RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6783
(1119 letters)
>1f7u_A Arginyl-tRNA synthetase; RNA-protein complex, aminoacylation; HET:
PSU 1MG 2MG H2U M2G 5MC 5MU 1MA ARG; 2.20A
{Saccharomyces cerevisiae} SCOP: a.27.1.1 c.26.1.1
d.67.2.1 PDB: 1bs2_A* 1f7v_A*
Length = 607
Score = 404 bits (1040), Expect = e-128
Identities = 104/434 (23%), Positives = 175/434 (40%), Gaps = 53/434 (12%)
Query: 183 SSSSSSQTKGTAKKMNVPVSDR-MSVRDYLSDVFTHAVQVAFP-ELGDKTASVASTNEKY 240
+ S + A+ S +++ D + + + + + ++ TN
Sbjct: 6 NMISQLKKLSIAEPAVAKDSHPDVNIVDLMRNYISQELSKISGVDSSLIFPALEWTNTM- 64
Query: 241 VHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAK 300
+ GD + + NP D+A A + ++K+E
Sbjct: 65 --ERGDLLIPIPRL-------RIKGANPKDLAVQWAE----KFPCGD----FLEKVEANG 107
Query: 301 PGFVNVFLSRVYAGEQIKDIIVN-----GVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLR 355
P F+ F + + + + I+ G NKK V+++FSSPNIAK H GHLR
Sbjct: 108 P-FIQFFFNPQFLAKLVIPDILTRKEDYGSCKLVENKK--VIIEFSSPNIAKPFHAGHLR 164
Query: 356 STIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFY 415
STIIG ++ L E LG +V+R+N++GDWG QFG+L + + PI L Y
Sbjct: 165 STIIGGFLANLYEKLGWEVIRMNYLGDWGKQFGLLAVGFERYGNEEALVKDPIHHLFDVY 224
Query: 416 KESKKRFDE-------DEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRL 468
K +E ++ +A + ++ D + K W+ + S + Y RL
Sbjct: 225 VRINKDIEEEGDSIPLEQSTNGKAREYFKRMEDGDEEALKIWKRFREFSIEKYIDTYARL 284
Query: 469 NVTLTE-RGES-FYQKHMEQLVPYLEKKGLLELDDGRKIMW--GEDRGSIPMTIVKSDGG 524
N+ GES ++ M + + ++KGL D G ++ ++ + KSDG
Sbjct: 285 NIKYDVYSGESQVSKESMLKAIDLFKEKGLTHEDKGAVLIDLTKFNKKLGKAIVQKSDGT 344
Query: 525 FTYDTSDLAAIRQRIEEEKADWIVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLGHDVV 584
Y T D+ A R E+ D ++YV Q +H E I + + +
Sbjct: 345 TLYLTRDVGAAMDRYEKYHFDKMIYVIASQQDLHAAQFFE-------ILKQMGFE--WAK 395
Query: 585 RLNHVGDWGTQFGM 598
L HV FGM
Sbjct: 396 DLQHVN-----FGM 404
Score = 358 bits (921), Expect = e-111
Identities = 89/373 (23%), Positives = 145/373 (38%), Gaps = 65/373 (17%)
Query: 558 HFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPI 617
H R STIIG ++ L E LG +V+R+N++GDWG QFG+L + + PI
Sbjct: 162 HLR----STIIGGFLANLYEKLGWEVIRMNYLGDWGKQFGLLAVGFERYGNEEALVKDPI 217
Query: 618 ADLQAFYKESKKRFDE-------DEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDF 670
L Y K +E ++ +A + ++ D + K W+ + S +
Sbjct: 218 HHLFDVYVRINKDIEEEGDSIPLEQSTNGKAREYFKRMEDGDEEALKIWKRFREFSIEKY 277
Query: 671 QKIYDRLNVTLTE-RGES-FYQKHMEQLVPYLEKKG-----------NLS-LTKKLG--- 713
Y RLN+ GES ++ M + + ++KG +L+ KKLG
Sbjct: 278 IDTYARLNIKYDVYSGESQVSKESMLKAIDLFKEKGLTHEDKGAVLIDLTKFNKKLGKAI 337
Query: 714 -----------------------------IVYVTDLGQGVHFRLLEECAKKAGILNPNKT 744
++YV Q +H E K+ G
Sbjct: 338 VQKSDGTTLYLTRDVGAAMDRYEKYHFDKMIYVIASQQDLHAAQFFEILKQMGF--EWAK 395
Query: 745 RMDFVGFGVVLGEDRKKFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEA 804
+ V FG+V G TR G V L +L+E + + +K KN + E
Sbjct: 396 DLQHVNFGMVQG-----MSTRKGTVVFLDNILEETKEKMHEVMK-KNENKYAQIEHPEEV 449
Query: 805 QQAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSED 864
V + D+ R +Y F +++ML G+T YL YA++R+ S+ R A +++
Sbjct: 450 ADLVGISAVMIQDMQGKRINNYEFKWERMLSFEGDTGPYLQYAHSRLRSVERNASGITQE 509
Query: 865 PPEPDPSQSEVED 877
E
Sbjct: 510 KWINADFSLLKEP 522
Score = 205 bits (523), Expect = 4e-56
Identities = 42/184 (22%), Positives = 76/184 (41%), Gaps = 7/184 (3%)
Query: 936 KLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNTAVYLL 995
++ KN + E V + D+ R +Y F +++ML G+T YL
Sbjct: 431 EVMKKNENKYAQIEHPEEVADLVGISAVMIQDMQGKRINNYEFKWERMLSFEGDTGPYLQ 490
Query: 996 YAYTRIASIARTAGINSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTRDLCLH 1055
YA++R+ S+ R A +++ + A L+ L + L + DVL +
Sbjct: 491 YAHSRLRSVERNASGITQEKWINAD--FSLLKEPAAKLLIRLLGQYPDVLRNAIKTHEPT 548
Query: 1056 HLCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDILNIRT 1115
+ YL+ ++ S YD + + E + T RL L A +V+ +L +
Sbjct: 549 TVVTYLFKLTHQVSSCYDVLWVAGQTEE-----LATARLALYGAARQVLYNGMRLLGLTP 603
Query: 1116 VHKM 1119
V +M
Sbjct: 604 VERM 607
Score = 82.4 bits (204), Expect = 4e-16
Identities = 29/148 (19%), Positives = 56/148 (37%), Gaps = 27/148 (18%)
Query: 9 MSVRDYLSDVFTHAVQVAFP-ELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKG 67
+++ D + + + + + ++ TN + GD +
Sbjct: 29 VNIVDLMRNYISQELSKISGVDSSLIFPALEWTNTM---ERGDLLIPIPRL-------RI 78
Query: 68 EKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDIIVN 127
+ NP D+A A + ++K+EA P F+ F + + + + I+
Sbjct: 79 KGANPKDLAVQWAE----KFPCGD----FLEKVEANGP-FIQFFFNPQFLAKLVIPDILT 129
Query: 128 -----GVQPPTLNKKLRVLVDFSSPNIA 150
G NKK V+++FSSPNIA
Sbjct: 130 RKEDYGSCKLVENKK--VIIEFSSPNIA 155
>2zue_A Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase, nucleotide-binding, protein
biosynthesis, ligase/RNA complex; HET: ANP; 2.00A
{Pyrococcus horikoshii} PDB: 2zuf_A
Length = 629
Score = 341 bits (876), Expect = e-104
Identities = 80/448 (17%), Positives = 158/448 (35%), Gaps = 85/448 (18%)
Query: 205 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 264
M +R+ + + ++ P+ + + + K GDF A L K+ K
Sbjct: 3 MEIRESVKERIEEIIKEIAPQWEGEIELKETPDPK----LGDFGTPIAFKLAKLLK---- 54
Query: 265 KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVN- 323
+ P +IA+ I + +L + I ++ A G++NVF+ + + + I+
Sbjct: 55 -RPPIEIAEKIVEKL------KLNLPEGIKDVK-AVNGYINVFIDYPHFARILINDILAK 106
Query: 324 ----GVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNH 379
G KK V+V+ +S N K +H+GH R+ I+GD ++R+L +LG++V N+
Sbjct: 107 GDRFGSSEIGKGKK--VIVEHTSVNPTKPLHMGHARNAILGDVMARILRFLGYEVEVQNY 164
Query: 380 VGDWGTQFGMLIAHLQDKFP-----------DYLTKSPPIADLQAFYKESKKRFDEDEIF 428
