RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6783
(1119 letters)
>gnl|CDD|215160 PLN02286, PLN02286, arginine-tRNA ligase.
Length = 576
Score = 451 bits (1163), Expect = e-146
Identities = 194/426 (45%), Positives = 270/426 (63%), Gaps = 35/426 (8%)
Query: 211 LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKG-EKKNPF 269
L+ +F ++++ P+ VA+ KFGD+QCN+AM L K KG KNP
Sbjct: 3 LAKLFEASLRLTVPDEPSVEPLVAACTNP---KFGDYQCNNAMGLWSKLKGKGTSFKNPR 59
Query: 270 DIAQSI-ASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQP- 327
+AQ+I ++ SE+ I+ VA PGFVNV LS + ++I+ ++V+G+
Sbjct: 60 AVAQAIVKNLPASEM---------IESTSVAGPGFVNVRLSASWLAKRIERMLVDGIDTW 110
Query: 328 -PTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGDWGTQ 386
PTL K R +VDFSSPNIAKEMHVGHLRSTIIGDT++R+LE+ G +V+R NHVGDWGTQ
Sbjct: 111 APTLPVK-RAVVDFSSPNIAKEMHVGHLRSTIIGDTLARMLEFSGVEVLRRNHVGDWGTQ 169
Query: 387 FGMLIAHLQDKFPDYLT-KSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDPD 445
FGMLI HL +KFP++ + I DLQ FYK +KKRFDEDE FK RA Q VV LQ DP+
Sbjct: 170 FGMLIEHLFEKFPNWESVSDQAIGDLQEFYKAAKKRFDEDEEFKARAQQAVVRLQGGDPE 229
Query: 446 YKKAWEMICDVSRRDFQKIYDRLNVTLTERGESFYQKHMEQLVPYLEKKGLLELDDGRKI 505
Y+ AW IC++SRR+F+K+Y RL V L E+GESFY ++ ++ LE KGL+ DG ++
Sbjct: 230 YRAAWAKICEISRREFEKVYQRLRVELEEKGESFYNPYIPGVIEELESKGLVVESDGARV 289
Query: 506 MWGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRIEEEKADWIVYVTDLGQGVHFRLLEES 565
++ E IP+ +VKSDGGF Y ++DLAA+ R+ EEKA+WI+YVTD+GQ HF ++ ++
Sbjct: 290 IFVEGF-DIPLIVVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQQHFDMVFKA 348
Query: 566 TIIGDTISRLLEYLGHDV-VRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFY 624
++ +L D RL HVG FG+++ +F + + DL
Sbjct: 349 -------AKRAGWLPEDTYPRLEHVG-----FGLVLGEDGKRFRTRSGEVVRLVDL---L 393
Query: 625 KESKKR 630
E+K R
Sbjct: 394 DEAKSR 399
Score = 406 bits (1045), Expect = e-129
Identities = 168/353 (47%), Positives = 223/353 (63%), Gaps = 47/353 (13%)
Query: 558 HFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLT-KSPP 616
H R STIIGDT++R+LE+ G +V+R NHVGDWGTQFGMLI HL +KFP++ +
Sbjct: 136 HLR----STIIGDTLARMLEFSGVEVLRRNHVGDWGTQFGMLIEHLFEKFPNWESVSDQA 191
Query: 617 IADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDR 676
I DLQ FYK +KKRFDEDE FK RA Q VV LQ DP+Y+ AW IC++SRR+F+K+Y R
Sbjct: 192 IGDLQEFYKAAKKRFDEDEEFKARAQQAVVRLQGGDPEYRAAWAKICEISRREFEKVYQR 251
Query: 677 LNVTLTERGESFYQKHMEQLVPYLEKKG------------------NLSLTKKLG----- 713
L V L E+GESFY ++ ++ LE KG L + K G
Sbjct: 252 LRVELEEKGESFYNPYIPGVIEELESKGLVVESDGARVIFVEGFDIPLIVVKSDGGFNYA 311
Query: 714 ------------------IVYVTDLGQGVHFRLLEECAKKAGIL-NPNKTRMDFVGFGVV 754
I+YVTD+GQ HF ++ + AK+AG L R++ VGFG+V
Sbjct: 312 STDLAALWYRLNEEKAEWIIYVTDVGQQQHFDMVFKAAKRAGWLPEDTYPRLEHVGFGLV 371
Query: 755 LGEDRKKFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIK 814
LGED K+F+TRSG+ V+L +LLDE RS L ++ + +E TP EL +A +AV YG +K
Sbjct: 372 LGEDGKRFRTRSGEVVRLVDLLDEAKSRSKAALIERGKDSEWTPEELEQAAEAVGYGAVK 431
Query: 815 YADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSEDPPE 867
YADL +NR +Y FSFD+MLD +GNTAVYLLYA+ RI SI R +G + ++ +
Sbjct: 432 YADLKNNRLTNYTFSFDQMLDLKGNTAVYLLYAHARICSIIRKSGKDIDELKK 484
Score = 209 bits (534), Expect = 9e-58
Identities = 84/189 (44%), Positives = 119/189 (62%), Gaps = 10/189 (5%)
Query: 931 RRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNT 990
RS L ++ + +E TP EL +A +AV YG +KYADL +NR +Y FSFD+MLD +GNT
Sbjct: 398 SRSKAALIERGKDSEWTPEELEQAAEAVGYGAVKYADLKNNRLTNYTFSFDQMLDLKGNT 457
Query: 991 AVYLLYAYTRIASIARTAGINSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTR 1050
AVYLLYA+ RI SI R +G + ++L ++ + L+H E AL LL+ +V+
Sbjct: 458 AVYLLYAHARICSIIRKSGKDIDEL---KKTGKIVLDHPDERALGLHLLQFPEVVEEACT 514
Query: 1051 DLCLHHLCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDI 1110
DL + LCEYLY++S F++FY NC + E T RLLL EATA VM+KCF +
Sbjct: 515 DLLPNRLCEYLYNLSEKFTKFYSNCKVNGSEEE-------TSRLLLCEATAIVMRKCFHL 567
Query: 1111 LNIRTVHKM 1119
L I ++++
Sbjct: 568 LGITPLYRL 576
Score = 103 bits (258), Expect = 2e-22
Identities = 52/142 (36%), Positives = 80/142 (56%), Gaps = 17/142 (11%)
Query: 15 LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKG-EKKNPF 73
L+ +F ++++ P+ VA+ KFGD+QCN+AM L K KG KNP
Sbjct: 3 LAKLFEASLRLTVPDEPSVEPLVAACTNP---KFGDYQCNNAMGLWSKLKGKGTSFKNPR 59
Query: 74 DIAQSI-ASVVTSELATNPSLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDIIVNGVQP- 131
+AQ+I ++ SE+ I+ A PGFVNV LS + ++++ ++V+G+
Sbjct: 60 AVAQAIVKNLPASEM---------IESTSVAGPGFVNVRLSASWLAKRIERMLVDGIDTW 110
Query: 132 -PTLNKKLRVLVDFSSPNIARK 152
PTL K R +VDFSSPNIA++
Sbjct: 111 APTLPVK-RAVVDFSSPNIAKE 131
>gnl|CDD|216097 pfam00750, tRNA-synt_1d, tRNA synthetases class I (R). Other tRNA
synthetase sub-families are too dissimilar to be
included. This family includes only arginyl tRNA
synthetase.
