RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11866
(255 letters)
>3sp1_A Cysteinyl-tRNA synthetase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, LYME
disease; HET: AMP; 2.55A {Borrelia burgdorferi}
Length = 501
Score = 100 bits (251), Expect = 2e-24
Identities = 42/250 (16%), Positives = 80/250 (32%), Gaps = 43/250 (17%)
Query: 10 NNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKH-TARQLRLAFLLHAWH--QTL 66
N W F+H L + KMSKS NFIT++D +++ + R L + H L
Sbjct: 279 LNKKWCDVFVHGEFLIMDYNKMSKSRGNFITVKDLEDQNFSPLDFRY-LCLTS-HYRNQL 336
Query: 67 DYSDNTMEMAVT-YEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTK 125
+S + ++ + E L+N + + + + E F+
Sbjct: 337 KFSLDNLQASKIARENLIN-KLSYFYESLDPVDLNTLNKDLKNFGFSVEKEYYDSFV--- 392
Query: 126 NNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDV 185
+ +++ L + + I N+ ++ +F I +
Sbjct: 393 ----EKISFDLNVAQGLALLWEIIKSDNLSFVSK-------------LRLAFIFDEIMSL 435
Query: 186 KNIGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIKSTEILN--QCDRLRDEV 243
L ++E + + R A+ K N + D +RD
Sbjct: 436 NLREEILKNLQNHDVVIDENM--------KALIEERRIAKCEK-----NFKRADEIRDF- 481
Query: 244 LPNVGVRLED 253
G L D
Sbjct: 482 FAKKGFVLVD 491
>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A
{Coxiella burnetii}
Length = 462
Score = 98.8 bits (247), Expect = 5e-24
Identities = 53/247 (21%), Positives = 96/247 (38%), Gaps = 46/247 (18%)
Query: 10 NNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWH--QTLD 67
+V+ ++H+G L I KMSKSL N I+I++AL + LR FLL H L
Sbjct: 249 EEKPFVKLWMHAGLLEINKEKMSKSLGNIISIREALKESDVEVLRY-FLLSG-HYRNPLS 306
Query: 68 YSDNTMEMA-VTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKN 126
YS +E + E+ +R L + + RF
Sbjct: 307 YSKENLENGRLALERFYLA--------LRGLPVVN---------HEKTSSYTDRFY---- 345
Query: 127 NVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDVK 186
A+ D+ +T A + + + ++N + + + A + + +FG +
Sbjct: 346 ---EAMDDDFNTPIAFALLFEMVREINRFRDNNQIE-KAAVLAAELKCLGNIFGLLQYSP 401
Query: 187 NIGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIKSTEILNQCDRLRDEVLPN 246
+ +++L+ + R EAR K + D++RD+ L +
Sbjct: 402 EQFLQGAKKEADVQEIKKLI------------DQRNEARAKKDWK---TADQIRDQ-LTD 445
Query: 247 VGVRLED 253
+GV +ED
Sbjct: 446 LGVAIED 452
>1li5_A Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys; cysteine,
E.coli, ligase; 2.30A {Escherichia coli} SCOP: a.27.1.1
c.26.1.1 PDB: 1li7_A 1u0b_B
Length = 461
Score = 93.4 bits (233), Expect = 4e-22
Identities = 57/249 (22%), Positives = 91/249 (36%), Gaps = 48/249 (19%)
Query: 10 NNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWH--QTLD 67
++ +V Y++HSG + + KMSKSL NF T++D L + A +R FL+ H L+
Sbjct: 246 HDGQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKYYDAETVRY-FLMSG-HYRSQLN 303
Query: 68 YSDNTMEMA-VTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKN 126
YS+ ++ A E+L +R RFI
Sbjct: 304 YSEENLKQARAALERLYTA--------LRGTDKTVAPAG--------GEAFEARFI---- 343
Query: 127 NVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDVK 186
