RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|255764461|ref|YP_003064629.2| methionyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(511 letters)
>gnl|CDD|30492 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 567 bits (1464), Expect = e-162
Identities = 238/545 (43%), Positives = 338/545 (62%), Gaps = 36/545 (6%)
Query: 1 MKEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAK 60
MK +K+ ++TA+ YPN PH+GH Y + ADV AR+ RL G +V F TGTDEHG KI
Sbjct: 1 MKMMKKILVTTALPYPNGPPHLGHLYTYLAADVYARYLRLRGYEVFFLTGTDEHGTKIEL 60
Query: 61 AAQNAGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIY 120
A+ G+T + VD+N F+++ L+IS+D+FIRTT H + + + K+ + GDIY
Sbjct: 61 KAEKEGITPQELVDKNHEEFKELFKALNISFDNFIRTTSPEHKELVQEFFLKLYENGDIY 120
Query: 121 KGCYSGWYSLRDEAYYNDDEV-----YKGADGQY----------YNAQH--NPVQWM--- 160
Y G Y + E + D V G + + NPV +
Sbjct: 121 LREYEGLYCVSCERFLPDRYVEGTCPKCGGEDARGDQCENCGRTLDPTELINPVCVISGA 180
Query: 161 -----EEEGYFFRLSAYQDKLLSYYESHPEFILPIERRNEVISFVKSGLKDLSLSRKTFD 215
EEE YFFRLS +QDKLL +YES+P+FI P RRNEV++F+K GLKDLS++R D
Sbjct: 181 TPEVREEEHYFFRLSKFQDKLLEWYESNPDFIWPANRRNEVLNFLKEGLKDLSITRTDLD 240
Query: 216 WGIKIPDDPQYIMYVWIDALTNYLTTTGYL--DNPDGSKAKFWPAD----LHVIGKDILR 269
WGI +P DP ++YVW DAL Y++ G L D KFWPAD +H IGKDI+R
Sbjct: 241 WGIPVPGDPGKVIYVWFDALIGYISALGELAEIGDDEDFKKFWPADDTELVHFIGKDIIR 300
Query: 270 FHAIYWPAFLLSANLPLPKKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFL 329
FHA+YWPA L++A LPLP ++F+HGF+ +G+K+SKS GNV+DP E++E+ GVDALRY+L
Sbjct: 301 FHAVYWPAMLMAAGLPLPTRIFAHGFLTLEGQKMSKSRGNVVDPDELLEQYGVDALRYYL 360
Query: 330 VREIACGKDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFT-ESDE 388
RE+ G DG + + +RVNADLAN +GNL +R++ I K +DG++P GA E DE
Sbjct: 361 ARELPEGSDGDFSWEDFVERVNADLANKLGNLANRTLGFINKYFDGVVPAAGAPDLEEDE 420
Query: 389 SILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTN-PDRASTV 447
+L++ L+ + E M+ +AL ++++L S ++Y D Q PW+L K + +R +TV
Sbjct: 421 ELLALAREALEAVAEAMEKYEFRKALEEIMALASRANKYIDEQAPWKLAKEDKRERLATV 480
Query: 448 LYVTVEVIRQLAILLQAFVPKLANKIFDILFVADENRCF--QSLDQRLKPGFMLHKTFDP 505
LY+ +E++R LAILL F+P+ A KI+D L + ++ R F Q L PG L +P
Sbjct: 481 LYLALELVRVLAILLYPFMPETAEKIWDQLGLEEDARNFTWLGARQPLLPGHKLGP-PEP 539
Query: 506 IFPRF 510
+FPR
Sbjct: 540 LFPRI 544
>gnl|CDD|35657 KOG0436, KOG0436, KOG0436, Methionyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 578
Score = 458 bits (1180), Expect = e-129
Identities = 205/513 (39%), Positives = 297/513 (57%), Gaps = 16/513 (3%)
