RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 039609
(248 letters)
>gnl|CDD|177869 PLN02224, PLN02224, methionine-tRNA ligase.
Length = 616
Score = 365 bits (938), Expect = e-124
Identities = 182/250 (72%), Positives = 198/250 (79%), Gaps = 2/250 (0%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
MGKSLGNTLEP ELV FG DAVRYFFL+EVEFGNDGDYSEDRFIKIVNAHLANTIGNLL
Sbjct: 367 MGKSLGNTLEPFELVQKFGPDAVRYFFLREVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 426
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDISN 120
NRTLGLLKKNC+STLV DS VAAEG KDTVEKLVE A+ +YENLSLSSACEAVL+I N
Sbjct: 427 NRTLGLLKKNCESTLVEDSTVAAEGVPLKDTVEKLVEKAQTNYENLSLSSACEAVLEIGN 486
Query: 121 AGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLGY 180
AGN+YMD+ PW FKQGG ++E AAKDLVIILE MR+IAVALSP+ P L RIY QLGY
Sbjct: 487 AGNTYMDQRAPWFLFKQGGVSAEEAAKDLVIILEVMRVIAVALSPIAPCLSLRIYSQLGY 546
Query: 181 SNEQFGNAAWSDTKWGGLKGGQVMAQPKPVFGRIELK-TGTEDGGEPAAAKQVAKKKEKK 239
S +QF + WSDTKWGGLKGGQVM Q PVF RIEL ED +P K+ K K K
Sbjct: 547 SEDQFNSITWSDTKWGGLKGGQVMEQASPVFARIELNPEKEEDEKKPKVGKKTGKAKVKV 606
Query: 240 A-KAQAVAEA 248
+ VAEA
Sbjct: 607 VEQTPTVAEA 616
>gnl|CDD|237012 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed.
Length = 511
Score = 230 bits (589), Expect = 6e-73
Identities = 87/217 (40%), Positives = 122/217 (56%), Gaps = 5/217 (2%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KSLGN ++P +LV +G DAVRYF L+E+ FG DGD+S + FI +NA LAN +GNL
Sbjct: 300 MSKSLGNVIDPFDLVDEYGVDAVRYFLLREIPFGQDGDFSREAFINRINADLANDLGNLA 359
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDISN 120
RTL ++ KN + A+ A + L+E R +NL+ A EA+L +
Sbjct: 360 QRTLSMIAKNFDGKVPEPGALTEADEALLEAAAALLERVRAAMDNLAFDKALEAILALVR 419
Query: 121 AGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLGY 180
A N Y+DE PWS K E A L +LE +R IAV L PV P L +I +QLG
Sbjct: 420 AANKYIDEQAPWSLAKT---DPERLATVLYTLLEVLRGIAVLLQPVMPELAAKILDQLGV 476
Query: 181 SNEQFGNAAWSDTKWGGLKGGQVMAQPKPVFGRIELK 217
++ N ++ WG L G + +P+P+F R+E +
Sbjct: 477 EEDE--NRDFAALSWGRLAPGTTLPKPEPIFPRLEEE 511
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 190 bits (486), Expect = 1e-56
Identities = 81/244 (33%), Positives = 124/244 (50%), Gaps = 3/244 (1%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KS GN ++P ELV +G DA+RY+ L+EV FG+DGD+S + ++ +N+ LAN +GNLL
Sbjct: 300 MSKSKGNVVDPEELVDRYGLDALRYYLLREVPFGSDGDFSPEALVERINSDLANDLGNLL 359
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDISN 120
NRT+ ++ K + V E+ ++ E L S A E V + +
Sbjct: 360 NRTVAMINKYFDGEIPAPGNVTEFDEELIALAEETLKNYEELMEELQFSRALEEVWKLIS 419
Query: 121 AGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLGY 180
N Y+DE PW K G A + + E++R +AV LSP P +I+EQLG
Sbjct: 420 RANKYIDETAPWVLAKDEGKKERLATV-MYHLAESLRKVAVLLSPFMPETSKKIFEQLGL 478
Query: 181 SNEQFGNAAWSDTKWGGLKGGQVMAQPKPVFGRIELKTGTEDGGEPAAAKQVAKKKEKKA 240
E S +WGGL G +A+ +P+F RI+++ E + +EK+
Sbjct: 479 EEELTSWE--SLLEWGGLPAGTKVAKGEPLFPRIDVEEEIAYIKEQMEGSAPKEPEEKEK 536
Query: 241 KAQA 244
K +
Sbjct: 537 KPEK 540
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 179 bits (456), Expect = 5e-53
Identities = 69/218 (31%), Positives = 109/218 (50%), Gaps = 5/218 (2%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KS GN ++P+EL+ +G DA+RY+ +E+ G+DGD+S + F++ VNA LAN +GNL
Sbjct: 334 MSKSRGNVVDPDELLEQYGVDALRYYLARELPEGSDGDFSWEDFVERVNADLANKLGNLA 393
Query: 61 NRTLGLLKKNCQSTL-VVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDIS 119
NRTLG + K + + E + +E E A E ++ ++
Sbjct: 394 NRTLGFINKYFDGVVPAAGAPDLEEDEELLALAREALEAVAEAMEKYEFRKALEEIMALA 453
Query: 120 NAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLG 179
+ N Y+DE PW K+ E A L + LE +R++A+ L P P +I++QLG
Sbjct: 454 SRANKYIDEQAPWKLAKED--KRERLATVLYLALELVRVLAILLYPFMPETAEKIWDQLG 511
Query: 180 YSNEQFGNAAWSDTKWGGLKGGQVMAQPKPVFGRIELK 217
+ L G + P+P+F RIE +
Sbjct: 512 LEEDAR--NFTWLGARQPLLPGHKLGPPEPLFPRIEEE 547
>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 = 159 bits (405), Expect = 9e-46
Identities = 70/217 (32%), Positives = 111/217 (51%), Gaps = 16/217 (7%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KSLGN ++P++L+ FG+D +RY+ LKE G DGD+S + F++ VNA LAN +GNLL
Sbjct: 328 MSKSLGNVVDPSDLLARFGADILRYYLLKERPLGKDGDFSWEDFVERVNADLANKLGNLL 387
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDISN 120
NRTLG +KK L + E + + +E E+ A ++ +++
Sbjct: 388 NRTLGFIKKYFNGVLPSEDITDEEDKKLLKLINEALEQIDEAIESFEFRKALREIMKLAD 447
Query: 121 AGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLGY 180
GN Y+DE+ PW FKQ E A + +R++++ L P+ P L +I + L +
Sbjct: 448 RGNKYIDENKPWELFKQSPRLKELLA----VCSMLIRVLSILLYPIMPKLSEKILKFLNF 503
Query: 181 SNEQFGNAAWSDTKWGGLK--GGQVMAQPKPVFGRIE 215
LK G + + +P+F +IE
Sbjct: 504 ----------ELEWDFKLKLLEGHKLNKAEPLFSKIE 530
>gnl|CDD|237029 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed.
