RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 010356
(512 letters)
>gnl|CDD|215160 PLN02286, PLN02286, arginine-tRNA ligase.
Length = 576
Score = 1033 bits (2674), Expect = 0.0
Identities = 411/506 (81%), Positives = 450/506 (88%), Gaps = 2/506 (0%)
Query: 6 SNNAMGLWSKIKGKGTEFKGPQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVLSKNWMAK 65
NNAMGLWSK+KGKGT FK P+ V QAI+KNLP SEMIES SVAGPGFVNV LS +W+AK
Sbjct: 38 CNNAMGLWSKLKGKGTSFKNPRAVAQAIVKNLPASEMIESTSVAGPGFVNVRLSASWLAK 97
Query: 66 NIQKMLVDGIETWAPKLRVKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEV 125
I++MLVDGI+TWAP L VK+AVVDFSSPNIAKEMHVGHLRSTIIGD+LARMLEFS VEV
Sbjct: 98 RIERMLVDGIDTWAPTLPVKRAVVDFSSPNIAKEMHVGHLRSTIIGDTLARMLEFSGVEV 157
Query: 126 LRRNHVGDWGTQFGMLIEYLFEKFPNSEDANETAIGELQEFYRRSKNRFDSDPAFKERAQ 185
LRRNHVGDWGTQFGMLIE+LFEKFPN E ++ AIG+LQEFY+ +K RFD D FK RAQ
Sbjct: 158 LRRNHVGDWGTQFGMLIEHLFEKFPNWESVSDQAIGDLQEFYKAAKKRFDEDEEFKARAQ 217
Query: 186 QAVVRLQSGEPKYHEAWAQICEISRKEFDKVYKRLRVDLEEKGESFYNPYIPGVIDELSK 245
QAVVRLQ G+P+Y AWA+ICEISR+EF+KVY+RLRV+LEEKGESFYNPYIPGVI+EL
Sbjct: 218 QAVVRLQGGDPEYRAAWAKICEISRREFEKVYQRLRVELEEKGESFYNPYIPGVIEELES 277
Query: 246 QGLVEESQGARVIFIEGVNIPLIIVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVG 305
+GLV ES GARVIF+EG +IPLI+VKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVG
Sbjct: 278 KGLVVESDGARVIFVEGFDIPLIVVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVG 337
Query: 306 QQLHFDMVFSAAKRAGWLSADDSTYPKASHVGFGLVLGEDGKRLRTRFSEVVRLVDLLDE 365
QQ HFDMVF AAKRAGWL + TYP+ HVGFGLVLGEDGKR RTR EVVRLVDLLDE
Sbjct: 338 QQQHFDMVFKAAKRAGWL--PEDTYPRLEHVGFGLVLGEDGKRFRTRSGEVVRLVDLLDE 395
Query: 366 AKNRSKAVLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSFDQMLNDKG 425
AK+RSKA LIERGKD EWT EELEQ AEAVGYGA KY DLKNNRLTNYTFSFDQML+ KG
Sbjct: 396 AKSRSKAALIERGKDSEWTPEELEQAAEAVGYGAVKYADLKNNRLTNYTFSFDQMLDLKG 455
Query: 426 NTAVYLLYAHARICSIIRKSGKDIEELKKTGSLVLDHADERALGLHLLHFSEVIEEALTN 485
NTAVYLLYAHARICSIIRKSGKDI+ELKKTG +VLDH DERALGLHLL F EV+EEA T+
Sbjct: 456 NTAVYLLYAHARICSIIRKSGKDIDELKKTGKIVLDHPDERALGLHLLQFPEVVEEACTD 515
Query: 486 LLPNVVCEYLYNLSEYFTRFYSNCQV 511
LLPN +CEYLYNLSE FT+FYSNC+V
Sbjct: 516 LLPNRLCEYLYNLSEKFTKFYSNCKV 541
>gnl|CDD|223097 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 437 bits (1125), Expect = e-148
Identities = 182/517 (35%), Positives = 280/517 (54%), Gaps = 30/517 (5%)
Query: 6 SNNAMGLWSKIKGKGTEFKGPQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVLSKNWMAK 65
+N A L +K GK P+ + + I + L E+IE +AGPGF+N LS ++A+
Sbjct: 42 TNIAFQL-AKKLGKN-----PREIAEEIAEKLDTDEIIEKVEIAGPGFINFFLSPEFLAE 95
Query: 66 NIQKMLVDGIETW--APKLRVKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNV 123
+ ++L G + + + + KK V+++SS N +H+GHLR+ IIGDSLAR+LEF
Sbjct: 96 LLLEILEKGDDRYGRSKLGKGKKVVIEYSSANPTGPLHIGHLRNAIIGDSLARILEFLGY 155
Query: 124 EVLRRNHVGDWGTQFGMLIEYLFEKFPNSEDANETAIGELQEFYRRSKNRFDSDPAF-KE 182
+V R N+V DWGTQ GML ++ + G L E+Y + + DP +E
Sbjct: 156 DVTRENYVNDWGTQIGMLALSYEKRGREALGLTPEPDGYLGEYYVKIAKDLEEDPGNDEE 215
Query: 183 RAQQAVVRLQSGEPKYHEAWAQICEISRKEFDKVYKRLRVDLEEK---GESFYNPYIPGV 239
A++ V +L+SG+ + E W + ++S + + RL V + GESFYN + V