A+ D+ +T A + D +VN + +++ K+ V G +
Sbjct: 344 ---EAMDDDFNTPEAYSVLFDMAREVNRLKAEDMAA--ANAMASHLRKLSAVLGLLEQEP 398
Query: 187 NIGFPLGGT--GVESTNLEELVLPYLTILSEFRDNIRTEARLIKSTEILNQCDRLRDEVL 244
G E +E L+ R +AR K D RD L
Sbjct: 399 EAFLQSGAQADDSEVAEIEALI------------QQRLDARKAKDWA---AADAARDR-L 442
Query: 245 PNVGVRLED 253
+G+ LED
Sbjct: 443 NEMGIVLED 451
>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA
inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA
synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium
smegmatis}
Length = 414
Score = 73.4 bits (181), Expect = 3e-15
Identities = 27/169 (15%), Positives = 56/169 (33%), Gaps = 31/169 (18%)
Query: 6 QAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHT-ARQLRLAFLLHAWHQ 64
++ + R+++H+G + G KMSKS N + + + +RL + +
Sbjct: 267 ESVTGERRFARHYVHTGMIGWDGHKMSKSRGNLVLVSQLRAQGVDPSAIRLGLFSGHYRE 326
Query: 65 TLDYSDNTMEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQA-DLELSTRFIQ 123
+S+ ++ A + +W A L +
Sbjct: 327 DRFWSNEVLDEA---------------------------NARLARWRSATALPEAPDATD 359
Query: 124 TKNNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPN--QLLLRDIGA 170
V L D++DT AL ++ + Y +L+ + A
Sbjct: 360 VIARVRQYLADDLDTPKALAALDGWCTDALSYGGHDTESPRLVATTVDA 408
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 70.4 bits (172), Expect = 5e-14
Identities = 36/189 (19%), Positives = 68/189 (35%), Gaps = 20/189 (10%)
Query: 1 MSFRF--QAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFL 58
F F A F + W + +G T+ G KMSKS N + DA+ ++ A +RL +
Sbjct: 619 TFFIFNHVAIFREEHWPKGIAVNGFGTLEGQKMSKSKGNVLNFIDAIEENGADVVRLYIM 678
Query: 59 LHA-WHQTLDYSDNTMEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLEL 117
A D+ + K + F+ + + ++W +
Sbjct: 679 SLAEHDSDFDWRRKEVGKLR---KQIERFYELISQFAEYEVKGNVELKDIDRW------M 729
Query: 118 STRFIQTKNNVHAALCDNMDTRSALDS-IRDCISQVNIYLR------GTPNQLLLRDIGA 170
R + AL + TR+A+ ++ + YLR + +LR +
Sbjct: 730 LHRLNKAIKETTNAL-EEFRTRTAVQWAFYSIMNDLRWYLRRTEGRDDEAKRYVLRTLAD 788
Query: 171 YVTKILTVF 179
+++ F
Sbjct: 789 VWVRLMAPF 797
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 68.8 bits (168), Expect = 2e-13
Identities = 35/187 (18%), Positives = 67/187 (35%), Gaps = 18/187 (9%)
Query: 1 MSFRFQAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLH 60
F A F + W + +G T+ G KMSKS N + DA+ ++ A +RL +
Sbjct: 621 FIFNHVAIFREEHWPKGIAVNGFGTLEGQKMSKSKGNVLNFIDAIEENGADVVRLYIMSL 680
Query: 61 A-WHQTLDYSDNTMEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELST 119
A D+ + K + F+ + + ++W +
Sbjct: 681 AEHDSDFDWRRKEVGKLR---KQIERFYELISQFAEYEVKGNVELKDIDRW------MLH 731
Query: 120 RFIQTKNNVHAALCDNMDTRSALDSI-RDCISQVNIYLR------GTPNQLLLRDIGAYV 172
R + AL + TR+A+ ++ + YLR + +LR +
Sbjct: 732 RLNKAIKETTNAL-EEFRTRTAVQWAFYSIMNDLRWYLRRTEGRDDEAKRYVLRTLADVW 790
Query: 173 TKILTVF 179
+++ F
Sbjct: 791 VRLMAPF 797
>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase,
tRNA ligase metrs, methionine, translation, ATP-binding;
