RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780573|ref|YP_003064986.1| cysteinyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(461 letters)
>gnl|CDD|30564 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 523 bits (1348), Expect = e-149
Identities = 212/485 (43%), Positives = 283/485 (58%), Gaps = 49/485 (10%)
Query: 4 KIKIYNTLERKITEFQAIDPSNIRMYVCGPTVYDFAHIGNARPMIVFDVLYRLLRYYYGE 63
+K+YNTL R+ EF IDP ++MYVCGPTVYD+AHIG+AR +VFDVL R LRY +
Sbjct: 1 MLKLYNTLTRQKEEFVPIDPGKVKMYVCGPTVYDYAHIGHARTYVVFDVLRRYLRYLGYK 60
Query: 64 KCVTYVRNITDIDDKIIERARQEHPSIPINDAISIITSKNTQQFVKDTTRLACLAPTHQP 123
VTYVRNITDIDDKII RAR+E SI + + F +D L L P +P
Sbjct: 61 --VTYVRNITDIDDKIINRAREEGLSI------REVAERYIAAFFEDMDALNVLPPDIEP 112
Query: 124 RATNHIPQMIYLIQNIILHGHAYEA-NNEIIFDTSSIPNYGSFSRR-KIDEQKMGTRVPE 181
RAT HI ++I I+ +I G+AY A + ++ FD S +YG S R ++E + G RV
Sbjct: 113 RATEHIDEIIEFIEKLIEKGYAYVADDGDVYFDVSKFKDYGKLSGRDSLEELQAGARVEV 172
Query: 182 KYHKKNPADFILWKRSTPMEPGWESPWGRGRPGWHIECSAMSSHYLGKVFDIHGGGLDLI 241
K+NP DF+LWK + P EP W+SPWG+GRPGWHIECSAMS+ YLG+ FDIHGGG DLI
Sbjct: 173 DEEKRNPLDFVLWKAAKPGEPSWDSPWGKGRPGWHIECSAMSTKYLGETFDIHGGGSDLI 232
Query: 242 FPHHENEIAQSCCADRIEKTANIWIHNGFLNLEGRKMSKSNGNFITINELLETKKFGGRS 301
FPHHENEIAQS A ++ A W+HNGFLN++G KMSKS GNFIT+ +LL+
Sbjct: 233 FPHHENEIAQSEAATGVKPFAKYWMHNGFLNIDGEKMSKSLGNFITVRDLLKK------- 285
Query: 302 WPAPVIRLAMLMTHYREPIDFTVQRLTEAEILLSKWPQT---------STSKGIIDP--- 349
+ V+RL +L +HYR P+DF+ + L EA+ L + +
Sbjct: 286 YDPEVLRLFLLSSHYRSPLDFSEELLEEAKKALERLYNALRRLRDLAGDAELADLKEFEA 345
Query: 350 AVLSALYNDLNTVSAIQALHKLARESTKNHD--------LLPIFNASAHILGIEVCKEHL 401
AL +D NT A+ L +LA+E + + +L A ILG++V
Sbjct: 346 RFREALDDDFNTPKALAVLFELAKEINRLLEEGKSDAKAVLSALKALLAILGLKVLGLFP 405
Query: 402 N------KNISIAIEKLVQERLILLKMKKFSSADYIRKQLESKGFILEDYKNPDNGQRMT 455
++ IE L++ERL K K ++ AD IR +L + G ILED + T
Sbjct: 406 QSGAQEDESDDEEIEALIEERLEARKAKNWALADEIRDELLALGIILEDTPDG------T 459
Query: 456 RWKQK 460
W++K
Sbjct: 460 TWRRK 464
