RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 009329
(537 letters)
>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 = 716 bits (1851), Expect = 0.0
Identities = 205/491 (41%), Positives = 278/491 (56%), Gaps = 34/491 (6%)
Query: 19 LKIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEV 78
LKI+N++T+QKE F PI G+VGMYVCG+T YDL H+GH R V+FD++ RYL L ++
Sbjct: 2 LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVARYLRFLGYKL 61
Query: 79 TYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQI 138
YVRN TD+DDKII+RAN+ GE+ +++ +R E D L L P +PR + H+ +I
Sbjct: 62 KYVRNITDIDDKIIKRANENGESFVAMVDRMIAEMHKDFDALNILRPDMEPRATHHIAEI 121
Query: 139 KDMITQIINNDCAYVVE-GDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADF 197
++ Q+I AYV + GDV F V P YG LS Q L+ +AG RV V KRNP DF
Sbjct: 122 IELTEQLIAKGHAYVADNGDVMFDVPTDPTYGVLSRQDLDQLQAGARVDVVDDKRNPMDF 181
Query: 198 ALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQ 257
LWK +K GEPSW SPWG GRPGWHIECSAM+ L + FDIHGGG DL+FPHHENEIAQ
Sbjct: 182 VLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNCKQLGNHFDIHGGGSDLMFPHHENEIAQ 241
Query: 258 SCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSP 317
S A V+YWMH+G V + EKMSKSLGNFFT+R + + Y +R+FL+S HYRS
Sbjct: 242 STCAHDGQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKYYDAETVRYFLMSGHYRSQ 301
Query: 318 LNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARM 377
LNYS L A A+ +Y L+ + ++P F M
Sbjct: 302 LNYSEENLKQARAALERLYTALRGTDKTVAPAGG---------------EAFEARFIEAM 346
Query: 378 SDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGL 437
DD NT + F D + +N + + + + ++++ +LGL
Sbjct: 347 DDDFNTPEAYSVLF-DMAREVNRLKA------------EDMAAANAMASHLRKLSAVLGL 393
Query: 438 LPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIA 497
L + + + + ++ LI++R ARK KD++ +D R L GI
Sbjct: 394 LE-----QEPEAFLQSGAQADDSEVAEIEALIQQRLDARKAKDWAAADAARDRLNEMGIV 448
Query: 498 LMDMGKETIWR 508
L D + T WR
Sbjct: 449 LEDGPQGTTWR 459
>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A
{Coxiella burnetii}
Length = 462
Score = 713 bits (1842), Expect = 0.0
Identities = 205/492 (41%), Positives = 283/492 (57%), Gaps = 36/492 (7%)
Query: 18 TLKIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCE 77
++KI+NS+T+QKE+F PI GKV +YVCG+T YD H+GH R+ + FD++ RYL E
Sbjct: 4 SVKIFNSLTKQKEIFKPIESGKVKLYVCGMTVYDYMHIGHGRSWIIFDMVVRYLRMRGYE 63
Query: 78 VTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQ 137
VT+VRN TD+DDKII+RA + E+P +L+ R+ Q D L+ L P +PR + ++ +
Sbjct: 64 VTFVRNITDIDDKIIKRAGENKESPAALAERFIQILHEDEKALRVLSPDQEPRATQYVPE 123
Query: 138 IKDMITQIINNDCAYVVE-GDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPAD 196
I +I ++++N AY + GDVFF V + +YG+LS + L+ +AG RV V KR+P D
Sbjct: 124 IIKLIQKLLDNQYAYTGQNGDVFFDVRRFKDYGKLSHRHLDELQAGARVEVSDSKRDPLD 183
Query: 197 FALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIA 256
F LWK AK GEP WDSPWG GRPGWHIECSAMS+ L FDIHGGG+DL FPHHENEIA
Sbjct: 184 FVLWKKAKPGEPKWDSPWGEGRPGWHIECSAMSSSILGQPFDIHGGGLDLKFPHHENEIA 243
Query: 257 QSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRS 316
QS A + V WMH G + N EKMSKSLGN +IR+ + LR+FL+S HYR+
Sbjct: 244 QSEAGEEKPFVKLWMHAGLLEINKEKMSKSLGNIISIREALKESDVEVLRYFLLSGHYRN 303
Query: 317 PLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHAR 376
PL+YS L++ A+ Y L+ + + + D F+
Sbjct: 304 PLSYSKENLENGRLALERFYLALRG----------------LPVVNHEKTSSYTDRFYEA 347
Query: 377 MSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILG 436
M DD NT F + ++ IN + + IE + E+K + I G
Sbjct: 348 MDDDFNTPIAFALLF-EMVREINRFRDN-----------NQIEKAAVLAAELKCLGNIFG 395
Query: 437 LLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGI 496
LL + LQ K E +++ +LI++R AR KD+ +DQIR LT G+
Sbjct: 396 LLQYSP-EQFLQGAKK------EADVQEIKKLIDQRNEARAKKDWKTADQIRDQLTDLGV 448
Query: 497 ALMDMGKETIWR 508
A+ D T WR
Sbjct: 449 AIEDSSDGTSWR 460
>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 = 669 bits (1729), Expect = 0.0
Identities = 140/515 (27%), Positives = 229/515 (44%), Gaps = 46/515 (8%)
Query: 9 TVAAPKMDLTLKIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAVSFDLLY 68
T M LK+YN+ T+ T V +Y CG T Y+ +H+G+ R + DLL
Sbjct: 16 TQGPGSM--ILKLYNTRTKDFSELTNF--ENVKVYACGPTVYNYAHIGNFRTYIFGDLLI 71
Query: 69 RYLEHLKCEVTYVRNFTDV----------DDKIIRRANDLGENPLSLSNRYCQEYLVDMA 118
+ L L +V Y N TD+ +DK+ + A + G +S + + + D
Sbjct: 72 KTLRFLGYKVNYAMNITDIGHLTGDLDDGEDKVAKTAREKGLTVYEISEFFTEAFFNDCR 131