HET: ME8; 2.00A {Leishmania major}
Length = 564
Score = 56.5 bits (137), Expect = 2e-09
Identities = 32/151 (21%), Positives = 50/151 (33%), Gaps = 22/151 (14%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHA--WHQTLDYSDNTM 73
R H G T K+SKSL N + + L+ FL+ + DYSD M
Sbjct: 326 RLVSH-GWWTKDHKKISKSLGNAFDPVEKAKEFGIDALKY-FLMRESNFQDDGDYSDKNM 383
Query: 74 EMAVTYEKLLNEFFLNVKDHIRNL--------KFPATTVSSFEKWTQADLELSTRFIQTK 125
+ E L + NL +++++D L
Sbjct: 384 VARLNGE-LADTL--------GNLVSRCVAPKINVNGMWPEPAEYSESDKTLIASLNNLA 434
Query: 126 NNVHAALCDNMDTRSALDSIRDCISQVNIYL 156
V D + AL +I D + +N Y+
Sbjct: 435 GTVDHYY-CLPDIQHALIAIFDVLRSLNAYV 464
>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 = 56.2 bits (135), Expect = 3e-09
Identities = 47/249 (18%), Positives = 82/249 (32%), Gaps = 62/249 (24%)
Query: 12 DSW-VRYF-LHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYS 69
D++ R L G L + + A A QL+ F + L
Sbjct: 2 DAYSTRPLTLSHGSLEHV-----------LLVPTASFFI-ASQLQEQFN-----KIL--P 42
Query: 70 DNTMEMAVTYE-----KLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADL-ELSTRFIQ 123
+ T A E +L+ +F ++ +L P+ V F++ L E +++
Sbjct: 43 EPTEGFAADDEPTTPAELVGKFL----GYVSSLVEPSK-VGQFDQVLNLCLTEFENCYLE 97
Query: 124 TKNNVHAALCD-NMDTRSALDSIRDCI-------SQVNIYLRGTPNQLLLRDIGAYVTKI 175
N++HA + + L ++ I N L R +G ++
Sbjct: 98 G-NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Query: 176 LTVFGCIGDVKNIGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIK-STEILN 234
+ +FG G G EEL Y T + + LIK S E L+
Sbjct: 157 VAIFG-------------GQGNTDDYFEELRDLYQT----YHVLVG---DLIKFSAETLS 196
Query: 235 QCDRLRDEV 243
+ R +
Sbjct: 197 ELIRTTLDA 205
Score = 40.8 bits (95), Expect = 3e-04
Identities = 49/251 (19%), Positives = 80/251 (31%), Gaps = 87/251 (34%)
Query: 3 FRFQAYFNN----DSWVRYFLHSGH------LTIAGCKMSKSLKNFITIQDALNKH--TA 50
R + N S + L + L+I+ + +++++ + N H
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ-VQDYV---NKTNSHLPAG 363
Query: 51 RQLRLAFLLHAWHQTLDYSDNTMEMAV---TYEKLLNEFFLNVKDHIRNLKFPATTVSSF 107
+Q+ ++ L N + V + L LN+ +R K P+ S
Sbjct: 364 KQVEIS--LV----------NGAKNLVVSGPPQSLYG---LNL--TLRKAKAPSGLDQSR 406
Query: 108 EKWTQADLELSTRF------------------IQT---KNNV---HAAL-------CDNM 136
+++ L+ S RF I KNNV + D
Sbjct: 407 IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466
Query: 137 DTR----SALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDVKNIGFPL 192
D R S + I DCI ++ + T T IL FG G +G L
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVKWETTTQ--------FKATHIL-DFG-PGGASGLG-VL 515
Query: 193 -----GGTGVE 198
GTGV
Sbjct: 516 THRNKDGTGVR 526
Score = 35.4 bits (81), Expect = 0.017
Identities = 42/242 (17%), Positives = 74/242 (30%), Gaps = 62/242 (25%)
Query: 5 FQAYF--NND--SWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLH 60
F+ + ND + L T+ K + +KN+IT + + ++ A
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLV--KTKELIKNYITARIMAKRPFDKKSNSALFRA 148
Query: 61 AWH-----------Q--TLDYSDNTMEMA---VTYEKLLNEFFLNVKDHIRNLKFPATTV 104