+ D G QF + L +P L Y E +R +++
Sbjct: 165 IDDLGIQFAQVYWGYLRLKEEFERIMNELRERGLKDNPIDHALGLLYVEVNRRLEDNPEL 224
Query: 429 KKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTERGESFYQKHMEQLV 488
+ + L+ + +K E + K+ + ++ + E + +K E +
Sbjct: 225 ENEIRDIMKKLESGELYGRKLAEEVVRAQMVTTYKLGVKYDLLVWE-SDIVRRKLFEIAL 283
Query: 489 PYLEKKGLL-----ELDDGRKIM----WGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRI 539
L K G +M D + + + +SDG TY D+A +
Sbjct: 284 ELLSKNENFYIPSDGKYRGAFVMDLRKLFPDMKNPILVLRRSDGTATYTGKDIAYHLWKF 343
Query: 540 EEEKADW----------------------------IVYVTDLGQGVHFRLLEESTIIGDT 571
+ D ++ V Q ++
Sbjct: 344 GKIDVDLLYKEWDSTTWTTAPDGKSMPNKFGNANIVINVIGAEQKHPQLAIKY------- 396
Query: 572 ISRLLEYLGHDVVRLNHVGDWGTQFGML 599
+LL + L H+ + +
Sbjct: 397 ALQLLGFED-AAANLYHLA-----YEHV 418
Score = 228 bits (583), Expect = 6e-64
Identities = 63/410 (15%), Positives = 135/410 (32%), Gaps = 105/410 (25%)
Query: 558 HFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIA---HLQDKFP------ 608
H R + I+GD ++R+L +LG++V N++ D G QF + L+++F
Sbjct: 138 HAR----NAILGDVMARILRFLGYEVEVQNYIDDLGIQFAQVYWGYLRLKEEFERIMNEL 193
Query: 609 --DYLTKSPPIADL---------------------------------------QAFYKES 627
L +P L + +
Sbjct: 194 RERGLKDNPIDHALGLLYVEVNRRLEDNPELENEIRDIMKKLESGELYGRKLAEEVVRAQ 253
Query: 628 KK-------RFD----EDEIFKKRAYQCVVAL--------QRFDPDYKKAWEMICDVSR- 667
++D E +I +++ ++ + L D Y+ A+ + D+ +
Sbjct: 254 MVTTYKLGVKYDLLVWESDIVRRKLFEIALELLSKNENFYIPSDGKYRGAF--VMDLRKL 311
Query: 668 ----------------------RDFQKIYDRLNVTLTERGESFYQKHMEQLVPYLEKKGN 705
+D + + K
Sbjct: 312 FPDMKNPILVLRRSDGTATYTGKDIAYHLWKFG-KIDVDLLYKEWDSTTWTTAPDGKSMP 370
Query: 706 LSLTKKLGIVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVGFGVVLGEDRKKFKTR 765
++ V Q ++ + G + + + V + KF R
Sbjct: 371 NKFGNANIVINVIGAEQKHPQLAIKYALQLLGFE-DAAANLYHLAYEHVERPE-GKFSGR 428
Query: 766 SGDTVKLS--ELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNRN 823
G V + E++ E ++R+ + +++KN L+ E +E + V G I+Y + ++ +
Sbjct: 429 KGTWVGFTVDEVIQEAVKRARELIEEKNP--ALSDEEKAEVAEKVGIGAIRYNLIKYSPD 486
Query: 824 LDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSEDPPEPDPSQS 873
+F ++ +L+ G +A Y+ YA+ R +SI R A ++
Sbjct: 487 KKIIFRWEDVLNFEGESAPYIQYAHARCSSILRKAEEEGIKVDPETLFKN 536
Score = 196 bits (500), Expect = 4e-53
Identities = 42/191 (21%), Positives = 91/191 (47%), Gaps = 9/191 (4%)
Query: 931 RRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNT 990
+R+ + +++KN L+ E +E + V G I+Y + ++ + +F ++ +L+ G +
Sbjct: 446 KRARELIEEKNP--ALSDEEKAEVAEKVGIGAIRYNLIKYSPDKKIIFRWEDVLNFEGES 503
Query: 991 AVYLLYAYTRIASIARTAGIN--SEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLV 1048
A Y+ YA+ R +SI R A D ++ + E+E L L + ++
Sbjct: 504 APYIQYAHARCSSILRKAEEEGIKVDPETLFKNADFTKLSERERELVIMLSKFPRIVEQA 563
Query: 1049 TRDLCLHHLCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCF 1108
+D+ H + + ++++ F++FY + ++ + V RLLL A +V+K
Sbjct: 564 GKDVKPHLIAWFANELASLFNKFYMDHPVLKAEEG-----VREARLLLVMAVEQVLKNAL 618
Query: 1109 DILNIRTVHKM 1119
++ I +M
Sbjct: 619 YLMGIEAPERM 629
Score = 93.6 bits (233), Expect = 1e-19
Identities = 30/147 (20%), Positives = 59/147 (40%), Gaps = 23/147 (15%)
Query: 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 68
M +R+ + + ++ P+ + + + K GDF A L K+
Sbjct: 3 MEIRESVKERIEEIIKEIAPQWEGEIELKETPDPK----LGDFGTPIAFKLAKLL----- 53
Query: 69 KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDIIVN- 127
K+ P +IA+ I + +L + I ++A G++NVF+ + + + I+
Sbjct: 54 KRPPIEIAEKIVEKL------KLNLPEGIKDVKAV-NGYINVFIDYPHFARILINDILAK 106
Query: 128 ----GVQPPTLNKKLRVLVDFSSPNIA 150
G KK V+V+ +S N
Sbjct: 107 GDRFGSSEIGKGKK--VIVEHTSVNPT 131
>1iq0_A Arginyl-tRNA synthetase; riken structural genomics/proteomics
initiative, RSGI, structural genomics, ligase; 2.30A
{Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 d.67.2.1
Length = 592
Score = 311 bits (800), Expect = 4e-94
Identities = 76/427 (17%), Positives = 142/427 (33%), Gaps = 80/427 (18%)
Query: 211 LSDVFTHAVQVAFPELG-DKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPF 269
L A+ A E+G VA + K GD+ AL K + K P
Sbjct: 2 LRRALEEAIAQALKEMGVPVRLKVARAPKD---KPGDYGVP-LFALAKELR-----KPPQ 52
Query: 270 DIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPT 329
IAQ + + L + +++ G++N L +++ + P
Sbjct: 53 AIAQELKDRL--------PLPEFVEEAVPV-GGYLNFRLRTEAL---LREALRPKAPFPR 100
Query: 330 LNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGM 389
VLV+ +S N KE+HVGHLR+ +GD I+R+L Y G +V+ LN++ D G Q
Sbjct: 101 RPGV--VLVEHTSVNPNKELHVGHLRNIALGDAIARILAYAGREVLVLNYIDDTGRQAAE 158
Query: 390 LIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDP-DYKK 448
+ L+ + K F + R +D +++ L + + ++
Sbjct: 159 TLFALRHYGLTWDGKEKYD----HFAGRAYVRLHQDPEYERLQPAIEEVLHALERGELRE 214
Query: 449 AWEMICDVSRRDFQKIYDRLNVTLTERGESFYQKHMEQLVPYLEKKGLLELDDGRKIMW- 507
I + R ++ + E + +++ + LE+ + K
Sbjct: 215 EVNRILLAQMATMHALNARYDLLVWE-SDIVRAGLLQKALALLEQSPHVFRPREGKYAGA 273
Query: 508 --------GEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRIEE------------------ 541
+++S+G TY D+A ++
Sbjct: 274 LVMDASPVIPGLEDPFFVLLRSNGTATYYAKDIAFQFWKMGILEGLRFRPYENPYYPGLR 333
Query: 542 ----------EKADWIVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGD 591
KA+ + V D+ Q L+ L Y + +H+
Sbjct: 334 TSAPEGEAYTPKAEETINVVDVRQSHPQALVRA-------ALALAGYPA-LAEKAHHLA- 384
Query: 592 WGTQFGM 598
+
Sbjct: 385 ----YET 387
Score = 183 bits (467), Expect = 4e-49
Identities = 44/194 (22%), Positives = 79/194 (40%), Gaps = 20/194 (10%)
Query: 931 RRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNT 990
RR+ +++KN + EA + VA G I+++ + F + + L G+T