Query: 119 DLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLEN 178
L + P S H+ + +++ + Y G+V+F +YG ++G L +
Sbjct: 132 KLNIVYPDKVLVASKHIPIMIEVVKILEEKKITYFSNGNVYFDTSCFKSYGEMAGIDLID 191
Query: 179 -NRAGERVAVDSRKRNPADFALW---KAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLS 234
+ RV VD KRN DF LW K E WDSPWG G P WH+EC+AM+ Y
Sbjct: 192 KDMTLPRVDVDKFKRNKTDFVLWFTNSKFKDQEMKWDSPWGFGYPSWHLECAAMNLEYFK 251
Query: 235 SKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIR 294
DIH GG+D I HH NEIA + ++H + + KMSKS GNF T++
Sbjct: 252 DALDIHLGGVDHIGVHHINEIAIAECFLNKKWCDVFVHGEFLIMDYNKMSKSRGNFITVK 311
Query: 295 QITER-YHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHG 353
+ ++ + PL R+ +++HYR+ L +S+ L ++ A + L +L P +
Sbjct: 312 DLEDQNFSPLDFRYLCLTSHYRNQLKFSLDNLQASKIARENLINKLSYFYESLDPVDLNT 371
Query: 354 KTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQ 413
+ + D F ++S DLN + L + + +K N S
Sbjct: 372 LNKDLKNFGFSVEKEYYDSFVEKISFDLNVAQGLALLW-EIIKSDNLSFV---------S 421
Query: 414 QLSLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERA 473
+L L + I+ L + +++ + +E++ LIEER
Sbjct: 422 KLRLAFIFDE----------IMSL-------NLREEILKNLQNHDVVIDENMKALIEERR 464
Query: 474 AARKNKDFSKSDQIRADLTRKGIALMDMGKETIWR 508
A+ K+F ++D+IR +KG L+D + T +
Sbjct: 465 IAKCEKNFKRADEIRDFFAKKGFVLVDTKEGTKVK 499
>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 = 559 bits (1442), Expect = 0.0
Identities = 127/413 (30%), Positives = 191/413 (46%), Gaps = 32/413 (7%)
Query: 1 MEASKETGTVAAPKMDLTLKIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARA 60
M++ P L++++S +Q TP MYVCG+T YD +HLGHA
Sbjct: 3 MQSWSAPAIPVVPGRGPALRLFDSADRQVRPVTP--GPTATMYVCGITPYDATHLGHAAT 60
Query: 61 AVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADL 120
++FDL++R V YV+N TDVDD + RA G + +L +R Q + DMA L
Sbjct: 61 YLTFDLVHRLWLDAGHTVQYVQNVTDVDDPLFERAERDGIDWRTLGDRETQLFREDMAAL 120
Query: 121 QCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEG----DVFFAVEKSPNYGRLSGQRL 176
+ LPP +D + ++ +M+ +++ + AY+VE DV+F + + +G SG
Sbjct: 121 RVLPPHDYVAATDAIAEVVEMVEKLLASGAAYIVEDAEYPDVYFRADATAQFGYESGYDR 180
Query: 177 ENNRAGERVAVD----SRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHY 232
+ K + D LW+A + GEPSW SP+G GRPGWH+ECSA++
Sbjct: 181 DTMLTLFAERGGDPDRPGKSDQLDALLWRAERPGEPSWPSPFGRGRPGWHVECSAIALTR 240
Query: 233 LSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSN-VSYWMHNGHVTNNNEKMSKSLGNFF 291
+ + DI GGG DLIFPHHE A + + + +++H G + + KMSKS GN
Sbjct: 241 IGTGLDIQGGGSDLIFPHHEYSAAHAESVTGERRFARHYVHTGMIGWDGHKMSKSRGNLV 300
Query: 292 TIRQI-TERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQ 350
+ Q+ + P A+R L S HYR +S LD A+ + E
Sbjct: 301 LVSQLRAQGVDPSAIRLGLFSGHYREDRFWSNEVLDEANARLARWRSATALPEA------ 354
Query: 351 EHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLN 403
P A D + ++DDL+T L S
Sbjct: 355 ---------PDATD----VIARVRQYLADDLDTPKALAALD-GWCTDALSYGG 393
>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 = 64.9 bits (157), Expect = 4e-11
Identities = 62/477 (12%), Positives = 129/477 (27%), Gaps = 146/477 (30%)
Query: 97 DLGENPLSLSNRYCQEYLVD--MADLQC------LPPTYQPRVSDHMEQIKDMITQ---- 144
D + D + + C DH+ KD ++
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL 67
Query: 145 --IINNDCAYVVEGDVFFAVEKSPNYGRLSGQ-RLENNRAGERVAVDSRKRNPADFALWK 201
+ + +V+ F NY L + E + + +R+ L+
Sbjct: 68 FWTLLSKQEEMVQ--KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR----LY- 120
Query: 202 AAKAGEPSWDSPWGPGRPGWHIE-----CSAMSAHYLSSKFDIHG-GGIDLIFPHHENEI 255
+ + + R +++ A + I G G
Sbjct: 121 ----NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL----IDGVLGS----------- 161
Query: 256 AQSC---AACQDSNVS-------YWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLA- 304
++ C V +W++ + + + + L QI + +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL-EMLQKLL--YQIDPNWTSRSD 218
Query: 305 ---------------LRHFLISAHYRSPLNYSVLQLDSASDA----VFYIY-QTL---QD 341
LR L S Y + L L L + +A F + + L +
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCL----LVLLNVQNAKAWNAFNLSCKILLTTRF 274
Query: 342 CEVALS--------PFQEHGKTARINPAAED----CIN----KLRDE-----------FH 374
+V +H + ++ L E
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA 334
Query: 375 ARMSDDLNTSHILTGAFQDAL-KFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLR 433
+ D L T D L I SSLN+L+ E +++
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE------------------PAEYRKMFD 376
