RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780419|ref|YP_003064832.1| aspartyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(622 letters)
>gnl|CDD|179042 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 918 bits (2375), Expect = 0.0
Identities = 277/597 (46%), Positives = 385/597 (64%), Gaps = 12/597 (2%)
Query: 2 HRYRTHSCGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPDSACFEI 61
H RTH CG+L S VG V L GWVHR R HGG+IF+D+RD GI QVV +PD+ FE+
Sbjct: 1 HMMRTHYCGELRESHVGQTVTLCGWVHRRRDHGGLIFIDLRDREGIVQVVFDPDAEAFEV 60
Query: 62 AKSVRSEWVLCIDGLVMSRSAETINANIITGQIELSAQKIEILSVAEELPLPVFGEREYP 121
A+S+RSE+V+ + G V +R T+N N+ TG+IE+ A ++E+L+ ++ LP P+ E +
Sbjct: 61 AESLRSEYVIQVTGTVRARPEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDDEEDVS 120
Query: 122 ESIRFKYRFLDLRRDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILTASSPEGARDFL 181
E +R KYR+LDLRR + KN+ R+++ +++R + F+E TPILT S+PEGARD+L
Sbjct: 121 EELRLKYRYLDLRRPEMQKNLKLRSKVTSAIRNFLDDNGFLEIETPILTKSTPEGARDYL 180
Query: 182 VPSRVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEM 241
VPSRV+ G FYALPQ+PQ +KQLLM +GFDRY+QIA CFRDED R+DR P EF Q+D+EM
Sbjct: 181 VPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRDEDLRADRQP-EFTQIDIEM 239
Query: 242 SFVEQDDILNTMENVLRGVFEEFSNGNTVSNNFLRICYDDAIRRYGTDKPDLRNPIIMHN 301
SFV Q+D++ ME ++R VF+E G + F R+ Y +A+RRYG+DKPDLR + + +
Sbjct: 240 SFVTQEDVMALMEGLIRHVFKEVL-GVDLPTPFPRMTYAEAMRRYGSDKPDLRFGLELVD 298
Query: 302 VTEHFVHSEFRVFSKILSVNPGYEVWAIPAKGGGGN--RAFCDRMNEWARSQGQPGLAYI 359
VT+ F S F+VF+ N G V AI GG R D + E+A+ G GLAYI
Sbjct: 299 VTDLFKDSGFKVFAGA--ANDGGRVKAIRVPGGAAQLSRKQIDELTEFAKIYGAKGLAYI 356
Query: 360 FWRLDESGNVAGMGPVAKHLNIVNTEAIRVRLDMQDGDSCFFIAGDPLKFCSFAADARNH 419
D GP+AK L+ A+ R +DGD FF A R
Sbjct: 357 KVNEDGLK-----GPIAKFLSEEELAALLERTGAKDGDLIFFGADKAKVVNDALGALRLK 411
Query: 420 IAQELGIINCNCFEFCWIMDFPFYEWNEEEKKIDFAHNPFTMPQGGM-ESLKGNDLLSIK 478
+ +ELG+I+ + F F W++DFP +E++EEE + AH+PFTMP+ + L+ D +
Sbjct: 412 LGKELGLIDEDKFAFLWVVDFPMFEYDEEEGRWVAAHHPFTMPKDEDLDELETTDPGKAR 471
Query: 479 AFQYDLVCNGFEIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGLYRAFQCGMPPHGG 538
A+ YDLV NG+E+ G IR H E+ + F +GIS+E E +FG L A + G PPHGG
Sbjct: 472 AYAYDLVLNGYELGGGSIRIHRPEIQEKVFEILGISEEEAEEKFGFLLDALKYGAPPHGG 531
Query: 539 IAAGIDRIVMLLLGAKNVREVSLFPMSQNFCDLLMGSPSTVSVEQLRELGLRIVENP 595
IA G+DR+VMLL GA ++R+V FP +Q+ DLL G+PS V +QLRELG+R+ +
Sbjct: 532 IAFGLDRLVMLLAGADSIRDVIAFPKTQSAQDLLTGAPSPVDEKQLRELGIRLRKKE 588
>gnl|CDD|129551 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type. 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.
Length = 583
Score = 534 bits (1378), Expect = e-152
Identities = 245/596 (41%), Positives = 358/596 (60%), Gaps = 17/596 (2%)
Query: 5 RTHSCGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPDSACFEIAKS 64
RTH CG L +G V L+GWV+R R GG+IF+D+RD GI QVV +PD+ ++AK
Sbjct: 2 RTHYCGQLRTEHLGQTVTLAGWVNRRRDLGGLIFIDLRDRSGIVQVVCDPDADALKLAKG 61
Query: 65 VRSEWVLCIDGLVMSRSAETINANIITGQIELSAQKIEILSVAEELPLPVFGEREYPESI 124
+R+E V+ + G V +R IN N+ TG+IE+ A+ I +L+ ++ PL + + + E +
Sbjct: 62 LRNEDVVQVKGKVSARPEGNINRNLDTGEIEILAESITLLNKSKTPPL-IIEKTDAEEEV 120
Query: 125 RFKYRFLDLRRDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILTASSPEGARDFLVPS 184
R KYR+LDLRR + + + R ++ ++R + + F+E TP+LT S+PEGARD+LVPS
Sbjct: 121 RLKYRYLDLRRPEMQQRLKLRHKVTKAVRNFLDQQGFLEIETPMLTKSTPEGARDYLVPS 180
Query: 185 RVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFV 244
RV++G FYALPQ+PQ +KQLLM SG DRY+QIA CFRDED R+DR P EF Q+DMEMSF+
Sbjct: 181 RVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCFRDEDLRADRQP-EFTQIDMEMSFM 239
Query: 245 EQDDILNTMENVLRGVFEEFSNGNTVSNNFLRICYDDAIRRYGTDKPDLRNPIIMHNVTE 304
Q+D++ +E ++ VF E G + F + Y +A+ RYG+DKPDLR P+ + +VT+
Sbjct: 240 TQEDVMELIEKLVSHVFLEVK-GIDLKKPFPVMTYAEAMERYGSDKPDLRFPLELIDVTD 298
Query: 305 HFVHSEFRVFSKILSVNPGYEVWAIPAKGGGG--NRAFCDRMNEWARSQGQPGLAYIFWR 362
F SEF+VFS + +N G V AI GG +R + ++A+ G GLAY+
Sbjct: 299 LFKDSEFKVFSNL--INDGGRVKAIRVPGGWAELSRKSIKELRKFAKEYGAKGLAYLKVN 356
Query: 363 LDESGNVAGMGPVAKHLNIVNTEAIRVRLDMQDGDSCFFIAGDPLKFCSFAADARNHIAQ 422
D P+ K L+ + + R D Q+GD F AG R + +
Sbjct: 357 EDGI-----NSPIKKFLDEKKGKILLERTDAQNGDILLFGAGSKKIVLDALGALRLKLGK 411
Query: 423 ELGIINCNCFEFCWIMDFPFYEWNEEEKKIDFAHNPFTMPQG-GMESLKGNDLLSIKAFQ 481
+LG+++ + F F W++DFP +E ++E + AH+PFTMP+ +E+L+ A
Sbjct: 412 DLGLVDPDLFSFLWVVDFPMFEKDKEGRLCA-AHHPFTMPKDEDLENLE-AAPEEALAEA 469
Query: 482 YDLVCNGFEIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGLYRAFQCGMPPHGGIAA 541
YDLV NG E+ G IR H EV + F +GI E +FG L AF+ G PPH G A
Sbjct: 470 YDLVLNGVELGGGSIRIHDPEVQKKVFEILGIDPEEAREKFGFLLEAFKYGTPPHAGFAL 529
Query: 542 GIDRIVMLLLGAKNVREVSLFPMSQNFCDLLMGSPSTVSVEQLRELGLRIVENPKK 597
G+DR++MLL G N+R+V FP + L+ +PS + +QL EL ++ KK
Sbjct: 530 GLDRLMMLLTGTDNIRDVIAFPKTTAAACLMTEAPSFIDEKQLEELSIK--YVVKK 583
>gnl|CDD|178491 PLN02903, PLN02903, aminoacyl-tRNA ligase.
