RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 008808
(553 letters)
>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 977 bits (2528), Expect = 0.0
Identities = 398/544 (73%), Positives = 448/544 (82%), Gaps = 17/544 (3%)
Query: 11 QEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQ 70
QE V+ S + ISKKAAKK AAK K R EA A AA+A +E+ PLA+NYGDVPL+
Sbjct: 3 QEAVEESGEKISKKAAKKAAAKAEKLRR----EATAKAAAASLEDEDDPLASNYGDVPLE 58
Query: 71 ELQSVNDPQTGKWSEAVNGREWTVVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRE 130
ELQS V GREWT V L L EVLIRGRVHT R G K AF+V+R+
Sbjct: 59 ELQS-----------KVTGREWTDVSDLGEELAGSEVLIRGRVHTIRGKG-KSAFLVLRQ 106
Query: 131 RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKL 190
TVQC+ V +VSK MV++ + LS ES+VDV GVVSVP +KG TQQVE+Q++K+
Sbjct: 107 SGFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKKPVKGTTQQVEIQVRKI 166
Query: 191 YCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249
YCVS+A T P +EDA+RSE+EIEKA + G QL RV QDTRLNNRV+D+RT ANQ IFR
Sbjct: 167 YCVSKALATLPFNVEDAARSESEIEKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAIFR 226
Query: 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMS 309
IQSQV N+FR+FLLS+ FVEIHTPKLIAG+SEGGSAVFRLDYKGQ ACLAQSPQLHKQM+
Sbjct: 227 IQSQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRLDYKGQPACLAQSPQLHKQMA 286
Query: 310 ICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGL 369
ICGDF RVFE GPVFRAEDS+THRHLCEFTGLD+EMEIK+HYSEV+D+VD LFV IFDGL
Sbjct: 287 ICGDFRRVFEIGPVFRAEDSFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFDGL 346
Query: 370 NNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLG 429
N CKKELEA+ +QYPFEPLKY PKTLRLTF EG+QMLK+AGVE+DPLGDLNTESERKLG
Sbjct: 347 NERCKKELEAIREQYPFEPLKYLPKTLRLTFAEGIQMLKEAGVEVDPLGDLNTESERKLG 406
Query: 430 QLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEIISGAQRIHIPEF 489
QLV EKYGT+FYILHRYPLAVRPFYTMPC D+ YSNSFDVFIRGEEIISGAQR+H PE
Sbjct: 407 QLVKEKYGTDFYILHRYPLAVRPFYTMPCPDDPKYSNSFDVFIRGEEIISGAQRVHDPEL 466
Query: 490 LAERAQACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPRDPL 549
L +RA+ CGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSL+PRDP
Sbjct: 467 LEKRAEECGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLFPRDPQ 526
Query: 550 RIAP 553
R+AP
Sbjct: 527 RLAP 530
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 489 bits (1259), Expect = e-168
Identities = 256/577 (44%), Positives = 352/577 (61%), Gaps = 71/577 (12%)
Query: 15 DSSSQSISKKAAKKEAAKKAK--EERRKEAEAAASAASALSIEEEGPLANNYGDVPLQEL 72
D+ + ++ KK + KEA K A+ EE+ + AE AA + +G P+ +
Sbjct: 7 DAGAPAVEKKQSDKEARKAARLAEEKARAAEKAALVEK---------YKDVFGAAPMVQ- 56
Query: 73 QSVNDPQTGKWSEAVNGREWTVVGALNG-SLKDQEVLIRGRVHTTRPVGNKLAFVVVRER 131
S R + V L+ L D+ VLIR RV TTR G K+AF+V+R+
Sbjct: 57 -----------STTYKSRTFIPVAVLSKPELVDKTVLIRARVSTTRKKG-KMAFMVLRDG 104
Query: 132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQ-VEVQIKKL 190
+VQ +A V+ D V KEM+ F+ + ESIVDV V + I + +E+++KK+
Sbjct: 105 SDSVQAMAAVEGD-VPKEMIDFIGQIPTESIVDVEATVCKVEQPITSTSHSDIELKVKKI 163
Query: 191 YCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249
+ V+ + +T P T+EDASR E++ EG +VN DTRLN+R +D+RT A+ IFR
Sbjct: 164 HTVTESLRTLPFTLEDASRKESD------EGA---KVNFDTRLNSRWMDLRTPASGAIFR 214
Query: 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMS 309
+QS+V FRQFL+ +F EIH+PK+I SEGG+ VF+L+Y + A LAQSPQL+KQM
Sbjct: 215 LQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKLEYFNRFAYLAQSPQLYKQMV 274
Query: 310 ICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGL 369
+ GD RVFE GPVFR+E+S THRHL EF GLDVEM I +HY EV+D+ + LF IF+ L
Sbjct: 275 LQGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFNYIFERL 334
Query: 370 NNVCKKELEAVAKQYPFEPL-------------------------KYKPKT-------LR 397
KEL+AV +QYPFEPL KY+ + LR
Sbjct: 335 AT-HTKELKAVCQQYPFEPLVWKLTPERMKELGVGVISEGVEPTDKYQARVHNMDSRMLR 393
Query: 398 LTFEEGVQMLKDAGVE-IDPLGDLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTM 456
+ + +++L E + P D+NT +E+ LG+LV E+YGT+F+I R+P + RPFYTM
Sbjct: 394 INYMHCIELLNTVLEEKMAPTDDINTTNEKLLGKLVKERYGTDFFISDRFPSSARPFYTM 453
Query: 457 PCHDNSLYSNSFDVFIRGEEIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAP 516
C D+ ++NS+D+FIRGEEI SGAQRIH P+ L RA+ +D+ I Y+DSFR GA
Sbjct: 454 ECKDDERFTNSYDMFIRGEEISSGAQRIHDPDLLLARAKMLNVDLTPIKEYVDSFRLGAW 513
Query: 517 PHGGFGVGLERVVMLFCGLNNIRKTSLYPRDPLRIAP 553
PHGGFGVGLERVVML+ GL+N+R SL+PRDP R P
Sbjct: 514 PHGGFGVGLERVVMLYLGLSNVRLASLFPRDPQRTTP 550
>gnl|CDD|238399 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II
core domain. Assignment to class II aminoacyl-tRNA
synthetases (aaRS) based upon its structure and the
presence of three characteristic sequence motifs in the
core domain. This family includes AsnRS as well as a
subgroup of AspRS. AsnRS and AspRS are homodimers,
which attach either asparagine or aspartate to the 3'OH
group of ribose of the appropriate tRNA. While archaea
lack asnRS, they possess a non-discriminating aspRS,
which can mischarge Asp-tRNA with Asn. Subsequently, a
tRNA-dependent aspartate amidotransferase converts the
bound aspartate to asparagine. The catalytic core domain
is primarily responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate.
Length = 322
Score = 451 bits (1163), Expect = e-157
Identities = 147/327 (44%), Positives = 203/327 (62%), Gaps = 9/327 (2%)
Query: 225 RVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGS 284
N +T L+NR +D+RT Q IFRI+S+V FR+FL F E+HTPK+ + +EGG+
Sbjct: 1 DANLETLLDNRHLDLRTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGA 60
Query: 285 AVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
+F++ Y G+ A LAQSPQL+K+M I RV+E GPVFRAE S T RHL EF L+ E
Sbjct: 61 ELFKVSYFGKPAYLAQSPQLYKEMLIAA-LERVYEIGPVFRAEKSNTRRHLSEFWMLEAE 119
Query: 345 MEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404
M + Y+EVMD+++ L IF + C KELE V Q E LK R+T++E +
Sbjct: 120 MAFIEDYNEVMDLIEELIKYIFKRVLERCAKELELV-NQLNRELLKPLEPFPRITYDEAI 178
Query: 405 QMLKDAGV--EIDPLGDLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNS 462
++L++ GV E+ DL+TE ER LG E + + YP ++PFY P DN
Sbjct: 179 ELLREKGVEEEVKWGEDLSTEHERLLG----EIVKGDPVFVTDYPKEIKPFYMKPDDDNP 234
Query: 463 LYSNSFDVFIRG-EEIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGF 521
SFD+ + G EI+ G+QRIH + L ER + G+D ++ Y+D +YG PPHGGF
Sbjct: 235 ETVESFDLLMPGVGEIVGGSQRIHDYDELEERIKEHGLDPESFEWYLDLRKYGMPPHGGF 294
Query: 522 GVGLERVVMLFCGLNNIRKTSLYPRDP 548
G+GLER+VM GL+NIR+ L+PRDP
Sbjct: 295 GLGLERLVMWLLGLDNIREAILFPRDP 321
>gnl|CDD|235354 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 423 bits (1091), Expect = e-144
Identities = 179/449 (39%), Positives = 267/449 (59%), Gaps = 28/449 (6%)
Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
+EV + G VH R +G +AF+++R+R +Q VK +E+ ++ L ES+V
Sbjct: 17 EEVTLAGWVHEIRDLG-GIAFLILRDRSGIIQV--VVKKKVD-EELFETIKKLKRESVVS 72
Query: 165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLP 224
V G V A VEV +++ +++A + P+ ++ + + AE+
Sbjct: 73 VTGTV----KANPKAPGGVEVIPEEIEVLNKA-EEPLPLDISGKVLAEL----------- 116
Query: 225 RVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGS 284
DTRL+NR +D+R + IF+I+S+V FR+FL F EI TPK++A +EGG+
Sbjct: 117 ----DTRLDNRFLDLRRPRVRAIFKIRSEVLRAFREFLYENGFTEIFTPKIVASGTEGGA 172
Query: 285 AVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
+F +DY + A LAQSPQL+KQM + F RVFE GPVFRAE+ T RHL E+T +DVE
Sbjct: 173 ELFPIDYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNTSRHLNEYTSIDVE 232
Query: 345 MEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404
M + +VMD+++ L +++ + C+KELE + + P R+T++E +
Sbjct: 233 MGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIELPVPETPIP----RITYDEAI 288
Query: 405 QMLKDAGVEIDPLGDLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLY 464
++LK G EI DL+TE ER LG+ V E+YG++FY + YP RPFYTMP D+
Sbjct: 289 EILKSKGNEISWGDDLDTEGERLLGEYVKEEYGSDFYFITDYPSEKRPFYTMPDEDDPEI 348
Query: 465 SNSFDVFIRGEEIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGFGVG 524
S SFD+ RG EI SG QRIH + L E + G++ ++ Y+++F+YG PPHGGFG+G
Sbjct: 349 SKSFDLLFRGLEITSGGQRIHRYDMLVESIKEKGLNPESFEFYLEAFKYGMPPHGGFGLG 408
Query: 525 LERVVMLFCGLNNIRKTSLYPRDPLRIAP 553
LER+ M GL NIR+ L+PRD R+ P
Sbjct: 409 LERLTMKLLGLENIREAVLFPRDRHRLTP 437
>gnl|CDD|129550 TIGR00458, aspS_nondisc, nondiscriminating aspartyl-tRNA
synthetase. In a multiple sequence alignment of
representative asparaginyl-tRNA synthetases (asnS),
archaeal/eukaryotic type aspartyl-tRNA synthetases
(aspS_arch), and bacterial type aspartyl-tRNA
synthetases (aspS_bact), there is a striking similarity
between asnS and aspS_arch in gap pattern and in
sequence, and a striking divergence of aspS_bact.
Consequently, a separate model was built for each of the
three groups. This model, aspS_arch, represents
aspartyl-tRNA synthetases from the eukaryotic cytosol
and from the Archaea. In some species, this enzyme
aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn)
is subsequently transamidated to Asn-tRNA(asn) [Protein
synthesis, tRNA aminoacylation].
Length = 428
Score = 409 bits (1054), Expect = e-139
Identities = 178/450 (39%), Positives = 259/450 (57%), Gaps = 35/450 (7%)
Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
QEV G VH R +G L FV++R+R +Q T VSK + ++ + L+ ES+V
Sbjct: 13 QEVTFMGWVHEIRDLG-GLIFVLLRDREGLIQ--ITAPAKKVSKNLFKWAKKLNLESVVA 69
Query: 165 VIGVVSVPDVEIKGAT-QQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQL 223
V G+V +IK E+ K+ ++ AK P+ ++ + AE+
Sbjct: 70 VRGIV-----KIKEKAPGGFEIIPTKIEVIN-EAKEPLPLDPTEKVPAEL---------- 113
Query: 224 PRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGG 283
DTRL+ R +D+R Q IFRI+S V R+FL E F+E+HTPKL+A ++EGG
Sbjct: 114 -----DTRLDYRFLDLRRPTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGG 168
Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
+ +F + Y + A L QSPQL+KQ + F RV+E GP+FRAE+ THRHL E T +D+
Sbjct: 169 TELFPITYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDI 228
Query: 344 EMEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEG 403
EM + H +VMDI++ L V +F+ + C +LE + + K+ RLT++E
Sbjct: 229 EMAFEDH-HDVMDILEELVVRVFEDVPERCAHQLETLEFKLEKPEGKFV----RLTYDEA 283
Query: 404 VQMLKDAGVEIDPLGDLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSL 463
++M GVEI DL+TE+E+ LG E+ ++I +P +RPFYTMP DN
Sbjct: 284 IEMANAKGVEIGWGEDLSTEAEKALG----EEMDGLYFITD-WPTEIRPFYTMPDEDNPE 338
Query: 464 YSNSFDVFIRGEEIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGFGV 523
S SFD+ R EI SGAQRIH+ + L ER +A G++ + Y+++F YG PPH G+G+
Sbjct: 339 ISKSFDLMYRDLEISSGAQRIHLHDLLVERIKAKGLNPEGFKDYLEAFSYGMPPHAGWGL 398
Query: 524 GLERVVMLFCGLNNIRKTSLYPRDPLRIAP 553
G ER VM GL NIR+ L+PRD R+ P
Sbjct: 399 GAERFVMFLLGLKNIREAVLFPRDRKRLTP 428
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 404 bits (1040), Expect = e-137
Identities = 162/452 (35%), Positives = 237/452 (52%), Gaps = 36/452 (7%)
Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
QEV +RG VH R +G K+ F+V+R+ +Q V + V +E+ + + L+ ES V
Sbjct: 17 QEVTVRGWVHNKRDLG-KIIFLVLRDGSGFIQA--VVPKNKVYEELFKA-KKLTLESSVV 72
Query: 165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQL 223
V G+V A Q E+Q++K+ + A PI ++
Sbjct: 73 VTGIV----KASPKAPQGFELQVEKIEVLGEADPPYPIDKKE------------------ 110
Query: 224 PRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGG 283
+T L+NR +D+RT Q +F+I+S + R+F F E+HTP + A ++EGG
Sbjct: 111 -HSELETLLDNRHLDLRTPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGG 169
Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
+F++DY + A L QSPQL+K+ RVF GP FRAE S T RHL EF LD
Sbjct: 170 GELFKVDYFDKEAYLTQSPQLYKEALAAA-LERVFTIGPTFRAEKSNTRRHLSEFWMLDP 228
Query: 344 EMEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEG 403
EM ++VMD+ + L +F + C ELE + + R+T++E
Sbjct: 229 EMAFADL-NDVMDLAEELIKYLFKKVLEECADELEFLGRDNSELKRPESAPFPRITYKEA 287
Query: 404 VQMLKDAGVEIDPLG-DLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNS 462
+++L++ G E G DL TE ER LG E+Y + YP ++PFY P DN
Sbjct: 288 IEILEEKGFEKVEWGDDLGTEHERYLG----EEYFKPPVFVTNYPKEIKPFYMRPDPDNP 343
Query: 463 LYSNSFDVFIRGE-EIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGF 521
SFD+ G EII G+QR H + L ER + G+D ++ Y+D +YG PPH GF
Sbjct: 344 GTVASFDLLAPGGGEIIGGSQREHDYDLLVERIKEKGLDPESYEWYLDLRKYGMPPHAGF 403
Query: 522 GVGLERVVMLFCGLNNIRKTSLYPRDPLRIAP 553
G+GLER+VM GL+NIR+ +PRDP R+ P
Sbjct: 404 GLGLERLVMYILGLDNIREAIPFPRDPGRLYP 435
>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).