Query: 434 ILGLLPPGAY--SEVLQQLKDKALKRAELTEEDVLQLIEE----RAAARKNKDFSKS 484
L + PP A+ + +L + ++ + DV+ ++ + ++ K+ + S
Sbjct: 377 RLSVFPPSAHIPTILLSLI------WFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427
Score = 35.6 bits (81), Expect = 0.048
Identities = 18/126 (14%), Positives = 46/126 (36%), Gaps = 25/126 (19%)
Query: 35 IVPGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRR 94
++P + Y + L ++ H F ++ +L +F ++ K IR
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV--FL-----------DFRFLEQK-IRH 509
Query: 95 ANDLGENPLSLSN-----RYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINND 149
+ S+ N ++ + Y+ D P Y+ V+ ++ + + +I +
Sbjct: 510 DSTAWNASGSILNTLQQLKFYKPYICDND------PKYERLVNAILDFLPKIEENLICSK 563
Query: 150 CAYVVE 155
++
Sbjct: 564 YTDLLR 569
Score = 32.1 bits (72), Expect = 0.62
Identities = 49/287 (17%), Positives = 85/287 (29%), Gaps = 86/287 (29%)
Query: 231 HYLSSKFDIHGGGIDL----IFPHHENEIAQS--CAACQD------SNVSYWMHNGHVTN 278
H+ D G I E+ + C QD S H+
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEI----DHIIM 56
Query: 279 NNEKMSKSLGNFFTIR----QITERYHPLALR---HFL---ISAHYRSP----LNY---- 320
+ + +S +L F+T+ ++ +++ LR FL I R P Y
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116
Query: 321 SVLQLDSASDAVFYI-----YQTLQDCEVALSPFQE---HG-----KTARINPAAEDCIN 367
L D+ A + + Y L+ + L P + G KT A + C
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV---ALDVC-- 171
Query: 368 KLRDE-FHARMSDD---LNTSHILTGAFQDALKFINSSLNMLKK-----KQPKQQQLSLI 418
+M LN + + + L ML+K +
Sbjct: 172 --LSYKVQCKMDFKIFWLNLKNCNS---------PETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 419 ESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDV 465
+++ + ++ LR L LK K + L +V
Sbjct: 221 SNIKLRIHSIQAELRRL--------------LKSKPYENCLLVLLNV 253
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 57.3 bits (138), Expect = 9e-09
Identities = 36/204 (17%), Positives = 67/204 (32%), Gaps = 20/204 (9%)
Query: 212 SPWGPGRPGWHIECSAMS---AHYLSSKF------DIHGGGIDLIFPHHENEIAQSCA-A 261
+ + + + + H + +F D G DLI H I A
Sbjct: 570 EEFSEDKEKELEKKTGIPAEIIHEMKEEFEYWYPLDWRCSGKDLIPNHLTFFIFNHVAIF 629
Query: 262 CQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISA-HYRSPLNY 320
++ NG T +KMSKS GN E +R +++S + S ++
Sbjct: 630 REEHWPKGIAVNGFGTLEGQKMSKSKGNVLNFIDAIEENGADVVRLYIMSLAEHDSDFDW 689
Query: 321 SVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSD- 379
++ + Y+ + + A + + + I+ +NK E + +
Sbjct: 690 RRKEVGKLRKQIERFYELIS--QFAEYEVKGNVELKDIDRWMLHRLNKAIKETTNALEEF 747
Query: 380 DLNTSHILTGAFQDALKFINSSLN 403
T A Q A I + L
Sbjct: 748 RTRT------AVQWAFYSIMNDLR 765
>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 = 53.5 bits (128), Expect = 1e-07
Identities = 84/517 (16%), Positives = 154/517 (29%), Gaps = 182/517 (35%)
Query: 26 TQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHL--KCEVTYVRN 83
+Q +E F I+P + +L+ ++L ++ E + V
Sbjct: 31 SQLQEQFNKILP----------EPTE-GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQ 79
Query: 84 FTDVDDKIIRRANDLGENPLSLS-NRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMI 142
F V L+L + YL D+ L + + K++I
Sbjct: 80 FDQV---------------LNLCLTEFENCYLEG-NDIHALAAKLLQENDTTLVKTKELI 123
Query: 143 TQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFALWKA 202
Y A R+ ++ AL++A
Sbjct: 124 K-------NY------ITA----------------------RIMAKRPFDKKSNSALFRA 148
Query: 203 AKAGEPSWDSPWGPGRPGWHIECSAMSAHY---LSSKFDIHGGGI-DLIFPHHE--NEIA 256
G + +G G+ G + Y L + + + DLI E +E+
Sbjct: 149 VGEGNAQLVAIFG-GQ-G-------NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELI 199
Query: 257 QSCAACQDS-----NVSYWMHNGHVTNNNEKMSKS-----------LGNFFTIRQITERY 300
++ + N+ W+ N T + + + L ++ ++ +
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG-F 258
Query: 301 HPLALRHFL--ISAHYRSPLNYSVLQ--------LDSASDAV---FYI----YQTLQDCE 343
P LR +L + H + + + S A+ F+I Y+ +
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 344 VALSPFQ---EHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINS 400
+ S + E+ + P+ M L+ S++ QD + NS
Sbjct: 319 LPPSILEDSLENNEGV---PSP--------------M---LSISNLTQEQVQDYVNKTNS 358
Query: 401 SLNMLKKKQPKQQQL--SLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRA 458
L P +Q+ SL+ + N V + G PP + L L
Sbjct: 359 HL-------PAGKQVEISLVNGAK---NLV-----VSG--PP----QSLYGL-------- 389
Query: 459 ELTEEDVLQLIEERAAARKNKDFSKSDQIRADLT-RK 494
L L RK K S DQ R + RK
