RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10612
(426 letters)
>gnl|CDD|178496 PLN02908, PLN02908, threonyl-tRNA synthetase.
Length = 686
Score = 705 bits (1821), Expect = 0.0
Identities = 257/393 (65%), Positives = 319/393 (81%), Gaps = 2/393 (0%)
Query: 29 RKIGREQELFFFHELSPGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLW 88
R +G++QELFFFHELSPGSCFF GA IYN L++FIR +Y +RG+ EV++PN+YN+ LW
Sbjct: 295 RLLGQKQELFFFHELSPGSCFFLPHGARIYNKLMDFIREQYWERGYDEVITPNIYNMDLW 354
Query: 89 QTSGHWAHYSENMFSFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRN 148
+TSGH AHY ENMF F++E + + LKPMNCPGHCL+F HRVRS+RELPLR+ADFGVLHRN
Sbjct: 355 ETSGHAAHYKENMFVFEIEKQEFGLKPMNCPGHCLMFAHRVRSYRELPLRLADFGVLHRN 414
Query: 149 ELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPE 208
ELSGALTGLTRVRRFQQDDAHIFC +QI DE+ G LDFL VY +FGFT+ L+LSTRPE
Sbjct: 415 ELSGALTGLTRVRRFQQDDAHIFCREDQIKDEVKGVLDFLDYVYEVFGFTYELKLSTRPE 474
Query: 209 KYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQL 268
KYLG+LE W+KAE L +LN+FG+PW N GDGAFYGPKIDIT++DALKR QCAT+QL
Sbjct: 475 KYLGDLETWDKAEAALTEALNAFGKPWQLNEGDGAFYGPKIDITVSDALKRKFQCATVQL 534
Query: 269 DFQLPIRFNLAYVNEKGEK-NRPVMIHRAILGSVERMVAILTESYAGKWPFWISPRQGIV 327
DFQLPIRF L+Y E K RPVMIHRAILGSVERM AIL E YAGKWPFW+SPRQ IV
Sbjct: 535 DFQLPIRFKLSYSAEDEAKIERPVMIHRAILGSVERMFAILLEHYAGKWPFWLSPRQAIV 594
Query: 328 IPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKEKSS 387
+P++E +YA++V+ ++ AAGF D D+ + + KK+R AQ++QYN+I+VVGE E ++
Sbjct: 595 VPISEKSQDYAEEVRAQLHAAGFYVDVDV-TDRKIQKKVREAQLAQYNYILVVGEAEAAT 653
Query: 388 NTVNVRTRDNIVHGEFSVDDVITRFGKLKENRT 420
TVNVRTRDN+VHGE +++++T F + +
Sbjct: 654 GTVNVRTRDNVVHGEKKIEELLTEFKEERAEFK 686
>gnl|CDD|234752 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 594 bits (1535), Expect = 0.0
Identities = 199/396 (50%), Positives = 270/396 (68%), Gaps = 3/396 (0%)
Query: 29 RKIGREQELFFFHELSPGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLW 88
RK+G+E +LF F E +PG F+ KG I L +IR + RK G+QEV +P + + +LW
Sbjct: 244 RKLGKELDLFHFQEEAPGLPFWHPKGWTIRRELERYIRRKLRKAGYQEVKTPQILDRELW 303
Query: 89 QTSGHWAHYSENMF-SFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHR 147
+TSGHW HY ENMF + + + E YALKPMNCPGH I+ +RS+R+LPLR+A+FG +HR
Sbjct: 304 ETSGHWDHYRENMFPTTESDGEEYALKPMNCPGHVQIYKQGLRSYRDLPLRLAEFGTVHR 363
Query: 148 NELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLSTR 206
E SGAL GL RVR F QDDAHIFCT EQI +E+ +D + +VY FGF + ++LSTR
Sbjct: 364 YEPSGALHGLMRVRGFTQDDAHIFCTPEQIEEEVKKVIDLILDVYKDFGFEDYEVKLSTR 423
Query: 207 PEKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATI 266
PEK +G E+W+KAE L+ +L+ G + PG+GAFYGPKID + DAL R QC TI
Sbjct: 424 PEKRIGSDEMWDKAEAALKEALDELGLDYEIAPGEGAFYGPKIDFQLKDALGREWQCGTI 483
Query: 267 QLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISPRQGI 326
QLDF LP RF+L YV E GEK+RPVMIHRAILGS+ER + IL E YAG +P W++P Q +
Sbjct: 484 QLDFNLPERFDLTYVGEDGEKHRPVMIHRAILGSMERFIGILIEHYAGAFPTWLAPVQVV 543
Query: 327 VIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKEKS 386
V+P+ + +YA +V K+ AAG + D ++ + KIR AQ+ + +++VVG+KE
Sbjct: 544 VLPITDKHADYAKEVAKKLKAAGIRVEVD-LRNEKIGYKIREAQLQKVPYMLVVGDKEVE 602
Query: 387 SNTVNVRTRDNIVHGEFSVDDVITRFGKLKENRTLK 422
+ TV+VR R G S+D+ I R + +R+LK
Sbjct: 603 AGTVSVRRRGGKDLGTMSLDEFIERLLEEIASRSLK 638
>gnl|CDD|237050 PRK12305, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 575
Score = 550 bits (1420), Expect = 0.0
Identities = 200/396 (50%), Positives = 269/396 (67%), Gaps = 5/396 (1%)
Query: 29 RKIGREQELFFFH-ELSPGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKL 87
RK+G+E +LF F E+ PG + KGA I + +++R E+ KRG++ V +P++ L
Sbjct: 179 RKLGKELDLFSFPDEIGPGLPVWHPKGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSDL 238
Query: 88 WQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLH 146
W+TSGH +Y ENMF +++ E Y LKPMNCPGH LI+ R+RS+R+LPLR+A+FG ++
Sbjct: 239 WKTSGHLDNYKENMFPPMEIDEEEYYLKPMNCPGHILIYKSRLRSYRDLPLRLAEFGTVY 298
Query: 147 RNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLST 205
R E SG L GLTRVR F QDDAHIFCT +QI DEI+ LDF+ + FGF + L LST
Sbjct: 299 RYEKSGVLHGLTRVRGFTQDDAHIFCTPDQIEDEILKVLDFVLELLKDFGFKDYYLELST 358
Query: 206 R-PEKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCA 264
R PEKY+G+ EVW KA + L +L G + E+PG AFYGPKID+ I DAL R Q +
Sbjct: 359 REPEKYVGDDEVWEKATEALREALEELGLEYVEDPGGAAFYGPKIDVQIKDALGREWQMS 418
Query: 265 TIQLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISPRQ 324
TIQLDF LP RF+L Y E G++ RPVMIHRA+ GS+ER + ILTE YAG +PFW++P Q
Sbjct: 419 TIQLDFNLPERFDLEYTAEDGKRQRPVMIHRALFGSIERFIGILTEHYAGAFPFWLAPVQ 478
Query: 325 GIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKE 384
++IPVA+ NEYA++V K+ AAG + D S++ LNKKIRNAQ + +++VVG+KE