Length = 652
Score = 522 bits (1346), Expect = e-148
Identities = 248/607 (40%), Positives = 357/607 (58%), Gaps = 28/607 (4%)
Query: 5 RTHSCGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPDSA--CFEIA 62
R+H CG L V+DVGS V L GWV R GG+ FLD+RDH GI QVV PD A
Sbjct: 59 RSHLCGALSVNDVGSRVTLCGWVDLHRDMGGLTFLDVRDHTGIVQVVTLPDEFPEAHRTA 118
Query: 63 KSVRSEWVLCIDGLVMSRSAETINANIITGQIELSAQKIEIL-SVAEELPLPVFG---ER 118
+R+E+V+ ++G V SR E+ N + TG +E+ A+ ++IL V + LP V ++
Sbjct: 119 NRLRNEYVVAVEGTVRSRPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVTTADEQK 178
Query: 119 EYP-ESIRFKYRFLDLRRDTLHKNIVKRTRIINSMRCRM-IAENFIECSTPILTASSPEG 176
+ E +R +YR LDLRR ++ N+ R R++ +R + F+E TPIL+ S+PEG
Sbjct: 179 DSIKEEVRLRYRVLDLRRPQMNANLRLRHRVVKLIRRYLEDVHGFVEIETPILSRSTPEG 238
Query: 177 ARDFLVPSRVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQ 236
ARD+LVPSRV G+FYALPQ+PQ +KQ+LM SGFDRY+QIA CFRDED R+DR P EF Q
Sbjct: 239 ARDYLVPSRVQPGTFYALPQSPQLFKQMLMVSGFDRYYQIARCFRDEDLRADRQP-EFTQ 297
Query: 237 LDMEMSFVEQDDILNTMENVLRGVFEEFSNGNTVSNNFLRICYDDAIRRYGTDKPDLRNP 296
LDME++F +D+L E+++R VF+E G + N F R+ Y +A+ +YG+DKPDLR
Sbjct: 298 LDMELAFTPLEDMLKLNEDLIRQVFKEIK-GVQLPNPFPRLTYAEAMSKYGSDKPDLRYG 356
Query: 297 IIMHNVTEHFVHSEFRVFSKILSVNPGYEVWAIPAKGGG---GNRAF--CDRMNEWARSQ 351
+ + +V++ F S F+VF+ ++ G V AI G N A D NE +S
Sbjct: 357 LELVDVSDVFAESSFKVFAG--ALESGGVVKAICVPDGKKISNNTALKKGDIYNEAIKS- 413
Query: 352 GQPGLAYIFWRLDESGNVAGMGPVAKHLNIVNTEAIRVRLDMQDGDSCFFIAGDPLKFCS 411
G GLA++ ++ + G + G+ + + L+ E + GD F AG P +
Sbjct: 414 GAKGLAFL--KVLDDGELEGIKALVESLSPEQAEQLLAACGAGPGDLILFAAG-PTSSVN 470
Query: 412 FAADA-RNHIAQELGIINCNCFEFCWIMDFPFYEWNEEEKKIDFAHNPFTMP-QGGMESL 469
D R IA+ L +I+ + W+ DFP +EWNE+E++++ H+PFT P M
Sbjct: 471 KTLDRLRQFIAKTLDLIDPSRHSILWVTDFPMFEWNEDEQRLEALHHPFTAPNPEDMG-- 528
Query: 470 KGNDLLSIKAFQYDLVCNGFEIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGLYRAF 529
DL S +A YD+V NG EI G +R + +V + +G+S E E++FG L A
Sbjct: 529 ---DLSSARALAYDMVYNGVEIGGGSLRIYRRDVQQKVLEAIGLSPEEAESKFGYLLEAL 585
Query: 530 QCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFPMSQNFCDLLMGSPSTVSVEQLRELGL 589
G PPHGGIA G+DR+VMLL GAK++R+V FP + L +PS V +QL++L +
Sbjct: 586 DMGAPPHGGIAYGLDRLVMLLAGAKSIRDVIAFPKTTTAQCALTRAPSEVDDKQLQDLSI 645
Query: 590 RIVENPK 596
P
Sbjct: 646 ASTAPPP 652
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 416 bits (1070), Expect = e-116
Identities = 226/604 (37%), Positives = 343/604 (56%), Gaps = 37/604 (6%)
Query: 9 CGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPDSA---CFEIAKSV 65
CG L + D G V L+GWV R HG ++F+ +RD G Q V +P++A +E+A S+
Sbjct: 9 CGHLSLDDTGREVCLAGWVDAFRDHGELLFIHLRDRNGFIQAVFSPEAAPADVYELAASL 68
Query: 66 RSEWVLCIDGLVMSRSAETINANIITGQIELSAQKIEILSVAEELPLPVF---------- 115
R+E+ + + G V R ET N +I TG IE+ +++ IL+ +E LP +
Sbjct: 69 RAEFCVALQGEVQKRLEETENPHIETGDIEVFVRELSILAASEALPFAISDKAMTAGAGS 128
Query: 116 -GEREYPESIRFKYRFLDLRRDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILTASSP 174
G E +R +YR+LD+RR + ++ KR RII R + + F+E TPILT S+P
Sbjct: 129 AGADAVNEDLRLQYRYLDIRRPAMQDHLAKRHRIIKCARDFLDSRGFLEIETPILTKSTP 188
Query: 175 EGARDFLVPSRVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEF 234
EGARD+LVPSR++ FYALPQ+PQ +KQLLM +GF+RYFQ+A CFRDED R +R P EF
Sbjct: 189 EGARDYLVPSRIHPKEFYALPQSPQLFKQLLMIAGFERYFQLARCFRDEDLRPNRQP-EF 247
Query: 235 YQLDMEMSFVEQDDILNTMENVLRGVFEEFSNGNTVSNNFLRICYDDAIRRYGTDKPDLR 294
QLD+E SF++++ I +E + +F G + F R+ Y +A+ G+D+PDLR
Sbjct: 248 TQLDIEASFIDEEFIFELIEELTARMFA--IGGIALPRPFPRMPYAEAMDTTGSDRPDLR 305
Query: 295 NPIIMHNVTEHFVHSEFRVFSKILSVNPGYEVWAIPAKGGGGNRAFCDRMNEWAR----S 350
+ + T+ F ++ + +F +IL G + I KG + NE+A+ S
Sbjct: 306 FDLKFADATDIFENTRYGIFKQIL--QRGGRIKGINIKGQSEKLSKNVLQNEYAKEIAPS 363
Query: 351 QGQPGLAYIFWRLDESGNVAGMGPVAKHLNIVNTEAIRVRLDMQDGDSCFFIAGDPLKFC 410
G G+ W E+G + + + + EA++ R +DGD IA D C
Sbjct: 364 FGAKGMT---WMRAEAGGLD--SNIVQFFSADEKEALKRRFHAEDGDVIIMIA-DA--SC 415
Query: 411 SFAADA----RNHIAQELGIINCNCFEFCWIMDFPFYEWNEEEKKIDFAHNPFTMP-QGG 465
+ A R H+A LG+I F WI DFP +E ++ + +H+PFT P +
Sbjct: 416 AIVLSALGQLRLHLADRLGLIPEGVFHPLWITDFPLFE-ATDDGGVTSSHHPFTAPDRED 474
Query: 466 MESLKGNDLLSIKAFQYDLVCNGFEIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGL 525
+ +LL +++ YDLV NG E+ G IR + ++ L+ F+ +G+S+E +E++FG
Sbjct: 475 FDPGDIEELLDLRSRAYDLVVNGEELGGGSIRINDKDIQLRIFAALGLSEEDIEDKFGFF 534
Query: 526 YRAFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFPMSQNFCDLLMGSPSTVSVEQLR 585
RAF PPHGGIA G+DR+V ++L ++REV FP +++ L G+PS V+ EQL
Sbjct: 535 LRAFDFAAPPHGGIALGLDRVVSMILQTPSIREVIAFPKNRSAACPLTGAPSEVAQEQLA 594
Query: 586 ELGL 589
ELGL
Sbjct: 595 ELGL 598
>gnl|CDD|179948 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 176 bits (449), Expect = 2e-44
Identities = 102/306 (33%), Positives = 153/306 (50%), Gaps = 41/306 (13%)
Query: 4 YRTHSCGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVA--NPDSACFEI 61