>gnl|CDD|37218 KOG2007, KOG2007, KOG2007, Cysteinyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 586
Score = 373 bits (958), Expect = e-104
Identities = 178/497 (35%), Positives = 251/497 (50%), Gaps = 59/497 (11%)
Query: 1 MKKKIKIYNTLERKITEFQAIDPSNIRMYVCGPTVYDFAHIGNARPMIVFDVLYRLLRYY 60
++K+YN+L R+ F + + + Y+CGPTVYD +H+G+AR + FD+L R+LR Y
Sbjct: 31 QPTELKLYNSLTRQKEVFIPNNGNKVTWYICGPTVYDSSHMGHARSYVSFDILRRILRDY 90
Query: 61 YGEKCVTYVRNITDIDDKIIERARQEHPSIPINDAISIITSKNTQQFVKDTTRLACLAPT 120
+G VT+V NITD+DDKII+RAR+E +S ++F++D L L PT
Sbjct: 91 FGYD-VTFVMNITDVDDKIIKRARKEEMGEKPLS-LSERFCYYEEEFLQDMAALNVLPPT 148
Query: 121 HQPRATNHIPQMIYLIQNIILHGHAYEANNEIIFDTSSIP-NYGSFSRRKIDEQKMGTRV 179
Q R + ++PQ+I IQ II +G+AY + + FD P +YG ++ + Q+ G V
Sbjct: 149 VQTRVSEYVPQIIKFIQKIIDNGYAYAVDGSVYFDVDKFPHSYGKLVGQRKNLQE-GEGV 207
Query: 180 PEKYHKKNPADFILWKRSTPMEPGWESPWGRGRPGWHIECSAMSSHYLGKVFDIHGGGLD 239
K++PADF LWK S P EP WESPWG+GRPGWHIECSAM+S LG DIHGGG+D
Sbjct: 208 LSDSRKRSPADFALWKASKPGEPSWESPWGKGRPGWHIECSAMASAILGSQLDIHGGGID 267
Query: 240 LIFPHHENEIAQSCCADRIEKTANIWIHNGFLNLEGRKMSKSNGNFITINELLETKKFGG 299
L FPHHENEIAQS A + N ++H G L + G KMSKS NFITI E L KK+
Sbjct: 268 LAFPHHENEIAQSEAAFDDSQWVNYFLHTGHLTINGEKMSKSLKNFITIKEAL--KKYSP 325
Query: 300 RSWPAPVIRLAMLMTHYREPIDFTVQRLTEAEILLS----------------KWPQTSTS 343
R +RLA L+ +R P+D++ + +A L K + +
Sbjct: 326 R-----QLRLAFLLHQWRSPLDYSDSTMEQALQLEKSLNNFFLDVKALLRGAKPFEKLSE 380
Query: 344 K--------GIIDPAVLSALYNDLNTVSAIQALHKL---------ARESTKNHDLLPIFN 386
K G AV +AL ++ +T ++A+ +L N LL
Sbjct: 381 KEAELLEDFGKTQTAVHAALCDNFDTPRVMEAIRELVSQGNAYIRESGERPNSALLKAIA 440
Query: 387 AS----AHILGIEVCKE---------HLNKNISIAIEKLVQERLILLKMKKFSSA-DYIR 432
+ I G+ K + V+E K+ + D +R
Sbjct: 441 SYITKLLKIFGLSEGKGQQYVLEATVMPYVQSLSEFREKVREVAREKKVPEILELCDTLR 500
Query: 433 -KQLESKGFILEDYKNP 448
L G LED K
Sbjct: 501 DSDLLELGVRLEDRKGS 517
>gnl|CDD|110410 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic
domain. This family includes only cysteinyl tRNA
synthetases.