Length = 345
Score = 261 bits (669), Expect = 9e-83
Identities = 108/349 (30%), Positives = 168/349 (48%), Gaps = 32/349 (9%)
Query: 227 NQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAV 286
+++TRL R +D+R Q +++S++ R+FL F+E+ TP L + EGG+
Sbjct: 1 SEETRLKYRYLDLRRPKMQANLKLRSKIIKAIREFLDERGFLEVETPILTKSTPEGGARD 60
Query: 287 FRLDYK--GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
F + K + A L QSPQL+KQ+ + F RVF+ P FR ED T RH EFT LD+E
Sbjct: 61 FLVPSKFYAKEAYLPQSPQLYKQLLMVAGFDRVFQIAPCFRDEDLRTDRHPPEFTQLDLE 120
Query: 345 MEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKY----------KPK 394
M Y +VMD+ + L +F + ++ + F + Y KP
Sbjct: 121 MSFVD-YEDVMDLTEDLIKYVFKKVLGKREELELLGIELPEFPRITYAEAIERYGSDKPD 179
Query: 395 T-LRLTFEEGVQMLKDAGVEI---------DPLG-DLNTESERKLGQLVLEKYGTEFYIL 443
L ++ ++ K + ++ LG + E LG +K +
Sbjct: 180 LRFGLELKDVTEIFKGSEFKVFAEAGDVVDKALGALRSELGEENLG----DKDKDNPVFV 235
Query: 444 HRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEIISGAQRIHIPEFLAERAQACGIDVKT 503
+PL PFY D + FD+ + G EI G+ RIH PE +R + G+D +
Sbjct: 236 TDFPLFEHPFYMPKDEDPPGLAERFDLVLNGGEIGGGSIRIHDPEEQRKRFEELGLDPEE 295
Query: 504 IST----YIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPRDP 548
Y+D+ +YG PPHGG G+GL+R+VML GL +IR+ +P+
Sbjct: 296 AEEKFGFYLDALKYGMPPHGGIGLGLDRLVMLLTGLESIREVIAFPKTR 344
>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
Length = 450
Score = 212 bits (543), Expect = 8e-63
Identities = 132/487 (27%), Positives = 207/487 (42%), Gaps = 67/487 (13%)
Query: 93 TVVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVR 152
++ L G QEV +RG V T R G K+AF+ +R+ Q E
Sbjct: 5 SIKDILKGKYVGQEVTVRGWVRTKRDSG-KIAFLQLRDGSCFKQLQVVKDNGE---EYFE 60
Query: 153 FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEA 211
++ L+ S V V G V VE A Q E+Q K+ + + PI + S
Sbjct: 61 EIKKLTTGSSVIVTGTV----VESPRAGQGYELQATKIEVIGEDPEDYPIQKKRHSI--- 113
Query: 212 EIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIH 271
+ + RT + RI++ + +F FV +
Sbjct: 114 -----------------EFLREIAHLRPRTNKFGAVMRIRNTLAQAIHEFFNENGFVWVD 156
Query: 272 TPKLIAGSSEGGSAVFRL---------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGP 322
TP + A EG +FR+ D+ G+ A L S QL+ + G+V+ GP
Sbjct: 157 TPIITASDCEGAGELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEAYAMA-LGKVYTFGP 215
Query: 323 VFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDG-LNNVCKKELEAVA 381
FRAE+S T RHL EF ++ EM + MD+ + + + L N C +LE +
Sbjct: 216 TFRAENSNTRRHLAEFWMIEPEMAFADL-EDNMDLAEEMLKYVVKYVLEN-CPDDLEFLN 273
Query: 382 KQYP---FEPLK--YKPKTLRLTFEEGVQMLKDAGVEIDPL---G-DLNTESERKLGQLV 432
++ E L+ + R+T+ E +++L+ +G + + G DL +E ER
Sbjct: 274 RRVDKGDIERLENFIESPFPRITYTEAIEILQKSGKKFEFPVEWGDDLGSEHER------ 327
Query: 433 LEKYGTEFY-----ILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRG-EEIISGAQRIHI 486
Y E + + YP ++ FY D + + D+ G EII G+QR
Sbjct: 328 ---YLAEEHFKKPVFVTNYPKDIKAFYMRLNPDGKTVA-AMDLLAPGIGEIIGGSQREER 383
Query: 487 PEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPR 546
+ L R + G++ + Y+D RYG+ PH GFG+G ER+V GL+NIR +PR
Sbjct: 384 LDVLEARIKELGLNKEDYWWYLDLRRYGSVPHSGFGLGFERLVAYITGLDNIRDVIPFPR 443
Query: 547 DPLRIAP 553
P R
Sbjct: 444 TPGRAEF 450
>gnl|CDD|232982 TIGR00457, asnS, asparaginyl-tRNA synthetase. In a multiple
sequence alignment of representative asparaginyl-tRNA
synthetases (asnS), archaeal/eukaryotic type
aspartyl-tRNA synthetases (aspS_arch), and bacterial
type aspartyl-tRNA synthetases (aspS_bact), there is a
striking similarity between asnS and aspS_arch in gap
pattern and in sequence, and a striking divergence of
aspS_bact. Consequently, a separate model was built for
each of the three groups. This model, asnS, represents
asparaginyl-tRNA synthetases from the three domains of
life. Some species lack this enzyme and charge tRNA(asn)
by misacylation with Asp, followed by transamidation of
Asp to Asn [Protein synthesis, tRNA aminoacylation].
Length = 453
Score = 208 bits (531), Expect = 4e-61
Identities = 120/470 (25%), Positives = 206/470 (43%), Gaps = 50/470 (10%)
Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
EV + G V T R K+ F+ + + S++ + V + + + ++SL+ S
Sbjct: 15 VGDEVTVSGWVRTKRSSK-KIIFLELNDG-SSLGPIQAVINGEDNPYLFQLLKSLTTGSS 72
Query: 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQ 222
V V G V VE G Q VE+Q+KK+ V A + Q
Sbjct: 73 VSVTGKV----VESPGKGQPVELQVKKIEVVGEAEPDDYPL------------------Q 110
Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
+ + + + +RT + R+++ + ++ F + P L + EG
Sbjct: 111 KKEHSLEFLRDIAHLRLRTNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPILTSNDCEG 170
Query: 283 GSAVFRL---------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHR 333
+FR+ D+ G+ A L S QL+ + +V+ GP FRAE S T R
Sbjct: 171 AGELFRVSTGNIDFSQDFFGKEAYLTVSGQLYLETYALA-LSKVYTFGPTFRAEKSNTSR 229
Query: 334 HLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKP 393
HL EF ++ EM ++++ + + L I + C +EL+ + K + + +K
Sbjct: 230 HLSEFWMIEPEMAFAN-LNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLE 288
Query: 394 KTL-----RLTFEEGVQMLKDAG--VEIDPL--GDLNTESERKLGQLVLEKYGTEFYILH 444
+ R+T+ + +++LK++ E + DL TE ER L E+Y +
Sbjct: 289 NIINNKFARITYTDAIEILKESDKNFEYEDFWGDDLQTEHERFLA----EEYFKPPVFVT 344
Query: 445 RYPLAVRPFYTMPCHDNSLYSNSFDVFIRG-EEIISGAQRIHIPEFLAERAQACGIDVKT 503
YP ++ FY D + + D+ G EII G++R + L R + G+D
Sbjct: 345 NYPKDIKAFYMKLNDDGKTVA-AMDLLAPGIGEIIGGSEREDDLDKLENRMKEMGLDTDA 403
Query: 504 ISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPRDPLRIAP 553
++ Y+D +YG+ PH GFG+G ER++ GL NIR +PR P I
Sbjct: 404 LNWYLDLRKYGSVPHSGFGLGFERLLAYITGLENIRDAIPFPRTPGNINF 453
>gnl|CDD|238358 cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA synthetase class II
core domain. This domain is the core catalytic domain of
class II aminoacyl-tRNA synthetases of the subgroup
containing aspartyl, lysyl, and asparaginyl tRNA
synthetases. 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. Nearly all class II tRNA synthetases
are dimers and enzymes in this subgroup are homodimers.
These enzymes attach a specific amino acid to the 3' OH
group of ribose of the appropriate tRNA.
Length = 269
Score = 190 bits (485), Expect = 9e-57
Identities = 86/306 (28%), Positives = 135/306 (44%), Gaps = 45/306 (14%)
Query: 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSACLAQSPQLH 305
F+++S++ R F+ F+E+ TP L + G+ F + Y G L SPQL
Sbjct: 1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLF 60
Query: 306 KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTI 365
K+ + G RVFE FR ED RH EFT +D+EM Y +V+++ +RL +
Sbjct: 61 KKRLMVGGLDRVFEINRNFRNEDL-RARHQPEFTMMDLEMAFAD-YEDVIELTERLVRHL 118
Query: 366 FDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESE 425
+ V + P RLT+ E
Sbjct: 119 AREVLGVTAVTYG----FELEDFGLPFP---RLTYREA---------------------- 149
Query: 426 RKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEIISGAQRIH 485
LE+YG + L YP + P N +++FD+FI G E+ +G+ R+H
Sbjct: 150 -------LERYG-QPLFLTDYPAEMHSPLASPHDVNPEIADAFDLFINGVEVGNGSSRLH 201
Query: 486 IPEFLAERAQACGID----VKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKT 541
P+ AE Q GI+ ++ Y+ + YG PPHGG G+G++R++ML IR+
Sbjct: 202 DPDIQAEVFQEQGINKEAGMEYFEFYLKALEYGLPPHGGLGIGIDRLIMLMTNSPTIREV 261
Query: 542 SLYPRD 547
+P+
Sbjct: 262 IAFPKM 267
>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 155 bits (394), Expect = 9e-43
Identities = 95/314 (30%), Positives = 150/314 (47%), Gaps = 24/314 (7%)
Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTP-------KLIAGSSEGGSAVFRLDYKGQSACLA 299
+ ++QS + R+FL FVE+ P L+ S+ +D+ G LA
Sbjct: 29 VLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVEYYLA 88
Query: 300 QSPQLHKQMSICGDFGRVFETGPVFRAE--DSYTHRHLCEFTGLDVEMEIKKHYSEVMDI 357
S LHKQ+++ G++F P FR E D T RHL EFT LD+E+E EVMD+
Sbjct: 89 DSMILHKQLAL-RMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIE-GADLDEVMDL 146
Query: 358 VDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPL 417
++ L + L + ELE + P K R+T +E V++L + G L
Sbjct: 147 IEDLIKYLVKELLEEHEDELEFFGRDLP----HLKRPFKRITHKEAVEILNEEGCRGIDL 202
Query: 418 GDLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIR---G 474
+L +E E+ L E + F+I+ P R FY + ++D+ + G
Sbjct: 203 EELGSEGEKSL----SEHFEEPFWIID-IPKGSREFYDREDPERPGVLRNYDLLLPEGYG 257
Query: 475 EEIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCG 534
E +SG +R + E + ER + G+D + Y++ + G P GFG+G+ER+ CG
Sbjct: 258 E-AVSGGEREYEYEEIVERIREHGVDPEKYKWYLEMAKEGPLPSAGFGIGVERLTRYICG 316
Query: 535 LNNIRKTSLYPRDP 548
L +IR+ +PR P
Sbjct: 317 LRHIREVQPFPRVP 330
>gnl|CDD|239815 cd04320, AspRS_cyto_N, AspRS_cyto_N: N-terminal, anticodon
recognition domain of the type found in Saccharomyces
cerevisiae and human cytoplasmic aspartyl-tRNA
synthetase (AspRS). This domain is a beta-barrel domain
(OB fold) involved in binding the tRNA anticodon
stem-loop. The enzymes in this group are homodimeric
class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs
catalyze the specific attachment of amino acids (AAs) to
their cognate tRNAs during protein biosynthesis. This
2-step reaction involves i) the activation of the AA by
ATP in the presence of magnesium ions, followed by ii)
the transfer of the activated AA to the terminal ribose
of tRNA. In the case of the class2b aaRSs, the
activated AA is attached to the 3'OH of the terminal
ribose. Eukaryotes contain 2 sets of aaRSs, both of
which are encoded by the nuclear genome. One set
concerns with cytoplasmic protein synthesis, whereas the
other exclusively with mitochondrial protein synthesis.
Length = 102
Score = 145 bits (367), Expect = 9e-42
Identities = 53/102 (51%), Positives = 70/102 (68%), Gaps = 2/102 (1%)
Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV 165
EVLIR RVHT+R G KLAF+V+R++ T+Q + + VSK+MV++ SLS ESIVDV
Sbjct: 1 EVLIRARVHTSRAQGAKLAFLVLRQQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDV 60
Query: 166 IGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRAAKT-PITIED 205
G V P+ IK TQQ VE+ I+K+Y VS AA+ P +ED
Sbjct: 61 EGTVKKPEEPIKSCTQQDVELHIEKIYVVSEAAEPLPFQLED 102
>gnl|CDD|238400 cd00777, AspRS_core, Asp tRNA synthetase (aspRS) class II core
domain. Class II assignment is based upon its structure
and the presence of three characteristic sequence
motifs. AspRS is a homodimer, which attaches a specific
amino acid to the 3' OH group of ribose of the
appropriate tRNA. The catalytic core domain is primarily
responsible for the ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. AspRS in this family
differ from those found in the AsxRS family by a GAD
insert in the core domain.
Length = 280
Score = 138 bits (350), Expect = 3e-37
Identities = 94/323 (29%), Positives = 146/323 (45%), Gaps = 72/323 (22%)
Query: 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVF----RLDYKGQSACLAQSPQ 303
R++S+V R FL + FVEI TP L S+ G+ F RL + G+ L QSPQ
Sbjct: 1 LRLRSRVIKAIRNFLDEQGFVEIETPILTK-STPEGARDFLVPSRL-HPGKFYALPQSPQ 58
Query: 304 LHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEME-IKKHYSEVMDIVDRLF 362
L KQ+ + F R F+ FR ED R EFT +D+EM + + ++M +++ L
Sbjct: 59 LFKQLLMVSGFDRYFQIARCFRDEDLRADRQ-PEFTQIDIEMSFVDQE--DIMSLIEGLL 115
Query: 363 VTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVE----ID-PL 417
+F KE+ V PF R+T+ E M + G + +D PL
Sbjct: 116 KYVF--------KEVLGVELTTPFP---------RMTYAEA--MER-YGFKFLWIVDFPL 155
Query: 418 GDLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLY----------SNS 467
+ + E R H PF T P + L + +
Sbjct: 156 FEWDEEEGR-------------LVSAH------HPF-TAP-KEEDLDLLEKDPEDARAQA 194
Query: 468 FDVFIRGEEIISGAQRIHIPEFLAERA-QACGIDVKTIST----YIDSFRYGAPPHGGFG 522
+D+ + G E+ G+ RIH P+ + E+ + G+ + +++F+YGAPPHGG
Sbjct: 195 YDLVLNGVELGGGSIRIHDPD-IQEKVFEILGLSEEEAEEKFGFLLEAFKYGAPPHGGIA 253
Query: 523 VGLERVVMLFCGLNNIRKTSLYP 545
+GL+R+VML G +IR +P
Sbjct: 254 LGLDRLVMLLTGSESIRDVIAFP 276
>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 585
Score = 133 bits (337), Expect = 3e-33
Identities = 86/308 (27%), Positives = 133/308 (43%), Gaps = 48/308 (15%)
Query: 96 GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
G L S Q V + G VH R G L F+ +R+R VQ + S E
Sbjct: 7 GELRESHVGQTVTLSGWVHRRRDHG-GLIFIDLRDREGIVQVVFD---PEDSPEAFEVAS 62
Query: 156 SLSNESIVDVIGVVSV-PDVEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
L NE ++ V G V P+ I T ++EV +++ ++ + P IED
Sbjct: 63 RLRNEFVIQVTGTVRARPEGTINPNLPTGEIEVLAEEIEVLNASKTLPFQIEDE------ 116
Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
+++ RL R +D+R Q +++S+V R FL + F+EI T
Sbjct: 117 -----------TNASEEIRLKYRYLDLRRPEMQKNLKLRSKVTKAIRNFLDDQGFLEIET 165
Query: 273 PKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
P L + EG R D+ G+ L QSPQL KQ+ + F R ++ FR
Sbjct: 166 PILTKSTPEGA----R-DFLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFR 220
Query: 326 AEDSYTHRHLCEFTGLDVEME-IKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQY 384
ED R EFT +D+EM + + +VM+++++L +F V EL+
Sbjct: 221 DEDLRADRQP-EFTQIDLEMSFVDEE--DVMELIEKLLRYVF---KEVKGIELKT----- 269
Query: 385 PFEPLKYK 392
PF + Y
Sbjct: 270 PFPRMTYA 277
Score = 76.8 bits (190), Expect = 8e-15
Identities = 41/121 (33%), Positives = 62/121 (51%), Gaps = 21/121 (17%)
Query: 452 PFYTMP---------CHDNSLYSNSFDVFIRGEEIISGAQRIHIPEFLAERA-QACGIDV 501
PF TMP S+ + ++D+ + G E+ G+ RIH PE + E+ + GI
Sbjct: 449 PF-TMPKPEDLELLEADPESVRARAYDLVLNGYELGGGSIRIHDPE-IQEKVFEILGISP 506
Query: 502 KTIST----YIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPR-----DPLRIA 552
+ +++F+YGAPPHGG GL+R+VML G +IR +P+ D L A
Sbjct: 507 EEAEEKFGFLLEAFKYGAPPHGGIAFGLDRLVMLLTGAESIRDVIAFPKTQQAADLLTNA 566
Query: 553 P 553
P
Sbjct: 567 P 567
>gnl|CDD|211576 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type.
Asparate--tRNA ligases in this family may be
discriminating (6.1.1.12) or nondiscriminating
(6.1.1.23). In a multiple sequence alignment of
representative asparaginyl-tRNA synthetases (asnS),
archaeal/eukaryotic type aspartyl-tRNA synthetases
(aspS_arch), and bacterial type aspartyl-tRNA
synthetases (aspS_bact), there is a striking similarity
between asnS and aspS_arch in gap pattern and in
sequence, and a striking divergence of aspS_bact.
Consequently, a separate model was built for each of the
three groups. This model, aspS_bact, represents
aspartyl-tRNA synthetases from the Bacteria and from
mitochondria. In some species, this enzyme aminoacylates
tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently
transamidated to Asn-tRNA(asn). This model generates
very low scores for the archaeal type of aspS and for
asnS; scores between the trusted and noise cutoffs
represent fragmentary sequences [Protein synthesis, tRNA
aminoacylation].