Query: 3 EREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAA 62
E E ++T I Y NA PH+GH Y ++AD +ARF RL G V+F+TGTDEHG KI AA
Sbjct: 37 EGETFVLTTPIFYVNAAPHLGHLYSTLLADAIARFQRLKGKKVIFSTGTDEHGLKIQTAA 96
Query: 63 QNAGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKG 122
G D+ S++FR + I+Y FIRTT+ +H + W ++ GDIY+G
Sbjct: 97 ATNGRNPPELCDRISQSFRQLWKDAGIAYTKFIRTTDPKHEAIVQEFWARVFKNGDIYRG 156
Query: 123 CYSGWYSLRDEAYYNDDEVYK--GADGQYYNAQH-NPVQWMEEEGYFFRLSAYQDKLLSY 179
Y GWY + DE +Y + +V K G+ + + NPV W +E+ YFFRLS +Q L +
Sbjct: 157 DYEGWYCVSDETFYPESKVLKNPCPPGKVVSMESGNPVVWRKEDNYFFRLSKFQKPLEDH 216
Query: 180 YESHPEFILPIERRNEVISFVKSGLKDLSLSRKT--FDWGIKIPDDPQYIMYVWIDALTN 237
+P F+ P N+V+S++K+GL DLS+SR + DWGI +P D +YVW DAL N
Sbjct: 217 LRKNPRFVQPSYFHNQVLSWLKTGLPDLSISRPSARLDWGIPVPGDDSQTIYVWFDALLN 276
Query: 238 YLTTTGYLDNPDGSKAKF---WPADLHVIGKDILRFHAIYWPAFLLSANLPLPKKVFSHG 294
Y++ GY + K WPA LHVIGKDILRFHA+YWPAFL++A LPLPK +F HG
Sbjct: 277 YISVIGYPNKQQNLKTALSFGWPATLHVIGKDILRFHAVYWPAFLMAAGLPLPKMIFVHG 336
Query: 295 FILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADL 354
G K+SKSLGNV+DP E++++ GVDA+RYFL+RE G DG Y ++ L K VNA L
Sbjct: 337 HWTKNGMKMSKSLGNVVDPFELVQKYGVDAVRYFLLREGELGNDGDYSEEKLIKIVNAHL 396
Query: 355 ANGIGNLVSRSVSMIL----KDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLI 410
AN +GNL++R + L + ++ +P E E ++ ++ + N N +
Sbjct: 397 ANTLGNLLNRCLGKKLNISNCESTLVVDSPTVAAE-GEPLVDTVEKLPEVAATNYDNFSL 455
Query: 411 HRALAQVISLVSEVDRYFDAQKPWELKKTNPDRA---STVLYVTVEVIRQLAILLQAFVP 467
+ AL V+S+ + + + PW+L K + A + VL++ +EV+R + ILLQ P
Sbjct: 456 YSALEAVLSIGNAGNTLVQQRAPWKLFKDSQVSAEELAKVLHIILEVLRVIGILLQPVAP 515
Query: 468 KLANKIFDILFVADENRCFQSLDQRLKPGFMLH 500
L+ ++ L V+ + R + P
Sbjct: 516 SLSLRLLSQLGVSKDQRSLITWSPVFAPIEYGK 548
>gnl|CDD|173907 cd00814, MetRS_core, catalytic core domain of methioninyl-tRNA
synthetases. Methionine tRNA synthetase (MetRS)
catalytic core domain. This class I enzyme aminoacylates
the 2'-OH of the nucleotide at the 3' of the appropriate
tRNA. MetRS, which consists of the core domain and an
anti-codon binding domain, functions as a monomer.
However, in some species the anti-codon binding domain
is followed by an EMAP domain. In this case, MetRS
functions as a homodimer. The core domain is based on
the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. As a result of a deletion event, MetRS has a
significantly shorter core domain insertion than IleRS,
ValRS, and LeuR. Consequently, the MetRS insertion
lacks the editing function.