Length = 345
Score = 304 bits (779), Expect = 4e-94
Identities = 111/249 (44%), Positives = 151/249 (60%), Gaps = 9/249 (3%)
Query: 316 QIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVV 375
+ I+ G L + +V+V+FSSPN AK +HVGHLRSTIIGD +SRLLE+LG+DVV
Sbjct: 1 IVTKILAQGGLGSALLENKKVVVEFSSPNPAKPIHVGHLRSTIIGDALSRLLEFLGYDVV 60
Query: 376 RLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQC 435
R N+VGDWGTQFGMLIA L+ + LT PI DL+ Y+ KK + +EIF K A
Sbjct: 61 RENYVGDWGTQFGMLIASLEAAAKEELTVPMPIQDLEDGYRGIKKDYIAEEIFAKEARNA 120
Query: 436 VVALQRFDPDYKKAW-EMICDVSRRDFQKIYDRLNVTLTERGESFYQKHMEQLVPYLEKK 494
VV LQ D ++++ W +I D ++ KIYD +VTL E GES Y+ M V L+
Sbjct: 121 VVLLQSGDEEFREMWVLLIFDHIKQSLNKIYDDFDVTLHE-GESVYKGRMNDAVKDLKDN 179
Query: 495 GLLELDDGRKIM----WGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRIEEEKADWIVYV 550
GL+ +DG + +G+D ++KSDGG Y T+DLA ++R+E+ D I+YV
Sbjct: 180 GLVYENDGALWLFLTEFGDD---KDRVVIKSDGGALYITTDLAYAKERLEQRGFDLIIYV 236
Query: 551 TDLGQGVHF 559
Q H
Sbjct: 237 LGADQHGHI 245
Score = 272 bits (696), Expect = 2e-82
Identities = 117/310 (37%), Positives = 156/310 (50%), Gaps = 49/310 (15%)
Query: 565 STIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFY 624
STIIGD +SRLLE+LG+DVVR N+VGDWGTQFGMLIA L+ + LT PI DL+ Y
Sbjct: 41 STIIGDALSRLLEFLGYDVVRENYVGDWGTQFGMLIASLEAAAKEELTVPMPIQDLEDGY 100
Query: 625 KESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAW-EMICDVSRRDFQKIYDRLNVTLTE 683
+ KK + +EIF K A VV LQ D ++++ W +I D ++ KIYD +VTL E
Sbjct: 101 RGIKKDYIAEEIFAKEARNAVVLLQSGDEEFREMWVLLIFDHIKQSLNKIYDDFDVTLHE 160
Query: 684 RGESFYQKHMEQLVPYLEKKGN--------------------LSLTKKLG---------- 713
GES Y+ M V L+ G + K G
Sbjct: 161 -GESVYKGRMNDAVKDLKDNGLVYENDGALWLFLTEFGDDKDRVVIKSDGGALYITTDLA 219
Query: 714 -------------IVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVGFGVVLGEDRK 760
I+YV Q H + L A G +P + +GFGVVLG+D K
Sbjct: 220 YAKERLEQRGFDLIIYVLGADQHGHIQRLFAAAAALG-YDPESVEVLHIGFGVVLGKDGK 278
Query: 761 KFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSH 820
+ TR+G+ V L +LLDE L R++D + +LT EL A+ +YADLS
Sbjct: 279 RMSTRAGNVVTLDDLLDEALERAMDIKEKN---RDLTADELEAVATAIGVDAARYADLSS 335
Query: 821 NRNLDYVFSF 830
NR+ DY+F
Sbjct: 336 NRDTDYIFDL 345
Score = 52.9 bits (127), Expect = 5e-07
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 923 DSLRGYGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLSHNRNLDYVFSF 980
D L L R++D + +LT EL A+ +YADLS NR+ DY+F
Sbjct: 291 DDLLDEALERAMDIKEKN---RDLTADELEAVATAIGVDAARYADLSSNRDTDYIFDL 345
Score = 35.5 bits (82), Expect = 0.12
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 120 QMKDIIVNGVQPPTLNKKLRVLVDFSSPNIA 150
+ I+ G L + +V+V+FSSPN A
Sbjct: 1 IVTKILAQGGLGSALLENKKVVVEFSSPNPA 31
>gnl|CDD|223097 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 290 bits (744), Expect = 4e-86
Identities = 119/371 (32%), Positives = 189/371 (50%), Gaps = 30/371 (8%)
Query: 205 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 264
M+++ L + A+ A ++ + V + + GDF N A L K
Sbjct: 1 MNIKQLLKEKIAEALSAAGLDVEEIEILVEPPKDP---EHGDFATNIAFQLAKK-----L 52
Query: 265 KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNG 324
KNP +IA+ IA +L T+ +I+K+E+A PGF+N FLS + E + +I+ G
Sbjct: 53 GKNPREIAEEIAE----KLDTDE----IIEKVEIAGPGFINFFLSPEFLAELLLEILEKG 104
Query: 325 VQ---PPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVG 381
L K +V++++SS N +H+GHLR+ IIGD+++R+LE+LG+DV R N+V
Sbjct: 105 DDRYGRSKLGKGKKVVIEYSSANPTGPLHIGHLRNAIIGDSLARILEFLGYDVTRENYVN 164
Query: 382 DWGTQFGMLIAHLQDKFPDYLTKSP-PIADLQAFYKESKKRFDEDEIF-KKRAYQCVVAL 439
DWGTQ GML + + + L +P P L +Y + K +ED ++ A + V L
Sbjct: 165 DWGTQIGMLALSYEKRGREALGLTPEPDGYLGEYYVKIAKDLEEDPGNDEEEAREEVEKL 224
Query: 440 QRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTER---GESFYQKHMEQLVPYLEKKGL 496
+ D + + W D+S ++ DRL V GESFY +E++V LE+KGL
Sbjct: 225 ESGDEEAEL-WRKFVDLSLEGIKETLDRLGVKFDVYDSEGESFYNGKVEKVVEDLEEKGL 283
Query: 497 LELDDGRKIM----WGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRIEEEKADWIVYVTD 552
L DDG ++ + + + KSDG + Y T D+A + E D ++YV
Sbjct: 284 LYEDDGALVVDLLKFKKFGDDKDRVLQKSDGTYLYFTRDIAYHLYKF-ERGFDKLIYVLG 342
Query: 553 LGQGVHFRLLE 563
Q HF+ L+
Sbjct: 343 ADQHGHFKQLK 353
Score = 235 bits (602), Expect = 1e-66
Identities = 112/357 (31%), Positives = 168/357 (47%), Gaps = 59/357 (16%)
Query: 565 STIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSP-PIADLQAF 623
+ IIGD+++R+LE+LG+DV R N+V DWGTQ GML + + + L +P P L +
Sbjct: 139 NAIIGDSLARILEFLGYDVTRENYVNDWGTQIGMLALSYEKRGREALGLTPEPDGYLGEY 198
Query: 624 YKESKKRFDEDEIF-KKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLT 682
Y + K +ED ++ A + V L+ D + + W D+S ++ DRL V
Sbjct: 199 YVKIAKDLEEDPGNDEEEAREEVEKLESGDEEAEL-WRKFVDLSLEGIKETLDRLGVKFD 257
Query: 683 ER---GESFYQKHMEQLVPYLEKKGN-----------LSLTKKLG--------------- 713
GESFY +E++V LE+KG L KK G
Sbjct: 258 VYDSEGESFYNGKVEKVVEDLEEKGLLYEDDGALVVDLLKFKKFGDDKDRVLQKSDGTYL 317
Query: 714 -------------------IVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVGFGVV 754
++YV Q HF+ L+ + G P+K + G G+V
Sbjct: 318 YFTRDIAYHLYKFERGFDKLIYVLGADQHGHFKQLKAVLELLG-YGPDKEVLLHQGVGLV 376
Query: 755 LGEDRKKFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIK 814
G + K TR+G+ V L +LLDE R+ +++++K E E + V ++
Sbjct: 377 RGGEGVKMSTRAGNVVTLDDLLDEAGERAPEEMEEKEEKNE-------EIAEVVGIDAVR 429
Query: 815 YADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSEDPPEPDPS 871
YADLS +R+ DYVF +DK L GNTA Y+ YA+ RI SI R AG + D +
Sbjct: 430 YADLSRSRDKDYVFDWDKALSFEGNTAPYVQYAHARICSILRKAGEDELDLSTEADA 486
Score = 152 bits (387), Expect = 1e-38
Identities = 66/191 (34%), Positives = 96/191 (50%), Gaps = 8/191 (4%)
Query: 930 LRRSLDKLKDKNRHTELTPTELSEAQ-QAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRG 988
L LD+ ++ E +E + V ++YADLS +R+ DYVF +DK L G
Sbjct: 394 LDDLLDEAGERAPEEMEEKEEKNEEIAEVVGIDAVRYADLSRSRDKDYVFDWDKALSFEG 453
Query: 989 NTAVYLLYAYTRIASIARTAGINSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLV 1048
NTA Y+ YA+ RI SI R AG + DL + L +E L K LL +VL
Sbjct: 454 NTAPYVQYAHARICSILRKAGEDELDL---STEADALLTELEERELVKKLLEFPEVLEEA 510
Query: 1049 TRDLCLHHLCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCF 1108
+L H L YLYD++ +F+ FY+ C + + E + RL L +AT +V+K
Sbjct: 511 AEELEPHRLANYLYDLAGSFNSFYNACPVLGAENE----ELRAARLALVKATRQVLKNGL 566
Query: 1109 DILNIRTVHKM 1119
D+L I +M
Sbjct: 567 DLLGIEAPERM 577
Score = 84.6 bits (210), Expect = 9e-17
Identities = 41/145 (28%), Positives = 68/145 (46%), Gaps = 19/145 (13%)
Query: 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 68
M+++ L + A+ A ++ + V + + GDF N A L K
Sbjct: 1 MNIKQLLKEKIAEALSAAGLDVEEIEILVEPPKDP---EHGDFATNIAFQLAKK-----L 52
Query: 69 KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDIIVNG 128
KNP +IA+ IA +L T+ +I+K+E A PGF+N FLS + E + +I+ G
Sbjct: 53 GKNPREIAEEIAE----KLDTDE----IIEKVEIAGPGFINFFLSPEFLAELLLEILEKG 104
Query: 129 VQ---PPTLNKKLRVLVDFSSPNIA 150
L K +V++++SS N
Sbjct: 105 DDRYGRSKLGKGKKVVIEYSSANPT 129
>gnl|CDD|234964 PRK01611, argS, arginyl-tRNA synthetase; Reviewed.