Length = 583
Score = 118 bits (298), Expect = 3e-28
Identities = 79/308 (25%), Positives = 132/308 (42%), Gaps = 49/308 (15%)
Query: 95 VGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV 154
G L Q V + G V+ R +G L F+ +R+R VQ PD+ + ++ + +
Sbjct: 6 CGQLRTEHLGQTVTLAGWVNRRRDLG-GLIFIDLRDRSGIVQ--VVCDPDADALKLAKGL 62
Query: 155 RSLSNESIVDVIGVVSVPDVEIKG---ATQQVEVQIKKLYCVSRAAKTPITIEDASRSEA 211
R NE +V V G VS T ++E+ + + ++++ P+ IE
Sbjct: 63 R---NEDVVQVKGKVSARPEGNINRNLDTGEIEILAESITLLNKSKTPPLIIEKTD---- 115
Query: 212 EIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIH 271
++ RL R +D+R Q +++ +V R FL + F+EI
Sbjct: 116 --------------AEEEVRLKYRYLDLRRPEMQQRLKLRHKVTKAVRNFLDQQGFLEIE 161
Query: 272 TPKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVF 324
TP L + EG DY KG+ L QSPQL KQ+ + R ++ F
Sbjct: 162 TPMLTKSTPEGAR-----DYLVPSRVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCF 216
Query: 325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQY 384
R ED R EFT +D+EM +VM+++++L +F E++ + +
Sbjct: 217 RDEDLRADRQ-PEFTQIDMEMSFMTQ-EDVMELIEKLVSHVF--------LEVKGIDLKK 266
Query: 385 PFEPLKYK 392
PF + Y
Sbjct: 267 PFPVMTYA 274
Score = 71.3 bits (175), Expect = 5e-13
Identities = 35/108 (32%), Positives = 56/108 (51%), Gaps = 14/108 (12%)
Query: 452 PFYTMP---------CHDNSLYSNSFDVFIRGEEIISGAQRIHIPEFLAERAQACGID-- 500
PF TMP + ++D+ + G E+ G+ RIH PE + + GID
Sbjct: 446 PF-TMPKDEDLENLEAAPEEALAEAYDLVLNGVELGGGSIRIHDPEVQKKVFEILGIDPE 504
Query: 501 --VKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPR 546
+ +++F+YG PPH GF +GL+R++ML G +NIR +P+
Sbjct: 505 EAREKFGFLLEAFKYGTPPHAGFALGLDRLMMLLTGTDNIRDVIAFPK 552
>gnl|CDD|232998 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and
non-spirochete bacterial. This model represents the
lysyl-tRNA synthetases that are class II amino-acyl tRNA
synthetases. It includes all eukaryotic and most
bacterial examples of the enzyme, but not archaeal or
spirochete forms [Protein synthesis, tRNA
aminoacylation].
Length = 496
Score = 114 bits (287), Expect = 4e-27
Identities = 120/484 (24%), Positives = 200/484 (41%), Gaps = 84/484 (17%)
Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNES 161
K+ EV I GR+ R K F+ +++ +Q V D + ++ F L +
Sbjct: 51 DKNIEVSIAGRIMARR-SMGKATFITLQDESGQIQLY--VNKDDLPEDFYEFDEYLLD-- 105
Query: 162 IVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
+ D+IGV P K T ++ V + +L +++A + D G+
Sbjct: 106 LGDIIGVTGYP---FKTKTGELSVHVTELQILTKALRPL---PDKFH-----------GL 148
Query: 222 QLPRVNQDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS 280
+Q+TR R +D I ++ F ++S++ R+FL F+E+ TP L
Sbjct: 149 T----DQETRYRQRYLDLIVNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPML---QV 201
Query: 281 EGGSAVFR--------LD---YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS 329
G A R LD Y L +P+L+ + I G F +V+E G FR E
Sbjct: 202 IPGGANARPFITHHNALDMDLY------LRIAPELYLKRLIVGGFEKVYEIGRNFRNE-G 254
Query: 330 YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGLNNVCK---KELEAVAKQYPF 386
H EFT ++ Y ++MD+ + LF + L K ELE K+ PF
Sbjct: 255 VDTTHNPEFTMIEFYQAYAD-YEDLMDLTENLFKFLAQELLGTTKITYGELEIDFKK-PF 312
Query: 387 EPLKYKPKTLRL------------TFEEGVQMLKDAGVEI--DPLGD---LNTESERKLG 429
+ + + FE + K G+E+ L LN E+ L
Sbjct: 313 KRITMVEAIKKYDMETGIDFDDLKDFETAKALAKKIGIEVAEKSLTLGHILNELFEQFLE 372
Query: 430 QLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEIISGAQRIHIPEF 489
+++ +I H YP + P N +++ F++FI G+EI + ++ P
Sbjct: 373 HTLIQPT----FITH-YPAEISPL-AKRNPSNPEFTDRFELFIAGKEIANAFSELNDPLD 426
Query: 490 LAER------AQACGIDVKTI--STYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKT 541
ER + G D ++++ YG PP GG G+G++R+VML +IR
Sbjct: 427 QRERFEQQVAEKEAGDDEAQFVDEDFVEALEYGMPPTGGLGIGIDRLVMLLTDSKSIRDV 486
Query: 542 SLYP 545
L+P
Sbjct: 487 ILFP 490
>gnl|CDD|238398 cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) class II core
domain. Class II LysRS is a dimer which attaches a
lysine to the 3' OH group of ribose of the appropriate
tRNA. Its assignment to class II aaRS is based upon its
structure and the presence of three characteristic
sequence motifs in the core domain. It is found in
eukaryotes as well as some prokaryotes and archaea.
However, LysRS belongs to class I aaRS's in some
prokaryotes and archaea. The catalytic core domain is
primarily responsible for the ATP-dependent formation of
the enzyme bound aminoacyl-adenylate.
Length = 329
Score = 111 bits (280), Expect = 5e-27
Identities = 85/344 (24%), Positives = 146/344 (42%), Gaps = 72/344 (20%)
Query: 248 FRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSA--------VFRLDYKGQSAC 297
F ++S++ + R+FL F+E+ TP L IAG G +A +D
Sbjct: 8 FIVRSKIISYIRKFLDDRGFLEVETPMLQPIAG---GAAARPFITHHNALDMDLY----- 59
Query: 298 LAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDI 357
L +P+L+ + I G F RV+E G FR E H EFT ++ Y+++MD+
Sbjct: 60 LRIAPELYLKRLIVGGFERVYEIGRNFRNE-GIDLTHNPEFTMIEFYEAYAD-YNDMMDL 117
Query: 358 VDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPL 417
+ LF + + + K +Y + L + P R+T + ++ + G++ L
Sbjct: 118 TEDLFSGL---VKKINGKT----KIEYGGKELDFTPPFKRVTMVDALK--EKTGIDFPEL 168
Query: 418 GDLNTESERK---------------LGQLVLEKYGTEF---------YILHRYPLAVRPF 453
E K LG+L+ + + EF +I+ +P+ + P
Sbjct: 169 DLEQPEELAKLLAKLIKEKIEKPRTLGKLLDKLFE-EFVEPTLIQPTFIID-HPVEISPL 226
Query: 454 YTMPCHDNSLYSNSFDVFIRGEEIISG--------AQRIHIPEFLAERAQ----ACGIDV 501
N + F++FI G+EI + QR E ++ A +D
Sbjct: 227 -AKRHRSNPGLTERFELFICGKEIANAYTELNDPFDQRERFEEQAKQKEAGDDEAMMMD- 284
Query: 502 KTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP 545
++ + YG PP GG G+G++R+VML N+IR L+P
Sbjct: 285 ---EDFVTALEYGMPPTGGLGIGIDRLVMLLTDSNSIRDVILFP 325
>gnl|CDD|234775 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 114 bits (288), Expect = 7e-27
Identities = 92/322 (28%), Positives = 140/322 (43%), Gaps = 67/322 (20%)
Query: 96 GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
G L S Q V + G VH R G L F+ +R+R VQ PD+ + E+
Sbjct: 9 GELRESHVGQTVTLCGWVHRRRDHGG-LIFIDLRDREGIVQV--VFDPDAEAFEVAE--- 62
Query: 156 SLSNESIVDVIGVVSV-PDVEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
SL +E ++ V G V P+ + T ++EV +L ++++ P I+D E
Sbjct: 63 SLRSEYVIQVTGTVRARPEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDD------E 116
Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
+ V+++ RL R +D+R Q +++S+V + R FL F+EI T
Sbjct: 117 ED-----------VSEELRLKYRYLDLRRPEMQKNLKLRSKVTSAIRNFLDDNGFLEIET 165
Query: 273 PKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
P L + EG A R DY G+ L QSPQL KQ+ + F R ++ FR
Sbjct: 166 PILTKSTPEG--A--R-DYLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFR 220
Query: 326 AEDSYTHRHLCEFTGLDVEMEIKKHYS-----EVMDIVDRLFVTIFDGLNNVCKKELEAV 380
ED R EFT +D+EM S +VM +++ L +F V +L
Sbjct: 221 DEDLRADRQP-EFTQIDIEM------SFVTQEDVMALMEGLIRHVF---KEVLGVDLPT- 269
Query: 381 AKQYPFEPLKYKPKTLRLTFEE 402
PF R+T+ E
Sbjct: 270 ----PFP---------RMTYAE 278
Score = 77.8 bits (193), Expect = 5e-15
Identities = 40/122 (32%), Positives = 62/122 (50%), Gaps = 22/122 (18%)
Query: 452 PFYTMPCHDNSLY----------SNSFDVFIRGEEIISGAQRIHIPEFLAERA-QACGID 500
PF TMP ++ + ++D+ + G E+ G+ RIH PE + E+ + GI
Sbjct: 450 PF-TMPKDEDLDELETTDPGKARAYAYDLVLNGYELGGGSIRIHRPE-IQEKVFEILGIS 507
Query: 501 VKTIST----YIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP-----RDPLRI 551
+ +D+ +YGAPPHGG GL+R+VML G ++IR +P +D L
Sbjct: 508 EEEAEEKFGFLLDALKYGAPPHGGIAFGLDRLVMLLAGADSIRDVIAFPKTQSAQDLLTG 567
Query: 552 AP 553
AP
Sbjct: 568 AP 569
>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase.
Length = 565
Score = 110 bits (277), Expect = 1e-25
Identities = 126/504 (25%), Positives = 213/504 (42%), Gaps = 111/504 (22%)
Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRER--VSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
+ + + G V T R + + F+ V + +S +QC+ T PD+ + V + S+
Sbjct: 108 KTLNVMGWVRTLR-AQSSVTFIEVNDGSCLSNMQCVMT--PDAEGYDQVESGLITTGASV 164
Query: 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGV 221
+ V G V V +G Q+VE+++ K+ V ++ + PI + SR E +
Sbjct: 165 L-VQGTV----VSSQGGKQKVELKVSKIVVVGKSDPSYPIQKKRVSR-----EFLRTKAH 214
Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP-------- 273
PR N T + R+++ + +F FV + +P
Sbjct: 215 LRPRTN-------------TFG--AVARVRNALAYATHKFFQENGFVWVSSPIITASDCE 259
Query: 274 ---------KLIAGSSE-GGSAVFRL------------DYKGQSACLAQSPQLHKQMSIC 311
LI S+E GGS V + D+ G+ A L S QL+ + +
Sbjct: 260 GAGEQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWSQDFFGKPAFLTVSGQLNGE-TYA 318
Query: 312 GDFGRVFETGPVFRAEDSYTHRHLCEF---------TGLDVEMEIKKHY----------- 351
V+ GP FRAE+S T RHL EF L+ +M Y
Sbjct: 319 TALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFADLNDDMACATAYLQYVVKYILEN 378
Query: 352 -SEVMDIVDRLFVT-IFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKD 409
E M+ + I D L++V +K ++L++ + +++L
Sbjct: 379 CKEDMEFFNTWIEKGIIDRLSDVVEKNF------------------VQLSYTDAIELLLK 420
Query: 410 AGVEID-PLG---DLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLYS 465
A + + P+ DL +E ER + + E +G I+ YP ++ FY M +D+
Sbjct: 421 AKKKFEFPVKWGLDLQSEHERYITE---EAFGGRPVIIRDYPKEIKAFY-MRENDDGKTV 476
Query: 466 NSFDVFI-RGEEIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGFGVG 524
+ D+ + R E+I G+QR E+L R ++ ++ Y+D RYG+ PH GFG+G
Sbjct: 477 AAMDMLVPRVGELIGGSQREERLEYLEARLDELKLNKESYWWYLDLRRYGSVPHAGFGLG 536
Query: 525 LERVVMLFCGLNNIRKTSLYPRDP 548
ER+V G++NIR +PR P
Sbjct: 537 FERLVQFATGIDNIRDAIPFPRVP 560
>gnl|CDD|177867 PLN02221, PLN02221, asparaginyl-tRNA synthetase.
Length = 572
Score = 109 bits (273), Expect = 3e-25
Identities = 82/272 (30%), Positives = 140/272 (51%), Gaps = 20/272 (7%)
Query: 290 DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK 349
D+ G+ A L S QL + C V+ GP FRAE+S+T RHL EF ++ E+
Sbjct: 303 DFFGRQAFLTVSGQLQVETYACA-LSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFAD 361
Query: 350 HYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYP---FEPLKYKPKTL--RLTFEEGV 404
+ M+ + + L + C ++E +AK + + L+ T R+T+ E +
Sbjct: 362 LEDD-MNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCIDRLRMVASTPFGRITYTEAI 420
Query: 405 QMLKDA---GVEID---PLG-DLNTESERKLGQLVLEKYGTEFYILHRYPLAVRPFYTMP 457
++L++A G E D G DL +E ER L +++ +K I++ YP ++ FY M
Sbjct: 421 ELLEEAVAKGKEFDNNVEWGIDLASEHERYLTEVLFQKP----LIVYNYPKGIKAFY-MR 475
Query: 458 CHDNSLYSNSFDVFI-RGEEIISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAP 516
+D+ + DV + + E+I G+QR + + +R + G+ ++ Y+D RYG
Sbjct: 476 LNDDEKTVAAMDVLVPKVGELIGGSQREERYDVIKQRIEEMGLPIEPYEWYLDLRRYGTV 535
Query: 517 PHGGFGVGLERVVMLFCGLNNIRKTSLYPRDP 548
H GFG+G ER+++ G++NIR +PR P
Sbjct: 536 KHCGFGLGFERMILFATGIDNIRDVIPFPRYP 567
Score = 35.4 bits (81), Expect = 0.095
Identities = 49/194 (25%), Positives = 76/194 (39%), Gaps = 37/194 (19%)
Query: 102 LKDQEVLIRGRVHTTRPVGNK-LAFVVVRERVSTVQCLAT--VKPDSVSKEMVRFVRSLS 158
L Q+V I G V T R G AF+ V + C A V DS ++ V +
Sbjct: 48 LAGQKVRIGGWVKTGREQGKGTFAFLEVNDG----SCPANLQVMVDSSLYDLSTLVAT-- 101
Query: 159 NESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVS--RAAKTPITIEDASRSEAEIEKA 216
+ V V GV+ VP E KG Q++E+ ++K+ V K P
Sbjct: 102 -GTCVTVDGVLKVPP-EGKGTKQKIELSVEKVIDVGTVDPTKYP---------------- 143
Query: 217 SKEGVQLPRVNQDTRLNNRVIDIRTLAN--QGIFRIQSQVGNIFRQFLLSENFVEIHTPK 274
LP+ V+ +R+ N + RI++ + F +F+ IHTP
Sbjct: 144 ------LPKTKLTLEFLRDVLHLRSRTNSISAVARIRNALAFATHSFFQEHSFLYIHTPI 197
Query: 275 LIAGSSEGGSAVFR 288
+ EG +F+
Sbjct: 198 ITTSDCEGAGEMFQ 211
>gnl|CDD|224111 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 502
Score = 101 bits (253), Expect = 1e-22
Identities = 88/363 (24%), Positives = 144/363 (39%), Gaps = 70/363 (19%)
Query: 228 QDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGS 284
++ R R +D I ++ F +S++ R+FL F+E+ TP L I G G +
Sbjct: 159 KEIRYRQRYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPG---GAA 215
Query: 285 A-VFRLDYKGQSACLAQ--SPQLHKQMSICGDFGRVFETGPVFRAED-SYTHRHLCEFTG 340
A F + L +P+L+ + I G F RVFE G FR E TH EFT
Sbjct: 216 ARPFITHHNALDMDLYLRIAPELYLKRLIVGGFERVFEIGRNFRNEGIDTTHNP--EFTM 273
Query: 341 LD---VEMEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLR 397
L+ + Y ++MD+ + L + K+ Y + + + R
Sbjct: 274 LEFYQAYAD----YEDLMDLTEELIKE-------LAKEVNGTTKVTYGGQEIDFSKPFKR 322
Query: 398 LTFEEGVQMLKDAGVEIDPLGDLNT--------------ESERKLGQLVLEKYG--TE-- 439
+T + ++ GV+ D L D LG L+ E + E
Sbjct: 323 ITMVDALKE--YLGVDFDDLFDDEEAKELAKKHGIEVEKYGTWGLGHLLNELFEELVEAK 380
Query: 440 -----FYILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEIISG--------AQRIHI 486
F +P+ + P N + F++FI G+EI + QR
Sbjct: 381 LIQPTFVT--DHPVEISPL-AKRHRSNPGLTERFELFIGGKEIANAYSELNDPVDQRERF 437
Query: 487 PEFLAERAQ----ACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTS 542
+ E+ A +D ++++ YG PP GG G+G++R+VML +IR
Sbjct: 438 EAQVEEKEAGDDEAMELD----EDFVEALEYGMPPTGGLGIGIDRLVMLLTNSPSIRDVI 493
Query: 543 LYP 545
L+P
Sbjct: 494 LFP 496
>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed.
