RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7420
(59 letters)
>3cmq_A Phenylalanyl-tRNA synthetase, mitochondrial; classii aarss fold,
RRM domain, RNA recogntion, aminoacyl-tRNA synthetase,
ATP-binding, ligase; HET: FA5; 2.20A {Homo sapiens} PDB:
3hfv_A* 3teg_A* 3tup_A
Length = 415
Score = 48.7 bits (116), Expect = 6e-09
Identities = 19/35 (54%), Positives = 25/35 (71%)
Query: 1 MQLYSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFK 35
M LY IPDIR+F+ ED FL QF ++NQK+ F+
Sbjct: 285 MILYDIPDIRLFWCEDERFLKQFCVSNINQKVKFQ 319
>3pco_A Phenylalanyl-tRNA synthetase, alpha subunit; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP;
3.02A {Escherichia coli}
Length = 327
Score = 37.9 bits (89), Expect = 3e-05
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 1 MQLYSIPDIRIFFSEDSGFLNQFR 24
M Y + D+R FF D FL QF+
Sbjct: 304 MLRYGVTDLRSFFENDLRFLKQFK 327
>1b7y_A Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: d.104.1.1 PDB: 1b70_A* 1eiy_A
1jjc_A* 1pys_A 2iy5_A* 3hfz_A* 3teh_A* 2aly_A* 2akw_A*
2amc_A*
Length = 350
Score = 38.0 bits (89), Expect = 4e-05
Identities = 13/26 (50%), Positives = 14/26 (53%)
Query: 1 MQLYSIPDIRIFFSEDSGFLNQFRTE 26
M Y IPDIR FF FL QF+
Sbjct: 324 MLRYGIPDIRYFFGGRLKFLEQFKGV 349
>2rhq_A Phenylalanyl-tRNA synthetase alpha chain; heterotetramer,
phenylalanine, aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus
haemolyticus} PDB: 2rhs_A*
Length = 294
Score = 37.6 bits (88), Expect = 4e-05
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 1 MQLYSIPDIRIFFSEDSGFLNQFRTED 27
M Y I DIR F++ D FL QF+ +
Sbjct: 264 MLKYGIEDIRYFYTNDVRFLEQFKAVE 290
>3l4g_A Phenylalanyl-tRNA synthetase alpha chain; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A
{Homo sapiens}
Length = 508
Score = 32.2 bits (73), Expect = 0.004
Identities = 5/26 (19%), Positives = 8/26 (30%)
Query: 1 MQLYSIPDIRIFFSEDSGFLNQFRTE 26
M Y I +IR + +
Sbjct: 466 MIKYGINNIRELVGHKVNLQMVYDSP 491
>2du3_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase/RNA
complex; HET: SEP; 2.60A {Archaeoglobus fulgidus} PDB:
2du4_A 2du5_A* 2du6_A*
Length = 534
Score = 29.4 bits (66), Expect = 0.034
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 9/51 (17%)
Query: 1 MQLYSIPDIRIFFSE---------DSGFLNQFRTEDVNQKIVFKFLLRELL 42
M LY D+R D + + ++V Q V + + ++
Sbjct: 335 MILYGYDDVRKMVYPQIHGEIKLSDLDIAREIKVKEVPQTAVGLKIAQSIV 385
>3slk_A Polyketide synthase extender module 2; rossmann fold, NADPH,
oxidoreductase; HET: NDP; 3.00A {Saccharopolyspora
spinosa}
Length = 795
Score = 26.2 bits (58), Expect = 0.61
Identities = 4/23 (17%), Positives = 6/23 (26%)
Query: 4 YSIPDIRIFFSEDSGFLNQFRTE 26
+ + S F QF
Sbjct: 385 VELSREHLASSRTCDFEQQFLGA 407
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 25.7 bits (56), Expect = 0.74
Identities = 5/29 (17%), Positives = 8/29 (27%), Gaps = 5/29 (17%)
Query: 1 MQLYSIPDIR-----IFFSEDSGFLNQFR 24
M + D+R F+ N
Sbjct: 346 MISGNFADVREMVYPQFYEHKLNDRNVAS 374
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 25.7 bits (56), Expect = 0.97
Identities = 5/29 (17%), Positives = 8/29 (27%), Gaps = 5/29 (17%)
Query: 1 MQLYSIPDIR-----IFFSEDSGFLNQFR 24
M + D+R F+ N
Sbjct: 346 MISGNFADVREMVYPQFYEHKLNDRNVAS 374
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 25.3 bits (55), Expect = 1.3
Identities = 5/29 (17%), Positives = 8/29 (27%), Gaps = 5/29 (17%)
Query: 1 MQLYSIPDIR-----IFFSEDSGFLNQFR 24
M + D+R F+ N
Sbjct: 346 MISGNFADVREMVYPQFYEHKLNDRNVAS 374
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 24.9 bits (54), Expect = 1.7
Identities = 5/29 (17%), Positives = 8/29 (27%), Gaps = 5/29 (17%)
Query: 1 MQLYSIPDIR-----IFFSEDSGFLNQFR 24
M + D+R F+ N
Sbjct: 346 MISGNFADVREMVYPQFYEHKLNDRNVAS 374
>3e13_X Putative iron-uptake ABC transport system, periplasmic
iron-binding protein; beta sheet surrounded by alpha
helices; 1.60A {Campylobacter jejuni} PDB: 1y4t_A
Length = 322
Score = 24.0 bits (52), Expect = 3.2
Identities = 9/40 (22%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 11 IFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPE 50
IF + D L + + + + K+L E +P R +
Sbjct: 55 IFITADISNLTEAKNLGLLSPVSSKYL--EEFIPAHLRDK 92
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 22.9 bits (50), Expect = 7.4
Identities = 6/10 (60%), Positives = 8/10 (80%)
Query: 47 YRPEIEERMK 56
YR E E+R+K
Sbjct: 248 YRGEFEDRLK 257
>3din_C Preprotein translocase subunit SECY; protein translocation,
membrane protein, ATPase, ATP-binding membrane,
nucleotide-binding, protein transport; HET: ADP; 4.50A
{Thermotoga maritima MSB8}
Length = 431
Score = 22.9 bits (50), Expect = 9.1
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 17 SGFLNQFRTEDVNQKIVFKFLL 38
F N F+ ++ +I+F FL
Sbjct: 3 QAFKNAFKIPELRDRIIFTFLA 24
>2zjs_Y Preprotein translocase SECY subunit; translocon, SEC,
protein-conducting-channel, membrane, prote transport,
translocation, transmembrane, transport; 3.20A {Thermus
thermophilus} PDB: 2zqp_Y
Length = 434
Score = 22.5 bits (49), Expect = 10.0
Identities = 4/22 (18%), Positives = 12/22 (54%)
Query: 17 SGFLNQFRTEDVNQKIVFKFLL 38
F + + ++ Q+++F L+
Sbjct: 3 KAFWSALQIPELRQRVLFTLLV 24
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
0.327 0.145 0.414
Gapped
Lambda K H
0.267 0.0514 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 915,552
Number of extensions: 39981
Number of successful extensions: 83
Number of sequences better than 10.0: 1
Number of HSP's gapped: 82
Number of HSP's successfully gapped: 18
Length of query: 59
Length of database: 6,701,793
Length adjustment: 30
Effective length of query: 29
Effective length of database: 5,864,163
Effective search space: 170060727
Effective search space used: 170060727
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.9 bits)