Q T DY + E+ TY L+ + + + L T
Sbjct: 149 VGEGNAQLVAIFGGQGNTDDYFE---ELRDLYQTYHVLVGDLIKFSAETLSEL---IRTT 202
Query: 105 SSFEKWTQADLELSTRFIQTKNNVHAALCDNMDTRSALDS---IRDCISQVNIYLR---- 157
EK L + +++ +N D S S I + Q+ Y+
Sbjct: 203 LDAEKVFTQGLNI-LEWLENPSNTP----DKDYLLSIPISCPLI--GVIQLAHYVVTAKL 255
Query: 158 -G-TPNQLLLRDIGAYVTKILTVFGCIGDVKNIGFPLGGTGVEST----NLEELVLPYLT 211
G TP +L GA G + + + T + V +T
Sbjct: 256 LGFTPGELRSYLKGA--------TGHSQGL------VTAVAIAETDSWESFFVSVRKAIT 301
Query: 212 IL 213
+L
Sbjct: 302 VL 303
>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein
biosynthesis, ligase, aminoacyl- synthetase; HET: ADN
CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A*
Length = 524
Score = 53.0 bits (128), Expect = 3e-08
Identities = 37/149 (24%), Positives = 54/149 (36%), Gaps = 17/149 (11%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLD--YSDNTM 73
R F H G L G KMSKS+ N + + ++ Q+R FLL D Y+++ +
Sbjct: 297 RIFAH-GWLLNRGEKMSKSIGNVVDPVNLVDTFGLDQVRY-FLLREVPFGQDGSYNEDAI 354
Query: 74 EMAVTYEKLLNEF--FLNVKDHIRNL----KFPATTVSSFEKWTQADLELSTRFIQTKNN 127
V + L NE R+L K V ++T D L
Sbjct: 355 IGRVNAD-LANELGNLAQ-----RSLSMVAKNLGAAVPDPGEFTDEDTALLAAADALLER 408
Query: 128 VHAALCDNMDTRSALDSIRDCISQVNIYL 156
V D AL++I + N Y
Sbjct: 409 VREHF-DVPAMHLALEAIWSVLGAANRYF 436
>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class
IA:methionyl-tRNA...; structural genomics; 2.65A
{Brucella melitensis biovar abortus 230ORGANISM_TAXID}
Length = 536
Score = 52.3 bits (126), Expect = 5e-08
Identities = 36/149 (24%), Positives = 57/149 (38%), Gaps = 17/149 (11%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLD--YSDNTM 73
R F H G L G KMSKS+ N I + + ++ QLR FL+ D YS +
Sbjct: 308 RVFAH-GFLFNRGEKMSKSVGNVIDPFELVERYGLDQLRY-FLMREVPFGQDGSYSHEAI 365
Query: 74 EMAVTYEKLLNEF--FLNVKDHIRNL----KFPATTVSSFEKWTQADLELSTRFIQTKNN 127
+ L N+ R+L K V +++AD + +
Sbjct: 366 VNRTNAD-LANDLGNLAQ-----RSLSMIAKNCEGKVPQPGAFSEADKAILDQADAALET 419
Query: 128 VHAALCDNMDTRSALDSIRDCISQVNIYL 156
A+ D+ AL +I +++ N Y
Sbjct: 420 ARKAM-DDQALHLALGAIFAVVAEANRYF 447
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A
{Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1
Length = 722
Score = 50.9 bits (122), Expect = 1e-07
Identities = 30/143 (20%), Positives = 50/143 (34%), Gaps = 14/143 (9%)
Query: 21 SGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQT-LDYSDNTMEMAVTY 79
+ +LT+ G K S S I + + L+ A LR D+S + ++ +
Sbjct: 335 NEYLTLEGKKFSTSRNWAIWVHEFLDVFPADYLRYYLTTIMPETRDSDFSFSDFKVRINE 394
Query: 80 EKLLNEF--FLNVKDHIRNLKFPAT----TVSSFEKWTQADLELSTRFIQTKNNVHAALC 133
E L+N F++ R L F V + + D E + V +
Sbjct: 395 E-LVNNLGNFVH-----RALTFVNRYFDGVVPERGELDELDREALEEIEKAFKEVGELI- 447
Query: 134 DNMDTRSALDSIRDCISQVNIYL 156
N + AL + S N Y
Sbjct: 448 MNYRFKDALKRVMSLASFGNRYF 470
>2csx_A Methionyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus}
PDB: 2ct8_A*
Length = 497
Score = 50.7 bits (122), Expect = 2e-07