Length = 556
Score = 146 bits (370), Expect = 1e-40
Identities = 57/221 (25%), Positives = 97/221 (43%), Gaps = 8/221 (3%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
KS G + ++ + + D +RY+ +D D++ + F++ VN+ LA+ GNL+
Sbjct: 335 FSKSRGWGIWVDDALERYPPDYLRYYLAANAPENSDTDFTWEEFVRRVNSELADKYGNLV 394
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDISN 120
NR L ++K + + E L + E A E +++++
Sbjct: 395 NRVLSFIEKYFGGIVPPGELGDED-RELIAEAEALFKEVGELLEAGEFKKALEEIMELAR 453
Query: 121 AGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLGY 180
N Y+DE PW K E AA L L +R++AV L P P +I+E LG
Sbjct: 454 EANKYLDEKAPWKLAKTD---RERAATVLYTALNLVRLLAVLLYPFLPFSAQKIWEMLGG 510
Query: 181 SNEQFGNAAWSDTKWGGLKGGQVMAQPKPVFGRIELKTGTE 221
N + W K L G + +P+P+F +I+ + E
Sbjct: 511 ENIE--KLTWESLK--PLLPGHPINKPEPLFKKIDDEQIEE 547
>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 = 122 bits (308), Expect = 2e-35
Identities = 43/131 (32%), Positives = 67/131 (51%), Gaps = 2/131 (1%)
Query: 48 VNAHLANTIGNLLNRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLS 107
+N+ LAN +GNL+NRTL + K + + E + E+L+E E L
Sbjct: 1 INSELANNLGNLVNRTLNMASKYFGGVVPEFGGLTEEDEELLEEAEELLEEVAEAMEELE 60
Query: 108 LSSACEAVLDISNAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVT 167
A E +++++ A N Y+DE PW K+ E A L ++LE +RI+A+ LSP
Sbjct: 61 FRKALEEIMELARAANKYIDETAPWKLAKEEDP--ERLATVLYVLLELLRILAILLSPFM 118
Query: 168 PNLCWRIYEQL 178
P +I +QL
Sbjct: 119 PETAEKILDQL 129
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 112 bits (284), Expect = 2e-28
Identities = 64/251 (25%), Positives = 96/251 (38%), Gaps = 18/251 (7%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFL-KEVEFGNDGDYSEDRFIKIVNAHLANTIGNL 59
M KS G + + + D +RY+ K E +D D++ + F + VN+ L + N
Sbjct: 330 MSKSRGTFIWARTYLDHLDPDYLRYYLAAKLPETIDDLDFNWEDFQQRVNSELVGKVVNF 389
Query: 60 LNRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDIS 119
+RT G + K L A + E E YE A ++ ++
Sbjct: 390 ASRTAGFINKRFDGKL----PDALADPELLEEFEAAAEKIAEAYEAREFRKALREIMALA 445
Query: 120 NAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLG 179
+ N Y+D++ PW KQ G E + L R +A+ L PV P L R L
Sbjct: 446 DFANKYVDDNEPWKLAKQDG---ERLQAVCSVGLNLFRALAIYLKPVLPELAERAEAFLN 502
Query: 180 YSNEQFGNAAWSDTKWGGLKGGQVMAQPKPVFGRIELKT---GTEDGGEPAAAKQVAKKK 236
W D + G + + K +F RIE K E E AAAK A
Sbjct: 503 LEEL-----TWDDAQ--QPLAGHPINKFKILFTRIEDKQIEALIEASKEAAAAKAAAAAA 555
Query: 237 EKKAKAQAVAE 247
+ +AE
Sbjct: 556 AAPLAEEPIAE 566
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family
includes methionyl tRNA synthetases.
