RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10609
(715 letters)
>gnl|CDD|178496 PLN02908, PLN02908, threonyl-tRNA synthetase.
Length = 686
Score = 667 bits (1723), Expect = 0.0
Identities = 253/413 (61%), Positives = 303/413 (73%), Gaps = 34/413 (8%)
Query: 278 DFPVMEGLMKDIVKEKQPFERLEMKKEDLIEMFKYNPFKLRILKEKVNTPTTTAYRCGPL 337
DF +E + VKEKQPFER+E+ +E+ +EMF N FK+ I+ + T T YRCGPL
Sbjct: 169 DFKPIEARAEKAVKEKQPFERIEVTREEALEMFSENKFKVEIINDLPEDATITVYRCGPL 228
Query: 338 IDLCRGPHVRHTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRGPHNSST 397
+DLCRGPH+ +T +KAF K SS
Sbjct: 229 VDLCRGPHIPNTSFVKAFACLKA----------------------------------SSA 254
Query: 398 YWEGKADAESLQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFHELSPGSC 457
YW G D ESLQRVYGISFPD K LKE++ EEA KRDHR +G++QELFFFHELSPGSC
Sbjct: 255 YWRGDVDRESLQRVYGISFPDKKLLKEYKHRIEEAKKRDHRLLGQKQELFFFHELSPGSC 314
Query: 458 FFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVEN 517
FF P GA IYN L++FIR +Y +RG+ EV++PN+YN+ LW+TSGH AHY ENMF F++E
Sbjct: 315 FFLPHGARIYNKLMDFIREQYWERGYDEVITPNIYNMDLWETSGHAAHYKENMFVFEIEK 374
Query: 518 ETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDA 577
+ + LKPMNCPGHCL+F HRVRS+RELPLR+ADFGVLHRNELSGALTGLTRVRRFQQDDA
Sbjct: 375 QEFGLKPMNCPGHCLMFAHRVRSYRELPLRLADFGVLHRNELSGALTGLTRVRRFQQDDA 434
Query: 578 HIFCTVEQIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPEKYLGELEVWNKAEKQLEASL 637
HIFC +QI DE+ G LDFL VY +FGFT+ L+LSTRPEKYLG+LE W+KAE L +L
Sbjct: 435 HIFCREDQIKDEVKGVLDFLDYVYEVFGFTYELKLSTRPEKYLGDLETWDKAEAALTEAL 494
Query: 638 NSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNLAYV 690
N+FG+PW N GDGAFYGPKIDIT++DALKR QCAT+QLDFQLPIRF L+Y
Sbjct: 495 NAFGKPWQLNEGDGAFYGPKIDITVSDALKRKFQCATVQLDFQLPIRFKLSYS 547
Score = 151 bits (383), Expect = 2e-38
Identities = 69/181 (38%), Positives = 93/181 (51%), Gaps = 43/181 (23%)
Query: 39 QVTLPDGKIVPAKSWRTTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLETNCKLELLN 98
+VTLPDG + K W TTP D+A ISKGLA+S +IA+V+GVLWD+ RPLE +CKL+L
Sbjct: 53 KVTLPDGAVKDGKKWVTTPMDIAKEISKGLANSALIAQVDGVLWDMTRPLEGDCKLKLF- 111
Query: 99 KFDNEEASSVFWLAFVNGVLWDLDRPLETNCKLELLNKFDNEEASSVFWHSTAHVLGEAM 158
KFD++E FWHS+AH+LGEA+
Sbjct: 112 -------------------------------------KFDDDEGRDTFWHSSAHILGEAL 134
Query: 159 ERVYGGCLCYGPPIEN--GFYYDMYLDGEAQMERITLWDKLKKQYDEEIAAKVP-EEIQV 215
E YG LC GP GFYYD + E + ++ + ++ + K P E I+V
Sbjct: 135 ELEYGCKLCIGPCTTRGEGFYYDAFYGDRTLNE--EDFKPIEARAEKAVKEKQPFERIEV 192
Query: 216 T 216
T
Sbjct: 193 T 193
Score = 78.3 bits (193), Expect = 5e-15
Identities = 27/62 (43%), Positives = 41/62 (66%)
Query: 190 RITLWDKLKKQYDEEIAAKVPEEIQVTLPDGKIVPAKSWRTTPYDVAAGISKGLADSTII 249
RI L++K++ + + + + I+VTLPDG + K W TTP D+A ISKGLA+S +I
Sbjct: 29 RIELFEKIQARQLARLESAGGDPIKVTLPDGAVKDGKKWVTTPMDIAKEISKGLANSALI 88
Query: 250 AK 251
A+
Sbjct: 89 AQ 90
>gnl|CDD|234752 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 567 bits (1465), Expect = 0.0
Identities = 196/417 (47%), Positives = 259/417 (62%), Gaps = 38/417 (9%)
Query: 278 DFPVMEGLMKDIVKEKQPFERLEMKKEDLIEMFKY--NPFKLRILKEKVNTPTTTAYRCG 335
D +E MK+I+KE P ER + +E+ IE+FK P+K+ +++E + YR G
Sbjct: 116 DLEAIEKEMKEIIKENYPIEREVVSREEAIELFKDRGEPYKVELIEEIPEDEEISLYRQG 175
Query: 336 PLIDLCRGPHVRHTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRGPHNS 395
+DLCRGPHV TGKIKAFK+ K +
Sbjct: 176 EFVDLCRGPHVPSTGKIKAFKLLKV----------------------------------A 201
Query: 396 STYWEGKADAESLQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFHELSPG 455
YW G + + LQR+YG +F D K+L + EEA KRDHRK+G+E +LF F E +PG
Sbjct: 202 GAYWRGDSKNKMLQRIYGTAFADKKELDAYLHRLEEAKKRDHRKLGKELDLFHFQEEAPG 261
Query: 456 SCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMF-SFD 514
F+ PKG I L +IR + RK G+QEV +P + + +LW+TSGHW HY ENMF + +
Sbjct: 262 LPFWHPKGWTIRRELERYIRRKLRKAGYQEVKTPQILDRELWETSGHWDHYRENMFPTTE 321
Query: 515 VENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQ 574
+ E YALKPMNCPGH I+ +RS+R+LPLR+A+FG +HR E SGAL GL RVR F Q
Sbjct: 322 SDGEEYALKPMNCPGHVQIYKQGLRSYRDLPLRLAEFGTVHRYEPSGALHGLMRVRGFTQ 381
Query: 575 DDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLSTRPEKYLGELEVWNKAEKQL 633
DDAHIFCT EQI +E+ +D + +VY FGF + ++LSTRPEK +G E+W+KAE L
Sbjct: 382 DDAHIFCTPEQIEEEVKKVIDLILDVYKDFGFEDYEVKLSTRPEKRIGSDEMWDKAEAAL 441
Query: 634 EASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNLAYV 690
+ +L+ G + PG+GAFYGPKID + DAL R QC TIQLDF LP RF+L YV
Sbjct: 442 KEALDELGLDYEIAPGEGAFYGPKIDFQLKDALGREWQCGTIQLDFNLPERFDLTYV 498
Score = 119 bits (300), Expect = 8e-28
Identities = 55/210 (26%), Positives = 86/210 (40%), Gaps = 72/210 (34%)
Query: 39 QVTLPDGKI--VPAKSWRTTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLETNCKLEL 96
++TLPDG + A T DVAA IS GLA + + KVNG L DL P+E + LE+
Sbjct: 3 KITLPDGSVREFEAG---VTVADVAASISPGLAKAAVAGKVNGELVDLSTPIEEDASLEI 59
Query: 97 LNKFDNEEASSVFWLAFVNGVLWDLDRPLETNCKLELLNKFDNEEASSVFWHSTAHVLGE 156
+ +EE + HS AH+L +
Sbjct: 60 I--------------------------------------TAKDEEGLEIIRHSAAHLLAQ 81
Query: 157 AMERVYGG-CLCYGPPIENGFYYDMYLDG----------EAQMERI-----------TLW 194
A++R+Y L GP IENGFYYD + E +M+ I
Sbjct: 82 AVKRLYPDAKLTIGPVIENGFYYDFDRERPFTPEDLEAIEKEMKEIIKENYPIEREVVSR 141
Query: 195 DKLKKQYDE-------EIAAKVPEEIQVTL 217
++ + + + E+ ++PE+ +++L
Sbjct: 142 EEAIELFKDRGEPYKVELIEEIPEDEEISL 171
Score = 43.1 bits (103), Expect = 5e-04
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 213 IQVTLPDGKI--VPAKSWRTTPYDVAAGISKGLADSTIIAK 251
I++TLPDG + A T DVAA IS GLA + + K
Sbjct: 2 IKITLPDGSVREFEAG---VTVADVAASISPGLAKAAVAGK 39
>gnl|CDD|237050 PRK12305, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 575
Score = 520 bits (1342), Expect = e-178
Identities = 190/421 (45%), Positives = 251/421 (59%), Gaps = 39/421 (9%)
Query: 274 VSTLDFPVMEGLMKDIVKEKQPFERLEMKKEDLIEMFKYNPFKLRILKEKVNTPTTTAYR 333
+ D +E MK I+K PFER E+ +E+ E F P+KL ++ + T Y
Sbjct: 50 FTPEDLKKIEKKMKKIIKRGLPFEREEVSREEAREEFANEPYKLELIDDIPE-EGITIYD 108
Query: 334 CGPLIDLCRGPHVRHTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRGPH 393
G DLCRGPHV +T IKAFK+T
Sbjct: 109 NGDFEDLCRGPHVPNTKFIKAFKLTS---------------------------------- 134
Query: 394 NSSTYWEGKADAESLQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFH-EL 452
+ YW G LQR+YG ++ ++LKE+ K EEA KRDHRK+G+E +LF F E+
Sbjct: 135 VAGAYWRGDEKNPQLQRIYGTAWETKEELKEYLKRLEEAKKRDHRKLGKELDLFSFPDEI 194
Query: 453 SPGSCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFS 512
PG + PKGA I + +++R E+ KRG++ V +P++ LW+TSGH +Y ENMF
Sbjct: 195 GPGLPVWHPKGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSDLWKTSGHLDNYKENMFP 254
Query: 513 F-DVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRR 571
+++ E Y LKPMNCPGH LI+ R+RS+R+LPLR+A+FG ++R E SG L GLTRVR
Sbjct: 255 PMEIDEEEYYLKPMNCPGHILIYKSRLRSYRDLPLRLAEFGTVYRYEKSGVLHGLTRVRG 314
Query: 572 FQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLSTR-PEKYLGELEVWNKA 629
F QDDAHIFCT +QI DEI+ LDF+ + FGF + L LSTR PEKY+G+ EVW KA
Sbjct: 315 FTQDDAHIFCTPDQIEDEILKVLDFVLELLKDFGFKDYYLELSTREPEKYVGDDEVWEKA 374
Query: 630 EKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNLAY 689
+ L +L G + E+PG AFYGPKID+ I DAL R Q +TIQLDF LP RF+L Y
Sbjct: 375 TEALREALEELGLEYVEDPGGAAFYGPKIDVQIKDALGREWQMSTIQLDFNLPERFDLEY 434
Query: 690 V 690
Sbjct: 435 T 435
Score = 54.0 bits (131), Expect = 2e-07
Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 8/76 (10%)
Query: 138 DNEEASSVFWHSTAHVLGEAMERVYGGC-LCYGPPIENGFYYDMYLDGEAQMERITLWD- 195
D+ + V HS AHVL +A++ ++ L GPPIE+GFYYD + E T D
Sbjct: 1 DSPDGLEVIRHSAAHVLAQAVQELFPDAKLGIGPPIEDGFYYDFDVP-----EPFTPEDL 55
Query: 196 -KLKKQYDEEIAAKVP 210
K++K+ + I +P
Sbjct: 56 KKIEKKMKKIIKRGLP 71
>gnl|CDD|223518 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 483 bits (1246), Expect = e-163
Identities = 192/420 (45%), Positives = 255/420 (60%), Gaps = 42/420 (10%)
Query: 274 VSTLDFPVMEGLMKDIVKEKQPFERLEMKKEDLIEMFKYNPFKLRILKEKVNTPTTTAYR 333
++ D +E MK+I KE P ER + +E+ F P+K ++ K + + Y
Sbjct: 68 ITPEDLLKIEKEMKEIAKENLPIEREVVSREEARAPFG--PYKAELIDCKGHPLS--EYS 123
Query: 334 CGPLIDLCRGPHVRHTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRGPH 393
G +DLCRGPHV TGKI AFK+ K
Sbjct: 124 QGEFVDLCRGPHVPSTGKI-AFKLLK---------------------------------- 148
Query: 394 NSSTYWEGKADAESLQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFH-EL 452
+ YW G + E LQR+YG +F D K+L+ + K EEA KRDHRK+G+E +LF F E
Sbjct: 149 LAGAYWRGDENNEMLQRIYGTAFADKKELEAYLKRLEEAKKRDHRKLGKELDLFSFSPEE 208
Query: 453 SPGSCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFS 512
PG F+ PKGA I N L +++R++ R G+QEV +P + +++LW+ SGHW +Y E+MF
Sbjct: 209 GPGLPFWHPKGATIRNLLEDYVRTKLRSYGYQEVKTPVLADLELWELSGHWDNYKEDMFL 268
Query: 513 FDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRF 572
+ ++ YALKPMNCPGH LIF +RS+RELPLR+A+FG ++R E SGAL GL RVR F
Sbjct: 269 TESDDREYALKPMNCPGHILIFKSGLRSYRELPLRLAEFGYVYRYEKSGALHGLMRVRGF 328
Query: 573 QQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLSTRPEKYLGELEVWNKAEK 631
QDDAHIFCT +QI DE G L+ + VY FGFT + ++LSTRP K++G E+W+KAE
Sbjct: 329 TQDDAHIFCTPDQIKDEFKGILELILEVYKDFGFTDYEVKLSTRP-KFIGSDEMWDKAEA 387
Query: 632 QLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNLAYVK 691
L +L G + E PG+GAFYGPKID + DAL R Q TIQLDF LP RF+L YV
Sbjct: 388 ALREALKEIGVEYVEEPGEGAFYGPKIDFQVKDALGREWQLGTIQLDFNLPERFDLEYVD 447
Score = 62.3 bits (152), Expect = 5e-10
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 4/63 (6%)
Query: 121 LDRPLETNCKLELLNKFDNEEASSVFWHSTAHVLGEAMERVYGGCLCYGPPIENGFYYDM 180
+D L+ ++ ++EE + HS AHVL +A++R+Y + GP IE GFYYD
Sbjct: 7 VDGELDLKDEIIT---AEDEEGLEIIRHSCAHVLAQAVKRLYPD-VTIGPVIEEGFYYDF 62
Query: 181 YLD 183
+
Sbjct: 63 DVK 65
>gnl|CDD|232967 TIGR00418, thrS, threonyl-tRNA synthetase. This model represents
the threonyl-tRNA synthetase found in most organisms.
This protein is a class II tRNA synthetase, and is
recognized by the pfam model tRNA-synt_2b. Note that B.
subtilis has closely related isozymes thrS and thrZ. The
N-terminal regions are quite dissimilar between archaeal
and eubacterial forms, while some eukaryotic forms are
missing sequence there altogether. [Protein synthesis,
tRNA aminoacylation].
Length = 563
Score = 468 bits (1206), Expect = e-158
Identities = 191/423 (45%), Positives = 251/423 (59%), Gaps = 40/423 (9%)
Query: 274 VSTLDFPVMEGLMKDIVKEKQPFERLEMKKEDLIEMFK-YNPFKLRILKEKVNTPTTTAY 332
+ D +E MK+I K+ P +L + E+ +E FK P+KL +L E N T Y
Sbjct: 41 FTQEDLEKIEKDMKEIAKKNYPVAKLSVSLEEALEAFKVLEPYKLELLDEIPNGVKRTPY 100
Query: 333 RCG-PLIDLCRGPHVRHTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRG 391
G +DLC+GPH+ +T IKAFK+ K
Sbjct: 101 GWGKAFVDLCKGPHLPNTSFIKAFKLEK-------------------------------- 128
Query: 392 PHNSSTYWEGKADAESLQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFHE 451
+ YW G + + LQR+YG ++ D KQL + EEA KRDHRK+G+E ELF F
Sbjct: 129 --VAGAYWRGDSKNKMLQRIYGTAWADKKQLAAYLLRLEEAKKRDHRKLGKELELFSFEP 186
Query: 452 LS-PGSCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENM 510
PG F+ PKGA I N L +F+R + K G+ EV +P +Y+++LW+ SGHW +Y E M
Sbjct: 187 EIGPGLPFWLPKGATIRNLLEDFVRQKQIKYGYMEVETPIMYDLELWEISGHWDNYKERM 246
Query: 511 FSF-DVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRV 569
F F +++N + LKPMNCPGH LIF +RS+R+LPLR+A+ G HR E SG L GL RV
Sbjct: 247 FPFTELDNREFMLKPMNCPGHFLIFKSSLRSYRDLPLRIAELGYSHRYEQSGELHGLMRV 306
Query: 570 RRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFTFN-LRLSTR-PEKYLGELEVWN 627
R F QDDAHIFCT +QI +E ++ VYS FGF+F+ LSTR PE ++GE E+W
Sbjct: 307 RGFTQDDAHIFCTEDQIKEEFKNQFRLIQKVYSDFGFSFDKYELSTRDPEDFIGEDELWE 366
Query: 628 KAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNL 687
KAE LE +L G P+ +PG GAFYGPKID DAL R QCAT+QLDF+LP RF+L
Sbjct: 367 KAEAALEEALKELGVPYEIDPGRGAFYGPKIDFAFKDALGREWQCATVQLDFELPERFDL 426
Query: 688 AYV 690
YV
Sbjct: 427 TYV 429
Score = 52.7 bits (127), Expect = 5e-07
Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 147 WHSTAHVLGEAMERVYGG-CLCYGPPIENGFYYDMYLDGEAQMERITLWDKLKKQYDEEI 205
HS AH+L EA++++Y L GP +E+GFYYD LD E + +K++K E
Sbjct: 1 RHSIAHLLAEALKQLYPDVKLAIGPVVEDGFYYDFELDRSFTQEDL---EKIEKDMKEIA 57
Query: 206 AAKVP 210
P
Sbjct: 58 KKNYP 62
>gnl|CDD|238394 cd00771, ThrRS_core, Threonyl-tRNA synthetase (ThrRS) class II core
catalytic domain. ThrRS is a homodimer. It is
responsible for the attachment of threonine to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain.