Length = 319
Score = 442 bits (1140), Expect = e-124
Identities = 160/337 (47%), Positives = 217/337 (64%), Gaps = 23/337 (6%)
Query: 6 KLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNA 65
K+ I+TA+ Y N PH+GH Y ++ADV AR+ RL G DVLF TGTDEHG KI + A+
Sbjct: 1 KVLITTALPYVNGVPHLGHLYGTVLADVFARYQRLRGYDVLFVTGTDEHGTKIEQKAEEE 60
Query: 66 GVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKGCYS 125
GVT + D+ F+D+ L+IS+D FIRTT RH + + +KK+ + G IY+G Y
Sbjct: 61 GVTPQELCDKYHEIFKDLFKWLNISFDYFIRTTSPRHKEIVQEFFKKLYENGYIYEGEYE 120
Query: 126 GWYSLRDEAYYNDDEVYKGADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLLSYYESHPE 185
G Y + E + +W EEE YFFRLS +QD+LL + E +P+
Sbjct: 121 GLYCVSCERFLP--------------------EWREEEHYFFRLSKFQDRLLEWLEKNPD 160
Query: 186 FILPIERRNEVISFVKSGLKDLSLSRKTFDWGIKIPDDPQYIMYVWIDALTNYLTTTGYL 245
FI P RNEV+S++K GLKDLS++R FDWGI +P DP ++YVW DAL Y++ TGY
Sbjct: 161 FIWPENARNEVLSWLKEGLKDLSITRDLFDWGIPVPLDPGKVIYVWFDALIGYISATGYY 220
Query: 246 DNPDGS---KAKFWPADLHVIGKDILRFHAIYWPAFLLSANLPLPKKVFSHGFILHKGEK 302
+ G+ WP +H IGKDI+RFHAIYWPA LL A LPLP ++ +HG++ +G+K
Sbjct: 221 NEEWGNSWWWKDGWPELVHFIGKDIIRFHAIYWPAMLLGAGLPLPTRIVAHGYLTVEGKK 280
Query: 303 ISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDG 339
+SKS GNV+DP +++E G DALRY+L+RE GKD
Sbjct: 281 MSKSRGNVVDPDDLLERYGADALRYYLLRERPEGKDS 317
>gnl|CDD|185674 cd00668, Ile_Leu_Val_MetRS_core, catalytic core domain of
isoleucyl, leucyl, valyl and methioninyl tRNA
synthetases. Catalytic core domain of isoleucyl,
leucyl, valyl and methioninyl tRNA synthetases. These
class I enzymes are all monomers. However, in some
species, MetRS functions as a homodimer, as a result of
an additional C-terminal domain. These enzymes
aminoacylate the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. Enzymes in
this subfamily share an insertion in the core domain,
which is subject to both deletions and rearrangements.
This editing region hydrolyzes mischarged cognate tRNAs
and thus prevents the incorporation of chemically
similar amino acids. MetRS has a significantly shorter
insertion, which lacks the editing function.
Length = 312
Score = 228 bits (583), Expect = 3e-60
Identities = 112/352 (31%), Positives = 169/352 (48%), Gaps = 62/352 (17%)
Query: 6 KLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNA 65
K Y++T Y N H+GHA IIAD +AR+ R+ G +V F G D HG I A+
Sbjct: 1 KFYVTTPPPYANGSLHLGHALTHIIADFIARYKRMRGYEVPFLPGWDTHGLPIELKAERK 60
Query: 66 GV-------------TTKVFVDQNSRNFRDMADVLDISYD--DFIRTTEKRHHDTCRILW 110
G K FV++ S ++ L ISYD D TTE + +++
Sbjct: 61 GGRKKKTIWIEEFREDPKEFVEEMSGEHKEDFRRLGISYDWSDEYITTEPEYSKAVELIF 120
Query: 111 KKISDKGDIYKGCYSGWYSLRDEAYYNDDEVYKGADGQYYNAQHNPVQWMEEEGYFFRLS 170
++ +KG IY+G + V E +FF +
Sbjct: 121 SRLYEKGLIYRGTH---------------PVRI------------------TEQWFFDMP 147
Query: 171 AYQDKLLSYYESHPEFILPIERRNEVISFVKSGLKDLSLSRKTFDWGIKIPDDPQYIMYV 230
+++KLL I+P +N + ++++S L D ++SR+ + WG +P+D + V