Length = 388
Score = 96.2 bits (240), Expect = 4e-23
Identities = 32/64 (50%), Positives = 47/64 (73%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KS GN ++P+EL+ +G DA+RY+ +E G DGD+S + F++ VN+ LAN +GNL+
Sbjct: 325 MSKSRGNVVDPDELLDRYGVDALRYYLAREAPEGKDGDFSWEDFVERVNSELANDLGNLV 384
Query: 61 NRTL 64
NRTL
Sbjct: 385 NRTL 388
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 64.8 bits (158), Expect = 5e-12
Identities = 56/255 (21%), Positives = 100/255 (39%), Gaps = 35/255 (13%)
Query: 18 FGSDAV---------RYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLLNRTLGLLK 68
FG+DA RY+ L +D ++ +N+ L N +GN +NR L +
Sbjct: 358 FGNDAKDTNIPVEVWRYYLLTNRPEVSDTLFTWADLQAKLNSELLNNLGNFINRVLSFIA 417
Query: 69 KNCQSTL--VVDSAVAAE----GTAFKDTVEKLVETARGHYENLSLSSACEAVLDISNAG 122
K + V+ A AE + V KLVE E + L + + IS+ G
Sbjct: 418 KPPGAGYGSVIPDAPGAESHPLTKKLAEKVGKLVEQYVEAMEKVKLKQGLKTAMSISSEG 477
Query: 123 NSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAM---RIIAVALSPVTPNLCWRIYEQLG 179
N+Y+ E W +K E +++ ++ ++A L P P+ + +QL
Sbjct: 478 NAYLQESQFWKLYK------EDKPSCAIVVKTSVGLVYLLACLLEPFMPSFSKEVLKQLN 531
Query: 180 YSNEQF------GNAAWSDTKWGGLKGGQVMAQPKPVFGRIELKTGTEDGGEPAAAKQVA 233
E G A + W + G + P+P+F ++ ++ E K
Sbjct: 532 LPPESLSLSDEKGEVARAKRPWELVPAGHKIGTPEPLFKELK-----DEEVEAYREKFAG 586
Query: 234 KKKEKKAKAQAVAEA 248
+ ++ A+A+A
Sbjct: 587 SQADRAARAEAAEAK 601
>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 = 59.0 bits (143), Expect = 5e-10
Identities = 45/198 (22%), Positives = 77/198 (38%), Gaps = 40/198 (20%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFL------KEVEFGNDGDYSEDRFIKIVNAHLAN 54
M KS GN ++P E+V ++G+DA+R F + +E+ G RF+ V
Sbjct: 606 MSKSKGNGIDPQEIVESYGADALRLFIMFMGPIAASLEWNESGLEGARRFLDRVW----- 660
Query: 55 TIGNLLNRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYE-NLSLSSACE 113
NL+ G L + ++ A ++K+ E E S ++A
Sbjct: 661 ---NLVYEITGELDAASLTVTALEEAQKELRRDVHKFLKKVTE----DLEKRESFNTAIS 713
Query: 114 AVLDISNAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWR 173
A++++ N AK ++LE ++ LSP P+L
Sbjct: 714 AMMELLNK---------------------LYKAKKEALMLEYLKGFVTVLSPFAPHLAEE 752
Query: 174 IYEQLGYSNEQFGNAAWS 191
++E+LG NA W
Sbjct: 753 LWEKLGSEPFIIDNAKWP 770
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 55.7 bits (135), Expect = 5e-09
Identities = 39/191 (20%), Positives = 76/191 (39%), Gaps = 29/191 (15%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KS GN ++P E V +G+D VR + + D ++SE L
Sbjct: 580 MSKSKGNVVDPEEAVEKYGADTVRLYIMFAAPPEQDLEWSES---------GVEGARRFL 630
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYEN-LSLSSACEAVLDIS 119
R L+K++ +V+ +G + + + ++ +E + ++A A++++
Sbjct: 631 QRVWNLVKEHL--EKLVEELTKEQGKEDRWLLHRTIKKVTEDFEARQTFNTAIAALMELL 688
Query: 120 NAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLG 179
NA Y+ R + A + V + L+P P++ ++E+LG
Sbjct: 689 NALRKYLR------RTEGDRKVLREALETWVRL----------LAPFAPHIAEELWEELG 732
Query: 180 YSNEQFGNAAW 190
NA W
Sbjct: 733 NEGFVS-NAPW 742
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 54.7 bits (133), Expect = 1e-08
Identities = 43/196 (21%), Positives = 82/196 (41%), Gaps = 40/196 (20%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFL------KEVEFGNDGDYSEDRFIKIVNAHLAN 54
M KS GN ++P++++ +G+D R F + K++E+ + G + A+
Sbjct: 571 MSKSKGNVVDPDDIIEKYGADTARLFEMFAGPPEKDLEWSDSG---------VEGAY--- 618
Query: 55 TIGNLLNRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEA 114
L R L+ +D A +E + + K ++ E L ++A A
Sbjct: 619 ---RFLQRVWRLVVDAKGEAGALDVAALSEDKELRRKLHKTIKKVTEDIERLRFNTAIAA 675
Query: 115 VLDISNAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRI 174
++++ NA DE +D ++ EA+ I+ L+P P+L +
Sbjct: 676 LMELVNALYKAEDE------------------QDKAVLREALEILVRLLAPFAPHLAEEL 717
Query: 175 YEQLGYSNEQFGNAAW 190
+E+LG+ NA W
Sbjct: 718 WEKLGHEGSIA-NAPW 732
>gnl|CDD|223599 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 54.2 bits (131), Expect = 2e-08
Identities = 38/186 (20%), Positives = 74/186 (39%), Gaps = 22/186 (11%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGN-- 58
M KS GN ++P +++ +G+DA+R+ G D ++ E R + N + N