Sbjct: 414 RRARAIVEEKNPDHP----DKEEAARMVALGAIRFSMVKTEPKKQIDFRYQEALSFEGDT 469
Query: 991 AVYLLYAYTRIASIARTAGINSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTR 1050
Y+ YA+ R SI R AG +S E ALA LL + ++
Sbjct: 470 GPYVQYAHARAHSILRKAGEWGAP--------DLSQATPYERALALDLLDFEEAVLEAAE 521
Query: 1051 DLCLHHLCEYLYDISTAFSEFYDNCY-----CIEKDAEGKIKTVHTGRLLLAEATAKVMK 1105
+ H L +YL D++ +++ +Y+ A ++ RL L ++ + +
Sbjct: 522 ERTPHVLAQYLLDLAASWNAYYNARENGQPATPVLTAPEGLR---ELRLSLVQSLQRTLA 578
Query: 1106 KCFDILNIRTVHKM 1119
D+L I M
Sbjct: 579 TGLDLLGIPAPEVM 592
Score = 173 bits (440), Expect = 1e-45
Identities = 38/154 (24%), Positives = 64/154 (41%), Gaps = 6/154 (3%)
Query: 714 IVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVGFGVVLGEDRKKFKTRSGDTVKLS 773
+ V D+ Q L+ AG + + + VL E ++ R G V +
Sbjct: 349 TINVVDVRQSHPQALVRAALALAGYP-ALAEKAHHLAYETVLLEG-RQMSGRKGLAVSVD 406
Query: 774 ELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNRNLDYVFSFDKM 833
E+L+E RR+ +++KN + EA + VA G I+++ + F + +
Sbjct: 407 EVLEEATRRARAIVEEKNPDHP----DKEEAARMVALGAIRFSMVKTEPKKQIDFRYQEA 462
Query: 834 LDDRGNTAVYLLYAYTRIASIARTAGINSEDPPE 867
L G+T Y+ YA+ R SI R AG
Sbjct: 463 LSFEGDTGPYVQYAHARAHSILRKAGEWGAPDLS 496
Score = 150 bits (382), Expect = 4e-38
Identities = 26/150 (17%), Positives = 58/150 (38%), Gaps = 10/150 (6%)
Query: 558 HFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPI 617
H R + +GD I+R+L Y G +V+ LN++ D G Q + L+ + K
Sbjct: 122 HLR----NIALGDAIARILAYAGREVLVLNYIDDTGRQAAETLFALRHYGLTWDGKEKYD 177
Query: 618 ADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDP-DYKKAWEMICDVSRRDFQKIYDR 676
F + R +D +++ L + + ++ I + R
Sbjct: 178 ----HFAGRAYVRLHQDPEYERLQPAIEEVLHALERGELREEVNRILLAQMATMHALNAR 233
Query: 677 LNVTLTERGESFYQKHMEQLVPYLEKKGNL 706
++ + E + +++ + LE+ ++
Sbjct: 234 YDLLVWE-SDIVRAGLLQKALALLEQSPHV 262
Score = 82.0 bits (203), Expect = 5e-16
Identities = 28/137 (20%), Positives = 47/137 (34%), Gaps = 24/137 (17%)
Query: 15 LSDVFTHAVQVAFPELG-DKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPF 73
L A+ A E+G VA + K GD+ AL K + K P
Sbjct: 2 LRRALEEAIAQALKEMGVPVRLKVARAPKD---KPGDYGVP-LFALAKELR-----KPPQ 52
Query: 74 DIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDIIVNGVQPPT 133
IAQ + + L + +++ G++N L +++ + P
Sbjct: 53 AIAQELKDRL--------PLPEFVEEAVPV-GGYLNFRLRTEAL---LREALRPKAPFPR 100
Query: 134 LNKKLRVLVDFSSPNIA 150
VLV+ +S N
Sbjct: 101 RPGV--VLVEHTSVNPN 115
>3gdz_A Arginyl-tRNA synthetase; klebsiella pneumoniae subsp. pneumo 78578,
structural genomics, PSI-2; HET: MSE; 2.20A {Klebsiella
pneumoniae subsp}
Length = 109
Score = 93.2 bits (232), Expect = 9e-23
Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 17/120 (14%)
Query: 202 SDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKD 261
S+ M+++ LS+ + A+ A D V + + +FGD+Q N MA+ K
Sbjct: 1 SNAMNIQALLSEKVSQALIAAGAP-ADCEPQVRQSAKV---QFGDYQANGVMAVAKKLG- 55
Query: 262 KGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDII 321
P +A+ + S L N + +K+E+A PGF+N+FL + + + +
Sbjct: 56 ----MAPRQLAEQVLS----HLDLNG----IANKVEIAGPGFINIFLDPAFLADNVNRAL 103
Score = 89.0 bits (221), Expect = 3e-21
Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 17/117 (14%)
Query: 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 68
M+++ LS+ + A+ A D V + + +FGD+Q N MA+ K
Sbjct: 4 MNIQALLSEKVSQALIAAGAP-ADCEPQVRQSAKV---QFGDYQANGVMAVAKKLG---- 55
Query: 69 KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDII 125
P +A+ + S L N + +K+E A PGF+N+FL + + + +
Sbjct: 56 -MAPRQLAEQVLS----HLDLNG----IANKVEIAGPGFINIFLDPAFLADNVNRAL 103
>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC, struc genomics,
protein structure initiative; 2.20A {Campylobacter
jejuni}
Length = 464
Score = 84.6 bits (210), Expect = 4e-17
Identities = 31/152 (20%), Positives = 56/152 (36%), Gaps = 14/152 (9%)
Query: 969 SHNRNLDYVFSFDKMLD-DRGNTAVYLLYAYTRIASIARTAGINSEDLRVAAQSTPVSLE 1027
+ +L+ F + D N Y+ YA+ RI + AG +D+ +
Sbjct: 316 KCDTHLE--FDISDLQKEDSSNPVYYINYAHARIHQVFAKAGKKIDDV----MKADLQSL 369
Query: 1028 HEKEFALAKTLLRMNDVLMLVTRDLCLHHLCEYLYDISTAFSEFYDNCYCIEKDAEGKIK 1087
++ L L + VL L + +YL +++ F +FY+ + E
Sbjct: 370 NQDGVNLLFEALNLKAVLNDAFEARALQKIPDYLKNLAANFHKFYNENKVVGSANE---- 425
Query: 1088 TVHTGRLLLAEATAKVMKKCFDILNIRTVHKM 1119
L L A +K F ++ I +KM
Sbjct: 426 ---NDLLKLFSLVALSIKTAFSLMGIEAKNKM 454
Score = 73.8 bits (182), Expect = 1e-13
Identities = 50/272 (18%), Positives = 101/272 (37%), Gaps = 58/272 (21%)
Query: 306 VFLSRVYAGEQIKDIIVNGVQ-PPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTIS 364
+ LS+ + E + N K+ L+++ S N +H+GH R + GDT++
Sbjct: 1 MSLSKTFLNELANQALTNPNDFTKGEKKQESFLLEYVSANPTGPLHIGHARGAVFGDTLT 60
Query: 365 RLLEYLGHDVVRLNHVGDWGTQFGML-----------IAHLQDKFP------DYLTKSPP 407
RL +LG+ +V D G Q +L I H ++P +Y+
Sbjct: 61 RLARHLGYKFNTEYYVNDAGNQIYLLGLSILLSVKESILHENVEYPEQYYKGEYIV---D 117
Query: 408 IADLQAFYKESKKRFDEDE---IFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKI 464
+A + +++ K F +E A ++ L + + +
Sbjct: 118 LA--KEAFEKFGKEFFSEENIPSLADWAKDKMLVLIKQN--------------LEQAKIK 161
Query: 465 YDRLNVTLTERGESFYQKHMEQLVPYLEKKGLLELDDG----RKIMWG--EDRGSIPMTI 518
D ++ER S+Y + + L++ + +G G +DR I
Sbjct: 162 ID---SYVSER--SYYDA-LNATLESLKEHKGIYEQEGKIWLASSQKGDEKDR-----VI 210
Query: 519 VKSDGGFTYDTSDLAAIRQRIEEEKADWIVYV 550
++ DG TY +D+ + ++ + +
Sbjct: 211 IREDGRGTYLAADIVYHKDKM-SRGYGKCINI 241
Score = 43.4 bits (103), Expect = 3e-04
Identities = 22/106 (20%), Positives = 43/106 (40%), Gaps = 25/106 (23%)
Query: 567 IIGDTISRLLEYLGHDVVRLNHVGDWGTQFGML-----------IAHLQDKFP------D 609
+ GDT++RL +LG+ +V D G Q +L I H ++P +