Sbjct: 216 EAREEVEKLESGDEEA-ELWRKFVDLSLEGIKETLDRLGVKFDVYDSEGESFYNGKVEKV 274
Query: 240 IDELSKQGLVEESQGARVIFIE-----GVNIPLIIVKSDGGFNYASTDLAALWYRLNEEK 294
+++L ++GL+ E GA V+ + G + ++ KSDG + Y + D+A Y+ E
Sbjct: 275 VEDLEEKGLLYEDDGALVVDLLKFKKFGDDKDRVLQKSDGTYLYFTRDIAYHLYKF-ERG 333
Query: 295 AEWIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKASHVGFGLVLGEDGKRLRTRFS 354
+ +IYV Q HF + + + G+ + H G GLV G +G ++ TR
Sbjct: 334 FDKLIYVLGADQHGHFKQLKAVLELLGYGPDKEVLL----HQGVGLVRGGEGVKMSTRAG 389
Query: 355 EVVRLVDLLDEAKNRSKAVLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYT 414
VV L DLLDEA R+ + E+ + E + AE VG A +Y DL +R +Y
Sbjct: 390 NVVTLDDLLDEAGERAPEEMEEKEEKNE-------EIAEVVGIDAVRYADLSRSRDKDYV 442
Query: 415 FSFDQMLNDKGNTAVYLLYAHARICSIIRKSGKDIEELKKTGSLVLDHADERALGLHLLH 474
F +D+ L+ +GNTA Y+ YAHARICSI+RK+G+D +L +L +ER L LL
Sbjct: 443 FDWDKALSFEGNTAPYVQYAHARICSILRKAGEDELDLSTEADALLTELEERELVKKLLE 502
Query: 475 FSEVIEEALTNLLPNVVCEYLYNLSEYFTRFYSNCQV 511
F EV+EEA L P+ + YLY+L+ F FY+ C V
Sbjct: 503 FPEVLEEAAEELEPHRLANYLYDLAGSFNSFYNACPV 539
>gnl|CDD|234964 PRK01611, argS, arginyl-tRNA synthetase; Reviewed.
Length = 507
Score = 412 bits (1061), Expect = e-140
Identities = 157/512 (30%), Positives = 235/512 (45%), Gaps = 94/512 (18%)
Query: 6 SNNAMGLWSKIKGKGTEFKGPQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVLSKNWMAK 65
+N AM L +K K P+ + + I++ IE +AGPGF+N L +A+
Sbjct: 43 TNVAMQL-AKKLKKN-----PREIAEEIVEA------IEKVEIAGPGFINFFLDPAALAE 90
Query: 66 NIQKMLVDGIETW--APKLRVKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNV 123
+ +L G E + + + KK VV++ S N +HVGHLRS +IGD+LAR+LEF+
Sbjct: 91 LVLAILEAG-ERYGRSDIGKGKKVVVEYVSANPTGPLHVGHLRSAVIGDALARILEFAGY 149
Query: 124 EVLRRNHVGDWGTQFGMLIEYLFEKFPNSEDANETAIGELQEFYRRSKNRFDSDPAFKER 183
+V R +V D GTQ GMLI L
Sbjct: 150 DVTREYYVNDAGTQIGMLIASLE------------------------------------- 172
Query: 184 AQQAVVRLQSGEPKYHEAWAQICEISRKEFDKVYKRLRVDLEE---KGESFYNPYIPGVI 240
W + +IS E + RL V + + E +YN + V+
Sbjct: 173 ----------------LLWRKAVDISLDEIKEDLDRLGVHFDVWFSESELYYNGKVDEVV 216
Query: 241 DELSKQGL-VEESQGARVIFIE--GVNIPLIIVKSDGGFNYASTDLAALWYRLNEEKAEW 297
++L ++GL ES GA + + G + +++KSDG + Y + D+A Y+ E+ +
Sbjct: 217 EDLKEKGLLYVESDGALWVRLTEFGDDKDRVLIKSDGTYTYFTRDIAYHLYKF--ERFDR 274
Query: 298 IIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKASHVGFGLVLGEDGKRLRTRFSEVV 357
+IYV HF + +A K G+ H GLV G +G ++ TR VV
Sbjct: 275 VIYVVGADHHGHFKRLKAALKALGYDPDALE---VLLHQMVGLVRGGEGVKMSTRAGNVV 331
Query: 358 RLVDLLDEAKNRSKAVLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSF 417
L DLLDEA R++ ++ E+ + AEAVG A +YFDL +R + F
Sbjct: 332 TLDDLLDEAVGRARELIEEK------------EIAEAVGIDAVRYFDLSRSRDKDLDFDL 379
Query: 418 DQMLNDKGNTAVYLLYAHARICSIIRKSGKDIEELKKTGSLVLDHADERALGLHLLHFSE 477
D L+ +GN Y+ YAHARICSI+RK+ E +L +E+ L L F E
Sbjct: 380 DLALSFEGNNPPYVQYAHARICSILRKAA---EAGIDLLLALLTEEEEKELIKKLAEFPE 436
Query: 478 VIEEALTNLLPNVVCEYLYNLSEYFTRFYSNC 509
V+E A L P+ + YLY L+ F FY+
Sbjct: 437 VVESAAEELEPHRIANYLYELAGAFHSFYNRV 468
>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 = 377 bits (971), Expect = e-125
Identities = 173/497 (34%), Positives = 263/497 (52%), Gaps = 28/497 (5%)