Identities = 32/151 (21%), Positives = 59/151 (39%), Gaps = 26/151 (17%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLD--YSDNTM 73
+ F H G T+ G KMSK+L N + + + ++ ++R FLL D +S +
Sbjct: 282 KVFAH-GWWTVEGKKMSKTLGNVVDPYEVVQEYGLDEVRY-FLLREVPFGQDGDFSKKAI 339
Query: 74 EMAVTYEKLLNEF--FLNVKDHIRNLKFPATTVSSFEKW------TQADLELSTRFIQTK 125
+ E L NE + R V+ K+ D E + ++
Sbjct: 340 LNRINGE-LANEIGNLYS-----R-------VVNMAHKFLGGEVSGARDEEYAKIAQESI 386
Query: 126 NNVHAALCDNMDTRSALDSIRDCISQVNIYL 156
N + + ++ A++ I S +N Y+
Sbjct: 387 KNYENYM-EKVNFYKAIEEILKFTSYLNKYV 416
>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 = 48.7 bits (115), Expect = 8e-07
Identities = 27/165 (16%), Positives = 58/165 (35%), Gaps = 39/165 (23%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEM 75
+ S +L ++ L+N + AL++ + + Y D
Sbjct: 425 TISIPSIYL-----ELKVKLEN----EYALHRSIVDHYNIPKTFDSDDLIPPYLDQ---- 471
Query: 76 AVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAALCDN 135
Y F+ ++ H++N++ ++ F D RF++ K + +
Sbjct: 472 ---Y------FYSHIGHHLKNIE-HPERMTLFRMVFL-DF----RFLEQK------IRHD 510
Query: 136 MDTRSALDSIRDCISQVNIYLRG-TPN----QLLLRDIGAYVTKI 175
+A SI + + Q+ Y N + L+ I ++ KI
Sbjct: 511 STAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKI 555
Score = 32.5 bits (73), Expect = 0.15
Identities = 17/108 (15%), Positives = 39/108 (36%), Gaps = 14/108 (12%)
Query: 6 QAYFNND----SWVRYFL-HSG-HLTIAG-----CKMSKSLKNFITIQDALNKHTARQLR 54
+ + ++D +YF H G HL +F ++ + +
Sbjct: 457 KTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNA 516
Query: 55 LAFLLHAWHQTLDYSDNTMEMAVTYEKLLN---EFFLNVKDHIRNLKF 99
+L+ Q Y + YE+L+N +F +++++ K+
Sbjct: 517 SGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKY 564
>3tun_A Methionyl-tRNA synthetase; aminoacyl-tRNA synthetase, AARS, metrs,
parasite, protein-IN complex, translation, nucleotide
binding; HET: C13; 2.55A {Trypanosoma brucei}
Length = 542
Score = 47.7 bits (113), Expect = 1e-06
Identities = 28/147 (19%), Positives = 46/147 (31%), Gaps = 14/147 (9%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLH-AWHQTLDYSDNTME 74
+ H G T K+SKSL N + + L+ L + DYSD M
Sbjct: 310 KIVAH-GWWTKDRKKISKSLGNVFDPVEKAEEFGYDALKYFLLRESGFSDDGDYSDKNMI 368
Query: 75 MAVTYEKLLNEF--FLNVKDHIRNL---KFPATTVSSFEKWTQADLELSTRFIQTKNNVH 129
+ E L + + R S +T+ D L
Sbjct: 369 ARLNGE-LADTLGNLVM-----RCTSAKINVNGEWPSPAAYTEEDESLIQLIKDLPGTAD 422
Query: 130 AALCDNMDTRSALDSIRDCISQVNIYL 156
D + A+ ++ D + +N Y+
Sbjct: 423 HYY-LIPDIQKAIIAVFDVLRAINAYV 448
>2d5b_A Methionyl-tRNA synthetase; rossmann fold, class 1A AARS, isomerase,
structural genomics, NPPSFA; 1.80A {Thermus
thermophilus} SCOP: a.27.1.1 c.26.1.1 PDB: 1woy_A 1a8h_A
2d54_A
Length = 500
Score = 44.9 bits (107), Expect = 1e-05
Identities = 25/152 (16%), Positives = 46/152 (30%), Gaps = 27/152 (17%)
Query: 16 RYFLHSGHLTIA-GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLD--YSDNT 72
+ G L G KMSK+L N + L K+ LR +LL D S+
Sbjct: 283 HLNVG-GFLLGPDGRKMSKTLGNVVDPFALLEKYGRDALRY-YLLREIPYGQDTPVSEEA 340