Sbjct: 54 VFGDTLTRLARHLGYKFNTEYYVNDAGNQIYLLGLSILLSVKESILHENVEYPEQYYKGE 113
Query: 610 YLTKSPPIADLQAFYKESKKRFDEDE---IFKKRAYQCVVALQRFD 652
Y+ +A + +++ K F +E A ++ L + +
Sbjct: 114 YIV---DLA--KEAFEKFGKEFFSEENIPSLADWAKDKMLVLIKQN 154
Score = 38.4 bits (90), Expect = 0.015
Identities = 25/123 (20%), Positives = 46/123 (37%), Gaps = 34/123 (27%)
Query: 753 VVLGEDRKKFK--TRSGDTVKLSELLDE-GLRRSLDKLKDKNRHTELTPTELSEAQQAVA 809
V L +D + +K R+G+ + +S+++DE G D R+
Sbjct: 275 VSLLKDGEPYKMSKRAGNFILMSDVVDEIG--------SDALRYI--------------- 311
Query: 810 YGCIKYADLSHNRNLDYVFSFDKMLD-DRGNTAVYLLYAYTRIASIARTAGINSEDPPEP 868
+ + +L+ F + D N Y+ YA+ RI + AG +D +
Sbjct: 312 -----FLSKKCDTHLE--FDISDLQKEDSSNPVYYINYAHARIHQVFAKAGKKIDDVMKA 364
Query: 869 DPS 871
D
Sbjct: 365 DLQ 367
>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 = 80.7 bits (198), Expect = 2e-15
Identities = 101/710 (14%), Positives = 187/710 (26%), Gaps = 240/710 (33%)
Query: 98 DKIEAAKPGFVNVF--------LSRVYAGEQMKDIIVNGVQPPTLNKKLRVLVDF--SSP 147
D + + FV+ F + + E++ II+ ++ LR+
Sbjct: 20 DILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIM---SKDAVSGTLRLFWTLLSKQE 76
Query: 148 NIARK--GGFL---YPHLPSQIHDILISKAIAEEEKKQGISSSSSSQTKGTA-KKMNVP- 200
+ +K L Y L S I ++ I K NV
Sbjct: 77 EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY---IEQRDRLYNDNQVFAKYNVSR 133
Query: 201 VSDRMSVRDYL------SDVFTHAVQVAFPELGD-KTASVAST--NEKYVHKFGD--F-- 247
+ + +R L +V V LG KT + K K F
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGV------LGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 248 ---QCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPS-LAKVIDKIEVAKPGF 303
CN + ++ Q + + + + + +I +
Sbjct: 188 NLKNCNSPETV-------------LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 304 VNVFLSRVYAGEQIKD--IIVNGVQPPTLNKKL----RVLV--------DFSSPNIAKEM 349
+ S+ Y ++ +++ VQ ++L+ DF S +
Sbjct: 235 RRLLKSKPY-----ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 350 HVGHLRSTIIGD-TISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPP- 407
+ H T+ D S LL+YL L P + + P
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDL---------------------PREVLTTNPR 328
Query: 408 -IADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYD 466
++ + ++ +D W+ + D
Sbjct: 329 RLSIIAESIRDGLATWDN-------------------------WKHV----------NCD 353
Query: 467 RLNVTLTERGESFYQKHMEQLVPYLEKKGLLEL---DDGRKI-------MWGEDRGSIPM 516
+L + ES L P +K L I +W + S M
Sbjct: 354 KLTTII----ESSL----NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 517 TIV----------KSDGGFTYDTSDLA-AIRQRIEEEKADWIVYVTDLGQGVHFRLLEES 565
+V K T + ++ ++E E A +H +++
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA------------LHRSIVDHY 453
Query: 566 TII----GDTISRLLE------YLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPD-YLTKS 614
I D + ++GH H+ + F +L
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGH------HL------KNIEHPERMTLFRMVFL--- 498
Query: 615 PPIADLQAFYKESKKRFDEDEIFKKRAYQCVVA-----LQRFDPDYKKAWEMICDVSRRD 669
D RF E +I LQ+ YK ICD +
Sbjct: 499 ----DF---------RFLEQKIRHDSTAWNASGSILNTLQQLK-FYKP---YICDNDPKY 541
Query: 670 FQKIYDRLNVTLTERGESFYQKHMEQLVPYLEKKGNL---SLTKKLGIVY 716
+ + L+ F K E L K +L +L + ++
Sbjct: 542 ERLVNAILD---------FLPKIEENL--ICSKYTDLLRIALMAEDEAIF 580
Score = 65.3 bits (158), Expect = 9e-11
Identities = 90/635 (14%), Positives = 179/635 (28%), Gaps = 173/635 (27%)
Query: 380 VGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFK-----KRAYQ 434
G+ Q+ +++ +D F + D+Q K + + D I +
Sbjct: 11 TGEHQYQYKDILSVFEDAF----VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 435 CVVAL--------QRF-----DPDYKKAWEMICDVSR------RDFQKIYDRLNVTLTER 475
L Q+F +YK I R R + + DRL
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND---- 122
Query: 476 GESFYQKHMEQLVPYLE-KKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTSDLAA 534
+ F + ++ +L PYL+ ++ LLEL + + ++ G + +A
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNV------------LIDGVLGS--GKTWVAL 168
Query: 535 --IR-QRIEEEKADWIVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGD 591
+++ + I ++ L ++ +LE L +L +
Sbjct: 169 DVCLSYKVQCKMDFKIFWLN-LKNC-------------NSPETVLEML----QKLLY--- 207
Query: 592 WGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQ-CVVALQR 650
+ + S I + +R K + Y+ C++ L
Sbjct: 208 ----------QIDPNWTSRSDHSSNIKLRIHSIQAELRRL-----LKSKPYENCLLVLL- 251
Query: 651 FDPDYKKAWEMI---C-------DVSRRDFQKIYDRLNVTLTERGESFYQKHMEQLV--- 697
+ KAW C DF +++L + ++ L+
Sbjct: 252 -NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310
Query: 698 --------PYLEKKGNLSLTKKLGIVYVTDLGQGVHFRLLEECAKKAGI-------LNPN 742
P N + L +++ + C K I L P
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN-CDKLTTIIESSLNVLEPA 369
Query: 743 KTRMDFVGFGVVLGEDRK-KFKT-----RSGDTVKLSELLDEGLRRSLDKLKDKNRHT-- 794
+ R F V + ++++ + SL + K T
Sbjct: 370 EYRKMFDRL-SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE-KQPKESTIS 427
Query: 795 ------ELTPTELSEAQ---QAV-AYGCIK---YADLSHNRNLDYVFSF------DKMLD 835
EL +E V Y K DL Y +S +
Sbjct: 428 IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP 487
Query: 836 DRGN--TAVYLLYA-------YTRIASIARTAGIN------------SEDPPEPDPSQSE 874
+R V+L + + A A + +N ++ P+ + +
Sbjct: 488 ERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA 547
Query: 875 VEDRCCPSHAKTHRKPPFTYTELIEQAL--KENGL 907
+ D YT+L+ AL ++ +
Sbjct: 548 ILDFLPKIEENLICSK---YTDLLRIALMAEDEAI 579
Score = 59.1 bits (142), Expect = 8e-09
Identities = 75/498 (15%), Positives = 137/498 (27%), Gaps = 138/498 (27%)
Query: 589 VGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFK-----KRAYQ 643