Query: 24 KGPQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVLSKNWMAKNIQKMLVDGIETWAP-KL 82
K P+ + + I+ L E+IE AGP F+N LS + + + + ++ E + KL
Sbjct: 51 KNPRAIAEEIVLKLKTGEIIEKVEAAGP-FINFFLSPQKLLERLIQKILTQKEDYGSKKL 109
Query: 83 RVKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLI 142
+ KK +++FSS N A +H+GHLR+ IIGDSLAR+LEF +V+R +V DWG QFG+L
Sbjct: 110 KNKKIIIEFSSANPAGPLHIGHLRNAIIGDSLARILEFLGYDVIREYYVNDWGRQFGLLA 169
Query: 143 EYLFEKFPNSEDANETA--IGELQEFYRRSKNRFDSDPAFKERAQQAVVRLQSGEPKYHE 200
EKF N + L+ FY R + + +E A++ V+L+SG+ + +
Sbjct: 170 LG-VEKFGNEKLNEAVKKPDHGLEGFYVEINKRLEENEELEEEARELFVKLESGDEEAIK 228
Query: 201 AWAQICEISRKEFDKVYKRLRVDLEEK---GESFYNPYIPGVIDELSKQGLVEESQGARV 257
W ++ E S + + RL + + GES N +P V+++L ++GLV E GA
Sbjct: 229 LWKRLVEYSLEGIKETLARLNIHFDSFVWEGESVKNGMVPKVLEDLKEKGLVVED-GALW 287
Query: 258 IFIEGVNI---PLIIVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVF 314
+ + ++ KSDG + Y + D+A +L E + +IYV LH F
Sbjct: 288 LDLTLFGDKDKDRVLQKSDGTYLYLTRDIAYHLDKL-ERGFDKMIYVWGSDHHLHIAQFF 346
Query: 315 SAAKRAGWLSADDSTYPKASHVGFGLVLGEDGKRLRTRFSEVVRLVDLLDEAKNRSKAVL 374
+ ++ G+ + H+ FG+V K R + L +LLDEA R+ V+
Sbjct: 347 AILEKLGFYKK-----KELIHLNFGMVPLGSMKTRRGNV---ISLDNLLDEASKRAGNVI 398
Query: 375 IERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSFDQMLNDKGNTAVYLLYA 434
+ + E E A+AVG GA +YFDL NR T+Y F +D ML+ +GNTA Y+ YA
Sbjct: 399 TIK------NDLEEEDVADAVGIGAVRYFDLSQNRETHYVFDWDAMLSFEGNTAPYIQYA 452
Query: 435 HARICSIIRKSGKDIEELKKTGSLVLDHADERALGLHLLHFSEVIEEALTNLLPNVVCEY 494
HARICSI+RK+ D E+L +L E+ L LL F +V+EEA L P+V+ Y
Sbjct: 453 HARICSILRKADIDGEKLIADDFSLL-EEKEKELLKLLLQFPDVLEEAAEELEPHVLTNY 511
Query: 495 LYNLSEYFTRFYSNCQV 511
LY L+ F+ FY C V
Sbjct: 512 LYELASLFSSFYKACPV 528
>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 = 322 bits (826), Expect = e-107
Identities = 143/336 (42%), Positives = 197/336 (58%), Gaps = 12/336 (3%)
Query: 85 KKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIEY 144
KK VV+FSSPN AK +HVGHLRSTIIGD+L+R+LEF +V+R N+VGDWGTQFGMLI
Sbjct: 19 KKVVVEFSSPNPAKPIHVGHLRSTIIGDALSRLLEFLGYDVVRENYVGDWGTQFGMLIAS 78
Query: 145 LFEKFPNSEDANETAIGELQEFYRRSKNRFDSDPAFKERAQQAVVRLQSGEPKYHEAWAQ 204
L E I +L++ YR K + ++ F + A+ AVV LQSG+ ++ E W
Sbjct: 79 LEAAAKE-ELTVPMPIQDLEDGYRGIKKDYIAEEIFAKEARNAVVLLQSGDEEFREMWVL 137
Query: 205 -ICEISRKEFDKVYKRLRVDLEEKGESFYNPYIPGVIDELSKQGLVEESQGARVIFIE-- 261
I + ++ +K+Y V L E GES Y + + +L GLV E+ GA +F+
Sbjct: 138 LIFDHIKQSLNKIYDDFDVTLHE-GESVYKGRMNDAVKDLKDNGLVYENDGALWLFLTEF 196
Query: 262 GVNIPLIIVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAKRAG 321
G + +++KSDGG Y +TDLA RL + + IIYV Q H +F+AA G
Sbjct: 197 GDDKDRVVIKSDGGALYITTDLAYAKERLEQRGFDLIIYVLGADQHGHIQRLFAAAAALG 256
Query: 322 WLSADDSTYPKASHVGFGLVLGEDGKRLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKDK 381
D + H+GFG+VLG+DGKR+ TR VV L DLLDEA R+ + + +
Sbjct: 257 ----YDPESVEVLHIGFGVVLGKDGKRMSTRAGNVVTLDDLLDEALERAMDIKEKN---R 309
Query: 382 EWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSF 417
+ T +ELE A A+G AA+Y DL +NR T+Y F
Sbjct: 310 DLTADELEAVATAIGVDAARYADLSSNRDTDYIFDL 345
>gnl|CDD|183534 PRK12451, PRK12451, arginyl-tRNA synthetase; Reviewed.