+ H +L G V L+GWVH +R GGI FL +RD GI QVV D FE
Sbjct: 2 MKRHLTSELTPELDGEEVTLAGWVHEIRDLGGIAFLILRDRSGIIQVVVKKKVDEELFET 61
Query: 62 AKSVRSEWVLCIDGLVMSRSAETINANIIT-GQIELSAQKIEILSVAEE-LPLPVFGERE 119
K ++ E V+ + G T+ AN G +E+ ++IE+L+ AEE LPL + G+
Sbjct: 62 IKKLKRESVVSVTG--------TVKANPKAPGGVEVIPEEIEVLNKAEEPLPLDISGKVL 113
Query: 120 YPESIRFKYRFLDLRRDTLHKNIVK-RTRIINSMRCRMIAENFIECSTPILTASSPE-GA 177
R RFLDLRR + + I K R+ ++ + R + F E TP + AS E GA
Sbjct: 114 AELDTRLDNRFLDLRRPRV-RAIFKIRSEVLRAFREFLYENGFTEIFTPKIVASGTEGGA 172
Query: 178 RDFLVPSRVNQGSFY----A-LPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPG 232
F + Y A L Q+PQ YKQ+++ +GF+R F+I P FR E+ + R
Sbjct: 173 ELFPID--------YFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNTSRHLN 224
Query: 233 EFYQLDMEMSFVEQD-DILNTMENVLRGVFEEFSNGN------------TVSNNFLRICY 279
E+ +D+EM F++ D+++ +EN+LR ++E+ + RI Y
Sbjct: 225 EYTSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIELPVPETPIPRITY 284
Query: 280 DDAIRR 285
D+AI
Sbjct: 285 DEAIEI 290
Score = 93.7 bits (234), Expect = 1e-19
Identities = 53/158 (33%), Positives = 75/158 (47%), Gaps = 30/158 (18%)
Query: 421 AQELGIINCNCFEFCWIMDFP------FYEWNEEEKKIDF--------AHNPF-TMPQGG 465
A E I+ E W D E+ +EE DF PF TMP
Sbjct: 287 AIE--ILKSKGNEISWGDDLDTEGERLLGEYVKEEYGSDFYFITDYPSEKRPFYTMPD-- 342
Query: 466 MESLKGNDLLSIKAFQYDLVCNGFEIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGL 525
+ + +S K+F DL+ G EI SGG R H ++++++ G++ E F
Sbjct: 343 ----EDDPEIS-KSF--DLLFRGLEITSGGQRIHRYDMLVESIKEKGLNPE----SFEFY 391
Query: 526 YRAFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
AF+ GMPPHGG G++R+ M LLG +N+RE LFP
Sbjct: 392 LEAFKYGMPPHGGFGLGLERLTMKLLGLENIREAVLFP 429
>gnl|CDD|129550 TIGR00458, aspS_arch, aspartyl-tRNA synthetase, archaeal type. 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).
Length = 428
Score = 159 bits (405), Expect = 1e-39
Identities = 95/295 (32%), Positives = 148/295 (50%), Gaps = 30/295 (10%)
Query: 18 GSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPDSA---CFEIAKSVRSEWVLCID 74
G V GWVH +R GG+IF+ +RD G+ Q+ A F+ AK + E V+ +
Sbjct: 12 GQEVTFMGWVHEIRDLGGLIFVLLRDREGLIQITAPAKKVSKNLFKWAKKLNLESVVAVR 71
Query: 75 GLVMSRSAETINANIITGQIELSAQKIEILSVAEELPLPVFGEREYPESI--RFKYRFLD 132
G+V + G E+ KIE+++ A+E PLP+ + P + R YRFLD
Sbjct: 72 GIVKIKEKAP-------GGFEIIPTKIEVINEAKE-PLPLDPTEKVPAELDTRLDYRFLD 123
Query: 133 LRRDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILTASSPEGARDFLVPSRVNQGSFY 192
LRR T+ R+ ++ S+R + E FIE TP L AS+ EG + + + +F
Sbjct: 124 LRRPTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPITYFEREAF- 182
Query: 193 ALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNT 252
L Q+PQ YKQ LMA+GF+R ++I P FR E+ + R E +D+EM+F + D+++
Sbjct: 183 -LGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFEDHHDVMDI 241
Query: 253 MENVLRGVFEEFSNGNT------------VSNNFLRICYDDAI---RRYGTDKPD 292
+E ++ VFE+ F+R+ YD+AI G +
Sbjct: 242 LEELVVRVFEDVPERCAHQLETLEFKLEKPEGKFVRLTYDEAIEMANAKGVEIGW 296
Score = 69.9 bits (171), Expect = 2e-12
Identities = 33/82 (40%), Positives = 46/82 (56%), Gaps = 4/82 (4%)
Query: 482 YDLVCNGFEIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGLYRAFQCGMPPHGGIAA 541
+DL+ EI+SG R H+ +++++ G++ E F AF GMPPH G
Sbjct: 343 FDLMYRDLEISSGAQRIHLHDLLVERIKAKGLNPE----GFKDYLEAFSYGMPPHAGWGL 398
Query: 542 GIDRIVMLLLGAKNVREVSLFP 563
G +R VM LLG KN+RE LFP
Sbjct: 399 GAERFVMFLLGLKNIREAVLFP 420
>gnl|CDD|161887 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.
Length = 453
Score = 113 bits (284), Expect = 2e-25
Identities = 76/298 (25%), Positives = 119/298 (39%), Gaps = 39/298 (13%)
Query: 17 VGSFVRLSGWVHRVRPHGGIIFLDIRD--HYGITQVVAN--PDSACFEIAKSVRSEWVLC 72
VG V +SGWV R IIFL++ D G Q V N + F++ KS+ + +
Sbjct: 15 VGDEVTVSGWVRTKRSSKKIIFLELNDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVS 74
Query: 73 IDGLVMSRSAETINANIITGQIELSAQKIEILSVAEELPLPVFGEREYPESIRFKYRFLD 132
+ G V E+ +EL +KIE++ AE P+ + E +R L
Sbjct: 75 VTGKV----VESPGK---GQPVELQVKKIEVVGEAEPDDYPLQKKEHSLEFLR-DIAHLR 126
Query: 133 LRRDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILTASSPEGARDFLVPSRVN---QG 189
LR +TL + R + ++ F S PILT++ EGA + S
Sbjct: 127 LRTNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPILTSNDCEGAGELFRVSTDGIDFSQ 186
Query: 190 SFYALPQAPQQYKQL---LMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQ 246
F+ QL A + + P FR E + R EF+ ++ EM+F
Sbjct: 187 DFFGKEAYLTVSGQLYLETYALALSKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFANL 246
Query: 247 DDILNTMENVLRGVF---------------EEFSNG------NTVSNNFLRICYDDAI 283
+D+L E +++ + + F N ++N F RI Y DAI
Sbjct: 247 NDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLENIINNKFARITYTDAI 304
Score = 38.9 bits (91), Expect = 0.004
Identities = 18/81 (22%), Positives = 35/81 (43%), Gaps = 4/81 (4%)
Query: 490 EIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGLYRAFQCGMPPHGGIAAGIDRIVML 549