Length = 301
Score = 372 bits (957), Expect = e-103
Identities = 145/315 (46%), Positives = 197/315 (62%), Gaps = 17/315 (5%)
Query: 17 EFQAIDPSNIRMYVCGPTVYDFAHIGNARPMIVFDVLYRLLRYYYGEKCVTYVRNITDID 76
F + + MYVCGPTVYD +HIG+AR + FDVL R L+ + V +V+N TDID
Sbjct: 1 FFVPLHQGKVNMYVCGPTVYDDSHIGHARSAVAFDVLRRYLQALGYD--VQFVQNFTDID 58
Query: 77 DKIIERARQEHPSIPINDAISIITSKNTQQFVKDTTRLACLAPTHQPRATNHIPQMIYLI 136
DKII+RA+Q+ S + ++ + KD L L P +PR T HI ++I I
Sbjct: 59 DKIIKRAQQQGESFRE------LAARFITAYTKDMDALNVLPPDLEPRVTEHIDEIIEFI 112
Query: 137 QNIILHGHAYEA-NNEIIFDTSSIPNYGSFSRRKIDEQKMGTRVPEKYHKKNPADFILWK 195
+ +I G+AY + N ++ FD SS P+YG S + +++ + G R K++P DF LWK
Sbjct: 113 ERLIKKGYAYVSDNGDVYFDVSSFPDYGKLSGQNLEQLEAGARGEVGEGKRDPLDFALWK 172
Query: 196 RSTPMEPGWESPWGRGRPGWHIECSAMSSHYLGKVFDIHGGGLDLIFPHHENEIAQSCCA 255
S EP W+SPWG+GRPGWHIECSAM+ YLG DIHGGG+DL FPHHENEIAQS A
Sbjct: 173 ASKEGEPSWDSPWGKGRPGWHIECSAMARKYLGSQIDIHGGGVDLKFPHHENEIAQSEAA 232
Query: 256 DRIEKTANIWIHNGFLNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLMTH 315
+ A W+HNG L +EG KMSKS GNF+TI ++L K++ R ++R +L H
Sbjct: 233 FDQQ-LAKYWLHNGHLMIEGEKMSKSLGNFLTIRDVL--KRYDPR-----ILRYFLLSVH 284
Query: 316 YREPIDFTVQRLTEA 330
YR P+DF+ + L +A
Sbjct: 285 YRSPLDFSEELLEQA 299
>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 = 174 bits (443), Expect = 5e-44
Identities = 63/109 (57%), Positives = 78/109 (71%), Gaps = 8/109 (7%)
Query: 215 WHIECSAMSSHYLGKVFDIHGGGLDLIFPHHENEIAQSCCADRIEKTANIWIHNGFLNLE 274
WHIECSAM+ YLG+ FDIHGGG+DLIFPHHENEIAQS A + A W+H G L ++
Sbjct: 113 WHIECSAMAMKYLGETFDIHGGGVDLIFPHHENEIAQSEAA-TGKPFARYWLHTGHLTID 171
Query: 275 GRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLMTHYREPIDFT 323
G KMSKS GNFIT+ + L KK+ V+RLA+L +HYR P+DF+
Sbjct: 172 GEKMSKSLGNFITVRDAL--KKYDPE-----VLRLALLSSHYRSPLDFS 213
Score = 151 bits (385), Expect = 3e-37
Identities = 59/125 (47%), Positives = 77/125 (61%), Gaps = 11/125 (8%)
Query: 6 KIYNTLERKITEFQAIDPSNIRMYVCGPTVYDFAHIGNARPMIVFDVLYRLLRYY-YGEK 64
++YNTL R+ EF ++P + MYVCGPTVYD+AHIG+AR +VFDVL R L Y
Sbjct: 1 RLYNTLTRQKEEFVPLNPGLVTMYVCGPTVYDYAHIGHARTYVVFDVLRRYLEDLGYK-- 58
Query: 65 CVTYVRNITDIDDKIIERARQEHPSIPINDAISIITSKNTQQFVKDTTRLACLAPTHQPR 124
V YV+NITDIDDKII+RAR+E + + + T++F +D L L P PR
Sbjct: 59 -VRYVQNITDIDDKIIKRAREEG--LSWKE----VADYYTKEFFEDMKALNVLPPDVVPR 111
Query: 125 ATNHI 129
HI
Sbjct: 112 VW-HI 115
>gnl|CDD|153417 cd07963, Anticodon_Ia_Cys, Anticodon-binding domain of cysteinyl
tRNA synthetases. This domain is found in cysteinyl
tRNA synthetases (CysRS), 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. CysRS catalyzes the
transfer of cysteine to the 3'-end of its tRNA.