Sbjct: 479 VVIIPVADAHNEYAEEVAKKLRAAGIRVEVD-TSNERLNKKIRNAQKQKIPYMLVVGDKE 537
Query: 385 KSSNTVNVRTRDNIVHGEFSVDDVITRFGKLKENRT 420
+ TV+VRTRD +D+ I + R
Sbjct: 538 VEAGTVSVRTRDGEQLNGMPLDEFIELIKEKIAERE 573
>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 = 522 bits (1348), Expect = 0.0
Identities = 178/295 (60%), Positives = 215/295 (72%), Gaps = 1/295 (0%)
Query: 29 RKIGREQELFFFHELSPGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLW 88
R G + FFF E PG F+ KGA I N L +F+R RKRG+QEV +P +YN +LW
Sbjct: 4 RLGGELELFFFFDEAGPGLPFWLPKGAIIRNELEDFLRELQRKRGYQEVETPIIYNKELW 63
Query: 89 QTSGHWAHYSENMFSFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRN 148
+TSGHW HY ENMF F+ E+E Y LKPMNCPGHCLIF + RS+R+LPLR+A+FG +HR
Sbjct: 64 ETSGHWDHYRENMFPFEEEDEEYGLKPMNCPGHCLIFKSKPRSYRDLPLRLAEFGTVHRY 123
Query: 149 ELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLSTRP 207
E SGAL GLTRVR F QDDAHIFCT +QI +EI G LD ++ VYS FGF + + LSTRP
Sbjct: 124 EQSGALHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSDFGFFDYKVELSTRP 183
Query: 208 EKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQ 267
EK++G EVW KAE L +L G P+ N G+GAFYGPKID + DAL R QC+TIQ
Sbjct: 184 EKFIGSDEVWEKAEAALREALEEIGLPYEINEGEGAFYGPKIDFHVKDALGREWQCSTIQ 243
Query: 268 LDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISP 322
LDF LP RF+L Y+ E GEK RPVMIHRAILGS+ER + IL E YAGK+P W++P
Sbjct: 244 LDFNLPERFDLTYIGEDGEKKRPVMIHRAILGSIERFIGILIEHYAGKFPLWLAP 298
>gnl|CDD|223518 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 528 bits (1363), Expect = 0.0
Identities = 197/394 (50%), Positives = 264/394 (67%), Gaps = 4/394 (1%)
Query: 28 NRKIGREQELFFFH-ELSPGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVK 86
+RK+G+E +LF F E PG F+ KGA I N L +++R++ R G+QEV +P + +++
Sbjct: 192 HRKLGKELDLFSFSPEEGPGLPFWHPKGATIRNLLEDYVRTKLRSYGYQEVKTPVLADLE 251
Query: 87 LWQTSGHWAHYSENMFSFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLH 146
LW+ SGHW +Y E+MF + ++ YALKPMNCPGH LIF +RS+RELPLR+A+FG ++
Sbjct: 252 LWELSGHWDNYKEDMFLTESDDREYALKPMNCPGHILIFKSGLRSYRELPLRLAEFGYVY 311
Query: 147 RNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLST 205
R E SGAL GL RVR F QDDAHIFCT +QI DE G L+ + VY FGFT + ++LST
Sbjct: 312 RYEKSGALHGLMRVRGFTQDDAHIFCTPDQIKDEFKGILELILEVYKDFGFTDYEVKLST 371
Query: 206 RPEKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCAT 265
RP K++G E+W+KAE L +L G + E PG+GAFYGPKID + DAL R Q T
Sbjct: 372 RP-KFIGSDEMWDKAEAALREALKEIGVEYVEEPGEGAFYGPKIDFQVKDALGREWQLGT 430
Query: 266 IQLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISPRQG 325
IQLDF LP RF+L YV+E GEK RPV+IHRAILGS+ER + IL E YAG P W++P Q
Sbjct: 431 IQLDFNLPERFDLEYVDEDGEKKRPVIIHRAILGSIERFIGILLEHYAGALPTWLAPVQV 490
Query: 326 IVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKEK 385
VIPVA+ +YA +V K+ AG D D D ++ L KKIR A + +++VVG+KE
Sbjct: 491 RVIPVADEHLDYAKEVAEKLRKAGIRVDID-DRNEKLGKKIREAGTQKIPYVIVVGDKEV 549
Query: 386 SSNTVNVRTRDNIVHGEFSVDDVITRFGKLKENR 419
+ TV VR R ++++++ K E R
Sbjct: 550 ETGTVVVRRRGGKQQKSMTLEELVEELKKEIEGR 583
>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 = 511 bits (1317), Expect = e-179
Identities = 199/387 (51%), Positives = 260/387 (67%), Gaps = 5/387 (1%)
Query: 29 RKIGREQELFFFHELS-PGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKL 87
RK+G+E ELF F PG F+ KGA I N L +F+R + K G+ EV +P +Y+++L
Sbjct: 173 RKLGKELELFSFEPEIGPGLPFWLPKGATIRNLLEDFVRQKQIKYGYMEVETPIMYDLEL 232
Query: 88 WQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLH 146
W+ SGHW +Y E MF F +++N + LKPMNCPGH LIF +RS+R+LPLR+A+ G H
Sbjct: 233 WEISGHWDNYKERMFPFTELDNREFMLKPMNCPGHFLIFKSSLRSYRDLPLRIAELGYSH 292
Query: 147 RNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFTFN-LRLST 205
R E SG L GL RVR F QDDAHIFCT +QI +E ++ VYS FGF+F+ LST
Sbjct: 293 RYEQSGELHGLMRVRGFTQDDAHIFCTEDQIKEEFKNQFRLIQKVYSDFGFSFDKYELST 352
Query: 206 R-PEKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCA 264
R PE ++GE E+W KAE LE +L G P+ +PG GAFYGPKID DAL R QCA
Sbjct: 353 RDPEDFIGEDELWEKAEAALEEALKELGVPYEIDPGRGAFYGPKIDFAFKDALGREWQCA 412
Query: 265 TIQLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISPRQ 324
T+QLDF+LP RF+L YV+E E+ RPVMIHRAILGS+ER +AIL E YAG +P W++P Q
Sbjct: 413 TVQLDFELPERFDLTYVDEDNEEKRPVMIHRAILGSIERFIAILLEKYAGNFPLWLAPVQ 472
Query: 325 GIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKE 384
+VIPV E +YA +V K+ AG D D D ++ L KKIR AQ + +++VVG+KE
Sbjct: 473 VVVIPVNERHLDYAKKVAQKLKKAGIRVDVD-DRNERLGKKIREAQKQKIPYMLVVGDKE 531
Query: 385 KSSNTVNVRTRDNIVHGEFSVDDVITR 411
S VNVRTR + S+D+ + +
Sbjct: 532 MESLAVNVRTRKGQKLEKMSLDEFLEK 558
>gnl|CDD|183530 PRK12444, PRK12444, threonyl-tRNA synthetase; Reviewed.
