RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12488
(91 letters)
>1we3_O CPN10(groes); chaperonin, chaperone, groel, HSP60, HSP10, folding,
ADP, ATP; HET: ADP; 2.80A {Thermus thermophilus} SCOP:
b.35.1.1 PDB: 1wf4_o* 1wnr_A
Length = 100
Score = 78.7 bits (195), Expect = 4e-21
Identities = 29/73 (39%), Positives = 48/73 (65%)
Query: 16 GGVLIPEKAQQEVNNAVVVAVGPGARTPNGEYIKPVVNVGDKVLLPKFGGTKIEVEGQEL 75
GG+++P+ A+++ V+AVG G NG+ + V GD V+ K+GGT+IE++G+E
Sbjct: 28 GGIVLPDTAKEKPQKGKVIAVGTGRVLENGQRVPLEVKEGDIVVFAKYGGTEIEIDGEEY 87
Query: 76 HLFKEADLLAVIE 88
+ E DLLAV++
Sbjct: 88 VILSERDLLAVLQ 100
>1p3h_A 10 kDa chaperonin; beta barrel, acidic cluster, flexible loop,
structural genomics, PSI, protein structure initiative;
2.80A {Mycobacterium tuberculosis} SCOP: b.35.1.1 PDB:
1hx5_A 1lep_A 1p82_A 1p83_A
Length = 99
Score = 76.8 bits (190), Expect = 2e-20
Identities = 30/75 (40%), Positives = 46/75 (61%), Gaps = 1/75 (1%)
Query: 16 GGVLIPEKAQQEVNNAVVVAVGPGARTPNGEYIKPV-VNVGDKVLLPKFGGTKIEVEGQE 74
G++IP+ A+++ VVAVGPG +GE P+ V GD V+ K+GGT+I+ G+E
Sbjct: 25 SGLVIPDTAKEKPQEGTVVAVGPGRWDEDGEKRIPLDVAEGDTVIYSKYGGTEIKYNGEE 84
Query: 75 LHLFKEADLLAVIEK 89
+ D+LAV+ K
Sbjct: 85 YLILSARDVLAVVSK 99
>3nx6_A 10KDA chaperonin; bacterial blight, XOO4289, groes, xanthomonas
oryzae PV. ORY KACC10331, chaperone; 1.97A {Xanthomonas
oryzae PV}
Length = 95
Score = 76.4 bits (189), Expect = 3e-20
Identities = 30/72 (41%), Positives = 45/72 (62%)
Query: 16 GGVLIPEKAQQEVNNAVVVAVGPGARTPNGEYIKPVVNVGDKVLLPKFGGTKIEVEGQEL 75
GG++IP+ A+++ VVA+G G NG PVV VGDKV+ ++ G+ + EG E
Sbjct: 23 GGIVIPDSAKEKSTKGEVVAIGAGKPLDNGSLHAPVVKVGDKVIYGQYAGSSYKSEGVEY 82
Query: 76 HLFKEADLLAVI 87
+ +E D+LAVI
Sbjct: 83 KVLREDDILAVI 94
>1pcq_O Groes protein; chaperone; HET: ADP; 2.81A {Escherichia coli}
SCOP: b.35.1.1 PDB: 1gru_O 1aon_O* 1pf9_O* 1svt_O*
1sx4_O* 2c7c_O 2c7d_O
Length = 97
Score = 72.9 bits (180), Expect = 7e-19
Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 16 GGVLIPEKAQQEVNNAVVVAVGPGARTPNGEYIKPVVNVGDKVLLPKF-GGTKIEVEGQE 74
GG+++ A + V+AVG G NGE V VGD V+ G +++ +E
Sbjct: 23 GGIVLTGSAAAKSTRGEVLAVGNGRILENGEVKPLDVKVGDIVIFNDGYGVKSEKIDNEE 82
Query: 75 LHLFKEADLLAVIE 88
+ + E+D+LA++E
Sbjct: 83 VLIMSESDILAIVE 96
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP-
binding, DNA-binding; 2.50A {Geobacillus
stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C*
2pjr_B*
Length = 724
Score = 33.3 bits (77), Expect = 0.005
Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 1/55 (1%)
Query: 20 IPEKAQQEVNNAVVVAVGPGARTPNGEYIKPVVNVGDKVLLPKFG-GTKIEVEGQ 73
IP + + A P P VGD+ K+G GT + V G
Sbjct: 641 IPAHLLETASRRQAGASRPAVSRPQASGAVGSWKVGDRANHRKWGIGTVVSVRGG 695
>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 = 0.088
