RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11866
(255 letters)
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 279 bits (716), Expect = 3e-90
Identities = 118/260 (45%), Positives = 157/260 (60%), Gaps = 21/260 (8%)
Query: 6 QAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQT 65
+AYF+ WV YFLHSGHL I G KMSKSLKNFITI+ AL+K+TARQ+RL FLLH W +
Sbjct: 291 EAYFDKHQWVNYFLHSGHLHIKGLKMSKSLKNFITIRQALSKYTARQIRLLFLLHKWDKP 350
Query: 66 LDYSDNTMEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTK 125
++YSD +M+ A+ +K+ FF NVK +R ++S +KWTQ D EL+ F +TK
Sbjct: 351 MNYSDESMDEAIEKDKVFFNFFANVKIKLRES-----ELTSPQKWTQHDFELNELFEETK 405
Query: 126 NNVHAALCDNMDTRSALDSIRDCISQVNIYLRG--TPNQLLLRDIGAYVTKILTVFGCIG 183
+ VHAAL DN DT AL +++ IS N YL P+ LLR + YVTKIL++FG +
Sbjct: 406 SAVHAALLDNFDTPEALQALQKLISATNTYLNSGEQPSAPLLRSVAQYVTKILSIFGLVE 465
Query: 184 DVKNIGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEAR-------LIKSTE-ILNQ 235
+G + E P L L FRD +R A+ L K + +L
Sbjct: 466 GSDGLGSQ------GQNSTSENFKPLLEALLRFRDEVRDAAKAEMKLISLDKKKKQLLQL 519
Query: 236 CDRLRDEVLPNVGVRLEDIE 255
CD+LRDE LPN+G+R+ED
Sbjct: 520 CDKLRDEWLPNLGIRIEDKP 539
>gnl|CDD|223293 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 128 bits (325), Expect = 1e-34
Identities = 59/248 (23%), Positives = 99/248 (39%), Gaps = 37/248 (14%)
Query: 6 QAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQT 65
+A + +Y++H+G L I G KMSKSL NFIT++D L K+ LRL L +
Sbjct: 244 EAATGVKPFAKYWMHNGFLNIDGEKMSKSLGNFITVRDLLKKYDPEVLRLFLLSSHYRSP 303
Query: 66 LDYSDNTMEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTK 125
LD+S+ +E A + L ++D A + +
Sbjct: 304 LDFSEELLEEAKKALERLYNALRRLRDL-------------------AGDAELADLKEFE 344
Query: 126 NNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDV 185
AL D+ +T AL + + ++N L + + + + + +L + G +
Sbjct: 345 ARFREALDDDFNTPKALAVLFELAKEINRLLEEGKS--DAKAVLSALKALLAILG----L 398
Query: 186 KNIGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIKSTEILNQCDRLRDEVLP 245
K +G E + +E + L E R R + D +RDE L
Sbjct: 399 KVLGLFPQSGAQEDESDDEEIE----ALIEERLEARKA-------KNWALADEIRDE-LL 446
Query: 246 NVGVRLED 253
+G+ LED
Sbjct: 447 ALGIILED 454
>gnl|CDD|234705 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated.
Length = 463
Score = 111 bits (281), Expect = 2e-28
Identities = 58/249 (23%), Positives = 92/249 (36%), Gaps = 46/249 (18%)
Query: 10 NNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYS 69
+ Y++H+G +T+ G KMSKSL NF TI+D L K+ LR L + L++S
Sbjct: 246 TGKPFANYWMHNGFVTVNGEKMSKSLGNFFTIRDLLKKYDPEVLRFFLLSAHYRSPLNFS 305
Query: 70 DNTMEMA-VTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNV 128
+ +E A E+L + + E E RFI
Sbjct: 306 EEALEQAKKALERL--------YNALAETALGEDD----EALLAELEEFKERFI------ 347
Query: 129 HAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDVKNI 188
A+ D+ +T AL + + ++N L + + V G + +
Sbjct: 348 -EAMDDDFNTPEALAVLFELAREINRALETKDKEAAAALAALLR-ALADVLG-LEQDEEA 404
Query: 189 GFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIK----STEILNQCDRLRDEVL 244
F + +E L+ R EAR K + D +RDE L
Sbjct: 405 LFEAAADELLDAEIEALI------------EERQEARKAKDFALA-------DAIRDE-L 444
Query: 245 PNVGVRLED 253
+G+ LED
Sbjct: 445 AALGIVLED 453
>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 = 103 bits (259), Expect = 5e-27
Identities = 33/64 (51%), Positives = 42/64 (65%), Gaps = 1/64 (1%)
Query: 6 QAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQT 65
+A + RY+LH+GHLTI G KMSKSL NFIT++DAL K+ LRLA L +
Sbjct: 151 EAATGK-PFARYWLHTGHLTIDGEKMSKSLGNFITVRDALKKYDPEVLRLALLSSHYRSP 209
Query: 66 LDYS 69
LD+S
Sbjct: 210 LDFS 213
>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 = 94.0 bits (234), Expect = 5e-22
Identities = 54/246 (21%), Positives = 92/246 (37%), Gaps = 45/246 (18%)
Query: 14 WVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTM 73
+Y++H+G L I KMSKSL NF T++D L + LR L + LD+S
Sbjct: 249 LAKYWMHNGFLMIDNEKMSKSLGNFFTVRDVLKNYDPEILRYFLLSVHYRSPLDFS---- 304
Query: 74 EMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHA--- 130
E+LL K+ + L + + S + A
Sbjct: 305 ------EELLEA----AKNALERLY---KALRVLDTSLAYSGNQSLNKFPDEKEFEARFV 351
Query: 131 -ALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDVKNIG 189
A+ D+++T +AL + + +N+ + LL ++ + +G + +
Sbjct: 352 EAMDDDLNTANALAVLFELAKSINLTFVSKADAALLI------EHLIFLESRLGLLLGLP 405
Query: 190 FPLGGTGV--ESTNLEELVLPYLTILSEFRDNIRTEARLIKSTEILNQCDRLRDEVLPNV 247
G + +E L+ R+ AR K + D +RDE L
Sbjct: 406 SKPVQAGSNDDLGEIEALIEE------------RSIARKEKD---FAKADEIRDE-LAKK 449
Query: 248 GVRLED 253
G+ LED
Sbjct: 450 GIVLED 455
>gnl|CDD|216482 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic
domain. This family includes only cysteinyl tRNA
synthetases.
