RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2359
(137 letters)
>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 = 54.9 bits (133), Expect = 6e-10
Identities = 28/129 (21%), Positives = 60/129 (46%), Gaps = 15/129 (11%)
Query: 1 MHRPLESDCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNV 60
+ +PLE+D ++++ + + S + ++ + + + V+ P +
Sbjct: 49 LTKPLETDGSIEIVTPGSEE---ALEVLRHSTAHLMAHAIKRLYGN---VKFGVGPV--I 100
Query: 61 KSGSFVYDVQLSGVDNWKP-TSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNK 119
+ G F YD D + +S + + M ++ E + ER +S+D A+ LF +++
Sbjct: 101 EGG-FYYDF-----DIDQNISSDDFEQIEKTMKQIVNENMKIERKVVSRDEAKELFSNDE 154
Query: 120 YKLEQIPSI 128
YKLE I +I
Sbjct: 155 YKLELIDAI 163
>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 = 46.8 bits (112), Expect = 3e-07
Identities = 29/134 (21%), Positives = 50/134 (37%), Gaps = 29/134 (21%)
Query: 1 MHRPLESDCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPS--- 57
+E+D +L ++ D + SC+ +L +A K QL +P
Sbjct: 47 ACDLIENDAQLSIITAKDEEGLE---IIRHSCA----HLLGHAIK-----QL--WPHTKM 92
Query: 58 ---PNVKSGSFVYDVQLSGVDNWKPTSAE-LRVLSAEMVKLAYEAVPFERLSISQDLAEA 113
P + +G F YDV D + + E + L M +LA + + +S A
Sbjct: 93 AIGPVIDNG-FYYDV-----DLDRTLTQEDVEALEKRMHELAEKNYDVIKKKVSWHEARE 146
Query: 114 LFE--HNKYKLEQI 125
F YK+ +
Sbjct: 147 TFANRGESYKVSIL 160
>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 = 43.2 bits (103), Expect = 5e-06
Identities = 31/140 (22%), Positives = 55/140 (39%), Gaps = 33/140 (23%)
Query: 3 RPLESDCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPS----- 57
+E+D +L ++ D + SC+ +L +A K QL +P
Sbjct: 49 DLIENDAQLSIITAKDEEGLE---IIRHSCA----HLLGHAIK-----QL--WPHTKMAI 94
Query: 58 -PNVKSGSFVYDVQLSGVDNWKP-TSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALF 115
P + +G F YDV D + T ++ L M +LA + + +S A F
Sbjct: 95 GPVIDNG-FYYDV-----DLDRTLTQEDVEALEKRMHELAEKNYDVIKKKVSWHEARETF 148
Query: 116 EHN--KYKLEQIPSIVQQSI 133
+ YK+ I+ ++I
Sbjct: 149 ANRGESYKVS----ILDENI 164
>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 = 32.7 bits (74), Expect = 0.028
Identities = 20/102 (19%), Positives = 33/102 (32%), Gaps = 42/102 (41%)
Query: 19 SDPYHSNRTFWRSCSIMLGS---VLSNAFKDNVEVQLHSFPSPNVKSGSFVYDVQLSGVD 75
+ P+HS +++ + + + K+NV P VYD G D
Sbjct: 424 ASPFHS--------HLLVPASDLINKDLVKNNVSFNAKDIQIP-------VYDTF-DGSD 467
Query: 76 NWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEH 117
LRVLS SIS+ + + +
Sbjct: 468 --------LRVLSG---------------SISERIVDCIIRL 486
>1wwt_A Threonyl-tRNA synthetase, cytoplasmic; TGS domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, ligase; NMR {Homo sapiens}
Length = 88
Score = 29.5 bits (67), Expect = 0.11
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
Query: 1 MHRPLESDCELQLLHFYDSDPYHSNRTFWRSCS 33
+ RPLE DC L+LL F D + + + S
Sbjct: 58 LDRPLEEDCTLELLKFEDEE---AQAVYSGPSS 87
>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 = 28.7 bits (63), Expect = 0.63
Identities = 21/149 (14%), Positives = 53/149 (35%), Gaps = 27/149 (18%)
Query: 12 QLLHFYDSDPYHSN------RTFWRS-----CSIMLGSVLS----NAFKDNVEVQLHSFP 56
+ + R +S C ++L +V + NAF + ++ L +
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF 274
Query: 57 SPNVKSGSFVYDVQLSGVDNWKP-TSAELRVLSAEMVKLAYEAVPFERLSIS----QDLA 111
S +S + T E++ L + + + +P E L+ + +A