EI G R + + +G+ + + N + L + G PH G G +R++
Sbjct: 376 EIIGGSEREDDLDKLENRMKEMGLDTDAL-NWYLDLRKY---GSVPHSGFGLGFERLLAY 431
Query: 550 LLGAKNVREVSLFPMSQNFCD 570
+ G +N+R+ FP + +
Sbjct: 432 ITGLENIRDAIPFPRTPGNIN 452
>gnl|CDD|179678 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
Length = 450
Score = 95.2 bits (238), Expect = 5e-20
Identities = 80/308 (25%), Positives = 121/308 (39%), Gaps = 62/308 (20%)
Query: 17 VGSFVRLSGWVHRVRPHGGIIFLDIRDHYGIT--QVVANPDSACFEIAKSVRSEWVLCID 74
VG V + GWV R G I FL +RD QVV + FE K + + + +
Sbjct: 15 VGQEVTVRGWVRTKRDSGKIAFLQLRDGSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVT 74
Query: 75 GLVMSRSAETINANIITGQIELSAQKIEILSVAEELPLPVFGEREYPESIRFKYRFLDLR 134
G V E+ A EL A KIE++ E +YP I+ K ++
Sbjct: 75 GTV----VESPRAG---QGYELQATKIEVIGEDPE---------DYP--IQKKRHSIEFL 116
Query: 135 RDTLHKNIVKRTRIINS-MRCRMIA----------ENFIECSTPILTASSPEGARD-FLV 182
R+ H RT + MR R F+ TPI+TAS EGA + F V
Sbjct: 117 REIAHLRP--RTNKFGAVMRIRNTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFRV 174
Query: 183 PSRVNQGS--FYA----LPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQ 236
+ S F+ L + Q Y + A + + P FR E+ + R EF+
Sbjct: 175 TTLDLDFSKDFFGKEAYLTVSGQLYAE-AYAMALGKVYTFGPTFRAENSNTRRHLAEFWM 233
Query: 237 LDMEMSFVEQDDILNTMENVLRGV--------------FEEFSNG-------NTVSNNFL 275
++ EM+F + +D ++ E +L+ V + N + + F
Sbjct: 234 IEPEMAFADLEDNMDLAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDIERLENFIESPFP 293
Query: 276 RICYDDAI 283
RI Y +AI
Sbjct: 294 RITYTEAI 301
Score = 37.4 bits (88), Expect = 0.010
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 535 PHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
PH G G +R+V + G N+R+V FP
Sbjct: 414 PHSGFGLGFERLVAYITGLDNIRDVIPFP 442
>gnl|CDD|178442 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 93.2 bits (232), Expect = 2e-19
Identities = 76/279 (27%), Positives = 117/279 (41%), Gaps = 33/279 (11%)
Query: 10 GDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPD-----SACFEIAKS 64
DLG GS V + G VH +R G FL +R Q V + AK
Sbjct: 73 SDLGEELAGSEVLIRGRVHTIRGKGKSAFLVLRQSGFTVQCVVFVSEVTVSKGMVKYAKQ 132
Query: 65 VRSEWVLCIDGLVMSRSAETINANIITGQIELSAQKIEILSVA-EELPLPV--------- 114
+ E V+ ++G+V T Q+E+ +KI +S A LP V
Sbjct: 133 LSRESVVDVEGVVSVPKKPVKGT---TQQVEIQVRKIYCVSKALATLPFNVEDAARSESE 189
Query: 115 -----FGEREYP---ESIRFKYRFLDLRRDTLHKNIVKR--TRIINSMRCRMIAENFIEC 164
+ + R R LDLR T + R +++ N R ++++ F+E
Sbjct: 190 IEKALQTGEQLVRVGQDTRLNNRVLDLR--TPANQAIFRIQSQVCNLFREFLLSKGFVEI 247
Query: 165 STPILTASSPEGARDFLVPSRVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDED 224
TP L A + EG Q + L Q+PQ +KQ+ + F R F+I P FR ED
Sbjct: 248 HTPKLIAGASEGGSAVFRLDYKGQPA--CLAQSPQLHKQMAICGDFRRVFEIGPVFRAED 305
Query: 225 PRSDRLPGEFYQLDMEMSFVEQ-DDILNTMENVLRGVFE 262
+ R EF LD+EM E ++L+ ++ + +F+
Sbjct: 306 SFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFD 344
Score = 64.0 bits (156), Expect = 1e-10
Identities = 31/83 (37%), Positives = 45/83 (54%), Gaps = 6/83 (7%)
Query: 482 YDLVCNGFEIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGLY-RAFQCGMPPHGGIA 540
+D+ G EI SG R H E++ + GI + + Y +F+ G PPHGG
Sbjct: 445 FDVFIRGEEIISGAQRVHDPELLEKRAEECGIDVKTIST-----YIDSFRYGAPPHGGFG 499
Query: 541 AGIDRIVMLLLGAKNVREVSLFP 563
G++R+VML G N+R+ SLFP
Sbjct: 500 VGLERVVMLFCGLNNIRKTSLFP 522
>gnl|CDD|129590 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.
Length = 496
Score = 81.3 bits (201), Expect = 8e-16
Identities = 67/304 (22%), Positives = 128/304 (42%), Gaps = 39/304 (12%)
Query: 9 CGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPDSACFEIAKSVRSE 68
+ + D V ++G + R G F+ ++D G Q+ N D + +
Sbjct: 44 LSNEELEDKNIEVSIAGRIMARRSMGKATFITLQDESGQIQLYVNKDDLPEDFYEFDEYL 103
Query: 69 W----VLCIDGLVMSRSAETINANIITGQIELSAQKIEIL-SVAEELPLPVFGEREYPES 123
++ + G TG++ + +++IL LP G + E+
Sbjct: 104 LDLGDIIGVTGYPFKTK---------TGELSVHVTELQILTKALRPLPDKFHGLTD-QET 153
Query: 124 IRFKYRFLDL-----RRDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILTASSPEG-- 176
R++ R+LDL R T + R++II ++R + FIE TP+L P G
Sbjct: 154 -RYRQRYLDLIVNPDSRQTF----LVRSKIIKAIRRFLDDRGFIEVETPMLQ-VIPGGAN 207
Query: 177 ARDFLVPSRVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQ 236
AR F+ Y L AP+ Y + L+ GF++ ++I FR+E + P EF
Sbjct: 208 ARPFITHHNALDMDLY-LRIAPELYLKRLIVGGFEKVYEIGRNFRNEGVDTTHNP-EFTM 265
Query: 237 LDMEMSFVEQDDILNTMENVLRGVFEEFS-----NGNTVSNNFL----RICYDDAIRRYG 287
++ ++ + +D+++ EN+ + + +E + +F RI +AI++Y
Sbjct: 266 IEFYQAYADYEDLMDLTENLFKFLAQELLGTTKITYGELEIDFKKPFKRITMVEAIKKYD 325
Query: 288 TDKP 291
+
Sbjct: 326 METG 329
Score = 52.4 bits (126), Expect = 4e-07
Identities = 21/36 (58%), Positives = 28/36 (77%)
Query: 528 AFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
A + GMPP GG+ GIDR+VMLL +K++R+V LFP
Sbjct: 455 ALEYGMPPTGGLGIGIDRLVMLLTDSKSIRDVILFP 490
>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional.