Length = 562
Score = 308 bits (790), Expect = 1e-98
Identities = 162/469 (34%), Positives = 253/469 (53%), Gaps = 20/469 (4%)
Query: 47 SVAGPGFVNVVLSKNWMAKNI-QKMLVDGIETWAPKL-RVKKAVVDFSSPNIAKEMHVGH 104
GP +VNV ++ ++ + + +L + E K V+D+SSPNIAK +GH
Sbjct: 74 EAVGP-YVNVFFNRETVSDAVLKTILAEKEEYGQNHFGCEKTVVIDYSSPNIAKPFSMGH 132
Query: 105 LRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIEYLFEKFPNSEDANETAIGELQ 164
LRST+IG++L + E EV+ N++GDWGTQFG LI ++K+ N E I EL
Sbjct: 133 LRSTMIGNALKHIAEKCGYEVVGINYIGDWGTQFGKLIT-AYKKWGNEAVVKEDPIRELF 191
Query: 165 EFYRRSKNRFDSDPAFKERAQQAVVRLQSGEPKYHEAWAQICEISRKEFDKVYKRLRVDL 224
+ Y + D +E + +L+ G+ + E W S KEF ++Y+ L V+
Sbjct: 192 KLYVQFHEEVKDDEELEEEGRAWFKKLEEGDEEAVELWNWFRHESLKEFSRIYELLGVEF 251
Query: 225 EE-KGESFYNPYIPGVIDELSKQGLVEESQGARVIFIEGVNI-PLIIVKSDGGFNYASTD 282
+GE+FYN + I L + L+EES+GA V+ +E + P +I KSDG YA+ D
Sbjct: 252 TNFQGEAFYNDLMEDFIGILEEHDLLEESEGALVVNLEEEGMPPCLIRKSDGATIYATRD 311
Query: 283 LAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKASHVGFGLVL 342
L A YR N + +YV Q LHF+ F+ K+ G+ D HV FGL+L
Sbjct: 312 LTAALYRQNTFGFDKALYVVGPEQSLHFNQFFTVLKKLGYTWVD-----GMEHVPFGLIL 366
Query: 343 GEDGKRLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKDKEWTEEELEQTAEAVGYGAAKY 402
+DGK++ TR VV L ++L+EA +K + ++K ++ E+ A+ VG GA +
Sbjct: 367 -KDGKKMSTRKGRVVLLEEVLEEAIELAKQNI----EEKNPNLKQKEEVAKQVGVGAVIF 421
Query: 403 FDLKNNRLTNYTFSFDQMLNDKGNTAVYLLYAHARICSIIRKSGKDIEELKKTGSLVLDH 462
DLKN R+ N FS + ML +G T Y+ Y HAR CSI+RK + E T +L D+
Sbjct: 422 HDLKNERMHNIEFSLENMLKFEGETGPYVQYTHARACSILRKESVEFETC--TFALKDDY 479
Query: 463 ADERALGLHLLHFSEVIEEALTNLLPNVVCEYLYNLSEYFTRFYSNCQV 511
+ ++ L F +VIE A P+V+ +Y+ ++++ F ++Y N ++
Sbjct: 480 S--WSVVKLLNKFPQVIEAAFNKNEPSVISKYVLDVAQSFNKYYGNVRI 526
>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 = 217 bits (555), Expect = 4e-68
Identities = 77/269 (28%), Positives = 113/269 (42%), Gaps = 61/269 (22%)
Query: 86 KAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIEYL 145
K +V+F S N +HVGHLR+ IIGDSLAR+LEF +V R ++ DWG Q G+LI L
Sbjct: 1 KILVEFVSANPTGPLHVGHLRNAIIGDSLARILEFLGYDVTREYYINDWGRQIGLLILSL 60
Query: 146 FEKFPNSEDANETAIGELQEFYRRSKNRFDSDPAFKERAQQAVVRLQSGEPKYHEAWAQI 205
+ E +I E Y R RFD
Sbjct: 61 EK----WRKLVEESIKADLETYGRLDVRFD------------------------------ 86
Query: 206 CEISRKEFDKVYKRLRVDLEEKGESFYNPYIPGVIDELSKQGLVEESQGARVIFIE--GV 263
GES Y + V++ L + GL+ E GA + + G
Sbjct: 87 -------------------VWFGESSYLGLMGKVVELLEELGLLYEEDGALWLDLTEFGD 127
Query: 264 NIPLIIVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAKRAGWL 323
+ ++V+SDG + Y + D+A + E A+ IIYV HF +F+A + G+
Sbjct: 128 DKDRVLVRSDGTYTYFTRDIAYHLDKF-ERGADKIIYVVGADHHGHFKRLFAALELLGYD 186
Query: 324 SADDSTYPKASHVGFGLVLGEDGKRLRTR 352
A K H+ +G+V ++ TR