Sbjct: 526 MSKSKGNVIDPLDVIDKYGADALRFTLASLASPGRDINFDEKRVEG--YRNFLNKLWNAT 583
Query: 59 ---LLNRT-LGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEA 114
L+N LG + + + D + + + + V+ +N A A
Sbjct: 584 RFVLMNLDDLGPDDLDLLALSLADRWILSR-------LNETVKEVTEALDNYRFDEAARA 636
Query: 115 VLDISNAGNSYMDEHVPWS--RFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCW 172
+ + N + D ++ + R G AA L +L+ + L P P +
Sbjct: 637 LYEF--IWNDFCDWYLELAKPRLYGGEEEKRAARATLYYVLDT---LLRLLHPFMPFITE 691
Query: 173 RIYEQL 178
I+++L
Sbjct: 692 EIWQKL 697
>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 = 52.9 bits (128), Expect = 4e-08
Identities = 17/39 (43%), Positives = 28/39 (71%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDY 39
M KS GN ++P++L+ +G+DA+RY+ L+E G D D+
Sbjct: 281 MSKSRGNVVDPDDLLERYGADALRYYLLRERPEGKDSDF 319
>gnl|CDD|235681 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 975
Score = 53.2 bits (129), Expect = 4e-08
Identities = 43/202 (21%), Positives = 76/202 (37%), Gaps = 40/202 (19%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSED-------RFIKIV-NA-H 51
M KSLGN ++P E+ +G+DA+R++ L D +SED +F+ + N
Sbjct: 593 MSKSLGNYVDPFEVFDKYGADALRWYLLSSSAPWEDLRFSEDGVREVVRKFLLTLWNVYS 652
Query: 52 LANTIGNLLNRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSA 111
NL + S +D + + + LV+ +N ++ A
Sbjct: 653 FFVLYANLDGFDYPPAEDEVDSLNELDRWILSR-------LNSLVKEVTEALDNYDITKA 705
Query: 112 CEAVL----DISNAGNSYMDEHVPW------SRF-KQGGAASEAAAKDLVIILEAMRIIA 160
A+ D+SN W RF K+ + AA + + ++
Sbjct: 706 ARAIRDFVDDLSN-----------WYIRRSRRRFWKEEDDPDKLAAYA--TLYTVLETLS 752
Query: 161 VALSPVTPNLCWRIYEQLGYSN 182
+P TP + IY+ L +
Sbjct: 753 RLAAPFTPFIAEEIYQNLTRED 774
>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 = 7e-07
Identities = 40/200 (20%), Positives = 63/200 (31%), Gaps = 35/200 (17%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KS GN L + V FG+D R + E D D+ E L
Sbjct: 621 MSKSKGNVLTLEQAVEKFGADVARLYIADAAETVQDADWKESE---------VEGTILRL 671
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAE----GTAFKDTVEKLVETARGHYENLSLSSACEAVL 116
R ++ T + E + + ++ EN A + L
Sbjct: 672 ERLYEFAEEI---TKESNLETGEETSFIDRWLESRMNAAIKETYEAMENFQTRKAVKYAL 728
Query: 117 -DISNAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIY 175
D+ V W R + G + L LE L+P P+ ++
Sbjct: 729 FDLQAD--------VDWYRRRGGVNHKDV----LARYLET---WIKLLAPFAPHFAEEMW 773
Query: 176 EQLGYSNEQF-GNAAWSDTK 194
E++G NE F A + +
Sbjct: 774 EEVG--NEGFVSLAKFPEAS 791
>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 = 49.3 bits (118), Expect = 8e-07
Identities = 43/187 (22%), Positives = 73/187 (39%), Gaps = 18/187 (9%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KSLGN ++P ++++ +G+D +R ++ + D +S D +K V N
Sbjct: 612 MSKSLGNVVDPLKVINKYGADILR-LYVASSDPWEDLRFS-DEILKQVVEKYRKIRWNTY 669
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKD-----TVEKLVETARGHYENLSLSSACEAV 115
R L L N + ++VA E +D + LVE E + A+
Sbjct: 670 -RFL-LTYANLDKFDPLFNSVAVEKFPEEDRWILSRLNSLVEEVNEALEKYNFHKVLRAL 727
Query: 116 LD-ISNA-GNSYMDEHVPWSRFKQGGAASEAAAKD--LVIILEAMRIIAVALSPVTPNLC 171
D I N Y+ + R ++ A L L + + L+P P+
Sbjct: 728 QDFIVEELSNWYIR--IIRDRLYCEAKDNDKRAAQTTLYYALLTLVRL---LAPFLPHTA 782
Query: 172 WRIYEQL 178
IY+ L
Sbjct: 783 EEIYQNL 789
>gnl|CDD|223138 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 48.4 bits (116), Expect = 2e-06
Identities = 46/195 (23%), Positives = 83/195 (42%), Gaps = 24/195 (12%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KSLGN ++P +++ +G+D +R + ++ D +S++ +K V I N
Sbjct: 603 MSKSLGNVVDPQDVIDKYGADILRLWVAS-SDYWEDLRFSDE-ILKQVREVY-RKIRNTY 659
Query: 61 NRTLGLL-KKNCQSTLVVDSAVAAEGTAFKD-----TVEKLVETARGHYENLSLSSACEA 114
LG L + + V+ + D + LV+ R YEN A
Sbjct: 660 RFLLGNLDDFDPKKDAVLPEELREL-----DRWILSRLNSLVKEVREAYENYDFHKVVRA 714
Query: 115 VLD-ISNA-GNSYMDEHVPWSRFKQGGAASEA--AAKD-LVIILEAMRIIAVALSPVTPN 169
+++ +S N Y+D + R A S AA+ L IL+A+ + L+P+ P
Sbjct: 715 LMNFVSEDLSNWYLD--IIKDRLYTEAADSPDRRAAQTTLYHILKALVRL---LAPILPF 769
Query: 170 LCWRIYEQLGYSNEQ 184
I++ L ++
Sbjct: 770 TAEEIWQNLPGERKE 784
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed.