Length = 507
Score = 259 bits (664), Expect = 9e-76
Identities = 100/411 (24%), Positives = 161/411 (39%), Gaps = 114/411 (27%)
Query: 205 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 264
M +++ L++ A++ + + GD+ N AM L K K
Sbjct: 3 MDIKELLAEALAAALEAGGLPELPAVLIERPKDPE----HGDYATNVAMQLAKKLK---- 54
Query: 265 KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNG 324
KNP +IA+ I + I+K+E+A PGF+N FL E + I+ G
Sbjct: 55 -KNPREIAEEIV--------------EAIEKVEIAGPGFINFFLDPAALAELVLAILEAG 99
Query: 325 VQ--PPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGD 382
+ + K +V+V++ S N +HVGHLRS +IGD ++R+LE+ G+DV R +V D
Sbjct: 100 ERYGRSDIGKGKKVVVEYVSANPTGPLHVGHLRSAVIGDALARILEFAGYDVTREYYVND 159
Query: 383 WGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRF 442
GTQ GMLIA
Sbjct: 160 AGTQIGMLIAS------------------------------------------------- 170
Query: 443 DPDYKKAWEMICDVSRRDFQKIYDRLNVTLTE---RGESFYQKHMEQLVPYLEKKGLLEL 499
+ W D+S + ++ DRL V E +Y ++++V L++KGLL
Sbjct: 171 ---LELLWRKAVDISLDEIKEDLDRLGVHFDVWFSESELYYNGKVDEVVEDLKEKGLL-- 225
Query: 500 DDGRKIMWGEDRGSI-----------PMTIVKSDGGFTYDTSDLAAIRQRIEEEKADWIV 548
+ E G++ ++KSDG +TY T D+A + E D ++
Sbjct: 226 -------YVESDGALWVRLTEFGDDKDRVLIKSDGTYTYFTRDIAYHLYKFER--FDRVI 276
Query: 549 YVTDLGQGVHFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGML 599
YV HF+ L+ + L Y + L H G++
Sbjct: 277 YVVGADHHGHFKRLK-------AALKALGYDPDALEVLLHQM-----VGLV 315
Score = 206 bits (528), Expect = 2e-57
Identities = 82/350 (23%), Positives = 126/350 (36%), Gaps = 109/350 (31%)
Query: 565 STIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFY 624
S +IGD ++R+LE+ G+DV R +V D GTQ GMLIA
Sbjct: 133 SAVIGDALARILEFAGYDVTREYYVNDAGTQIGMLIAS---------------------- 170
Query: 625 KESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTE- 683
+ W D+S + ++ DRL V
Sbjct: 171 ------------------------------LELLWRKAVDISLDEIKEDLDRLGVHFDVW 200
Query: 684 --RGESFYQKHMEQLVPYLEKKGNLSLTK---------KLG------------------- 713
E +Y ++++V L++KG L + + G
Sbjct: 201 FSESELYYNGKVDEVVEDLKEKGLLYVESDGALWVRLTEFGDDKDRVLIKSDGTYTYFTR 260
Query: 714 --------------IVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVGFGVVLGEDR 759
++YV HF+ L+ K G + G+V G +
Sbjct: 261 DIAYHLYKFERFDRVIYVVGADHHGHFKRLKAALKALGYDPDALEVLLHQMVGLVRGGEG 320
Query: 760 KKFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIKYADLS 819
K TR+G+ V L +LLDE + R+ + +++K E +AV ++Y DLS
Sbjct: 321 VKMSTRAGNVVTLDDLLDEAVGRARELIEEK------------EIAEAVGIDAVRYFDLS 368
Query: 820 HNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSEDPPEPD 869
+R+ D F D L GN Y+ YA+ RI SI R A D
Sbjct: 369 RSRDKDLDFDLDLALSFEGNNPPYVQYAHARICSILRKAAEAGIDLLLAL 418
Score = 150 bits (381), Expect = 3e-38
Identities = 54/163 (33%), Positives = 79/163 (48%), Gaps = 11/163 (6%)
Query: 957 AVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSEDLR 1016
AV ++Y DLS +R+ D F D L GN Y+ YA+ RI SI R A DL
Sbjct: 356 AVGIDAVRYFDLSRSRDKDLDFDLDLALSFEGNNPPYVQYAHARICSILRKAAEAGIDLL 415
Query: 1017 VAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTRDLCLHHLCEYLYDISTAFSEFYDNCY 1076
+A L E+E L K L +V+ +L H + YLY+++ AF FY+
Sbjct: 416 LAL------LTEEEEKELIKKLAEFPEVVESAAEELEPHRIANYLYELAGAFHSFYNRVL 469
Query: 1077 CIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDILNIRTVHKM 1119
+++ E + RL L +ATA+V+K D+L I +M
Sbjct: 470 LKDEEEE-----LRNARLALVKATAQVLKNGLDLLGISAPERM 507
Score = 88.3 bits (220), Expect = 5e-18
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 25/144 (17%)
Query: 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 68
M +++ L++ A++ + + GD+ N AM L K K
Sbjct: 3 MDIKELLAEALAAALEAGGLPELPAVLIERPKDPE----HGDYATNVAMQLAKKLK---- 54
Query: 69 KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFLSRVYAGEQMKDIIVNG 128
KNP +IA+ I + I+K+E A PGF+N FL E + I+ G
Sbjct: 55 -KNPREIAEEIV--------------EAIEKVEIAGPGFINFFLDPAALAELVLAILEAG 99
Query: 129 VQ--PPTLNKKLRVLVDFSSPNIA 150
+ + K +V+V++ S N
Sbjct: 100 ERYGRSDIGKGKKVVVEYVSANPT 123
>gnl|CDD|232981 TIGR00456, argS, arginyl-tRNA synthetase. This model recognizes
arginyl-tRNA synthetase in every completed genome to
date. An interesting feature of the alignment of all
arginyl-tRNA synthetases is a fairly deep split between
two families. One family includes archaeal, eukaryotic
and organellar, spirochete, E. coli, and Synechocystis
sp. The second, sharing a deletion of about 25 residues
in the central region relative to the first, includes
Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and
Mycobacteria, and the Gram-negative bacterium
Helicobacter pylori [Protein synthesis, tRNA
aminoacylation].
