RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5542
(86 letters)
>2i4l_A Proline-tRNA ligase; alpha beta; 2.00A {Rhodopseudomonas palustris}
PDB: 2i4m_A* 2i4n_A* 2i4o_A*
Length = 458
Score = 110 bits (278), Expect = 1e-30
Identities = 35/80 (43%), Positives = 45/80 (56%)
Query: 1 MVADMKLSHKALPLLLYQFTSKFRDELRPKFGLMRSREFLMKDLYAFTASEVDANDVYNL 60
+ S+K+LPL LY KFRDE RP+FG+MR REFLMKD Y+F E A YN
Sbjct: 137 IFRAYIKSYKSLPLNLYHIQWKFRDEQRPRFGVMRGREFLMKDAYSFDVDEAGARKSYNK 196
Query: 61 VGKCYDDVFNTLGIKYRKVI 80
+ Y F +G+K +
Sbjct: 197 MFVAYLRTFARMGLKAIPMR 216
>2j3l_A Prolyl-tRNA synthetase; class II aminoacyl- T synthetase, editing,
translation; HET: P5A; 2.3A {Enterococcus faecalis} PDB:
2j3m_A*
Length = 572
Score = 108 bits (271), Expect = 2e-29
Identities = 34/80 (42%), Positives = 49/80 (61%)
Query: 1 MVADMKLSHKALPLLLYQFTSKFRDELRPKFGLMRSREFLMKDLYAFTASEVDANDVYNL 60
++ D S+K LPL LYQ +K+RDE R + GL+R REF+MKD Y+F A E + Y
Sbjct: 117 LIRDEINSYKRLPLNLYQIQTKYRDEKRSRSGLLRGREFIMKDGYSFHADEASLDQSYRD 176
Query: 61 VGKCYDDVFNTLGIKYRKVI 80
K Y +F G+++R +I
Sbjct: 177 YEKAYSRIFERCGLEFRAII 196
>2cja_A Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE ATP; 2.2A
{Methanosarcina barkeri} PDB: 2cim_A* 2cj9_A* 2cjb_A
Length = 522
Score = 42.8 bits (100), Expect = 2e-06
Identities = 18/81 (22%), Positives = 33/81 (40%), Gaps = 3/81 (3%)
Query: 1 MVADMKLSHKALPLLLYQFTSK-FRDELRPKFGLMRSREFLMKDLYAFTASEVDANDVYN 59
VA L ++ +P+ ++ + R E G+ R EF ++ E +
Sbjct: 332 YVAGETLPNEEIPVKVFDRSGTSHRYESGGIHGIERVDEFHRIEIVWIGTKE-EVLKCAE 390
Query: 60 LVGKCYDDVFNT-LGIKYRKV 79
+ Y +FN L I++RK
Sbjct: 391 ELHDRYMHIFNDILDIEWRKA 411
>1hc7_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP + L-proline
+ tRNA(Pro) AMP + PPI + L-prolyl-tRNA(Pro); 2.43A
{Thermus thermophilus} SCOP: c.51.1.1 d.68.5.1 d.104.1.1
PDB: 1h4q_A* 1h4t_A 1h4s_A
Length = 477
Score = 40.8 bits (96), Expect = 1e-05
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 8 SHKALPLLLYQFTSKFRDELRPKFGLMRSREFL 40
S + LP LL Q+ + R E+R + +R+ EFL
Sbjct: 126 SWRDLPQLLNQWGNVVRWEMRTRP-FLRTSEFL 157
>3mf2_A BLL0957 protein; aminoacyl-tRNA synthetase, seryl-tRNA synthetase,
zinc ION, amino acid:[carrier protein] ligase; HET: AMP;
2.15A {Bradyrhizobium japonicum} PDB: 3mey_A* 3mf1_A*
3pzc_A*
Length = 346
Score = 39.6 bits (92), Expect = 2e-05
Identities = 14/75 (18%), Positives = 23/75 (30%), Gaps = 3/75 (4%)
Query: 6 KLSHKALPLLLYQFTSKFRDELRPKFGLMRSREFLMKDLYAFTASEVDANDVYNLVGKCY 65
+ L FR E P L R + F M++ + D +D
Sbjct: 161 RGPLPKGGLRFDVAADCFRRE--PSKHLDRLQSFRMREYVCIGTPD-DVSDFRERWMVRA 217
Query: 66 DDVFNTLGIKYRKVI 80
+ LG+ +R
Sbjct: 218 QAIARDLGLTFRVDY 232
>1nj8_A Proline-tRNA synthetase, proline--tRNA ligase; class-II tRNA
synthetase; 3.20A {Methanocaldococcus jannaschii} SCOP:
c.51.1.1 d.68.5.1 d.104.1.1
Length = 459
Score = 38.1 bits (89), Expect = 8e-05
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 8 SHKALPLLLYQFTSKFRDELRPKFGLMRSREFLM 41
H LP+ +YQ + FR E + L+R RE +
Sbjct: 120 VHTDLPIKIYQIVNTFRYETKHTRPLIRLREIMT 153
>1nj1_A PROR, proline-tRNA synthetase, proline--tRNA ligase;
protein-aminoacyladenylate complex class-II tRNA
synthetase,; HET: 5CA; 2.55A {Methanothermobacter
thermautotrophicusorganism_taxid} SCOP: c.51.1.1
d.68.5.1 d.104.1.1 PDB: 1nj2_A 1nj5_A* 1nj6_A*
Length = 501
Score = 38.2 bits (89), Expect = 8e-05
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 8 SHKALPLLLYQFTSKFRDELRPKFGLMRSREFLM 41
SH LP+ YQ + FR E + L+R RE
Sbjct: 152 SHTDLPMRFYQVVNTFRYETKHTRPLIRVREITT 185
>3ial_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, prors, cysrs, RS, translation, ATP-binding,
nucleotide-binding; HET: PR8; 2.20A {Giardia lamblia