Identities = 7/23 (30%), Positives = 9/23 (39%), Gaps = 6/23 (26%)
Query: 1 MYRSHNKLSIYLLFPGGVLIPEK 23
M+ LS+ FP IP
Sbjct: 374 MFDR---LSV---FPPSAHIPTI 390
>1vj0_A Alcohol dehydrogenase, zinc-containing; TM0436, structural G JCSG,
PSI, protein structure initiative, joint center for S
genomics; 2.00A {Thermotoga maritima} SCOP: b.35.1.2
c.2.1.1
Length = 380
Score = 26.8 bits (60), Expect = 0.86
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 32 VVVAVGPGARTPNGEYIKPVVNVGDKVLL 60
VV V R NGE +KP GD ++
Sbjct: 82 RVVEVNGEKRDLNGELLKP----GDLIVW 106
>2uzx_B Hepatocyte growth factor receptor; signaling protein/receptor,
leucine rich repeat, receptor ectodomain, signaling
protein, ATP-binding; 2.8A {Homo sapiens} PDB: 2uzy_B
1shy_B 1ssl_A
Length = 727
Score = 26.9 bits (58), Expect = 1.1
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 13/53 (24%)
Query: 32 VVVAVGPGARTPNGE---YIKPVV-----NVGDKVLLPKFGGTKIEVEGQELH 76
+ + + G T Y+ PV+ G P GGT + + G L+
Sbjct: 615 MSIIISNGHGTTQYSTFSYVDPVITSISPKYG-----PMAGGTLLTLTGNYLN 662
>2ood_A BLR3880 protein; PSI-II, PSI-2, guanine deaminase, guanine,
structural genomics, protein structure initiative; HET:
GUN; 2.62A {Bradyrhizobium japonicum} SCOP: b.92.1.4
c.1.9.9
Length = 475
Score = 25.8 bits (57), Expect = 2.0
Identities = 8/36 (22%), Positives = 18/36 (50%)
Query: 28 VNNAVVVAVGPGARTPNGEYIKPVVNVGDKVLLPKF 63
V + V+ A GP + + ++ D++++P F
Sbjct: 40 VTDGVIKAFGPYEKIAAAHPGVEITHIKDRIIVPGF 75
>4dzh_A Amidohydrolase; adenosine deaminase, nysgrc, structural GENO YORK
structural genomics research consortium; 1.55A
{Xanthomonas campestris PV}
Length = 472
Score = 25.2 bits (56), Expect = 2.9
Identities = 16/58 (27%), Positives = 23/58 (39%), Gaps = 8/58 (13%)
Query: 12 LLFPGGVLIPEKAQQEV--NNAVVV------AVGPGARTPNGEYIKPVVNVGDKVLLP 61
LL G ++P + V ++AV V AV P A V+ D L+P
Sbjct: 16 LLIEAGYVVPIEPHAVVLEDHAVAVSNGVIVAVLPTADARVRFAPARTVSRPDAALMP 73
>1f3r_B FV antibody fragment; IG-fold, immuno complex, antibody-antigen,
beta-turn, immune system; HET: NLE; NMR {Rattus
norvegicus} SCOP: b.1.1.1 b.1.1.1
Length = 257
Score = 25.1 bits (55), Expect = 3.4
Identities = 11/22 (50%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 63 FG-GTKIEVEGQELHLFKEADL 83
FG GTK+E++ E L E DL
Sbjct: 235 FGAGTKLELKAAEQKLISEEDL 256
>1nyo_A Immunogenic protein MPT70; seven-stranded beta-barrel, fasciclin
domain, structural genomics, PSI, protein structure
initiative; NMR {Mycobacterium tuberculosis} SCOP:
b.118.1.1
Length = 163
Score = 25.1 bits (55), Expect = 3.5
Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 7/35 (20%)
Query: 28 VNNAVVVAVGPGARTPNGEYIKPVVNVGDKVLLPK 62
V NA VV G T N V + D VL+P
Sbjct: 135 VGNADVVC--GGVSTANA-----TVYMIDSVLMPP 162
>3jv7_A ADH-A; dehydrogenase, nucleotide binding, rossmann-fold,