Length = 566
Score = 231 bits (591), Expect = 2e-65
Identities = 100/330 (30%), Positives = 168/330 (50%), Gaps = 33/330 (10%)
Query: 243 KFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPG 302
+FGD+ N A L K+ K KNP IA+ E+ ++I+K+E A P
Sbjct: 33 EFGDYASNIAFPLAKVLK-----KNPRAIAE--------EIVLKLKTGEIIEKVEAAGP- 78
Query: 303 FVNVFLSRVYAGEQIKDIIVN-----GVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLRST 357
F+N FLS E++ I+ G + K +++++FSS N A +H+GHLR+
Sbjct: 79 FINFFLSPQKLLERLIQKILTQKEDYGSKKL---KNKKIIIEFSSANPAGPLHIGHLRNA 135
Query: 358 IIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTK--SPPIADLQAFY 415
IIGD+++R+LE+LG+DV+R +V DWG QFG+L ++ + L + P L+ FY
Sbjct: 136 IIGDSLARILEFLGYDVIREYYVNDWGRQFGLLALGVEKFGNEKLNEAVKKPDHGLEGFY 195
Query: 416 KESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTER 475
E KR +E+E ++ A + V L+ D + K W+ + + S ++ RLN+
Sbjct: 196 VEINKRLEENEELEEEARELFVKLESGDEEAIKLWKRLVEYSLEGIKETLARLNIHFDSF 255
Query: 476 ---GESFYQKHMEQLVPYLEKKGLLELDDGRKI---MWGEDRGSIPMTIVKSDGGFTYDT 529
GES + +++ L++KGL+ D + ++G+ + KSDG + Y T
Sbjct: 256 VWEGESVKNGMVPKVLEDLKEKGLVVEDGALWLDLTLFGDKDK--DRVLQKSDGTYLYLT 313
Query: 530 SDLAAIRQRIEEEKADWIVYVTDLGQGVHF 559
D+A ++ E D ++YV +H
Sbjct: 314 RDIAYHLDKL-ERGFDKMIYVWGSDHHLHI 342
Score = 199 bits (509), Expect = 2e-54
Identities = 101/353 (28%), Positives = 157/353 (44%), Gaps = 62/353 (17%)
Query: 558 HFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTK--SP 615
H R + IIGD+++R+LE+LG+DV+R +V DWG QFG+L ++ + L +
Sbjct: 131 HLR----NAIIGDSLARILEFLGYDVIREYYVNDWGRQFGLLALGVEKFGNEKLNEAVKK 186
Query: 616 PIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYD 675
P L+ FY E KR +E+E ++ A + V L+ D + K W+ + + S ++
Sbjct: 187 PDHGLEGFYVEINKRLEENEELEEEARELFVKLESGDEEAIKLWKRLVEYSLEGIKETLA 246
Query: 676 RLNVTLTER---GESFYQKHMEQLVPYLEKKG--------------------NLSLTKKL 712
RLN+ GES + +++ L++KG + L K
Sbjct: 247 RLNIHFDSFVWEGESVKNGMVPKVLEDLKEKGLVVEDGALWLDLTLFGDKDKDRVLQKSD 306
Query: 713 G----------------------IVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVG 750
G ++YV +H +K G K + +
Sbjct: 307 GTYLYLTRDIAYHLDKLERGFDKMIYVWGSDHHLHIAQFFAILEKLGF--YKKKELIHLN 364
Query: 751 FGVVLGEDRKKFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAY 810
FG+V K + G+ + L LLDE +R+ + + KN E + AV
Sbjct: 365 FGMVPLGSMKTRR---GNVISLDNLLDEASKRAGNVITIKN------DLEEEDVADAVGI 415
Query: 811 GCIKYADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSE 863
G ++Y DLS NR YVF +D ML GNTA Y+ YA+ RI SI R A I+ E
Sbjct: 416 GAVRYFDLSQNRETHYVFDWDAMLSFEGNTAPYIQYAHARICSILRKADIDGE 468
Score = 143 bits (362), Expect = 1e-35
Identities = 68/188 (36%), Positives = 93/188 (49%), Gaps = 10/188 (5%)
Query: 934 LDKLKDKNRH--TELTPTELSEAQQAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNTA 991
LD+ + + T E + AV G ++Y DLS NR YVF +D ML GNTA
Sbjct: 387 LDEASKRAGNVITIKNDLEEEDVADAVGIGAVRYFDLSQNRETHYVFDWDAMLSFEGNTA 446
Query: 992 VYLLYAYTRIASIARTAGINSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTRD 1051
Y+ YA+ RI SI R A I+ E L + SL EKE L K LL+ DVL +
Sbjct: 447 PYIQYAHARICSILRKADIDGEKL----IADDFSLLEEKEKELLKLLLQFPDVLEEAAEE 502
Query: 1052 LCLHHLCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDIL 1111
L H L YLY++++ FS FY C ++ + E RL L +AT + +K +L
Sbjct: 503 LEPHVLTNYLYELASLFSSFYKACPVLDAENENLAAA----RLALLKATRQTLKNGLQLL 558
Query: 1112 NIRTVHKM 1119
I +M
Sbjct: 559 GIEPPERM 566
Score = 62.0 bits (151), Expect = 1e-09
Identities = 34/109 (31%), Positives = 53/109 (48%), Gaps = 22/109 (20%)
Query: 47 KFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPG 106
+FGD+ N A L K+ K KNP IA+ E+ ++I+K+EAA P
Sbjct: 33 EFGDYASNIAFPLAKVLK-----KNPRAIAE--------EIVLKLKTGEIIEKVEAAGP- 78
Query: 107 FVNVFLSRVYAGEQMKDIIVN-----GVQPPTLNKKLRVLVDFSSPNIA 150
F+N FLS E++ I+ G + K +++++FSS N A
Sbjct: 79 FINFFLSPQKLLERLIQKILTQKEDYGSKKL---KNKKIIIEFSSANPA 124
>gnl|CDD|185675 cd00671, ArgRS_core, catalytic core domain of arginyl-tRNA
synthetases. Arginyl tRNA synthetase (ArgRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. There
are at least three subgroups of ArgRS. One type contains
both characteristic class I HIGH and KMSKS motifs, which
are involved in ATP binding. The second subtype lacks
the KMSKS motif; however, it has a lysine N-terminal to
the HIGH motif, which serves as the functional
counterpart to the second lysine of the KMSKS motif. A
third group, which is found primarily in archaea and a
few bacteria, lacks both the KMSKS motif and the HIGH
loop lysine.
Length = 212
Score = 204 bits (522), Expect = 4e-60
Identities = 76/266 (28%), Positives = 113/266 (42%), Gaps = 70/266 (26%)
Query: 335 RVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHL 394
++LV+F S N +HVGHLR+ IIGD+++R+LE+LG+DV R ++ DWG Q G+LI L
Sbjct: 1 KILVEFVSANPTGPLHVGHLRNAIIGDSLARILEFLGYDVTREYYINDWGRQIGLLILSL 60
Query: 395 QDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMIC 454
+ W +
Sbjct: 61 EK-----------------------------------------------------WRKLV 67
Query: 455 DVSRRDFQKIYDRLNVTL-TERGESFYQKHMEQLVPYLEKKGLLELDDGRKIMWGEDRG- 512
+ S + + Y RL+V GES Y M ++V LE+ GLL +DG + + G
Sbjct: 68 EESIKADLETYGRLDVRFDVWFGESSYLGLMGKVVELLEELGLLYEEDGALWLDLTEFGD 127
Query: 513 SIPMTIVKSDGGFTYDTSDLAAIRQRIEEEKADWIVYVTDLGQGVHFRLLEESTIIGDTI 572
+V+SDG +TY T D+A + E AD I+YV HF+ L
Sbjct: 128 DKDRVLVRSDGTYTYFTRDIAYHLDKF-ERGADKIIYVVGADHHGHFKRLFA-------A 179
Query: 573 SRLLEYLGHDVVRLNHVGDWGTQFGM 598
LL Y + +L H+ +GM
Sbjct: 180 LELLGYD--EAKKLEHLL-----YGM 198
Score = 119 bits (300), Expect = 2e-30
Identities = 50/246 (20%), Positives = 80/246 (32%), Gaps = 98/246 (39%)
Query: 565 STIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFY 624
+ IIGD+++R+LE+LG+DV R ++ DWG Q G+LI L+
Sbjct: 22 NAIIGDSLARILEFLGYDVTREYYINDWGRQIGLLILSLEK------------------- 62
Query: 625 KESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTL-TE 683
W + + S + + Y RL+V
Sbjct: 63 ----------------------------------WRKLVEESIKADLETYGRLDVRFDVW 88
Query: 684 RGESFYQKHMEQLVPYLEKKGN--------------------LSLTKKLG---------- 713
GES Y M ++V LE+ G L + G
Sbjct: 89 FGESSYLGLMGKVVELLEELGLLYEEDGALWLDLTEFGDDKDRVLVRSDGTYTYFTRDIA 148
Query: 714 ------------IVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVGFGVVLGEDRKK 761
I+YV HF+ L + G +++ + +G+V K
Sbjct: 149 YHLDKFERGADKIIYVVGADHHGHFKRLFAALELLGY--DEAKKLEHLLYGMVNLPKEGK 206
Query: 762 FKTRSG 767
TR+G
Sbjct: 207 MSTRAG 212
>gnl|CDD|183534 PRK12451, PRK12451, arginyl-tRNA synthetase; Reviewed.