Length = 301
Score = 90.5 bits (225), Expect = 2e-21
Identities = 31/71 (43%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 7 AYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTL 66
A F+ +Y+LH+GHL I G KMSKSL NF+TI+D L ++ R LR L + L
Sbjct: 231 AAFDQ-QLAKYWLHNGHLMIEGEKMSKSLGNFLTIRDVLKRYDPRILRYFLLSVHYRSPL 289
Query: 67 DYSDNTMEMAV 77
D+S+ +E A
Sbjct: 290 DFSEELLEQAK 300
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 57.7 bits (140), Expect = 1e-09
Identities = 42/183 (22%), Positives = 65/183 (35%), Gaps = 27/183 (14%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWH-QTLDYSDNTME 74
R F H G LT+ G KMSKS N + + L ++ LR D+S
Sbjct: 320 RIFAH-GFLTLEGQKMSKSRGNVVDPDELLEQYGVDALRYYLARELPEGSDGDFSWEDFV 378
Query: 75 MAVTYEKLLNEF--FLNVKDHIRNLKFPAT----TVSSF-EKWTQADLELSTRFIQTKNN 127
V + L N+ N R L F V + + D EL +
Sbjct: 379 ERVNAD-LANKLGNLAN-----RTLGFINKYFDGVVPAAGAPDLEEDEELLALAREALEA 432
Query: 128 VHAALCDNMDTRSALDSIRDCISQVNIYLRGT-PNQLLLRD----------IGAYVTKIL 176
V A+ + + R AL+ I S+ N Y+ P +L D + + ++L
Sbjct: 433 VAEAM-EKYEFRKALEEIMALASRANKYIDEQAPWKLAKEDKRERLATVLYLALELVRVL 491
Query: 177 TVF 179
+
Sbjct: 492 AIL 494
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 56.4 bits (137), Expect = 3e-09
Identities = 40/168 (23%), Positives = 72/168 (42%), Gaps = 26/168 (15%)
Query: 21 SGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWH-QTLDYSDNTMEMAVTY 79
+G + + G KMSKS N I ++ A+ ++ A +RL A Q D+ + +E
Sbjct: 568 NGFVLLEGKKMSKSKGNVIPLRKAIEEYGADVVRLYLTSSAELLQDADWREKEVESVR-- 625
Query: 80 EKLLNEFFLNVKDHI-----RNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAALCD 134
+ L F+ K+ I L+F +KW L +R + A+ +
Sbjct: 626 -RQLERFYELAKELIEIGGEEELRFI-------DKW------LLSRLNRIIKETTEAM-E 670
Query: 135 NMDTRSALDSI-RDCISQVNIYLR--GTPNQLLLRDIGAYVTKILTVF 179
+ TR A+ + ++ + YLR G N +LR++ ++L F
Sbjct: 671 SFQTRDAVQEAFYELLNDLRWYLRRVGEANNKVLREVLEIWIRLLAPF 718
>gnl|CDD|173001 PRK14535, cysS, cysteinyl-tRNA synthetase; Provisional.
Length = 699
Score = 50.9 bits (121), Expect = 2e-07
Identities = 39/141 (27%), Positives = 65/141 (46%), Gaps = 20/141 (14%)
Query: 13 SWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNT 72
S V+Y+LH+G + + G KMSKSL NF TI++ L ++ +R L + L+YSD
Sbjct: 491 SHVKYWLHNGFIRVDGEKMSKSLGNFFTIREVLKQYDPEVVRFFILRAHYRSPLNYSDAH 550
Query: 73 MEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAAL 132
++ A + L + +K+ PA A+ LS +AA+
Sbjct: 551 LDDA---KGALTRLYTTLKNT------PA-----------AEFMLSENVNDYTRRFYAAM 590
Query: 133 CDNMDTRSALDSIRDCISQVN 153
D+ T A+ + + +VN
Sbjct: 591 NDDFGTVEAVAVLFELAGEVN 611
>gnl|CDD|178532 PLN02946, PLN02946, cysteine-tRNA ligase.