Sbjct: 187 EAK-----KLEHLLYGMVNLPKEGKMSTR 210
>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 = 129 bits (327), Expect = 2e-35
Identities = 54/119 (45%), Positives = 77/119 (64%)
Query: 393 EAVGYGAAKYFDLKNNRLTNYTFSFDQMLNDKGNTAVYLLYAHARICSIIRKSGKDIEEL 452
E VG GA KY DL N R+ +YTF +++ML+ +G+T YL YAHAR+CSI+RK+G+ IE
Sbjct: 1 EEVGVGAVKYQDLSNKRIKDYTFDWERMLSFEGDTGPYLQYAHARLCSILRKAGETIEAE 60
Query: 453 KKTGSLVLDHADERALGLHLLHFSEVIEEALTNLLPNVVCEYLYNLSEYFTRFYSNCQV 511
+L DER L L L F EV++ A L P+ + YL++L+ F++FY+ C V
Sbjct: 61 ADADLSLLPEPDERDLILLLAKFPEVVKNAAETLEPHTIATYLFDLAHAFSKFYNACPV 119
>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 = 91.9 bits (229), Expect = 2e-22
Identities = 38/81 (46%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
Query: 431 LLYAHARICSIIRKSGKDIEELKKTGSLVLDHADERALGLHLLHFSEVIEEALTNLLPNV 490
L YAHARICSI+RK+G+ L L L +E+ L LL F EV+EEA L P+
Sbjct: 1 LQYAHARICSILRKAGELGINLDIDADL-LTEEEEKELLKALLQFPEVLEEAAEELEPHR 59
Query: 491 VCEYLYNLSEYFTRFYSNCQV 511
+ YLY L+ F FY+NC+V
Sbjct: 60 LANYLYELASAFHSFYNNCRV 80
>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 = 89.2 bits (222), Expect = 2e-21
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 431 LLYAHARICSIIRKS---GKDIEELKKTGSLVLDHADERALGLHLLHFSEVIEEALTNLL 487
+ YAHARICSI+RK+ G+ + ++ +L +E AL L L F EV+E A L
Sbjct: 1 VQYAHARICSILRKAGEAGETLPDIADADLSLLTEPEEWALLLKLARFPEVLEAAAEQLE 60
Query: 488 PNVVCEYLYNLSEYFTRFYSNCQV 511
P+ + YLY+L+ F FY+ +V
Sbjct: 61 PHRLANYLYDLAAAFHSFYNRVRV 84
>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 = 50.3 bits (121), Expect = 4e-08
Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 6/53 (11%)
Query: 6 SNNAMGLWSKIKGKGTEFKGPQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVL 58
+N AM L K+K K P+ + + I + LP S++IE VAGPGF+N L
Sbjct: 38 TNVAMKLAKKLK------KNPREIAEEIAEKLPKSDLIEKVEVAGPGFINFFL 84
>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 = 50.2 bits (120), Expect = 2e-07
Identities = 18/90 (20%), Positives = 30/90 (33%), Gaps = 10/90 (11%)
Query: 89 VDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIEYLFEK 148
FS +H+GHLR+ + D LA+ +V + D G G
Sbjct: 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIGDP------- 53
Query: 149 FPNSEDANETAIGELQEFYRRSKNRFDSDP 178
+ E A ++ + R K +
Sbjct: 54 ---ANKKGENAKAFVERWIERIKEDVEYMF 80
>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 = 47.2 bits (113), Expect = 5e-07
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 6/53 (11%)
Query: 6 SNNAMGLWSKIKGKGTEFKGPQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVL 58
+N A L K+K K P+ + + I + LP S+++E +AGPGF+N L
Sbjct: 39 TNVAFRLAKKLK------KNPRELAEEIAEKLPKSDLVEKVEIAGPGFINFFL 85
>gnl|CDD|235953 PRK07188, PRK07188, nicotinate phosphoribosyltransferase;
Provisional.