Length = 505
Score = 98.2 bits (244), Expect = 9e-22
Identities = 94/348 (27%), Positives = 159/348 (45%), Gaps = 39/348 (11%)
Query: 227 NQDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP--KLIAGSSEGG 283
+Q+ R R +D I ++ F ++S++ RQF+++ F+E+ TP ++I G +
Sbjct: 162 DQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASAR 221
Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
+ + L +P+L+ + + G F RVFE FR E + RH EFT +++
Sbjct: 222 PFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNE-GISVRHNPEFTMMEL 280
Query: 344 EMEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQY--PFEPL-------KYKPK 394
M Y +++++ + LF T+ + K + PFE L KY+P+
Sbjct: 281 YMAYAD-YHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYRPE 339
Query: 395 TLRL---TFEEGVQMLKDAGVEIDP---LGDLNTE--SERKLGQLVLEKYGTEFYILHRY 446
T F+ + + G+ ++ LG + TE E L+ + TE Y
Sbjct: 340 TDMADLDNFDAAKALAESIGITVEKSWGLGRIVTEIFDEVAEAHLIQPTFITE------Y 393
Query: 447 PLAVRPFYTMPCHD-NSLYSNSFDVFIRGEEIISGAQRIHIPEFLAER------AQACGI 499
P V P +D N ++ F+ FI G EI +G ++ E AER A+A G
Sbjct: 394 PAEVSPLARR--NDVNPEITDRFEFFIGGREIGNGFSELNDAEDQAERFQEQVNAKAAGD 451
Query: 500 DVKTI--STYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP 545
D Y+ + YG PP G G+G++R++MLF + IR L+P
Sbjct: 452 DEAMFYDEDYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVILFP 499
>gnl|CDD|240414 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 92.4 bits (229), Expect = 9e-20
Identities = 89/346 (25%), Positives = 153/346 (44%), Gaps = 53/346 (15%)
Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
+PRVN+ + + DI N S N A SS
Sbjct: 269 IPRVNKKNKKGEKREDILNTCNANNNNGNSSSSN--------------------AVSSPA 308
Query: 283 GSAVFRLDYK----GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEF 338
+ +DYK + A L S QL + ++C G V+ GP FRAE+S+T RHL EF
Sbjct: 309 YPDQYLIDYKKDFFSKQAFLTVSGQLSLE-NLCSSMGDVYTFGPTFRAENSHTSRHLAEF 367
Query: 339 TGLDVE---------MEIKKHYSE--VMDIVDRLFVTIFDGLNNVCK---KELEAVAKQY 384
++ E ME+ + Y + + +++ F I+ NV L+ + +
Sbjct: 368 WMIEPEIAFADLYDNMELAESYIKYCIGYVLNNNFDDIYYFEENVETGLISRLKNILDE- 426
Query: 385 PFEPLKYKPKT-LRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEKYGTEFYIL 443
F + Y L + + ++ G+ DL +E ER + + + +K I+
Sbjct: 427 DFAKITYTNVIDLLQPYSDSFEVPVKWGM------DLQSEHERFVAEQIFKKP----VIV 476
Query: 444 HRYPLAVRPFYTMPCHDNSLYSNSFDVFI-RGEEIISGAQRIHIPEFLAERAQACGIDVK 502
+ YP ++ FY D + + DV + + E+I G+QR E L + + ++++
Sbjct: 477 YNYPKDLKAFYMKLNEDQKTVA-AMDVLVPKIGEVIGGSQREDNLERLDKMIKEKKLNME 535
Query: 503 TISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPRDP 548
+ Y ++G+ PH GFG+G ER++ML G++NI+ T +PR P
Sbjct: 536 SYWWYRQLRKFGSHPHAGFGLGFERLIMLVTGVDNIKDTIPFPRYP 581
>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 88.9 bits (221), Expect = 1e-18
Identities = 138/597 (23%), Positives = 238/597 (39%), Gaps = 117/597 (19%)
Query: 15 DSSSQSISKKAAKKE--AAKKAKEERRKEAEAAASAASALSIEEEGPLA--------NNY 64
+S+ + +SK A KK A + +E+ KE AA+AA+A A Y
Sbjct: 2 ESNGEPLSKNALKKRLKAKQAEEEKAAKEEAKAAAAAAAAKGRSRKSAAADDETMDPTQY 61
Query: 65 GDVPLQELQSV----NDPQTGKWSEAVNGREW-TVVGAL-NGS-LKDQEVLIRGRVHTTR 117
L++++++ +P K+ E G+L NG L+D V + GR+ R
Sbjct: 62 RANRLKKVEALRAKGVEPYPYKFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKR 121
Query: 118 PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK 177
G KLAF +R+ +Q A K + + F + S D++GV P
Sbjct: 122 AFG-KLAFYDLRDDGGKIQLYADKK--RLDLDEEEFEKLHSLVDRGDIVGVTGTP----- 173
Query: 178 GATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPR-----VNQDTRL 232
G T++ E+ I + E +K + LP +Q+TR
Sbjct: 174 GKTKKGELSI----FPT-----------------SFEVLTKCLLMLPDKYHGLTDQETRY 212
Query: 233 NNRVIDIRTLAN---QGIFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVF 287
R +D+ +AN + IFR ++++ + R+FL F+E+ TP L IAG + V
Sbjct: 213 RQRYLDL--IANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVT 270
Query: 288 RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI 347
+ L + +LH + + G F RV+E G FR E T RH EFT +
Sbjct: 271 HHNDLNMDLYLRIATELHLKRLVVGGFERVYEIGRQFRNEGIST-RHNPEFTTCEFYQAY 329
Query: 348 KKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAK-QYPFEPLKYKPKTLRLTFEEGVQM 406
Y+++M++ + + KEL K +Y + + P R++ V+
Sbjct: 330 AD-YNDMMELTEEMVSG--------MVKELTGSYKIKYHGIEIDFTPPFRRISMISLVE- 379
Query: 407 LKDAGVEIDPLGDLNTESERKLGQLVLEKYGTEF-------------------------- 440
+ G++ DL ++ EK+ +
Sbjct: 380 -EATGIDFP--ADLKSDEANAYLIAACEKFDVKCPPPQTTGRLLNELFEEFLEETLVQPT 436
Query: 441 YILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEIISG--------AQRIHIPEFLAE 492
++L +P+ + P P + F++FI G E+ + QR E + +
Sbjct: 437 FVLD-HPVEMSPL-AKPHRSKPGLTERFELFINGRELANAFSELTDPVDQRERFEEQVKQ 494
Query: 493 RA----QACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP 545
+A +D + + YG PP GG+G+G++R+VML +IR +P
Sbjct: 495 HNAGDDEAMALD----EDFCTALEYGLPPTGGWGLGIDRLVMLLTDSASIRDVIAFP 547
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 88.5 bits (219), Expect = 2e-18
Identities = 81/259 (31%), Positives = 115/259 (44%), Gaps = 25/259 (9%)
Query: 96 GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
G L+ +EV + G V R G L F+ +R+R +Q A P++ ++
Sbjct: 10 GHLSLDDTGREVCLAGWVDAFRDHGELL-FIHLRDRNGFIQ--AVFSPEAAPADVYELAA 66
Query: 156 SLSNESIVDVIGVVSV-------PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASR 208
SL E V + G V P +E T +EV +++L ++ + P I D
Sbjct: 67 SLRAEFCVALQGEVQKRLEETENPHIE----TGDIEVFVRELSILAASEALPFAISD--- 119
Query: 209 SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFV 268
+A A G VN+D RL R +DIR A Q + ++ R FL S F+
Sbjct: 120 -KAMTAGAGSAGAD--AVNEDLRLQYRYLDIRRPAMQDHLAKRHRIIKCARDFLDSRGFL 176
Query: 269 EIHTPKLIAGSSEGGSAVF---RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
EI TP L + EG R+ K A L QSPQL KQ+ + F R F+ FR
Sbjct: 177 EIETPILTKSTPEGARDYLVPSRIHPKEFYA-LPQSPQLFKQLLMIAGFERYFQLARCFR 235
Query: 326 AEDSYTHRHLCEFTGLDVE 344
ED +R EFT LD+E
Sbjct: 236 DEDLRPNRQ-PEFTQLDIE 253
Score = 57.3 bits (138), Expect = 1e-08
Identities = 31/101 (30%), Positives = 53/101 (52%), Gaps = 9/101 (8%)
Query: 462 SLYSNSFDVFIRGEEIISGAQRIHIPEFLAERAQACGIDVKTIST----YIDSFRYGAPP 517
L S ++D+ + GEE+ G+ RI+ + A G+ + I ++ +F + APP
Sbjct: 485 DLRSRAYDLVVNGEELGGGSIRINDKDIQLRIFAALGLSEEDIEDKFGFFLRAFDFAAPP 544
Query: 518 HGGFGVGLERVVMLFCGLNNIRKTSLYPRD-----PLRIAP 553
HGG +GL+RVV + +IR+ +P++ PL AP
Sbjct: 545 HGGIALGLDRVVSMILQTPSIREVIAFPKNRSAACPLTGAP 585
>gnl|CDD|215291 PLN02532, PLN02532, asparagine-tRNA synthetase.
Length = 633
Score = 84.5 bits (209), Expect = 3e-17
Identities = 73/285 (25%), Positives = 128/285 (44%), Gaps = 19/285 (6%)
Query: 274 KLIAGSSEGGSAV-FRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTH 332
KL G+S + F D+ + L S +LH + C G V+ GP FRA+ +
Sbjct: 349 KLKTGTSVKADKLSFSKDFFSRPTYLTVSGRLHLESYACA-LGNVYTFGPRFRADRIDSA 407
Query: 333 RHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQ------YPF 386
RHL E ++VEM + + M+ + F + + C ++++ V+K+
Sbjct: 408 RHLAEMWMVEVEMAFSE-LEDAMNCAEDYFKFLCKWVLENCSEDMKFVSKRIDKTISTRL 466
Query: 387 EPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEKYGTEFY----I 442
E + R+++ E V +LK A D + E L L E Y I
Sbjct: 467 EAIISSS-LQRISYTEAVDLLKQA---TDKKFETKPEWGIALTTEHLSYLADEIYKKPVI 522
Query: 443 LHRYPLAVRPFYTMPCHDNSLYSNSFDVFI-RGEEIISGAQRIHIPEFLAERAQACGIDV 501
++ YP ++PFY + +D+ +FD+ + + +I+G+Q + L R + G+
Sbjct: 523 IYNYPKELKPFY-VRLNDDGKTVAAFDLVVPKVGTVITGSQNEERMDILNARIEELGLPR 581
Query: 502 KTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYPR 546
+ Y+D R+G H GF +G E +V+ GL ++R +PR
Sbjct: 582 EQYEWYLDLRRHGTVKHSGFSLGFELMVLFATGLPDVRDAIPFPR 626
>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional.
Length = 659
Score = 82.0 bits (202), Expect = 2e-16
Identities = 121/576 (21%), Positives = 213/576 (36%), Gaps = 119/576 (20%)
Query: 21 ISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQT 80
ISK +A K ++A R + + A+ +S I + YG +
Sbjct: 53 ISKASATKTVTQEASRAPRSKLDLPAAYSSFRGITPISEVRERYGYL------------- 99
Query: 81 GKWSEAVNGREWTVVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLAT 140
A R V + GRV + R +G K+ FV +R + +Q +
Sbjct: 100 -----ASGDRAAQAT-----------VRVAGRVTSVRDIG-KIIFVTIRSNGNELQVVGQ 142
Query: 141 VKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTP 200
V +++ + SL + D+IG VP R +
Sbjct: 143 VGEHFTREDLKKLKVSLR---VGDIIGADGVP---------------------CRMQRGE 178
Query: 201 ITIEDASRSEAEIEKASKEGVQLPRV-------NQDTRLNNRVIDIRTLANQGIF---RI 250
+++ ASR + V P + + D + R D+ T N + +
Sbjct: 179 LSVA-ASRMLILSPYVCTDQVVCPNLRGFTVLQDNDVKYRYRFTDMMT--NPCVIETIKK 235
Query: 251 QSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQM 308
+ + R + NFVE+ TP L +A + S V + L +P+LH +
Sbjct: 236 RHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTHHNANAMDLFLRVAPELHLKQ 295
Query: 309 SICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH-YSEVMDIVDRLFVTIFD 367
I G R++E G VFR ED+ H EFT E H Y ++M + + +F +
Sbjct: 296 CIVGGMERIYEIGKVFRNEDA-DRSHNPEFT--SCEFYAAYHTYEDLMPMTEDIFRQLAM 352
Query: 368 GLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERK 427
+N ++ + R++ + +Q + +GVE P +LNT
Sbjct: 353 RVNGTTVVQIYPENAHGNPVTVDLGKPFRRVSVYDEIQRM--SGVEFPPPNELNTPKGIA 410
Query: 428 LGQLVLEKYGT----------------EFYILHRYPLAVRPFYTMPCHDNSLY------- 464
+V+ +Y +F+I R V P + M D+ L+
Sbjct: 411 YMSVVMLRYNIPLPPVRTAAKMFEKLIDFFITDR---VVEPTFVM---DHPLFMSPLAKE 464
Query: 465 -------SNSFDVFIRGEEIISGAQRIHIPEFLAERAQACGID--------VKTISTYID 509
+ F++F+ G E + ++ P R Q +D + T++
Sbjct: 465 QVSRPGLAERFELFVNGIEYCNAYSELNDPHEQYHRFQQQLVDRQGGDEEAMPLDETFLK 524
Query: 510 SFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP 545
S + G PP G+G+G++R +ML +NIR ++P
Sbjct: 525 SLQVGLPPTAGWGMGIDRALMLLTNSSNIRDGIIFP 560
>gnl|CDD|215490 PLN02903, PLN02903, aminoacyl-tRNA ligase.
Length = 652
Score = 81.8 bits (202), Expect = 3e-16
Identities = 87/304 (28%), Positives = 121/304 (39%), Gaps = 56/304 (18%)
Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV 165
V + G V R +G L F+ VR+ VQ PD E R L NE +V V
Sbjct: 74 RVTLCGWVDLHRDMGG-LTFLDVRDHTGIVQ--VVTLPDE-FPEAHRTANRLRNEYVVAV 129
Query: 166 IGVV---SVPDVEIKGATQQVEV---QIKKLYCVSRAAKTPITIEDASRSEAEIEKASKE 219
G V K T VEV + L V+++ +T A+ +K
Sbjct: 130 EGTVRSRPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVT-------TADEQK---- 178
Query: 220 GVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLS-ENFVEIHTPKLIAG 278
+ ++ RL RV+D+R R++ +V + R++L FVEI TP L
Sbjct: 179 ----DSIKEEVRLRYRVLDLRRPQMNANLRLRHRVVKLIRRYLEDVHGFVEIETPILSRS 234
Query: 279 SSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT 331
+ EG DY G L QSPQL KQM + F R ++ FR ED
Sbjct: 235 TPEGA-----RDYLVPSRVQPGTFYALPQSPQLFKQMLMVSGFDRYYQIARCFRDEDLRA 289
Query: 332 HRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGLNN--VCK--KELEAVAKQYPFE 387
R EFT LD+E+ + D L LN + + KE++ V PF
Sbjct: 290 DRQ-PEFTQLDMELAF-------TPLEDML------KLNEDLIRQVFKEIKGVQLPNPFP 335
Query: 388 PLKY 391
L Y
Sbjct: 336 RLTY 339
Score = 51.7 bits (124), Expect = 8e-07
Identities = 26/84 (30%), Positives = 45/84 (53%), Gaps = 4/84 (4%)
Query: 467 SFDVFIRGEEIISGAQRIHIPEFLAERAQACGIDVKTIST----YIDSFRYGAPPHGGFG 522
++D+ G EI G+ RI+ + + +A G+ + + +++ GAPPHGG
Sbjct: 537 AYDMVYNGVEIGGGSLRIYRRDVQQKVLEAIGLSPEEAESKFGYLLEALDMGAPPHGGIA 596
Query: 523 VGLERVVMLFCGLNNIRKTSLYPR 546
GL+R+VML G +IR +P+
Sbjct: 597 YGLDRLVMLLAGAKSIRDVIAFPK 620
>gnl|CDD|234778 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 79.4 bits (197), Expect = 1e-15
Identities = 89/350 (25%), Positives = 146/350 (41%), Gaps = 86/350 (24%)
Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFR--------LD---YKG 293
FR +S++ + R+FL + F+E+ TP L IAG G +A R LD Y
Sbjct: 171 TFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAG---GAAA--RPFITHHNALDIDLY-- 223
Query: 294 QSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK---KH 350
L +P+L+ + I G F RV+E G FR E T RH EFT +E
Sbjct: 224 ----LRIAPELYLKRLIVGGFERVYEIGRNFRNEGIDT-RHNPEFT----MLEFYQAYAD 274
Query: 351 YSEVMDIVDRLFVTIFDGLNNVCKKELEAVAKQY----PFEPLKYKP----KT----LRL 398
Y+++MD+ + L + + ++ + PF+ L T +
Sbjct: 275 YNDMMDLTEELIRHLAQAVLG--TTKVTYQGTEIDFGPPFKRLTMVDAIKEYTGVDFDDM 332
Query: 399 TFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEKYGTEF---------YILHRYPLA 449
T EE + K+ G+E++ LG+L+ E + EF +I YP+
Sbjct: 333 TDEEARALAKELGIEVEK--------SWGLGKLINELFE-EFVEPKLIQPTFITD-YPVE 382
Query: 450 VRPFYTMPCHDNSLYSNSFDVFIRGEEIISG----------AQRIHIPEFLAERAQ---- 495
+ P ++ + F++FI G EI + +R + +
Sbjct: 383 ISPL-AKRHREDPGLTERFELFIGGREIANAFSELNDPIDQRERFE--AQVEAKEAGDDE 439
Query: 496 ACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP 545
A +D ++ + YG PP GG G+G++R+VML +IR L+P
Sbjct: 440 AMFMDE----DFLRALEYGMPPTGGLGIGIDRLVMLLTDSPSIRDVILFP 485
>gnl|CDD|239766 cd04100, Asp_Lys_Asn_RS_N, Asp_Lys_Asn_RS_N: N-terminal, anticodon
recognition domain of class 2b aminoacyl-tRNA
synthetases (aaRSs). This domain is a beta-barrel domain
(OB fold) involved in binding the tRNA anticodon
stem-loop. Class 2b aaRSs include the homodimeric
aspartyl-, asparaginyl-, and lysyl-tRNA synthetases
(AspRS, AsnRS, and LysRS). aaRSs catalyze the specific
attachment of amino acids (AAs) to their cognate tRNAs
during protein biosynthesis. This 2-step reaction
involves i) the activation of the AA by ATP in the
presence of magnesium ions, followed by ii) the transfer
of the activated AA to the terminal ribose of tRNA. In
the case of the class2b aaRSs, the activated AA is
attached to the 3'OH of the terminal ribose. Eukaryotes
contain 2 sets of aaRSs, both of which are encoded by
the nuclear genome. One set concerns with cytoplasmic
protein synthesis, whereas the other exclusively with
mitochondrial protein synthesis. Included in this group
are archeal and archeal-like AspRSs which are
non-discriminating and can charge both tRNAAsp and
tRNAAsn. E. coli cells have two isoforms of LysRSs (LysS
and LysU) encoded by two distinct genes, which are
differentially regulated. The cytoplasmic and the
mitochondrial isoforms of human LysRS are encoded by a
single gene. Yeast cytoplasmic and mitochondrial LysRSs
participate in mitochondrial import of cytoplasmic
tRNAlysCUU. In addition to their housekeeping role,
human LysRS may function as a signaling molecule that
activates immune cells. Tomato LysRS may participate in
a process possibly connected to conditions of
oxidative-stress conditions or heavy metal uptake. It is
known that human tRNAlys and LysRS are specifically
packaged into HIV-1 suggesting a role for LysRS in tRNA
packaging. AsnRS is immunodominant antigen of the
filarial nematode Brugia malayai and is of interest as a
target for anti-parasitic drug design. Human AsnRS has
been shown to be a pro-inflammatory chemokine which
interacts with CCR3 chemokine receptors on T cells,
immature dendritic cells and macrophages.