Length = 557
Score = 50.7 bits (121), Expect = 3e-07
Identities = 48/182 (26%), Positives = 80/182 (43%), Gaps = 27/182 (14%)
Query: 12 DSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDN 71
DS + Y++H+G +T+ KMSKSL NF TI+ ++ + LRL L + ++YSD
Sbjct: 305 DSNISYWIHNGFVTVDSEKMSKSLGNFFTIRQVIDLYHPLALRLFLLGTHYRSPINYSDV 364
Query: 72 TMEMA-----VTYEKLLN-EFFLNVKD-HIRNLKFPATTVSSFEKWTQADLELSTRFIQT 124
+E A Y+ L + E L D P T++ K F+
Sbjct: 365 QLESASERIFYIYQTLHDCEESLQQHDSTFEKDSVPPDTLNCINK-------FHDEFV-- 415
Query: 125 KNNVHAALCDNMDTRSALDSIRDCISQVNIYL---RGTPNQLLLRDIGAYVTKI---LTV 178
++ D++ T AL ++ + + +N L +G + L + A KI L+V
Sbjct: 416 -----TSMSDDLHTPVALAALSEPLKTINDLLHTRKGKKQEKRLESLAALEKKIRDVLSV 470
Query: 179 FG 180
G
Sbjct: 471 LG 472
>gnl|CDD|232955 TIGR00395, leuS_arch, leucyl-tRNA synthetase, archaeal and
cytosolic family. The leucyl-tRNA synthetases belong to
two families so broadly different that they are
represented by separate models. This model includes both
archaeal and cytosolic eukaryotic leucyl-tRNA
synthetases; the eubacterial and mitochondrial forms
differ so substantially that some other tRNA ligases
score higher by this model than does any eubacterial
LeuS [Protein synthesis, tRNA aminoacylation].
Length = 938
Score = 49.4 bits (118), Expect = 8e-07
Identities = 33/146 (22%), Positives = 60/146 (41%), Gaps = 12/146 (8%)
Query: 3 FRFQAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHA- 61
F A F W R + +G++ + G KMSKS N +T++ A+ K A RL A
Sbjct: 593 FHHVAIFPEKFWPRGIVVNGYVMLEGKKMSKSKGNVLTLEQAVEKFGADVARLYIADAAE 652
Query: 62 WHQTLDYSDNTMEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSF-EKWTQADLELSTR 120
Q D+ ++ +E + L + ++ + +SF ++W ++ + + +
Sbjct: 653 TVQDADWKESEVEGTI---LRLERLYEFAEEITKESNLETGEETSFIDRWLESRMNAAIK 709
Query: 121 -------FIQTKNNVHAALCDNMDTR 139
QT+ V AL D
Sbjct: 710 ETYEAMENFQTRKAVKYALFDLQADV 735
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 47.3 bits (113), Expect = 4e-06
Identities = 33/111 (29%), Positives = 51/111 (45%), Gaps = 9/111 (8%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHA-WHQTLDYSDNTMEMAVTYEKLLNEF 86
G KMSKS N + ++A+ K+ A +RL + A Q L++S++ +E A + L
Sbjct: 577 GEKMSKSKGNVVDPEEAVEKYGADTVRLYIMFAAPPEQDLEWSESGVEGAR---RFLQRV 633
Query: 87 FLNVKDHIRNLKFPATTVSSFE-KW----TQADLELSTRFIQTKNNVHAAL 132
+ VK+H+ L T E +W T + QT N AAL
Sbjct: 634 WNLVKEHLEKLVEELTKEQGKEDRWLLHRTIKKVTEDFEARQTFNTAIAAL 684
>gnl|CDD|184731 PRK14536, cysS, cysteinyl-tRNA synthetase; Provisional.