oxidoreduc; HET: NAD; 2.00A {Rhodococcus ruber} PDB:
2xaa_A*
Length = 345
Score = 24.9 bits (55), Expect = 4.0
Identities = 7/30 (23%), Positives = 9/30 (30%), Gaps = 9/30 (30%)
Query: 32 VVVAVGPGARTPNGEYIKPVVNVGDKVLLP 61
V +G G VGD V +
Sbjct: 67 TVAELGEGVTG---------FGVGDAVAVY 87
>1h2b_A Alcohol dehydrogenase; oxidoreductase, archaea, hyperthermophIle,
zinc; HET: OCA NAJ; 1.62A {Aeropyrum pernix} SCOP:
b.35.1.2 c.2.1.1
Length = 359
Score = 24.5 bits (54), Expect = 5.3
Identities = 6/30 (20%), Positives = 9/30 (30%), Gaps = 9/30 (30%)
Query: 32 VVVAVGPGARTPNGEYIKPVVNVGDKVLLP 61
+ V G + GD V+L
Sbjct: 84 YIEEVAEGVEG---------LEKGDPVILH 104
>1f8f_A Benzyl alcohol dehydrogenase; rossmann fold, oxidoreductase; HET:
NAD; 2.20A {Acinetobacter calcoaceticus} SCOP: b.35.1.2
c.2.1.1
Length = 371
Score = 24.4 bits (54), Expect = 6.3
Identities = 8/29 (27%), Positives = 13/29 (44%), Gaps = 9/29 (31%)
Query: 32 VVVAVGPGARTPNGEYIKPVVNVGDKVLL 60
++ A+GP + VGD V+L
Sbjct: 70 IIEAIGPNVTE---------LQVGDHVVL 89
>1w7d_A Fasciclin-like protein; cell adhesion; NMR {Rhodobacter
sphaeroides} PDB: 1w7e_A
Length = 137
Score = 23.9 bits (52), Expect = 7.2
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 7/34 (20%)
Query: 28 VNNAVVVAVGPGARTPNGEYIKPVVNVGDKVLLP 61
VN + P NG V++V D VL+P
Sbjct: 109 VNGVSISQ--PDVDASNG-----VIHVIDGVLMP 135
>1jvb_A NAD(H)-dependent alcohol dehydrogenase; archaeon, zinc,
oxidoreductase; HET: MSE; 1.85A {Sulfolobus
solfataricus} SCOP: b.35.1.2 c.2.1.1 PDB: 1r37_A*
1nto_A 1nvg_A 3i4c_A 2eer_A*
Length = 347
Score = 23.7 bits (52), Expect = 9.6
Identities = 5/30 (16%), Positives = 8/30 (26%), Gaps = 9/30 (30%)
Query: 32 VVVAVGPGARTPNGEYIKPVVNVGDKVLLP 61
+ VG + GD V +
Sbjct: 73 KIEEVGDEVVG---------YSKGDLVAVN 93
>1edz_A 5,10-methylenetetrahydrofolate dehydrogenase; nucleotide-binding
domain, monofunctional, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: c.2.1.7 c.58.1.2 PDB:
1ee9_A*
Length = 320
Score = 23.8 bits (52), Expect = 9.9
Identities = 7/27 (25%), Positives = 9/27 (33%), Gaps = 3/27 (11%)
Query: 32 VVVAVGPGARTPNGEYIKP---VVNVG 55
V+ V EYIK +N
Sbjct: 249 VITGVPSENYKFPTEYIKEGAVCINFA 275
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
0.316 0.139 0.392
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,382,498
Number of extensions: 75565
Number of successful extensions: 191
Number of sequences better than 10.0: 1
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 37
Length of query: 91
Length of database: 6,701,793
Length adjustment: 58
Effective length of query: 33
Effective length of database: 5,082,375
Effective search space: 167718375
Effective search space used: 167718375
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: 42 (22.0 bits)
S2: 51 (23.3 bits)