Length = 156
Score = 56.8 bits (138), Expect = 1e-08
Identities = 30/108 (27%), Positives = 49/108 (45%), Gaps = 16/108 (14%)
Query: 353 SALYNDLNTVSAIQALHKLARE----STKNHDLLPIFNAS----AHILGI--EVCKEHLN 402
+A+ +D NT A+ L +LARE ++ + A +LG+ + + L
Sbjct: 40 AAMDDDFNTPEALAVLFELAREINRLKKEDIEKAAALAALLKALGGVLGLLQQDPEAFLQ 99
Query: 403 KNISI------AIEKLVQERLILLKMKKFSSADYIRKQLESKGFILED 444
IE L+ +R K K ++ AD IR +L ++G ILED
Sbjct: 100 GGTGEGGLSVAEIEALIAQRNQARKAKDWAEADRIRDELAAQGIILED 147
>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 = 4e-07
Identities = 17/69 (24%), Positives = 23/69 (33%), Gaps = 4/69 (5%)
Query: 214 GWHIECSAMSSHYLGKVFDIHGGGLDLIFPHHENEIAQSCCADRIEKTANIWIHNGFLNL 273
+ +A DIH GG D + H E + A + G +
Sbjct: 77 EYMFLQAADFLLLYETECDIHLGGSDQLG-HIELGLELLKKAGG--PARPFGLTFGRVMG 133
Query: 274 E-GRKMSKS 281
G KMSKS
Sbjct: 134 ADGTKMSKS 142
Score = 47.9 bits (114), Expect = 7e-06
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 28 MYVCGPTVYDFAHIGNARPMIVFDVLYRLLRYYYGEKCVTYVRNITDIDDKIIERA 83
G T + HIG+ R ++ FD L + R + V + I D I + A
Sbjct: 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYK--VRCIALIDDAGGLIGDPA 54
>gnl|CDD|30409 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 46.7 bits (111), Expect = 1e-05
Identities = 35/132 (26%), Positives = 63/132 (47%), Gaps = 17/132 (12%)
Query: 266 IHNGF-LNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLMTHYREPIDFTV 324
+ +GF L+ +GRKMSKS GN + +++ K+G A ++RL + + Y E + F+
Sbjct: 590 LTHGFVLDEKGRKMSKSLGNVVDPQDVI--DKYG-----ADILRLWVASSDYWEDLRFSD 642
Query: 325 QRLTEAEILLSKWPQT----STSKGIIDPAVLSALYNDLNT-----VSAIQALHKLARES 375
+ L + + K T + DP + L +L +S + +L K RE+
Sbjct: 643 EILKQVREVYRKIRNTYRFLLGNLDDFDPKKDAVLPEELRELDRWILSRLNSLVKEVREA 702
Query: 376 TKNHDLLPIFNA 387
+N+D + A
Sbjct: 703 YENYDFHKVVRA 714
>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 = 45.7 bits (109), Expect = 3e-05
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 7/47 (14%)
Query: 266 IHNGFLNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAML 312
I G + LEG KMSKS GN +T +E + KK+G A RL +L
Sbjct: 264 IVQGMVLLEGEKMSKSKGNVVTPDEAI--KKYG-----ADAARLYIL 303
>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 = 43.3 bits (103), Expect = 1e-04
Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 7/46 (15%)
Query: 268 NGFLNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLM 313
+G+L +EG+KMSKS GN + ++LLE + A +R +L
Sbjct: 271 HGYLTVEGKKMSKSRGNVVDPDDLLER-------YGADALRYYLLR 309
>gnl|CDD|30492 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 42.6 bits (100), Expect = 2e-04
Identities = 17/27 (62%), Positives = 21/27 (77%)
Query: 268 NGFLNLEGRKMSKSNGNFITINELLET 294
+GFL LEG+KMSKS GN + +ELLE
Sbjct: 324 HGFLTLEGQKMSKSRGNVVDPDELLEQ 350
Score = 28.7 bits (64), Expect = 3.7
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 33 PTVYDFAHIGNARPMIVFDVLYRLLR 58
P H+G+ + DV R LR
Sbjct: 14 PYPNGPPHLGHLYTYLAADVYARYLR 39
>gnl|CDD|185674 cd00668, Ile_Leu_Val_MetRS_core, catalytic core domain of
isoleucyl, leucyl, valyl and methioninyl tRNA
synthetases. Catalytic core domain of isoleucyl,
leucyl, valyl and methioninyl tRNA synthetases. These
class I enzymes are all monomers. However, in some
species, MetRS functions as a homodimer, as a result of
an additional C-terminal domain. These enzymes
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. Enzymes in
this subfamily share an insertion in the core domain,
which is subject to both deletions and rearrangements.
This editing region hydrolyzes mischarged cognate tRNAs
and thus prevents the incorporation of chemically
similar amino acids. MetRS has a significantly shorter
insertion, which lacks the editing function.