Length = 659
Score = 72.4 bits (177), Expect = 3e-13
Identities = 82/355 (23%), Positives = 159/355 (44%), Gaps = 51/355 (14%)
Query: 3 RYRTHSCGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVAN-PDSACFEI 61
RY + GD + VR++G V VR G IIF+ IR + QVV + E
Sbjct: 95 RYGYLASGDRAAQ---ATVRVAGRVTSVRDIGKIIFVTIRSNGNELQVVGQVGEHFTRED 151
Query: 62 AKSVRSEWVLCIDGLVMSRSAETINANIITGQIELSAQKIEILS---VAEELPLPVFGER 118
K ++ L + ++ A+ + + G++ ++A ++ ILS +++ P R
Sbjct: 152 LKKLKVS--LRVGDII---GADGVPCRMQRGELSVAASRMLILSPYVCTDQVVCPNL--R 204
Query: 119 EYPE----SIRFKYRFLDLRRD-TLHKNIVKRTRIINSMRCRMIAENFIECSTPIL-TAS 172
+ ++++YRF D+ + + + I KR ++ ++R NF+E TP+L T +
Sbjct: 205 GFTVLQDNDVKYRYRFTDMMTNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLHTVA 264
Query: 173 SPEGARDFLVPSRVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPG 232
S A+ F+ N + L AP+ + + + G +R ++I FR+ED P
Sbjct: 265 SGANAKSFVTHHNANAMDLF-LRVAPELHLKQCIVGGMERIYEIGKVFRNEDADRSHNP- 322
Query: 233 EFYQLDMEMSFVEQDDILNTMENVLR------------GVFEEFSNGNTVS----NNFLR 276
EF + ++ +D++ E++ R ++ E ++GN V+ F R
Sbjct: 323 EFTSCEFYAAYHTYEDLMPMTEDIFRQLAMRVNGTTVVQIYPENAHGNPVTVDLGKPFRR 382
Query: 277 I-CYDDAIRRYGTDKP---DLRNP---------IIMHNVTEHFVHSEFRVFSKIL 318
+ YD+ R G + P +L P ++ +N+ V + ++F K++
Sbjct: 383 VSVYDEIQRMSGVEFPPPNELNTPKGIAYMSVVMLRYNIPLPPVRTAAKMFEKLI 437
Score = 45.0 bits (106), Expect = 6e-05
Identities = 16/38 (42%), Positives = 25/38 (65%)
Query: 527 RAFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFPM 564
++ Q G+PP G GIDR +MLL + N+R+ +FP+
Sbjct: 524 KSLQVGLPPTAGWGMGIDRALMLLTNSSNIRDGIIFPL 561
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 72.3 bits (177), Expect = 4e-13
Identities = 49/186 (26%), Positives = 84/186 (45%), Gaps = 12/186 (6%)
Query: 93 QIELSAQKIEILSVA-EELP--LPVFGEREYPESI------RFKYRFLDLRRDTLHKNIV 143
IEL +KI ++ + LP L +E E R R++DLR
Sbjct: 155 DIELKVKKIHTVTESLRTLPFTLEDASRKESDEGAKVNFDTRLNSRWMDLRTPASGAIFR 214
Query: 144 KRTRIINSMRCRMIAENFIECSTPILTASSPEGARDFLVPSRVNQGSFYALPQAPQQYKQ 203
++R+ R +I +F E +P + + EG + N+ ++ L Q+PQ YKQ
Sbjct: 215 LQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKLEYFNRFAY--LAQSPQLYKQ 272
Query: 204 LLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQ-DDILNTMENVLRGVFE 262
+++ R F++ P FR E+ + R EF LD+EM E ++L+ E++ +FE
Sbjct: 273 MVLQGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFNYIFE 332
Query: 263 EFSNGN 268
+
Sbjct: 333 RLATHT 338
Score = 62.7 bits (152), Expect = 3e-10
Identities = 33/86 (38%), Positives = 46/86 (53%), Gaps = 12/86 (13%)
Query: 482 YDLVCNGFEIASGGIRNHMSEVMLQAFSNVGIS----KEVVENRFGGLYRAFQCGMPPHG 537
YD+ G EI+SG R H +++L + + KE V+ +F+ G PHG
Sbjct: 465 YDMFIRGEEISSGAQRIHDPDLLLARAKMLNVDLTPIKEYVD--------SFRLGAWPHG 516
Query: 538 GIAAGIDRIVMLLLGAKNVREVSLFP 563
G G++R+VML LG NVR SLFP
Sbjct: 517 GFGVGLERVVMLYLGLSNVRLASLFP 542
>gnl|CDD|179519 PRK02983, lysS, lysyl-tRNA synthetase; Provisional.
Length = 1094
Score = 71.1 bits (175), Expect = 7e-13
Identities = 58/235 (24%), Positives = 110/235 (46%), Gaps = 37/235 (15%)
Query: 5 RTHSCGDLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANPDSACFEIAKS 64
TH+ + + G V +SG V R+R +GG++F D+RD G QV+ + + +
Sbjct: 638 PTHTVAEALDAPTGEEVSVSGRVLRIRDYGGVLFADLRDWSGELQVLLDAS----RLEQG 693
Query: 65 VRSEWVLCID-GLVMSRSAETINANIITGQIELSAQKIEILSVAEEL-PLPV----FGER 118
+++ +D G ++ + + G + L + + L PLP +
Sbjct: 694 SLADFRAAVDLGDLVEVTGTMGTSR--NGTLSLLVTSWRLA--GKCLRPLPDKWKGLTD- 748
Query: 119 EYPESIRFKYRFLDLRRDTLHKNIV-KRTRIINSMRCRMIAENFIECSTPILT-----AS 172
PE+ R + R+LDL + ++++ R+ ++ ++R ++A F+E TPIL A+
Sbjct: 749 --PEA-RVRQRYLDLAVNPEARDLLRARSAVVRAVRETLVARGFLEVETPILQQVHGGAN 805
Query: 173 SPEGARDFLVPSRVNQGSFYALPQ----APQQYKQLLMASGFDRYFQIAPCFRDE 223
AR F+ + +N Y + AP+ Y + L G +R F++ FR+E
Sbjct: 806 ----ARPFV--THINA---YDMDLYLRIAPELYLKRLCVGGVERVFELGRNFRNE 851
Score = 51.1 bits (123), Expect = 9e-07
Identities = 18/38 (47%), Positives = 26/38 (68%), Gaps = 1/38 (2%)
Query: 527 RAFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFPM 564
+A + MPP GG+ G+DR+VMLL G ++RE FP+
Sbjct: 1053 QALEYAMPPTGGLGMGVDRLVMLLTGR-SIRETLPFPL 1089
>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed.
Length = 505
Score = 71.2 bits (174), Expect = 8e-13
Identities = 60/219 (27%), Positives = 107/219 (48%), Gaps = 18/219 (8%)
Query: 91 TGQIELSAQKIEILSVAEELPLPVFGEREYPESIRFKYRFLDL-RRDTLHKNIVKRTRII 149
TG++ + ++ +L+ A PLP + +R++ R+LDL D + V R++I+
Sbjct: 133 TGELSIHCTELRLLTKALR-PLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSKIL 191
Query: 150 NSMRCRMIAENFIECSTPILTASSPEGA--RDFLVPSRVNQGSFYALPQAPQQYKQLLMA 207
++R M+A F+E TP++ P GA R F+ Y L AP+ Y + L+
Sbjct: 192 AAIRQFMVARGFMEVETPMMQVI-PGGASARPFITHHNALDLDMY-LRIAPELYLKRLVV 249
Query: 208 SGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVLRGVFEEFSNG 267
GF+R F+I FR+E P EF +++ M++ + D++ E++ R + +E
Sbjct: 250 GGFERVFEINRNFRNEGISVRHNP-EFTMMELYMAYADYHDLIELTESLFRTLAQEVLGT 308
Query: 268 NTVS---------NNFLRICYDDAIRRY--GTDKPDLRN 295
V+ F ++ +AI++Y TD DL N
Sbjct: 309 TKVTYGEHVFDFGKPFEKLTMREAIKKYRPETDMADLDN 347
Score = 42.7 bits (100), Expect = 3e-04
Identities = 16/36 (44%), Positives = 24/36 (66%)
Query: 528 AFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
A + G+PP G+ GIDR++ML + +R+V LFP
Sbjct: 464 ALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVILFP 499
>gnl|CDD|179044 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 67.0 bits (165), Expect = 1e-11
Identities = 78/326 (23%), Positives = 145/326 (44%), Gaps = 74/326 (22%)
Query: 5 RTHSCGDL----------GVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVVANP 54
RTH+ +L + ++ V ++G V R G F ++D G Q+ +
Sbjct: 31 RTHTAAELRAKYDDKEKEELEELEIEVSVAGRVMLKRVMGKASFATLQDGSGRIQLYVSK 90
Query: 55 DSAC---FEIAKSV-RSEWVLCIDGLVM-SRSAETINANIITGQIELSAQKIEILSVAEE 109
D E K + + + ++G + ++ TG++ + A ++ +L+ +
Sbjct: 91 DDVGEEALEAFKKLDLGDIIG-VEGTLFKTK----------TGELSVKATELTLLTKS-- 137
Query: 110 L-PLPV--FGEREYPESIRFKYRFLDL-----RRDTLHKNIVKRTRIINSMRCRMIAENF 161
L PLP G + E R++ R++DL R+T KR++II+++R + F
Sbjct: 138 LRPLPDKFHGLTD-VE-TRYRQRYVDLIVNPESRET----FRKRSKIISAIRRFLDNRGF 191
Query: 162 IECSTPILTASSPEG--ARDFLVPSRVNQGSFYALPQ------APQQY-KQLLMASGFDR 212
+E TP+L G AR F+ + N AL AP+ Y K+L++ GF+R