atcc 50803}
Length = 518
Score = 37.8 bits (88), Expect = 1e-04
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 8 SHKALPLLLYQFTSKFRDELRPKFGLMRSREFL 40
S+K LPL ++Q + FR E + L+R RE
Sbjct: 137 SYKDLPLKIHQTCTIFRHETKNTKPLIRVREIH 169
>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP,
aminoacyl-tRNA synthetase, ATP-binding,
charcot-marie-tooth disease, disease mutation; HET: B4P;
2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A*
2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A
Length = 693
Score = 36.2 bits (83), Expect = 5e-04
Identities = 16/57 (28%), Positives = 28/57 (49%)
Query: 5 MKLSHKALPLLLYQFTSKFRDELRPKFGLMRSREFLMKDLYAFTASEVDANDVYNLV 61
++ + LP Q + FR+E+ P+ GL+R REF M ++ F + + V
Sbjct: 258 LEFNQGKLPFAAAQIGNSFRNEISPRSGLIRVREFTMAEIEHFVDPSEKDHPKFQNV 314
>1ati_A Glycyl-tRNA synthetase; protein biosynthesis, ligase,
aminoacyl-tRNA SYN; 2.75A {Thermus thermophilus} SCOP:
c.51.1.1 d.104.1.1 PDB: 1b76_A* 1ggm_A*
Length = 505
Score = 35.6 bits (82), Expect = 6e-04
Identities = 12/49 (24%), Positives = 22/49 (44%)
Query: 5 MKLSHKALPLLLYQFTSKFRDELRPKFGLMRSREFLMKDLYAFTASEVD 53
+ + + L + Q FR+E+ P+ + R REF ++ F D
Sbjct: 201 LDATSRKLGFGIAQIGKAFRNEITPRNFIFRVREFEQMEIEYFVRPGED 249
>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 = 28.5 bits (63), Expect = 0.25
Identities = 18/116 (15%), Positives = 35/116 (30%), Gaps = 42/116 (36%)
Query: 7 LSHKAL------PLLLYQFTSKFRDELR-----PKFGLMRSREFLMK-DLYA----FTAS 50
LSH +L P + S+ +++ P G E +L + +S
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSS 70
Query: 51 EVDA------------------------NDVYNLVGKCYDDVFNTLGIKYRKVIVR 82
V+ ND++ L K + N + K +++
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQE--NDTTLVKTKELIK 124
>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase,
ligase, structural G medical structural genomics of
pathogenic protozoa; HET: HIS; 1.80A {Trypanosoma cruzi}
PDB: 3hrk_A* 3hri_A
Length = 456
Score = 26.9 bits (60), Expect = 0.93
Identities = 15/82 (18%), Positives = 28/82 (34%), Gaps = 7/82 (8%)
Query: 1 MVADMKLSHKALPLLLYQFTSKFRDELRPKFGLMRSREFLMKDLYAFTASEVDANDVYNL 60
++ K LP Y +R E G R RE ++ V + +V +
Sbjct: 112 LLL-GKGRSLLLPAKWYSIPQCWRYE-AITRG--RRREHYQWNMDIVGVKSV-SAEVELV 166
Query: 61 VGKCYDDVFNTLGIKYRKVIVR 82
+LG+ + V ++
Sbjct: 167 --CAACWAMRSLGLSSKDVGIK 186
>3kij_A Probable glutathione peroxidase 8; human PDI-peroxidase,
membrane, oxidoreductase, transmembrane; 1.80A {Homo
sapiens} PDB: 3cyn_A
Length = 180
Score = 24.2 bits (53), Expect = 6.0
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 34 MRSREFLMKDLYAFTASEVDANDV 57
M+ + + YAF + V
Sbjct: 8 MKFLKPKINSFYAFEVKDAKGRTV 31
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 23.9 bits (52), Expect = 7.9
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 1 MVADMKLSHKALPLLLYQFTSKFRDEL----RPKFGLMRSREFLMKDLYAFT-ASEVDAN 55
+ + L ++ALPL + FR E + GLMR +F + Y T AS ++
Sbjct: 342 LHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASD 401
Query: 56 DVYNLVGKCYDDVFNTLGIKYRKVIV 81
+ + + +++ L + YR V V
Sbjct: 402 RAFQELLENAEEILRLLELPYRLVEV 427
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 0.142 0.413
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,306,174
Number of extensions: 65145
Number of successful extensions: 177
Number of sequences better than 10.0: 1
Number of HSP's gapped: 175
Number of HSP's successfully gapped: 24
Length of query: 86
Length of database: 6,701,793
Length adjustment: 54
Effective length of query: 32
Effective length of database: 5,194,059
Effective search space: 166209888
Effective search space used: 166209888
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 (23.4 bits)