Length = 312
Score = 41.3 bits (97), Expect = 6e-04
Identities = 55/303 (18%), Positives = 92/303 (30%), Gaps = 56/303 (18%)
Query: 33 PTVYDFAHIGNARPMIVFDVL--YRLLRYYY----------GEKCVTYVRNITDIDDKII 80
P H+G+A I+ D + Y+ +R Y G K I
Sbjct: 9 PYANGSLHLGHALTHIIADFIARYKRMRGYEVPFLPGWDTHGLPIELKAERKGGRKKKTI 68
Query: 81 ERARQEHPSIPINDAISIITSKNTQQFVKDTTRLACLAP------THQPRATNHIPQMIY 134
+ + + + +D RL T +P + +
Sbjct: 69 WIEE-------FREDPKEFVEEMSGEHKEDFRRLGISYDWSDEYITTEPE---YSKAVEL 118
Query: 135 LIQNIILHGHAYEANNEIIFDTSSIPNYGSFSRRKIDEQKMGTRVPEKYHKKNPA---DF 191
+ + G Y + + + F + + + G VPE + A
Sbjct: 119 IFSRLYEKGLIYRGTHPVRITEQWFFDMPKFKEKLLKALRRGKIVPEHVKNRMEAWLESL 178
Query: 192 ILWKRSTPMEPGWESPWGRGRPGWHIEC-------SAMSSHYL--GKVF------DIHGG 236
+ W S WG P + S Y + F D H
Sbjct: 179 LDWAISRQR------YWGTPLPEDVFDVWFDSGIGPLGSLGYPEEKEWFKDSYPADWHLI 232
Query: 237 GLDLIFPHHENEIAQSCCADRIEKTANIWIHNGFLNLE-GRKMSKSNGNFITINELLETK 295
G D++ I N+ +H GF+ E G+KMSKS GN I ++++E
Sbjct: 233 GKDILRGWANFWITMLVALFGEIPPKNLLVH-GFVLDEGGQKMSKSKGNVIDPSDVVE-- 289
Query: 296 KFG 298
K+G
Sbjct: 290 KYG 292
>gnl|CDD|35658 KOG0437, KOG0437, KOG0437, Leucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 1080
Score = 37.3 bits (86), Expect = 0.008
Identities = 17/31 (54%), Positives = 21/31 (67%), Gaps = 2/31 (6%)
Query: 268 NGFLNLEGRKMSKSNGNFITINELLETKKFG 298
NG L L KMSKS GNF+T+ + +E KFG
Sbjct: 701 NGHLMLNSEKMSKSTGNFMTLEQAIE--KFG 729
>gnl|CDD|30871 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 36.0 bits (83), Expect = 0.023
Identities = 32/135 (23%), Positives = 60/135 (44%), Gaps = 13/135 (9%)
Query: 263 NIWIHNGFLNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAM-LMTHYREPID 321
+++IH + +GRKMSKS GN I ++++ K+G A +R + + I+
Sbjct: 511 DVYIHGLVRDEQGRKMSKSKGNVIDPLDVID--KYG-----ADALRFTLASLASPGRDIN 563
Query: 322 FTVQRLTEAEILLSK-WPQTSTSKGIIDPAVLSALYNDLNTVSA---IQALHKLARESTK 377
F +R+ L+K W T +D L +++ + L++ +E T+
Sbjct: 564 FDEKRVEGYRNFLNKLWNATRFVLMNLDDLGPDDLDLLALSLADRWILSRLNETVKEVTE 623
Query: 378 NHDLLPIFNASAHIL 392
D F+ +A L
Sbjct: 624 ALDNYR-FDEAARAL 637
>gnl|CDD|30368 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 35.6 bits (82), Expect = 0.032
Identities = 20/92 (21%), Positives = 31/92 (33%), Gaps = 18/92 (19%)
Query: 258 IEKTANIWIHNGF---LNLEGRKMSKSNGNFITINELLE----------TKKFGGRSWPA 304
+ +H G EG KMS GN +T+++LL+ +K A
Sbjct: 361 YGPDKEVLLHQGVGLVRGGEGVKMSTRAGNVVTLDDLLDEAGERAPEEMEEKEEKNEEIA 420
Query: 305 PV-----IRLAMLMTHYREPIDFTVQRLTEAE 331
V +R A L + F + E
Sbjct: 421 EVVGIDAVRYADLSRSRDKDYVFDWDKALSFE 452
Score = 27.1 bits (60), Expect = 9.4
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 40 HIGNARPMIVFDVLYRLLRYY 60
HIG+ R I+ D L R+L +
Sbjct: 133 HIGHLRNAIIGDSLARILEFL 153
>gnl|CDD|145212 pfam01921, tRNA-synt_1f, tRNA synthetases class I (K). This family
includes only lysyl tRNA synthetases from prokaryotes.