Query: 73 MEMAVTYEKLLNEF--FLNVKDHIRNLKFPATTVSSFEKW------TQADLELSTRFIQT 124
+ + L ++ + R T + ++ E
Sbjct: 341 LRTRYEAD-LADDLGNLVQ-----R-------TRAMLFRFAEGRIPEPVAGEELAEGTGL 387
Query: 125 KNNVHAALCDNMDTRSALDSIRDCISQVNIYL 156
+ + + AL+ + +N Y+
Sbjct: 388 AGRLRPLV-RELKFHVALEEAMAYVKALNRYI 418
>3h99_A Methionyl-tRNA synthetase; rossmann fold, aminoacyl-tRNA
synthetase, ATP-binding, ligas binding,
nucleotide-binding, protein biosynthesis; HET: CIT;
1.40A {Escherichia coli} PDB: 3h97_A* 3h9b_A* 1f4l_A
3h9c_A* 1pfv_A* 1pfu_A 1p7p_A* 1pfw_A* 1pfy_A* 1pg0_A*
1pg2_A* 1qqt_A 1mea_A 1med_A
Length = 560
Score = 43.4 bits (103), Expect = 4e-05
Identities = 32/143 (22%), Positives = 51/143 (35%), Gaps = 17/143 (11%)
Query: 21 SGHLTIAGCKMSKSLKNFITIQDALNKHTARQLR--LAFLLHAWHQTLDYSDNTMEMAVT 78
G++T+ G KMSKS FI LN A LR L + +D + V
Sbjct: 336 HGYVTVNGAKMSKSRGTFIKASTWLNHFDADSLRYYYTAKLSSRIDDIDLNLEDFVQRVN 395
Query: 79 YEKLLNEF--FLNVKDHIRNLKFPATTVSSFEK---WTQADLELSTRFIQTKNNVHAALC 133
+ ++N+ + RN F F+ AD +L F + A
Sbjct: 396 AD-IVNKVVNLAS-----RNAGF---INKRFDGVLASELADPQLYKTFTDAAEVIGEAW- 445
Query: 134 DNMDTRSALDSIRDCISQVNIYL 156
++ + A+ I N Y+
Sbjct: 446 ESREFGKAVREIMALADLANRYV 468
>1ile_A Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken
structural genomics/proteom initiative, RSGI, structural
genomics; 2.50A {Thermus thermophilus} SCOP: a.27.1.1
b.51.1.1 c.26.1.1 PDB: 1jzq_A* 1jzs_A*
Length = 821
Score = 42.9 bits (102), Expect = 7e-05
Identities = 32/138 (23%), Positives = 50/138 (36%), Gaps = 13/138 (9%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHA--WHQTLDYSDNTMEMAV--TYEKLL 83
G KMSKS N + D + K A LR + A + N + V + L
Sbjct: 589 GQKMSKSKGNVVDPWDIIRKFGADALRWYIYVSAPPEAD-RRFGPNLVRETVRDYFLTLW 647
Query: 84 N--EFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAALCDNMDTRSA 141
N FF+ + + EK + D L R V AL + D ++
Sbjct: 648 NVYSFFVT---YANLDRPDLKNPPPPEKRPEMDRWLLARMQDLIQRVTEAL-EAYDPTTS 703
Query: 142 LDSIRD-CISQV-NIYLR 157
++RD + + Y+R
Sbjct: 704 ARALRDFVVEDLSQWYVR 721
>1ffy_A Isoleucyl-tRNA synthetase; protein-RNA complex, metal IONS, editing
tRNA synthetase, double-sieve, ligase/RNA, mupiroci;
HET: MRC; 2.20A {Staphylococcus aureus} SCOP: a.27.1.1
b.51.1.1 c.26.1.1 PDB: 1qu2_A* 1qu3_A*
Length = 917
Score = 34.8 bits (81), Expect = 0.028
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEMAVTYE 80
G KMSKSL N I + + A RL W + DY ++ ++ E
Sbjct: 593 GKKMSKSLGNVIVPDQVVKQKGADIARL------WVSSTDYLA---DVRISDE 636
>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein
biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus}
PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*
Length = 878
Score = 30.6 bits (70), Expect = 0.57
Identities = 18/91 (19%), Positives = 35/91 (38%), Gaps = 7/91 (7%)
Query: 29 CKMSKSLKNFITIQDALNKHTARQLRLAFLLHA--WHQTLDYSDNTMEMAVTYEKLLNEF 86
MSKS N + + + + A R+ +L A + +++ ++ A + LN
Sbjct: 636 AVMSKSKGNGVMVGPFVKEQGADIARI-TILFAAPPENEMVWTEEGVQGA---WRFLNRI 691
Query: 87 FLNVKDHIRNLKFPATTVSSFEKWTQADLEL 117