G+ Q+ +++ +D F + D+Q K + + D I +
Sbjct: 11 TGEHQYQYKDILSVFEDAF----VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 644 CVVAL--------QRF-----DPDYKKAWEMICDVSR------RDFQKIYDRLNVTLTER 684
L Q+F +YK I R R + + DRL
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND---- 122
Query: 685 GESFYQKHMEQLVPYLE-KKGNLSLTKKLGIVYVTDLGQG--VHFRLLEECAKKAGILNP 741
+ F + ++ +L PYL+ ++ L L ++ LG G + + +
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW---VALDVCLSYKV--- 176
Query: 742 NKTRMDFVGFGVVLGEDRKKFKTRSGDTVKLSELLDEGLRRSLDK-LKDKNRHTELTPTE 800
+ +MDF F + L L L L +D ++ H+
Sbjct: 177 -QCKMDFKIFWLNLKNCNS-------PETVLEMLQK--LLYQIDPNWTSRSDHSSNIKLR 226
Query: 801 LSEAQQAVAYGCIKYADLSHNRNL---DYVFS------FD---KML---DDRGNTAVYLL 845
+ Q + + L V + F+ K+L + T
Sbjct: 227 IHSIQAELRR---LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 846 YAYTRIASI---------------ARTAGINSED-PPEP---DPSQ-----SEVEDRCCP 881
T I+ + +D P E +P + + D
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG--L 341
Query: 882 SHAKTHRKPPF-TYTELIEQALK------------------------ENGLCWVWRG-VG 915
+ + T +IE +L L +W +
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 916 RGQEEVQDSLRGYGLRRSLDKLKDKNRHT------ELTPTELSEAQ---QAV-AYGCIK- 964
V + L Y L ++K ++ + EL +E V Y K
Sbjct: 402 SDVMVVVNKLHKYSL---VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 965 --YADLSHNRNLDYVFSF 980
DL Y +S
Sbjct: 459 FDSDDLIPPYLDQYFYSH 476
Score = 45.6 bits (107), Expect = 9e-05
Identities = 50/416 (12%), Positives = 99/416 (23%), Gaps = 104/416 (25%)
Query: 757 ED--RKKFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIK 814
+D + D + +S+ G R L K Q+ V
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM---------VQKFV------ 83
Query: 815 YADLSHNRNLDYVFSFDKM-LDDRGNTAVYLLYAYTRIASIARTAGINSEDPPEPDPSQS 873
+ N Y F + + R + + +Y R R N
Sbjct: 84 --EEVLRIN--YKFLMSPIKTEQRQPSMMTRMYIEQR----DRLYNDNQVFAKYNVSRLQ 135
Query: 874 EVED-RCCPSHAKTHR-----------KPPFTYTELIEQALK--------ENGLCWVWRG 913
R + + K T + + + W+
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGK-----TWVALDVCLSYKVQCKMDFKIFWL--N 188
Query: 914 VGRGQEEVQDSLRGYGLRRSLDK-LKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNR 972
+ L +D ++ H+ + Q + +
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR---LLKSKPYEN 245
Query: 973 NL---DYVFS------FD---KML---DDRGNTAVYLLYAYTRIASI------------- 1004
L V + F+ K+L + T T I+
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 1005 --ARTAGINSEDLRVAAQST-P--VSL--EHEKEF-ALAKTLLRMNDVLMLVTRDLCLHH 1056
+ +DL +T P +S+ E ++ A +N + + L+
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 1057 LCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRL---LLAEATAKVMKKCFD 1109
L Y + +D A I T+ + ++ V+ K
Sbjct: 366 LEPAEY------RKMFDRLSVFPPSA--HIPTILLSLIWFDVIKSDVMVVVNKLHK 413
>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 = 64.7 bits (157), Expect = 2e-10
Identities = 95/670 (14%), Positives = 169/670 (25%), Gaps = 251/670 (37%)
Query: 15 LSDVFTHAVQVAFPELG--DKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNP 72
L + F + D+ + A V KF + + +
Sbjct: 33 LQEQFNKILPEPTEGFAADDEPTTPAE----LVGKF--------LGYVSSLVEPSKVGQF 80
Query: 73 FDIAQSIASVVTSE-LATNP--SLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDIIVNGV 129
+ + + L N +LA + + + M +
Sbjct: 81 DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 130 QPPTL-----NKKLRVLVDFSSPNIARKGG-------F-----LYPHLPSQIHDILISKA 172
L +++ F GG F LY + D LI +
Sbjct: 141 SNSALFRAVGEGNAQLVAIF--------GGQGNTDDYFEELRDLYQTYHVLVGD-LIKFS 191
Query: 173 IAEEEKKQGISSSSSSQTKGTAKKMNV------PVSDRMSVRDYLSDVFTHAVQVAFPEL 226
E + ++ K + +N+ P +DYL ++ ++ P +
Sbjct: 192 ---AETLSELIRTTLDAEKVFTQGLNILEWLENP--SNTPDKDYLL-----SIPISCPLI 241
Query: 227 GDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQS-----------I 275
G V + + + K+ G P ++ +
Sbjct: 242 G-------------VIQLAHY-----VVTAKLL---G--FTPGELRSYLKGATGHSQGLV 278
Query: 276 ASVVTSELATNPSLAKVIDK-IEVAKPGFVNVFLSRVYAG--------------EQIKDI 320
+V +E + S + K I V F + G ++D
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVL-------F----FIGVRCYEAYPNTSLPPSILEDS 327
Query: 321 IVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHV 380
+ N P SP M L +I T ++ +Y+ + N
Sbjct: 328 LENNEGVP-------------SP-----M----L--SISNLTQEQVQDYVN----KTN-- 357
Query: 381 GDWGTQFGMLIAHLQDKFPDY--LTKSP-------PIADLQAFYKESKKRF-----DEDE 426
+HL L P L +K D+
Sbjct: 358 -----------SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR 406
Query: 427 I-FKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTERGESFYQKHME 485
I F +R + RF P V F H
Sbjct: 407 IPFSERKLKFSN---RFLP-------------------------VA-----SPF---H-- 428
Query: 486 QLVPYLEK-KGLLELDDGRK-IMWGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRIEEEK 543
L L+ D + + + IP V T+D SDL + I E
Sbjct: 429 --SHLLVPASDLINKDLVKNNVSFNAKDIQIP---VYD----TFDGSDLRVLSGSISERI 479
Query: 544 ADWIV---------------YVTDLGQGVHFRLLEESTIIGDTISRLLEYLGHDVV---- 584
D I+ ++ D G G ++ +G R + G V+
Sbjct: 480 VDCIIRLPVKWETTTQFKATHILDFGPG-------GASGLGVLTHRNKDGTGVRVIVAGT 532
Query: 585 -RLNHVGDWG 593
+N D+G
Sbjct: 533 LDINPDDDYG 542
Score = 50.0 bits (119), Expect = 5e-06
Identities = 97/598 (16%), Positives = 164/598 (27%), Gaps = 211/598 (35%)
Query: 377 LNHVGDWGTQFGMLIAH--------LQDKFPDYLTKSPPIADLQAFYKESKKRFDED--- 425
L+H G + +L+ LQ++F L P A D++
Sbjct: 11 LSH-GS--LEHVLLVPTASFFIASQLQEQFNKIL--PEPTEGFAA---------DDEPTT 56
Query: 426 --EIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLN------VTLTERGE 477
E+ K + V+ +P ++ + ++ +F+ Y N L + +
Sbjct: 57 PAELVGK--FLGYVS-SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEND 113