Sbjct: 148 KFKEKLLKALRRGK--IVPEHVKNRMEAWLES-LLDWAISRQRY-WGTPLPED---VFDV 200
Query: 231 WIDALTNYLTTTGYLDNPDGSKAK--FWPADLHVIGKDILRFHAIYWPAFLLSANLPLP- 287
W D+ L G L P+ + +PAD H+IGKDILR A +W L++ +P
Sbjct: 201 WFDSGIGPL---GSLGYPEEKEWFKDSYPADWHLIGKDILRGWANFWITMLVALFGEIPP 257
Query: 288 KKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKD 338
K + HGF+L G+K+SKS GNVIDP +V+E+ G DALRY+L G D
Sbjct: 258 KNLLVHGFVLDEGGQKMSKSKGNVIDPSDVVEKYGADALRYYLTSLAPYGDD 309
>gnl|CDD|36461 KOG1247, KOG1247, KOG1247, Methionyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 567
Score = 162 bits (411), Expect = 2e-40
Identities = 127/545 (23%), Positives = 226/545 (41%), Gaps = 50/545 (9%)
Query: 6 KLYISTAIAYPNAQPHIGHAYEMII-ADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQN 64
+ I++A+ Y N PH+G+ ++ ADV AR+ L G + L+ GTDE+G A
Sbjct: 15 NILITSALPYVNNVPHLGNIIGSVLSADVFARYCPLRGPNTLYICGTDEYGTATETKALE 74
Query: 65 AGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKGCY 124
G+T + D+ + + D I +D+F RTT K + C+ ++ K+ D G + +
Sbjct: 75 EGLTPQELCDKYHGIHKVVYDWFKIDFDEFGRTTTKTQTEICQDIFSKLYDNGYLSEQTV 134
Query: 125 SGWYSLRDEAYYNDDEV--------YKGADGQY-------------YNAQHNPVQ----W 159
Y + + D V Y A G + Q
Sbjct: 135 KQLYCEVCDTFLADRFVEGKCPFCGYDDARGDQCDKCGKLVNAAELKIPKCKICQAGPVV 194
Query: 160 MEEEGYFFRLSAYQDKLLSYYE-SHPEFILPIERRNEVISFVKSGLKDLSLSRKTFDWGI 218
+ + F L + +L + + E +N S++K GLK ++R WG
Sbjct: 195 RQTQHLFLSLDKLEPRLEEWLRRTLVEGDWSQNAQNITRSWLKDGLKPRCITRD-LKWGT 253
Query: 219 KIPDD--PQYIMYVWIDALTNYLT-TTGYLDNPDGSKAKFWPADLHV-----IGKDILRF 270
+P + + YVW DA YL+ T Y D + K+W +V +GKD + F
Sbjct: 254 PVPLEKFKDKVFYVWFDAPIGYLSITKNYTDEWE----KWWKNPENVELYQFMGKDNVPF 309
Query: 271 HAIYWPAFLLSA--NLPLPKKVFSHGFILHKGEKISKSLG-NVIDPIEVIEEVGVDALRY 327
H + +P L N + + + ++ ++ K SKS G V + RY
Sbjct: 310 HTVIFPCSQLGTEENYTVVHHLSATEYLNYEDGKFSKSRGVGVFGNDAQDTGIPASVWRY 369
Query: 328 FLVREIACGKDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTESD 387
+L+ D + D +VN++L N +GN V+R + + Y+G++P T D
Sbjct: 370 YLLYIRPESSDSAFSWDDFVLKVNSELLNNLGNFVNRVLKFVAAKYNGVVPE-MELTSGD 428
Query: 388 ESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTNPDRASTV 447
+ +L + +L + M+ + AL + + ++Y +L + + RA TV
Sbjct: 429 KKLLEDVNELLAKYVAAMEKVKLREALKTAMEISRRGNQYLQENTDNKLYEESRQRAGTV 488
Query: 448 LYVTVEVIRQLAILLQAFVPKLANKIFDILFVADENRCFQSLDQRLKPGFMLHK--TFDP 505
+ + +I +++LL ++P + +I L E RL G H+ T P
Sbjct: 489 IGLAANIIYLVSVLLYPYMPTTSAEILKQL-NLPETLFPDRFICRLLAG---HRIGTPSP 544
Query: 506 IFPRF 510
+F +
Sbjct: 545 LFQKL 549
>gnl|CDD|153411 cd07957, Anticodon_Ia_Met, Anticodon-binding domain of methionyl
tRNA synthetases. This domain is found in methionyl
tRNA synthetases (MetRS), which belong to the class Ia
aminoacyl tRNA synthetases. It lies C-terminal to the
catalytic core domain, and recognizes and specifically
binds to the tRNA anticodon (CAU). MetRS catalyzes the
transfer of methionine to the 3'-end of its tRNA.