Length = 85
Score = 68.0 bits (167), Expect = 2e-14
Identities = 28/90 (31%), Positives = 42/90 (46%), Gaps = 5/90 (5%)
Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV 165
EV + G VH+ R G L F+ +R+ VQ + E L ES+V V
Sbjct: 1 EVTLAGWVHSRRDHG-GLIFIDLRDGSGIVQVVV---NKEELGEFFEEAEKLRTESVVGV 56
Query: 166 IGVVSVPDVEIKGATQQVEVQIKKLYCVSR 195
G V V E AT ++E+Q ++L +S+
Sbjct: 57 TGTV-VKRPEGNLATGEIELQAEELEVLSK 85
>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 = 57.5 bits (139), Expect = 2e-09
Identities = 52/281 (18%), Positives = 78/281 (27%), Gaps = 90/281 (32%)
Query: 258 FRQFLLSENFVEIHTPKLIAGSSEGGSA------VFRLDYKGQSACLAQSPQLHKQMS-- 309
R+F+ F E+ TP + + + + L + +
Sbjct: 9 LRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFV 68
Query: 310 --ICGDFGRVFETGPVFRAED-SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIF 366
I R+ E GP FR E R + EFT L+ E+ F
Sbjct: 69 SHIRKLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEV----------------FGE-- 110
Query: 367 DGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESER 426
E + + LT E +L+ G+++D
Sbjct: 111 ------------------DGEEASEFEELIELTEE----LLRALGIKLDI---------- 138
Query: 427 KLGQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEIISGAQRIHI 486
+ +EK EF P RG EI SG R
Sbjct: 139 ----VFVEKTPGEFSPGG-AGPGFEIEVDHPEG-------------RGLEIGSGGYRQDE 180
Query: 487 PEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGFGVGLER 527
A+ ++ Y PP GFG+GLER
Sbjct: 181 QARAADLYF-----------LDEALEYRYPPTIGFGLGLER 210
>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional.
Length = 585
Score = 59.3 bits (143), Expect = 3e-09
Identities = 117/573 (20%), Positives = 218/573 (38%), Gaps = 108/573 (18%)
Query: 27 KKEAAKKAKEERRKEAEAAASAA------SALSIEEEGPLANNYGDVPLQELQSVNDPQ- 79
KK + +A ++++KE EA S E++ N Y P + +++ P+
Sbjct: 61 KKVRSVQASKDKKKEEEAEVDPRLYYENRSKFIQEQKAKGINPY---PHKFERTITVPEF 117
Query: 80 TGKWSEAVNGREWTVVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLA 139
K+ + +G L+D + + GR+ G KL F + + +Q LA
Sbjct: 118 VEKYQDLASGEH----------LEDTILNVTGRIMRVSASGQKLRFFDLVGDGAKIQVLA 167
Query: 140 TVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT 199
+K F D++G+V P KG ++ + K+ +S
Sbjct: 168 NFAFHDHTKS--NFAECYDKIRRGDIVGIVGFPGKSKKG---ELSIFPKETIILSPCLHM 222
Query: 200 -PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLAN-QGIFRIQSQVGNI 257
P+ K G++ + + R R +D+ + + F ++++ N
Sbjct: 223 LPM----------------KYGLK----DTEIRYRQRYLDLMINESTRSTFITRTKIINY 262
Query: 258 FRQFLLSENFVEIHTP--KLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFG 315
R FL F+E+ TP L+AG + + + L + +L +M I G
Sbjct: 263 LRNFLNDRGFIEVETPTMNLVAGGANARPFITHHNDLDLDLYLRIATELPLKMLIVGGID 322
Query: 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVM---DIVDRLFVTIF------ 366
+V+E G VFR E + H EFT + Y + D +L + +F
Sbjct: 323 KVYEIGKVFRNE-GIDNTHNPEFTSCEFYWAYADFYDLIKWSEDFFSQLVMHLFGTYKIL 381
Query: 367 ---DGLNN--------------VCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKD 409
DG +ELE + +P P+T+ + + ++K+
Sbjct: 382 YNKDGPEKDPIEIDFTPPYPKVSIVEELEKLTNTKLEQPFD-SPETI----NKMINLIKE 436
Query: 410 AGVEIDPLGDLNTESERKL-----GQLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLY 464
+E+ N + KL + KY + + + +P + P L
Sbjct: 437 NKIEMP-----NPPTAAKLLDQLASHFIENKYPNKPFFIIEHPQIMSPLAKYHRSKPGL- 490
Query: 465 SNSFDVFIRGEEIISGAQRIHIPE-----FLAER-------AQACGIDVKTISTYIDSFR 512
+ ++FI G+E+++ ++ P F A++ A+A D + + S
Sbjct: 491 TERLEMFICGKEVLNAYTELNDPFKQKECFSAQQKDREKGDAEAFQFD----AAFCTSLE 546
Query: 513 YGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP 545
YG PP GG G+G++R+ M N I+ L+P
Sbjct: 547 YGLPPTGGLGLGIDRITMFLTNKNCIKDVILFP 579
>gnl|CDD|239812 cd04317, EcAspRS_like_N, EcAspRS_like_N: N-terminal, anticodon
recognition domain of the type found in Escherichia coli
aspartyl-tRNA synthetase (AspRS), the human
mitochondrial (mt) AspRS-2, the discriminating (D)
Thermus thermophilus AspRS-1, and the nondiscriminating
(ND) Helicobacter pylori AspRS. These homodimeric
enzymes are class2b aminoacyl-tRNA synthetases (aaRSs).
This domain is a beta-barrel domain (OB fold) involved
in binding the tRNA anticodon stem-loop. aaRSs catalyze
the specific attachment of amino acids (AAs) to their
cognate tRNAs during protein biosynthesis. This 2-step
reaction involves i) the activation of the AA by ATP in
the presence of magnesium ions, followed by ii) the
transfer of the activated AA to the terminal ribose of
tRNA. In the case of the class2b aaRSs, the activated
AA is attached to the 3'OH of the terminal ribose.
Eukaryotes contain 2 sets of aaRSs, both of which are
encoded by the nuclear genome. One set concerns with
cytoplasmic synthesis, whereas the other exclusively
with mitochondrial protein synthesis. Human mtAspRS
participates in mitochondrial biosynthesis; this enzyme
been shown to charge E.coli native tRNAsp in addition to
in vitro transcribed human mitochondrial tRNAsp. T.
thermophilus is rare among bacteria in having both a
D_AspRS and a ND_AspRS. H.pylori ND-AspRS can charge
both tRNAASp and tRNAAsn, it is fractionally more
efficient at aminoacylating tRNAAsp over tRNAAsn. The
H.pylori genome does not contain AsnRS.
Length = 135
Score = 52.1 bits (126), Expect = 3e-08
Identities = 40/148 (27%), Positives = 60/148 (40%), Gaps = 25/148 (16%)
Query: 96 GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
G L S QEV + G V R G L F+ +R+R VQ + P+
Sbjct: 6 GELRESHVGQEVTLCGWVQRRRDHG-GLIFIDLRDRYGIVQVV--FDPEE--APEFELAE 60
Query: 156 SLSNESIVDVIGVVSV---PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
L NES++ V G V V K T ++EV +L +++A P I+D
Sbjct: 61 KLRNESVIQVTGKVRARPEGTVNPKLPTGEIEVVASELEVLNKAKTLPFEIDDDV----- 115
Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIR 240
V+++ RL R +D+R
Sbjct: 116 ------------NVSEELRLKYRYLDLR 131
>gnl|CDD|239811 cd04316, ND_PkAspRS_like_N, ND_PkAspRS_like_N: N-terminal,
anticodon recognition domain of the type found in the
homodimeric non-discriminating (ND) Pyrococcus
kodakaraensis aspartyl-tRNA synthetase (AspRS). This
domain is a beta-barrel domain (OB fold) involved in
binding the tRNA anticodon stem-loop. P. kodakaraensis
AspRS is a class 2b aaRS. aaRSs catalyze the specific
attachment of amino acids (AAs) to their cognate tRNAs
during protein biosynthesis. This 2-step reaction
involves i) the activation the AA by ATP in the presence
of magnesium ions, followed by ii) the transfer of the
activated AA to the terminal ribose of tRNA. In the
case of the class2b aaRSs, the activated AA is attached
to the 3'OH of the terminal ribose. P. kodakaraensis
ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of
the enzymes in this group may be discriminating, based
on the presence of homologs of asparaginyl-tRNA
synthetase (AsnRS) in their completed genomes.
Length = 108
Score = 48.5 bits (116), Expect = 3e-07
Identities = 34/100 (34%), Positives = 53/100 (53%), Gaps = 8/100 (8%)
Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
+EV + G VH R +G + FV++R+R VQ T V KE+ + VR LS ES++
Sbjct: 13 EEVTVAGWVHEIRDLG-GIKFVILRDREGIVQ--VTAPKKKVDKELFKTVRKLSRESVIS 69
Query: 165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIE 204
V G V A VE+ +++ +S AKTP+ ++
Sbjct: 70 VTGTVK----AEPKAPNGVEIIPEEIEVLSE-AKTPLPLD 104
>gnl|CDD|225178 COG2269, COG2269, Truncated, possibly inactive, lysyl-tRNA
synthetase (class II) [Translation, ribosomal structure
and biogenesis].
Length = 322
Score = 47.3 bits (113), Expect = 1e-05
Identities = 68/314 (21%), Positives = 116/314 (36%), Gaps = 43/314 (13%)
Query: 258 FRQFLLSENFVEIHTPKL-IAGSSEGGSAVFRLDY------KGQSACLAQSPQLHKQMSI 310
R+F +E+ TP L +A ++ F ++ KG+ L SP+ H + +
Sbjct: 26 IRRFFAERGVLEVETPALSVAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSPEYHMKRLL 85
Query: 311 CGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDRLFVTIFDGLN 370
G +F+ G VFR E+ H EFT L+ + Y +M+ VD L + +
Sbjct: 86 AAGSGPIFQLGKVFRNEEM-GRLHNPEFTMLEW-YRVGCDYYRLMNEVDDLLQLVLE--- 140
Query: 371 NVCKKELEAVAKQYPF-EPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLG 429
E E ++ Q F L P L E + G+ D +T +
Sbjct: 141 ---CVEAERLSYQEAFLRYLGIDP--LSADKTELREAAAKLGLSAATDEDWDTLLQLLFV 195
Query: 430 QLVLEKYGTE-FYILHRYP-----LA-VRPFYTMPCHDNSLYSNSFDVFIRGEEIISGAQ 482
+ V G E L+ +P LA + + + F+++ +G E+ +G
Sbjct: 196 EGVEPNLGKERPTFLYHFPASQAALAQIST-------GDPRVAERFELYYKGIELANGFH 248
Query: 483 RIHIPE-----FLAERAQACGIDVKTISTYIDSFRYGA----PPHGGFGVGLERVVMLFC 533
+ F + + + ID A PP G +G +R+VML
Sbjct: 249 ELTDAAEQRRRFEQDNKERARRGLPQYP--IDEDFLAALARMPPCSGVALGFDRLVMLAL 306
Query: 534 GLNNIRKTSLYPRD 547
G +I +P
Sbjct: 307 GAESIDDVIAFPVA 320
>gnl|CDD|216440 pfam01336, tRNA_anti, OB-fold nucleic acid binding domain. This
family contains OB-fold domains that bind to nucleic
acids. The family includes the anti-codon binding domain
of lysyl, aspartyl, and asparaginyl -tRNA synthetases
(See pfam00152). Aminoacyl-tRNA synthetases catalyze the
addition of an amino acid to the appropriate tRNA
molecule EC:6.1.1.-. This family also includes part of
RecG helicase involved in DNA repair. Replication factor
A is a heterotrimeric complex, that contains a subunit
in this family. This domain is also found at the
C-terminus of bacterial DNA polymerase III alpha chain.
Length = 75
Score = 41.9 bits (99), Expect = 3e-05
Identities = 18/85 (21%), Positives = 38/85 (44%), Gaps = 12/85 (14%)
Query: 107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI 166
V + GRV + R G K+AF+ +R+ ++Q + +E + + L +V V
Sbjct: 1 VTVAGRVTSVRRSGGKVAFLTLRDGTGSIQVVLF------KEEAEKLAKKLKEGDVVLVT 54
Query: 167 GVVSVPDVEIKGATQQVEVQIKKLY 191
G V ++E+ ++++
Sbjct: 55 GKVKKRP------GGELELVVEEIE 73
>gnl|CDD|232984 TIGR00462, genX, EF-P lysine aminoacylase GenX. Many Gram-negative
bacteria have a protein closely homologous to the
C-terminal region of lysyl-tRNA synthetase (LysS).
Multiple sequence alignment of these proteins with the
homologous regions of collected LysS proteins shows that
these proteins form a distinct set rather than just
similar truncations of LysS. The protein is termed GenX
after its designation in E. coli. Interestingly, genX
often is located near a homolog of
lysine-2,3-aminomutase. Its function is unknown [Unknown
function, General].
Length = 290
Score = 44.8 bits (107), Expect = 5e-05
Identities = 69/326 (21%), Positives = 113/326 (34%), Gaps = 89/326 (27%)
Query: 261 FLLSENFVEIHTPKLI-AGSSEGGSAVFRLDYKGQSAC-----LAQSPQLH-KQMSICGD 313
F +E+ TP L A ++ F ++ G L SP+ K++ +
Sbjct: 1 FFAERGVLEVETPLLSPAPVTDPHLDAFATEFVGPDGQGRPLYLQTSPEYAMKRL-LAAG 59
Query: 314 FGRVFETGPVFRAEDSYTHRHLCEFT-------GLDVEMEIKKHYSEVMDIVDRLFVTIF 366
G +F+ VFR + RH EFT G D Y ++MD V+ L +
Sbjct: 60 SGPIFQICKVFRNGER-GRRHNPEFTMLEWYRPGFD--------YHDLMDEVEALLQELL 110
Query: 367 DGLNNVCKKELEAVAKQYPFEPLKYK----------PKTLRLTFEEGVQMLKDAGVEIDP 416
P E L Y+ P L + E G+
Sbjct: 111 GDPFA-------------PAERLSYQEAFLRYAGIDP--LTASLAELQAAAAAHGIRASE 155
Query: 417 LGDLNT--------ESERKLGQLVLEKYGTEFYILHRYP-----LAVRPFYTMPCHDNSL 463
D + + E LG L+ YP LA R D+
Sbjct: 156 EDDRDDLLDLLFSEKVEPHLGFGRP-------TFLYDYPASQAALA-R-----ISPDDPR 202
Query: 464 YSNSFDVFIRGEEIISG--------AQRIHIPEFLAERA--QACGIDVKTISTY-IDSFR 512
+ F+++I+G E+ +G QR F A+ A +A G+ + + +
Sbjct: 203 VAERFELYIKGLELANGFHELTDAAEQR---RRFEADNALRKALGLPRYPLDERFLAALE 259
Query: 513 YGAPPHGGFGVGLERVVMLFCGLNNI 538
G P G +G++R++ML G ++I
Sbjct: 260 AGLPECSGVALGVDRLLMLALGADSI 285
>gnl|CDD|239814 cd04319, PhAsnRS_like_N, PhAsnRS_like_N: N-terminal, anticodon
recognition domain of the type found in Pyrococcus
horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS).