Query: 478 SFYQKHMEQLVPYLEKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQ 537
+ K E + Y+ + + R D+ S S L +
Sbjct: 114 TTLVKTKELIKNYITARIMA----KRPF----DKKS---------------NSALF---R 147
Query: 538 RIEEEKADWIVYVTDLGQGVHFRLLEE--------STIIGDTISR---LLEYLGHDVVRL 586
+ E A + GQG EE ++GD I L L +
Sbjct: 148 AVGEGNAQ--LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA 205
Query: 587 NHVGDWGTQFGMLIAHLQDKFPD--YLTKSP---P-IADLQ-AFY-----------KESK 628
V G + + PD YL P P I +Q A Y E +
Sbjct: 206 EKVFTQGLNILEWLEN-PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELR 264
Query: 629 KRF-------------------DEDEIFKKRAYQCVVAL-------QRFDPDY------- 655
D E F + + L P+
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324
Query: 656 KKAWE--------M--ICDVSRRDFQKIYDRLNVTLTER-----------------G--E 686
+ + E M I ++++ Q ++ N L G +
Sbjct: 325 EDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ 384
Query: 687 SFY-----------QKHMEQL-VPYLEKKGNLSLTKKLGIVY--VTDLGQGVHF--RLLE 730
S Y ++Q +P+ E+K K + V F LL
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPFSERK------LKFSNRFLPVA-----SPFHSHLLV 433
Query: 731 ECAKKAGILNPNKTRMDFVGFGVVL-GEDRKK--FKTRSG-DTVKLSELLDEGLRRSLDK 786
+ I D V V +D + + T G D LS + E + + +
Sbjct: 434 PASDL--INK------DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR 485
Query: 787 LK---DKNRHTELT------PTELSE-----AQQAVAYGC--IKYADLSHNRNLDYVF 828
L + + T P S + G I L N + DY F
Sbjct: 486 LPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGF 543
Score = 47.0 bits (111), Expect = 4e-05
Identities = 95/545 (17%), Positives = 167/545 (30%), Gaps = 202/545 (37%)
Query: 586 LNHVGDWGTQFGMLIAH--------LQDKFPDYLTKSPPIADLQAFYKESKKRFDED--- 634
L+H G + +L+ LQ++F L P A D++
Sbjct: 11 LSH-GS--LEHVLLVPTASFFIASQLQEQFNKIL--PEPTEGFAA---------DDEPTT 56
Query: 635 --EIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTERGESFYQKH 692
E+ K + V+ +P ++ + ++ +F+ Y L G H
Sbjct: 57 PAELVGK--FLGYVS-SLVEPSKVGQFDQVLNLCLTEFENCY------L--EGNDI---H 102
Query: 693 MEQLVPYLEKKGNLSLTKKLGIV--YVTDLGQGVHF-------RLLEEC-AKKAGILNPN 742
L L ++ + +L K ++ Y+T L A +
Sbjct: 103 A--LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL---- 156
Query: 743 KTRMDFVGFG------VVLGEDRKKFKT-RS--GDTVKLS-ELLDEGLRRSLD--KLKDK 790
FG E R ++T GD +K S E L E +R +LD K+ +
Sbjct: 157 -----VAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 791 N-------RHTELTPTE--LSEAQ---------QAVAY--GCIKYADLSHNRNLDYVF-- 828
+ TP + L Q Y K + Y+
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTA-KLLGFTPGELRSYLKGA 270
Query: 829 --------------------SFDKMLDDRGNTAVYLLY--------AYTRIA---SIART 857
SF + A+ +L+ AY + SI
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFVSVRK----AITVLFFIGVRCYEAYPNTSLPPSILED 326
Query: 858 AGINSEDPPEP-----DPSQSEVEDRC--CPSHAKTHRKPPFTYTELIEQALKENG---- 906
+ N+E P P + +Q +V+D SH ++ +E +L NG
Sbjct: 327 SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ--------VEISLV-NGAKNL 377
Query: 907 -LCWVWRGVGRGQEEVQDSLRGYGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKY 965
+ G Q SL YGL +L K K P+ L +++ I +
Sbjct: 378 VVS------GPPQ-----SL--YGLNLTLRKAK--------APSGLDQSR-------IPF 409
Query: 966 ADLSHNRNLDYVFSFDKMLDDRGNTA----VYLLYAYTRIAS--IARTAGINSEDLRVAA 1019
++ R L + F + + L+ A I + N++D+++
Sbjct: 410 SE----RKLKFSNRFLPV------ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI-- 457
Query: 1020 QSTPV 1024
PV
Sbjct: 458 ---PV 459
Score = 47.0 bits (111), Expect = 4e-05
Identities = 66/354 (18%), Positives = 107/354 (30%), Gaps = 133/354 (37%)
Query: 57 MALCKIFK------DKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNV 110
M L K K ++ + SI +V NP + E K N
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVI----NNPVNLTIHFGGEKGKRIREN- 1687
Query: 111 FLSRVYAGEQMKDIIVNGVQP-PTLNKKLRVLVDFSSPNIARKGGFLY------PHLPSQ 163
+ + ++ E + D + + +N+ F S G L P L
Sbjct: 1688 YSAMIF--ETIVDGKLKTEKIFKEINEHSTSYT-FRSEK-----GLLSATQFTQPAL--- 1736
Query: 164 IHDILISKAIAEEEKKQGISSSSS-----SQTKG--TAKKMNVPVSDRMSVRDYLSDVFT 216
L+ KA E+ K +G+ + + S G A ++D MS+ + VF
Sbjct: 1737 ---TLMEKAAFEDLKSKGLIPADATFAGHSL--GEYAA---LASLADVMSIESLVEVVFY 1788
Query: 217 --HAVQVAFP--ELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIA 272
+QVA P ELG N M NP
Sbjct: 1789 RGMTMQVAVPRDELGRS--------------------NYGMIAI----------NP---- 1814
Query: 273 QSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNK 332
+A+ + E +L V++++ V E IVN N
Sbjct: 1815 GRVAASFSQE-----ALQYVVERVGKRTGWLV----------E-----IVN------YN- 1847
Query: 333 KLRVLVDFSSPN----IAKEMHVGHLRSTIIGDTISRLLEYLGH---DVVRLNH 379
N A G LR+ DT++ +L ++ D++ L
Sbjct: 1848 ---------VENQQYVAA-----GDLRAL---DTVTNVLNFIKLQKIDIIELQK 1884
Score = 39.6 bits (92), Expect = 0.007
Identities = 54/316 (17%), Positives = 92/316 (29%), Gaps = 109/316 (34%)
Query: 527 YDTSDLA-AIRQRIEEEKADWIVYVTD-LGQGVHFRLLEESTIIGDTISRLLEYLG---- 580
Y TS A + R AD + D G F +L+ I+ + L + G
Sbjct: 1636 YKTSKAAQDVWNR-----ADN--HFKDTYG----FSILD---IVINNPVNLTIHFGGEKG 1681
Query: 581 ------HDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADL------Q------- 621
+ + + D + + + + Y T L Q
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY-TFRSEKGLLSATQFTQPALTLME 1740
Query: 622 -AFYKESKKR--FDEDEIFKKRA------YQCVVALQRFDPDYKKAWEMICDVSRRDFQK 672
A +++ K + D F A Y AL S D
Sbjct: 1741 KAAFEDLKSKGLIPADATF---AGHSLGEY---AAL----------------ASLADVMS 1778
Query: 673 IYDRLNVTLTERGESFYQKHMEQLVPYLEK-KGNLSLTKKLGIVYVTDLGQGVHFRLLEE 731
I + V + RG + M+ VP E + N + Q ++E
Sbjct: 1779 IESLVEV-VFYRGMT-----MQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVER 1832