Length = 639
Score = 444 bits (1145), Expect = e-152
Identities = 186/393 (47%), Positives = 259/393 (65%), Gaps = 2/393 (0%)
Query: 29 RKIGREQELFFFHELSPGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLW 88
RK+G+E ELF F E +PG F+ KG I N L F+R ++ +QEV +P + N +LW
Sbjct: 248 RKLGKELELFMFSEEAPGMPFYLPKGQIIRNELEAFLREIQKEYNYQEVRTPFMMNQELW 307
Query: 89 QTSGHWAHYSENMFSFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRN 148
+ SGHW HY +NM+ +V+N+++ALKPMNCPGH L+F +++ S+RELP+RM +FG +HR+
Sbjct: 308 ERSGHWDHYKDNMYFSEVDNKSFALKPMNCPGHMLMFKNKLHSYRELPIRMCEFGQVHRH 367
Query: 149 ELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPE 208
E SGAL GL RVR F QDDAH+F T +QI DEI + + VY FGF + + LSTRPE
Sbjct: 368 EFSGALNGLLRVRTFCQDDAHLFVTPDQIEDEIKSVMAQIDYVYKTFGFEYEVELSTRPE 427
Query: 209 KYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQL 268
+G+ E+W +AE LE L S + N GDGAFYGPKID I DAL R HQC TIQL
Sbjct: 428 DSMGDDELWEQAEASLENVLQSLNYKYRLNEGDGAFYGPKIDFHIKDALNRSHQCGTIQL 487
Query: 269 DFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISPRQGIVI 328
DFQ+P +F+L Y++EK EK RPV+IHRA+LGS++R +AIL E + G +P W++P Q VI
Sbjct: 488 DFQMPEKFDLNYIDEKNEKRRPVVIHRAVLGSLDRFLAILIEHFGGAFPAWLAPVQVKVI 547
Query: 329 PVAEPFN-EYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKEKSS 387
PV+ + +YAD+V +K+ AG + D + L KIR AQ+ + +++V+G+KE +
Sbjct: 548 PVSNAVHVQYADEVADKLAQAGIRVERDE-RDEKLGYKIREAQMQKIPYVLVIGDKEMEN 606
Query: 388 NTVNVRTRDNIVHGEFSVDDVITRFGKLKENRT 420
VNVR +D + + +NR
Sbjct: 607 GAVNVRKYGEEKSEVIELDMFVESIKEEIKNRK 639
>gnl|CDD|215450 PLN02837, PLN02837, threonine-tRNA ligase.
Length = 614
Score = 363 bits (933), Expect = e-120
Identities = 173/396 (43%), Positives = 247/396 (62%), Gaps = 5/396 (1%)
Query: 28 NRKIGREQELFFFHELSPGS-CFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVK 86
+R++G++ +LF + + G F+ KGA + + + + + + + G+ + +P+V
Sbjct: 219 HRRLGQDLDLFSIQDDAGGGLVFWHPKGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKAD 278
Query: 87 LWQTSGHWAHYSENMFS-FDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVL 145
LW+TSGH Y ENM+ D+E+E Y L+PMNCP H L++ ++ S+R+LP+R+A+ G +
Sbjct: 279 LWKTSGHLDFYKENMYDQMDIEDELYQLRPMNCPYHILVYKRKLHSYRDLPIRVAELGTV 338
Query: 146 HRNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT-FNLRLS 204
+R ELSG+L GL RVR F QDDAHIFC +QI DEI G LD + FGF+ + + LS
Sbjct: 339 YRYELSGSLHGLFRVRGFTQDDAHIFCLEDQIKDEIRGVLDLTEEILKQFGFSKYEINLS 398
Query: 205 TRPEKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCA 264
TRPEK +G ++W KA L +L+ G + + G GAFYGPKID+ I DAL R QC+
Sbjct: 399 TRPEKSVGSDDIWEKATTALRDALDDKGWEYKVDEGGGAFYGPKIDLKIEDALGRKWQCS 458
Query: 265 TIQLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISPRQ 324
TIQ+DF LP RF++ YV+ EK RP+MIHRAILGS+ER +L E YAG +P W++P Q
Sbjct: 459 TIQVDFNLPERFDITYVDSNSEKKRPIMIHRAILGSLERFFGVLIEHYAGDFPLWLAPVQ 518
Query: 325 GIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKE 384
V+PV + EY +V K+ A G A++ + L K IRNA+ + + VVG KE
Sbjct: 519 ARVLPVTDNELEYCKEVVAKLKAKGIR--AEVCHGERLPKLIRNAETQKIPLMAVVGPKE 576
Query: 385 KSSNTVNVRTRDNIVHGEFSVDDVITRFGKLKENRT 420
+ T+ VR+R G VDD I R ENRT
Sbjct: 577 VETRTLTVRSRHGGELGTMPVDDFINRIQLAVENRT 612
>gnl|CDD|184826 PRK14799, thrS, threonyl-tRNA synthetase; Provisional.
Length = 545
Score = 347 bits (891), Expect = e-115
Identities = 164/402 (40%), Positives = 238/402 (59%), Gaps = 9/402 (2%)
Query: 28 NRKIGREQELFFFHELS-PGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVK 86
+R IG + +LF FHE + G F KG I N L+ F+R G+QEV + +V+
Sbjct: 140 HRLIGEKLDLFSFHEEAGSGLVLFHPKGQTIRNELIAFMREINDSMGYQEVYTSHVFKTD 199
Query: 87 LWQTSGHWAHYSENMFSFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLH 146
+W+ SGH+ Y + + F++E + Y +KPMNCP H LI+ + R++R+LP+R ++FG ++
Sbjct: 200 IWKISGHYTLYRDKLIVFNMEGDEYGVKPMNCPAHILIYKSKPRTYRDLPIRFSEFGHVY 259
Query: 147 RNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVGALDFLRNVYSIFGFT---FNLRL 203
R E G L GL RVR F QDD HIF +Q+ +EI + V+ FGF L
Sbjct: 260 RWEKKGELYGLLRVRGFVQDDGHIFLREDQLREEIKMLISKTVEVWHKFGFKDDDIKPYL 319
Query: 204 STRPEKYLGELEVWNKAEKQLEASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQC 263
STRP++ +G E+W KA L ++L G + +GAFYGPKID I D+L R Q
Sbjct: 320 STRPDESIGSDELWEKATNALISALQESGLKFGIKEKEGAFYGPKIDFEIRDSLGRWWQL 379
Query: 264 ATIQLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGKWPFWISPR 323
+TIQ+DF LP RF L Y+++ G K RPVM+HRAI GS++R VAIL E + GK P W+S
Sbjct: 380 STIQVDFNLPERFKLEYIDKDGIKKRPVMVHRAIYGSIDRFVAILLEHFKGKLPTWLSSV 439
Query: 324 QGIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEK 383
Q V+P+ + NEYA++V N + + D + +TL+K+I+NA +I++VG+K
Sbjct: 440 QVRVLPITDEVNEYAEKVLNDMRKRRIRAEIDY-AGETLSKRIKNAYDQGVPYILIVGKK 498
Query: 384 EKSSNTVNVRTRDNI----VHGEFSVDDVITRFGKLKENRTL 421
E S TV VR R NI V E ++ +IT + +T
Sbjct: 499 EASEGTVTVRARGNIEVRNVKFEKFLELLITEIAQRDVEQTT 540
>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 = 165 bits (419), Expect = 2e-49
Identities = 60/172 (34%), Positives = 83/172 (48%), Gaps = 8/172 (4%)
Query: 57 IYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSEN-MFSF-DVENETYALK 114
+ N L FIR ++ G+QEV +P + +LW+ SGHW Y E M+ F D E L+
Sbjct: 1 LRNALENFIRELLKRYGYQEVDTPILEPKELWEGSGHWDDYFEEEMYKFKDRGGEELYLR 60
Query: 115 PMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFCTV 174
P G +F + + S+RELPL++ G R E GL RVR F Q DA IF T
Sbjct: 61 PTAEVGITRLFKNEILSYRELPLKLYQIGPCFRYEA-RPRRGLGRVREFTQVDAEIFGTP 119
Query: 175 EQIGDEIVGALDFLRNVYSIFGFTFNLRLSTR-----PEKYLGELEVWNKAE 221
EQ +E+ L + G + + L+T G+LE W AE
Sbjct: 120 EQSEEELEELLKLAEEILQDLGLPYRVVLATTGDLGGSASKEGDLEAWLPAE 171
>gnl|CDD|235190 PRK03991, PRK03991, threonyl-tRNA synthetase; Validated.