This domain is a beta-barrel domain (OB fold) involved
in binding the tRNA anticodon stem-loop. The archeal
enzymes in this group are homodimeric class2b
aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the
specific attachment of amino acids (AAs) to their
cognate tRNAs during protein biosynthesis. This 2-step
reaction involves i) the activation of the AA by ATP in
the presence of magnesium ions, followed by ii) the
transfer of the activated AA to the terminal ribose of
tRNA. In the case of the class2b aaRSs, the activated
AA is attached to the 3'OH of the terminal ribose.
Length = 103
Score = 41.0 bits (96), Expect = 2e-04
Identities = 34/103 (33%), Positives = 47/103 (45%), Gaps = 9/103 (8%)
Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV 165
+V + G V+ R VG K AF+V+R+ VQ V +++E R + + ES V V
Sbjct: 1 KVTLAGWVYRKREVGKK-AFIVLRDSTGIVQ---AVFSKDLNEEAYREAKKVGIESSVIV 56
Query: 166 IGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASR 208
G V A EV +KL + PIT EDAS
Sbjct: 57 EGAV----KADPRAPGGAEVHGEKLEIIQNVEFFPIT-EDASD 94
>gnl|CDD|236555 PRK09537, pylS, pyrolysyl-tRNA synthetase; Reviewed.
Length = 417
Score = 42.5 bits (100), Expect = 4e-04
Identities = 55/242 (22%), Positives = 85/242 (35%), Gaps = 55/242 (22%)
Query: 130 ERVSTVQCLATVKPDSVSKEM----VRFVRSLSNES--IVDVIGVVSVPDVEIKGATQQV 183
E + V+ P K M VR + L N + G VP + + +
Sbjct: 88 EDKTQVKVKVVSAPTKKKKAMPKSVVRAPKPLENPVPAQAESSGSKPVPSIPVSTPEVKA 147
Query: 184 E------VQIKKL-YCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRV 236
Q +L +S K + E E E E S+ L ++ ++ R
Sbjct: 148 PAPALTPSQKDRLETLLSPKDKISLNSEKPKFKELESELVSRRKNDLKQMYEEDR----- 202
Query: 237 IDIRTLANQGIFRIQSQVGNIFR---QFLLSENFVEIHTPKLIAGSS----------EGG 283
+ +G + R +F + F+EI +P LI E
Sbjct: 203 --------------EDYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELS 248
Query: 284 SAVFRLDYKGQSACLAQ--SPQL----HKQMSICGDFGRVFETGPVFRAEDSYTHRHLCE 337
+FR+D ++ CL +P L K I D ++FE GP +R E S HL E
Sbjct: 249 KQIFRVD---KNFCLRPMLAPGLYNYLRKLDRILPDPIKIFEIGPCYRKE-SDGKEHLEE 304
Query: 338 FT 339
FT
Sbjct: 305 FT 306
>gnl|CDD|235095 PRK02983, lysS, lysyl-tRNA synthetase; Provisional.
Length = 1094
Score = 42.3 bits (100), Expect = 7e-04
Identities = 16/33 (48%), Positives = 23/33 (69%), Gaps = 1/33 (3%)
Query: 513 YGAPPHGGFGVGLERVVMLFCGLNNIRKTSLYP 545
Y PP GG G+G++R+VML G +IR+T +P
Sbjct: 1057 YAMPPTGGLGMGVDRLVMLLTG-RSIRETLPFP 1088
Score = 39.6 bits (93), Expect = 0.005
Identities = 62/263 (23%), Positives = 99/263 (37%), Gaps = 53/263 (20%)
Query: 93 TVVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVR 152
TV AL + +EV + GRV R G + F +R+ +Q L +
Sbjct: 641 TVAEAL-DAPTGEEVSVSGRVLRIRDYG-GVLFADLRDWSGELQVLLD-ASRLEQGSLAD 697
Query: 153 FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
F ++ +V+V G + + T + V
Sbjct: 698 FRAAVDLGDLVEVTGTM----GTSRNGTLSLLVT-------------------------S 728
Query: 213 IEKASKEGVQLPR-----VNQDTRLNNRVID--IRTLANQGIFRIQSQVGNIFRQFLLSE 265
A K LP + + R+ R +D + A + R +S V R+ L++
Sbjct: 729 WRLAGKCLRPLPDKWKGLTDPEARVRQRYLDLAVNPEARD-LLRARSAVVRAVRETLVAR 787
Query: 266 NFVEIHTPKL--IAGSSEGGSA---VFRLDYKGQSACLAQSPQLH-KQMSICGDFGRVFE 319
F+E+ TP L + G G +A V ++ L +P+L+ K++ + G RVFE
Sbjct: 788 GFLEVETPILQQVHG---GANARPFVTHINAYDMDLYLRIAPELYLKRLCV-GGVERVFE 843
Query: 320 TGPVFRAED-SYTHRHLCEFTGL 341
G FR E TH EFT L
Sbjct: 844 LGRNFRNEGVDATHNP--EFTLL 864
>gnl|CDD|223095 COG0016, PheS, Phenylalanyl-tRNA synthetase alpha subunit
[Translation, ribosomal structure and biogenesis].
Length = 335
Score = 39.1 bits (92), Expect = 0.004
Identities = 26/86 (30%), Positives = 36/86 (41%), Gaps = 24/86 (27%)
Query: 467 SFDVFIRGEEI-----ISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGF 521
S +V + I G +H P L +A GID + S + F
Sbjct: 263 SAEVDVYCPGCGGWLEILGCGMVH-PNVL----EAVGIDPEEYSGF------------AF 305
Query: 522 GVGLERVVMLFCGLNNIRKTSLYPRD 547
G+GLER+ ML G+ +IR LY D
Sbjct: 306 GLGLERLAMLKYGIPDIR--DLYEND 329
>gnl|CDD|239818 cd04323, AsnRS_cyto_like_N, AsnRS_cyto_like_N: N-terminal,
anticodon recognition domain of the type found in human
and Saccharomyces cerevisiae cytoplasmic
asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai
AsnRs and, in various putative bacterial AsnRSs. This
domain is a beta-barrel domain (OB fold) involved in
binding the tRNA anticodon stem-loop. The enzymes in
this group are homodimeric class2b aminoacyl-tRNA
synthetases (aaRSs). aaRSs catalyze the specific
attachment of amino acids (AAs) to their cognate tRNAs
during protein biosynthesis. This 2-step reaction
involves i) the activation of the AA by ATP in the
presence of magnesium ions, followed by ii) the transfer
of the activated AA to the terminal ribose of tRNA. In
the case of the class2b aaRSs, the activated AA is
attached to the 3'OH of the terminal ribose. Eukaryotes
contain 2 sets of aaRSs, both of which are encoded by
the nuclear genome. One set concerns with cytoplasmic
synthesis, whereas the other exclusively with
mitochondrial protein synthesis. AsnRS is
immunodominant antigen of the filarial nematode B.
malayai and of interest as a target for anti-parasitic
drug design. Human AsnRS has been shown to be a
pro-inflammatory chemokine which interacts with CCR3
chemokine receptors on T cells, immature dendritic cells
and macrophages.
Length = 84
Score = 35.7 bits (83), Expect = 0.006
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 11/67 (16%)
Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLAT---VKPDSVSKEMVRFVRSLSNESI 162
V + G VH R KL F+V+R+ +QC+ + V +K SL+ ES
Sbjct: 1 RVKVFGWVHRLRSQK-KLMFLVLRDGTGFLQCVLSKKLVTEFYDAK-------SLTQESS 52
Query: 163 VDVIGVV 169
V+V G V
Sbjct: 53 VEVTGEV 59
>gnl|CDD|216483 pfam01409, tRNA-synt_2d, tRNA synthetases class II core domain (F).
Other tRNA synthetase sub-families are too dissimilar
to be included. This family includes only
phenylalanyl-tRNA synthetases. This is the core
catalytic domain.
Length = 245
Score = 36.4 bits (85), Expect = 0.026
Identities = 25/79 (31%), Positives = 35/79 (44%), Gaps = 23/79 (29%)
Query: 467 SFDVFIR----GEEI-ISGAQRIHIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGF 521
S +V + G I I GA +H P L A GID + P F
Sbjct: 173 SAEVDVYCCKLGGWIEIGGAGMVH-PNVLE----AVGIDEEY-------------PGFAF 214
Query: 522 GVGLERVVMLFCGLNNIRK 540
G+G+ER+ ML G+++IR
Sbjct: 215 GLGVERLAMLKYGIDDIRD 233
>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 = 35.9 bits (83), Expect = 0.033
Identities = 31/103 (30%), Positives = 46/103 (44%), Gaps = 21/103 (20%)
Query: 260 QFLLSENFVEIHTPKLIAGSSEG----------GSAVFRLDYKGQSACLAQ--SPQLH-- 305
+ L+ FV++ TP +I S VF +D ++ CL +P L+
Sbjct: 37 KALVDRGFVQVKTPIIIPKEYLEKMTIDEDHPLFSQVFWVD---ENKCLRPMLAPNLYNY 93
Query: 306 --KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD-VEM 345
K + R+FE GP +R E S +HL EFT L+ EM
Sbjct: 94 LRKLDRLWPKPIRIFEIGPCYRKE-SQGSQHLNEFTMLNLCEM 135
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 36.3 bits (84), Expect = 0.034
Identities = 17/43 (39%), Positives = 25/43 (58%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
K + E + + +KK A+ EAA KA E +K+AEA A +A
Sbjct: 170 KAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAA 212
Score = 35.6 bits (82), Expect = 0.059
Identities = 18/43 (41%), Positives = 27/43 (62%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
K + E + + + +KK A+ EA KKA E +K+A A A AA+A
Sbjct: 186 KAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKKKAAAEAKAAAA 228
Score = 35.6 bits (82), Expect = 0.065
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
K E +++ +KK A EA KKA E + A AA+ A A
Sbjct: 194 KAAAEAKKKAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAEAKA 236
Score = 35.2 bits (81), Expect = 0.092
Identities = 17/29 (58%), Positives = 22/29 (75%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
KK A+ EAAKKA E +K+AEA A+A +A
Sbjct: 168 KKKAEAEAAKKAAAEAKKKAEAEAAAKAA 196
Score = 31.7 bits (72), Expect = 1.1
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 9 KVQEEVDSSSQSISKK---AAKKEAAKKAKEERRKEAEAAASAASA 51
K + E + + +KK A K AA KA E + AE AA+A +A
Sbjct: 202 KAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAEAKAAAEKAAAAKAA 247
Score = 31.3 bits (71), Expect = 1.2
Identities = 19/48 (39%), Positives = 29/48 (60%), Gaps = 2/48 (4%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
E E K E+ ++Q K+A EAAK+A ++++ EAAA AA+A
Sbjct: 99 EQERLKQLEKERLAAQEQKKQAE--EAAKQAALKQKQAEEAAAKAAAA 144
Score = 31.3 bits (71), Expect = 1.2
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
AAK A KA E+ A+AA AA+A
Sbjct: 225 AAAAKAAAEAKAAAEKAAAAKAAEKAAAA 253
Score = 30.5 bits (69), Expect = 2.6
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
K E +++ + K A EA KKA+ E +A A A +
Sbjct: 162 KAAAEAKKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAE 204
Score = 30.2 bits (68), Expect = 2.7
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
K E +++ + A EA KKA+ E +K+A A A +A
Sbjct: 178 KAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKKKAA 220
Score = 29.8 bits (67), Expect = 3.8
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 9 KVQEEVDSSSQSISKKAAKKEA-AKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDV 67
K + E ++ ++ ++ K A AK A + EA+AAA A+A E+ A +V
Sbjct: 200 KKKAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAEAKAAAEKAAAAKAAEKAAAAKAAAEV 259
Score = 29.4 bits (66), Expect = 5.7
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAA--SAASALSIEEE 57
E K EE + K+A EAA KA + +AEA A +AA+A E
Sbjct: 113 AQEQKKQAEEAAKQAALKQKQAE--EAAAKAAAAAKAKAEAEAKRAAAAAKKAAAE 166
Score = 28.6 bits (64), Expect = 9.7
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
+ K + E ++ + + K A EA KKA+ E K+A A A +
Sbjct: 141 AAAAAKAKAEAEAKRAAAAAKKAAAEAKKKAEAEAAKKAAAEAKKKAE 188
>gnl|CDD|238277 cd00496, PheRS_alpha_core, Phenylalanyl-tRNA synthetase (PheRS)
alpha chain catalytic core domain. PheRS belongs to
class II aminoacyl-tRNA synthetases (aaRS) based upon
its structure and the presence of three characteristic
sequence motifs. This domain is primarily responsible
for ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. While class II aaRSs generally
aminoacylate the 3'-OH 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. PheRS is an
alpha-2/ beta-2 tetramer.
Length = 218
Score = 35.6 bits (83), Expect = 0.035
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 521 FGVGLERVVMLFCGLNNIR 539
FG+GLER+ ML G+ +IR
Sbjct: 192 FGIGLERLAMLKYGIPDIR 210
>gnl|CDD|236474 PRK09350, PRK09350, poxB regulator PoxA; Provisional.
Length = 306
Score = 35.7 bits (83), Expect = 0.044
Identities = 63/286 (22%), Positives = 106/286 (37%), Gaps = 87/286 (30%)
Query: 298 LAQSPQLH-KQM--SICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYS-- 352
L SP+ H K++ + G +F+ FR E++ H EFT L+ + HY
Sbjct: 62 LMTSPEYHMKRLLAAGSGP---IFQICKSFRNEEA-GRYHNPEFTMLEW---YRPHYDMY 114
Query: 353 EVMDIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGV 412
+M+ VD L + D C+ P E L++++ +
Sbjct: 115 RLMNEVDDLLQQVLD-----CE----------PAE---------SLSYQQAFLRY----L 146
Query: 413 EIDPLGDLNTESERKLGQLVLEKYG------------TEFYILHRYPLAVRP-------- 452
IDPL + + +L + V K G T +L + V P
Sbjct: 147 GIDPL----SADKTQLRE-VAAKLGLSNIADEEEDRDTLLQLL--FTFGVEPNIGKEKPT 199
Query: 453 -FYTMPCHDNSL---------YSNSFDVFIRGEEIISG--------AQRIHIPEFLAERA 494
Y P +L + F+V+ +G E+ +G QR + +RA
Sbjct: 200 FVYHFPASQAALAKISTEDHRVAERFEVYFKGIELANGFHELTDAREQRQRFEQDNRKRA 259
Query: 495 QACGIDVKTISTY-IDSFRYGAPPHGGFGVGLERVVMLFCGLNNIR 539
A G+ + I I + G P G +G++R++ML G +I
Sbjct: 260 -ARGLPQQPIDENLIAALEAGLPDCSGVALGVDRLIMLALGAESIS 304
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 34.9 bits (81), Expect = 0.12
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 4/71 (5%)
Query: 7 PPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGD 66
EE + + ++S KK K+ K E++ E E A AA+ +++ A
Sbjct: 392 LLAEGEEEEGENGNLSPAERKKLRKKQRKAEKKAEKEEAEKAAA----KKKAEAAAKKAK 447
Query: 67 VPLQELQSVND 77
P E + V+
Sbjct: 448 GPDGETKKVDP 458
Score = 33.8 bits (78), Expect = 0.24
Identities = 17/78 (21%), Positives = 26/78 (33%), Gaps = 1/78 (1%)
Query: 2 STESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLA 61
+ E + + + +K +K K KEE K A + A+A +
Sbjct: 394 AEGEEEEGENGNLSPAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGET 453
Query: 62 NNYGDVPLQE-LQSVNDP 78
PL E L DP
Sbjct: 454 KKVDPDPLGEKLARTEDP 471
>gnl|CDD|232988 TIGR00468, pheS, phenylalanyl-tRNA synthetase, alpha subunit. Most
phenylalanyl-tRNA synthetases are heterodimeric, with 2
alpha (pheS) and 2 beta (pheT) subunits. This model
describes the alpha subunit, which shows some similarity
to class II aminoacyl-tRNA ligases. Mitochondrial
phenylalanyl-tRNA synthetase is a single polypeptide
chain, active as a monomer, and similar to this chain
rather than to the beta chain, but excluded from this
model. An interesting feature of the alignment of all
sequences captured by this model is a deep split between
non-spirochete bacterial examples and all other
examples; supporting this split is a relative deletion
of about 50 residues in the former set between two
motifs well conserved throughout the alignment [Protein
synthesis, tRNA aminoacylation].
Length = 293
Score = 34.6 bits (80), Expect = 0.12
Identities = 32/123 (26%), Positives = 47/123 (38%), Gaps = 37/123 (30%)
Query: 430 QLVLEKYGTEFYILHRYPLAVRPFYTMPCHDNSLYSNSFDVFIRGEEI-----ISGAQRI 484
+ L+K E I R+ + PF T P S ++ + E + GA
Sbjct: 195 EEFLKKMFGETEI--RFRPSYFPF-TEP---------SAEIDVYCPEGKGWLEVLGAGMF 242
Query: 485 HIPEFLAERAQACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTSLY 544
PE L GID T + +G+G+ER+ ML G+ +IR LY
Sbjct: 243 R-PEVLE----PMGID-PTYPGF------------AWGIGIERLAMLKYGITDIR--DLY 282
Query: 545 PRD 547
D
Sbjct: 283 END 285
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 33.8 bits (78), Expect = 0.26
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
+KAA++ KKA E R + + A +AA A
Sbjct: 465 EKAAREARHKKAAEARAAKDKDAVAAALA 493
>gnl|CDD|239816 cd04321, ScAspRS_mt_like_N, ScAspRS_mt_like_N: N-terminal,
anticodon recognition domain of the type found in
Saccharomyces cerevisiae mitochondrial (mt)
aspartyl-tRNA synthetase (AspRS). This domain is a
beta-barrel domain (OB fold) involved in binding the
tRNA anticodon stem-loop. The enzymes in this fungal
group are homodimeric class2b aminoacyl-tRNA synthetases
(aaRSs). aaRSs catalyze the specific attachment of amino
acids (AAs) to their cognate tRNAs during protein
biosynthesis. This 2-step reaction involves i) the
activation of the AA by ATP in the presence of magnesium
ions, followed by ii) the transfer of the activated AA
to the terminal ribose of tRNA. In the case of the
class2b aaRSs, the activated AA is attached to the 3'OH
of the terminal ribose. Eukaryotes contain 2 sets of
aaRSs, both of which are encoded by the nuclear genome.