Query: 732 CAKKAG----ILN---PNKTRMDFVGFGVVL-GEDR---------KKFKTRSGDTVKLSE 774
K+ G I+N N+ V G+ R K + D ++L +
Sbjct: 1833 VGKRTGWLVEIVNYNVENQQ--------YVAAGDLRALDTVTNVLNFIKLQKIDIIELQK 1884
Query: 775 LLDEGLRRSLDKLKDK 790
L SL++++
Sbjct: 1885 SL------SLEEVEGH 1894
>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 = 40.7 bits (96), Expect = 0.003
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV--VR 376
H+G+ R+ I GD + + L +LG+ V
Sbjct: 57 HIGNFRTYIFGDLLIKTLRFLGYKVNYAM 85
>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 = 40.3 bits (95), Expect = 0.003
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH + + D + RL GH V
Sbjct: 54 HLGHAATYLTFDLVHRLWLDAGHTV 78
>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 = 40.2 bits (95), Expect = 0.004
Identities = 11/29 (37%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV--VR 376
H+GH R+ + D ++R L +LG+ + VR
Sbjct: 37 HIGHGRTFVAFDVVARYLRFLGYKLKYVR 65
>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A
{Coxiella burnetii}
Length = 462
Score = 39.4 bits (93), Expect = 0.006
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV--VR 376
H+GH RS II D + R L G++V VR
Sbjct: 40 HIGHGRSWIIFDMVVRYLRMRGYEVTFVR 68
>1sw5_A Osmoprotection protein (PROX); binding-protein, compatible solutes,
cation-PI interactions, classical hydrogen bonds,
protein binding; 1.80A {Archaeoglobus fulgidus} SCOP:
c.94.1.1 PDB: 1sw4_A 1sw1_A 1sw2_A 3mam_A*
Length = 275
Score = 32.9 bits (75), Expect = 0.43
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 9/79 (11%)
Query: 564 ESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDY--------LTKSP 615
E I+ + I+ LLE G+ +G + L + + +Y L K P
Sbjct: 17 EQYILANMIAILLEENGYKAEVKEGLGGTLVNYEALKRNDIQLYVEYTGTAYNVILRKQP 76
Query: 616 P-IADLQAFYKESKKRFDE 633
P + D Q + E KK E
Sbjct: 77 PELWDQQYIFDEVKKGLLE 95
Score = 30.2 bits (68), Expect = 3.7
Identities = 19/78 (24%), Positives = 30/78 (38%), Gaps = 9/78 (11%)
Query: 356 STIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDY--------LTKSPP 407
I+ + I+ LLE G+ +G + L + + +Y L K PP
Sbjct: 18 QYILANMIAILLEENGYKAEVKEGLGGTLVNYEALKRNDIQLYVEYTGTAYNVILRKQPP 77
Query: 408 -IADLQAFYKESKKRFDE 424
+ D Q + E KK E
Sbjct: 78 ELWDQQYIFDEVKKGLLE 95
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 30.9 bits (70), Expect = 0.59
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 3/40 (7%)
Query: 864 DPPEPDPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALK 903
DP ++ + +Y ELI QA++
Sbjct: 2 SHMLEDPGAVTGPR---KGGSRRNAWGNQSYAELISQAIE 38
>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 = 32.9 bits (76), Expect = 0.70
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 349 MHVGHLRSTIIGDTISRLLEYLGHDV 374
+H+GH+R+ IGD I+R LG +V
Sbjct: 68 LHMGHVRNYTIGDVIARYQRMLGKNV 93
>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 = 32.9 bits (76), Expect = 0.74
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 349 MHVGHLRSTIIGDTISRLLEYLGHDV 374
+H+GHL++ +GD ++R G++V
Sbjct: 48 LHMGHLKNYTMGDVLARFRRMQGYEV 73
>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 = 32.7 bits (74), Expect = 0.78
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH+ ST+I D I R G V
Sbjct: 25 HIGHVYSTLITDVIGRYHRVKGERV 49
>2iru_A Putative DNA ligase-like protein RV0938/MT0965; polymerase,
primase, NHEJ, transferase; 1.65A {Mycobacterium
tuberculosis} PDB: 2irx_A* 2iry_A* 2r9l_A* 3pky_A*
Length = 303
Score = 32.1 bits (73), Expect = 1.0
Identities = 24/167 (14%), Positives = 44/167 (26%), Gaps = 44/167 (26%)
Query: 476 GESFYQKHMEQLVP----------YLEKKGLLELDDGRKIMWGEDRGSI----PMTIVKS 521
+F++K + P +D + W + ++ P +
Sbjct: 63 QPAFFEKQLALSAPPWLSRATVAHRSGTTTYPIIDSATGLAWIAQQAALEVHVPQWRFVA 122
Query: 522 DGGFTYDTSDLAAIRQRIEEEKADWIVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLG- 580
+ G A +V+ D G+GV L E + LL +G
Sbjct: 123 EPGSGEL-----------NPGPATRLVFDLDPGEGVMMAQLAEVARA---VRDLLADIGL 168
Query: 581 ------------HDVVRLNHVGDWGT--QFGMLIA-HLQDKFPDYLT 612
H L+ +A L+ P +T
Sbjct: 169 VTFPVTSGSKGLHLYTPLDEPVSSRGATVLAKRVAQRLEQAMPALVT 215
>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 = 32.3 bits (74), Expect = 1.1
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH+ ST+I D + R G +V
Sbjct: 42 HIGHVYSTLIVDVLGRYHRVKGEEV 66
>3jv1_A P22 protein; MAM33 family, hydrolase; 2.00A {Trypanosoma brucei}
Length = 182
Score = 31.1 bits (70), Expect = 1.4
Identities = 17/110 (15%), Positives = 34/110 (30%), Gaps = 10/110 (9%)
Query: 300 KPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTII 359
KPG + + + + E+I + + G + V + A + +
Sbjct: 39 KPGVTHFTMRKSHGDEEII-LQLTGEDRSNEEITRTLDVLVVNGGKALVFGMSVEDGEFV 97
Query: 360 GDTISRLLEYLGHDVVRLNHVGDW-------GTQFGMLIAHLQDKFPDYL 402
+ + + G + + + G L HL D F YL
Sbjct: 98 INNVC--FRHDGKLALDTSAEAQFQKSQLYMGPDLADLEDHLVDSFTSYL 145
>1irx_A Lysyl-tRNA synthetase; beta sandwitch, zinc-binding structure,
rossmann fold, alpha-helix CAGE; 2.60A {Pyrococcus
horikoshii} SCOP: a.97.1.2 c.26.1.1
Length = 523
Score = 31.8 bits (71), Expect = 1.5
Identities = 51/408 (12%), Positives = 108/408 (26%), Gaps = 69/408 (16%)
Query: 350 HVGHLRSTIIGDTISRLL-------------------------------EYLGHDVVRLN 378
HVG+ R + L +YLG + +
Sbjct: 35 HVGNFRELFTAYIVGHALRDKGYEVRHIHMWDDYDRFRKVPRNVPQEWKDYLGMPISEVP 94
Query: 379 HVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVA 438
+ ++ + L + YK + + F+KR +
Sbjct: 95 DPWGCHESYAEHFMRKFEEEVEKLGIEVDLLYASELYKRGEYSEEIRLAFEKRDKIMEIL 154
Query: 439 -------LQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTL------TERGESFYQKHME 485
Q P+ + C RR+ + I + G +