Length = 613
Score = 169 bits (430), Expect = 9e-47
Identities = 112/406 (27%), Positives = 186/406 (45%), Gaps = 49/406 (12%)
Query: 33 REQELFFFHELS-PGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTS 91
RE+EL + S G + KG I + L +++ + + G V +P +Y++
Sbjct: 204 REKELADYEPASDVGHMRYYPKGRLIRDLLEDYVYNLVVELGAMPVETPIMYDLSHPAIR 263
Query: 92 GHWAHYSENMFSFDVENETYALKPMNCPGHCLIFDHRVRSWRELPLRM---ADFGVLHRN 148
H + E + + + L+ C G L+ S++ LPL+M + + R
Sbjct: 264 EHADKFGERQYRVKSDKKDLMLRFAACFGQFLMLKDMTISYKNLPLKMYELSTYS--FRL 321
Query: 149 ELSGALTGLTRVRRFQQDDAHIFC-----TVEQIG---DEIVGAL-DFLRNVYSIFGFTF 199
E G L GL R+R F D H C +E+ + I+ D R+ FT
Sbjct: 322 EQRGELVGLKRLRAFTMPDMHTLCKDMEQAMEEFEKQYEMILETGEDLGRDYEVAIRFT- 380
Query: 200 NLRLSTRPEKYLGELEVWNKAEKQLEASLNSFGEP-----WTENPGDGAFYGP-KIDITI 253
E + E + W + + G+P E Y K++
Sbjct: 381 --------EDFYEENKDW------IVELVKREGKPVLLEILPE----RKHYWVLKVEFAF 422
Query: 254 TDALKRPHQCATIQLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVER-MVAIL---- 308
D+L RP + T+Q+D + RF + YV+E GE+ P+++H + GS+ER + A+L
Sbjct: 423 IDSLGRPIENPTVQIDVENAERFGIKYVDENGEEKYPIILHCSPTGSIERVIYALLEKAA 482
Query: 309 TESYAGK---WPFWISPRQGIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKK 365
E GK P W+SP Q VIPV+E +YA++V +K+ AAG D D D ++L KK
Sbjct: 483 KEEEEGKVPMLPTWLSPTQVRVIPVSERHLDYAEEVADKLEAAGIRVDVD-DRDESLGKK 541
Query: 366 IRNAQISQYNFIMVVGEKEKSSNTVNVRTRDNIVHGEFSVDDVITR 411
IR+A +++V+G+KE S + V R+ E +++++I R
Sbjct: 542 IRDAGKEWIPYVVVIGDKEMESGKLTVTIREESEKVEMTLEELIER 587
>gnl|CDD|238437 cd00860, ThrRS_anticodon, ThrRS Threonyl-anticodon binding domain.
ThrRS belongs to class II aminoacyl-tRNA synthetases
(aaRS). This alignment contains the anticodon binding
domain, which is responsible for specificity in
tRNA-binding, so that the activated amino acid is
transferred to a ribose 3' OH group of the appropriate
tRNA only.
Length = 91
Score = 114 bits (289), Expect = 2e-31
Identities = 37/91 (40%), Positives = 55/91 (60%), Gaps = 1/91 (1%)
Query: 322 PRQGIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVG 381
P Q +VIPV + +YA +V K+ AG + D ++ L KKIR AQ+ + +I+VVG
Sbjct: 1 PVQVVVIPVTDEHLDYAKEVAKKLSDAGIRVEVD-LRNEKLGKKIREAQLQKIPYILVVG 59
Query: 382 EKEKSSNTVNVRTRDNIVHGEFSVDDVITRF 412
+KE + TV+VRTRD G S+D+ I +
Sbjct: 60 DKEVETGTVSVRTRDGGDLGSMSLDEFIEKL 90
>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 = 102 bits (256), Expect = 4e-25
Identities = 57/262 (21%), Positives = 95/262 (36%), Gaps = 33/262 (12%)
Query: 54 GAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-----DVEN 108
G ++ L F+ + G+QE++ P + L+ GH Y + M++F ++ +
Sbjct: 1 GTALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTFEDKGRELRD 60
Query: 109 ETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDA 168
L+P C IF + S+R LPLR+ G R+E SG GL RVR F+Q +
Sbjct: 61 TDLVLRPAACEPIYQIFSGEILSYRALPLRLDQIGPCFRHEPSGR-RGLMRVREFRQVEY 119
Query: 169 HIFCTVEQIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPEKYLGELEVWNKAEKQLEASL 228
+F E+ +E L+ + G + ++ P G
Sbjct: 120 VVFGEPEEAEEERREWLELAEEIARELGLPVRVVVADDPFFGRG---------------- 163
Query: 229 NSFGEPWTENPGDGAFYGPKIDITITDAL-KRPHQCATIQLDFQLPIRFNLAYVNEKGEK 287
G A ++ + L R + A + L ++E G
Sbjct: 164 --------GKRGLDAGRETVVEFELLLPLPGRAKETAVGSANVHLDHFGASFKIDEDGGG 215
Query: 288 NRPVMIHRAILGSVERMVAILT 309
A G ER+V L
Sbjct: 216 RAHTGCGGA--GGEERLVLALL 235
>gnl|CDD|202547 pfam03129, HGTP_anticodon, Anticodon binding domain. This domain
is found in histidyl, glycyl, threonyl and prolyl tRNA
synthetases it is probably the anticodon binding domain.
Length = 93
Score = 79.6 bits (197), Expect = 2e-18
Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 3/94 (3%)
Query: 324 QGIVIPVAE--PFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVG 381
Q +VIP+ E +YA ++ ++ AG + D D +++L KK R+A + F +VVG
Sbjct: 1 QVVVIPLGEKDELEDYAQKLAEELREAGIRVELD-DRNESLGKKFRDADLIGIPFRLVVG 59
Query: 382 EKEKSSNTVNVRTRDNIVHGEFSVDDVITRFGKL 415
EKE + TV VR RD S+++++ + +L
Sbjct: 60 EKELENGTVTVRDRDTGEKETVSLEELVEKLKEL 93
>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 = 73.3 bits (180), Expect = 4e-15
Identities = 55/250 (22%), Positives = 83/250 (33%), Gaps = 43/250 (17%)
Query: 56 FIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVENETYALKP 115
I L F+ GFQEV +P V L + +GH + + E L+P
Sbjct: 4 KIEQKLRRFMAE----LGFQEVETPIVEREPLLEKAGHE--PKDLLPVGAENEEDLYLRP 57
Query: 116 MNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFCTVE 175
PG +F V R+LPLR+A+ G RNE GL RVR F Q + +F
Sbjct: 58 TLEPGLVRLF---VSHIRKLPLRLAEIGPAFRNEGGRR--GLRRVREFTQLEGEVFGEDG 112
Query: 176 QIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPEKYLGELEVWNKAEKQLEASLNSFGEPW 235
+ E + + + EK GE
Sbjct: 113 EEASEF---EELIELTEELLRALGIKLDIVFVEKTPGEFSP------------------- 150
Query: 236 TENPGDGAFYGPKIDITITDALKRPHQCATIQLDFQLPIR-FNLAYVNEKGEKNRPVMIH 294
GP +I + R + + R +L +++E E P I
Sbjct: 151 -------GGAGPGFEIEVDHPEGRGLEIGSGGYRQDEQARAADLYFLDEALEYRYPPTIG 203
Query: 295 RAILGSVERM 304
+ +ER+
Sbjct: 204 FGL--GLERL 211
>gnl|CDD|184902 PRK14938, PRK14938, Ser-tRNA(Thr) hydrolase; Provisional.