Length = 298
Score = 456 bits (1176), Expect = e-157
Identities = 151/257 (58%), Positives = 183/257 (71%), Gaps = 1/257 (0%)
Query: 435 RDHRKIGREQELFFFHELSPGSCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNV 494
R G + FFF E PG F+ PKGA I N L +F+R RKRG+QEV +P +YN
Sbjct: 1 DHRRLGGELELFFFFDEAGPGLPFWLPKGAIIRNELEDFLRELQRKRGYQEVETPIIYNK 60
Query: 495 KLWQTSGHWAHYSENMFSFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVL 554
+LW+TSGHW HY ENMF F+ E+E Y LKPMNCPGHCLIF + RS+R+LPLR+A+FG +
Sbjct: 61 ELWETSGHWDHYRENMFPFEEEDEEYGLKPMNCPGHCLIFKSKPRSYRDLPLRLAEFGTV 120
Query: 555 HRNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLS 613
HR E SGAL GLTRVR F QDDAHIFCT +QI +EI G LD ++ VYS FGF + + LS
Sbjct: 121 HRYEQSGALHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSDFGFFDYKVELS 180
Query: 614 TRPEKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCA 673
TRPEK++G EVW KAE L +L G P+ N G+GAFYGPKID + DAL R QC+
Sbjct: 181 TRPEKFIGSDEVWEKAEAALREALEEIGLPYEINEGEGAFYGPKIDFHVKDALGREWQCS 240
Query: 674 TIQLDFQLPIRFNLAYV 690
TIQLDF LP RF+L Y+
Sbjct: 241 TIQLDFNLPERFDLTYI 257
>gnl|CDD|183530 PRK12444, PRK12444, threonyl-tRNA synthetase; Reviewed.
Length = 639
Score = 448 bits (1154), Expect = e-149
Identities = 186/419 (44%), Positives = 259/419 (61%), Gaps = 36/419 (8%)
Query: 274 VSTLDFPVMEGLMKDIVKEKQPFERLEMKKEDLIEMFKYN--PFKLRILKEKVNTPTTTA 331
V+ D +E MK I+ E ER+E+ +E+ ++F+ KL +L+ + + T
Sbjct: 116 VNVEDLRKIEKEMKKIINENIKIERVEVSREEAAKLFQEMNDRLKLELLEAIPSGESITL 175
Query: 332 YRCGPLIDLCRGPHVRHTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRG 391
Y+ G +DLCRGPH+ TG +KAF++T
Sbjct: 176 YKQGEFVDLCRGPHLPSTGYLKAFQLT--------------------------------- 202
Query: 392 PHNSSTYWEGKADAESLQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFHE 451
H S YW G ++ + LQR+YG++F K+L+E+ EEAAKR+HRK+G+E ELF F E
Sbjct: 203 -HVSGAYWRGDSNNQVLQRIYGVAFSSQKELEEYLHFVEEAAKRNHRKLGKELELFMFSE 261
Query: 452 LSPGSCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMF 511
+PG F+ PKG I N L F+R ++ +QEV +P + N +LW+ SGHW HY +NM+
Sbjct: 262 EAPGMPFYLPKGQIIRNELEAFLREIQKEYNYQEVRTPFMMNQELWERSGHWDHYKDNMY 321
Query: 512 SFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRR 571
+V+N+++ALKPMNCPGH L+F +++ S+RELP+RM +FG +HR+E SGAL GL RVR
Sbjct: 322 FSEVDNKSFALKPMNCPGHMLMFKNKLHSYRELPIRMCEFGQVHRHEFSGALNGLLRVRT 381
Query: 572 FQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPEKYLGELEVWNKAEK 631
F QDDAH+F T +QI DEI + + VY FGF + + LSTRPE +G+ E+W +AE
Sbjct: 382 FCQDDAHLFVTPDQIEDEIKSVMAQIDYVYKTFGFEYEVELSTRPEDSMGDDELWEQAEA 441
Query: 632 QLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNLAYV 690
LE L S + N GDGAFYGPKID I DAL R HQC TIQLDFQ+P +F+L Y+
Sbjct: 442 SLENVLQSLNYKYRLNEGDGAFYGPKIDFHIKDALNRSHQCGTIQLDFQMPEKFDLNYI 500
Score = 77.9 bits (192), Expect = 9e-15
Identities = 46/166 (27%), Positives = 69/166 (41%), Gaps = 54/166 (32%)
Query: 39 QVTLPDGKIVPAKSWR--TTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLETNCKLEL 96
++ PDG + K + T ++A IS L + KVN L+DL R LE + ++E+
Sbjct: 7 EIKFPDGSV---KEFVKGITLEEIAGSISSSLKKKAVAGKVNDKLYDLRRNLEEDAEVEI 63
Query: 97 LNKFDNEEASSVFWLAFVNGVLWDLDRPLETNCKLELLNKFDNEEASSVFWHSTAHVLGE 156
+ D+ E + HS AH+L +
Sbjct: 64 IT--------------------------------------IDSNEGVEIARHSAAHILAQ 85
Query: 157 AMERVYGGC-LCYGPPIENGFYYDMYLDG----------EAQMERI 191
A++R+YG L GP IENGFYYDM L E +M++I
Sbjct: 86 AVKRLYGDVNLGVGPVIENGFYYDMDLPSSVNVEDLRKIEKEMKKI 131
>gnl|CDD|215450 PLN02837, PLN02837, threonine-tRNA ligase.
Length = 614
Score = 316 bits (811), Expect = 1e-98
Identities = 161/411 (39%), Positives = 231/411 (56%), Gaps = 39/411 (9%)
Query: 286 MKDIVKEKQPFERLEMKKEDLIEMFKY--NPFKLRILKEKVNTPTTTAYRCG-PLIDLCR 342
M I+ P R E+ +E+ + P+KL IL E + T Y G DLC
Sbjct: 98 MDRIISRNLPLVREEVSREEAQKRIMAINEPYKLEIL-EGIKEEPITIYHIGEEWWDLCA 156
Query: 343 GPHVRHTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRGPHNSSTYWEGK 402
GPHV TGKI K + E V + YW G
Sbjct: 157 GPHVERTGKIN----------KKAVELESV----------------------AGAYWRGD 184
Query: 403 ADAESLQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFHELSPGS-CFFQP 461
+ LQR+YG ++ +QLK + +EEA +RDHR++G++ +LF + + G F+ P
Sbjct: 185 EKNQMLQRIYGTAWESEEQLKAYLHFKEEAKRRDHRRLGQDLDLFSIQDDAGGGLVFWHP 244
Query: 462 KGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFS-FDVENETY 520
KGA + + + + + + + G+ + +P+V LW+TSGH Y ENM+ D+E+E Y
Sbjct: 245 KGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKADLWKTSGHLDFYKENMYDQMDIEDELY 304
Query: 521 ALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIF 580
L+PMNCP H L++ ++ S+R+LP+R+A+ G ++R ELSG+L GL RVR F QDDAHIF
Sbjct: 305 QLRPMNCPYHILVYKRKLHSYRDLPIRVAELGTVYRYELSGSLHGLFRVRGFTQDDAHIF 364
Query: 581 CTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLSTRPEKYLGELEVWNKAEKQLEASLNS 639
C +QI DEI G LD + FGF+ + + LSTRPEK +G ++W KA L +L+
Sbjct: 365 CLEDQIKDEIRGVLDLTEEILKQFGFSKYEINLSTRPEKSVGSDDIWEKATTALRDALDD 424
Query: 640 FGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNLAYV 690
G + + G GAFYGPKID+ I DAL R QC+TIQ+DF LP RF++ YV
Sbjct: 425 KGWEYKVDEGGGAFYGPKIDLKIEDALGRKWQCSTIQVDFNLPERFDITYV 475
Score = 41.8 bits (98), Expect = 0.001
Identities = 24/66 (36%), Positives = 38/66 (57%), Gaps = 9/66 (13%)
Query: 148 HSTAHVLGEAMERVYGGC-LCYGPPIENGFYYDMYLDGEAQMERITLWD--KLKKQYDEE 204
H+ AHV+ A+++++ + GP IENGFYYD ME +T D ++KK+ D
Sbjct: 48 HTCAHVMAMAVQKLFPDAKVTIGPWIENGFYYDF------DMEPLTDKDLKRIKKEMDRI 101
Query: 205 IAAKVP 210
I+ +P
Sbjct: 102 ISRNLP 107
>gnl|CDD|184826 PRK14799, thrS, threonyl-tRNA synthetase; Provisional.