Length = 352
Score = 34.2 bits (79), Expect = 0.16
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 409 RLTNYTFSFDQMLNDKGNTAVYLLYAHARICSIIRKSGKD 448
RLTN TF FD+ + + +AVY L + II K +
Sbjct: 1 RLTNKTFKFDERIGEGWYSAVYFL----KTREIIEKFNPN 36
>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 = 33.1 bits (76), Expect = 0.32
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEVL 126
H+GH +TI+ D AR EVL
Sbjct: 15 HLGHAYTTILADVYARYKRLRGYEVL 40
>gnl|CDD|224661 COG1747, COG1747, Uncharacterized N-terminal domain of the
transcription elongation factor GreA [Function unknown].
Length = 711
Score = 33.0 bits (75), Expect = 0.38
Identities = 29/142 (20%), Positives = 57/142 (40%), Gaps = 15/142 (10%)
Query: 87 AVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIEYLF 146
++ N K V HL + ++ ++M ++ + N + + L+EY
Sbjct: 71 TLLTIFGDNH-KNQIVEHLCTRVLEYGESKMALLELLQCYKENGNEQLYSLWERLVEY-- 127
Query: 147 EKFPNSEDANETAIG-ELQEFYRRSKNRFDSDPAFKERAQQAVVRLQSGEPKYHEAWAQI 205
D N+ IG EL + Y + K + F + + + R Q+ K E W ++
Sbjct: 128 -------DFNDVVIGRELADKYEKIKKS-KAAEFFGKALYRFIPRRQNAAIK--EVWEKL 177
Query: 206 CEISRKEFDKVYKRLRVDLEEK 227
E+ + D RL+ ++ K
Sbjct: 178 PELIGDDKDFFL-RLQKKIQTK 198
>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 = 32.2 bits (74), Expect = 0.51
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 100 MHVGHLRSTIIGDSLARMLEFSNVEVL 126
+HVGH+R+ IGD +AR VL
Sbjct: 15 LHVGHVRTYTIGDIIARYKRMQGYNVL 41
>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 = 32.1 bits (74), Expect = 0.55
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEVL 126
H+GHL T++ D AR +VL
Sbjct: 16 HLGHLYGTVLADVFARYQRLRGYDVL 41
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 32.2 bits (74), Expect = 0.67
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEVL 126
H+GHL + + D AR L EV
Sbjct: 21 HLGHLYTYLAADVYARYLRLRGYEVF 46
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 32.1 bits (74), Expect = 0.79
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 100 MHVGHLRSTIIGDSLAR 116
+HVGH R+ IGD +AR
Sbjct: 1 LHVGHGRTYTIGDVIAR 17
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 31.9 bits (73), Expect = 1.1
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 100 MHVGHLRSTIIGDSLARMLEFSNVEVL 126
+HVGH+R+ IGD +AR VL
Sbjct: 49 LHVGHVRNYTIGDVIARYKRMQGYNVL 75
>gnl|CDD|212504 cd11645, Precorrin_2_C20_MT, Precorrin-2 C20-methyltransferase,
also named CobI or CbiL. Precorrin-2
C20-methyltransferase participates in the pathway toward
the biosynthesis of cobalamin (vitamin B12). There are
two distinct cobalamin biosynthetic pathways in
bacteria. The aerobic pathway requires oxygen, and
cobalt is inserted late in the pathway; the anaerobic
pathway does not require oxygen, and cobalt insertion is
the first committed step towards cobalamin synthesis.
Precorrin-2 C20-methyltransferase catalyzes methylation
at the C-20 position of a cyclic tetrapyrrole ring of
precorrin-2 using S-adenosylmethionine as a methyl group
source to produce precorrin-3A. In the anaerobic
pathway, cobalt is inserted into precorrin-2 by CbiK to
generate cobalt-precorrin-2, which is the substrate for
CbiL, a C20 methyltransferase. In Clostridium difficile,
CbiK and CbiL are fused into a bifunctional enzyme. In
the aerobic pathway, the precorrin-2
C20-methyltransferase is named CobI. This family
includes CbiL and CobI precorrin-2
C20-methyltransferases, both as stand-alone enzymes and
when CbiL forms part of a bifunctional enzyme.
Length = 226
Score = 30.6 bits (70), Expect = 1.5
Identities = 21/88 (23%), Positives = 34/88 (38%), Gaps = 23/88 (26%)
Query: 333 ASHVGFGLVLGEDG----------KRLRTRFSE---VV---------RLVDLLDEAKNRS 370
A+ +G L G++ + L VV + +LL+EA
Sbjct: 132 AARLGIPLAEGDERLAILPATLGEEELEEALELFDTVVLMKVGRNLDEVRELLEEAGLLD 191
Query: 371 KAVLIER-GKDKEWTEEELEQTAEAVGY 397
+AV +ER G + E +LE E + Y
Sbjct: 192 RAVYVERCGMEGERIVRDLEADPEKLPY 219
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 31.2 bits (72), Expect = 1.5
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 101 HVGHLRSTIIGDSLARM 117
H+GH+R+ IGD +AR
Sbjct: 48 HMGHVRNYTIGDVIARY 64
>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 = 31.2 bits (71), Expect = 1.6
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEV 125
H+GH R+ I+ D L R L + +V
Sbjct: 36 HIGHARTAIVFDVLRRYLRYLGYKV 60
>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 = 30.2 bits (69), Expect = 1.7
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEV 125
H+GH R+ ++ D L R LE +V
Sbjct: 35 HIGHARTYVVFDVLRRYLEDLGYKV 59
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family
includes methionyl tRNA synthetases.
