RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2215
(172 letters)
>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 = 37.3 bits (86), Expect = 0.002
Identities = 37/166 (22%), Positives = 53/166 (31%), Gaps = 48/166 (28%)
Query: 9 DRDSYVETVSS--------GQRCLLANTNRRVWVQSQPSGAVDFLSRGWWFESKSSHKIL 60
+S+ +V G RC A N + PS D L E S +L
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP----PSILEDSLENN---EGVPSP-ML 339
Query: 61 VYSG--------AVASGNK---VSRK---SLVAGAQNIVLTGKVIIQCDAVLRGDLANIR 106
S V N ++ SLV GA+N+V++G L G +R
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP-----QSLYGLNLTLR 394
Query: 107 TGRYCIISKGVVIRPPFKKFAKGFLVYPGSTVYLVFTASVRLKSPF 152
+ S R PF + F S +L + PF
Sbjct: 395 --KAKAPSGLDQSRIPFSERKLKF-----SNRFLPVAS------PF 427
>3r3r_A Ferripyochelin binding protein; structural genomics, csgid, center
for structural genomics O infectious diseases, all beta
protein; 1.20A {Salmonella enterica subsp}
Length = 187
Score = 31.5 bits (72), Expect = 0.082
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 81 AQNIVLTGKVIIQCD------AVLRGDLANIRTGRYCIISKGVVI 119
+ V+ G V + D V+RGD+ + G I G V+
Sbjct: 25 DTSSVVIGDVRLADDVGIWPLVVIRGDVNYVAIGARTNIQDGSVL 69
>1xhd_A Putative acetyltransferase/acyltransferase; structural genomics,
protein structure initiative, medwest C structural
genomics, MCSG; 1.90A {Bacillus cereus} SCOP: b.81.1.5
PDB: 3vnp_A 2eg0_A
Length = 173
Score = 31.4 bits (72), Expect = 0.086
Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 6/45 (13%)
Query: 81 AQNIVLTGKVIIQCD------AVLRGDLANIRTGRYCIISKGVVI 119
A + +TG V + + V+RGD++ G + +
Sbjct: 22 ADYVTITGDVYVGEESSIWFNTVIRGDVSPTIIGDRVNVQDQCTL 66
>3ixc_A Hexapeptide transferase family protein; niaid, ssgcid, seattle
structural genomics center for infect disease,
GRAM-negative bacteria; 1.61A {Anaplasma
phagocytophilum}
Length = 191
Score = 31.1 bits (71), Expect = 0.10
Identities = 14/45 (31%), Positives = 18/45 (40%), Gaps = 6/45 (13%)
Query: 81 AQNIVLTGKVIIQCD------AVLRGDLANIRTGRYCIISKGVVI 119
A N + G V I + VLRGD+ I G I V+
Sbjct: 43 AGNARIIGDVCIGKNASIWYGTVLRGDVDKIEVGEGTNIQDNTVV 87
>1v3w_A Ferripyochelin binding protein; beta-helix, carbonic anhydrase,
structural genomics, riken S genomics/proteomics
initiative, RSGI, lyase; 1.50A {Pyrococcus horikoshii}
SCOP: b.81.1.5 PDB: 1v67_A 2fko_A
Length = 173
Score = 31.0 bits (71), Expect = 0.11
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 81 AQNIVLTGKVIIQCD------AVLRGDLANIRTGRYCIISKGVVI 119
+N V+ G V+++ AVLRGD+ I G+Y + V I
Sbjct: 20 DENAVVIGDVVLEEKTSVWPSAVLRGDIEQIYVGKYSNVQDNVSI 64
>3r1w_A Carbonic anhydrase; beta-helix, lyase; 1.73A {Unidentified}
Length = 189
Score = 31.1 bits (71), Expect = 0.13
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 81 AQNIVLTGKVIIQCD------AVLRGDLANIRTGRYCIISKGVVI 119