Length = 490
Score = 46.5 bits (110), Expect = 6e-06
Identities = 58/246 (23%), Positives = 86/246 (34%), Gaps = 34/246 (13%)
Query: 14 WVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNK-HTARQLRLAFLLHAWHQTLDYSDNT 72
WVRY+LH L + KMSKS F+T+ K R L + L +S
Sbjct: 263 WVRYWLHHEFLLMNKGKMSKSAGQFLTLSSLQEKGFQPLDYRFFLLGGHYRSQLAFSWEA 322
Query: 73 MEMAVTYEKLLNEFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTK-----NN 127
++ A + L V D R ATT S + E ++ +
Sbjct: 323 LKTAKAARRSLVRRVARVVDAAR-----ATTGSVRGTLAECAAERVAESRASESELLLTD 377
Query: 128 VHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGCIGDVKN 187
AAL D+ T AL + Q L++D + L+V + V
Sbjct: 378 FRAALEDDFSTPKALSEL----------------QKLVKDTSVPPSLCLSVLQAMDTVLG 421
Query: 188 IGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIKSTEILNQCDRLRDEVLPNV 247
+G E+T +P E I A + T+ D +RD+ L
Sbjct: 422 LGLI-----QEATASLSAQVPAGPSEEEIGQLIEARAH-ARQTKDFPLADEIRDK-LKAE 474
Query: 248 GVRLED 253
G+ LED
Sbjct: 475 GIELED 480
>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 = 44.9 bits (107), Expect = 2e-05
Identities = 15/45 (33%), Positives = 23/45 (51%)
Query: 14 WVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFL 58
+ + G + + G KMSKS N +T +A+ K+ A RL L
Sbjct: 259 PPKGLIVQGMVLLEGEKMSKSKGNVVTPDEAIKKYGADAARLYIL 303
>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 = 43.9 bits (104), Expect = 4e-05
Identities = 32/144 (22%), Positives = 54/144 (37%), Gaps = 10/144 (6%)
Query: 18 FLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEMAV 77
G+LT+ G KMSKSL N + D L + A LR L D
Sbjct: 315 VFSHGYLTVEGGKMSKSLGNVVDPSDLLARFGADILRYYLLKERPLG----KDGDFSWED 370
Query: 78 TYEKLLNEFFLNVKDHI-RNLKFPAT----TVSSFEKWTQADLELSTRFIQTKNNVHAAL 132
E++ + + + + R L F + S + + D +L + + A+
Sbjct: 371 FVERVNADLANKLGNLLNRTLGFIKKYFNGVLPSEDITDEEDKKLLKLINEALEQIDEAI 430
Query: 133 CDNMDTRSALDSIRDCISQVNIYL 156
++ + R AL I + N Y+
Sbjct: 431 -ESFEFRKALREIMKLADRGNKYI 453
>gnl|CDD|215518 PLN02959, PLN02959, aminoacyl-tRNA ligase.
Length = 1084
Score = 43.9 bits (104), Expect = 6e-05
Identities = 19/50 (38%), Positives = 29/50 (58%)
Query: 7 AYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLA 56
A + + W R F +GHL + KMSKS NF+T++ A+ + +A R A
Sbjct: 695 AIWAEEHWPRGFRCNGHLMLNSEKMSKSTGNFLTLRQAIEEFSADATRFA 744
>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 = 40.6 bits (96), Expect = 4e-04
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 15 VRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFL 58
+ G+LT+ G KMSKS N + D L ++ A LR L
Sbjct: 265 PTRIVAHGYLTVEGKKMSKSRGNVVDPDDLLERYGADALRYYLL 308
>gnl|CDD|237029 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed.
Length = 556
Score = 41.0 bits (97), Expect = 4e-04
Identities = 38/147 (25%), Positives = 57/147 (38%), Gaps = 23/147 (15%)
Query: 21 SGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEMAVT-- 78
S +LT+ G K SKS I + DAL ++ LR +L + D +D T E V
Sbjct: 325 SEYLTLEGGKFSKSRGWGIWVDDALERYPPDYLRY-YLAANAPENSD-TDFTWEEFVRRV 382
Query: 79 -YEKLLNEF--FLNVKDHIRNLKFPATTVSSFE------KWTQADLELSTRFIQTKNNVH 129
E L +++ +N R L F F + D EL V
Sbjct: 383 NSE-LADKYGNLVN-----RVLSF---IEKYFGGIVPPGELGDEDRELIAEAEALFKEV- 432
Query: 130 AALCDNMDTRSALDSIRDCISQVNIYL 156
L + + + AL+ I + + N YL
Sbjct: 433 GELLEAGEFKKALEEIMELAREANKYL 459
>gnl|CDD|223138 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 40.7 bits (96), Expect = 5e-04
Identities = 36/135 (26%), Positives = 58/135 (42%), Gaps = 10/135 (7%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTME-MAVTYEKLLN-- 84
G KMSKSL N + QD ++K+ A LRL + + L +SD ++ + Y K+ N
Sbjct: 600 GRKMSKSLGNVVDPQDVIDKYGADILRLWVASSDYWEDLRFSDEILKQVREVYRKIRNTY 659
Query: 85 EFFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAALCDNMDTRSALDS 144
F L D P E+ + D + +R V A +N D + +
Sbjct: 660 RFLLGNLDDFD----PKKDAVLPEELRELDRWILSRLNSLVKEVREAY-ENYDFHKVVRA 714
Query: 145 IRDCISQV--NIYLR 157
+ + +S+ N YL
Sbjct: 715 LMNFVSEDLSNWYLD 729
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family
includes methionyl tRNA synthetases.
Length = 388
Score = 39.5 bits (93), Expect = 0.001
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 21 SGHLTIAGCKMSKSLKNFITIQDALNKHTARQLR 54
G LT+ G KMSKS N + + L+++ LR
Sbjct: 315 HGWLTVEGGKMSKSRGNVVDPDELLDRYGVDALR 348
>gnl|CDD|215739 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 = 37.7 bits (88), Expect = 0.005
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 9 FNNDSWVRYFLHSGHLTIA-GCKMSKSLKNFITIQDALNKHTARQLRLAFLL 59
+ + L G + G KMSKSL N I D ++K+ A LRL
Sbjct: 545 LTGSAPYKNVLVHGLVRDEQGRKMSKSLGNVIDPLDVIDKYGADALRLWLAS 596
>gnl|CDD|232953 TIGR00392, ileS, isoleucyl-tRNA synthetase. The isoleucyl tRNA
synthetase (IleS) is a class I amino acyl-tRNA ligase
and is particularly closely related to the valyl tRNA
synthetase. This model may recognize IleS from every
species, including eukaryotic cytosolic and
mitochondrial forms [Protein synthesis, tRNA
aminoacylation].