Length = 545
Score = 264 bits (677), Expect = 6e-80
Identities = 127/347 (36%), Positives = 195/347 (56%), Gaps = 14/347 (4%)
Query: 348 HTGKIKAFKVTKYNPFKLRILKEKVNTPTTTAYRCGPLIDLCRGPHNSSTYWEGKADAES 407
I+ ++ Y K+ I+++KV+ T + ++++ H+ + E
Sbjct: 61 ANVSIENNQIV-YKGNKVSIIEDKVSISTNLNPKYFEILNI--STHHPNP-------NEQ 110
Query: 408 LQRVYGISFPDNKQLKEWEKLQEEAAKRDHRKIGREQELFFFHELS-PGSCFFQPKGAFI 466
R+ G++F +QLK++ E+A + DHR IG + +LF FHE + G F PKG I
Sbjct: 111 YVRIRGVAFETEEQLKDYLTWLEKAEETDHRLIGEKLDLFSFHEEAGSGLVLFHPKGQTI 170
Query: 467 YNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVENETYALKPMN 526
N L+ F+R G+QEV + +V+ +W+ SGH+ Y + + F++E + Y +KPMN
Sbjct: 171 RNELIAFMREINDSMGYQEVYTSHVFKTDIWKISGHYTLYRDKLIVFNMEGDEYGVKPMN 230
Query: 527 CPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFCTVEQI 586
CP H LI+ + R++R+LP+R ++FG ++R E G L GL RVR F QDD HIF +Q+
Sbjct: 231 CPAHILIYKSKPRTYRDLPIRFSEFGHVYRWEKKGELYGLLRVRGFVQDDGHIFLREDQL 290
Query: 587 GDEIVGALDFLRNVYSIFGFT---FNLRLSTRPEKYLGELEVWNKAEKQLEASLNSFGEP 643
+EI + V+ FGF LSTRP++ +G E+W KA L ++L G
Sbjct: 291 REEIKMLISKTVEVWHKFGFKDDDIKPYLSTRPDESIGSDELWEKATNALISALQESGLK 350
Query: 644 WTENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIRFNLAYV 690
+ +GAFYGPKID I D+L R Q +TIQ+DF LP RF L Y+
Sbjct: 351 FGIKEKEGAFYGPKIDFEIRDSLGRWWQLSTIQVDFNLPERFKLEYI 397
>gnl|CDD|216009 pfam00587, tRNA-synt_2b, tRNA synthetase class II core domain (G,
H, P, S and T). Other tRNA synthetase sub-families are
too dissimilar to be included. This domain is the core
catalytic domain of tRNA synthetases and includes
glycyl, histidyl, prolyl, seryl and threonyl tRNA
synthetases.
Length = 171
Score = 167 bits (425), Expect = 2e-48
Identities = 60/172 (34%), Positives = 83/172 (48%), Gaps = 8/172 (4%)
Query: 466 IYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSEN-MFSF-DVENETYALK 523
+ N L FIR ++ G+QEV +P + +LW+ SGHW Y E M+ F D E L+
Sbjct: 1 LRNALENFIRELLKRYGYQEVDTPILEPKELWEGSGHWDDYFEEEMYKFKDRGGEELYLR 60
Query: 524 PMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFCTV 583
P G +F + + S+RELPL++ G R E GL RVR F Q DA IF T
Sbjct: 61 PTAEVGITRLFKNEILSYRELPLKLYQIGPCFRYEA-RPRRGLGRVREFTQVDAEIFGTP 119
Query: 584 EQIGDEIVGALDFLRNVYSIFGFTFNLRLSTR-----PEKYLGELEVWNKAE 630
EQ +E+ L + G + + L+T G+LE W AE
Sbjct: 120 EQSEEELEELLKLAEEILQDLGLPYRVVLATTGDLGGSASKEGDLEAWLPAE 171
>gnl|CDD|133437 cd01667, TGS_ThrRS_N, TGS _ThrRS_N: ThrRS (threonyl-tRNA
Synthetase) is a class II tRNA synthetase that couples
threonine to its cognate tRNA. In addition to its
catalytic and anticodon-binding domains, ThrRS has an
N-terminal TGS domain, named after the ThrRS, GTPase,
and SpoT proteins where it occurs. The TGS domain is
thought to interact with the tRNA acceptor arm along
with an adjacent N-terminal domain. The specific
function of TGS is not well understood.
Length = 61
Score = 90.6 bits (226), Expect = 2e-22
Identities = 30/59 (50%), Positives = 39/59 (66%), Gaps = 1/59 (1%)
Query: 39 QVTLPDGKIVPAKSWRTTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLETNCKLELL 97
++TLPDG + TTP D+A IS GLA + AKVNG L DL RPLE +C+LE++
Sbjct: 2 KITLPDGSVKEFPK-GTTPLDIAKSISPGLAKKAVAAKVNGELVDLSRPLEEDCELEII 59
Score = 52.9 bits (128), Expect = 4e-09
Identities = 18/39 (46%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 213 IQVTLPDGKIVPAKSWRTTPYDVAAGISKGLADSTIIAK 251
I++TLPDG + TTP D+A IS GLA + AK
Sbjct: 1 IKITLPDGSVKEFPK-GTTPLDIAKSISPGLAKKAVAAK 38
>gnl|CDD|238359 cd00670, Gly_His_Pro_Ser_Thr_tRS_core, Gly_His_Pro_Ser_Thr_tRNA
synthetase class II core domain. This domain is the core
catalytic domain of tRNA synthetases of the subgroup
containing glycyl, histidyl, prolyl, seryl and threonyl
tRNA synthetases. It is primarily responsible for
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. These enzymes belong to class II
aminoacyl-tRNA synthetases (aaRS) based upon their
structure and the presence of three characteristic
sequence motifs in the core domain. This domain is also
found at the C-terminus of eukaryotic GCN2 protein
kinase and at the N-terminus of the ATP
phosphoribosyltransferase accessory subunit, HisZ and
the accessory subunit of mitochondrial polymerase gamma
(Pol gamma b) . Most class II tRNA synthetases are
dimers, with this subgroup consisting of mostly
homodimers. These enzymes attach a specific amino acid
to the 3' OH group of ribose of the appropriate tRNA.
Length = 235
Score = 90.1 bits (224), Expect = 3e-20
Identities = 43/164 (26%), Positives = 73/164 (44%), Gaps = 6/164 (3%)
Query: 463 GAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-----DVEN 517
G ++ L F+ + G+QE++ P + L+ GH Y + M++F ++ +
Sbjct: 1 GTALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTFEDKGRELRD 60
Query: 518 ETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDA 577
L+P C IF + S+R LPLR+ G R+E SG GL RVR F+Q +
Sbjct: 61 TDLVLRPAACEPIYQIFSGEILSYRALPLRLDQIGPCFRHEPSGR-RGLMRVREFRQVEY 119
Query: 578 HIFCTVEQIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPEKYLG 621
+F E+ +E L+ + G + ++ P G
Sbjct: 120 VVFGEPEEAEEERREWLELAEEIARELGLPVRVVVADDPFFGRG 163
>gnl|CDD|217243 pfam02824, TGS, TGS domain. The TGS domain is named after ThrRS,
GTPase, and SpoT. Interestingly, TGS domain was
detected also at the amino terminus of the uridine
kinase from the spirochaete Treponema pallidum (but not
any other organism, including the related spirochaete
Borrelia burgdorferi). TGS is a small domain that
consists of ~50 amino acid residues and is predicted to
possess a predominantly beta-sheet structure. There is
no direct information on the functions of the TGS
domain, but its presence in two types of regulatory
proteins (the GTPases and guanosine polyphosphate
phosphohydrolases/synthetases) suggests a ligand (most
likely nucleotide)-binding, regulatory role.
Length = 60
Score = 76.7 bits (190), Expect = 1e-17
Identities = 22/58 (37%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 40 VTLPDGKIVPAKSWRTTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLETNCKLELL 97
V PDGK+ T P D A I L I AKVNG LD LE +E++
Sbjct: 3 VYTPDGKVPELPRGST-PEDFAYAIHTDLGKKFIGAKVNGQRVGLDHVLEDGDVVEIV 59
Score = 50.2 bits (121), Expect = 3e-08
Identities = 15/41 (36%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 213 IQVTLPDGKIVPAKSWRTTPYDVAAGISKGLADSTIIAKDW 253
I+V PDGK+ T P D A I L I AK
Sbjct: 1 IRVYTPDGKVPELPRGST-PEDFAYAIHTDLGKKFIGAKVN 40
>gnl|CDD|238391 cd00768, class_II_aaRS-like_core, Class II tRNA amino-acyl
synthetase-like catalytic core domain. Class II amino
acyl-tRNA synthetases (aaRS) share a common fold and
generally attach an amino acid to the 3' OH of ribose of
the appropriate tRNA. PheRS is an exception in that it
attaches the amino acid at the 2'-OH group, like class I
aaRSs. These enzymes are usually homodimers. This domain
is primarily responsible for ATP-dependent formation of
the enzyme bound aminoacyl-adenylate. The substrate
specificity of this reaction is further determined by
additional domains. Intererestingly, this domain is also
found is asparagine synthase A (AsnA), in the accessory
subunit of mitochondrial polymerase gamma and in the
bacterial ATP phosphoribosyltransferase regulatory
subunit HisZ.