Sbjct: 390 ------NLTL-------RKAKAPSGLDQSRIPFSERK 413
Score = 53.5 bits (128), Expect = 1e-07
Identities = 54/312 (17%), Positives = 92/312 (29%), Gaps = 117/312 (37%)
Query: 188 DSRKRNPADFALWKAAKAGEPSWDSPWG----------PGRPGWH---IECSAMSAHYLS 234
D K + A +W A + +G P H + + +Y +
Sbjct: 1634 DLYKTSKAAQDVWNRADN---HFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSA 1690
Query: 235 SKFDIHGGG---------------IDLIFPHHEN-----EIAQ------SCAACQDSNVS 268
F+ G F + + Q AA +D
Sbjct: 1691 MIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFED---- 1746
Query: 269 YWMHN----------GHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPL 318
GH SLG E Y AL A
Sbjct: 1747 -LKSKGLIPADATFAGH----------SLG---------E-YA--ALASL---A------ 1774
Query: 319 NYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKT----ARINPA------AEDCINK 368
V+ ++S + VFY T+Q P E G++ INP +++ +
Sbjct: 1775 --DVMSIESLVEVVFYRGMTMQVA----VPRDELGRSNYGMIAINPGRVAASFSQEALQY 1828
Query: 369 LRDEFHARMSDDL-----NTSH---ILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIES 420
+ + R + N + + G + AL + + LN +K ++ +L +S
Sbjct: 1829 VVERVGKRTGWLVEIVNYNVENQQYVAAGDLR-ALDTVTNVLNFIKLQKIDIIELQ--KS 1885
Query: 421 LRKIENEVKEVL 432
L +E EV+ L
Sbjct: 1886 L-SLE-EVEGHL 1895
Score = 41.2 bits (96), Expect = 0.001
Identities = 48/265 (18%), Positives = 82/265 (30%), Gaps = 88/265 (33%)
Query: 281 EKMSKSLGNFFTIRQITERYHPLALR-HFLISAHYRSPLNYSVLQLDSASDAVFYIYQTL 339
+ G F+I I +P+ L HF R NYS + ++ D
Sbjct: 1651 NHFKDTYG--FSILDIV-INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDG-------- 1699
Query: 340 QDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFIN 399
F+E IN + F + L+ T F
Sbjct: 1700 --KLKTEKIFKE------INEHSTSYT------FRSE-KGLLS----AT-QFT------- 1732
Query: 400 SSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGLLPPGA---------YSEVLQQL 450
QP L+L+E E L+ GL+P A Y+
Sbjct: 1733 ---------QPA---LTLMEKA------AFEDLKSKGLIPADATFAGHSLGEYA------ 1768
Query: 451 KDKAL-KRAE-LTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALMDMGKETIWR 508
AL A+ ++ E +++++ R + + + R++ G+ ++ G+
Sbjct: 1769 ---ALASLADVMSIESLVEVVFYRGMTMQV-AVPRDELGRSNY---GMIAINPGR----- 1816
Query: 509 PCVLVEQEQEAPPAEKEKKPAATGE 533
V QEA E+ TG
Sbjct: 1817 --VAASFSQEALQYVVERVGKRTGW 1839
Score = 40.4 bits (94), Expect = 0.002
Identities = 37/257 (14%), Positives = 71/257 (27%), Gaps = 108/257 (42%)
Query: 344 VALSPFQ-EHGKT-------ARINPAAEDCINKLRDEFHARM--------SDDLNTSHI- 386
+ P HG A +L+++F+ + +DD T+
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASFFIAS----QLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 387 LTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIE------NEV------------ 428
L G F L +++S + + Q L L + E N++
Sbjct: 60 LVGKF---LGYVSSLVE---PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEND 113
Query: 429 ------KEVLRILGLLPPGAYSEVLQQLKDK-------ALKRA----------------- 458
KE+++ Y K AL RA
Sbjct: 114 TTLVKTKELIK--------NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGN 165
Query: 459 ------ELTE------EDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALMDMGKETI 506
EL + V LI+ +A + ++ + +G+ +++
Sbjct: 166 TDDYFEELRDLYQTYHVLVGDLIKF--SAETLSELIRTTLDAEKVFTQGLNILE------ 217
Query: 507 WRPCVLVEQEQEAPPAE 523
W +E P +
Sbjct: 218 W-----LENPSNTPDKD 229
Score = 28.9 bits (64), Expect = 6.2
Identities = 36/209 (17%), Positives = 57/209 (27%), Gaps = 98/209 (46%)
Query: 12 APKMDLTLKIYNSMTQQKELFT-P-----------------IVPGKVGMYVCGVTAYDLS 53
+ K L+ TQ FT P ++P G
Sbjct: 1721 SEKGLLSA------TQ----FTQPALTLMEKAAFEDLKSKGLIPADA--TFAG------- 1761
Query: 54 H-LG-----HARAAV-SF-DLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSL 105
H LG + A V S L+ EV + R ++ A E S
Sbjct: 1762 HSLGEYAALASLADVMSIESLV---------EVVFYRG------MTMQVAVPRDELGRSN 1806
Query: 106 SNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKS 165
M + P + S E ++ ++ ++ ++VE V
Sbjct: 1807 ---------YGMIAIN---PG-RVAASFSQEALQYVVERV-GKRTGWLVE-----IV--- 1844
Query: 166 PNYGRLSGQRLENNR------AGERVAVD 188
NY N AG+ A+D
Sbjct: 1845 -NY---------NVENQQYVAAGDLRALD 1863
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 50.7 bits (121), Expect = 9e-07
Identities = 28/169 (16%), Positives = 56/169 (33%), Gaps = 17/169 (10%)
Query: 271 MHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLI-SAHYRSPLNYSVLQLDSAS 329
NG T +KMSKS GN E +R +++ A + S ++ ++
Sbjct: 639 AVNGFGTLEGQKMSKSKGNVLNFIDAIEENGADVVRLYIMSLAEHDSDFDWRRKEVGKLR 698