Length = 861
Score = 37.4 bits (87), Expect = 0.006
Identities = 22/66 (33%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEMAV-TYEKLLNE- 85
G KMSKSL N + +NK+ A LRL + L +SD ++ V Y K+
Sbjct: 609 GRKMSKSLGNVVDPLKVINKYGADILRLYVASSDPWEDLRFSDEILKQVVEKYRKIRWNT 668
Query: 86 --FFLN 89
F L
Sbjct: 669 YRFLLT 674
>gnl|CDD|237012 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed.
Length = 511
Score = 37.2 bits (87), Expect = 0.007
Identities = 38/148 (25%), Positives = 61/148 (41%), Gaps = 15/148 (10%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHA--WHQTLDYSDNTM 73
R F H G LT+ G KMSKSL N I D ++++ +R FLL + Q D+S
Sbjct: 286 RVFAH-GFLTLDGEKMSKSLGNVIDPFDLVDEYGVDAVRY-FLLREIPFGQDGDFSREAF 343
Query: 74 EMAVTYEKLLNEFFLNVKDHIRNL--KFPATTVSSFEKWTQADLELSTRFIQTKNNVHAA 131
+ + L N+ ++ K V T+AD L ++ +
Sbjct: 344 INRINAD--LANDLGNLAQRTLSMIAKNFDGKVPEPGALTEADEAL----LEAAAALLER 397
Query: 132 LCDNMDTRS---ALDSIRDCISQVNIYL 156
+ MD + AL++I + N Y+
Sbjct: 398 VRAAMDNLAFDKALEAILALVRAANKYI 425
>gnl|CDD|153411 cd07957, Anticodon_Ia_Met, Anticodon-binding domain of methionyl
tRNA synthetases. This domain is found in methionyl
tRNA synthetases (MetRS), 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 (CAU). MetRS catalyzes the
transfer of methionine to the 3'-end of its tRNA.
Length = 129
Score = 35.2 bits (82), Expect = 0.008
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 104 VSSFEKWTQADLELSTRFIQTKNNVHAALCDNMDTRSALDSIRDCISQVNIYL 156
V F T+ D EL + V A+ + ++ R AL+ I + N Y+
Sbjct: 28 VPEFGGLTEEDEELLEEAEELLEEVAEAM-EELEFRKALEEIMELARAANKYI 79
>gnl|CDD|223599 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 36.8 bits (86), Expect = 0.010
Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 4/92 (4%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAF-LLHAWHQTLDYSDNTMEMAVTY-EKLLN- 84
G KMSKS N I D ++K+ A LR L + + +++ + +E + KL N
Sbjct: 523 GRKMSKSKGNVIDPLDVIDKYGADALRFTLASLASPGRDINFDEKRVEGYRNFLNKLWNA 582
Query: 85 -EFFLNVKDHIRNLKFPATTVSSFEKWTQADL 115
F L D + +S ++W + L
Sbjct: 583 TRFVLMNLDDLGPDDLDLLALSLADRWILSRL 614
>gnl|CDD|237514 PRK13804, ileS, isoleucyl-tRNA synthetase; Provisional.
Length = 961
Score = 36.5 bits (85), Expect = 0.011
Identities = 32/117 (27%), Positives = 46/117 (39%), Gaps = 27/117 (23%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSD----------NTMEMAV 77
G KMSKSL N ++ QD + + A LRL W ++DYSD E
Sbjct: 628 GEKMSKSLGNTVSPQDVIKQSGADILRL------WVASVDYSDDQRIGKEILKQVSE--- 678
Query: 78 TYEKLLNEF-FL--NVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAA 131
TY KL N +L N+ P V ++ + + + R + V A
Sbjct: 679 TYRKLRNTLRWLLGNLAHF-----DPGEDVVAYADLPELERYMLHRLNELDGLVREA 730
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 35.2 bits (82), Expect = 0.027
Identities = 35/147 (23%), Positives = 59/147 (40%), Gaps = 19/147 (12%)
Query: 18 FLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEMAV 77
F H G + KMSKS N + ++ ++++ LR +LL D D + E V
Sbjct: 288 FAH-GWWLMKDGKMSKSKGNVVDPEELVDRYGLDALRY-YLLREVPFGSD-GDFSPEALV 344
Query: 78 T---YEKLLNEF--FLNVKDHIRNL----KFPATTVSSFEKWTQADLELSTRFIQTKNNV 128
+ L N+ LN R + K+ + + T+ D EL +T N
Sbjct: 345 ERINSD-LANDLGNLLN-----RTVAMINKYFDGEIPAPGNVTEFDEELIALAEETLKNY 398
Query: 129 HAALCDNMDTRSALDSIRDCISQVNIY 155
+ + + AL+ + IS+ N Y
Sbjct: 399 EELM-EELQFSRALEEVWKLISRANKY 424
>gnl|CDD|173000 PRK14534, cysS, cysteinyl-tRNA synthetase; Provisional.