Length = 211
Score = 74.5 bits (183), Expect = 5e-15
Identities = 50/200 (25%), Positives = 74/200 (37%), Gaps = 19/200 (9%)
Query: 465 FIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVENETYALKP 524
I L F+ GFQEV +P V L + +GH + + E L+P
Sbjct: 4 KIEQKLRRFMAE----LGFQEVETPIVEREPLLEKAGHE--PKDLLPVGAENEEDLYLRP 57
Query: 525 MNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFCTVE 584
PG +F V R+LPLR+A+ G RNE GL RVR F Q + +F
Sbjct: 58 TLEPGLVRLF---VSHIRKLPLRLAEIGPAFRNEGGRR--GLRRVREFTQLEGEVFGEDG 112
Query: 585 QIGDEIVGALDFLRNVYSIFGFTFNLR--LSTRPEKYLG------ELEVWNKAEKQLEAS 636
+ E ++ + G ++ T E G E+EV + + LE
Sbjct: 113 EEASEFEELIELTEELLRALGIKLDIVFVEKTPGEFSPGGAGPGFEIEVDHPEGRGLEIG 172
Query: 637 LNSFGEPWTENPGDGAFYGP 656
+ + D F
Sbjct: 173 SGGYRQDEQARAADLYFLDE 192
>gnl|CDD|235190 PRK03991, PRK03991, threonyl-tRNA synthetase; Validated.
Length = 613
Score = 61.8 bits (151), Expect = 7e-10
Identities = 70/297 (23%), Positives = 120/297 (40%), Gaps = 42/297 (14%)
Query: 415 SFPDNKQLKEWEKLQEEAAKRD--HRKIGREQELFFFHELS-PGSCFFQPKGAFIYNTLV 471
+ D K L ++E ++E + H K+ RE+EL + S G + PKG I + L
Sbjct: 175 GYEDLKALVDYEVGKKELVGGEPPHVKLMREKELADYEPASDVGHMRYYPKGRLIRDLLE 234
Query: 472 EFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVENETYALKPMNCPGHC 531
+++ + + G V +P +Y++ H + E + + + L+ C G
Sbjct: 235 DYVYNLVVELGAMPVETPIMYDLSHPAIREHADKFGERQYRVKSDKKDLMLRFAACFGQF 294
Query: 532 LIFDHRVRSWRELPLRM---ADFGVLHRNELSGALTGLTRVRRFQQDDAHIFC-----TV 583
L+ S++ LPL+M + + R E G L GL R+R F D H C +
Sbjct: 295 LMLKDMTISYKNLPLKMYELSTYS--FRLEQRGELVGLKRLRAFTMPDMHTLCKDMEQAM 352
Query: 584 EQIG---DEIVGAL-DFLRNVYSIFGFTFNLRLSTRPEKYLGELEVWNKAEKQLEASLNS 639
E+ + I+ D R+ FT E + E + W + +
Sbjct: 353 EEFEKQYEMILETGEDLGRDYEVAIRFT---------EDFYEENKDW------IVELVKR 397
Query: 640 FGEP-----WTENPGDGAFYGP-KIDITITDALKRPHQCATIQLDFQLPIRFNLAYV 690
G+P E Y K++ D+L RP + T+Q+D + RF + YV
Sbjct: 398 EGKPVLLEILPE----RKHYWVLKVEFAFIDSLGRPIENPTVQIDVENAERFGIKYV 450
>gnl|CDD|197931 smart00863, tRNA_SAD, Threonyl and Alanyl tRNA synthetase second
additional domain. The catalytically active form of
threonyl/alanyl tRNA synthetase is a dimer. Within the
tRNA synthetase class II dimer, the bound tRNA interacts
with both monomers making specific interactions with the
catalytic domain, the C-terminal domain, and this SAD
domain (the second additional domain). The second
additional domain is comprised of a pair of
perpendicularly orientated antiparallel beta sheets, of
four and three strands, respectively, that surround a
central alpha helix that forms the core of the domain.
Length = 43
Score = 50.8 bits (123), Expect = 1e-08
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 332 YRCGPL-IDLCRGPHVRHTGKIKAFKVTK 359
G ++LC G HV +TG+I AFK+
Sbjct: 4 VSIGDFSVELCGGTHVPNTGEIGAFKILS 32
>gnl|CDD|219676 pfam07973, tRNA_SAD, Threonyl and Alanyl tRNA synthetase second
additional domain. The catalytically active from of
threonyl/alanyl tRNA synthetase is a dimer. Within the
tRNA synthetase class II dimer, the bound tRNA interacts
with both monomers making specific interactions with the
catalytic domain, the C-terminal domain, and this domain
(the second additional domain). The second additional
domain is comprised of a pair of perpendicularly
orientated antiparallel beta sheets, of four and three
strands, respectively, that surround a central alpha
helix that forms the core of the domain.
Length = 44
Score = 50.2 bits (121), Expect = 2e-08
Identities = 15/31 (48%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 332 YRCGPL-IDLCRGPHVRHTGKIKAFKVTKYN 361
R G +DLC G HV +TG+I AFK+ K +
Sbjct: 4 VRIGDFDVDLCGGTHVPNTGEIGAFKILKGD 34
Score = 30.5 bits (70), Expect = 0.23
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 8/41 (19%)
Query: 380 YRCGPL-IDLCRGPHNSST-------YWEGKADAESLQRVY 412
R G +DLC G H +T +G + + LQR+Y
Sbjct: 4 VRIGDFDVDLCGGTHVPNTGEIGAFKILKGDSKNKGLQRIY 44
>gnl|CDD|232962 TIGR00409, proS_fam_II, prolyl-tRNA synthetase, family II.
Prolyl-tRNA synthetase is a class II tRNA synthetase and
is recognized by pfam model tRNA-synt_2b, which
recognizes tRNA synthetases for Gly, His, Ser, and Pro.
The prolyl-tRNA synthetases are divided into two widely
divergent groups. This group includes enzymes from
Escherichia coli, Bacillus subtilis, Aquifex aeolicus,
the spirochete Treponema pallidum, Synechocystis
PCC6803, and one of the two prolyL-tRNA synthetases of
Saccharomyces cerevisiae. The other group includes the
Pro-specific domain of a human multifunctional tRNA
ligase and the prolyl-tRNA synthetases from the Archaea,
the Mycoplasmas, and the spirochete Borrelia burgdorferi
[Protein synthesis, tRNA aminoacylation].
Length = 568
Score = 52.1 bits (125), Expect = 7e-07
Identities = 46/171 (26%), Positives = 75/171 (43%), Gaps = 13/171 (7%)
Query: 450 HELSPGSCFFQPKGAFIYNTL---------VE-FIRSEYRKRGFQEVVSPNVYNVKLWQT 499
H+L + F + G+ +YN L VE +R E K G EV+ P + +LWQ
Sbjct: 23 HQLLLRAGFIRRLGSGLYNWLPLGLRVLKKVENIVREEMNKDGAIEVLLPALQPAELWQE 82
Query: 500 SGHWAHYSENMFSF-DVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNE 558
SG W Y + D + + L P + + + ++S+++LPL + R+E
Sbjct: 83 SGRWDTYGPELLRLKDRKGREFVLGPTHEEVITDLARNEIKSYKQLPLNLYQIQTKFRDE 142
Query: 559 LSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALD-FLRNVYSIFGFTF 608
+ GL R R F DA+ F + E+ D + N++S G F
Sbjct: 143 IRPRF-GLMRGREFIMKDAYSFHSDEESLDATYQKMYQAYSNIFSRLGLDF 192
>gnl|CDD|223250 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 49.5 bits (119), Expect = 4e-06
Identities = 46/179 (25%), Positives = 78/179 (43%), Gaps = 22/179 (12%)
Query: 418 DNKQLKEWEKLQEEAAK---RDHRKIGREQELFFFHELS--PGS--CFFQPKGAFIYNTL 470
DN +++ W + +DH ++G + L F + GS F++ KGA + L
Sbjct: 121 DNVEVRRWGEPPVFVFDFEPKDHVELGEKLGLLDFERAAKVSGSRFYFYKGKGARLERAL 180
Query: 471 VEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVENETYALKPMNC-PG 529
++F+ + K GF EV+ P + N++ +G + E++ + VE+ L P P
Sbjct: 181 IQFMLDLHTKHGFTEVLPPYLVNLESMFGTGQLPKFEEDL--YKVEDPDLYLIPTAEVPL 238
Query: 530 HCLIFDHRVRSWRELPLRMADFGVLHRNELS--GALT-GLTRVRRFQQDDAHIFCTVEQ 585
L D + +LP++ + R+E G T GL RV H F VE
Sbjct: 239 TNLHRD-EILDEEDLPIKYTAYSPCFRSEAGSAGKDTRGLIRV--------HQFDKVEL 288
>gnl|CDD|238402 cd00779, ProRS_core_prok, Prolyl-tRNA synthetase (ProRS) class II
core catalytic domain. ProRS is a homodimer. It is
responsible for the attachment of proline to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain. This
subfamily contains the core domain of ProRS from
prokaryotes and from the mitochondria of eukaryotes.