Query: 330 DAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFH---ARMSDDLNTSHI 386
+ Y+ + F E+ + D + + ++ L
Sbjct: 699 KQIERFYELISQ-------FAEYEVKGNVELKDID--RWMLHRLNKAIKETTNALEEFRT 749
Query: 387 LTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRIL 435
T A Q A I + L ++ + + LR + +R++
Sbjct: 750 RT-AVQWAFYSIMNDLRWYLRRTEGRDDEAKRYVLRTL---ADVWVRLM 794
>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 = 47.2 bits (113), Expect = 9e-06
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 274 GHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLI 310
G T +KMSK+LGN ++ + Y +R+FL+
Sbjct: 287 GWWTVEGKKMSKTLGNVVDPYEVVQEYGLDEVRYFLL 323
>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 = 45.7 bits (109), Expect = 3e-05
Identities = 14/37 (37%), Positives = 24/37 (64%)
Query: 274 GHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLI 310
G T +++K+SKSLGN F + + + AL++FL+
Sbjct: 331 GWWTKDHKKISKSLGNAFDPVEKAKEFGIDALKYFLM 367
>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 = 45.7 bits (109), Expect = 3e-05
Identities = 17/37 (45%), Positives = 23/37 (62%)
Query: 274 GHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLI 310
G + N EKMSKS+GN ++ ERY LR+FL+
Sbjct: 313 GFLFNRGEKMSKSVGNVIDPFELVERYGLDQLRYFLM 349
>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 = 45.3 bits (108), Expect = 3e-05
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 274 GHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLI 310
G + N EKMSKS+GN + + + +R+FL+
Sbjct: 302 GWLLNRGEKMSKSIGNVVDPVNLVDTFGLDQVRYFLL 338
>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 = 41.8 bits (99), Expect = 4e-04
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 274 GHVTN-NNEKMSKSLGNFFTIRQITERYHPLALRHFLI 310
G + + KMSK+LGN + E+Y ALR++L+
Sbjct: 288 GFLLGPDGRKMSKTLGNVVDPFALLEKYGRDALRYYLL 325
>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 = 41.4 bits (98), Expect = 8e-04
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 273 NGHVTNNN-EKMSKSLGNFFTIRQITERYHPLALRHFLI-SAHYRSPLNYS 321
+G + + +KMSKS GN I ++ ALR ++ SA + +
Sbjct: 581 HGLILDEKGQKMSKSKGNVVDPWDIIRKFGADALRWYIYVSAPPEADRRFG 631
>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 = 40.7 bits (96), Expect = 0.001
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 273 NGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLIS 311
+G+VT N KMSKS G F + +LR++ +
Sbjct: 336 HGYVTVNGAKMSKSRGTFIKASTWLNHFDADSLRYYYTA 374
>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 = 40.1 bits (94), Expect = 0.002
Identities = 8/39 (20%), Positives = 18/39 (46%)
Query: 273 NGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLIS 311
N ++T +K S S + + + + LR++L +
Sbjct: 335 NEYLTLEGKKFSTSRNWAIWVHEFLDVFPADYLRYYLTT 373
>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 = 35.7 bits (82), Expect = 0.032
Identities = 15/38 (39%), Positives = 24/38 (63%)
Query: 273 NGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLI 310
+G T + +K+SKSLGN F + E + AL++FL+
Sbjct: 314 HGWWTKDRKKISKSLGNVFDPVEKAEEFGYDALKYFLL 351
Score = 29.6 bits (66), Expect = 3.3
Identities = 25/145 (17%), Positives = 51/145 (35%), Gaps = 20/145 (13%)
Query: 24 SMTQQKELF--TPIVPGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYV 81
SM +K F +PI YV H+GH + + D++ RY V +
Sbjct: 4 SMKVEKVFFVTSPIY------YVNAA-----PHIGHVYSTLITDVIGRYHRVKGERVFAL 52
Query: 82 RNFTDVD---DKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTY-QPRVSDHMEQ 137
T D K+ A +P + E+ + + + H
Sbjct: 53 ---TGTDEHGQKVAEAAKQKQVSPYDFTTAVAGEFKKXFEQMDYSIDYFIRTTNEQHKAV 109
Query: 138 IKDMITQIINNDCAYVVEGDVFFAV 162
+K++ T++ Y+ + ++++
Sbjct: 110 VKELWTKLEQKGDIYLGRYEGWYSI 134
>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase,
[4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM
MD0; 1.50A {Methanosarcina barkeri}
Length = 350
Score = 34.6 bits (80), Expect = 0.075
Identities = 9/44 (20%), Positives = 22/44 (50%)
Query: 445 EVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIR 488
+ L DK ++ +LT+ D+ L+ + + +S + ++R
Sbjct: 8 DEFDSLGDKVIEGYQLTDNDLRTLLSLESKEGLERLYSAARKVR 51
>1ct9_A Asparagine synthetase B; amidotransferase, substrate channeling,
asparagine biosynthesis, ligase; HET: AMP GLN; 2.00A
{Escherichia coli} SCOP: c.26.2.1 d.153.1.1
Length = 553
Score = 33.3 bits (76), Expect = 0.24
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 9/40 (22%)