Sbjct: 192 LEVETPML-QPIAGGAAARPFI--THHN-----ALDIDLYLRIAPELYLKRLIVG-GFER 242
Query: 213 YFQIAPCFRDE--DPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVLRGVFEEFSNGNTV 270
++I FR+E D R + P EF L+ ++ + +D+++ E ++R + + V
Sbjct: 243 VYEIGRNFRNEGIDTRHN--P-EFTMLEFYQAYADYNDMMDLTEELIRHLAQAVLGTTKV 299
Query: 271 SNN---------FLRICYDDAIRRYG 287
+ F R+ DAI+ Y
Sbjct: 300 TYQGTEIDFGPPFKRLTMVDAIKEYT 325
Score = 55.5 bits (135), Expect = 4e-08
Identities = 21/38 (55%), Positives = 29/38 (76%)
Query: 527 RAFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFPM 564
RA + GMPP GG+ GIDR+VMLL + ++R+V LFP+
Sbjct: 449 RALEYGMPPTGGLGIGIDRLVMLLTDSPSIRDVILFPL 486
>gnl|CDD|180575 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 62.7 bits (153), Expect = 3e-10
Identities = 48/220 (21%), Positives = 87/220 (39%), Gaps = 37/220 (16%)
Query: 145 RTRIINSMRCRMIAENFIECSTPILTASSPEGARDFL-----VPSRVNQGSFYALPQAPQ 199
++ I+ R + F+E PI++ S+ S G Y L +
Sbjct: 33 QSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVEYYLADSMI 92
Query: 200 QYKQLLMASGFDRYFQIAPCFRDE--DPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVL 257
+KQL + + F ++P FR E D + R EF QLD+E+ + D++++ +E+++
Sbjct: 93 LHKQLALRM-LGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLDEVMDLIEDLI 151
Query: 258 RGVFEEFSNGNTVSNNFLRICYDDAIRRYGTDKPDLRNPIIMHNVTE--HFVHSEFRVFS 315
+ + +E L ++D + +G D P L+ P E ++ E
Sbjct: 152 KYLVKE-----------LLEEHEDELEFFGRDLPHLKRPFKRITHKEAVEILNEEGCRGI 200
Query: 316 KILSVNPGYE----------VWA--IPAKGGGGNRAFCDR 343
+ + E W IP G+R F DR
Sbjct: 201 DLEELGSEGEKSLSEHFEEPFWIIDIPK----GSREFYDR 236
Score = 33.8 bits (78), Expect = 0.12
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 479 AFQYDLV-CNGF-EIASGGIRNHMSEVMLQAFSNVGISKEVVENRFGGLYRAF----QCG 532
YDL+ G+ E SGG R + E +++ G+ E Y+ + + G
Sbjct: 245 LRNYDLLLPEGYGEAVSGGEREYEYEEIVERIREHGVDPE--------KYKWYLEMAKEG 296
Query: 533 MPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
P G G++R+ + G +++REV FP
Sbjct: 297 PLPSAGFGIGVERLTRYICGLRHIREVQPFP 327
>gnl|CDD|178118 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 54.2 bits (131), Expect = 1e-07
Identities = 67/317 (21%), Positives = 124/317 (39%), Gaps = 60/317 (18%)
Query: 2 HRY-RTHSCGDL---------GVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGITQVV 51
+++ TH+ +L G V ++G + R G + F D+RD G Q+
Sbjct: 82 YKFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKRAFGKLAFYDLRDDGGKIQLY 141
Query: 52 ANPDSACFEIAKSVRSEWVLCIDGLVMSRSAETINANIITGQI-------------ELS- 97
A+ + E +++ + G I ELS
Sbjct: 142 ADKKRLDLDEE------------------EFEKLHSLVDRGDIVGVTGTPGKTKKGELSI 183
Query: 98 -AQKIEILSVAEELPLP--VFGEREYPESIRFKYRFLDLR-----RDTLHKNIVKRTRII 149
E+L+ L LP G + + R++ R+LDL RD R +II
Sbjct: 184 FPTSFEVLTKCL-LMLPDKYHGLTD--QETRYRQRYLDLIANPEVRDIFRT----RAKII 236
Query: 150 NSMRCRMIAENFIECSTPIL-TASSPEGARDFLVPSRVNQGSFYALPQAPQQYKQLLMAS 208
+ +R + F+E TP+L + AR F+ Y L A + + + L+
Sbjct: 237 SYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDLY-LRIATELHLKRLVVG 295
Query: 209 GFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVLRGVFEEFSNGN 268
GF+R ++I FR+E + P EF + ++ + +D++ E ++ G+ +E +
Sbjct: 296 GFERVYEIGRQFRNEGISTRHNP-EFTTCEFYQAYADYNDMMELTEEMVSGMVKELTGSY 354
Query: 269 TVSNNFLRICYDDAIRR 285
+ + + I + RR
Sbjct: 355 KIKYHGIEIDFTPPFRR 371
Score = 51.1 bits (123), Expect = 9e-07
Identities = 18/36 (50%), Positives = 25/36 (69%)
Query: 528 AFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
A + G+PP GG GIDR+VMLL + ++R+V FP
Sbjct: 512 ALEYGLPPTGGWGLGIDRLVMLLTDSASIRDVIAFP 547
>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase.
Length = 565
Score = 54.2 bits (130), Expect = 1e-07
Identities = 78/333 (23%), Positives = 138/333 (41%), Gaps = 77/333 (23%)
Query: 11 DLGVSDVGSFVRLSGWVHRVRPHGGIIFLDIRDHYGIT--QVVANPDSACFEIAKSVRSE 68
D G++ VG + + GWV +R + F+++ D ++ Q V PD+ ++ +S
Sbjct: 100 DEGLARVGKTLNVMGWVRTLRAQSSVTFIEVNDGSCLSNMQCVMTPDAEGYDQVES---- 155
Query: 69 WVLCIDGLVMSRSAETINANIITGQ-----IELSAQKIEILSVAEELP-LPVFGEREYPE 122
GL+ + ++ + +++ Q +EL KI + V + P P+ +R E
Sbjct: 156 ------GLITTGASVLVQGTVVSSQGGKQKVELKVSKIVV--VGKSDPSYPIQKKRVSRE 207
Query: 123 SIRFKYRFLDLRRDTLHKNIVKRTRIINSMRC---RMIAEN-FIECSTPILTASSPEGAR 178
+R K LR T V R R N++ + EN F+ S+PI+TAS EGA
Sbjct: 208 FLRTKAH---LRPRTNTFGAVARVR--NALAYATHKFFQENGFVWVSSPIITASDCEGAG 262
Query: 179 D-----FLVPSRVNQGS-------------------FYALPQAPQQYKQL---LMASGFD 211
+ L+P+ G F+ P QL A+
Sbjct: 263 EQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWSQDFFGKPAFLTVSGQLNGETYATALS 322
Query: 212 RYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNT----MENVLRGVFE----- 262
+ P FR E+ + R EF+ ++ E++F + +D + ++ V++ + E
Sbjct: 323 DVYTFGPTFRAENSNTSRHLAEFWMIEPELAFADLNDDMACATAYLQYVVKYILENCKED 382
Query: 263 -EFSN-----------GNTVSNNFLRICYDDAI 283
EF N + V NF+++ Y DAI
Sbjct: 383 MEFFNTWIEKGIIDRLSDVVEKNFVQLSYTDAI 415
Score = 31.1 bits (70), Expect = 0.85
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 532 GMPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
G PH G G +R+V G N+R+ FP
Sbjct: 526 GSVPHAGFGLGFERLVQFATGIDNIRDAIPFP 557
>gnl|CDD|161889 TIGR00462, genX, lysyl-tRNA synthetase-like protein 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.
Length = 304
Score = 50.6 bits (122), Expect = 1e-06
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 527 RAFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLF 562
A + G+P G+A G+DR++ML LGA ++ +V F
Sbjct: 269 AALEAGLPECSGVALGVDRLLMLALGADSIDDVLAF 304
Score = 46.4 bits (111), Expect = 2e-05
Identities = 38/165 (23%), Positives = 65/165 (39%), Gaps = 43/165 (26%)
Query: 142 IVKRTRIINSMRCRMIAENFIECSTPILTASSPEGARD---------FLVPSRVNQGSF- 191
+ R R++ ++R +E TP+L SP D FL P + +
Sbjct: 1 LRARARLLAAIRAFFAERGVLEVETPLL---SPAPVTDPHLDAFATEFLGPDGEGRPLYL 57
Query: 192 -----YALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDR-LPG----EFYQLDMEM 241
YA+ K+LL A+G FQI FR+ + R R P E+Y+ +
Sbjct: 58 QTSPEYAM-------KRLL-AAGSGPIFQICKVFRNGE-RGRRHNPEFTMLEWYRPGFDY 108
Query: 242 SFVEQDDILNTMENVLRGVFEEFSNGNTVSNNFLRICYDDAIRRY 286
D+++ +E +L+ + + R+ Y +A RY
Sbjct: 109 -----HDLMDEVEALLQELLG------DPFAPWERLSYQEAFLRY 142
>gnl|CDD|181791 PRK09350, PRK09350, poxB regulator PoxA; Provisional.