One set concerns with cytoplasmic protein synthesis,
whereas the other exclusively with mitochondrial protein
synthesis. Mutations in the gene for S. cerevisiae
mtAspRS result in a "petite" phenotype typical for a
mutation in a nuclear gene that results in a
non-functioning mitochondrial protein synthesis system.
Length = 86
Score = 30.7 bits (70), Expect = 0.34
Identities = 18/84 (21%), Positives = 39/84 (46%), Gaps = 6/84 (7%)
Query: 106 EVLIRGRVHTTRPVGNKLAFVVVR-ERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
+V + G + + KL+F +R +Q ++T K D+ S ++S++ ES V
Sbjct: 1 KVTLNGWIDRKPRIVKKLSFADLRDPNGDIIQLVSTAKKDAFSL-----LKSITAESPVQ 55
Query: 165 VIGVVSVPDVEIKGATQQVEVQIK 188
V G + + + + + E+ +
Sbjct: 56 VRGKLQLKEAKSSEKNDEWELVVD 79
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 33.0 bits (75), Expect = 0.37
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
K + ++ +K A EA KKA+E + EA A A +A
Sbjct: 148 KAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEEAKAKAEAA 190
Score = 31.1 bits (70), Expect = 1.5
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKE-ERRKEAEAAASAASALSIEEE 57
E+ K E ++ +K A +EA KA+ +K+AEA A AA+ + E
Sbjct: 159 EAAKLKAAAEAKKKAEEAAK--AAEEAKAKAEAAAAKKKAEAEAKAAAEKAKAEA 211
Score = 31.1 bits (70), Expect = 1.6
Identities = 14/55 (25%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 4 ESEPPKVQEEVDSSSQSISK--KAAKKEAAKKAKEERRKEAEAAASAASALSIEE 56
E+E E+ + +++ +K K A+ A +KA E++K A A + +A + +
Sbjct: 197 EAEAKAAAEKAKAEAEAKAKAEKKAEAAAEEKAAAEKKKAAAKAKADKAAAAAKA 251
Score = 30.7 bits (69), Expect = 2.3
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
K EE + +++ + K + AK A E+ + EAEA A A
Sbjct: 178 KAAEEAKAKAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEKK 220
Score = 30.3 bits (68), Expect = 2.7
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
+ + AK EA KAK E++ EA A AA+
Sbjct: 203 AAEKAKAEAEAKAKAEKKAEAAAEEKAAAEKKKAAA 238
Score = 29.5 bits (66), Expect = 5.3
Identities = 10/35 (28%), Positives = 19/35 (54%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAASALSIEE 56
+ KK AAK ++ A+AA A+A ++++
Sbjct: 229 AAAEKKKAAAKAKADKAAAAAKAAERKAAAAALDD 263
Score = 29.1 bits (65), Expect = 6.3
Identities = 18/51 (35%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRK--EAEAAASAASALSIEEE 57
K QEE + + KK A+ AK A E + AEA A A EE
Sbjct: 132 KQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEE 182
Score = 28.8 bits (64), Expect = 9.4
Identities = 13/48 (27%), Positives = 24/48 (50%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
E K EE + +Q K+ ++ A+++++ EA A +AA A
Sbjct: 113 AQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEA 160
Score = 28.4 bits (63), Expect = 9.9
Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 6 EPPKVQEEVDSSSQSISKKAAKKEAA---KKAKEERRKEAEAAASAASALSIEEEG 58
E K + E + ++ ++ AA+++AA KKA + + + AAA+ A+
Sbjct: 205 EKAKAEAEAKAKAEKKAEAAAEEKAAAEKKKAAAKAKADKAAAAAKAAERKAAAAA 260
>gnl|CDD|226400 COG3883, COG3883, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 265
Score = 32.8 bits (75), Expect = 0.39
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLAN 62
K A+ AA+ AK+E +A A AA + P A
Sbjct: 220 KALAEAAAAEAAKQEAAAKAAAQEQAALQAAATAAQPSAV 259
Score = 30.1 bits (68), Expect = 2.6
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 25 AAKKEAAKKAKEERRKEAEAAASAASALSIEEEG 58
AAK+EAA KA + + +AAA+AA ++ E
Sbjct: 230 AAKQEAAAKAAAQEQAALQAAATAAQPSAVTESA 263
>gnl|CDD|234780 PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Validated.
Length = 339
Score = 32.8 bits (76), Expect = 0.44
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 12/45 (26%)
Query: 495 QACGIDVKTISTYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIR 539
+ GID + S + A FG+G+ER+ ML G+++IR
Sbjct: 294 RNVGIDPEEYSGF-------A-----FGMGIERLAMLKYGIDDIR 326
>gnl|CDD|192292 pfam09429, Wbp11, WW domain binding protein 11. The WW domain is
a small protein module with a triple-stranded
beta-sheet fold. This is a family of WW domain binding
proteins.
Length = 78
Score = 30.3 bits (69), Expect = 0.45
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
+K KK+ KK K ER+ EA + + ++ E
Sbjct: 11 RKEQKKKELKKNKAERQARREAKLAKKNPDRLQRE 45
>gnl|CDD|148679 pfam07218, RAP1, Rhoptry-associated protein 1 (RAP-1). This family
consists of several rhoptry-associated protein 1 (RAP-1)
sequences which appear to be specific to Plasmodium
falciparum.
Length = 790
Score = 32.3 bits (73), Expect = 0.67
Identities = 21/75 (28%), Positives = 33/75 (44%)
Query: 2 STESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLA 61
E + +S++S SK A+K + + E +A+AS A + +EE P A
Sbjct: 139 QGEGLASSSDGKSKASAKSGSKSASKHGESNSSDESATDSGKASASVAGIVGADEEAPPA 198
Query: 62 NNYGDVPLQELQSVN 76
PL+EL N
Sbjct: 199 PKNTLTPLEELYETN 213
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 32.1 bits (73), Expect = 0.70
Identities = 16/29 (55%), Positives = 20/29 (68%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
K A+ EA KKAKEE +K+AE A A +A
Sbjct: 133 KAKAEAEAEKKAKEEAKKQAEEEAKAKAA 161
Score = 31.7 bits (72), Expect = 0.93
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAA 49
K EA KKA+ E + +AEA A A
Sbjct: 164 AKKKAAEAKKKAEAEAKAKAEAKAKAK 190
Score = 31.3 bits (71), Expect = 1.1
Identities = 13/29 (44%), Positives = 20/29 (68%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
+K AK+EA K+A+EE + +A A A +A
Sbjct: 141 EKKAKEEAKKQAEEEAKAKAAAEAKKKAA 169
Score = 31.0 bits (70), Expect = 1.4
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
KK A++EA KA E +K+A A A A
Sbjct: 149 KKQAEEEAKAKAAAEAKKKAAEAKKKAEA 177
Score = 30.6 bits (69), Expect = 2.4
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
K A + E A K EE++K+AE A + +A
Sbjct: 102 KAAKQAEQAAKQAEEKQKQAEEAKAKQAA 130
Score = 29.8 bits (67), Expect = 4.0
Identities = 22/70 (31%), Positives = 28/70 (40%), Gaps = 3/70 (4%)
Query: 23 KKAAKKEAAK-KAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTG 81
+ AK EAAK KA E +AEA A+AA+A E + A N + G
Sbjct: 193 EAKAKAEAAKAKAAAEAAAKAEAEAAAAAAAEAERKADEAE--LGDIFGLASGSNAEKQG 250
Query: 82 KWSEAVNGRE 91
G E
Sbjct: 251 GARGNAAGSE 260
Score = 29.4 bits (66), Expect = 4.9
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAA 49
K+AA+ +A +A+ E++ + EA A
Sbjct: 127 KQAAEAKAKAEAEAEKKAKEEAKKQAE 153
Score = 29.4 bits (66), Expect = 5.5
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 9 KVQEEVDSSSQSISKKA-----AKKEAAKKAK-EERRKEAEAAASAASA 51
K E + KKA AK EA KAK EE + +AEAA + A+A
Sbjct: 159 KAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAA 207
Score = 29.0 bits (65), Expect = 6.5
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 23 KKAAKKEAAKKAKEERRK---EAEAAASAA 49
K A EA KKA E ++K EA+A A A
Sbjct: 157 KAKAAAEAKKKAAEAKKKAEAEAKAKAEAK 186
Score = 28.6 bits (64), Expect = 7.9
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 4/50 (8%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEER----RKEAEAAASAASALSI 54
K + E + +K A EAA KA+ E EAE A A I
Sbjct: 188 KAKAEEAKAKAEAAKAKAAAEAAAKAEAEAAAAAAAEAERKADEAELGDI 237
>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein. Function of MutS2 is
unknown. It should not be considered a DNA mismatch
repair protein. It is likely a DNA mismatch binding
protein of unknown cellular function [DNA metabolism,
Other].
Length = 771
Score = 32.5 bits (74), Expect = 0.72
Identities = 20/93 (21%), Positives = 35/93 (37%), Gaps = 9/93 (9%)
Query: 24 KAAKKEAAKKAKEERRKEAEAAASAASALSI----EEEGPLANN----YGDVPLQELQSV 75
KA KKE +E + K+ A S + E + + D +++
Sbjct: 575 KALKKEVESIIRELKEKKIHKAKEIKSIEDLVKLKETKQKIPQKPTNFQADKIGDKVRIR 634
Query: 76 NDPQTGKWSEAVNGREWTV-VGALNGSLKDQEV 107
Q GK + + G +W V VG + + E+
Sbjct: 635 YFGQKGKIVQILGGNKWNVTVGGMRMKVHGSEL 667
>gnl|CDD|235239 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 31.7 bits (73), Expect = 1.1
Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 521 FGVGLERVVMLFCGLNNIRKTSLYPRD 547
+G+G+ER+ ML GL++IR LY D
Sbjct: 457 WGLGIERLAMLRLGLDDIRD--LYSSD 481
>gnl|CDD|177680 PLN00048, PLN00048, photosystem I light harvesting chlorophyll a/b
binding protein 3; Provisional.
Length = 262
Score = 31.4 bits (71), Expect = 1.1
Identities = 28/98 (28%), Positives = 46/98 (46%), Gaps = 15/98 (15%)
Query: 14 VDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASA--------ASALSIEE-EGPLANNY 64
V ++ +++S AA+ +AKKA+ R EA A AS S+ +G L ++
Sbjct: 4 VQTARRALSSSAARSSSAKKARFVVRAEATPPAKQGADRQLWFASKQSLSYLDGTLPGDF 63
Query: 65 GDVPLQELQSVN-----DPQTGKWSEAVNGREWTVVGA 97
G PL +PQ + E +NGR + ++GA
Sbjct: 64 GFDPLGLSDPEGAGGFIEPQWLAYGEVINGR-FAMLGA 100
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation
factor 3 (eIF3). In yeast it is called Hcr1. The
Saccharomyces cerevisiae protein eIF3j (HCR1) has been
shown to be required for processing of 20S pre-rRNA and
binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 31.2 bits (71), Expect = 1.1
Identities = 11/54 (20%), Positives = 23/54 (42%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
E E + +EE + K A K ++ ++ +R++ E + E+E
Sbjct: 39 EEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLRELEEDTPEDE 92
>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis). This nucleolar
family of proteins are involved in 60S ribosomal
biogenesis. They are specifically involved in the
processing beyond the 27S stage of 25S rRNA maturation.
This family contains sequences that bear similarity to
the glioma tumour suppressor candidate region gene 2
protein (p60). This protein has been found to interact
with herpes simplex type 1 regulatory proteins.
Length = 387
Score = 31.2 bits (71), Expect = 1.3
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
ES + E + ++ + +K A++ KE+RRKE E A L +
Sbjct: 256 ESAWEGFESEYEPINKP--VRPKRKTKAQRNKEKRRKELEREAKEEKQLKKKLA 307
>gnl|CDD|236081 PRK07735, PRK07735, NADH dehydrogenase subunit C; Validated.
Length = 430
Score = 31.5 bits (71), Expect = 1.4
Identities = 27/94 (28%), Positives = 43/94 (45%), Gaps = 13/94 (13%)
Query: 10 VQEEVDSSSQSISKKAAKKEAAKKAK------------EERRKEAEAAASAASALSIEEE 57
V EE + +++ + AAK +AA AK E+ + +A AAA A +A + +
Sbjct: 195 VTEEEKAKAKAKAAAAAKAKAAALAKQKASQGNGDSGDEDAKAKAIAAAKAKAAAAARAK 254
Query: 58 GPLANNYGD-VPLQELQSVNDPQTGKWSEAVNGR 90
A + P QE SVN P K+ E + +
Sbjct: 255 TKGAEGKKEEEPKQEEPSVNQPYLNKYVEVIKEK 288
Score = 29.6 bits (66), Expect = 5.4
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 27 KKEAAKKAKEERRKEAEAAASAASALSIEEEGP 59
KKEAA++AKEE RK A A + EE
Sbjct: 11 KKEAARRAKEEARKRLVAKHGAEISKLEEENRE 43
>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional.
Length = 155
Score = 29.7 bits (67), Expect = 2.2
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 20 SISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
+ + K K A A E AEAAA+AA+
Sbjct: 121 ATTPKKKKAAAEAAAAEAAAPAAEAAAAAAAE 152
Score = 29.7 bits (67), Expect = 2.3
Identities = 12/30 (40%), Positives = 13/30 (43%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAASA 51
KK A EAA EA AAA+A
Sbjct: 125 KKKKAAAEAAAAEAAAPAAEAAAAAAAEEE 154
Score = 28.5 bits (64), Expect = 5.9
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 24 KAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
KK+ A A AA +AA+A + EE
Sbjct: 122 TTPKKKKAAAEAAAAEAAAPAAEAAAAAAAEEEA 155
Score = 28.1 bits (63), Expect = 8.5
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASA 51
KKAA + AA +A + A AAA+ A
Sbjct: 127 KKAAAEAAAAEAAAPAAEAAAAAAAEEEA 155
Score = 27.7 bits (62), Expect = 9.5
Identities = 11/38 (28%), Positives = 13/38 (34%), Gaps = 2/38 (5%)
Query: 24 KAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLA 61
A+ KK K EA AA +AA A
Sbjct: 117 PTAEATTPKKKKAA--AEAAAAEAAAPAAEAAAAAAAE 152
>gnl|CDD|239813 cd04318, EcAsnRS_like_N, EcAsnRS_like_N: N-terminal, anticodon
recognition domain of the type found in Escherichia coli
asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis
thaliana and Saccharomyces cerevisiae mitochondrial (mt)
AsnRS. This domain is a beta-barrel domain (OB fold)
involved in binding the tRNA anticodon stem-loop. The
enzymes in this group are homodimeric class2b
aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the
specific attachment of amino acids (AAs) to their
cognate tRNAs during protein biosynthesis. This 2-step
reaction involves i) the activation of the AA by ATP in
the presence of magnesium ions, followed by ii) the
transfer of the activated AA to the terminal ribose of
tRNA. In the case of the class2b aaRSs, the activated
AA is attached to the 3'OH of the terminal ribose.
Eukaryotes contain 2 sets of aaRSs, both of which are
encoded by the nuclear genome. One set concerns with
cytoplasmic protein synthesis, whereas the other
exclusively with mitochondrial protein synthesis. S.
cerevisiae mtAsnRS can charge E.coli tRNA with
asparagines. Mutations in the gene for S. cerevisiae
mtAsnRS has been found to induce a "petite" phenotype
typical for a mutation in a nuclear gene that results in
a non-functioning mitochondrial protein synthesis
system.
Length = 82
Score = 28.3 bits (64), Expect = 2.2
Identities = 22/87 (25%), Positives = 42/87 (48%), Gaps = 12/87 (13%)
Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRE--RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
EV + G V + R K++F+ + + + +Q + V + + + + LS S +
Sbjct: 1 EVTVNGWVRSVRDSK-KISFIELNDGSCLKNLQVV--VDKELTNFK---EILKLSTGSSI 54
Query: 164 DVIGVVSVPDVEIKGATQQVEVQIKKL 190
V GV+ V+ GA Q E+Q +K+
Sbjct: 55 RVEGVL----VKSPGAKQPFELQAEKI 77
>gnl|CDD|132854 cd07215, Pat17_PNPLA8_PNPLA9_like2, Patatin-like phospholipase of
bacteria. Patatin is a storage protein of the potato
tuber that shows Phospholipase A2 activity (PLA2; EC
3.1.1.4). Patatin catalyzes the nonspecific hydrolysis
of phospholipids, glycolipids, sulfolipids, and mono-
and diacylglycerols, thereby showing lipid acyl
hydrolase activity. The active site includes an oxyanion
hole with a conserved GGxR motif; it is found in almost
all the members of this family. The catalytic dyad is
formed by a serine and an aspartate. Patatin belongs to
the alpha-beta hydrolase family which is identified by a
characteristic nucleophile elbow with a consensus
sequence of Sm-X-Nu-Sm (Sm = small residue, X = any
residue and Nu = nucleophile). Members of this family
have been found also in vertebrates. This family
includes subfamily of PNPLA8 (iPLA2-gamma) and PNPLA9
(iPLA2-beta) like phospholipases from human as well as
the Pat17 isozyme from Solanum cardiophyllum.