Length = 481
Score = 34.4 bits (79), Expect = 0.043
Identities = 21/63 (33%), Positives = 26/63 (41%), Gaps = 14/63 (22%)
Query: 9 FNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQD--------------ALNKHTARQLR 54
+ N W F+H L + KMSKS NFITI+D L H QL+
Sbjct: 258 YLNKKWCDMFVHGEFLIMEYEKMSKSNNNFITIKDLEDQGFSPLDFRYFCLTAHYRTQLK 317
Query: 55 LAF 57
F
Sbjct: 318 FTF 320
>gnl|CDD|132488 TIGR03447, mycothiol_MshC, cysteine--1-D-myo-inosityl
2-amino-2-deoxy-alpha-D-glucopyranoside ligase. Members
of this protein family are MshC,
l-cysteine:1-D-myo-inosityl
2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an
enzyme that uses ATP to ligate a Cys residue to a
mycothiol precursor molecule, in the second to last step
in mycothiol biosynthesis. This enzyme shows
considerable homology to Cys--tRNA ligases, and many
instances are misannotated as such. Mycothiol is found
in Mycobacterium tuberculosis, Corynebacterium
glutamicum, Streptomyces coelicolor, and various other
members of the Actinobacteria. Mycothiol is an analog to
glutathione [Biosynthesis of cofactors, prosthetic
groups, and carriers, Glutathione and analogs].
Length = 411
Score = 34.3 bits (79), Expect = 0.045
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNK--HTARQLRLAFLLHAWHQTLDYSDNTM 73
R+++H+G + + G KMSKSL N + + L +RL L + Q D++D +
Sbjct: 274 RHYVHAGMIGLDGEKMSKSLGNLVFVSK-LRAAGVDPAAIRLGLLAGHYRQDRDWTDAVL 332
Query: 74 EMA 76
A
Sbjct: 333 AEA 335
>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 = 34.5 bits (80), Expect = 0.046
Identities = 14/34 (41%), Positives = 17/34 (50%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHA 61
G KMSKSL N I D ++ + A LR A
Sbjct: 341 GRKMSKSLGNVIDPLDVIDGYGADALRFTLASAA 374
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 34.4 bits (80), Expect = 0.051
Identities = 34/143 (23%), Positives = 46/143 (32%), Gaps = 17/143 (11%)
Query: 21 SGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTME--MAVT 78
G LT+ G KMSKS FI + L+ LR D D E
Sbjct: 320 HGFLTVEGAKMSKSRGTFIWARTYLDHLDPDYLRYYLAAKLPETIDD-LDFNWEDFQQRV 378
Query: 79 YEKLLNEF--FLNVKDHIRNLKFPATTVSSFE---KWTQADLELSTRFIQTKNNVHAALC 133
+L+ + F + R F F+ AD EL F + A
Sbjct: 379 NSELVGKVVNFAS-----RTAGF---INKRFDGKLPDALADPELLEEFEAAAEKIAEAY- 429
Query: 134 DNMDTRSALDSIRDCISQVNIYL 156
+ + R AL I N Y+
Sbjct: 430 EAREFRKALREIMALADFANKYV 452
>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 = 33.0 bits (76), Expect = 0.12
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRL 55
G KMSKSL N++ Q+ ++K+ A LRL
Sbjct: 297 GRKMSKSLGNYVDPQEVVDKYGADALRL 324
>gnl|CDD|235681 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 975
Score = 33.2 bits (77), Expect = 0.14
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFL 58
G KMSKSL N++ + +K+ A LR L
Sbjct: 590 GQKMSKSLGNYVDPFEVFDKYGADALRWYLL 620
>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 = 32.4 bits (74), Expect = 0.18
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFL 58
G KMSKS N I D + K+ A LR
Sbjct: 271 GQKMSKSKGNVIDPSDVVEKYGADALRYYLT 301
>gnl|CDD|215477 PLN02882, PLN02882, aminoacyl-tRNA ligase.
Length = 1159
Score = 32.8 bits (75), Expect = 0.19
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRL 55
G KMSKSLKN+ + ++K+ A LRL
Sbjct: 612 GKKMSKSLKNYPDPNEVIDKYGADALRL 639
>gnl|CDD|235588 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 32.8 bits (76), Expect = 0.19
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 9/50 (18%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTMEMAV 77
G KMSKSL N I QD + K+ A LRL W + DYS ++ +
Sbjct: 590 GRKMSKSLGNVIDPQDVIKKYGADILRL------WVASTDYSG---DVRI 630
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 32.4 bits (75), Expect = 0.25
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 30 KMSKSLKNFITIQDALNKHTARQLRLAFLLHA--WHQTLDYSDN 71
KMSKS N + D + K+ A RL F + A + L++SD+
Sbjct: 570 KMSKSKGNVVDPDDIIEKYGADTARL-FEMFAGPPEKDLEWSDS 612
>gnl|CDD|183518 PRK12418, PRK12418, cysteinyl-tRNA synthetase; Provisional.
