RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5317
(101 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 = 28.9 bits (64), Expect = 0.25
Identities = 25/121 (20%), Positives = 38/121 (31%), Gaps = 55/121 (45%)
Query: 10 PKYGLREYFESLEL-ISA-F-SPLFYSA-------VLTSGLTCAFSSLQEAPRVF----- 54
K+ R F L +++ F S L A ++ + ++ +Q P V+
Sbjct: 414 LKFSNR--F----LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ-IP-VYDTFDG 465
Query: 55 ---RHLSKDGL---------YPYIGW-------------FGRGKTSRPHVLT------TG 83
R LS P + W FG G S VLT TG
Sbjct: 466 SDLRVLSGSISERIVDCIIRLP-VKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 84 I 84
+
Sbjct: 525 V 525
>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
membrane, membrane, transmembrane, transport protein;
HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
3gi9_C* 3gi8_C
Length = 444
Score = 27.7 bits (62), Expect = 0.58
Identities = 10/42 (23%), Positives = 13/42 (30%), Gaps = 4/42 (9%)
Query: 50 APRVFRHLSKDGLYPYIGWFGR--GKTSRPHVLTTGIAAAFI 89
V L+KDG P +F R S + T
Sbjct: 295 GANVAYSLAKDGELP--EFFERKVWFKSTEGLYITSALGVLF 334
>3l1l_A Arginine/agmatine antiporter; TCDB 2.A.3.2.5, ADIC, Arg-bound,
amino-acid transport, cell inner membrane, cell
membrane, membrane; HET: ARG BNG; 3.00A {Escherichia
coli} PDB: 3h5m_A* 3h6b_A 3lrb_A 3lrc_A 3ob6_A* 3hqk_A
3ncy_A
Length = 445
Score = 27.3 bits (61), Expect = 0.94
Identities = 14/72 (19%), Positives = 21/72 (29%), Gaps = 6/72 (8%)
Query: 34 AVLTSGLTCAFSSLQEAPRVFRHLSKDGLYPYIGWFGR-GKTSRPHV---LTTGIAAAFI 89
L A + + + DGL+P F R K P + + F
Sbjct: 281 CAAAGCLGSLGGWTLLAGQTAKAAADDGLFP--PIFARVNKAGTPVAGLIIVGILMTIFQ 338
Query: 90 LMSAAKLTKPSF 101
L S + F
Sbjct: 339 LSSISPNATKEF 350
>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati
translational regulation, protein/RNA, ligase-RNA
complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A
{Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1
d.104.1.1
Length = 642
Score = 26.4 bits (59), Expect = 1.7
Identities = 9/24 (37%), Positives = 9/24 (37%), Gaps = 4/24 (16%)
Query: 71 RGKTSRPHVLTTGIAAAFILMSAA 94
RG PHV F LM A
Sbjct: 183 RG----PHVPNMRFCHHFKLMKTA 202
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 26.4 bits (59), Expect = 2.0
Identities = 9/24 (37%), Positives = 11/24 (45%), Gaps = 4/24 (16%)
Query: 71 RGKTSRPHVLTTGIAAAFILMSAA 94
RG HV +T F L+S A
Sbjct: 182 RG----VHVPSTAKIKEFKLLSTA 201
>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 = 26.4 bits (57), Expect = 2.1
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 9/63 (14%)
Query: 3 STSYTLLPKYGLREYFESLELISAFSPLFYSAVLTSGLTCAF---SSLQEAPRVFRHLSK 59
+S +L R+ F+ L + F P SA + + L + V L K
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSV---FPP---SAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413
Query: 60 DGL 62
L
Sbjct: 414 YSL 416
>1tke_A Threonyl-tRNA synthetase; ligase; 1.46A {Escherichia coli} SCOP:
d.15.10.1 d.67.1.1 PDB: 1tje_A 1tkg_A* 1tky_A*
Length = 224
Score = 25.5 bits (57), Expect = 3.5
Identities = 9/24 (37%), Positives = 9/24 (37%), Gaps = 4/24 (16%)
Query: 71 RGKTSRPHVLTTGIAAAFILMSAA 94
RG PHV F LM A
Sbjct: 183 RG----PHVPNMRFCHHFKLMKTA 202
>3i83_A 2-dehydropantoate 2-reductase; structural genomics, oxidoreductase,
NADP, pantothenate BIOS PSI-2, protein structure
initiative; 1.90A {Methylococcus capsulatus}
Length = 320
Score = 25.3 bits (56), Expect = 4.5
Identities = 12/59 (20%), Positives = 19/59 (32%), Gaps = 9/59 (15%)
Query: 39 GLTCAFSSLQEAPRVFRHLSKDGLYPYIGWFGRGKTSRPHVLTTGIAAAFILMSAAKLT 97
+ AP H + L +G + G + R +AAAF A +
Sbjct: 125 SGLAFIGVTRTAPGEIWHQAYGRL--MLGNYPGGVSER----VKTLAAAF---EEAGID 174
>2ib8_A Acetyl-COA acetyltransferase; thiolase fold, potassium ION,
chloride, beta-alpha-beta-ALPH alpha-beta-BETA topology;
HET: MES; 1.85A {Homo sapiens} PDB: 2ib7_A* 2ib9_A*
2ibu_A* 2ibw_A* 2iby_A* 2f2s_A*
Length = 395
Score = 24.4 bits (54), Expect = 7.4
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 85 AAAFILMSAAKLTK 98
AAA +LM+A +
Sbjct: 258 AAALVLMTADAAKR 271
>4e1l_A Acetoacetyl-COA thiolase 2; 3-layer(ABA) sandwich, transferase;
2.00A {Clostridium difficile}
Length = 395
Score = 24.3 bits (54), Expect = 7.7
Identities = 9/16 (56%), Positives = 9/16 (56%), Gaps = 3/16 (18%)
Query: 83 GI---AAAFILMSAAK 95
GI AA ILMS K
Sbjct: 252 GINDGAAMLILMSQQK 267
>4dd5_A Acetyl-COA acetyltransferase; structural genomics, center for
structural genomics of infec diseases, csgid, thiolase;
1.25A {Clostridium difficile}
Length = 396
Score = 24.3 bits (54), Expect = 8.4
Identities = 6/16 (37%), Positives = 9/16 (56%), Gaps = 3/16 (18%)
Query: 83 GI---AAAFILMSAAK 95
GI AA ++M+ K
Sbjct: 253 GINDGAAMLVVMAKEK 268
>3udf_A Penicillin-binding protein 1A; transglycosylase, transpeptidase;
HET: MES; 1.70A {Acinetobacter baumannii} PDB: 3udi_A*
3udx_A* 3ue0_A* 3ue1_A*
Length = 731
Score = 24.2 bits (53), Expect = 9.5
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 25 SAFSPLFYSAVLTSGLTCAFSSLQEAPRVF 54
S P Y+ L G+T S + ++P
Sbjct: 426 STIKPFLYALALERGMTPY-SMVNDSPITI 454
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 0.406
Gapped
Lambda K H
0.267 0.0864 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,460,576
Number of extensions: 71739
Number of successful extensions: 127
Number of sequences better than 10.0: 1
Number of HSP's gapped: 126
Number of HSP's successfully gapped: 20
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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: 51 (23.2 bits)