++ V+ G V + D AV+RGD+ +IR G + G V+
Sbjct: 29 DRSSVIIGDVELGDDCSVWPLAVIRGDMHHIRIGARTSVQDGSVL 73
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 0.59
Identities = 6/24 (25%), Positives = 9/24 (37%), Gaps = 1/24 (4%)
Query: 124 KKFAKGFLVY-PGSTVYLVFTASV 146
KK +Y S L A++
Sbjct: 23 KKLQASLKLYADDSAPALAIKATM 46
>1ge9_A Ribosome recycling factor; three-helix bundle; NMR {Aquifex
aeolicus} SCOP: d.67.3.1
Length = 184
Score = 27.5 bits (62), Expect = 2.0
Identities = 4/14 (28%), Positives = 8/14 (57%)
Query: 96 AVLRGDLANIRTGR 109
+ ++A +RT R
Sbjct: 21 EYYKNEIAGLRTSR 34
>4gfq_A Ribosome-recycling factor; structural genomics, niaid, national
institute of allergy AN infectious diseases; 2.65A
{Bacillus anthracis}
Length = 209
Score = 27.2 bits (61), Expect = 2.1
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 96 AVLRGDLANIRTGR 109
A +LA +R GR
Sbjct: 42 AAYSRELATVRAGR 55
>1eh1_A Ribosome recycling factor; translation, hinge variability; 2.60A
{Thermus thermophilus} SCOP: d.67.3.1 PDB: 2qbe_6 2qbg_6
2qbi_6* 2qbk_6* 2v46_Y* 2v48_Y* 2z4l_6* 2z4n_6* 3j0d_J
3j0e_G
Length = 185
Score = 27.1 bits (61), Expect = 2.3
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 96 AVLRGDLANIRTGR 109
VL +LA +RTGR
Sbjct: 19 EVLEHNLAGLRTGR 32
>3vbi_A ANTD, galactoside O-acetyltransferase; anthrose, acylated sugar,
LEFT-handed beta helix, sugar N-AC transferase; HET: COA
0FX; 1.80A {Bacillus cereus} PDB: 3vbj_A* 3vbm_A*
3vbk_A* 3vbp_A* 3vbl_A* 3vbn_A*
Length = 205
Score = 27.3 bits (61), Expect = 2.4
Identities = 9/45 (20%), Positives = 14/45 (31%)
Query: 90 VIIQCDAVLRGDLANIRTGRYCIISKGVVIRPPFKKFAKGFLVYP 134
I L G I + IS ++ F+ L+ P
Sbjct: 77 SHIAAYTALYGGEVGIEMYDFANISSRTIVYAAIDDFSGNALMGP 121
Score = 26.6 bits (59), Expect = 4.2
Identities = 12/75 (16%), Positives = 22/75 (29%), Gaps = 3/75 (4%)
Query: 66 VASGNKVSRKSLVAGAQNIVLTGKVIIQCDAVLRGDLANIRTGRYCIISKGVVIRPPFKK 125
V +S+K+ + I + V I +L G + G Y I+ +
Sbjct: 35 VGKNVLISKKASIYNPGVISIGNNVRIDDFCILSG---KVTIGSYSHIAAYTALYGGEVG 91
Query: 126 FAKGFLVYPGSTVYL 140
S +
Sbjct: 92 IEMYDFANISSRTIV 106
>1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia coli}
SCOP: d.67.3.1 PDB: 1ek8_A* 1zn0_A 1zn1_A 2rdo_8
Length = 185
Score = 27.1 bits (61), Expect = 2.5
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 96 AVLRGDLANIRTGR 109
+ ++ IRTGR
Sbjct: 18 EAFKTQISKIRTGR 31
>1wqg_A Ribosome recycling factor; translation factor, triple-helix bundle,
protein synthesis, translation; 2.15A {Mycobacterium
tuberculosis} SCOP: d.67.3.1 PDB: 1wqf_A 1wqh_A
Length = 185
Score = 27.1 bits (61), Expect = 2.5
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 97 VLRGDLANIRTGR 109
V R DL+ IRTGR
Sbjct: 19 VARDDLSTIRTGR 31
>1dd5_A Ribosome recycling factor; three-helix bundle, beta-alpha-beta
sandwich; 2.55A {Thermotoga maritima} SCOP: d.67.3.1