Length = 129
Score = 151 bits (383), Expect = 6e-37
Identities = 53/129 (41%), Positives = 84/129 (65%), Gaps = 1/129 (0%)
Query: 350 VNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQL 409
+N++LAN +GNLV+R+++M K + G++P G TE DE +L +L+E+ E M+
Sbjct: 1 INSELANNLGNLVNRTLNMASKYFGGVVPEFGGLTEEDEELLEEAEELLEEVAEAMEELE 60
Query: 410 IHRALAQVISLVSEVDRYFDAQKPWELKKT-NPDRASTVLYVTVEVIRQLAILLQAFVPK 468
+AL +++ L ++Y D PW+L K +P+R +TVLYV +E++R LAILL F+P+
Sbjct: 61 FRKALEEIMELARAANKYIDETAPWKLAKEEDPERLATVLYVLLELLRILAILLSPFMPE 120
Query: 469 LANKIFDIL 477
A KI D L
Sbjct: 121 TAEKILDQL 129
>gnl|CDD|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA
synthetases. Leucyl tRNA synthetase (LeuRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. In Aquifex
aeolicus, the gene encoding LeuRS is split in two, just
before the KMSKS motif. Consequently, LeuRS is a
heterodimer, which likely superimposes with the LeuRS
monomer found in most other organisms. LeuRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements and thus differs between
prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This
editing region hydrolyzes mischarged cognate tRNAs and
thus prevents the incorporation of chemically similar
amino acids.
Length = 314
Score = 125 bits (317), Expect = 2e-29
Identities = 85/346 (24%), Positives = 140/346 (40%), Gaps = 66/346 (19%)
Query: 6 KLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNA 65
K YI YP+ H+GH I D++AR+ R+ G +VLF G D G AA
Sbjct: 1 KFYILVMFPYPSGALHVGHVRTYTIGDIIARYKRMQGYNVLFPMGFDAFGLPAENAAIKI 60
Query: 66 GVTTKVFVDQNSRNFRDMADVLDISYD--DFIRTTEKRHHDTCRILWKKISDKGDIYKGC 123
G + + + N + ++ + SYD T + ++ + L+ K+ +KG YK
Sbjct: 61 GRDPEDWTEYNIKKMKEQLKRMGFSYDWRREFTTCDPEYYKFTQWLFLKLYEKGLAYKKE 120
Query: 124 YSGWYSLRDEAYYNDDEVYKGADGQYYNAQHNPVQW-MEEEGYFFRLS--AYQDKLLSYY 180
PV W + +F + S +++KLL
Sbjct: 121 A-------------------------------PVNWCKLLDQWFLKYSETEWKEKLLKD- 148
Query: 181 ESHPEFILPIERRNEVISFVKSGLKD-LSLSRKTFDWGIKIPDDPQYIMYVWIDALTNYL 239
+E+ + V++ ++ + SR+ + WG IP M D+ Y
Sbjct: 149 ---------LEKLDGWPEEVRAMQENWIGCSRQRY-WGTPIP--WTDTMESLSDSTWYYA 196
Query: 240 --TTTGYLDNPDGSKAKF-------W-PADLHVIGKDILRFH---AIYWPAFLLSANLPL 286
T L+ P +F W P D+++ GK+ H + + L L
Sbjct: 197 RYTDAHNLEQPYEGDLEFDREEFEYWYPVDIYIGGKEHAPNHLLYSRFNHKALFDEGLVT 256
Query: 287 ---PKKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFL 329
PK + G +L +GEK+SKS GNV+ P E I++ G DA R ++
Sbjct: 257 DEPPKGLIVQGMVLLEGEKMSKSKGNVVTPDEAIKKYGADAARLYI 302
>gnl|CDD|185677 cd00817, ValRS_core, catalytic core domain of valyl-tRNA
synthetases. Valine amino-acyl tRNA synthetase (ValRS)
catalytic core domain. This enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. ValRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements. This editing region
hydrolyzes mischarged cognate tRNAs and thus prevents
the incorporation of chemically similar amino acids.