Length = 388
Score = 30.7 bits (70), Expect = 1.9
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEVL 126
H+GHL +TI D AR L +VL
Sbjct: 15 HIGHLYTTIPADVYARYLRLRGYDVL 40
>gnl|CDD|238164 cd00264, BPI, BPI/LBP/CETP domain; Bactericidal
permeability-increasing protein (BPI) /
Lipopolysaccharide-binding protein (LBP) / Cholesteryl
ester transfer protein (CETP) domain; binds to and
neutralizes lipopolysaccharides from the outer membrane
of Gram-negative bacteria.; Apolar pockets on the
concave surface bind a molecule of phosphatidylcholine,
primarily by interacting with their acyl chains; this
suggests that the pockets may also bind the acyl chains
of lipopolysaccharide.
Length = 208
Score = 30.0 bits (68), Expect = 1.9
Identities = 10/42 (23%), Positives = 17/42 (40%)
Query: 455 TGSLVLDHADERALGLHLLHFSEVIEEALTNLLPNVVCEYLY 496
T SL L + L ++ F I L +L ++C +
Sbjct: 120 TLSLSLCSSTVELLSSNIGGFGNFIVSLLQKVLNTILCPVVL 161
>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 = 30.9 bits (70), Expect = 2.2
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 10/51 (19%)
Query: 76 ETWAPKLRVKKAVVDFSSPNI---------AKEMHVGHLRSTIIGDSLARM 117
+ W + K D S P + +H+GH+R+ I D L+R
Sbjct: 12 QKWDEN-KTFKVTDDSSKPKYYILSMFPYPSGALHMGHVRNYTITDVLSRY 61
>gnl|CDD|222260 pfam13609, Porin_4, Gram-negative porin.
Length = 310
Score = 29.3 bits (66), Expect = 4.6
Identities = 9/44 (20%), Positives = 13/44 (29%), Gaps = 2/44 (4%)
Query: 394 AVGYGAAKYFDLKNNRLTNYTFSFDQMLNDKGNTAVYLLYAHAR 437
GYG + T Y L+ T +Y Y +
Sbjct: 265 GAGYGNGDATGGADADATAYGLGATYNLS--KRTTLYAEYGYVD 306
>gnl|CDD|183738 PRK12775, PRK12775, putative trifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta/ferritin
domain-containing protein; Provisional.
Length = 1006
Score = 29.5 bits (66), Expect = 4.8
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 405 LKNNRLTNYTFSFDQMLNDKGNTAVYL 431
++ N++ TF+ Q++NDKG AV+L
Sbjct: 497 IETNKVIGKTFTVPQLMNDKGFDAVFL 523
>gnl|CDD|216798 pfam01937, DUF89, Protein of unknown function DUF89. This family
has no known function.
Length = 315
Score = 29.2 bits (66), Expect = 5.1
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 282 DLAALWYRLNEEKAEWIIYVTD-VGQQLHFDMVF 314
D ALW RL +A+ + YV D G +L FD++
Sbjct: 149 DTDALWERLKGSRAKRVDYVLDNAGFELVFDLLL 182
>gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional.
Length = 1205
Score = 29.5 bits (66), Expect = 5.4
Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 5/68 (7%)
Query: 85 KKAVVDFSSPNIAKEM-HVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIE 143
KKA + + P A + H GHL + II D + R V R+ W G+ IE
Sbjct: 101 KKAYIFYDGPPFATGLPHYGHLLAGIIKDCVTRYFYQCGFSVERKF---GWDCH-GLPIE 156
Query: 144 YLFEKFPN 151
Y EK N
Sbjct: 157 YEIEKENN 164
>gnl|CDD|234705 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated.
Length = 463
Score = 29.3 bits (67), Expect = 5.8
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEV 125
H+GH RS ++ D L R L + +V
Sbjct: 38 HIGHARSFVVFDVLRRYLRYLGYKV 62
>gnl|CDD|151393 pfam10946, DUF2625, Protein of unknown function DUF2625. Some
members in this family of proteins are annotated as ybfG
however currently no function is known.
Length = 208
Score = 28.9 bits (65), Expect = 5.8
Identities = 12/39 (30%), Positives = 19/39 (48%)
Query: 154 DANETAIGELQEFYRRSKNRFDSDPAFKERAQQAVVRLQ 192
D E A L+E+ +KN + PA + A ++ LQ
Sbjct: 6 DKEEPAWPLLREWLAEAKNHVEILPADSDLAGTELLALQ 44
>gnl|CDD|237235 PRK12857, PRK12857, fructose-1,6-bisphosphate aldolase; Reviewed.