Length = 355
Score = 34.5 bits (80), Expect = 0.064
Identities = 14/24 (58%), Positives = 14/24 (58%)
Query: 270 FLNLEGRKMSKSNGNFITINELLE 293
L G KMS S GN ITI E LE
Sbjct: 271 ILLKGGGKMSSSKGNGITIEEWLE 294
>gnl|CDD|30841 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 34.5 bits (79), Expect = 0.065
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 266 IHNGF-LNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAML 312
I G L EG KMSKS GN + E +E K+G A +RL ++
Sbjct: 567 ITQGMVLGEEGEKMSKSKGNVVDPEEAVE--KYG-----ADTVRLYIM 607
>gnl|CDD|185677 cd00817, ValRS_core, catalytic core domain of valyl-tRNA
synthetases. Valine amino-acyl tRNA synthetase (ValRS)
catalytic core domain. This 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. ValRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements. This editing region
hydrolyzes mischarged cognate tRNAs and thus prevents
the incorporation of chemically similar amino acids.
Length = 382
Score = 33.8 bits (78), Expect = 0.12
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 263 NIWIHNGFLNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLM 313
+++H + +GRKMSKS GN I ++++ +G A +R +
Sbjct: 329 EVYLHGLVRDEDGRKMSKSLGNVIDPLDVID--GYG-----ADALRFTLAS 372
>gnl|CDD|173900 cd00674, LysRS_core_class_I, catalytic core domain of class I
lysyl tRNA synthetase. Class I lysyl tRNA synthetase
(LysRS) 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. The class I LysRS is found only in archaea and
some bacteria and has evolved separately from class II
LysRS, as the two do not share structural or sequence
similarity.
Length = 353
Score = 33.1 bits (76), Expect = 0.18
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 11/64 (17%)
Query: 270 FLNLEGR-KMSKSNGNFITINELLETKKFGGRSWPAPVIRLAML---MTHYREPIDFTVQ 325
F+ L+G KMS S GN IT ++ LE P V+R D +
Sbjct: 267 FIGLKGGGKMSSSKGNVITPSDWLEV-------APPEVLRYLYARRKNPEKHIGFDLDIL 319
Query: 326 RLTE 329
RL +
Sbjct: 320 RLYD 323
>gnl|CDD|173909 cd00818, IleRS_core, catalytic core domain of isoleucyl-tRNA
synthetases. Isoleucine amino-acyl tRNA synthetases
(IleRS) 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. IleRS has an insertion in the core domain,
which is subject to both deletions and rearrangements.
This editing region hydrolyzes mischarged cognate tRNAs
and thus prevents the incorporation of chemically
similar amino acids.
Length = 338
Score = 32.6 bits (75), Expect = 0.25
Identities = 19/50 (38%), Positives = 30/50 (60%), Gaps = 8/50 (16%)
Query: 266 IHNGFLNLE-GRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLMT 314
I +GF+ E GRKMSKS GN++ E+++ K+G A +RL + +
Sbjct: 287 IVHGFVLDEDGRKMSKSLGNYVDPQEVVD--KYG-----ADALRLWVASS 329
>gnl|CDD|143905 pfam00133, tRNA-synt_1, tRNA synthetases class I (I, L, M and V).
Other tRNA synthetase sub-families are too dissimilar to
be included.
Length = 606
Score = 32.3 bits (74), Expect = 0.27
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 263 NIWIHNGFLNLEGRKMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLMTHY 316
N+ +H + +GRKMSKS GN I+ L K+G A +RL + + Y
Sbjct: 553 NVLVHGLVRDEQGRKMSKSLGN--VIDPLDVIDKYG-----ADALRLWLASSDY 599
>gnl|CDD|31574 COG1384, LysS, Lysyl-tRNA synthetase (class I) [Translation,
ribosomal structure and biogenesis].