Length = 306
Score = 46.5 bits (111), Expect = 2e-05
Identities = 15/32 (46%), Positives = 24/32 (75%)
Query: 528 AFQCGMPPHGGIAAGIDRIVMLLLGAKNVREV 559
A + G+P G+A G+DR++ML LGA+++ EV
Sbjct: 275 ALEAGLPDCSGVALGVDRLIMLALGAESISEV 306
Score = 30.7 bits (70), Expect = 1.2
Identities = 42/162 (25%), Positives = 69/162 (42%), Gaps = 34/162 (20%)
Query: 140 KNIVKRTRIINSMRCRMIAE-NFIECSTPILTASSPEGARD-FLVPSRVN-QGSFYA--- 193
N++KR +II +R R A+ +E TPIL S D LVP G +
Sbjct: 3 PNLLKRAKIIAEIR-RFFADRGVLEVETPIL---SQATVTDIHLVPFETRFVGPGASQGK 58
Query: 194 ---LPQAPQQYKQLLMASGFDRYFQIAPCFRDED------PRSDRLPGEFYQLDMEMSFV 244
L +P+ + + L+A+G FQI FR+E+ P L E+Y+ +M
Sbjct: 59 TLWLMTSPEYHMKRLLAAGSGPIFQICKSFRNEEAGRYHNPEFTML--EWYRPHYDM--- 113
Query: 245 EQDDILNTMENVLRGVFEEFSNGNTVSNNFLRICYDDAIRRY 286
++N ++++L+ V + + Y A RY
Sbjct: 114 --YRLMNEVDDLLQQVLD--------CEPAESLSYQQAFLRY 145
>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional.
Length = 585
Score = 44.2 bits (104), Expect = 9e-05
Identities = 35/134 (26%), Positives = 63/134 (47%), Gaps = 4/134 (2%)
Query: 124 IRFKYRFLDLR-RDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILT-ASSPEGARDFL 181
IR++ R+LDL ++ + RT+IIN +R + FIE TP + + AR F+
Sbjct: 234 IRYRQRYLDLMINESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNLVAGGANARPFI 293
Query: 182 VPSRVNQGSFYALPQAPQQYKQLLMASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEM 241
Y L A + ++L+ G D+ ++I FR+E + P EF +
Sbjct: 294 THHNDLDLDLY-LRIATELPLKMLIVGGIDKVYEIGKVFRNEGIDNTHNP-EFTSCEFYW 351
Query: 242 SFVEQDDILNTMEN 255
++ + D++ E+
Sbjct: 352 AYADFYDLIKWSED 365
Score = 41.5 bits (97), Expect = 6e-04
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 528 AFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
+ + G+PP GG+ GIDRI M L +++V LFP
Sbjct: 544 SLEYGLPPTGGLGLGIDRITMFLTNKNCIKDVILFP 579
>gnl|CDD|177867 PLN02221, PLN02221, asparaginyl-tRNA synthetase.
Length = 572
Score = 37.3 bits (86), Expect = 0.011
Identities = 47/183 (25%), Positives = 77/183 (42%), Gaps = 12/183 (6%)
Query: 11 DLGVSDVGSFVRLSGWVHRVRPHG--GIIFLDIRDHYGITQVVANPDSACFEIAKSVRSE 68
D G G VR+ GWV R G FL++ D + DS+ ++++ V +
Sbjct: 43 DGGAGLAGQKVRIGGWVKTGREQGKGTFAFLEVNDGSCPANLQVMVDSSLYDLSTLVATG 102
Query: 69 WVLCIDGLVMSRSAETINANIITGQIELSAQKIEILSVAEELPLPVFGEREYPESIRFKY 128
+ +DG V+ E +IELS +K+ + + P+ + E +R
Sbjct: 103 TCVTVDG-VLKVPPEGKGTK---QKIELSVEKVIDVGTVDPTKYPLPKTKLTLEFLR--- 155
Query: 129 RFLDLRRDTLHKNIVKRTR--IINSMRCRMIAENFIECSTPILTASSPEGARD-FLVPSR 185
L LR T + V R R + + +F+ TPI+T S EGA + F V +
Sbjct: 156 DVLHLRSRTNSISAVARIRNALAFATHSFFQEHSFLYIHTPIITTSDCEGAGEMFQVTTL 215
Query: 186 VNQ 188
+N
Sbjct: 216 INY 218
Score = 30.0 bits (67), Expect = 2.0
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 10/75 (13%)
Query: 207 ASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVLRGVFEEFSN 266
A + P FR E+ + R EF+ ++ E++F + +D +N E ++
Sbjct: 323 ACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFADLEDDMNCAEAYVK-------- 374
Query: 267 GNTVSNNFLRICYDD 281
+ L C+DD
Sbjct: 375 --YMCKWLLDKCFDD 387
Score = 29.2 bits (65), Expect = 3.2
Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 14/87 (16%)
Query: 490 EIASGGIRNHMSEVMLQAFSNVGISKEVVE-----NRFGGLYRAFQCGMPPHGGIAAGID 544
E+ G R +V+ Q +G+ E E R+G + H G G +
Sbjct: 495 ELIGGSQREERYDVIKQRIEEMGLPIEPYEWYLDLRRYGTV---------KHCGFGLGFE 545
Query: 545 RIVMLLLGAKNVREVSLFPMSQNFCDL 571
R+++ G N+R+V FP DL
Sbjct: 546 RMILFATGIDNIRDVIPFPRYPGKADL 572
>gnl|CDD|185610 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 34.2 bits (78), Expect = 0.088
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 526 YRAF-QCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFP 563
YR + G PH G G +R++ML+ G N+++ FP
Sbjct: 540 YRQLRKFGSHPHAGFGLGFERLIMLVTGVDNIKDTIPFP 578
Score = 32.7 bits (74), Expect = 0.30
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 206 MASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVLRGVFEEFS 265
+ S + P FR E+ + R EF+ ++ E++F D+ + ME L + ++
Sbjct: 339 LCSSMGDVYTFGPTFRAENSHTSRHLAEFWMIEPEIAFA---DLYDNME--LAESYIKYC 393
Query: 266 NGNTVSNNFLRICY 279
G ++NNF I Y
Sbjct: 394 IGYVLNNNFDDIYY 407
>gnl|CDD|161881 TIGR00442, hisS, histidyl-tRNA synthetase. This model finds a
histidyl-tRNA synthetase in every completed genome.
Apparent second copies from Bacillus subtilis,
Synechocystis sp., and Aquifex aeolicus are slightly
shorter, more closely related to each other than to
other hisS proteins, and actually serve as regulatory
subunits for an enzyme of histidine biosynthesis. They
were excluded from the seed alignment and score much
lower than do single copy histidyl-tRNA synthetases of
other genomes not included in the seed alignment. These
putative second copies of HisS score below the trusted
cutoff. The regulatory protein kinase GCN2 of
Saccharomyces cerevisiae (YDR283c), and related proteins
from other species designated eIF-2 alpha kinase, have a
domain closely related to histidyl-tRNA synthetase that
may serve to detect and respond to uncharged tRNA(his),
an indicator of amino acid starvation; these regulatory
proteins are not orthologous and so score below the
noise cutoff.
Length = 397
Score = 32.4 bits (75), Expect = 0.30
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 212 RYFQIAPCFRDEDPRSDRLPGEFYQLDME 240
+ + I P FR E P+ R +F+Q +E
Sbjct: 99 KLYYIGPMFRYERPQKGRYR-QFHQFGVE 126
Score = 29.4 bits (67), Expect = 3.1
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 18/75 (24%)
Query: 538 GIAAGIDRIVMLLLGAKNVREVSLFPMSQNFCDLL---MG----SPSTVSVEQLRELGLR 590
G A GI+R+++LL E+ L P ++ D+ +G + ++LR+ G+R
Sbjct: 298 GFAIGIERLLLLL------EELGLEPPEESSPDVYVVPLGEEAELEALKLAQKLRKAGIR 351
Query: 591 IV-----ENPKKILK 600
+ KK LK
Sbjct: 352 VEVDLGGRKLKKQLK 366
>gnl|CDD|178147 PLN02532, PLN02532, asparagine-tRNA synthetase.