Query: 334 YIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEF 373
Y +QT DCEV L+ +QE G + ++ L+ F
Sbjct: 91 YQFQTGSDCEVILALYQEKG---------PEFLDDLQGMF 121
>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC, struc
genomics, protein structure initiative; 2.20A
{Campylobacter jejuni}
Length = 464
Score = 33.0 bits (76), Expect = 0.29
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 282 KMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDA--VFYI 335
KMSK GNF + + + ALR+ +S + L + + L + V+YI
Sbjct: 285 KMSKRAGNFILMSDVVDEIGSDALRYIFLSKKCDTHLEFDISDLQKEDSSNPVYYI 340
Score = 32.6 bits (75), Expect = 0.30
Identities = 29/142 (20%), Positives = 49/142 (34%), Gaps = 47/142 (33%)
Query: 54 HLGHARAAVSFDLLYRYLEHLKCEVT---YVRNFTDVDDKIIRRANDLGE--NPL--SLS 106
H+GHAR AV D L R HL + YV ND G L S+
Sbjct: 46 HIGHARGAVFGDTLTRLARHLGYKFNTEYYV--------------NDAGNQIYLLGLSIL 91
Query: 107 NRYCQ----------------EYLVDMADLQCLPPTYQPRV--SDHMEQIK----DMITQ 144
+ EY+VD+A + + +++ + D +
Sbjct: 92 LSVKESILHENVEYPEQYYKGEYIVDLA--KEAFEKFGKEFFSEENIPSLADWAKDKMLV 149
Query: 145 IINNDCAYV-VEGDVFFAVEKS 165
+I + ++ D + + E+S
Sbjct: 150 LIKQNLEQAKIKIDSYVS-ERS 170
>1vfg_A A-adding enzyme, poly A polymerase; transferase, RNA, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; HET: APC; 2.80A {Aquifex aeolicus}
SCOP: a.173.1.1 d.218.1.4
Length = 390
Score = 31.2 bits (71), Expect = 0.84
Identities = 13/65 (20%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 402 LNMLKKKQPKQQQLSLIESLRKIENEVKEV--LRILGLLPPGAYSEVLQQLKDKALKRAE 459
L ++ +++ K++ +E LRK++ +++ L+ GL E +++LK + + + +
Sbjct: 326 LLLMLEEELKEKIKLYLEKLRKVKLPKEKIEELKKQGLKGK-ELGERIEELKREIMNKIK 384
Query: 460 LTEED 464
L
Sbjct: 385 LAAAL 389
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 29.9 bits (68), Expect = 1.7
Identities = 7/42 (16%), Positives = 13/42 (30%)
Query: 417 LIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRA 458
L +S+ ++ V L + L Q+ D
Sbjct: 242 LKKSIDCVKLHVAAAKETLETFRECPARDKLFQITDYITVDM 283
>1q15_A CARA; CMPR, (2S,5S)-5-carboxymethylproline, B-LS, B-lactam
synthetase, AS-B, class B asparagine synthetase,
AMP-CPP; 2.30A {Pectobacterium carotovorum} SCOP:
c.26.2.1 d.153.1.1 PDB: 1q19_A*
Length = 503
Score = 30.1 bits (68), Expect = 2.2
Identities = 5/40 (12%), Positives = 9/40 (22%), Gaps = 9/40 (22%)
Query: 334 YIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEF 373
D E+ F G + + +F
Sbjct: 74 GEAYLANDAELLALLFTRLG---------ANALALAEGDF 104
>3hl4_A Choline-phosphate cytidylyltransferase A; rossmann fold,
phospholipid synthesis, phosphatidylcholine,
phosphocholine, CTP, CDP-choline; HET: CDC; 2.20A
{Rattus norvegicus}
Length = 236
Score = 29.2 bits (65), Expect = 3.1
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 20 KIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARA 60
K Y +T ++ V +Y G+ +DL H GHARA
Sbjct: 57 KPYVRVTMEEACRGTPCERPVRVYADGI--FDLFHSGHARA 95
>3dfg_A Xcrecx, regulatory protein RECX; RECX RECA, homologous
recombination, tandem repeats, three-helix bundle,
cytoplasm; 1.50A {Xanthomonas campestris PV}
Length = 162
Score = 28.5 bits (64), Expect = 3.2
Identities = 17/80 (21%), Positives = 28/80 (35%), Gaps = 19/80 (23%)
Query: 433 RILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEE---------------RAAARK 477
R LGLL +S+ ++L K L+ + E +E R
Sbjct: 22 RALGLLVHREHSK--KELNRK-LQARGIEPEAAQAAVERLAGEGWQDDVRFAASVVRNRA 78
Query: 478 NKDFSKSDQIRADLTRKGIA 497
+ + IRA+L G+
Sbjct: 79 SSGYGPL-HIRAELGTHGLD 97
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 3.5
Identities = 6/32 (18%), Positives = 12/32 (37%), Gaps = 14/32 (43%)
Query: 411 KQQQLSLIESLRKIENEVKEVLRILGLLPPGA 442
KQ +L+K++ +K L +
Sbjct: 19 KQ-------ALKKLQASLK-------LYADDS 36
>1zuj_A Hypothetical protein llacc01001955; oxidative stress, DPS, DNA
binding, lactic acid bacteria, DN protein; 2.90A
{Lactococcus lactis} SCOP: a.25.1.1
Length = 179
Score = 28.7 bits (64), Expect = 3.8
Identities = 18/121 (14%), Positives = 37/121 (30%), Gaps = 17/121 (14%)
Query: 383 TSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGLLPPGA 442
SH+L+ F + + + + L K + + + + + E L L P
Sbjct: 30 LSHVLSNIFYEKISLMQAGLYA-KSANYRIKFREIALKEDEWFYLISEQLLDENELVPTT 88
Query: 443 YSEVLQQ---LKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALM 499
E + +++ + E + I DF Q + + I L
Sbjct: 89 LDEFVSNHKFIENDPKAKYWTDEALIENFI---------NDF----QNQNLFIGRAIKLA 135
Query: 500 D 500
Sbjct: 136 Q 136