Length = 521
Score = 30.2 bits (68), Expect = 1.3
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 8/54 (14%)
Query: 270 FLNLEGR-KMSKSNGNFITINELLETKKFGGRSWPAPVIRLAMLMTHYREPIDF 322
++ L+G KMS S GN I++++ LE P V+R + T IDF
Sbjct: 269 WILLKGGGKMSSSKGNVISLSDWLEV-------APPEVLRYLIARTKPNRHIDF 315
>gnl|CDD|36247 KOG1029, KOG1029, KOG1029, Endocytic adaptor protein intersectin
[Signal transduction mechanisms, Intracellular
trafficking, secretion, and vesicular transport].
Length = 1118
Score = 30.1 bits (67), Expect = 1.5
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 187 NPADFILWKRSTPMEPGWESPWGRGRPGW 215
P D I+ S EPGW + RG+ GW
Sbjct: 713 EPGDIIIVFESQAAEPGWLAGELRGKTGW 741
>gnl|CDD|114364 pfam05636, DUF795, Protein of unknown function (DUF795). This
family consists of several bacterial proteins of unknown
function.
Length = 389
Score = 29.7 bits (67), Expect = 2.0
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 388 SAHILGIEVCK--EHLNKNIS-IAIEKLVQERLILLKMKKFSSADYIRKQLESKG 439
+ILG+E K + NI I++ L +F+SA IRK L+ K
Sbjct: 161 PNNILGLEYAKAIKKAGSNIKLYTIKREGAGYHDLELEDQFASATAIRKALKEKD 215
>gnl|CDD|35654 KOG0433, KOG0433, KOG0433, Isoleucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 937
Score = 29.2 bits (65), Expect = 2.3
Identities = 30/164 (18%), Positives = 61/164 (37%), Gaps = 21/164 (12%)
Query: 264 IWIHNGFLNLEGRKMSKSNGNFIT----INELLETKKFGGRSWPAPVIRLAMLMTHYREP 319
+ +H L+ G KMSKS GN + + L+ +G A +R + +
Sbjct: 600 VIVHGFTLDENGNKMSKSLGNVVDPTMVTDGSLKQPAYG-----ADGLRFWVAGSENTGE 654
Query: 320 IDFTVQRLTEAEILLSKWPQTST-SKGII---DPAVLSALYNDLNTVS--AIQALHKLAR 373
+ L + + L K+ T G + D + DL + +Q L + +
Sbjct: 655 SKIGPKILDQVDEKLIKFRNTFRFLLGNLQDFDGKQVKFPLKDLRYIDQYMLQQLDAIVK 714
Query: 374 ESTKNHDLLPIFNASAHILGIEVCKEHLNKNISIAIEKLVQERL 417
+ ++ + ++ L +N+S +V++RL
Sbjct: 715 RIIELYNDYKFRKVVNDL------QQFLQRNLSAFYFDIVKDRL 752
>gnl|CDD|111812 pfam02964, MeMO_Hyd_G, Methane monooxygenase, hydrolase gamma
chain.
Length = 160
Score = 28.7 bits (64), Expect = 3.1
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 409 IEKLVQERLILLKMKKFSSADYIRK 433
IE+ ++E+L +LK +KF+ AD I K
Sbjct: 51 IERKIEEKLAVLKTEKFNVADLITK 75
>gnl|CDD|33251 COG3448, COG3448, CBS-domain-containing membrane protein [Signal
transduction mechanisms].
Length = 382
Score = 28.8 bits (64), Expect = 3.3
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 7/53 (13%)
Query: 342 TSKGIIDPAVLSALYNDLNTVSAIQALHKLARESTKNHDLLPIFNASAHILGI 394
T KGI+ V++ + A++ + +LA E LP+ +A+ ++GI
Sbjct: 316 TVKGIMTTPVVTVRPDT----PAVELVPRLADEG---LHALPVLDAAGKLVGI 361
>gnl|CDD|35653 KOG0432, KOG0432, KOG0432, Valyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 995
Score = 28.7 bits (64), Expect = 3.8
Identities = 10/13 (76%), Positives = 10/13 (76%)
Query: 274 EGRKMSKSNGNFI 286
GRKMSKS GN I
Sbjct: 590 HGRKMSKSLGNVI 602
>gnl|CDD|173961 cd08551, Fe-ADH, iron-containing alcohol dehydrogenases
(Fe-ADH)-like. Large metal-containing alcohol
dehydrogenases (ADH), known as iron-containing alcohol
dehydrogenases. They contain a dehydroquinate
synthase-like protein structural fold and mostly contain
iron. They are distinct from other alcohol
dehydrogenases which contains different protein domains.