Length = 633
Score = 32.5 bits (74), Expect = 0.31
Identities = 23/98 (23%), Positives = 39/98 (39%), Gaps = 21/98 (21%)
Query: 207 ASGFDRYFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNTMEN--------VLR 258
A + P FR + S R E + +++EM+F E +D +N E+ VL
Sbjct: 386 ACALGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSELEDAMNCAEDYFKFLCKWVLE 445
Query: 259 GVFEE---FSN----------GNTVSNNFLRICYDDAI 283
E+ S +S++ RI Y +A+
Sbjct: 446 NCSEDMKFVSKRIDKTISTRLEAIISSSLQRISYTEAV 483
Score = 27.9 bits (62), Expect = 9.1
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 532 GMPPHGGIAAGIDRIVMLLLGAKNVREVSLFPMS 565
G H G + G + +V+ G +VR+ FP S
Sbjct: 594 GTVKHSGFSLGFELMVLFATGLPDVRDAIPFPRS 627
>gnl|CDD|179764 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 32.5 bits (75), Expect = 0.32
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 11/55 (20%)
Query: 212 RYFQIAPCFRDE--DPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVLRGVFEEF 264
+YF I FR + D LP EFYQL+ V +D+ + ++L G+ +EF
Sbjct: 352 KYFSIGRVFRPDTIDAT--HLP-EFYQLE---GIVMGEDV--SFRDLL-GILKEF 397
Score = 29.4 bits (67), Expect = 2.5
Identities = 9/22 (40%), Positives = 16/22 (72%), Gaps = 2/22 (9%)
Query: 538 GIAAGIDRIVMLLLGAKNVREV 559
G+ GI+R+ ML LG ++R++
Sbjct: 458 GL--GIERLAMLRLGLDDIRDL 477
>gnl|CDD|178856 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase;
Reviewed.
Length = 307
Score = 31.6 bits (73), Expect = 0.54
Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 111 PLPVFGEREYPESIRFKYRFLDLRRDTLHKNIVKRTRIINSMRCRMIAENFIE 163
PL +R P R LD R+ L++ I +R M+ + +E
Sbjct: 175 PLSELQKRGKPPPYRVLIIGLDPDREELYERINQRVDQ-------MLEQGLLE 220
>gnl|CDD|178812 PRK00037, hisS, histidyl-tRNA synthetase; Reviewed.
Length = 412
Score = 31.3 bits (72), Expect = 0.83
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 15/71 (21%)
Query: 538 GIAAGIDRIVMLLLGAKNVREVSLF--PMSQNFCDLLMGSPSTVSVEQLRELGLRIVE-- 593
G A G++R+ +LLL V ++ P+ ++ + E+LR G+R VE
Sbjct: 299 GFAIGVERL-LLLLEELGEEPVDVYVVPLGEDAELAAL-----KLAEKLRAAGIR-VELD 351
Query: 594 ----NPKKILK 600
KK K
Sbjct: 352 YGGRKLKKQFK 362
Score = 28.6 bits (65), Expect = 4.6
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 212 RYFQIAPCFRDEDPRSDRLPGEFYQLDME 240
+ + I P FR E P+ R +F+Q +E
Sbjct: 100 KLYYIGPMFRYERPQKGRYR-QFHQFGVE 127
>gnl|CDD|161893 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.
Length = 294
Score = 30.0 bits (68), Expect = 1.7
Identities = 25/114 (21%), Positives = 39/114 (34%), Gaps = 39/114 (34%)
Query: 448 EEKKIDF--AHNPFTMPQGGMESLKGNDLLSIKAFQYDLVCNG-FEIASGGIRNHMSEVM 504
E +I F ++ PFT P S + Y E+ G+ EV+
Sbjct: 203 GETEIRFRPSYFPFTEP-------------SAEIDVYCWEGKTWLEVLGAGMFR--PEVL 247
Query: 505 LQAFSNVGISKEVVENRFGGLYRAFQCGMPPHGGIAAGIDRIVMLLLGAKNVRE 558
+GI Y F G+ GI+R+ ML G ++R+
Sbjct: 248 ----EPMGIDPT---------YPGFAWGI--------GIERLAMLKYGIDDIRD 280
>gnl|CDD|163056 TIGR02877, spore_yhbH, sporulation protein YhbH. This protein
family, typified by YhbH in Bacillus subtilis, is found
in nearly every endospore-forming bacterium and in no
other genome (but note that the trusted cutoff score is
set high to exclude a single high-scoring sequence from
Nitrosococcus oceani ATCC 19707, which is classified in
the Gammaproteobacteria). The gene in Bacillus subtilis
was shown to be in the regulon of the sporulation sigma
factor, sigma-E, and its mutation was shown to create a
sporulation defect.
Length = 371
Score = 30.1 bits (68), Expect = 1.8
Identities = 12/46 (26%), Positives = 27/46 (58%)
Query: 108 EELPLPVFGEREYPESIRFKYRFLDLRRDTLHKNIVKRTRIINSMR 153
E+L LP ++++ E ++F D+R+ L N+ K+ +I +++
Sbjct: 125 EDLELPNLKKKKFDEITTDSFKFKDVRKKGLMPNLDKKRTVIEALK 170
>gnl|CDD|161981 TIGR00656, asp_kin_monofn, aspartate kinase, monofunctional class.
The Lys-sensitive enzyme of Bacillus subtilis resembles
the E. coli form but is an alpha 2/beta 2
heterotetramer, where the beta subunit is translated
from an in-phase alternative initiator at Met-246. The
protein slr0657 from Synechocystis PCC6803 is extended
by a duplication of the C-terminal region corresponding
to the beta chain. Incorporation of a second copy of the
C-terminal domain may be quite common in this subgroup
of aspartokinases.
Length = 401
Score = 29.3 bits (66), Expect = 2.8
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 590 RIVENPKKILKISVTTILRNVY-GLKIIHSITLL 622
R+VE K+I KIS L G K++H T+
Sbjct: 185 RVVEAAKRIDKISYEEALELATFGAKVLHPRTVE 218
>gnl|CDD|163567 TIGR03855, NAD_NadX, aspartate dehydrogenase. Members of this
protein family are L-aspartate dehydrogenase, as shown
for the NADP-dependent enzyme TM_1643 of Thermotoga
maritima. Members lack homology to NadB, the aspartate
oxidase (EC 1.4.3.16) of most mesophilic bacteria
(described by TIGR00551), which this enzyme replaces in
the generation of oxaloacetate from aspartate for the
NAD biosynthetic pathway. All members of the seed
alignment are found adjacent to other genes of NAD
biosynthesis, although other uses of L-aspartate
dehydrogenase may occur.
Length = 229
Score = 28.9 bits (65), Expect = 4.5
Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 553 AKNVREVSLFPMSQNFCDLLMGSPSTV----SVEQLRELGLRIVENPKKILKISV 603
AK + E + +F + L V S E ++E +I++N K +L +SV
Sbjct: 15 AKELAERCGAKIVSDFDEFLPEDVDIVVEAASQEAVKEYAEKILKNGKDLLIMSV 69
>gnl|CDD|180072 PRK05425, PRK05425, asparagine synthetase AsnA; Provisional.
Length = 327
Score = 28.2 bits (64), Expect = 6.4
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 537 GGIAAGIDRIVMLLLGAKNVREV 559
GGI G R+ MLLL ++ EV
Sbjct: 286 GGI--GQSRLCMLLLQKAHIGEV 306
>gnl|CDD|181649 PRK09103, PRK09103, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 758
Score = 27.6 bits (62), Expect = 10.0
Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 9/47 (19%)
Query: 88 NIITGQIELSAQKIEILSVAEELPLPVFGEREYPESIRFKY--RFLD 132
N +TG+I SAQ + IL VA L F YP+ R Y RF D
Sbjct: 156 NRVTGEIYESAQFLYIL-VAACL----FS--NYPKETRLDYVKRFYD 195
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.324 0.140 0.430
Gapped
Lambda K H
0.267 0.0681 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 10,509,289
Number of extensions: 703674
Number of successful extensions: 1314
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1245
Number of HSP's successfully gapped: 72
Length of query: 622
Length of database: 5,994,473
Length adjustment: 99
Effective length of query: 523
Effective length of database: 3,855,281
Effective search space: 2016311963
Effective search space used: 2016311963
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 60 (27.0 bits)