Length = 387
Score = 55.2 bits (133), Expect = 2e-08
Identities = 33/108 (30%), Positives = 58/108 (53%), Gaps = 4/108 (3%)
Query: 317 PFWISPRQGIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNF 376
P W++P Q ++PV + F +++ QV ++ G + D D D+L KIR A F
Sbjct: 269 PDWLNPIQVRILPVKKDFLDFSIQVAERLRKEGIRVNVD-DLDDSLGNKIRRAGTEWIPF 327
Query: 377 IMVVGEKEKSSNTVNVRTRDNIVHGEFSVDD---VITRFGKLKENRTL 421
++++GE+E ++T+ V+ R N +V++ I R +LKE L
Sbjct: 328 VIIIGEREVKTSTLTVKIRANNEQKSMTVEELVKEIKRADELKERSNL 375
>gnl|CDD|232961 TIGR00408, proS_fam_I, prolyl-tRNA synthetase, family I.
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 families. This family includes the archaeal
enzyme, the Pro-specific domain of a human
multifunctional tRNA ligase, and the enzyme from the
spirochete Borrelia burgdorferi. The other family
includes enzymes from Escherichia coli, Bacillus
subtilis, Synechocystis PCC6803, and one of the two
prolyL-tRNA synthetases of Saccharomyces cerevisiae
[Protein synthesis, tRNA aminoacylation].
Length = 472
Score = 52.0 bits (125), Expect = 3e-07
Identities = 70/326 (21%), Positives = 122/326 (37%), Gaps = 54/326 (16%)
Query: 108 NETYALKPMNCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDD 167
+E AL+P + +F V+S+ +LPL++ + + R E R R F +
Sbjct: 97 DEPLALRPTSETAMYPMFKKWVKSYTDLPLKINQWVNVFRYETKHT-RPFLRTREFTWQE 155
Query: 168 AH-IFCTVEQIGDEIVGALDFLRNVYSIFGFTFNLRLSTRPEKYLG-ELEVWNKAEKQLE 225
AH T E+ ++++ ALD + E L V K E +
Sbjct: 156 AHTAHATAEEAEEQVLRALDIYKEFI---------------ENSLAIPYFVGRKPEWEKF 200
Query: 226 ASLNSFGEPWTENPGDGAFYGPKIDITITDALKRPHQCATIQ---LDFQLPIRFNLAYVN 282
A GA Y + + D R Q AT +F F + +
Sbjct: 201 A---------------GAEYTWAFETIMPD--GRTLQIATSHNLGQNFAKT--FEIKFET 241
Query: 283 EKGEKNRPVM----IHRAILGSVERMVAILTESYAGKWPFWISPRQGIVIPVA------E 332
G+K I ++G+ ++AI ++ P ++P Q ++IP+ E
Sbjct: 242 PTGDKEYAYQTSYGISTRVIGA---LIAIHSDEKGLVLPPRVAPIQVVIIPIIFKKKENE 298
Query: 333 PFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKEKSSNTVNV 392
E A +V++++ AGF D D + +K +I + VG + N +
Sbjct: 299 KVMEAAREVRSRLKKAGFRVHID-DRDNRPGRKFYQWEIKGIPLRIEVGPNDIEKNIAVI 357
Query: 393 RTRDNIVHGEFSVDDVITRFGKLKEN 418
RD + S+D + R +L N
Sbjct: 358 SRRDTGEKYQVSLDQLEERVVELLNN 383
>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 = 3e-07
Identities = 37/137 (27%), Positives = 61/137 (44%), Gaps = 3/137 (2%)
Query: 65 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCL 123
+R E K G EV+ P + +LWQ SG W Y + D + + L P +
Sbjct: 57 VREEMNKDGAIEVLLPALQPAELWQESGRWDTYGPELLRLKDRKGREFVLGPTHEEVITD 116
Query: 124 IFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFCTVEQIGDEIVG 183
+ + ++S+++LPL + R+E+ GL R R F DA+ F + E+ D
Sbjct: 117 LARNEIKSYKQLPLNLYQIQTKFRDEIRPRF-GLMRGREFIMKDAYSFHSDEESLDATYQ 175
Query: 184 ALD-FLRNVYSIFGFTF 199
+ N++S G F
Sbjct: 176 KMYQAYSNIFSRLGLDF 192
>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 = 46.4 bits (111), Expect = 9e-06
Identities = 31/108 (28%), Positives = 51/108 (47%), Gaps = 2/108 (1%)
Query: 65 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCL 123
IR E K G QE++ P + +LW+ SG W Y + D + + L P +
Sbjct: 41 IREEMNKIGAQEILMPILQPAELWKESGRWDAYGPELLRLKDRHGKEFLLGPTHEEVITD 100
Query: 124 IFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIF 171
+ + ++S+++LPL + R+E+ GL R R F DA+ F
Sbjct: 101 LVANEIKSYKQLPLNLYQIQTKFRDEIRPRF-GLMRGREFLMKDAYSF 147
>gnl|CDD|223519 COG0442, ProS, Prolyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 500
Score = 46.5 bits (111), Expect = 2e-05
Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 9/79 (11%)
Query: 65 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMN----CP 119
IR E K G QEV+ P + +LW+ SG W + +F D + AL+P +
Sbjct: 57 IREEMDKIGAQEVLFPTLIPAELWKESGRWEGFGPELFRVKDRGDRPLALRPTSEEVITD 116
Query: 120 GHCLIFDHRVRSWRELPLR 138
+F +RS+++LPL+
Sbjct: 117 ----MFRKWIRSYKDLPLK 131
>gnl|CDD|238379 cd00738, HGTP_anticodon, HGTP anticodon binding domain, as found at
the C-terminus of histidyl, glycyl, threonyl and prolyl
tRNA synthetases, which are classified as a group of
class II aminoacyl-tRNA synthetases (aaRS). In aaRSs,
the anticodon binding domain is responsible for
specificity in tRNA-binding, so that the activated amino
acid is transferred to a ribose 3' OH group of the
appropriate tRNA only. This domain is also found in the
accessory subunit of mitochondrial polymerase gamma (Pol
gamma b).