+ V + L + + E D EL
Sbjct: 692 YRRVAEDREALLETSGVFQA-EALEGKDREL 721
>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding,
protein biosynthesis I aminoacyl-tRNA synthetase,
ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A
4ari_A* 4as1_A*
Length = 880
Score = 30.6 bits (70), Expect = 0.59
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 6/82 (7%)
Query: 30 KMSKSLKNFITIQDALNKHTARQLRLAFLLHA--WHQTLDYSDNTMEMAVTYEKLLNEFF 87
KMSKS N I Q + ++ A +RL F++ A TL++ ++ +E A + L +
Sbjct: 639 KMSKSKNNGIDPQVMVERYGADTVRL-FMMFASPADMTLEWQESGVEGA---NRFLKRVW 694
Query: 88 LNVKDHIRNLKFPATTVSSFEK 109
V +H A V + +
Sbjct: 695 KLVYEHTAKGDVAALNVDALTE 716
>2g36_A Tryptophanyl-tRNA synthetase; TM0492, structural genomics, joint
center for struc genomics, JCSG, protein structure
initiative, PSI, ligase; HET: TRP; 2.50A {Thermotoga
maritima}
Length = 340
Score = 28.7 bits (65), Expect = 1.7
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 28 GCKMSKSLKNFITIQD 43
G KMSKS N I ++
Sbjct: 203 GRKMSKSYGNIINLEI 218
>2el7_A Tryptophanyl-tRNA synthetase; aminoacyl-tRNA synthetase,
translation, structural GEN NPPSFA; 2.50A {Thermus
thermophilus}
Length = 337
Score = 28.3 bits (64), Expect = 2.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 30 KMSKSLKNFITIQD 43
KMSKSL N I + +
Sbjct: 195 KMSKSLGNTIGLLE 208
>1yi8_B Tryptophanyl-tRNA synthetase; ligase; HET: TRP; 2.10A {Deinococcus
radiodurans} PDB: 1yia_B* 1yid_B* 2a4m_A*
Length = 351
Score = 27.9 bits (63), Expect = 2.9
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 30 KMSKSLKNFITIQD 43
KMSKSL N I + D
Sbjct: 215 KMSKSLGNAIALGD 228
>1w36_C RECC, exodeoxyribonuclease V gamma chain; recombination, helicase,
hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli}
SCOP: c.37.1.19 c.37.1.19 c.52.1.25 PDB: 3k70_C*
Length = 1122
Score = 28.4 bits (62), Expect = 3.2
Identities = 28/195 (14%), Positives = 70/195 (35%), Gaps = 12/195 (6%)
Query: 58 LLHAWHQTL-DYSDNTMEMAVTYEKLLNE------FFLNVKDHIRNLKFPATTVSSFEKW 110
LL +W + DY ++ + E N++ I L+ A + E++
Sbjct: 299 LLASWGKLGRDYIYLLSDLESSQELDAFVDVTPDNLLHNIQSDILELENRAVAGVNIEEF 358
Query: 111 TQADLELSTRFIQTKNNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGA 170
+++D + + + H + D + + + + L +++ DI +
Sbjct: 359 SRSDNKRPLDPLDSSITFHVCHSPQREVEVLHDRLLAMLEE-DPTLTPRDIIVMVADIDS 417
Query: 171 YVTKILTVFGCIGDVKNIGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEA--RLIK 228
Y I VFG + + P + + ++ ++++LS +E L+
Sbjct: 418 YSPFIQAVFGSAPADRYL--PYAISDRRARQSHPVLEAFISLLSLPDSRFVSEDVLALLD 475
Query: 229 STEILNQCDRLRDEV 243
+ + D + +
Sbjct: 476 VPVLAARFDITEEGL 490
>2cyb_A Tyrosyl-tRNA synthetase; rossmann-fold, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: TYR; 1.80A {Archaeoglobus
fulgidus}
Length = 323
Score = 27.6 bits (62), Expect = 3.8
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 28 GCKMSKSLKNFITIQDA 44
G KMS S N+I+++D
Sbjct: 212 GQKMSSSKGNYISVRDP 228
>3tzl_A Tryptophanyl-tRNA synthetase; structural genomics, center for