Length = 284
Score = 28.9 bits (65), Expect = 6.7
Identities = 22/83 (26%), Positives = 29/83 (34%), Gaps = 14/83 (16%)
Query: 261 EGVNIPLIIVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAK-- 318
E P+II S G YA + + R EKA V LH D +
Sbjct: 39 EAEKSPVIIQASQGAIKYAGIEYISAMVRTAAEKA-------SVPVALHLDHGTDFEQVM 91
Query: 319 ---RAGWLSA--DDSTYPKASHV 336
R G+ S D S P ++
Sbjct: 92 KCIRNGFTSVMIDGSKLPLEENI 114
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 29.0 bits (66), Expect = 7.5
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 101 HVGHLRSTIIGDSLAR 116
H+GH +TI D+LAR
Sbjct: 20 HIGHAYTTIAADALAR 35
>gnl|CDD|223293 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 28.7 bits (65), Expect = 8.4
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEV 125
H+GH R+ ++ D L R L + +V
Sbjct: 37 HIGHARTYVVFDVLRRYLRYLGYKV 61
>gnl|CDD|219491 pfam07632, DUF1593, Protein of unknown function (DUF1593). A
family of proteins in Rhodopirellula baltica that are
predicted to be secreted. Also, a member has been
identified in Caulobacter crescentus. These proteins mat
be related to pfam01156.
Length = 260
Score = 28.4 bits (64), Expect = 8.5
Identities = 18/54 (33%), Positives = 21/54 (38%), Gaps = 13/54 (24%)
Query: 30 GQAIMKNLPPSEMIESCSVAG-------------PGFVNVVLSKNWMAKNIQKM 70
G I KN P I S SV G G N +SK W+ +NIQ
Sbjct: 163 GAWIRKNFPDLFYIASESVHGGNQYGAATWKGIVGGPDNSYVSKEWLKENIQSH 216
>gnl|CDD|222206 pfam13535, ATP-grasp_4, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 183
Score = 28.0 bits (63), Expect = 9.0
Identities = 17/100 (17%), Positives = 32/100 (32%), Gaps = 9/100 (9%)
Query: 209 SRKEFDKVYKRLRVDLEEKGESFYNPYIPGVIDELSKQGLVEESQGARVIFIEGVNIPLI 268
S E + L ++E+ E YI G DE GLV++ ++F+
Sbjct: 60 SAAELEAALAALAAEVEDTREYLVEEYIDG--DEYHVDGLVDDG---ELVFLGV----SR 110
Query: 269 IVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQL 308
+ +L ++ + V + L
Sbjct: 111 YLGPPPPDFSEGVELGSVSPGEDPLPEALRELAERVLKAL 150
>gnl|CDD|216363 pfam01205, UPF0029, Uncharacterized protein family UPF0029.
Length = 110
Score = 27.0 bits (61), Expect = 9.3
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 329 TYPKASHVGFGLVLGEDGKRLRTRFS 354
+PKA+H + +G+ R S
Sbjct: 29 EHPKATHNCWAYRIGDPNGTNVERSS 54
>gnl|CDD|232933 TIGR00348, hsdR, type I site-specific deoxyribonuclease, HsdR
family. This gene is part of the type I restriction and
modification system which is composed of three
polypeptides R (restriction endonuclease), M
(modification) and S (specificity). This group of
enzymes recognize specific short DNA sequences and have
an absolute requirement for ATP (or dATP) and
S-adenosyl-L-methionine. They also catalyse the
reactions of EC 2.1.1.72 and EC 2.1.1.73, with similar
site specificity.(J. Mol. Biol. 271 (3), 342-348
(1997)). Members of this family are assumed to differ
from each other in DNA site specificity [DNA metabolism,
Restriction/modification].
Length = 667
Score = 28.5 bits (64), Expect = 9.3
Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 208 ISRKEFDKVYKRL--RVDLEEKGESFYNPYIPGVIDELSKQG 247
I + +D+VYK++ + DL E + FY+ GV + S++G
Sbjct: 46 IEPERWDEVYKKITNKGDLYETRKIFYDYIKNGVKIKESQKG 87
>gnl|CDD|216482 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic
domain. This family includes only cysteinyl tRNA
synthetases.
Length = 301
Score = 28.5 bits (64), Expect = 9.4
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 101 HVGHLRSTIIGDSLARMLEFSNVEV 125
H+GH RS + D L R L+ +V
Sbjct: 24 HIGHARSAVAFDVLRRYLQALGYDV 48
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
0.318 0.135 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: 26,921,006
Number of extensions: 2716598
Number of successful extensions: 2976
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2932
Number of HSP's successfully gapped: 64
Length of query: 512
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 411
Effective length of database: 6,457,848
Effective search space: 2654175528
Effective search space used: 2654175528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.2 bits)