Length = 384
Score = 31.4 bits (72), Expect = 0.39
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 16 RYFLHSGHLTIAGCKMSKSLKNFITIQDALNK--HTARQLRLAFLLHAWHQTLDYSDNTM 73
R+++H+G + + G KMSKS N + + L +RLA L + +++D +
Sbjct: 247 RHYVHAGMIGLDGEKMSKSRGNLVFVS-RLRAAGVDPAAIRLALLAGHYRADREWTDAVL 305
Query: 74 EMAVT 78
A
Sbjct: 306 AEAEA 310
>gnl|CDD|226532 COG4046, COG4046, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 368
Score = 30.9 bits (70), Expect = 0.58
Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 14/69 (20%)
Query: 188 IGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIK--STEILNQCDRLRDEVLP 245
+G +G GVE +E + + Y I +A +IK E + Q + +++
Sbjct: 285 VGVAMGDPGVEKIFIERIAVKY---------GIPLDAVIIKMSPEEAITQ---MPEDIYG 332
Query: 246 NVGVRLEDI 254
V LE +
Sbjct: 333 AVEKALERV 341
>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 = 31.3 bits (71), Expect = 0.62
Identities = 32/151 (21%), Positives = 61/151 (40%), Gaps = 16/151 (10%)
Query: 30 KMSKSLKNFITIQDALNKHTARQLRLAFLLHA--WHQTLDYSDNTMEMAVTYEKLLNEFF 87
KMSKS N I Q+ + + A LRL F++ +L+++++ +E A + L+ +
Sbjct: 605 KMSKSKGNGIDPQEIVESYGADALRL-FIMFMGPIAASLEWNESGLEGA---RRFLDRVW 660
Query: 88 LNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAALCDNMDTRSALDSIRD 147
V + L + TV++ E+ + + +VH L + +S
Sbjct: 661 NLVYEITGELDAASLTVTALEEAQKE----------LRRDVHKFLKKVTEDLEKRESFNT 710
Query: 148 CISQVNIYLRGTPNQLLLRDIGAYVTKILTV 178
IS + L + Y+ +TV
Sbjct: 711 AISAMMELLNKLYKAKKEALMLEYLKGFVTV 741
>gnl|CDD|232969 TIGR00422, valS, valyl-tRNA synthetase. The valyl-tRNA synthetase
(ValS) is a class I amino acyl-tRNA ligase and is
particularly closely related to the isoleucyl tRNA
synthetase [Protein synthesis, tRNA aminoacylation].
Length = 861
Score = 30.8 bits (70), Expect = 0.79
Identities = 29/107 (27%), Positives = 45/107 (42%), Gaps = 6/107 (5%)
Query: 28 GCKMSKSLKNFITIQDALNKHTARQLRLAFL--LHAWHQTLDYSDNTMEMAVTYEKLLNE 85
G KMSKSL N I D + K+ A LR L L +++ +E + LN+
Sbjct: 523 GRKMSKSLGNVIDPLDVIEKYGADALRF-TLASLVTPGDDINFDWKRVE---SARNFLNK 578
Query: 86 FFLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAAL 132
+ + + NL EK + AD + ++ +T V AL
Sbjct: 579 LWNASRFVLMNLSDDLELSGGEEKLSLADRWILSKLNRTIKEVRKAL 625
>gnl|CDD|215452 PLN02843, PLN02843, isoleucyl-tRNA synthetase.
Length = 974
Score = 30.1 bits (68), Expect = 1.1
Identities = 29/108 (26%), Positives = 45/108 (41%), Gaps = 25/108 (23%)
Query: 28 GCKMSKSLKNFI----TIQDALNKHT-----ARQLRLAFLLHAWHQTLDYSDNTM----- 73
G KMSKSL N + I+ N+ A LRL W ++DY+ + +
Sbjct: 609 GFKMSKSLGNVVDPRLVIEGGKNQKQEPAYGADVLRL------WVASVDYTGDVLIGPQI 662
Query: 74 --EMAVTYEKLLN--EFFL-NVKDHIRNLKFPATTVSSFEKWTQADLE 116
+M+ Y KL + L N+ D + P + S +K+ LE
Sbjct: 663 LKQMSDIYRKLRGTLRYLLGNLHDWKPDNAVPYEDLPSIDKYALFQLE 710
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 29.4 bits (67), Expect = 2.4
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 30 KMSKSLKNFITIQDALNKHTARQLRL 55
KMSKS N +T ++ L K+ A +R
Sbjct: 533 KMSKSKGNVVTPEELLEKYGADAVRY 558
>gnl|CDD|116052 pfam07431, DUF1512, Protein of unknown function (DUF1512). This
family consists of several archaeal proteins of around
370 residues in length. The function of this family is
unknown.
Length = 356
Score = 28.9 bits (65), Expect = 2.8
Identities = 15/92 (16%), Positives = 34/92 (36%), Gaps = 13/92 (14%)
Query: 164 LLRDIGAYVTKILTV----------FGCIGDVKNIGFPLGGTGVESTNLEELVLPYLTIL 213
++ + V++I+TV G + + +G +G G E +E + + Y L
Sbjct: 241 VVERLDGKVSRIITVDAALKLEGEKTGAVAE--GVGVAMGDPGPEKIFIERIAVKYGIPL 298
Query: 214 SEFRDNIR-TEARLIKSTEILNQCDRLRDEVL 244
+ EA ++ ++ + V
Sbjct: 299 DAVIIKMSMEEAITEMPKDVYGAVEKALERVK 330
>gnl|CDD|221937 pfam13148, DUF3987, Protein of unknown function (DUF3987). A
family of uncharacterized proteins found by clustering
human gut metagenomic sequences.