Length = 874
Score = 47.0 bits (113), Expect = 4e-06
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 7/57 (12%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDR------FI-KIVNA 50
M KS GN ++P +L+ +G+DA+R+ G D + E+R F K+ NA
Sbjct: 521 MSKSKGNVIDPLDLIDKYGADALRFTLAALASPGRDIRFDEERVEGYRNFANKLWNA 577
>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 = 47.0 bits (112), Expect = 5e-06
Identities = 39/183 (21%), Positives = 79/183 (43%), Gaps = 13/183 (7%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KSLGN ++P +++ +G+DA+R+ V G+D ++ R + N + N
Sbjct: 526 MSKSLGNVIDPLDVIEKYGADALRFTLASLVTPGDDINFDWKRVES--ARNFLNKLWNAS 583
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDISN 120
L L + + + + A+ + + ++ R + + A +A+ +
Sbjct: 584 RFVLMNLSDDLELSGGEEKLSLAD-RWILSKLNRTIKEVRKALDKYRFAEAAKALYEFI- 641
Query: 121 AGNSYMDEHVPWS--RFKQGGAASEAAAKD-LVIILE-AMRIIAVALSPVTPNLCWRIYE 176
N + D ++ R G A + AA+D L +L+ A+R+ L P P + I++
Sbjct: 642 -WNDFCDWYIELVKYRLYNGNEAEKKAARDTLYYVLDKALRL----LHPFMPFITEEIWQ 696
Query: 177 QLG 179
Sbjct: 697 HFK 699
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 45.6 bits (109), Expect = 1e-05
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 8/57 (14%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSED------RF-IKIVNA 50
M KS GN + P EL+ +G+DAVRY+ G+D + E R K+ NA
Sbjct: 534 MSKSKGNVVTPEELLEKYGADAVRYWAA-SARLGSDTPFDEKQVKIGRRLLTKLWNA 589
>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 = 43.6 bits (103), Expect = 4e-05
Identities = 14/36 (38%), Positives = 25/36 (69%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGND 36
M KS GN ++P+++V +G+DA+RY+ +G+D
Sbjct: 274 MSKSKGNVIDPSDVVEKYGADALRYYLTSLAPYGDD 309
>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 = 43.4 bits (103), Expect = 5e-05
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGND 36
M KSLGN ++P E+V +G+DA+R + + D
Sbjct: 300 MSKSLGNYVDPQEVVDKYGADALRLWVASSDVYAED 335
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 42.9 bits (102), Expect = 1e-04
Identities = 34/183 (18%), Positives = 65/183 (35%), Gaps = 27/183 (14%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNLL 60
M KS GN + + + +G+D VR + E D D+ E ++ L
Sbjct: 578 MSKSKGNVIPLRKAIEEYGADVVRLYLTSSAELLQDADWREK---------EVESVRRQL 628
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSAC-EAVLDIS 119
R L K+ + + + + ++++ E+ A EA ++
Sbjct: 629 ERFYELAKELIEIG--GEEELRFIDKWLLSRLNRIIKETTEAMESFQTRDAVQEAFYELL 686
Query: 120 NAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLG 179
N Y+ + G A+ + E + I L+P TP+L ++ +LG
Sbjct: 687 NDLRWYLR---------RVGEANNKVLR------EVLEIWIRLLAPFTPHLAEELWHKLG 731
Query: 180 YSN 182
Sbjct: 732 GEG 734
>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 = 40.3 bits (95), Expect = 6e-04
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGND 36
M KSLGN ++P +++ +G+DA+R+ G D
Sbjct: 344 MSKSLGNVIDPLDVIDGYGADALRFTLASAATQGRD 379
>gnl|CDD|219767 pfam08264, Anticodon_1, Anticodon-binding domain of tRNA. This
domain is found mainly hydrophobic tRNA synthetases. The
domain binds to the anticodon of the tRNA.
Length = 148
Score = 38.2 bits (89), Expect = 0.001
Identities = 19/100 (19%), Positives = 41/100 (41%), Gaps = 7/100 (7%)
Query: 93 EKLVETARGHYENLSLSSACEAVLD-ISNA-GNSYMDEHVPWSRFKQGGAASEAAAKDLV 150
KL++ YE ++A A+ + N + Y++ R S+ +A+
Sbjct: 9 NKLIKEVTEAYEKYRFNTAASALYEFFWNDLSDWYLELSKD--RLYGEAPDSDRSAQT-- 64
Query: 151 IILEAMRIIAVALSPVTPNLCWRIYEQLGYSNEQFGNAAW 190
++ E + + L+P P + ++++LG A W
Sbjct: 65 VLYEVLETLLRLLAPFMPFITEELWQKLGKKESIH-LAPW 103
>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 = 37.2 bits (87), Expect = 0.004
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFL 28
M KS GN + P+E + +G+DA R + L
Sbjct: 276 MSKSKGNVVTPDEAIKKYGADAARLYIL 303
>gnl|CDD|234705 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated.