PDB: 1t1m_C
Length = 185
Score = 27.1 bits (61), Expect = 2.6
Identities = 4/13 (30%), Positives = 8/13 (61%)
Query: 97 VLRGDLANIRTGR 109
+ +L +RTG+
Sbjct: 19 KIEDELRKMRTGK 31
>1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio
parahaemolyticus} SCOP: d.67.3.1 PDB: 3r8n_Y
Length = 185
Score = 27.1 bits (61), Expect = 2.6
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 96 AVLRGDLANIRTGR 109
L+ +L+ +RTGR
Sbjct: 18 EALKNNLSKVRTGR 31
>1clc_A Endoglucanase CELD; EC: 3.2.1.4; cellulase, glycosyl hydrolase;
1.90A {Clostridium thermocellum} SCOP: a.102.1.2
b.1.18.2
Length = 639
Score = 27.2 bits (60), Expect = 3.1
Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 6/55 (10%)
Query: 76 SLVAGAQNIVLTGKVIIQCDA-----VLRGDLANIRT-GRYCIISKGVVIRPPFK 124
+V IV TG D V D +++ G Y + GV FK
Sbjct: 69 YVVKEDGTIVYTGTATSMFDNDTKETVYIADFSSVNEEGTYYLAVPGVGKSVNFK 123
>3eev_A Chloramphenicol acetyltransferase; beta-helix, structural genomics,
center for STR genomics of infectious diseases, csgid;
2.61A {Vibrio cholerae o1 biovar el tor}
Length = 212
Score = 26.4 bits (58), Expect = 4.9
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 100 GDLANIRTGRYCIISKGVVI 119
D+ + G +C I G V
Sbjct: 54 DDVDKLVIGSFCSIGSGAVF 73
>1xat_A Xenobiotic acetyltransferase; chloramphenicol, LEFT-handed helix;
3.20A {Pseudomonas aeruginosa} SCOP: b.81.1.3 PDB:
2xat_A*
Length = 212
Score = 25.7 bits (56), Expect = 7.3
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 100 GDLANIRTGRYCIISKGVVI 119
D+ + G +C I G
Sbjct: 52 DDVDKLVIGSFCSIGSGAAF 71
>3bfp_A Acetyltransferase; LEFT-handed beta helix, COA binding protein,
N-glycan biosynthesis, bacillosamine, structural
genomics, MKBSGI; HET: FLC; 1.75A {Campylobacter jejuni}
SCOP: b.81.1.8 PDB: 2vhe_A* 3bsw_A* 3bss_A* 3bsy_A*
2npo_A
Length = 194
Score = 25.7 bits (57), Expect = 7.4
Identities = 18/87 (20%), Positives = 29/87 (33%), Gaps = 2/87 (2%)
Query: 52 ESKSSHKILVYSGAVASGNKVSRKSLVAGAQNIVLTGKVIIQCDAVLRGDLANIRTGRYC 111
K + Y +A GN RK + +I A++ A +
Sbjct: 38 GMKFESTLPKYDFFIAIGNNEIRKKIYQKISENGFKIVNLIHKSALI-SPSAIVEENAGI 96
Query: 112 IISKGVVIRPPFKKFAKGFLVYPGSTV 138
+I VVI K KG ++ S +
Sbjct: 97 LIMPYVVIN-AKAKIEKGVILNTSSVI 122
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 0.136 0.424
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,618,959
Number of extensions: 143889
Number of successful extensions: 213
Number of sequences better than 10.0: 1
Number of HSP's gapped: 212
Number of HSP's successfully gapped: 25
Length of query: 172
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 85
Effective length of database: 4,272,666
Effective search space: 363176610
Effective search space used: 363176610
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: 41 (22.0 bits)
S2: 54 (24.5 bits)