Length = 562
Score = 193 bits (491), Expect = 3e-52
Identities = 105/325 (32%), Positives = 157/325 (48%), Gaps = 24/325 (7%)
Query: 244 FGD--FQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKP 301
FGD F C +L K +K K P IA+ +A ++ T K+E P
Sbjct: 36 FGDAAFPC---FSLAKQYK-----KAPAIIAKEVAEKLSDPFFT---------KVEAVGP 78
Query: 302 GFVNVFLSR-VYAGEQIKDIIV--NGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTI 358
+VNVF +R + +K I+ + V++D+SSPNIAK +GHLRST+
Sbjct: 79 -YVNVFFNRETVSDAVLKTILAEKEEYGQNHFGCEKTVVIDYSSPNIAKPFSMGHLRSTM 137
Query: 359 IGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKES 418
IG+ + + E G++VV +N++GDWGTQFG LI + + + K PI +L Y +
Sbjct: 138 IGNALKHIAEKCGYEVVGINYIGDWGTQFGKLITAYKKWGNEAVVKEDPIRELFKLYVQF 197
Query: 419 KKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTE-RGE 477
+ +DE ++ L+ D + + W S ++F +IY+ L V T +GE
Sbjct: 198 HEEVKDDEELEEEGRAWFKKLEEGDEEAVELWNWFRHESLKEFSRIYELLGVEFTNFQGE 257
Query: 478 SFYQKHMEQLVPYLEKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQ 537
+FY ME + LE+ LLE +G ++ E+ G P I KSDG Y T DL A
Sbjct: 258 AFYNDLMEDFIGILEEHDLLEESEGALVVNLEEEGMPPCLIRKSDGATIYATRDLTAALY 317
Query: 538 RIEEEKADWIVYVTDLGQGVHFRLL 562
R D +YV Q +HF
Sbjct: 318 RQNTFGFDKALYVVGPEQSLHFNQF 342
Score = 149 bits (379), Expect = 9e-38
Identities = 93/342 (27%), Positives = 147/342 (42%), Gaps = 54/342 (15%)
Query: 558 HFRLLEESTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQDKFPDYLTKSPPI 617
H R ST+IG+ + + E G++VV +N++GDWGTQFG LI + + + K PI
Sbjct: 132 HLR----STMIGNALKHIAEKCGYEVVGINYIGDWGTQFGKLITAYKKWGNEAVVKEDPI 187
Query: 618 ADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQKIYDRL 677
+L Y + + +DE ++ L+ D + + W S ++F +IY+ L
Sbjct: 188 RELFKLYVQFHEEVKDDEELEEEGRAWFKKLEEGDEEAVELWNWFRHESLKEFSRIYELL 247
Query: 678 NVTLTE-RGESFYQKHMEQLVPYLEKKGNLS-------------------LTKKLG---- 713
V T +GE+FY ME + LE+ L + K G
Sbjct: 248 GVEFTNFQGEAFYNDLMEDFIGILEEHDLLEESEGALVVNLEEEGMPPCLIRKSDGATIY 307
Query: 714 -------------------IVYVTDLGQGVHFRLLEECAKKAGILNPNKTRMDFVGFGVV 754
+YV Q +HF KK G M+ V FG++
Sbjct: 308 ATRDLTAALYRQNTFGFDKALYVVGPEQSLHFNQFFTVLKKLGY--TWVDGMEHVPFGLI 365
Query: 755 LGEDRKKFKTRSGDTVKLSELLDEGLRRSLDKLKDKNRHTELTPTELSEAQQAVAYGCIK 814
L +D KK TR G V L E+L+E + + +++KN + + + E + V G +
Sbjct: 366 L-KDGKKMSTRKGRVVLLEEVLEEAIELAKQNIEEKNPNLK----QKEEVAKQVGVGAVI 420
Query: 815 YADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIAR 856
+ DL + R + FS + ML G T Y+ Y + R SI R
Sbjct: 421 FHDLKNERMHNIEFSLENMLKFEGETGPYVQYTHARACSILR 462
Score = 72.5 bits (178), Expect = 6e-13
Identities = 39/169 (23%), Positives = 73/169 (43%), Gaps = 13/169 (7%)
Query: 951 LSEAQQAVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGI 1010
E + V G + + DL + R + FS + ML G T Y+ Y + R SI R
Sbjct: 407 KEEVAKQVGVGAVIFHDLKNERMHNIEFSLENMLKFEGETGPYVQYTHARACSILRKES- 465
Query: 1011 NSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTRDLCLHHLCEYLYDISTAFSE 1070
V ++ +L+ + +++ K L + V+ + +Y+ D++ +F++
Sbjct: 466 ------VEFETCTFALKDDYSWSVVKLLNKFPQVIEAAFNKNEPSVISKYVLDVAQSFNK 519
Query: 1071 FYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDILNIRTVHKM 1119
+Y N +E+ AE RL L A V+K+ +L + +M
Sbjct: 520 YYGNVRILEESAE------KDSRLALVYAVTVVLKEGLRLLGVEAPEEM 562
Score = 48.2 bits (115), Expect = 2e-05
Identities = 41/139 (29%), Positives = 61/139 (43%), Gaps = 29/139 (20%)
Query: 48 FGD--FQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEAAKP 105
FGD F C +L K +K K P IA+ +A ++ T K+EA P
Sbjct: 36 FGDAAFPC---FSLAKQYK-----KAPAIIAKEVAEKLSDPFFT---------KVEAVGP 78
Query: 106 GFVNVFLSR-VYAGEQMKDIIV--NGVQPPTLNKKLRVLVDFSSPNIARKGGFLYPHLPS 162
+VNVF +R + +K I+ + V++D+SSPNIA+ F HL S
Sbjct: 79 -YVNVFFNRETVSDAVLKTILAEKEEYGQNHFGCEKTVVIDYSSPNIAKP--FSMGHLRS 135
Query: 163 QIHDILISKAIAEEEKKQG 181
+ I A+ +K G
Sbjct: 136 TM----IGNALKHIAEKCG 150
>gnl|CDD|153410 cd07956, Anticodon_Ia_Arg, Anticodon-binding domain of arginyl tRNA
synthetases. This domain is found in arginyl tRNA
synthetases (ArgRS), which belong to the class Ia
aminoacyl tRNA synthetases. It lies C-terminal to the
catalytic core domain, and recognizes and specifically
binds to the tRNA anticodon. ArgRS catalyzes the transfer
of arginine to the 3'-end of its tRNA.
Length = 156
Score = 128 bits (323), Expect = 4e-34
Identities = 55/163 (33%), Positives = 79/163 (48%), Gaps = 8/163 (4%)
Query: 957 AVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSEDLR 1016
V G +KY DLS+ R DY F +++ML G+T YL YA+ R+ SI R AG E
Sbjct: 2 EVGVGAVKYQDLSNKRIKDYTFDWERMLSFEGDTGPYLQYAHARLCSILRKAGETIEAEA 61
Query: 1017 VAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTRDLCLHHLCEYLYDISTAFSEFYDNCY 1076
A S L E L L + +V+ L H + YL+D++ AFS+FY+ C
Sbjct: 62 DADLSL---LPEPDERDLILLLAKFPEVVKNAAETLEPHTIATYLFDLAHAFSKFYNACP 118
Query: 1077 CIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDILNIRTVHKM 1119
AE +++ RL L A +V+ D+L I +M
Sbjct: 119 V--LGAEEELR---NARLALVAAARQVLANGLDLLGIEAPERM 156
Score = 70.3 bits (173), Expect = 5e-14
Identities = 27/63 (42%), Positives = 36/63 (57%)
Query: 807 AVAYGCIKYADLSHNRNLDYVFSFDKMLDDRGNTAVYLLYAYTRIASIARTAGINSEDPP 866
V G +KY DLS+ R DY F +++ML G+T YL YA+ R+ SI R AG E
Sbjct: 2 EVGVGAVKYQDLSNKRIKDYTFDWERMLSFEGDTGPYLQYAHARLCSILRKAGETIEAEA 61
Query: 867 EPD 869
+ D
Sbjct: 62 DAD 64
>gnl|CDD|218729 pfam05746, DALR_1, DALR anticodon binding domain. This all alpha
helical domain is the anticodon binding domain in Arginyl
and glycyl tRNA synthetase. This domain is known as the
DALR domain after characteristic conserved amino acids.