Length = 255
Score = 47.2 bits (113), Expect = 1e-05
Identities = 35/130 (26%), Positives = 58/130 (44%), Gaps = 2/130 (1%)
Query: 452 LSPGSCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMF 511
S G + P G + + IR E K G QE++ P + +LW+ SG W Y +
Sbjct: 19 TSSGLYSWLPLGLRVLKKIENIIREEMNKIGAQEILMPILQPAELWKESGRWDAYGPELL 78
Query: 512 SF-DVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVR 570
D + + L P + + + ++S+++LPL + R+E+ GL R R
Sbjct: 79 RLKDRHGKEFLLGPTHEEVITDLVANEIKSYKQLPLNLYQIQTKFRDEIRPRF-GLMRGR 137
Query: 571 RFQQDDAHIF 580
F DA+ F
Sbjct: 138 EFLMKDAYSF 147
>gnl|CDD|232965 TIGR00414, serS, seryl-tRNA synthetase. This model represents the
seryl-tRNA synthetase found in most organisms. This
protein is a class II tRNA synthetase, and is recognized
by the pfam model tRNA-synt_2b. The seryl-tRNA
synthetases of two archaeal species, Methanococcus
jannaschii and Methanobacterium thermoautotrophicum,
differ considerably and are included in a different
model [Protein synthesis, tRNA aminoacylation].
Length = 418
Score = 47.0 bits (112), Expect = 2e-05
Identities = 43/183 (23%), Positives = 75/183 (40%), Gaps = 16/183 (8%)
Query: 418 DNK-QLKEWEKLQEEAAKRDHRKIGREQELFFFH---ELSPGSCF--FQPKGAFIYNTLV 471
DN + + + H ++G + F +++ GS F + GA + L+
Sbjct: 122 DNLEVKRWGTPPVFDFKPKPHWELGEKLGGLDFDRAVKVT-GSRFYYLKNDGAKLERALI 180
Query: 472 EFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVENETYALKPMNCPGHC 531
F+ K G+QE+ P + N + +G + E++F +E+ L P
Sbjct: 181 NFMLDLLEKNGYQEIYPPYLVNEESLDGTGQLPKFEEDIFK--LEDTDLYLIPTA--EVP 236
Query: 532 LIFDHR--VRSWRELPLRMADFGVLHRNEL--SGALT-GLTRVRRFQQDDAHIFCTVEQI 586
L HR + ELP++ R+E G T GL RV +F + + FC E+
Sbjct: 237 LTNLHRNEILEEEELPIKYTAHSPCFRSEAGSYGKDTKGLIRVHQFNKVELVKFCKPEES 296
Query: 587 GDE 589
+E
Sbjct: 297 AEE 299
>gnl|CDD|223519 COG0442, ProS, Prolyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 500
Score = 47.2 bits (113), Expect = 3e-05
Identities = 27/94 (28%), Positives = 45/94 (47%), Gaps = 9/94 (9%)
Query: 459 FQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVEN 517
+ P G + + IR E K G QEV+ P + +LW+ SG W + +F D +
Sbjct: 42 WLPLGLRVLEKIENIIREEMDKIGAQEVLFPTLIPAELWKESGRWEGFGPELFRVKDRGD 101
Query: 518 ETYALKPMN----CPGHCLIFDHRVRSWRELPLR 547
AL+P + +F +RS+++LPL+
Sbjct: 102 RPLALRPTSEEVITD----MFRKWIRSYKDLPLK 131
>gnl|CDD|238395 cd00772, ProRS_core, Prolyl-tRNA synthetase (ProRS) class II core
catalytic domain. ProRS is a homodimer. It is
responsible for the attachment of proline to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its structure and the presence of three
characteristic sequence motifs in the core domain.
Length = 264
Score = 42.0 bits (98), Expect = 5e-04
Identities = 38/194 (19%), Positives = 67/194 (34%), Gaps = 14/194 (7%)
Query: 455 GSCFFQPKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSG-HWAHYSENMFSF 513
G F P I + + + +++ G Q + P + H +S+ + F
Sbjct: 23 GIINFLPLAKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKEAEHDEGFSKELAVF 82
Query: 514 -----DVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTR 568
+ E +AL+P I ++SW++LP + G R+E+ G R
Sbjct: 83 KDAGDEELEEDFALRPTLEENIGEIAAKFIKSWKDLPQHLNQIGNKFRDEIR-PRFGFLR 141
Query: 569 VRRFQQDDAHIF-CTVEQIGDEIVGALDFLRNVYSIFG-FTFNLRLSTRPEKYLG----- 621
R F D H E+ +E + L + F + K+ G
Sbjct: 142 AREFIMKDGHSAHADAEEADEEFLNMLSAYAEIARDLAAIDFIEGEADEGAKFAGASKSR 201
Query: 622 ELEVWNKAEKQLEA 635
E E + K +A
Sbjct: 202 EFEALMEDGKAKQA 215
>gnl|CDD|238393 cd00770, SerRS_core, Seryl-tRNA synthetase (SerRS) class II core
catalytic domain. SerRS is responsible for the
attachment of serine to the 3' OH group of ribose of the
appropriate tRNA. This domain It is primarily
responsible for ATP-dependent formation of the enzyme
bound aminoacyl-adenylate. Class II assignment is based
upon its structure and the presence of three
characteristic sequence motifs in the core domain. SerRS
synthetase is a homodimer.
Length = 297
Score = 40.6 bits (96), Expect = 0.002
Identities = 43/177 (24%), Positives = 76/177 (42%), Gaps = 12/177 (6%)
Query: 418 DNKQLKEW-EKLQEEAAKRDHRKIGREQELFFFHELS----PGSCFFQPKGAFIYNTLVE 472
DN +++ W E + +DH ++G + ++ F + + + GA + L+
Sbjct: 1 DNVEIRRWGEPRVFDFKPKDHVELGEKLDILDFERGAKVSGSRFYYLKGDGALLERALIN 60
Query: 473 FIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVENETYALKPM-NCPGHC 531
F KRGF V+ P + ++ + +G + E ++ VE E L P
Sbjct: 61 FALDFLTKRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYK--VEGEDLYLIATAEVPLAA 118
Query: 532 LIFDHRVRSWRELPLRMADFGVLHRNELS--GALT-GLTRVRRFQQDDAHIFCTVEQ 585
L D + ELPL+ A + R E G T GL RV +F++ + +F E+
Sbjct: 119 LHRDEIL-EEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQFVFTKPEE 174
>gnl|CDD|133435 cd01616, TGS, The TGS domain, named after the ThrRS, GTPase, and
SpoT/RelA proteins where it occurs, is structurally
similar to ubiquitin. TGS is a small domain of about 50
amino acid residues with a predominantly beta-sheet
structure. There is no direct information on the
function of the TGS domain, but its presence in two
types of regulatory proteins (the GTPases and guanosine
polyphosphate phosphohydrolases/synthetases) suggests a
ligand (most likely nucleotide)-binding, regulatory
role.
Length = 60
Score = 33.8 bits (78), Expect = 0.019
Identities = 18/52 (34%), Positives = 20/52 (38%), Gaps = 1/52 (1%)
Query: 40 VTLPDGKIVPAKSWRTTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLETN 91
+ PDG V T D A I L I A VNG L DL L+
Sbjct: 3 IFTPDGSAVELPK-GATAMDFALKIHTDLGKGFIGALVNGQLVDLSYTLQDG 53
>gnl|CDD|133438 cd01668, TGS_RelA_SpoT, TGS_RelA_SpoT: The RelA (SpoT) protein,
also referred to as ppGpp hydrolase/synthetase, is a
ribosome-associated protein that is activated during
amino acid starvation and thought to mediate the
stringent response. RelA contains a TGS domain, named
after the Threonyl-tRNA Synthetase, GTPase, and SpoT
proteins where it occurs. The function of the TGS
domain is unknown.
Length = 60
Score = 33.6 bits (78), Expect = 0.023
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 43 PDGKIV--PAKSWRTTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLET 90
P G+I+ PA + T D A I + + + AKVNG L L L+
Sbjct: 6 PKGEIIELPAGA---TVLDFAYAIHTEIGNRCVGAKVNGKLVPLSTVLKD 52
>gnl|CDD|177954 PLN02320, PLN02320, seryl-tRNA synthetase.