Length = 94
Score = 40.8 bits (96), Expect = 1e-04
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 4/91 (4%)
Query: 322 PRQGIVIPVAEPFN---EYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQYNFIM 378
P ++P+ +P EYA ++ N + A G D D + KK R A + F +
Sbjct: 1 PIDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYD-DRERKIGKKFREADLRGVPFAV 59
Query: 379 VVGEKEKSSNTVNVRTRDNIVHGEFSVDDVI 409
VVGE E + V V++RD VD++
Sbjct: 60 VVGEDELENGKVTVKSRDTGESETLHVDELP 90
>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 = 42.7 bits (100), Expect = 2e-04
Identities = 39/216 (18%), Positives = 71/216 (32%), Gaps = 15/216 (6%)
Query: 24 FVLWNRKIGREQELFFFHELSPGSCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVY 83
+ + + EL G F I + + + +++ G Q + P
Sbjct: 2 ASEKSLEHIGKAELADQGPGR-GIINFLPLAKAILDKIENVLDKMFKEHGAQNALFPFFI 60
Query: 84 NVKLWQTSG-HWAHYSENMFSF-----DVENETYALKPMNCPGHCLIFDHRVRSWRELPL 137
+ H +S+ + F + E +AL+P I ++SW++LP
Sbjct: 61 LASFLEKEAEHDEGFSKELAVFKDAGDEELEEDFALRPTLEENIGEIAAKFIKSWKDLPQ 120
Query: 138 RMADFGVLHRNELSGALTGLTRVRRFQQDDAHIF-CTVEQIGDEIVGALDFLRNVYSIFG 196
+ G R+E+ G R R F D H E+ +E + L +
Sbjct: 121 HLNQIGNKFRDEIR-PRFGFLRAREFIMKDGHSAHADAEEADEEFLNMLSAYAEIARDLA 179
Query: 197 -FTFNLRLSTRPEKYLG-----ELEVWNKAEKQLEA 226
F + K+ G E E + K +A
Sbjct: 180 AIDFIEGEADEGAKFAGASKSREFEALMEDGKAKQA 215
>gnl|CDD|223250 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 42.6 bits (101), Expect = 3e-04
Identities = 38/138 (27%), Positives = 61/138 (44%), Gaps = 17/138 (12%)
Query: 45 PGS--CFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMF 102
GS F++ KGA + L++F+ + K GF EV+ P + N++ +G + E++
Sbjct: 162 SGSRFYFYKGKGARLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGTGQLPKFEEDL- 220
Query: 103 SFDVENETYALKPMNC-PGHCLIFDHRVRSWRELPLRMADFGVLHRNELS--GALT-GLT 158
+ VE+ L P P L D + +LP++ + R+E G T GL
Sbjct: 221 -YKVEDPDLYLIPTAEVPLTNLHRD-EILDEEDLPIKYTAYSPCFRSEAGSAGKDTRGLI 278
Query: 159 RVRRFQQDDAHIFCTVEQ 176
RV H F VE
Sbjct: 279 RV--------HQFDKVEL 288
>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 = 42.3 bits (100), Expect = 4e-04
Identities = 35/137 (25%), Positives = 59/137 (43%), Gaps = 9/137 (6%)
Query: 49 FFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDVEN 108
+ + GA + L+ F+ K G+QE+ P + N + +G + E++F +E+
Sbjct: 167 YLKNDGAKLERALINFMLDLLEKNGYQEIYPPYLVNEESLDGTGQLPKFEEDIFK--LED 224
Query: 109 ETYALKPMNCPGHCLIFDHR--VRSWRELPLRMADFGVLHRNEL--SGALT-GLTRVRRF 163
L P L HR + ELP++ R+E G T GL RV +F
Sbjct: 225 TDLYLIPTA--EVPLTNLHRNEILEEEELPIKYTAHSPCFRSEAGSYGKDTKGLIRVHQF 282
Query: 164 QQDDAHIFCTVEQIGDE 180
+ + FC E+ +E
Sbjct: 283 NKVELVKFCKPEESAEE 299
>gnl|CDD|213530 TIGR00442, hisS, histidyl-tRNA synthetase. This model finds a
histidyl-tRNA synthetase in every completed genome.
Apparent second copies from Bacillus subtilis,
Synechocystis sp., and Aquifex aeolicus are slightly
shorter, more closely related to each other than to
other hisS proteins, and actually serve as regulatory
subunits for an enzyme of histidine biosynthesis. They
were excluded from the seed alignment and score much
lower than do single copy histidyl-tRNA synthetases of
other genomes not included in the seed alignment. These
putative second copies of HisS score below the trusted
cutoff. The regulatory protein kinase GCN2 of
Saccharomyces cerevisiae (YDR283c), and related proteins
from other species designated eIF-2 alpha kinase, have a
domain closely related to histidyl-tRNA synthetase that
may serve to detect and respond to uncharged tRNA(his),
an indicator of amino acid starvation; these regulatory
proteins are not orthologous and so score below the
noise cutoff [Protein synthesis, tRNA aminoacylation].
Length = 397
Score = 41.3 bits (98), Expect = 6e-04
Identities = 25/93 (26%), Positives = 45/93 (48%), Gaps = 3/93 (3%)
Query: 301 VERMVAILTESYAGKWPFWISPRQGIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSD 360
+ER++ +L E G P S V+P+ E A ++ K+ AG + DL
Sbjct: 303 IERLLLLLEE--LGLLPPEESSPDVYVVPLGEEAELEALKLAQKLRKAGIRVEVDLGGRK 360
Query: 361 TLNKKIRNAQISQYNFIMVVGEKEKSSNTVNVR 393
L K+++ A F +++GE E ++ TV ++
Sbjct: 361 -LKKQLKYADKLGARFAVIIGEDELANGTVTLK 392
>gnl|CDD|223202 COG0124, HisS, Histidyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 38.0 bits (89), Expect = 0.007
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 3/93 (3%)
Query: 301 VERMVAILTESYAGKWPFWISPRQGIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSD 360
VER++ L GK + V+P+ E A ++ K+ AAG + D S
Sbjct: 316 VERLILAL--EEEGKEDPVETRVDVYVVPLGEDAEPEALKLAQKLRAAGISVEVDY-SGR 372
Query: 361 TLNKKIRNAQISQYNFIMVVGEKEKSSNTVNVR 393
L K+ + A F +++GE E ++ V V+
Sbjct: 373 KLKKQFKYADKLGARFAVILGEDELANGVVTVK 405
>gnl|CDD|237059 PRK12325, PRK12325, prolyl-tRNA synthetase; Provisional.
Length = 439
Score = 37.1 bits (87), Expect = 0.015
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 65 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCL 123
+R E + G E++ P + LW+ SG + Y + M D + P N
Sbjct: 57 VREEQNRAGAIEILMPTIQPADLWRESGRYDAYGKEMLRIKDRHDREMLYGPTNEEMITD 116
Query: 124 IFDHRVRSWRELPL 137
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 = 0.023
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 9/78 (11%)
Query: 65 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGH-- 121
+R E K G QEV+ P + +LWQ SG W Y + D + L P H
Sbjct: 57 VREEMNKIGAQEVLMPALQPAELWQESGRWEEYGPELLRLKDRHGRDFVLGPT----HEE 112
Query: 122 --CLIFDHRVRSWRELPL 137
+ + ++S+++LPL
Sbjct: 113 VITDLVRNEIKSYKQLPL 130
>gnl|CDD|234586 PRK00037, hisS, histidyl-tRNA synthetase; Reviewed.