Length = 117
Score = 114 bits (287), Expect = 8e-30
Identities = 45/126 (35%), Positives = 64/126 (50%), Gaps = 9/126 (7%)
Query: 994 LLYAYTRIASIARTAGINSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTRDLC 1053
L YA+ RI SI R AG +L + L E+E L K LL+ +VL +L
Sbjct: 1 LQYAHARICSILRKAGELGINLDI----DADLLTEEEEKELLKALLQFPEVLEEAAEELE 56
Query: 1054 LHHLCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDILNI 1113
H L YLY++++AF FY+NC +++D E RL L +A +V+K D+L I
Sbjct: 57 PHRLANYLYELASAFHSFYNNCRVLDEDNE-----ERNARLALLKAVRQVLKNGLDLLGI 111
Query: 1114 RTVHKM 1119
KM
Sbjct: 112 EAPEKM 117
Score = 33.4 bits (77), Expect = 0.18
Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 844 LLYAYTRIASIARTAGIN-SEDPPEPDPSQSEVE 876
L YA+ RI SI R AG + D E E
Sbjct: 1 LQYAHARICSILRKAGELGINLDIDADLLTEEEE 34
>gnl|CDD|214846 smart00836, DALR_1, DALR anticodon binding domain. This all alpha
helical domain is the anticodon binding domain of Arginyl
tRNA synthetase. This domain is known as the DALR domain
after characteristic conserved amino acids.
Length = 122
Score = 113 bits (284), Expect = 2e-29
Identities = 39/126 (30%), Positives = 57/126 (45%), Gaps = 4/126 (3%)
Query: 994 LLYAYTRIASIARTAGINSEDLRVAAQSTPVSLEHEKEFALAKTLLRMNDVLMLVTRDLC 1053
+ YA+ RI SI R AG E L A + L +E+AL L R +VL L
Sbjct: 1 VQYAHARICSILRKAGEAGETLPDIADADLSLLTEPEEWALLLKLARFPEVLEAAAEQLE 60
Query: 1054 LHHLCEYLYDISTAFSEFYDNCYCIEKDAEGKIKTVHTGRLLLAEATAKVMKKCFDILNI 1113
H L YLYD++ AF FY+ + ++ + RL L +A +V+ +L I
Sbjct: 61 PHRLANYLYDLAAAFHSFYNRVRVLGEENPE----LRKARLALLKAVRQVLANGLRLLGI 116
Query: 1114 RTVHKM 1119
+M
Sbjct: 117 SAPERM 122
Score = 32.2 bits (74), Expect = 0.48
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 844 LLYAYTRIASIARTAGINSEDPPEPD 869
+ YA+ RI SI R AG E P+
Sbjct: 1 VQYAHARICSILRKAGEAGETLPDIA 26
>gnl|CDD|217589 pfam03485, Arg_tRNA_synt_N, Arginyl tRNA synthetase N terminal
domain. This domain is found at the amino terminus of
Arginyl tRNA synthetase, also called additional domain 1
(Add-1). It is about 140 residues long and it has been
suggested that this domain will be involved in tRNA
recognition.
Length = 84
Score = 73.8 bits (182), Expect = 4e-16
Identities = 33/100 (33%), Positives = 47/100 (47%), Gaps = 16/100 (16%)
Query: 209 DYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNP 268
D L A+ A +L + + + +FGD+ N AM L K K KNP
Sbjct: 1 DLLKKAIAEALAKAGLDLEVIDPVIETPKDP---EFGDYATNVAMKLAKKLK-----KNP 52
Query: 269 FDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFL 308
+IA+ IA +L + I+K+EVA PGF+N FL
Sbjct: 53 REIAEEIAE----KLPKSDL----IEKVEVAGPGFINFFL 84
Score = 73.4 bits (181), Expect = 7e-16
Identities = 32/100 (32%), Positives = 46/100 (46%), Gaps = 16/100 (16%)
Query: 13 DYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNP 72
D L A+ A +L + + + +FGD+ N AM L K K KNP
Sbjct: 1 DLLKKAIAEALAKAGLDLEVIDPVIETPKDP---EFGDYATNVAMKLAKKLK-----KNP 52
Query: 73 FDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFL 112
+IA+ IA +L + I+K+E A PGF+N FL
Sbjct: 53 REIAEEIAE----KLPKSDL----IEKVEVAGPGFINFFL 84
>gnl|CDD|214975 smart01016, Arg_tRNA_synt_N, Arginyl tRNA synthetase N terminal
dom. This domain is found at the amino terminus of
Arginyl tRNA synthetase, also called additional domain 1
(Add-1). It is about 140 residues long and it has been
suggested that this domain will be involved in tRNA
recognition.
Length = 85
Score = 68.8 bits (169), Expect = 3e-14
Identities = 28/101 (27%), Positives = 47/101 (46%), Gaps = 17/101 (16%)
Query: 209 DYLSDVFTHAVQVAFPELGDKT-ASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKN 267
D L + A++ A G+ ++ + GD+ N A L K K KN
Sbjct: 1 DLLKEAIAEALKKALGVEGEPIDIALERPKDP---DHGDYATNVAFRLAKKLK-----KN 52
Query: 268 PFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFL 308
P ++A+ IA +L + +++K+E+A PGF+N FL
Sbjct: 53 PRELAEEIAE----KLPKSD----LVEKVEIAGPGFINFFL 85
Score = 68.4 bits (168), Expect = 4e-14
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 17/101 (16%)
Query: 13 DYLSDVFTHAVQVAFPELGDKT-ASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKN 71
D L + A++ A G+ ++ + GD+ N A L K K KN
Sbjct: 1 DLLKEAIAEALKKALGVEGEPIDIALERPKDP---DHGDYATNVAFRLAKKLK-----KN 52
Query: 72 PFDIAQSIASVVTSELATNPSLAKVIDKIEAAKPGFVNVFL 112
P ++A+ IA +L + +++K+E A PGF+N FL
Sbjct: 53 PRELAEEIAE----KLPKSD----LVEKVEIAGPGFINFFL 85
>gnl|CDD|173901 cd00802, class_I_aaRS_core, catalytic core domain of class I amino
acyl-tRNA synthetase. Class I amino acyl-tRNA
synthetase (aaRS) catalytic core domain. These enzymes
are mostly monomers which aminoacylate the 2'-OH of the
nucleotide at the 3' of the appropriate tRNA. The core
domain is based on the Rossman fold and is responsible
for the ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding.
Length = 143
Score = 51.7 bits (124), Expect = 1e-07
Identities = 14/51 (27%), Positives = 24/51 (47%)
Query: 338 VDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFG 388
FS +H+GHLR+ + D +++ LG+ V + + D G G
Sbjct: 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIG 51
>gnl|CDD|223293 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 39.9 bits (94), Expect = 0.007
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH R+ ++ D + R L YLG+ V
Sbjct: 37 HIGHARTYVVFDVLRRYLRYLGYKV 61
>gnl|CDD|173899 cd00672, CysRS_core, catalytic core domain of cysteinyl tRNA
synthetase. Cysteinyl tRNA synthetase (CysRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding.
Length = 213
Score = 37.9 bits (89), Expect = 0.014
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVV 375
H+GH R+ ++ D + R LE LG+ V
Sbjct: 35 HIGHARTYVVFDVLRRYLEDLGYKVR 60
>gnl|CDD|234705 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated.
Length = 463
Score = 38.2 bits (90), Expect = 0.022
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV--VR 376
H+GH RS ++ D + R L YLG+ V VR
Sbjct: 38 HIGHARSFVVFDVLRRYLRYLGYKVTYVR 66
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 38.4 bits (90), Expect = 0.026
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 327 PPTLNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDV 374
+K VLV F P+ A +HVGH+R+ IGD I+R G++V
Sbjct: 29 DSDKPEKFYVLVMFPYPSGA--LHVGHVRNYTIGDVIARYKRMQGYNV 74
>gnl|CDD|234007 TIGR02776, NHEJ_ligase_prk, DNA ligase D. Members of this protein
family are DNA ligases involved in the repair of DNA
double-stranded breaks by non-homologous end joining
(NHEJ). The system of the bacterial Ku protein
(TIGR02772) plus this DNA ligase is seen in about 20 %
of bacterial genomes to date and at least one archaeon
(Archeoglobus fulgidus). This model describes a central
and a C-terminal domain. These two domains may be
permuted, as in genus Mycobacterium, or divided into
tandem ORFs, and therefore not be identified by This
model. An additional N-terminal 3'-phosphoesterase (PE)
domain present in some but not all examples of this
ligase is not included in the seed alignment for this
model; This model models only the central ATP-dependent
ligase domain and the C-terminal polymerase domain. Most
examples of genes for this ligase are adjacent to the
gene for Ku [DNA metabolism, DNA replication,
recombination, and repair].