Length = 463
Score = 37.0 bits (87), Expect = 0.006
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFL 28
M KSLGN +L+ + + +R+F L
Sbjct: 267 MSKSLGNFFTIRDLLKKYDPEVLRFFLL 294
>gnl|CDD|223293 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 35.7 bits (83), Expect = 0.021
Identities = 33/155 (21%), Positives = 57/155 (36%), Gaps = 29/155 (18%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNAHLANTIGNL- 59
M KSLGN + +L+ + + +R F L + + D+SE+ L L
Sbjct: 269 MSKSLGNFITVRDLLKKYDPEVLRLFLL-SSHYRSPLDFSEE--------LLEEAKKALE 319
Query: 60 -LNRTLGLLKKNCQSTLVVDSAVAAEGTAFKDTVEKLVETARGHYENLSLSSACEAVLDI 118
L L + D A AE K+ + E ++ + A + ++
Sbjct: 320 RLYNAL---------RRLRDLAGDAELADLKEFEARFREALD---DDFNTPKALAVLFEL 367
Query: 119 SNAGNSYMDEHVPWSRFKQGGAASEAAAKDLVIIL 153
+ N ++E K A +A K L+ IL
Sbjct: 368 AKEINRLLEEG------KSDAKAVLSALKALLAIL 396
>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 = 34.9 bits (81), Expect = 0.023
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFL 28
M KSLGN + + + + + +R L
Sbjct: 175 MSKSLGNFITVRDALKKYDPEVLRLALL 202
>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 = 34.3 bits (79), Expect = 0.050
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYF 26
M KSLGN ++P +++ +G+DA+R +
Sbjct: 568 MSKSLGNVIDPLDVIDKYGADALRLW 593
>gnl|CDD|215509 PLN02943, PLN02943, aminoacyl-tRNA ligase.
Length = 958
Score = 33.8 bits (77), Expect = 0.097
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRF 44
M K+LGN ++P + + FG+DA+R F L G D + S +R
Sbjct: 584 MSKTLGNVIDPLDTIKEFGTDALR-FTLALGTAGQDLNLSTERL 626
>gnl|CDD|235588 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 32.8 bits (76), Expect = 0.16
Identities = 10/24 (41%), Positives = 18/24 (75%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVR 24
M KSLGN ++P +++ +G+D +R
Sbjct: 593 MSKSLGNVIDPQDVIKKYGADILR 616
>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 = 32.7 bits (75), Expect = 0.18
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDRFIKIVNA--HLANTIGN 58
M KSLGN +++ N+ + +RYF L V + + D+SE+ NA L +
Sbjct: 266 MSKSLGNFFTVRDVLKNYDPEILRYFLL-SVHYRSPLDFSEELLEAAKNALERLYKALRV 324
Query: 59 LLNR 62
L
Sbjct: 325 LDTS 328
>gnl|CDD|215477 PLN02882, PLN02882, aminoacyl-tRNA ligase.
Length = 1159
Score = 32.8 bits (75), Expect = 0.19
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVR 24
M KSL N +PNE++ +G+DA+R
Sbjct: 615 MSKSLKNYPDPNEVIDKYGADALR 638
>gnl|CDD|237514 PRK13804, ileS, isoleucyl-tRNA synthetase; Provisional.
Length = 961
Score = 32.6 bits (75), Expect = 0.21
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVR 24
M KSLGNT+ P +++ G+D +R
Sbjct: 631 MSKSLGNTVSPQDVIKQSGADILR 654
>gnl|CDD|153415 cd07961, Anticodon_Ia_Ile_ABEc, Anticodon-binding domain of
archaeal, bacterial, and eukaryotic cytoplasmic
isoleucyl tRNA synthetases. This domain is found in
isoleucyl tRNA synthetases (IleRS), 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. This family
includes bacterial, archaeal, and eukaryotic cytoplasmic
members. IleRS catalyzes the transfer of isoleucine to
the 3'-end of its tRNA.
Length = 183
Score = 29.8 bits (68), Expect = 0.80
Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 16/91 (17%)
Query: 95 LVETARGHYENLSLSSACEAVLDISNAGNSYMDEHVPW------SRFKQ-GGAASEAAAK 147
L++ E L +A A+L+ ++DE W RF G + AA
Sbjct: 59 LIKEVTEEMEAYDLYTAVRALLE-------FIDELTNWYIRRNRKRFWGEEGDDDKLAA- 110
Query: 148 DLVIILEAMRIIAVALSPVTPNLCWRIYEQL 178
+ E + ++ ++P TP + IY+ L
Sbjct: 111 -YATLYEVLLTLSRLMAPFTPFITEEIYQNL 140
>gnl|CDD|217384 pfam03137, OATP, Organic Anion Transporter Polypeptide (OATP)
family. This family consists of several eukaryotic
Organic-Anion-Transporting Polypeptides (OATPs). Several
have been identified mostly in human and rat. Different
OATPs vary in tissue distribution and substrate
specificity. Since the numbering of different OATPs in
particular species was based originally on the order of
discovery, similarly numbered OATPs in humans and rats
did not necessarily correspond in function, tissue
distribution and substrate specificity (in spite of the
name, some OATPs also transport organic cations and
neutral molecules). Thus, Tamai et al. initiated the
current scheme of using digits for rat OATPs and letters
for human ones. Prostaglandin transporter (PGT) proteins
are also considered to be OATP family members. In
addition, the methotrexate transporter OATK is closely
related to OATPs. This family also includes several
predicted proteins from Caenorhabditis elegans and
Drosophila melanogaster. This similarity was not
previously noted. Note: Members of this family are
described (in the Swiss-Prot database) as belonging to
the SLC21 family of transporters.
Length = 582
Score = 30.3 bits (69), Expect = 0.98
Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 11/76 (14%)
Query: 122 GNSYMDEHVPWSRFKQGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQLGYS 181
G SY+D++V + + IL M + A+ + + C R+Y G
Sbjct: 160 GISYIDDNV-----------KSKNSPLYLGILFTMAMFGPAIGFLLGSFCLRLYVDFGRV 208
Query: 182 NEQFGNAAWSDTKWGG 197
+ +D +W G
Sbjct: 209 PTEDVIITPTDPRWVG 224
>gnl|CDD|216482 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic
domain. This family includes only cysteinyl tRNA
synthetases.