Length = 412
Score = 35.9 bits (84), Expect = 0.034
Identities = 25/95 (26%), Positives = 47/95 (49%), Gaps = 9/95 (9%)
Query: 327 VIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDT-LNKKIRNAQISQYNFIMVVGEKEK 385
V+P+ E A ++ K+ AAG +LD L K+ + A S F++++GE E
Sbjct: 323 VVPLGEDAELAALKLAEKLRAAGI--RVELDYGGRKLKKQFKYADKSGARFVLILGEDEL 380
Query: 386 SSNTVNVRTRDNIVHGE---FSVDDVITRFGKLKE 417
++ TV V+ ++ GE +D+++ +L
Sbjct: 381 ANGTVTVK---DLRTGEQQTVPLDELVEALKELLA 412
>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 = 33.3 bits (77), Expect = 0.22
Identities = 35/134 (26%), Positives = 57/134 (42%), Gaps = 7/134 (5%)
Query: 47 SCFFQTKGAFIYNTLVEFIRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSFDV 106
+ + GA + L+ F KRGF V+ P + ++ + +G + E ++ V
Sbjct: 44 FYYLKGDGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYK--V 101
Query: 107 ENETYALKPM-NCPGHCLIFDHRVRSWRELPLRMADFGVLHRNELS--GALT-GLTRVRR 162
E E L P L D + ELPL+ A + R E G T GL RV +
Sbjct: 102 EGEDLYLIATAEVPLAALHRDEIL-EEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQ 160
Query: 163 FQQDDAHIFCTVEQ 176
F++ + +F E+
Sbjct: 161 FEKVEQFVFTKPEE 174
>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 = 33.3 bits (76), Expect = 0.27
Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 4/101 (3%)
Query: 317 PFWISPRQGIVIPVA--EPFNEYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQISQY 374
P ++P + V+P+ E E A ++ + G D S T+ K+ R A
Sbjct: 452 PPHLAPIKVAVLPLVNKEELKEIAKEIFQALRKTGIR--IKYDDSGTIGKRYRRADEIGT 509
Query: 375 NFIMVVGEKEKSSNTVNVRTRDNIVHGEFSVDDVITRFGKL 415
F + + + TV +R RD++ + ++ + KL
Sbjct: 510 PFCVTIDFETLEDETVTIRERDSMKQVRVKIKELPSYIKKL 550
Score = 31.7 bits (72), Expect = 0.69
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 133 RELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFC 172
R+LP +A G RNE+S GL RVR F+Q + F
Sbjct: 180 RKLPFGVAQIGKSFRNEISPR-NGLFRVREFEQAEIEFFV 218
>gnl|CDD|236327 PRK08661, PRK08661, prolyl-tRNA synthetase; Provisional.
Length = 477
Score = 32.4 bits (75), Expect = 0.46
Identities = 22/105 (20%), Positives = 47/105 (44%), Gaps = 6/105 (5%)
Query: 317 PFWISPRQGIVIPVAEPFN------EYADQVKNKIFAAGFMCDADLDSSDTLNKKIRNAQ 370
P I+P Q +++P+ + EYA ++ ++ AG D S T K +
Sbjct: 282 PPKIAPIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFNEWE 341
Query: 371 ISQYNFIMVVGEKEKSSNTVNVRTRDNIVHGEFSVDDVITRFGKL 415
+ + +G ++ +NTV + RD + +D+++ + +L
Sbjct: 342 LKGVPLRIEIGPRDLENNTVVLVRRDTLEKETVPLDELVEKVPEL 386
>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 = 0.54
Identities = 14/24 (58%), Positives = 18/24 (75%), Gaps = 3/24 (12%)
Query: 156 GLTRV---RRFQQDDAHIFCTVEQ 176
GLTRV RR ++D A IFCT+E+
Sbjct: 170 GLTRVTDKRRVRRDHADIFCTIEE 193
>gnl|CDD|238436 cd00859, HisRS_anticodon, HisRS Histidyl-anticodon binding domain.
HisRS belongs to class II aminoacyl-tRNA synthetases
(aaRS). This alignment contains the anticodon binding
domain, which is responsible for specificity in
tRNA-binding, so that the activated amino acid is
transferred to a ribose 3' OH group of the appropriate
tRNA only.
Length = 91
Score = 29.8 bits (68), Expect = 0.60
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 327 VIPVAEPFNEYADQVKNKIFAAGFMCDADLDSSDT-LNKKIRNAQISQYNFIMVVGEKEK 385
V+P+ E A ++ ++ AG A++D L K+ + A S F +++GE E
Sbjct: 6 VVPLGEGALSEALELAEQLRDAGI--KAEIDYGGRKLKKQFKYADRSGARFAVILGEDEL 63
Query: 386 SSNTVNVR 393
++ V V+
Sbjct: 64 AAGVVTVK 71
>gnl|CDD|234876 PRK00960, PRK00960, seryl-tRNA synthetase; Provisional.
Length = 517
Score = 31.9 bits (73), Expect = 0.63
Identities = 29/153 (18%), Positives = 46/153 (30%), Gaps = 33/153 (21%)
Query: 44 SPGSCFFQTKGAFIYNTLVEFIRSEY-RKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMF 102
G F+ ++ + + E + GF E + P + +++ + E M+
Sbjct: 212 GRGQWFYTPPMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLEVMYKMRYLEGLPEGMY 271
Query: 103 -----SFDVE-------------------------NETYALKPMNCPGHCLIFDHRVRSW 132
D E + Y L P C F
Sbjct: 272 YVCPPKRDPEYFEEFVDEMMVKKEVPIEKLKEKLRDPGYVLAPAQCEPFYQFFQGETVDV 331
Query: 133 RELPLRMAD-FGVLHRNELSGALTGLTRVRRFQ 164
ELP++ D G +R E G GL RV F
Sbjct: 332 DELPIKFFDRSGWTYRWE-GGGAHGLERVNEFH 363
>gnl|CDD|239288 cd02990, UAS_FAF1, UAS family, FAS-associated factor 1 (FAF1)
subfamily; FAF1 contains a UAS domain of unknown
function N-terminal to a ubiquitin-associated UBX
domain. FAF1 also contains ubiquitin-associated UBA and
nuclear targeting domains, N-terminal to the UAS domain.
FAF1 is an apoptotic signaling molecule that acts
downstream in the Fas signal transduction pathway. It
interacts with the cytoplasmic domain of Fas, but not to
a Fas mutant that is deficient in signal transduction.
It is widely expressed in adult and embryonic tissues,
and in tumor cell lines, and is localized not only in
the cytoplasm where it interacts with Fas, but also in
the nucleus. FAF1 contains phosphorylation sites for
protein kinase CK2 within the nuclear targeting domain.
Phosphorylation influences nuclear localization of FAF1
but does not affect its potentiation of Fas-induced
apoptosis. Other functions have also been attributed to
FAF1. It inhibits nuclear factor-kB (NF-kB) by
interfering with the nuclear translocation of the p65
subunit. FAF1 also interacts with valosin-containing
protein (VCP), which is involved in the
ubiquitin-proteosome pathway.
Length = 136
Score = 30.2 bits (68), Expect = 0.88
Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
Query: 351 MCDADLDSSDTLNKKIRNAQISQYNFIMVVGEKEKSSNTVNVRTRDNIVHGEFSVDDVIT 410
C S IRN + Q I+++ K S+ +NV + G VD+++
Sbjct: 76 SCTRHFGSVAAQT--IRNIKTDQLPAILIIMGKRSSNEVLNV------IQGNTGVDELLM 127
Query: 411 R 411
R
Sbjct: 128 R 128
>gnl|CDD|181274 PRK08184, PRK08184, benzoyl-CoA-dihydrodiol lyase; Provisional.