Length = 329
Score = 30.5 bits (69), Expect = 2.5
Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 7/56 (12%)
Query: 171 VPDVEIKGATQQVEVQIKKLYCVSRAAK----TPITIEDASRSEAEIEKASKEGVQ 222
+ D+ + GA+Q V+ Q+K+++ + +EDA E++ AS E ++
Sbjct: 253 LIDIMMDGASQTVDYQLKQIFDAEGDQQQYLRIQPELEDAD---PEMDDASPENLE 305
>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p. This subfamily
includes archaeal L12p, the protein that is functionally
equivalent to L7/L12 in bacteria and the P1 and P2
proteins in eukaryotes. L12p is homologous to P1 and P2
but is not homologous to bacterial L7/L12. It is located
in the L12 stalk, with proteins L10, L11, and 23S rRNA.
L12p is the only protein in the ribosome to occur as
multimers, always appearing as sets of dimers. Recent
data indicate that most archaeal species contain six
copies of L12p (three homodimers), while eukaryotes have
four copies (two heterodimers), and bacteria may have
four or six copies (two or three homodimers), depending
on the species. The organization of proteins within the
stalk has been characterized primarily in bacteria,
where L7/L12 forms either two or three homodimers and
each homodimer binds to the extended C-terminal helix of
L10. L7/L12 is attached to the ribosome through L10 and
is the only ribosomal protein that does not directly
interact with rRNA. Archaeal L12p is believed to
function in a similar fashion. However, hybrid ribosomes
containing the large subunit from E. coli with an
archaeal stalk are able to bind archaeal and eukaryotic
elongation factors but not bacterial elongation factors.
In several mesophilic and thermophilic archaeal species,
the binding of 23S rRNA to protein L11 and to the
L10/L12p pentameric complex was found to be
temperature-dependent and cooperative.
Length = 106
Score = 28.6 bits (64), Expect = 2.8
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAASAL 52
+KA +KE KK +EE+ +E E A + AL
Sbjct: 75 EEKAEEKEEEKKKEEEKEEEEEEALAGLGAL 105
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 30.5 bits (68), Expect = 2.8
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 5 SEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
+E K + E + +++ K EAA+K KEE +K+A+AA A +E
Sbjct: 1345 AEAAKAEAEAAADEAEAAEE--KAEAAEKKKEEAKKKADAAKKKAEEKKKADE 1395
Score = 30.5 bits (68), Expect = 3.5
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
++E K +E ++ KKA +AAKK EE +K AEAA + A A + E E
Sbjct: 1310 KAEEAKKADEAKKKAEEAKKKA---DAAKKKAEEAKKAAEAAKAEAEAAADEAE 1360
Score = 30.1 bits (67), Expect = 3.6
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 2 STESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEE 56
+TE K +E + + + +EA KKA++ R+ AE A A A EE
Sbjct: 1092 ATEEAFGKAEEAKKTETGKAEEARKAEEAKKKAEDARK--AEEARKAEDARKAEE 1144
Score = 30.1 bits (67), Expect = 3.9
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 4 ESEPPKVQEEVDSSSQSISKKA---AKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
++E K +E ++ KKA K AAKK +E +K+AE A A EE
Sbjct: 1386 KAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEE 1442
Score = 30.1 bits (67), Expect = 3.9
Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 6 EPPKVQEEVDSSSQSISKKAAKK---EAAKKAKEERRKEAEAAASAASALSIEE 56
E K EE + + K AA K + AKK EE++K EA A A +E
Sbjct: 1395 EAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADE 1448
Score = 29.7 bits (66), Expect = 4.9
Identities = 22/58 (37%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 4 ESEPPKVQEEVDSSSQSISKKAA----KKEAAKKAKEERRKEAEAAASAASALSIEEE 57
E+E K EE+ + + KAA K E KK EE +K E AA AL E E
Sbjct: 1642 EAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAE 1699
Score = 29.3 bits (65), Expect = 7.1
Identities = 20/56 (35%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 6 EPPKVQEEVDSSSQSISKKAAKK----EAAKKAKEERRKEAEAAASAASALSIEEE 57
E K EE + + KKA + EAAK E EAEAA A A ++E
Sbjct: 1319 EAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKE 1374
>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional.
Length = 186
Score = 29.7 bits (67), Expect = 3.0
Identities = 17/42 (40%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 23 KKAAKK---EAAKKAKEERRKEAEAAASAASALSIEEEGPLA 61
KKAAKK EA KK E R + +A +A EE A
Sbjct: 125 KKAAKKAALEAEKKVNEARAEAVAEKKAAEAAAVAAEEAAAA 166
>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional.
Length = 333
Score = 29.9 bits (67), Expect = 3.3
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 16 SSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
++ ++S K A K AAK AK+ ++ +A AA A
Sbjct: 231 AAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKA 266
>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated.
Length = 330
Score = 29.8 bits (68), Expect = 3.7
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 7 PPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASAL 52
+++E + S+Q+ + A ++E ++ +EE E AA+ AL
Sbjct: 285 DEELKEVL--SAQAQAAAAEEEEEEEEEEEEEEPSEEEAAAGLGAL 328
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 30.2 bits (68), Expect = 3.8
Identities = 14/29 (48%), Positives = 21/29 (72%), Gaps = 2/29 (6%)
Query: 23 KKAAKKEAAKK--AKEERRKEAEAAASAA 49
+K AK+EA ++ A+E+RR+E E AA A
Sbjct: 259 EKLAKEEAERERQAEEQRRREEEKAAMEA 287
>gnl|CDD|237185 PRK12739, PRK12739, elongation factor G; Reviewed.
Length = 691
Score = 29.8 bits (68), Expect = 4.5
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 13 EVDSSSQS--ISKKAAKKEAAKKAK 35
+VDSS + I+ A KEAAKKA
Sbjct: 571 DVDSSELAFKIAASMALKEAAKKAG 595
>gnl|CDD|238007 cd00048, DSRM, Double-stranded RNA binding motif. Binding is not
sequence specific but is highly specific for double
stranded RNA. Found in a variety of proteins including
dsRNA dependent protein kinase PKR, RNA helicases,
Drosophila staufen protein, E. coli RNase III, RNases
H1, and dsRNA dependent adenosine deaminases.
Length = 68
Score = 27.2 bits (61), Expect = 4.7
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 22 SKKAAKKEAAKKA 34
SKK AK+ AA+ A
Sbjct: 52 SKKEAKQNAAEAA 64
>gnl|CDD|193531 cd05654, M20_ArgE_RocB, M20 Peptidase Arginine utilization protein,
RocB. Peptidase M20 family, ArgE RocB (Arginine
utilization protein, RocB; arginine degradation protein,
RocB) subfamily. This group of proteins is possibly
related to acetylornithine deacetylase (ArgE) and may be
involved in the arginine and/or ornithine degradation
pathway. In Bacillus subtilis, RocB is one of the three
genes found in the rocABC operon, which is sigma L
dependent and induced by arginine. The function of
members of this family is as yet unknown, although they
are predicted as deacetylases.
Length = 535
Score = 29.5 bits (67), Expect = 5.2
Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 1/61 (1%)
Query: 356 DIVDRLFVTIFDGLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKD-AGVEI 414
+++++L + N + E + K LT+EE + K G +
Sbjct: 304 EVMEKLKKIATEAFENTINEAYEKYCRLSNKPGDSLPWKVKVLTYEELYEEAKKKGGEKF 363
Query: 415 D 415
+
Sbjct: 364 E 364
>gnl|CDD|132590 TIGR03551, F420_cofH, 7,8-didemethyl-8-hydroxy-5-deazariboflavin
synthase, CofH subunit. This enzyme, together with
CofG, complete the biosynthesis of
7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the
chromophore of coenzyme F420. The chromophore is also
used in cyanobacteria DNA photolyases [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other].
Length = 343
Score = 29.2 bits (66), Expect = 5.3
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 8/44 (18%)
Query: 377 LEAVAKQYP------FEPL--KYKPKTLRLTFEEGVQMLKDAGV 412
L AV ++ P F P+ Y + L+ EE ++ LK+AG+
Sbjct: 109 LRAVKEEVPGMHIHAFSPMEVYYGARNSGLSVEEALKRLKEAGL 152
>gnl|CDD|237110 PRK12472, PRK12472, hypothetical protein; Provisional.
Length = 508
Score = 29.5 bits (66), Expect = 5.5
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 3 TESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
T+ + +E ++Q ++ A + + AK E +R A A AA A
Sbjct: 253 TDEAKARAEERQQKAAQQAAEAATQLDTAKADAEAKRAAAAATKEAAKA 301
>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex. This
entry is characterized by proteins with alternating
conserved and low-complexity regions. Bud13 together
with Snu17p and a newly identified factor,
Pml1p/Ylr016c, form a novel trimeric complex. called
The RES complex, pre-mRNA retention and splicing
complex. Subunits of this complex are not essential for
viability of yeasts but they are required for efficient
splicing in vitro and in vivo. Furthermore,
inactivation of this complex causes pre-mRNA leakage
from the nucleus. Bud13 contains a unique,
phylogenetically conserved C-terminal region of unknown
function.
Length = 141
Score = 28.4 bits (64), Expect = 5.8
Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 16/80 (20%)
Query: 15 DSSSQSISKKAAKKEAAKKAKEERRKEAEAAASA------------ASALSIEEEGPLAN 62
D S + I + ++E ++ +E+ RKE + L + PLA
Sbjct: 6 DKSGRIIDIEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKPLAR 65
Query: 63 NYGDV----PLQELQSVNDP 78
D L+E + +DP
Sbjct: 66 YADDEDYDEELKEQERWDDP 85
>gnl|CDD|184732 PRK14539, PRK14539, 50S ribosomal protein L11/unknown domain fusion
protein; Provisional.
Length = 196
Score = 28.8 bits (64), Expect = 6.0
Identities = 17/34 (50%), Positives = 19/34 (55%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAASALSIE 55
+K AAK A KAKE K AEA A+ SIE
Sbjct: 149 AKAAAKAAALAKAKEASLKSAEAELKASKGKSIE 182
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 29.1 bits (66), Expect = 6.1
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 8 PKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEA 42
PK + + + SKK K A KK KE+ + +
Sbjct: 378 PKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKV 412
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 29.3 bits (66), Expect = 6.2
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 24 KAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGD 66
KA + AA +A R + AEA + + E L ++ G
Sbjct: 249 KAREAAAAAEAAAARARAAEAKRTGETYKPTAPEKMLISSTGG 291
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 29.6 bits (66), Expect = 6.3
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 3 TESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA 51
+ ++ ++ ++ KK AKK AKKA ++ +AAA A
Sbjct: 974 VRKTVRRSVKKAAATRAAMKKKVAKKAPAKKAAAKKAAAKKAAAKKKVA 1022
>gnl|CDD|237631 PRK14162, PRK14162, heat shock protein GrpE; Provisional.
Length = 194
Score = 28.6 bits (64), Expect = 6.3
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 1 MSTESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASAL 52
MS E P + ++ + + K KEA K+ +E++ E + L
Sbjct: 1 MSKEEFPSE-KDLPQEETTDEAPKKEAKEAPKEEDQEKQNPVEDLEKEIADL 51
>gnl|CDD|218559 pfam05335, DUF745, Protein of unknown function (DUF745). This
family consists of several uncharacterized Drosophila
melanogaster proteins of unknown function.
Length = 188
Score = 28.4 bits (64), Expect = 6.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 13/50 (26%)
Query: 15 DSSSQSISKKAAK-------------KEAAKKAKEERRKEAEAAASAASA 51
+ SI++KAA+ + AA +AK + +A AA AA A
Sbjct: 11 KQKASSIAQKAAQEAKAANDAQAAAAEAAAYQAKSQLADKALQAAKAAEA 60
>gnl|CDD|146016 pfam03179, V-ATPase_G, Vacuolar (H+)-ATPase G subunit. This
family represents the eukaryotic vacuolar (H+)-ATPase
(V-ATPase) G subunit. V-ATPases generate an acidic
environment in several intracellular compartments.
Correspondingly, they are found as membrane-attached
proteins in several organelles. They are also found in
the plasma membranes of some specialised cells.
V-ATPases consist of peripheral (V1) and membrane
integral (V0) heteromultimeric complexes. The G subunit
is part of the V1 subunit, but is also thought to be
strongly attached to the V0 complex. It may be involved
in the coupling of ATP degradation to H+ translocation.
Length = 105
Score = 27.5 bits (62), Expect = 7.0
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 7/40 (17%)
Query: 16 SSSQSIS------KKAAKK-EAAKKAKEERRKEAEAAASA 48
S SQ I K+AA+ A+K + +R K+A+ A
Sbjct: 1 SQSQGIQQLLQAEKEAAEIVNEARKRRAKRLKQAKEEAEK 40
>gnl|CDD|240242 PTZ00046, PTZ00046, rifin; Provisional.
Length = 358
Score = 28.8 bits (65), Expect = 7.3
Identities = 15/58 (25%), Positives = 23/58 (39%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQT 80
KKAA A K A + EAA AA ++ E + ++L+S+
Sbjct: 166 KKAALAAAIKAAIKAGAAAGEAAGIAAGKKAVIEGLKSIFGISTLGGKDLKSIITATN 223
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 29.3 bits (65), Expect = 7.5
Identities = 19/74 (25%), Positives = 28/74 (37%)
Query: 16 SSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSV 75
S+S + SK + K+ KK KEE ++ + + E P QEL
Sbjct: 51 STSSNDSKAESTKKPNKKIKEEATSPLKSTKRQREKPASDTEEPERVTAKKSKTQELSRP 110
Query: 76 NDPQTGKWSEAVNG 89
N P G+ G
Sbjct: 111 NSPSEGEGEGEGEG 124
>gnl|CDD|237803 PRK14724, PRK14724, DNA topoisomerase III; Provisional.
Length = 987
Score = 29.2 bits (65), Expect = 7.6
Identities = 16/59 (27%), Positives = 28/59 (47%)
Query: 17 SSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSV 75
+++ K AAKK AAK A + ++A +A A ++ LA G P+ + +
Sbjct: 879 AAKPAKKAAAKKVAAKTAAAKTPRKAAKKKAAPPAAGLKPSAALAAVIGAEPVARPEVI 937
>gnl|CDD|224176 COG1256, FlgK, Flagellar hook-associated protein [Cell motility and
secretion].
Length = 552
Score = 28.9 bits (65), Expect = 7.6
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 8/59 (13%)
Query: 16 SSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQS 74
I KA+ + AKE + + + S ++++EE +AN L + Q
Sbjct: 478 GLVGWIGIKASTASSESDAKEALLNQLTSERQSISGVNLDEE--MAN------LIQFQQ 528
>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
Length = 509
Score = 28.8 bits (65), Expect = 7.8
Identities = 12/59 (20%), Positives = 25/59 (42%), Gaps = 2/59 (3%)
Query: 1 MSTESEPPKVQEEVDSSSQSISKKAAKKEAAK-KAKEERRKEAEAAASAASALSIEEEG 58
M+T S ++ E + + + + K AAK ++ KEE ++ E+ +
Sbjct: 1 MTTASTKAELAAE-EEAKKKLKKLAAKSKSKGFITKEEIKEALESKKKTPEQIDQVLIF 58
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 28.8 bits (65), Expect = 8.1
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 8/56 (14%)
Query: 7 PPKVQEEVDSSSQSISKK------AAKKEAAKKAKEERRKEAEAAASAASALSIEE 56
P+V +VD + + +K ++E A++ KEE++KE A A LS EE
Sbjct: 254 SPEVLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLA--KLSPEE 307
>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed.
Length = 106
Score = 27.2 bits (61), Expect = 8.7
Identities = 8/25 (32%), Positives = 18/25 (72%)
Query: 24 KAAKKEAAKKAKEERRKEAEAAASA 48
AA+++ ++ +EE ++E+E A+A
Sbjct: 75 AAAEEKKEEEEEEEEKEESEEEAAA 99
>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6. The surfeit locus
protein SURF-6 is shown to be a component of the
nucleolar matrix and has a strong binding capacity for
nucleic acids.
Length = 206
Score = 28.0 bits (63), Expect = 9.2
Identities = 11/44 (25%), Positives = 22/44 (50%)
Query: 14 VDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
S + ++ K+E K K+++RKEA+ A + + E +
Sbjct: 1 PSSREALLEQRRRKREQRKARKKQKRKEAKKKEDAQKSEAEEVK 44
>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated.
Length = 859
Score = 29.0 bits (66), Expect = 9.4
Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 7/57 (12%)
Query: 2 STESEPPKVQE------EVDSSSQSISKKAAKKEAAKKAKEER-RKEAEAAASAASA 51
E+ P V+E E + ++ AK A KKA + RK + ++
Sbjct: 799 GRETRAPTVEEALELLAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKD 855
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
0.317 0.134 0.379
Gapped
Lambda K H
0.267 0.0699 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,875,656
Number of extensions: 2777462
Number of successful extensions: 5001
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4600
Number of HSP's successfully gapped: 213
Length of query: 553
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 451
Effective length of database: 6,413,494
Effective search space: 2892485794
Effective search space used: 2892485794
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 62 (27.7 bits)