Length = 301
Score = 30.0 bits (68), Expect = 1.1
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSE 41
M KSLGN L +++ + +RYF L V + + D+SE
Sbjct: 254 MSKSLGNFLTIRDVLKRYDPRILRYFLL-SVHYRSPLDFSE 293
>gnl|CDD|178177 PLN02563, PLN02563, aminoacyl-tRNA ligase.
Length = 963
Score = 30.2 bits (68), Expect = 1.3
Identities = 10/26 (38%), Positives = 19/26 (73%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYF 26
M KS GN + P+++V +G+D++R +
Sbjct: 724 MSKSRGNVVNPDDVVSEYGADSLRLY 749
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 29.6 bits (66), Expect = 1.6
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 1 MGKSLGNTLEPNELVHNFGSDAVRYFFLKEVEFGNDGDYSEDR 43
M K+ GN ++P + +G+DA+R+ G D +++R
Sbjct: 539 MSKTKGNVIDPLVITEQYGADALRFTLAALTAQGRDIKLAKER 581
>gnl|CDD|153408 cd07375, Anticodon_Ia_like, Anticodon-binding domain of class Ia
aminoacyl tRNA synthetases and similar domains. This
domain is found in a variety of class Ia aminoacyl tRNA
synthetases, C-terminal to the catalytic core domain. It
recognizes and specifically binds to the anticodon of
the tRNA. Aminoacyl tRNA synthetases catalyze the
transfer of cognate amino acids to the 3'-end of their
tRNAs by specifically recognizing cognate from
non-cognate amino acids. Members include valyl-,
leucyl-, isoleucyl-, cysteinyl-, arginyl-, and
methionyl-tRNA synthethases. This superfamily also
includes a domain from MshC, an enzyme in the mycothiol
biosynthetic pathway.
Length = 117
Score = 27.9 bits (62), Expect = 2.6
Identities = 12/61 (19%), Positives = 29/61 (47%)
Query: 93 EKLVETARGHYENLSLSSACEAVLDISNAGNSYMDEHVPWSRFKQGGAASEAAAKDLVII 152
++ ++ E L ++A + + +N N Y+DE P + ++ A A + +++
Sbjct: 49 QEFIKRTTNALEALDPTTAVQELFKFTNELNWYLDELKPALQTEELREAVLAVLRAALVV 108
Query: 153 L 153
L
Sbjct: 109 L 109
>gnl|CDD|153413 cd07959, Anticodon_Ia_Leu_AEc, Anticodon-binding domain of archaeal
and eukaryotic cytoplasmic leucyl tRNA synthetases.
This domain is found in leucyl tRNA synthetases (LeuRS),
which belong to the class Ia aminoacyl tRNA synthetases.
It lies C-terminal to the catalytic core domain. In
contrast to other class Ia enzymes, the anticodon is not
used as an identity element in LeuRS (with exceptions
such as Saccharomyces cerevisiae and some other
eukaryotes). No anticodon-binding site can be defined
for this family, which includes archaeal and eukaryotic
cytoplasmic members. LeuRS catalyzes the transfer of
leucine to the 3'-end of its tRNA.
Length = 117
Score = 27.6 bits (62), Expect = 2.9
Identities = 17/86 (19%), Positives = 33/86 (38%), Gaps = 15/86 (17%)
Query: 94 KLVETARGHYENLSLSSACEAVL-DISNAGNSYMDEHVPWSRFKQGGAASEAAAKDLVII 152
+L++ YEN+ A + L ++ N + Y + KDL +
Sbjct: 46 RLIKETTEAYENMQFREALKEGLYELQNDLDWYRE------------RGGAGMNKDL--L 91
Query: 153 LEAMRIIAVALSPVTPNLCWRIYEQL 178
+ + L+P P+L I+ +L
Sbjct: 92 RRFIEVWTRLLAPFAPHLAEEIWHEL 117
>gnl|CDD|226839 COG4408, COG4408, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 431
Score = 28.6 bits (64), Expect = 3.2
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 84 EGTAFKDTVEKLVETARGHYENLSLSSACEAVLDISNAGNSYMDEHVPWSRFKQ 137
EG+ D K + A G ++ L L+ +A D+ + +PW Q
Sbjct: 67 EGSVTIDCYIKDLAQAVGDWQTLILAVPADAYYDVL--------QQIPWEALPQ 112
>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional.
Length = 155
Score = 27.7 bits (62), Expect = 3.3
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 4/59 (6%)
Query: 194 KWGGLKGGQ---VMAQPKPVF-GRIELKTGTEDGGEPAAAKQVAKKKEKKAKAQAVAEA 248
K+ GL G + +A+PKP DGG A A KKK A A A A
Sbjct: 82 KFKGLPGAEGTLKVAEPKPSKLELFNAALAEADGGPTAEATTPKKKKAAAEAAAAEAAA 140
>gnl|CDD|233668 TIGR01983, UbiG, ubiquinone biosynthesis O-methyltransferase. This
model represents an O-methyltransferase believed to act
at two points in the ubiquinone biosynthetic pathway in
bacteria (UbiG) and fungi (COQ3). A separate methylase
(MenG/UbiE) catalyzes the single C-methylation step. The
most commonly used names for genes in this family do not
indicate whether this gene is an O-methyl, or C-methyl
transferase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 224
Score = 28.0 bits (63), Expect = 3.4
Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 20/70 (28%)
Query: 90 DTVEKLVETARGHYEN---LSLSSACEAVLDISNAGNSYMD--------EHVP------- 131
D E+ +E A+ H + L + C +V D++ G D EHVP
Sbjct: 74 DASEENIEVAKLHAKKDPLLKIEYRCTSVEDLAEKGAKSFDVVTCMEVLEHVPDPQAFIR 133
Query: 132 --WSRFKQGG 139
K GG
Sbjct: 134 ACAQLLKPGG 143
>gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional.