Length = 550
Score = 31.1 bits (71), Expect = 1.1
Identities = 13/24 (54%), Positives = 18/24 (75%), Gaps = 3/24 (12%)
Query: 156 GLTRV---RRFQQDDAHIFCTVEQ 176
GLTRV R+ ++D A IFCT+E+
Sbjct: 174 GLTRVTDKRKVRRDLADIFCTIEE 197
>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 = 30.6 bits (70), Expect = 1.3
Identities = 23/108 (21%), Positives = 38/108 (35%), Gaps = 7/108 (6%)
Query: 65 IRSEYRKRGFQEVVSPNVYNVKLWQTSGHWAHYSENMFSF-DVENETYALKPMNCPGHCL 123
+R + + G++E+ +P +L+ S+ M+ F D AL+P
Sbjct: 12 LREVFERYGYEEIDTPVFEYTELFL-RKSGDEVSKEMYRFKDKGGRDLALRPDLTAPVAR 70
Query: 124 IFDHRVRSWRELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIF 171
LPL++ G + R E R R F Q I
Sbjct: 71 AVAEN-LLSLPLPLKLYYIGPVFRYERPQKG----RYREFYQVGVEII 113
>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 = 1.8
Identities = 22/95 (23%), Positives = 35/95 (36%), Gaps = 6/95 (6%)
Query: 61 LVEFIRSEYRKRGFQEVVSPNVYNVKLWQ--TSGHWAHYSENMFSFDVENETYALKPMNC 118
L + RGF +V +P + + + T +F D E L+PM
Sbjct: 31 LERELAKALVDRGFVQVKTPIIIPKEYLEKMTIDEDHPLFSQVFWVD---ENKCLRPMLA 87
Query: 119 PGHCLIFDHRVRSWRELPLRMADFGVLHRNELSGA 153
P R W P+R+ + G +R E G+
Sbjct: 88 PNLYNYLRKLDRLW-PKPIRIFEIGPCYRKESQGS 121
>gnl|CDD|223500 COG0423, GRS1, Glycyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 558
Score = 29.3 bits (66), Expect = 5.1
Identities = 11/50 (22%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 54 GAFIYNTLVEFIRSEY--RKRGFQEVVSPNVYNVKLWQTSGHWAHYSENM 101
G + N + E R + + E+ +P + ++W+ SGH +S+ +
Sbjct: 39 GVELKNNIKEAWRKSFVTEREDVVEIDTPIILPEEVWKASGHVDKFSDPL 88
>gnl|CDD|233452 TIGR01533, lipo_e_P4, 5'-nucleotidase, lipoprotein e(P4) family.
This model represents a set of bacterial lipoproteins
belonging to a larger acid phosphatase family
(pfam03767), which in turn belongs to the haloacid
dehalogenase (HAD) superfamily of aspartate-dependent
hydrolases. Members are found on the outer membrane of
Gram-negative bacteria and the cytoplasmic membrane of
Gram-positive bacteria. Most members have classic
lipoprotein signal sequences. A critical role of this
5'-nucleotidase in Haemophilus influenzae is the
degradation of external riboside in order to allow
transport into the cell. An earlier suggested role in
hemin transport is no longer current. This enzyme may
also have other physiologically significant roles
[Transport and binding proteins, Other, Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridine
nucleotides].
Length = 266
Score = 28.6 bits (64), Expect = 5.1
Identities = 29/152 (19%), Positives = 52/152 (34%), Gaps = 30/152 (19%)
Query: 261 HQCATIQLDFQLPIRFNLAYVNEKGEKNRPVMIHRAILGSVERMVAILTESYAGK----- 315
+ A ++LD L K K++ AI+ ++ V + Y G
Sbjct: 57 YNLAKMRLDNNL-----------KKVKDKK----YAIVLDLDETV-LDNSPYQGYQVLNN 100
Query: 316 -------WPFWISPRQGIVIPVAEPFNEYADQVKNKIFAAGFMCDADLDSS-DTLNKKIR 367
W W+ Q + A F YA+ KIF + + ++ L K+
Sbjct: 101 KPFDPETWDKWVQAAQAKPVAGALDFLNYANSKGVKIFYVSNRSEKEKAATLKNL-KRFG 159
Query: 368 NAQISQYNFIMVVGEKEKSSNTVNVRTRDNIV 399
Q + + ++ + K S V+ IV
Sbjct: 160 FPQADEEHLLLKKDKSSKESRRQKVQKDYEIV 191
>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 = 29.1 bits (65), Expect = 5.5
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 111 YALKPMNCPGHCLIFDHRVRSWRELPLRMAD-FGVLHRNELSGALTGLTRVRRFQQ 165
Y + P C F+ V + P++ D G +R E GA GL RV F +
Sbjct: 310 YVIAPAQCEPFYQFFEGEVIDAEDKPIKFFDRSGWTYRWEAGGA-KGLDRVHEFLR 364
>gnl|CDD|225123 COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC
component [Carbohydrate transport and metabolism].
Length = 472
Score = 28.8 bits (65), Expect = 6.4
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 4/48 (8%)
Query: 330 VAEPFNEYADQVKNKIFAAGFMCDADLDSS----DTLNKKIRNAQISQ 373
+ + + F CDA + SS L KK++NA ++
Sbjct: 363 QSSALAADVKNDLSNVKKIIFACDAGMGSSAMGASILRKKLKNAGLND 410
>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 = 28.3 bits (64), Expect = 7.1
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 133 RELPLRMADFGVLHRNELSGALTGLTRVRRFQQDDAHIFC 172
R+LP +A G RNE+S GL RVR F Q + F
Sbjct: 104 RKLPFGVAQIGKSFRNEIS-PRNGLFRVREFTQAEIEFFV 142
>gnl|CDD|211992 TIGR04269, SAM_SPASM_FxsB, radical SAM/SPASM domain, FxsB family.
This model describes a radical SAM (pfam04055)/SPASM
domain (TIGR04085) fusion subfamily distinct from PqqE,
MftC, anaerobic sulfatase maturases, and other peptide
maturases. The combined region described in this model
can itself be fused to another domain, such as
TIGR04267, or stand alone. Members occurring in the same
cassette as a member of family TIGR04268 should be
designated FxsB.
Length = 363
Score = 28.2 bits (63), Expect = 8.6
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 121 HCLIFDHRVRSWRELPLRMAD 141
HC +++H +SWR P M+
Sbjct: 18 HCYVYEHADQSWRARPKVMSA 38
>gnl|CDD|237085 PRK12383, PRK12383, putative mutase; Provisional.
Length = 406
Score = 28.4 bits (64), Expect = 9.1
Identities = 7/22 (31%), Positives = 15/22 (68%)
Query: 329 PVAEPFNEYADQVKNKIFAAGF 350
P+ PF++ D+V+ + +AG+
Sbjct: 99 PLRMPFSDVIDRVEQALESAGY 120
>gnl|CDD|237137 PRK12561, PRK12561, NAD(P)H-quinone oxidoreductase subunit 4;
Provisional.
Length = 504
Score = 28.1 bits (63), Expect = 9.6
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 4 RGHSLVLPECGDSNRMMPISFVL 26
R H+L +P G ++MP +F L
Sbjct: 329 RTHTLSIPNMGGLAKVMPKTFAL 351
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
0.322 0.138 0.427
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,091,606
Number of extensions: 2158438
Number of successful extensions: 1662
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1613
Number of HSP's successfully gapped: 61
Length of query: 426
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 326
Effective length of database: 6,502,202
Effective search space: 2119717852
Effective search space used: 2119717852
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 (21.9 bits)
S2: 60 (27.0 bits)