>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 = 29.0 bits (66), Expect = 4.5
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 281 EKMSKSLGN 289
+KMSKSLGN
Sbjct: 594 KKMSKSLGN 602
>1h8l_A Carboxypeptidase GP180 residues 503-882; hydrolase, zinc-dependent
protease; HET: NAG BMA NDG GEM; 2.6A {Lophonetta
specularioides} SCOP: b.3.2.1 c.56.5.1 PDB: 1qmu_A*
Length = 380
Score = 28.7 bits (64), Expect = 4.8
Identities = 7/45 (15%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 210 WDSPWGPGRPGWHIECSAMSAHYLSSKF----DIHGGGIDLIFPH 250
+ + E A+ + + F ++HGG + + +P
Sbjct: 144 FPDQFFQVTDPPQPETLAVMSWLKTYPFVLSANLHGGSLVVNYPF 188
>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple
antibiotic-resistance repressor (MARR) structural
genomics; HET: MSE; 2.07A {Listeria monocytogenes str}
Length = 154
Score = 27.9 bits (62), Expect = 5.0
Identities = 17/138 (12%), Positives = 40/138 (28%), Gaps = 18/138 (13%)
Query: 404 MLKKKQPKQQQLSLIESLRKI----ENEVKEVLRILGLLPPGAYSEVLQQLKDK-ALKRA 458
M+ + L+++ I + LGL ++ + + A
Sbjct: 2 MVGINTDTENISELLKTYWSIQRISAGYADQNAASLGLTIQQLA--MINVIYSTPGISVA 59
Query: 459 ELTEE---------DVLQLIEERAAARKNKDFSKSDQ--IRADLTRKGIALMDMGKETIW 507
+LT+ + + K +D + L++KG L +
Sbjct: 60 DLTKRLIITGSSAAANVDGLISLGLVVKLNKTIPNDSMDLTLKLSKKGEDLSKRSTANAF 119
Query: 508 RPCVLVEQEQEAPPAEKE 525
+++ + E E
Sbjct: 120 MYKAMMKVFENLTENEIE 137
>1uby_A FPS, farnesyl diphosphate synthase; transferase, isoprene
biosynthesis, cholesterol biosynthesis; HET: DMA; 2.40A
{Gallus gallus} SCOP: a.128.1.1 PDB: 1ubw_A* 1ubv_A*
1ubx_A* 1fps_A
Length = 367
Score = 28.6 bits (64), Expect = 5.2
Identities = 6/36 (16%), Positives = 13/36 (36%)
Query: 422 RKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKR 457
+ E+ + + ++ E+ L K KR
Sbjct: 330 QYEESSYRRLQELIEKHSNRLPKEIFLGLAQKIYKR 365
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 28.4 bits (64), Expect = 5.3
Identities = 8/42 (19%), Positives = 18/42 (42%)
Query: 416 SLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKR 457
S+ + ++ +K+ L +LP L+ L ++R
Sbjct: 299 SIDYAAEIAKDMIKKANEALRILPKSKARMDLELLAKFIVER 340
>4dvy_P Cytotoxicity-associated immunodominant antigen; oncoprotein; 3.30A
{Helicobacter pylori}
Length = 877
Score = 28.7 bits (63), Expect = 6.5
Identities = 30/125 (24%), Positives = 57/125 (45%), Gaps = 9/125 (7%)
Query: 372 EFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEV 431
E + + D L+++ L G + K + + + + K+ Q L +SLRK E+ KEV
Sbjct: 574 EANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEV 633
Query: 432 LRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAA--ARKNKDFSKSDQIRA 489
+ L + S +++ KA +A ++++ LI + A AR I+
Sbjct: 634 EKKL-----ESKSGNKNKMEAKA--QANSQKDEIFALINKEANRDARAIAYTQNLKGIKR 686
Query: 490 DLTRK 494
+L+ K
Sbjct: 687 ELSDK 691
Score = 28.7 bits (63), Expect = 6.9
Identities = 28/157 (17%), Positives = 51/157 (32%), Gaps = 16/157 (10%)
Query: 350 QEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQ 409
++ K+ R E + K + + + + IN N +
Sbjct: 617 KDLEKSLRKREHLEKEVEKKLESKSG-NKNKMEAKAQANSQKDEIFALINKEANRDARAI 675
Query: 410 PKQQQL-----SLIESLRKIENEVKEVLRILGLLPPG----------AYSEVLQQLKDKA 454
Q L L + L KI ++K+ + G + +KD
Sbjct: 676 AYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLG 735
Query: 455 LKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADL 491
+ +++ + L KNKDFSK Q ++DL
Sbjct: 736 INPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDL 772
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 7.2
Identities = 10/56 (17%), Positives = 26/56 (46%), Gaps = 5/56 (8%)
Query: 444 SEVLQQLKDKALKR-AELTEEDVLQLIEERAAARKNK-DFSKSDQIRADLTRKGIA 497
E +++ +++ KR EL + E R A+K+ ++++ +++ K
Sbjct: 84 PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQR---QSEQVEKNKI 136
Score = 27.4 bits (60), Expect = 8.9
Identities = 9/58 (15%), Positives = 20/58 (34%), Gaps = 20/58 (34%)
Query: 482 SKSDQIRADLTRKGIALMDMGKETI--WRPCVLVEQEQEAPPAEKEKKPAATGEEQKA 537
+++D++ + E+I WR +EQ E + +E +
Sbjct: 75 AQADRLTQE------------PESIRKWR------EEQRKRLQELDAASKVMEQEWRE 114
>2qis_A Farnesyl pyrophosphate synthetase; trans-prenyltransferase,
structural genomics, structural GEN consortium, SGC,
transferase; HET: RIS; 1.80A {Homo sapiens} PDB: 4dem_F*
1yv5_A* 1yq7_A* 2opm_A* 2opn_A* 3cp6_A* 2rah_A* 2vf6_A*
1zw5_A* 3b7l_A* 3s4j_A* 3rye_A* 3n45_F* 2f89_F* 2f7m_F*
2f8z_F* 2f8c_F* 2f92_F* 2f9k_F* 3n1v_F* ...