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA 334
Query: 112 EALFEHN-------KYKLEQIPSIVQQSI 133
E++ + +++ +I++ S+
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSL 363
>3r24_A NSP16, 2'-O-methyl transferase; methyltransferase, zinc-finger,
transferase, viral protein; HET: SAM; 2.00A {Sars
coronavirus}
Length = 344
Score = 27.0 bits (59), Expect = 2.2
Identities = 10/44 (22%), Positives = 18/44 (40%)
Query: 18 DSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNVK 61
D H+N FWR+ + + S S ++L ++K
Sbjct: 266 DGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLK 309
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 27.3 bits (61), Expect = 2.2
Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 82 AELRVLSAEMVKL--AYEAVPFERLSISQDL 110
E+ + +MV +E +P++ S QD+
Sbjct: 60 DEISQFTDQMVMNLADWETLPYDSFSPHQDI 90
>2xyq_A Putative 2'-O-methyl transferase; transferase-viral protein
complex, rossman fold; HET: SAH; 2.00A {Sars
coronavirus} PDB: 2xyv_A* 2xyr_A*
Length = 290
Score = 27.0 bits (59), Expect = 2.4
Identities = 10/44 (22%), Positives = 18/44 (40%)
Query: 18 DSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNVK 61
D H+N FWR+ + + S S ++L ++K
Sbjct: 220 DGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLK 263
>3hjh_A Transcription-repair-coupling factor; MFD, mutation frequency
decline, ATP-binding, DNA DAMA repair, DNA-binding,
helicase, hydrolase; 1.95A {Escherichia coli} PDB:
2b2n_A* 4dfc_A
Length = 483
Score = 26.6 bits (59), Expect = 2.9
Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 82 AELRVLSAEMVKL--AYEAVPFERLSISQDL 110
E+ + +MV +E +P++ S QD+
Sbjct: 57 DEISQFTDQMVMNLADWETLPYDSFSPHQDI 87
>3h05_A Uncharacterized protein VPA0413; nucleotidylyl, transferase, MCSG,
midwest center for structu genomics, PSI; 1.65A {Vibrio
parahaemolyticus}
Length = 177
Score = 26.0 bits (58), Expect = 3.5
Identities = 3/28 (10%), Positives = 9/28 (32%), Gaps = 3/28 (10%)
Query: 80 TSAELRVLSAEMVKLAYEAVPFERLSIS 107
+R ++V + + + S
Sbjct: 46 LDYPIRC---KLVDAFIKDMGLSNVQRS 70
>2yib_D RNA-directed RNA polymerase; transferase, reverse transcriptase,
IPNV; 3.80A {Infectious pancreatic necrosis virus}
Length = 770
Score = 25.4 bits (54), Expect = 8.3
Identities = 12/103 (11%), Positives = 45/103 (43%), Gaps = 11/103 (10%)
Query: 26 RTFWRSC--SIMLGSVLSNAFKDNVEVQLHSFPSPNVKSGSFVY---DVQLSGVDNWKPT 80
R W + + +L S++S + ++ + + +P++ S + D ++ + +
Sbjct: 319 RNIWSAPYPTHLLLSMVSTPVMNESKLNITNTQTPSLYGFSPFHGGMDRIMTIIRDSLDN 378
Query: 81 SAELRVLSAEMVKLAYE----AVPFERL--SISQDLAEALFEH 117
+L ++ A+ + + + ++ E+ + + +A+ +
Sbjct: 379 DEDLVMIYADNIYILQDNTWYSIDLEKGEANCTPQHMQAMMYY 421
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
0.317 0.131 0.382
Gapped
Lambda K H
0.267 0.0505 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,980,000
Number of extensions: 101196
Number of successful extensions: 168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 165
Number of HSP's successfully gapped: 16
Length of query: 137
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 53
Effective length of database: 4,356,429
Effective search space: 230890737
Effective search space used: 230890737
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: 41 (21.7 bits)
S2: 52 (24.3 bits)