Length = 379
Score = 28.8 bits (65), Expect = 3.2
Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 4/61 (6%)
Query: 30 KMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDY---SDNTMEMAVTYEK-LLNE 85
++ ++D +K R+A LLH + S ME A+T + LLN
Sbjct: 308 ELRGPGGELADMRDFASKLAENAARIAALLHLFEALGGEGEISAEDMEAAITLAEYLLNH 367
Query: 86 F 86
Sbjct: 368 A 368
>gnl|CDD|235290 PRK04351, PRK04351, hypothetical protein; Provisional.
Length = 149
Score = 27.9 bits (63), Expect = 3.7
Identities = 11/29 (37%), Positives = 13/29 (44%), Gaps = 3/29 (10%)
Query: 1 MSFRFQAYFNN---DSWVRYFLHSGHLTI 26
FR QAYFN + RY L H+
Sbjct: 20 KPFRHQAYFNKRLRTTGGRYLLKDHHIEF 48
>gnl|CDD|218099 pfam04465, DUF499, Protein of unknown function (DUF499). Family of
uncharacterized hypothetical prokaryotic proteins.
Length = 1025
Score = 28.7 bits (64), Expect = 4.4
Identities = 12/66 (18%), Positives = 26/66 (39%), Gaps = 7/66 (10%)
Query: 197 VESTNLEELVLPYLTILSEFRDNI-------RTEARLIKSTEILNQCDRLRDEVLPNVGV 249
V LE+L+ + + +R+ + L++ T C+ + DE+ G
Sbjct: 505 VSEDELEKLIFKFGSGERTYRNTVVVVYPAVGGMDSLLEITARYMACEEVMDEIKEAYGK 564
Query: 250 RLEDIE 255
+D+
Sbjct: 565 YGKDVV 570
>gnl|CDD|234829 PRK00750, lysK, lysyl-tRNA synthetase; Reviewed.
Length = 510
Score = 27.9 bits (63), Expect = 5.8
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 30 KMSKSLKNFITIQDAL 45
K+SKS N ITI+D L
Sbjct: 280 KISKSKGNVITIEDWL 295
>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 = 27.7 bits (62), Expect = 6.9
Identities = 17/83 (20%), Positives = 25/83 (30%), Gaps = 11/83 (13%)
Query: 30 KMSKSLKNFITIQDALNKHTARQLRLAFLLH---AWHQTLDYS--DNTMEMAVTYEKLLN 84
KMS S N IT D L LR + H D E Y++L
Sbjct: 275 KMSSSKGNVITPSDWLEVAPPEVLRYLYARRKNPEKHIGFDLDILRLYDE----YDRLER 330
Query: 85 EFFLN--VKDHIRNLKFPATTVS 105
+++ + +S
Sbjct: 331 KYYGVEDAAEKEERELKRIYELS 353
>gnl|CDD|199207 cd08963, L-asparaginase_I, Type I (cytosolic) bacterial
L-asparaginase. Asparaginases (amidohydrolases, E.C.
3.5.1.1) are enzymes that catalyze the hydrolysis of
asparagine to aspartic acid and ammonia. In bacteria,
there are two classes of amidohydrolases. This model
represents type I L-asparaginases, which are highly
specific for asparagine and localized in the cytosol.
Type I L-asparaginase acts as a dimer. A conserved
threonine residue is thought to supply the nucleophile
hydroxy-group that attacks the amide bond. Many
bacterial L-asparaginases have both L-asparagine and
L-glutamine hydrolysis activities, to a different
degree, and some of them are annotated as
asparaginase/glutaminase. One example of an enzyme with
no L-glutaminase activity is the type I L-asparaginase
from Wolinella succinogenes.
Length = 316
Score = 27.2 bits (61), Expect = 9.2
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 193 GGTGVESTNLEELVLPYLTILSEFRDNIRTEARLIKSTEI 232
G + EEL L YL L E + I S+ +
Sbjct: 18 EGGLAPALTAEEL-LSYLPELLEDCFIEVEQLPNIDSSNM 56
>gnl|CDD|223238 COG0160, GabT, 4-aminobutyrate aminotransferase and related
aminotransferases [Amino acid transport and metabolism].
Length = 447
Score = 27.2 bits (61), Expect = 9.9
Identities = 17/64 (26%), Positives = 22/64 (34%), Gaps = 15/64 (23%)
Query: 168 IGAYVTKILT----VFGCIGDVKNIGFPLGGTGVESTNLEELVLPYLTIL--SEFRDNIR 221
+G Y+ L IGDV+ +G GV ELV T +E I
Sbjct: 349 LGEYLRDRLEELQEKHPLIGDVRGLGL---MIGV------ELVKDRDTKEPDAELAAKIV 399
Query: 222 TEAR 225
A
Sbjct: 400 ARAF 403
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
0.323 0.137 0.405
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,843,854
Number of extensions: 1192477
Number of successful extensions: 1060
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1051
Number of HSP's successfully gapped: 65
Length of query: 255
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 160
Effective length of database: 6,723,972
Effective search space: 1075835520
Effective search space used: 1075835520
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.1 bits)