Length = 552
Score = 36.9 bits (86), Expect = 0.061
Identities = 43/162 (26%), Positives = 63/162 (38%), Gaps = 42/162 (25%)
Query: 475 RGESFYQKHMEQLVPYL-------EKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTY 527
GE F+QKH P ++K L +D ++W +G++ I G T
Sbjct: 330 GGECFFQKHAPDYAPPFVASFKDGDEKEYLVCNDAEGLLWLAQQGALEFHI----WGQTI 385
Query: 528 DTSDLAAIRQRIEEEKADWIVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLG------- 580
D+ D K D IV+ D GV F+L E+ + + +LL+ LG
Sbjct: 386 DSLD-----------KPDRIVFDLDPPPGVAFKLAVEAAQL---MKQLLDELGLVSFVKT 431
Query: 581 ------HDVVRLNHVG-DWGT--QFGMLIA-HLQDKFPDYLT 612
H VV L W F IA +L +FP+ T
Sbjct: 432 SGGKGLHVVVPLRPNTFTWDETKLFAKAIAEYLARQFPERFT 473
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family
includes methionyl tRNA synthetases.
Length = 388
Score = 36.5 bits (85), Expect = 0.072
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVV 375
H+GHL +TI D +R L G+DV+
Sbjct: 15 HIGHLYTTIPADVYARYLRLRGYDVL 40
>gnl|CDD|173907 cd00814, MetRS_core, catalytic core domain of methioninyl-tRNA
synthetases. Methionine tRNA synthetase (MetRS)
catalytic core domain. This class I enzyme aminoacylates
the 2'-OH of the nucleotide at the 3' of the appropriate
tRNA. MetRS, which consists of the core domain and an
anti-codon binding domain, functions as a monomer.
However, in some species the anti-codon binding domain
is followed by an EMAP domain. In this case, MetRS
functions as a homodimer. The core domain is based on
the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. As a result of a deletion event, MetRS has a
significantly shorter core domain insertion than IleRS,
ValRS, and LeuR. Consequently, the MetRS insertion
lacks the editing function.
Length = 319
Score = 36.0 bits (84), Expect = 0.091
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVV 375
H+GHL T++ D +R G+DV+
Sbjct: 16 HLGHLYGTVLADVFARYQRLRGYDVL 41
>gnl|CDD|232974 TIGR00435, cysS, cysteinyl-tRNA synthetase. This model finds the
cysteinyl-tRNA synthetase from most but not from all
species. The enzyme from one archaeal species,
Archaeoglobus fulgidus, is found but the equivalent
enzymes from some other Archaea, including Methanococcus
jannaschii, are not found, although biochemical evidence
suggests that tRNA(Cys) in these species are charged
directly with Cys rather than through a misacylation and
correction pathway as for tRNA(Gln) [Protein synthesis,
tRNA aminoacylation].
Length = 464
Score = 36.2 bits (84), Expect = 0.10
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVV 375
H+GH R+ I+ D + R L YLG+ V
Sbjct: 36 HIGHARTAIVFDVLRRYLRYLGYKVQ 61
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 36.1 bits (84), Expect = 0.12
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVV 375
H+GHL + + D +R L G++V
Sbjct: 21 HLGHLYTYLAADVYARYLRLRGYEVF 46
>gnl|CDD|184731 PRK14536, cysS, cysteinyl-tRNA synthetase; Provisional.
Length = 490
Score = 35.3 bits (81), Expect = 0.19
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 343 PNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGDWGTQFGMLIAHLQD 396
P + H+G+LR+ + DT+ R L +LG+ V + ++ D G HL D
Sbjct: 31 PTVYNYAHIGNLRTYVFQDTLRRTLHFLGYRVTHVMNITDVG--------HLTD 76
>gnl|CDD|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA
synthetases. Leucyl tRNA synthetase (LeuRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. In Aquifex
aeolicus, the gene encoding LeuRS is split in two, just
before the KMSKS motif. Consequently, LeuRS is a
heterodimer, which likely superimposes with the LeuRS
monomer found in most other organisms. LeuRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements and thus differs between
prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This
editing region hydrolyzes mischarged cognate tRNAs and
thus prevents the incorporation of chemically similar
amino acids.
Length = 314
Score = 34.9 bits (81), Expect = 0.23
Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 333 KLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDV 374
K +LV F P+ A +HVGH+R+ IGD I+R G++V
Sbjct: 1 KFYILVMFPYPSGA--LHVGHVRTYTIGDIIARYKRMQGYNV 40
>gnl|CDD|216482 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic
domain. This family includes only cysteinyl tRNA
synthetases.
Length = 301
Score = 34.2 bits (79), Expect = 0.29
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVVRLNHVGD 382
H+GH RS + D + R L+ LG+DV + + D
Sbjct: 24 HIGHARSAVAFDVLRRYLQALGYDVQFVQNFTD 56
>gnl|CDD|232956 TIGR00396, leuS_bact, leucyl-tRNA synthetase, eubacterial and
mitochondrial family. The leucyl-tRNA synthetases
belong to two families so broadly different that they
are represented by separate models. This model includes
both eubacterial and mitochondrial leucyl-tRNA
synthetases. It generates higher scores for some
valyl-tRNA synthetases than for any archaeal or
eukaryotic cytosolic leucyl-tRNA synthetase. Note that
the enzyme from Aquifex aeolicus is split into alpha and
beta chains; neither chain is long enough to score above
the trusted cutoff, but the alpha chain scores well
above the noise cutoff. The beta chain must be found by
a model and search designed for partial length matches
[Protein synthesis, tRNA aminoacylation].
Length = 842
Score = 33.6 bits (77), Expect = 0.67
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 5/56 (8%)
Query: 323 NGVQPPTLN---KKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDVV 375
N T + K +L F P+ A +H+GH+R+ I D +SR G++V+
Sbjct: 17 NKTFKVTDDSSKPKYYILSMFPYPSGA--LHMGHVRNYTITDVLSRYYRMKGYNVL 70
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 33.1 bits (77), Expect = 1.1
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH+R+ IGD I+R G++V
Sbjct: 48 HMGHVRNYTIGDVIARYKRMQGYNV 72
>gnl|CDD|232957 TIGR00398, metG, methionyl-tRNA synthetase. The methionyl-tRNA
synthetase (metG) is a class I amino acyl-tRNA ligase.
This model appears to recognize the methionyl-tRNA
synthetase of every species, including eukaryotic
cytosolic and mitochondrial forms. The UPGMA difference
tree calculated after search and alignment according to
This model shows an unusual deep split between two
families of MetG. One family contains forms from the
Archaea, yeast cytosol, spirochetes, and E. coli, among
others. The other family includes forms from yeast
mitochondrion, Synechocystis sp., Bacillus subtilis, the
Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori.
The E. coli enzyme is homodimeric, although monomeric
forms can be prepared that are fully active. Activity of
this enzyme in bacteria includes aminoacylation of
fMet-tRNA with Met; subsequent formylation of the Met to
fMet is catalyzed by a separate enzyme. Note that the
protein from Aquifex aeolicus is split into an alpha
(large) and beta (small) subunit; this model does not
include the C-terminal region corresponding to the beta
chain [Protein synthesis, tRNA aminoacylation].
Length = 530
Score = 32.7 bits (75), Expect = 1.1
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVV 375
H+GH +TI+ D +R G++V+
Sbjct: 15 HLGHAYTTILADVYARYKRLRGYEVL 40
>gnl|CDD|238874 cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and
similar esterases/lipases. FeeA and FeeB are part of a
biosynthetic gene cluster and may participate in the
biosynthesis of long-chain N-acyltyrosines by providing
saturated and unsaturated fatty acids, which it turn are
loaded onto the acyl carrier protein FeeL. SGNH
hydrolases are a diverse family of lipases and
esterases. The tertiary fold of the enzyme is
substantially different from that of the alpha/beta
hydrolase family and unique among all known hydrolases;
its active site closely resembles the Ser-His-Asp(Glu)
triad found in other serine hydrolases.