There are several distinct families of alcohol
dehydrogenases: Zinc-containing long-chain alcohol
dehydrogenases; insect-type, or short-chain alcohol
dehydrogenases; iron-containing alcohol dehydrogenases,
and others. The iron-containing family has a Rossmann
fold-like topology that resembles the fold of the
zinc-dependent alcohol dehydrogenases, but lacks
sequence homology, and differs in strand arrangement.
ADH catalyzes the reversible oxidation of alcohol to
acetaldehyde with the simultaneous reduction of NAD(P)+
to NAD(P)H.
Length = 370
Score = 28.0 bits (63), Expect = 5.1
Identities = 12/57 (21%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 219 CSAMSSHYLGKVFDI-HGGGLDLIFPHHENEIAQSCCADRIEKTANIWIHNGFLNLE 274
AM+ H LG ++ I HG ++ PH A++ ++ A + +
Sbjct: 254 VHAMA-HPLGALYHIPHGLANAILLPHVMRFNAEA-IPEKYADIARAMGKVSGGSDD 308
>gnl|CDD|173969 cd08148, RuBisCO_large, Ribulose bisphosphate carboxylase large
chain. Ribulose bisphosphate carboxylase (Rubisco)
plays an important role in the Calvin reductive pentose
phosphate pathway. It catalyzes the primary CO2 fixation
step. Rubisco is activated by carbamylation of an active
site lysine, stabilized by a divalent cation, which then
catalyzes the proton abstraction from the substrate
ribulose 1,5 bisphosphate (RuBP) and leads to the
formation of two molecules of 3-phosphoglycerate.
Members of the Rubisco family can be divided into 4
subgroups, Form I-IV, which differ in their taxonomic
distribution and subunit composition. Form I-III have
Rubisco activity, while Form IV, also called
Rubisco-like proteins (RLP), are missing critical active
site residues and therefore do not catalyze CO2
fixation. They are believed to utilize a related
enzymatic mechanism, but have divergent functions.
Length = 366
Score = 27.8 bits (62), Expect = 7.0
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 49 VFDVLYRLLRYYYGEKCVTYVRNITDIDDKIIERA 83
V L R+ + GEK + V N+T +IIERA
Sbjct: 181 VAAALDRV-QEETGEKKLYAV-NVTAGTFEIIERA 213
>gnl|CDD|32162 COG1979, COG1979, Uncharacterized oxidoreductases, Fe-dependent
alcohol dehydrogenase family [Energy production and
conversion].
Length = 384
Score = 27.5 bits (61), Expect = 7.8
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 5/38 (13%)
Query: 209 GRGRPG-WHIECSAMSSHYLGKVFDI-HGGGLDLIFPH 244
G G P W + M H L ++DI H GL ++ P
Sbjct: 254 GAGVPQDW---ATHMIGHELTALYDIDHAQGLAIVLPA 288
>gnl|CDD|37109 KOG1898, KOG1898, KOG1898, Splicing factor 3b, subunit 3 [RNA
processing and modification].
Length = 1205
Score = 27.2 bits (60), Expect = 8.6
Identities = 10/40 (25%), Positives = 15/40 (37%)
Query: 228 GKVFDIHGGGLDLIFPHHENEIAQSCCADRIEKTANIWIH 267
+VFD G + + +NE A S CA +
Sbjct: 855 IRVFDPKSGKIICLVELGQNEAAFSVCAVDFSSSEYQPFV 894
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.320 0.136 0.415
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,833,313
Number of extensions: 314422
Number of successful extensions: 796
Number of sequences better than 10.0: 1
Number of HSP's gapped: 775
Number of HSP's successfully gapped: 44
Length of query: 461
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 364
Effective length of database: 4,167,664
Effective search space: 1517029696
Effective search space used: 1517029696
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: 59 (26.6 bits)