hry_A Human SRY; DNA, DNA-binding protein, DNA binding protein/DNA
complex; HET: DNA; NMR {Homo sapiens} SCOP: a.21.1.1
PDB: 1hrz_A*
Length = 76
Score = 40.2 bits (95), Expect = 1e-06
Identities = 11/52 (21%), Positives = 28/52 (53%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
++ +SR ++ +N ++ EI K +G W+ L E +K + ++ ++ +
Sbjct: 11 AFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQ 62
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box
transcription factor 1, high mobility group box
transcription factor 1, structural genomics; NMR {Homo
sapiens}
Length = 87
Score = 40.5 bits (95), Expect = 1e-06
Identities = 7/51 (13%), Positives = 20/51 (39%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M +++K + I I+G W+ + +++ Y + +
Sbjct: 25 FMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMKNEERRMYTLEAKALA 75
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional
regulation, transcription-DNA CO; HET: DNA; 2.40A {Mus
musculus}
Length = 79
Score = 39.9 bits (94), Expect = 1e-06
Identities = 12/52 (23%), Positives = 29/52 (55%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M +S+ ++ Q+ D+ EI K +G+ W+ L + K ++++ E+ +
Sbjct: 9 AFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLKDSDKIPFIQEAERLR 60
>1j46_A SRY, sex-determining region Y protein; MALE sex determining
factor, SRY, sex-reversal mutation; NMR {Homo sapiens}
SCOP: a.21.1.1 PDB: 1j47_A
Length = 85
Score = 39.5 bits (93), Expect = 2e-06
Identities = 11/52 (21%), Positives = 28/52 (53%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
++ +SR ++ +N ++ EI K +G W+ L E +K + ++ ++ +
Sbjct: 11 AFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQ 62
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens}
Length = 71
Score = 39.1 bits (92), Expect = 2e-06
Identities = 14/51 (27%), Positives = 30/51 (58%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M +++ ++ QN DL E+ K++G+ W+ L +K +VE+ E+ +
Sbjct: 10 FMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLR 60
>1i11_A Transcription factor SOX-5; HMG BOX, DNA bending, DNA
recognition, chromatin, DNA binding protein, DNA
sequence specific, testis determining.; NMR {Mus
musculus} SCOP: a.21.1.1
Length = 81
Score = 38.3 bits (90), Expect = 5e-06
Identities = 10/52 (19%), Positives = 23/52 (44%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M +++ ++ D+ I KI+G W+ + +K Y E+ +
Sbjct: 11 AFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNLEKQPYYEEQARLS 62
>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain,
activator, DNA-binding, NUC transcription; HET: DNA;
2.77A {Homo sapiens}
Length = 106
Score = 38.5 bits (90), Expect = 7e-06
Identities = 14/51 (27%), Positives = 29/51 (56%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M +++ ++ Q L E+ K +G++WR L E +K +VE+ E+ +
Sbjct: 37 FMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLNESEKRPFVEEAERLR 87
>3f27_D Transcription factor SOX-17; protein-DNA complex, HMG domain,
endodermal, activator, DNA- nucleus, transcription
regulation, transcrip complex; HET: DNA; 2.75A {Mus
musculus} PDB: 2yul_A
Length = 83
Score = 37.6 bits (88), Expect = 1e-05
Identities = 14/51 (27%), Positives = 30/51 (58%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M +++ ++ QN DL E+ K++G+ W+ L +K +VE+ E+ +
Sbjct: 14 FMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLR 64
>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus
musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B
Length = 80
Score = 36.4 bits (85), Expect = 3e-05
Identities = 12/51 (23%), Positives = 28/51 (54%)
Query: 3 YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+M +SR ++ +N + EI K +G W+ L E +K ++++ ++ +
Sbjct: 10 FMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLR 60
>1v64_A Nucleolar transcription factor 1; DNA binding, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1
Length = 108
Score = 35.0 bits (80), Expect = 2e-04
Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 2 PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
Y Y ++ +K D+ E + Q W+ L + +K Y + +Q+K
Sbjct: 24 SYSLYCAELMANMK----DVPSTERMVLCSQQWKLLSQKEKDAYHKKCDQKK 71
>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 = 30.4 bits (68), Expect = 0.018
Identities = 14/73 (19%), Positives = 24/73 (32%), Gaps = 19/73 (26%)
Query: 3 YMRYS--RKVWDQVKAQNLDLKLWEIGKII---------------GQMWRDLPEDQKTEY 45
Y + VW++ D + I I+ G+ R+ E
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET 1695
Query: 46 VED--YEQEKIYK 56
+ D + EKI+K
Sbjct: 1696 IVDGKLKTEKIFK 1708
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural
genomics, protein structure initiative; 1.42A {Listeria
monocytogenes str} PDB: 3bqt_A 3mab_A
Length = 93
Score = 26.7 bits (59), Expect = 0.22
Identities = 9/54 (16%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 7 SRKVWDQVKAQNLDL---KLWEI-GKIIGQMWRDLPEDQKTEYVEDYEQEKIYK 56
S++ + ++ + + +L+ + G + G W L E +K E + ++ + +
Sbjct: 36 SKEAFLRIWENDSSVCMSELYALEGAVQGIRWHGLDEAKKIELKKFHQSLEGHH 89
>2d7l_A WD repeat and HMG-box DNA binding protein 1; high mobility group
box domain, helix-turn-helix, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 26.7 bits (58), Expect = 0.24
Identities = 7/52 (13%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 3 YMRYSRKVWDQVKAQNLDLK-LWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
+ + + + + N D +I K +R L +++ + + E
Sbjct: 13 FQMWLEENRSNILSDNPDFSDEADIIKEGMIRFRVLSTEERKVWANKAKGET 64
>2qgu_A Probable signal peptide protein; NESG, RSR89, Q8XV73, structural
genomics, PSI-2, protein STR initiative; HET: MSE PEF;
1.50A {Ralstonia solanacearum}
Length = 211
Score = 24.1 bits (52), Expect = 2.8
Identities = 3/23 (13%), Positives = 11/23 (47%)
Query: 29 IIGQMWRDLPEDQKTEYVEDYEQ 51
+G+ W +Q+ + + ++
Sbjct: 81 AMGRFWSQATPEQQQQIQDGFKS 103
>3ig2_A Phenylalanyl-tRNA synthetase beta chain; phers, MCSG, structural
genomics, midwest center for structural GE protein
structure initiative; HET: MSE; 2.09A {Bacteroides
fragilis}
Length = 213
Score = 23.8 bits (52), Expect = 3.8
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 1/33 (3%)
Query: 17 QNLDLKLWEIGKI-IGQMWRDLPEDQKTEYVED 48
+N DLK +E G + PE Y ED
Sbjct: 80 KNADLKFFEFGNCYHFDAEKKNPEKVLAPYSED 112
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
0.317 0.136 0.428
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 900,091
Number of extensions: 35176
Number of successful extensions: 205
Number of sequences better than 10.0: 1
Number of HSP's gapped: 198
Number of HSP's successfully gapped: 44
Length of query: 56
Length of database: 6,701,793
Length adjustment: 28
Effective length of query: 28
Effective length of database: 5,920,005
Effective search space: 165760140
Effective search space used: 165760140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.5 bits)