Length = 191
Score = 31.9 bits (73), Expect = 1.2
Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 3/45 (6%)
Query: 373 DVVRLNHVGDWGTQFGMLIAHLQDKFPD---YLTKSPPIADLQAF 414
DV L + W Q L+ L+ KFP +T PP+ A
Sbjct: 79 DVTHLTSIARWRKQLAELVDALRAKFPGARVVVTAVPPLGRFPAL 123
Score = 31.9 bits (73), Expect = 1.2
Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 3/45 (6%)
Query: 582 DVVRLNHVGDWGTQFGMLIAHLQDKFPD---YLTKSPPIADLQAF 623
DV L + W Q L+ L+ KFP +T PP+ A
Sbjct: 79 DVTHLTSIARWRKQLAELVDALRAKFPGARVVVTAVPPLGRFPAL 123
>gnl|CDD|234008 TIGR02778, ligD_pol, DNA polymerase LigD, polymerase domain. DNA
repair of double-stranded breaks by non-homologous end
joining (NHEJ) is accomplished by a two-protein system
that is present in a minority of prokaryotes. One
component is the Ku protein (see TIGR02772), which binds
DNA ends. The other is a DNA ligase, a protein that is a
multidomain polypeptide in most of those bacteria that
have NHEJ, a permuted polypeptide in Mycobacterium
tuberculosis and a few other species, and the product of
tandem genes in some other bacteria. This model
represents the polymerase domain.
Length = 245
Score = 32.3 bits (74), Expect = 1.3
Identities = 41/164 (25%), Positives = 62/164 (37%), Gaps = 45/164 (27%)
Query: 475 RGESFYQKHMEQ---------LVPYLEKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGF 525
GE F+QKH+ Q V + + L ++D ++W +G++ I
Sbjct: 51 GGECFFQKHLPQGAPPFVVSAEVEESDGETYLVINDAEGLLWLVQQGALEFHIWG----- 105
Query: 526 TYDTSDLAAIRQRIE-EEKADWIVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLG---- 580
RI+ EK D IV+ D G GV ++L+ E+ + I LL+ LG
Sbjct: 106 -----------ARIDAPEKPDRIVFDLDPGPGVAWKLVVEAAQL---IRELLDELGLESF 151
Query: 581 ---------HDVVRLNHVGDW--GTQFGMLIA-HLQDKFPDYLT 612
H V L W F +A L + PD T
Sbjct: 152 VKTSGGKGLHVYVPLRPTLSWDEVKDFAKALAQALAQQMPDRFT 195
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 32.5 bits (75), Expect = 1.4
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 349 MHVGHLRSTIIGDTISRLLEYLGHDV 374
+HVGH R+ IGD I+R G++V
Sbjct: 1 LHVGHGRTYTIGDVIARYKRMRGYNV 26
>gnl|CDD|235716 PRK06149, PRK06149, hypothetical protein; Provisional.
Length = 972
Score = 32.3 bits (74), Expect = 1.8
Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 547 IVYVTDLGQGVHFRLLEESTIIGDTISRLLEYLGHDVVR 585
++ + GQG+ RLL+ + G ++R L +L V
Sbjct: 101 LLTLDVRGQGLRVRLLD--YLPGQPLTR-LGHLAPASVA 136
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 31.2 bits (71), Expect = 2.6
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 419 KKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQK 463
K+R+D+D +FK +A R + KK I D R DF K
Sbjct: 197 KRRWDDDVVFKNQA--------RGEEKKKKRETFINDTLRSDFHK 233
Score = 31.2 bits (71), Expect = 2.6
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 628 KKRFDEDEIFKKRAYQCVVALQRFDPDYKKAWEMICDVSRRDFQK 672
K+R+D+D +FK +A R + KK I D R DF K
Sbjct: 197 KRRWDDDVVFKNQA--------RGEEKKKKRETFINDTLRSDFHK 233
>gnl|CDD|223056 PHA03362, PHA03362, single-stranded binding protein UL29;
Provisional.
Length = 1189
Score = 31.6 bits (72), Expect = 3.1
Identities = 17/63 (26%), Positives = 34/63 (53%), Gaps = 11/63 (17%)
Query: 480 YQKHMEQLVPYLEKKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTSDLAAIRQRI 539
Y+ +E+++ YLEK+GL++ D GED +I++ F + L+ + + +
Sbjct: 573 YRATLERVMDYLEKEGLIDPDT---PTSGEDT-----SIIRDRASF---MTALSNLNRTV 621
Query: 540 EEE 542
+EE
Sbjct: 622 DEE 624
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 30.9 bits (71), Expect = 4.4
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH +TI D ++R G+DV
Sbjct: 20 HIGHAYTTIAADALARYKRLQGYDV 44
>gnl|CDD|148094 pfam06279, DUF1033, Protein of unknown function (DUF1033). This
family consists of several hypothetical bacterial
proteins. Many of the sequences in this family are
annotated as putative DNA binding proteins but the
function of this family is unknown.
Length = 120
Score = 28.5 bits (64), Expect = 8.1
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 12/53 (22%)
Query: 390 LIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRF 442
L L++ +P+Y +K + AF+ +R+ ED C LQ++
Sbjct: 43 LWQKLKENYPNYKSKKDLMT---AFWNNEDQRWCED---------CDEDLQQY 83
Score = 28.5 bits (64), Expect = 8.1
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 12/53 (22%)
Query: 599 LIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQCVVALQRF 651
L L++ +P+Y +K + AF+ +R+ ED C LQ++
Sbjct: 43 LWQKLKENYPNYKSKKDLMT---AFWNNEDQRWCED---------CDEDLQQY 83
>gnl|CDD|178532 PLN02946, PLN02946, cysteine-tRNA ligase.
Length = 557
Score = 29.9 bits (67), Expect = 8.9
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDV 374
H+GH R + D + R L++LG++V
Sbjct: 95 HIGHARVYVTFDVLYRYLKHLGYEV 119
>gnl|CDD|237012 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed.
Length = 511
Score = 29.8 bits (68), Expect = 9.0
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 350 HVGHLRSTIIGDTISRLLEYLGHDVV 375
H+GH +T+ D ++R G+DV
Sbjct: 17 HIGHAYTTLAADVLARFKRLRGYDVF 42
>gnl|CDD|145973 pfam03114, BAR, BAR domain. BAR domains are dimerisation, lipid
binding and curvature sensing modules found in many
different protein families. A BAR domain with an
additional N-terminal amphipathic helix (an N-BAR) can
drive membrane curvature. These N-BAR domains are found
in amphiphysin, endophilin, BRAP and Nadrin. BAR domains
are also frequently found alongside domains that
determine lipid specificity, like pfam00169 and
pfam00787 domains in beta centaurins and sorting nexins
respectively.
Length = 230
Score = 29.2 bits (66), Expect = 9.1
Identities = 31/175 (17%), Positives = 58/175 (33%), Gaps = 25/175 (14%)
Query: 330 LNKKLRVLVDFSSPNIAKEMHVGHLRSTIIGDTISRLLEYLGHDV---VRLNHVG----D 382
L K+ ++ + + AK+ + ++ +T+ + E LG D L G
Sbjct: 45 LQKETKLYLQPNPGARAKQKVLE-QPEELLAETMIEIGEELGDDSSFGKALEKYGEAMKQ 103
Query: 383 WGTQFGMLIAHLQDKFPDYLTKSPPIADLQAFYKESKKRFDEDEIFKKRAYQC----VVA 438
L L+ F D L + + + K KK K+ Y +
Sbjct: 104 LAQLLEQLDDRLRSNFLDPLRNL--LKEFKDIQKHIKKLER-----KRLDYDAKRHRLKK 156
Query: 439 LQRFDPDYKKAWEMICDVSRRDFQKIYDRLNVTLTERGESFYQKHMEQLVPYLEK 493
+ K E+ R Q+ ++ N L E + +E +V L+
Sbjct: 157 AKSKKELSKAEEEL------RQAQQKFEESNEELKEELPNLLALEVEFVVNCLQA 205
>gnl|CDD|235006 PRK02126, PRK02126, ribonuclease Z; Provisional.
Length = 334
Score = 29.5 bits (67), Expect = 9.3
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 12/64 (18%)
Query: 493 KKGLLELDDGRKIMWGEDRGSIPMTIVKSDGGFTYDTS-DLAAIRQRI-EEEKADWIVYV 550
K +L R P+ ++ DGG ++ L +++R+ E I YV
Sbjct: 199 KHAVL-----RGEPDDT-----PIRVLWRDGGGEHERVRPLGELKERVLRIEPGQKIGYV 248
Query: 551 TDLG 554
TD+G
Sbjct: 249 TDIG 252
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.136 0.397
Gapped
Lambda K H
0.267 0.0787 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 57,673,760
Number of extensions: 5851013
Number of successful extensions: 5947
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5859
Number of HSP's successfully gapped: 96
Length of query: 1119
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 1012
Effective length of database: 6,191,724
Effective search space: 6266024688
Effective search space used: 6266024688
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: 64 (28.3 bits)