Sbjct: 155 NKYREIAKQPPLPENWWPAMVYCPEHRREAEIIEWDGGWKVKYKCPEGHEGWVDIRSGNV 214
Query: 486 QLVPYLEKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRIEEEKAD 545
+L ++ G+D G +YDT I + + ++A
Sbjct: 215 KLRWRVDWPMRWSHFGVDFEPAGKDHLV---------AGSSYDTGK--EIIKEVYGKEAP 263
Query: 546 WIV---YVTDLGQGVHFRLLEESTIIGDTISRLL--EYLGHDVVRLNHVGDWGTQFGMLI 600
+ +V GQ + + I+ + +L + R + G+ I
Sbjct: 264 LSLMYEFVGIKGQKGKMSGSKGNVILLSDLYEVLEPGLVRFIYARHRPNKEIKIDLGLGI 323
Query: 601 AHLQDKFPDYLTKSPPIADLQA-------FYKESKKRFDEDEIFKKRAYQCVVALQRFDP 653
+L D+F + + Y+ S + E + + V +Q
Sbjct: 324 LNLYDEFEKVERIYFGVEGGKGDDEELRRTYELSMPKKPERLVAQAPFRFLAVLVQLPHL 383
Query: 654 DYKKAWEMI--CDVSRRDFQKIYDRLNVTLTERGESFYQKHMEQLVPY 699
+ ++ RD K ++ +K+ + V +
Sbjct: 384 TEEDIINVLIKQGHIPRDLSKEDVERVKLRINLARNWVKKYAPEDVKF 431
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 30.0 bits (67), Expect = 2.0
Identities = 8/43 (18%), Positives = 14/43 (32%), Gaps = 3/43 (6%)
Query: 862 SEDPPEPDPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKE 904
DP ++ + +Y ELI QA++
Sbjct: 16 RGSHMLEDPGAVTGPR---KGGSRRNAWGNQSYAELISQAIES 55
>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 = 29.9 bits (66), Expect = 2.4
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 17/44 (38%)
Query: 315 EQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTI 358
+ +K L L++ D S+P +A +++T+
Sbjct: 20 QALK----------KLQASLKLYADDSAPALA-------IKATM 46
Score = 29.1 bits (64), Expect = 4.8
Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 21/50 (42%)
Query: 492 EKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTSDLA-AIRQRIE 540
EK+ L +L K ++ +D S P A AI+ +E
Sbjct: 18 EKQALKKLQASLK-LYADD--SAP-----------------ALAIKATME 47
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 31.1 bits (70), Expect = 2.5
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 349 MHVGHLRSTIIGDTISRLLEYLGHDV 374
+HVGH R+ I D I+R G++V
Sbjct: 49 LHVGHARTYTIPDVIARFKRMQGYNV 74
>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal
binding protein, structural genomics, NPPSFA; 2.21A
{Pyrococcus horikoshii}
Length = 342
Score = 30.6 bits (68), Expect = 2.7
Identities = 22/176 (12%), Positives = 54/176 (30%), Gaps = 16/176 (9%)
Query: 279 VTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPT---LNKKLR 335
T+ + TN ++ + ++++ +++S + + + + P + + L
Sbjct: 171 FTTFIVTNGTIPERLEEMIKEDKLPTQLYVSITAPDIETYNSVNIPMIPDGWERILRFLE 230
Query: 336 VLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQ 395
++ D + + + V ++L+ V G L
Sbjct: 231 LMRDLPTRTVVRLTLVKGENMHSPEK-YAKLILKARPMFVEAKAYMFVGYSRNRLT---- 285
Query: 396 DKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQR--FDPDYKKA 449
+ P D++ F + K I + VV + R DP
Sbjct: 286 ------INNMPSHQDIREFAEALVKHLPGYHIEDEYEPSRVVLIMRDDVDPQGTGV 335
>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 = 30.7 bits (70), Expect = 2.8
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH +T++ D ++R G+
Sbjct: 19 HLGHAYTTVVADFLARWHRLDGYRT 43
>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 = 30.7 bits (70), Expect = 2.8
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH I D I+R G+DV
Sbjct: 28 HIGHAYEYIATDAIARFKRLDGYDV 52
>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 = 30.7 bits (70), Expect = 3.1
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH +TI DTI+R +DV
Sbjct: 21 HLGHAYTTIAADTIARYYRLRDYDV 45
>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 = 30.7 bits (70), Expect = 3.1
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH I D ++R G DV
Sbjct: 41 HIGHAYELIATDAMARFQRLNGMDV 65
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 30.7 bits (69), Expect = 3.6
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 349 MHVGHLRSTIIGDTISRLLEYLGHDVVR 376
+HVGH R+ I D I+R G++V+
Sbjct: 49 LHVGHARTYTIPDVIARFKRMQGYNVLF 76
>2fao_A Probable ATP-dependent DNA ligase; polymerase, primase, NHEJ,
hydrolase/transferase complex; 1.50A {Pseudomonas
aeruginosa} PDB: 2faq_A* 2far_A*
Length = 309
Score = 30.1 bits (68), Expect = 4.0
Identities = 31/159 (19%), Positives = 52/159 (32%), Gaps = 36/159 (22%)
Query: 476 GESFYQKHMEQLVPYLEKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTSDLAAI 535
GE F+QKH +L ++ D G P+ ++S + +I
Sbjct: 69 GELFFQKHAARLKI----------PGIVQLDPALDPGHPPLLQIRSAEALVG-AVQMGSI 117
Query: 536 R------QRIEEEKADWIVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLG--------- 580
E+ D V D + ++ + E+T + LL+ LG
Sbjct: 118 EFHTWNASLANLERPDRFVLDLDPDPALPWKRMLEATQL---SLTLLDELGLRAFLKTSG 174
Query: 581 ----HDVVRLNHVGDWGT--QFGMLIA-HLQDKFPDYLT 612
H +V L W F I+ HL P+ +
Sbjct: 175 GKGMHLLVPLERRHGWDEVKDFAQAISQHLARLMPERFS 213
>2a07_F Forkhead box protein P2; double-helix, swapping, homodimer,
monomer, winged-helix, magnesium, transcription/DNA
complex; 1.90A {Homo sapiens} SCOP: a.4.5.14 PDB: 2as5_F
2kiu_A 3qrf_F
Length = 93
Score = 28.0 bits (63), Expect = 4.6
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 889 KPPFTYTELIEQALKE 904
+PPFTY LI QA+ E
Sbjct: 3 RPPFTYATLIRQAIME 18
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
0.319 0.136 0.397
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 17,491,841
Number of extensions: 1124183
Number of successful extensions: 3274
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3190
Number of HSP's successfully gapped: 78
Length of query: 1119
Length of database: 6,701,793
Length adjustment: 104
Effective length of query: 1015
Effective length of database: 3,798,009
Effective search space: 3854979135
Effective search space used: 3854979135
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 63 (28.0 bits)