Length = 374
Score = 28.2 bits (63), Expect = 7.3
Identities = 7/39 (17%), Positives = 13/39 (33%)
Query: 419 ESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKR 457
L+ E+ ++ ++ V L K KR
Sbjct: 334 VFLQYEEDSYSHIMALIEQYAAPLPPAVFLGLARKIYKR 372
>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide
release factor 1, ribosome, structural genomics, BSGC
structure funded by NIH; 2.65A {Thermotoga maritima}
SCOP: e.38.1.1 PDB: 2fvo_A
Length = 342
Score = 27.9 bits (63), Expect = 8.0
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 451 KDKALK--RAELTEEDVLQLIEERAAARKNKDFS--KSDQIR 488
K AL+ RA L + Q E + RK++ + +S++IR
Sbjct: 243 KQTALRILRARLYQLQKEQKEREISQKRKSQIGTGERSEKIR 284
>2zy9_A Mg2+ transporter MGTE; membrane protien, metal transport; 2.94A
{Thermus thermophilus} PDB: 2yvx_A
Length = 473
Score = 28.0 bits (63), Expect = 8.0
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 417 LIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKR--AELTEEDVLQLIEE 471
L + L + + +L LLP +EVL L + L + +++EE
Sbjct: 59 LWDEL-----KGEHRYVVLTLLPKAKAAEVLSHLSPEEQAEYLKTLPPWRLREILEE 110
>1jgt_A Beta-lactam synthetase; asparagine synthetase, clavulanic AC
AMPCPP, CEA, carboxyethylarginine, hydrolase; HET: APC
CMA; 1.95A {Streptomyces clavuligerus} SCOP: c.26.2.1
d.153.1.1 PDB: 1m1z_A 1mb9_A* 1mbz_A* 1mc1_A*
Length = 513
Score = 28.1 bits (63), Expect = 8.8
Identities = 4/40 (10%), Positives = 8/40 (20%), Gaps = 9/40 (22%)
Query: 334 YIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEF 373
D E+ L + + + F
Sbjct: 91 AGPAPEGDAELVLRLLERYD---------LHAFRLVNGRF 121
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate
synthase, structural genomics, PSI, PR structure
initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus
brevis} PDB: 3n3d_A
Length = 334
Score = 28.0 bits (63), Expect = 9.4
Identities = 9/42 (21%), Positives = 20/42 (47%)
Query: 416 SLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKR 457
+ + + ++ L ++ LP G+ + L+QL L+R
Sbjct: 291 GVGAAKQLAQDYTDRALTLIQQLPVGSAQQSLEQLTRLLLRR 332
>2b3t_B RF-1, peptide chain release factor 1; translation termination,
methylation, conformational changes; HET: SAH; 3.10A
{Escherichia coli} SCOP: e.38.1.1
Length = 360
Score = 27.9 bits (63), Expect = 9.5
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 451 KDKALK--RAELTEEDVLQLIEERAAARKNKDFS--KSDQIR 488
K KAL A + ++ + + A+ R+N S +SD+ R
Sbjct: 267 KAKALSVLGARIHAAEMAKRQQAEASTRRNLLGSGDRSDRNR 308
>2yvy_A MGTE, Mg2+ transporter MGTE; membrane protein, transport protein;
2.30A {Thermus thermophilus} PDB: 2yvz_A
Length = 278
Score = 27.6 bits (62), Expect = 9.6
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 417 LIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKR--AELTEEDVLQLIEE 471
L + L + + +L LLP +EVL L + L + +++EE
Sbjct: 39 LWDEL-----KGEHRYVVLTLLPKAKAAEVLSHLSPEEQAEYLKTLPPWRLREILEE 90
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 27.9 bits (63), Expect = 9.9
Identities = 7/8 (87%), Positives = 7/8 (87%)
Query: 282 KMSKSLGN 289
KMSKS GN
Sbjct: 528 KMSKSKGN 535
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 0.132 0.392
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,264,662
Number of extensions: 504986
Number of successful extensions: 1482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1448
Number of HSP's successfully gapped: 76
Length of query: 537
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 439
Effective length of database: 3,965,535
Effective search space: 1740869865
Effective search space used: 1740869865
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: 60 (27.5 bits)