Length = 502
Score = 37.2 bits (86), Expect = 0.028
Identities = 42/160 (26%), Positives = 71/160 (44%), Gaps = 12/160 (7%)
Query: 435 RDHRKIGREQELFFFH---ELSPGSCFFQPK--GAFIYNTLVEFIRSEYRKRGFQEVVSP 489
+DH ++G+E +LF F E+S GS F+ K + LV + SE K+GF + +P
Sbjct: 200 KDHLQLGKELDLFDFDAAAEVS-GSKFYYLKNEAVLLEMALVNWTLSEVMKKGFTPLTTP 258
Query: 490 NVYNVKLWQTSGHWAHYSENMFSFDVENETYAL-KPMNCPGHCLIFDHRVRSWRELPLRM 548
+ + + G + +N + ++ L P + D + LPL+
Sbjct: 259 EIVRSSVVEKCG-FQPRGDNTQVYSIDGSDQCLIGTAEIPVGGIHMD-SILLESALPLKY 316
Query: 549 ADFGVLHRNE--LSGALT-GLTRVRRFQQDDAHIFCTVEQ 585
F R E +GA T GL RV +F + + + C E+
Sbjct: 317 VAFSHCFRTEAGAAGAATRGLYRVHQFSKVEMFVICRPEE 356
>gnl|CDD|237059 PRK12325, PRK12325, prolyl-tRNA synthetase; Provisional.
Length = 439
Score = 37.1 bits (87), Expect = 0.028
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 474 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCL 532
+R E + G E++ P + LW+ SG + Y + M D + P N
Sbjct: 57 VREEQNRAGAIEILMPTIQPADLWRESGRYDAYGKEMLRIKDRHDREMLYGPTNEEMITD 116
Query: 533 IFDHRVRSWRELPL 546
IF V+S+++LPL
Sbjct: 117 IFRSYVKSYKDLPL 130
>gnl|CDD|236405 PRK09194, PRK09194, prolyl-tRNA synthetase; Provisional.
Length = 565
Score = 36.6 bits (86), Expect = 0.046
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 9/78 (11%)
Query: 474 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGH-- 530
+R E K G QEV+ P + +LWQ SG W Y + D + L P H
Sbjct: 57 VREEMNKIGAQEVLMPALQPAELWQESGRWEEYGPELLRLKDRHGRDFVLGPT----HEE 112
Query: 531 --CLIFDHRVRSWRELPL 546
+ + ++S+++LPL
Sbjct: 113 VITDLVRNEIKSYKQLPL 130
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 35.7 bits (83), Expect = 0.10
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 338 IDLCRGPHVRHTGKIKAFKVTKY 360
++LC G HV +TG I FK+
Sbjct: 666 VELCGGTHVSNTGDIGLFKIISE 688
>gnl|CDD|234876 PRK00960, PRK00960, seryl-tRNA synthetase; Provisional.
Length = 517
Score = 35.0 bits (81), Expect = 0.14
Identities = 30/153 (19%), Positives = 47/153 (30%), Gaps = 33/153 (21%)
Query: 453 SPGSCFFQPKGAFIYNTLVEFIRSE-YRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMF 511
G F+ P ++ + + E + GF E + P + +++ + E M+
Sbjct: 212 GRGQWFYTPPMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLEVMYKMRYLEGLPEGMY 271
Query: 512 -----SFDVE-------------------------NETYALKPMNCPGHCLIFDHRVRSW 541
D E + Y L P C F
Sbjct: 272 YVCPPKRDPEYFEEFVDEMMVKKEVPIEKLKEKLRDPGYVLAPAQCEPFYQFFQGETVDV 331
Query: 542 RELPLRMAD-FGVLHRNELSGALTGLTRVRRFQ 573
ELP++ D G +R E G GL RV F
Sbjct: 332 DELPIKFFDRSGWTYRWE-GGGAHGLERVNEFH 363
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 34.3 bits (80), Expect = 0.26
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 338 IDLCRGPHVRHTGKIKAFKVTK 359
I+LC G HV +TG I FK+
Sbjct: 652 IELCGGTHVSNTGDIGLFKIVS 673
>gnl|CDD|234962 PRK01584, PRK01584, alanyl-tRNA synthetase; Provisional.
Length = 594
Score = 34.4 bits (79), Expect = 0.27
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 338 IDLCRGPHVRHTGKIKAFKVTK 359
++C GPHV +TG++ FK+ K
Sbjct: 556 KEVCGGPHVENTGELGTFKIQK 577
>gnl|CDD|232931 TIGR00344, alaS, alanine--tRNA ligase. The model describes
alanine--tRNA ligase. This enzyme catalyzes the reaction
(tRNAala + L-alanine + ATP = L-alanyl-tRNAala +
pyrophosphate + AMP) [Protein synthesis, tRNA
aminoacylation].
Length = 851
Score = 34.3 bits (79), Expect = 0.28
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 338 IDLCRGPHVRHTGKIKAFKVTKYN 361
++LC G HVR+TG+I FK+ K +
Sbjct: 659 VELCGGTHVRNTGEIGLFKIVKES 682
>gnl|CDD|225427 COG2872, COG2872, Predicted metal-dependent hydrolases related to
alanyl-tRNA synthetase HxxxH domain [General function
prediction only].
Length = 241
Score = 33.5 bits (77), Expect = 0.30
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 10/84 (11%)
Query: 281 VMEGLMKDIVKEKQPFERLEMKKEDLIEMFKYNPFKLRILKEKV--NTPTTTAYRCGPLI 338
V + +VKE P + +E+ ++ L LK KV + I
Sbjct: 143 VEALANE-LVKENLPVIIYFIPREEAEKLPG-----LVKLKNKVPPDVEGKIRIVEIGDI 196
Query: 339 DL--CRGPHVRHTGKIKAFKVTKY 360
D+ C G HV++TG+I K+ K
Sbjct: 197 DVQPCGGTHVKNTGEIGEIKILKT 220
>gnl|CDD|232951 TIGR00389, glyS_dimeric, glycyl-tRNA synthetase, dimeric type.
This model describes a glycyl-tRNA synthetase distinct
from the two alpha and two beta chains of the tetrameric
E. coli glycyl-tRNA synthetase. This enzyme is a
homodimeric class II tRNA synthetase and is recognized
by pfam model tRNA-synt_2b, which recognizes His, Ser,
Pro, and this set of glycyl-tRNA synthetases [Protein
synthesis, tRNA aminoacylation].
Length = 551
Score = 32.1 bits (73), Expect = 1.1
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 542 RELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFC 581
R+LP +A G RNE+S GL RVR F+Q + F
Sbjct: 180 RKLPFGVAQIGKSFRNEISPR-NGLFRVREFEQAEIEFFV 218
Score = 29.8 bits (67), Expect = 5.3
Identities = 13/57 (22%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 455 GSCFFQPKGAFIYNTLVEFIRSEYRKR-GFQEVVSPNVYNVKLWQTSGHWAHYSENM 510
G + P GA + N + R + K E+ +P + ++ + SGH ++++ M
Sbjct: 28 GFWDYGPLGAVLKNNIKNAWRKFFIKNERVLEIDTPIITPEEVLKASGHVDNFTDWM 84
>gnl|CDD|213787 TIGR03222, benzo_boxC, benzoyl-CoA-dihydrodiol lyase. In the
presence of O2, the benzoyl-CoA oxygenase/reductase
BoxBA BoxAB converts benzoyl-CoA to
2,3-dihydro-2,3-dihydroxybenzoyl-CoA. Members of this
family, BoxC, homologous to enoyl-CoA
hydratases/isomerases, hydrolyze this compound to
3,4-dehydroadipyl-CoA semialdehyde + HCOOH.
Length = 546
Score = 32.1 bits (73), Expect = 1.1
Identities = 14/24 (58%), Positives = 18/24 (75%), Gaps = 3/24 (12%)
Query: 565 GLTRV---RRFQQDDAHIFCTVEQ 585
GLTRV RR ++D A IFCT+E+
Sbjct: 170 GLTRVTDKRRVRRDHADIFCTIEE 193
>gnl|CDD|238396 cd00773, HisRS-like_core, Class II Histidinyl-tRNA synthetase
(HisRS)-like catalytic core domain. HisRS is a
homodimer. It is responsible for the attachment of
histidine to the 3' OH group of ribose of the
appropriate tRNA. This domain is primarily responsible
for ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. Class II assignment is based upon
its structure and the presence of three characteristic
sequence motifs. This domain is also found at the
C-terminus of eukaryotic GCN2 protein kinase and at the
N-terminus of the ATP phosphoribosyltransferase
accessory subunit, HisZ. HisZ along with HisG catalyze
the first reaction in histidine biosynthesis. HisZ is
found only in a subset of bacteria and differs from
HisRS in lacking a C-terminal anti-codon binding domain.
Length = 261
Score = 31.0 bits (71), Expect = 1.8
Identities = 26/117 (22%), Positives = 42/117 (35%), Gaps = 13/117 (11%)
Query: 474 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCL 532
+R + + G++E+ +P +L+ S+ M+ F D AL+P
Sbjct: 12 LREVFERYGYEEIDTPVFEYTELFL-RKSGDEVSKEMYRFKDKGGRDLALRPDLTAPVAR 70
Query: 533 IFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDE 589
LPL++ G + R E R R F Q VE IG +
Sbjct: 71 AVAEN-LLSLPLPLKLYYIGPVFRYERPQKG----RYREFYQ------VGVEIIGSD 116
>gnl|CDD|181274 PRK08184, PRK08184, benzoyl-CoA-dihydrodiol lyase; Provisional.