Length = 1205
Score = 28.0 bits (62), Expect = 6.0
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 3/68 (4%)
Query: 137 QGGAASEAAAKDLVIILEAMRIIAVALSPVTPNLCWRIYEQL---GYSNEQFGNAAWSDT 193
+G E + L + + V ++P TP + IY+QL +NE N +T
Sbjct: 863 RGSLGEENCLQSLCTTYRTLHLFTVLMAPFTPFITEYIYQQLRRVKSTNEHNENNETGNT 922
Query: 194 KWGGLKGG 201
K G L G
Sbjct: 923 KEGDLNRG 930
>gnl|CDD|132719 cd00630, RNAP_largest_subunit_C, Largest subunit of RNA polymerase
(RNAP), C-terminal domain. RNA polymerase (RNAP) is a
large multi-subunit complex responsible for the
synthesis of RNA. It is the principal enzyme of the
transcription process, and is the final target in many
regulatory pathways that control gene expression in all
living cells. At least three distinct RNAP complexes are
found in eukaryotic nuclei, RNAP I, RNAP II, and RNAP
III, for the synthesis of ribosomal RNA precursor, mRNA
precursor, and 5S and tRNA, respectively. A single
distinct RNAP complex is found in prokaryotes and
archaea, which may be responsible for the synthesis of
all RNAs. Structure studies revealed that prokaryotic
and eukaryotic RNAPs share a conserved crab-claw-shape
structure. The largest and the second largest subunits
each make up one clamp, one jaw, and part of the cleft.
The largest RNAP subunit (Rpb1) interacts with the
second-largest RNAP subunit (Rpb2) to form the DNA entry
and RNA exit channels in addition to the catalytic
center of RNA synthesis. The region covered by this
domain makes up part of the foot and jaw structures. In
archaea, some photosynthetic organisms, and some
organelles, this domain exists as a separate subunit,
while it forms the C-terminal region of the RNAP largest
subunit in eukaryotes and bacteria.
Length = 158
Score = 27.0 bits (60), Expect = 6.4
Identities = 21/105 (20%), Positives = 43/105 (40%), Gaps = 23/105 (21%)
Query: 3 KSLGNTLEPNELVHNFGSDAVRYFFLKEVE--FGNDGDYSEDRFIKIVNAHLANTIGNLL 60
K + N +E++ G +A R ++E++ + G + R I++ I +++
Sbjct: 42 KEILNAASIHEMLEALGIEAARETIIREIQKVLASQGVSVDRRHIEL--------IADVM 93
Query: 61 NRTLGLLKKNCQSTLVVDSAVAAEGT------AFKDTVEKLVETA 99
+ GL V S A T +F+ T + L++ A
Sbjct: 94 TYSGGLRG-------VTRSGFRASKTSPLMRASFEKTTKHLLDAA 131
>gnl|CDD|220262 pfam09485, CRISPR_Cse2, CRISPR-associated protein Cse2
(CRISPR_cse2). Clusters of short DNA repeats with
non-homologous spacers, which are found at regular
intervals in the genomes of phylogenetically distinct
prokaryotic species, comprise a family with recognisable
features. This family is known as CRISPR (short for
Clustered, Regularly Interspaced Short Palindromic
Repeats). A number of protein families appear only in
association with these repeats and are designated Cas
(CRISPR-Associated) proteins. This family of proteins,
represented by CT1973 from Chlorobaculum tepidum, is
encoded by genes found in the CRISPR/Cas subtype Ecoli
regions of many bacteria (most of which are mesophiles),
and not in Archaea. It is designated Cse2.
Length = 143
Score = 27.0 bits (60), Expect = 6.5
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 34 GNDGDYSEDRFIKIVNAHLANTIGNLLNRTLGLLKKN 70
G+ D SE RF +++ A + + L R + LL+ +
Sbjct: 75 GDKSDVSERRFRQLLRADTPDELLRRLRRLVRLLRGD 111
>gnl|CDD|234964 PRK01611, argS, arginyl-tRNA synthetase; Reviewed.
Length = 507
Score = 27.4 bits (62), Expect = 7.7
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 7 NTLEPNELVHNFGSDAVRYFFLK 29
+E E+ G DAVRYF L
Sbjct: 346 ELIEEKEIAEAVGIDAVRYFDLS 368
>gnl|CDD|234818 PRK00708, PRK00708, sec-independent translocase; Provisional.
Length = 209
Score = 26.7 bits (59), Expect = 10.0
Identities = 12/46 (26%), Positives = 15/46 (32%), Gaps = 3/46 (6%)
Query: 203 VMAQPKPVFGRIELKTGTEDGGEPAAAKQVAKKKEKKAKAQAVAEA 248
A PK + + + AA K KKAK A A
Sbjct: 146 AAAAPKAP---AKPRAKSPRPAAKAAPKPTETITAKKAKKTAAAPK 188
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
0.314 0.130 0.376
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,517,797
Number of extensions: 1185020
Number of successful extensions: 1080
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1049
Number of HSP's successfully gapped: 71
Length of query: 248
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 154
Effective length of database: 6,768,326
Effective search space: 1042322204
Effective search space used: 1042322204
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.2 bits)