structural genomics of infec diseases, csgid, alpha-beta
structure; HET: ADP TRP; 2.15A {Campylobacter jejuni
subsp} PDB: 3m5w_A*
Length = 322
Score = 27.5 bits (62), Expect = 4.1
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 28 GCKMSKSLKNFITIQD 43
G KMSKS +N I I
Sbjct: 190 GAKMSKSYQNTIDIFS 205
>2zp1_A Tyrosyl-tRNA synthetase; tRNA synthetases class I, ligase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
nucleotide-binding; HET: IYR; 1.70A {Methanocaldococcus
jannaschii} PDB: 1zh6_A* 1j1u_A* 1u7d_A 2q1g_A* 2pxh_A*
1zh0_A* 2q1i_A* 2ag6_A* 3qe4_A* 3d6u_A* 3d6v_A* 1u7x_A
3n2y_A* 2hgz_A*
Length = 314
Score = 27.6 bits (62), Expect = 4.6
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 30 KMSKSLKNFITIQD 43
KMS S NFI + D
Sbjct: 204 KMSSSKGNFIAVDD 217
>1elk_A Target of MYB1; superhelix of helices, endocytosis/exocytosis
complex; 1.50A {Homo sapiens} SCOP: a.118.9.2
Length = 157
Score = 26.8 bits (59), Expect = 5.0
Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 1/63 (1%)
Query: 23 HLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEMAVTYEKL 82
H+ +A +S+ + N T ++ L+ +W S + + YE L
Sbjct: 90 HVLVASQDFVESVLVRTILPKN-NPPTIVHDKVLNLIQSWADAFRSSPDLTGVVTIYEDL 148
Query: 83 LNE 85
+
Sbjct: 149 RRK 151
>3k5i_A Phosphoribosyl-aminoimidazole carboxylase; purine biosynthesis,
ATP-grAsp, lyase; HET: NHE ADP AIR; 2.00A {Aspergillus
clavatus} PDB: 3k5h_A*
Length = 403
Score = 26.8 bits (60), Expect = 8.2
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 21 SGHLTIAGCKMS 32
SGH TI GC +S
Sbjct: 295 SGHYTIEGCALS 306
>3orq_A N5-carboxyaminoimidazole ribonucleotide synthetas; ATP-grAsp
superfamily, ligase,biosynthetic protein; HET: MSE ADP;
2.23A {Staphylococcus aureus subsp} PDB: 3orr_A
Length = 377
Score = 26.7 bits (60), Expect = 9.1
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 21 SGHLTIAGCKMS 32
SGH +I C S
Sbjct: 278 SGHYSIEACDYS 289
>1ywf_A Phosphotyrosine protein phosphatase PTPB; four stranded parallel
beta sheet with flanking helices, structural genomics,
PSI; 1.71A {Mycobacterium tuberculosis} SCOP: c.45.1.5
PDB: 2oz5_A*
Length = 296
Score = 26.5 bits (57), Expect = 9.7
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 11/50 (22%)
Query: 126 NNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKI 175
++ H + R + ++R+ L G N RD+ T +
Sbjct: 4 SHHHHHHSSGLVPRGSHMAVRE--------LPGAWN---FRDVADTATAL 42
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 0.137 0.405
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,806,739
Number of extensions: 213869
Number of successful extensions: 447
Number of sequences better than 10.0: 1
Number of HSP's gapped: 428
Number of HSP's successfully gapped: 42
Length of query: 255
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 164
Effective length of database: 4,160,982
Effective search space: 682401048
Effective search space used: 682401048
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: 56 (25.3 bits)