Length = 550
Score = 31.1 bits (71), Expect = 2.3
Identities = 13/24 (54%), Positives = 18/24 (75%), Gaps = 3/24 (12%)
Query: 565 GLTRV---RRFQQDDAHIFCTVEQ 585
GLTRV R+ ++D A IFCT+E+
Sbjct: 174 GLTRVTDKRKVRRDLADIFCTIEE 197
>gnl|CDD|223500 COG0423, GRS1, Glycyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 558
Score = 30.8 bits (70), Expect = 2.5
Identities = 12/52 (23%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 461 PKGAFIYNTLVEFIRSEY--RKRGFQEVVSPNVYNVKLWQTSGHWAHYSENM 510
P G + N + E R + + E+ +P + ++W+ SGH +S+ +
Sbjct: 37 PLGVELKNNIKEAWRKSFVTEREDVVEIDTPIILPEEVWKASGHVDKFSDPL 88
>gnl|CDD|188213 TIGR02367, PylS_Cterm, pyrrolysyl-tRNA synthetase, C-terminal
region. PylS is the enzyme responsible for charging the
pyrrolysine tRNA, PylT, by ligating a free molecule of
pyrrolysine. Pyrrolysine is encoded at an in-frame UAG
(amber) at least in several corrinoid-dependent
methyltransferases of the archaeal genera Methanosarcina
and Methanococcoides, such as trimethylamine
methyltransferase. This protein occurs as a fusion
protein in Methanosarcina but as split genes in
Desulfitobacterium hafniense and other bacteria [Protein
synthesis, tRNA aminoacylation].
Length = 242
Score = 30.2 bits (68), Expect = 3.4
Identities = 22/95 (23%), Positives = 35/95 (36%), Gaps = 6/95 (6%)
Query: 470 LVEFIRSEYRKRGFQEVVSPNVYNVKLWQ--TSGHWAHYSENMFSFDVENETYALKPMNC 527
L + RGF +V +P + + + T +F D E L+PM
Sbjct: 31 LERELAKALVDRGFVQVKTPIIIPKEYLEKMTIDEDHPLFSQVFWVD---ENKCLRPMLA 87
Query: 528 PGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGA 562
P R W P+R+ + G +R E G+
Sbjct: 88 PNLYNYLRKLDRLW-PKPIRIFEIGPCYRKESQGS 121
>gnl|CDD|220964 pfam11068, DUF2869, Protein of unknown function (DUF2869). This
bacterial family of proteins has no known function.
Length = 131
Score = 29.1 bits (66), Expect = 3.7
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 10 VEELKLDGE---KQIESYSDVKVPKKCIGALN-QVTLPDGKIV 48
V+EL L E Q+ES+ +V+V I + ++ L DG +V
Sbjct: 86 VQELPLGSEVKQGQVESFVEVQVGDNLIQKMQVEIVLKDGVVV 128
>gnl|CDD|213552 TIGR00691, spoT_relA, (p)ppGpp synthetase, RelA/SpoT family. The
functions of E. coli RelA and SpoT differ somewhat. RelA
(EC 2.7.6.5) produces pppGpp (or ppGpp) from ATP and GTP
(or GDP). SpoT (EC 3.1.7.2) degrades ppGpp, but may also
act as a secondary ppGpp synthetase. The two proteins
are strongly similar. In many species, a single homolog
to SpoT and RelA appears reponsible for both ppGpp
synthesis and ppGpp degradation. (p)ppGpp is a
regulatory metabolite of the stringent response, but
appears also to be involved in antibiotic biosynthesis
in some species [Cellular processes, Adaptations to
atypical conditions].
Length = 683
Score = 30.4 bits (69), Expect = 4.3
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 7/75 (9%)
Query: 43 PDGKIV--PAKSWRTTPYDVAAGISKGLADSTIIAKVNGVLWDLDRPLETNCKLELLNKF 100
P G +V P+ S TP D A + + + AKVNG + LD+ LE +E++
Sbjct: 367 PKGDVVELPSGS---TPVDFAYAVHTDVGNKCTGAKVNGKIVPLDKELENGDVVEII--T 421
Query: 101 DNEEASSVFWLAFVN 115
SV WL FV
Sbjct: 422 GKNSNPSVIWLNFVV 436
>gnl|CDD|129509 TIGR00415, serS_MJ, seryl-tRNA synthetase, Methanococcus jannaschii
family. The seryl-tRNA synthetases from a few of the
Archaea, represented by this model, are very different
from the set of mutually more closely related seryl-tRNA
synthetases from Eubacteria, Eukaryotes, and other
Archaea. Although distantly homologous, the present set
differs enough not to be recognized by the pfam model
tRNA-synt_2b that recognizes the remainder of seryl-tRNA
synthetases among oither class II amino-acyl tRNA
synthetases [Protein synthesis, tRNA aminoacylation].
Length = 520
Score = 29.5 bits (66), Expect = 6.5
Identities = 37/152 (24%), Positives = 54/152 (35%), Gaps = 33/152 (21%)
Query: 455 GSCFFQPKGAFIYNTLVEFIRSEYRKR-GFQEVVSPNVYNVKLWQTSGHWAHYSENMF-- 511
G F+ PK ++ L EF E K+ GFQE + P + + + + E M+
Sbjct: 214 GQWFYGPKITALFRALEEFFIEEIVKKIGFQECLFPKLIPLDIMNKMRYLEGLPEGMYYC 273
Query: 512 ---SFDVE------NET-------------------YALKPMNCPGHCLIFDHRVRSWRE 543
D E NE Y + P C F+ V +
Sbjct: 274 CAPKRDPELFEEFKNELIIKKEIPIDKLKNGIKDPGYVIAPAQCEPFYQFFEGEVIDAED 333
Query: 544 LPLRMAD-FGVLHRNELSGALTGLTRVRRFQQ 574
P++ D G +R E GA GL RV F +
Sbjct: 334 KPIKFFDRSGWTYRWEAGGA-KGLDRVHEFLR 364
>gnl|CDD|221583 pfam12449, DUF3684, Protein of unknown function (DUF3684). This
domain family is found in eukaryotes, and is typically
between 1072 and 1090 amino acids in length.
Length = 1084
Score = 29.6 bits (67), Expect = 7.4
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 11/72 (15%)
Query: 223 VPAKSWRTTPYDVAAGISKGLADSTIIAKDWTRANKSRGNELCESSQYFSLVSTL-DFPV 281
V +K W + + L T+I T+ + NE YF V D PV
Sbjct: 528 VLSKQWDNLSQSSKSAVVSLLQPITVIP---TKLGMKKPNE-----AYFPSVRLFDDLPV 579
Query: 282 MEGLMKDIVKEK 293
+ GL + VKEK
Sbjct: 580 VHGL--NGVKEK 589
>gnl|CDD|131097 TIGR02042, sir, ferredoxin-sulfite reductase. Distantly related to
the iron-sulfur hemoprotein of sulfite reductase (NADPH)
found in Proteobacteria and Eubacteria, sulfite
reductase (ferredoxin) is a cyanobacterial and plant
monomeric enzyme that also catalyzes the reduction of
sulfite to sulfide [Central intermediary metabolism,
Sulfur metabolism].
Length = 577
Score = 29.4 bits (66), Expect = 7.7
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 173 ENGFYYDMYLDGEAQM 188
++G YY+++LDGE M
Sbjct: 170 QSGAYYELWLDGEKVM 185
>gnl|CDD|238397 cd00774, GlyRS-like_core, Glycyl-tRNA synthetase (GlyRS)-like class
II core catalytic domain. GlyRS functions as a homodimer
in eukaryotes, archaea and some bacteria and as a
heterotetramer in the remainder of prokaryotes. It is
responsible for the attachment of glycine to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP binding and hydrolysis.
This alignment contains only sequences from the GlyRS
form which homodimerizes. The heterotetramer glyQ is in
a different family of class II aaRS. Class II assignment
is based upon its structure and the presence of three
characteristic sequence motifs. This domain is also
found at the N-terminus of the accessory subunit of
mitochondrial polymerase gamma (Pol gamma b). Pol gamma
b stimulates processive DNA synthesis and is functional
as a homodimer, which can associate with the catalytic
subunit Pol gamma alpha to form a heterotrimer. Despite
significant both structural and sequence similarity with
GlyRS, Pol gamma b lacks conservation of several class
II functional residues.
Length = 254
Score = 28.7 bits (65), Expect = 8.8
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 542 RELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFC 581
R+LP +A G RNE+S GL RVR F Q + F
Sbjct: 104 RKLPFGVAQIGKSFRNEIS-PRNGLFRVREFTQAEIEFFV 142
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.137 0.422
Gapped
Lambda K H
0.267 0.0906 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 37,137,815
Number of extensions: 3673484
Number of successful extensions: 3276
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3206
Number of HSP's successfully gapped: 83
Length of query: 715
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 611
Effective length of database: 6,324,786
Effective search space: 3864444246
Effective search space used: 3864444246
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 63 (27.7 bits)