Length = 382
Score = 113 bits (286), Expect = 9e-26
Identities = 90/393 (22%), Positives = 155/393 (39%), Gaps = 105/393 (26%)
Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQNSRNF 80
H+GHA I D++AR+ R+ G +VL+ GTD G IA Q V K+ ++ +R+
Sbjct: 17 HMGHALNNTIQDIIARYKRMKGYNVLWPPGTDHAG--IA--TQVV-VEKKLGIEGKTRH- 70
Query: 81 RDMADVLDISYDDFIRTT---EKRHHDTCRILWKKIS----------------------- 114
D+ ++F+ ++ R K++
Sbjct: 71 -------DLGREEFLEKCWEWKEESGGKIREQLKRLGASVDWSREYFTMDPGLSRAVQEA 123
Query: 115 -----DKGDIYKGCYSGWYSLRDEAYYNDDEV-YKGADGQYYNAQHNPVQWMEEEGYFFR 168
+KG IY+ + + +D EV + D ++ + + +F +
Sbjct: 124 FVRLYEKGLIYRDNRLVNWCPKLRTAISDIEVCSRSGD---------VIEPLLKPQWFVK 174
Query: 169 LSAYQDKLLSYYESHPEFILPIERRNEVISFVKSGLKDLSLSRKTFDWGIKIP------- 221
+ K L + +P +++++ ++D +SR+ + WG +IP
Sbjct: 175 VKDLAKKALEAVKEGDIKFVPERMEKRYENWLEN-IRDWCISRQLW-WGHRIPAWYCKDG 232
Query: 222 -------------DDPQY----------------IMYVWIDALTNYLTTTGYLDNPDGSK 252
D ++ W + +T G+ + K
Sbjct: 233 GHWVVAREEDEAIDKAAPEACVPCGGEELKQDEDVLDTWFSSSLWPFSTLGWPEETKDLK 292
Query: 253 AKFWPADLHVIGKDILRFHAIYWPA------FLLSANLPLPKKVFSHGFILHK-GEKISK 305
KF+P L V G DI+ F W A L+ LP K+V+ HG + + G K+SK
Sbjct: 293 -KFYPTSLLVTGHDIIFF----WVARMIMRGLKLTGKLPF-KEVYLHGLVRDEDGRKMSK 346
Query: 306 SLGNVIDPIEVIEEVGVDALRYFLVREIACGKD 338
SLGNVIDP++VI+ G DALR+ L G+D
Sbjct: 347 SLGNVIDPLDVIDGYGADALRFTLASAATQGRD 379
>gnl|CDD|30871 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 108 bits (271), Expect = 4e-24
Identities = 72/257 (28%), Positives = 115/257 (44%), Gaps = 20/257 (7%)
Query: 231 WIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIY--WPAFLLSANLPLPK 288
W + +T G+ + K KF+P DL V G DI+ F L+ +P K
Sbjct: 453 WFSSSLWPFSTLGWPEETPDLK-KFYPTDLLVTGHDIIFFWVARMIMRGLHLTGEVPF-K 510
Query: 289 KVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLK 347
V+ HG + +G K+SKS GNVIDP++VI++ G DALR+ L + G+D +D+ ++
Sbjct: 511 DVYIHGLVRDEQGRKMSKSKGNVIDPLDVIDKYGADALRFTLASLASPGRDINFDEKRVE 570
Query: 348 KRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQN 407
N N + N +R V M L D A + +D ILS + ++E+ E + N
Sbjct: 571 GYRN--FLNKLWN-ATRFVLMNLDDLGPDDLDLLALSLADRWILSRLNETVKEVTEALDN 627
Query: 408 QLIHRALAQVISLVSE------VDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAIL 461
+ + E D Y + KP L ++ + V+ L L
Sbjct: 628 ----YRFDEAARALYEFIWNDFCDWYLELAKP-RLYGGEEEKRAAR-ATLYYVLDTLLRL 681
Query: 462 LQAFVPKLANKIFDILF 478
L F+P + +I+ L
Sbjct: 682 LHPFMPFITEEIWQKLP 698
Score = 52.6 bits (126), Expect = 3e-07
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHG 55
+++ I T H+GHA + D+LAR+ R+ G +VL+ GTD G
Sbjct: 30 EDKPPFSIDTPPPNVTGSLHMGHALNYTLQDILARYKRMRGYNVLWPPGTDHAG 83
>gnl|CDD|173909 cd00818, IleRS_core, catalytic core domain of isoleucyl-tRNA
synthetases. Isoleucine amino-acyl tRNA synthetases
(IleRS) catalytic core domain . This class I enzyme is a
monomer which aminoacylates the 2'-OH of the nucleotide
at the 3' of the appropriate tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. IleRS has an insertion in the core domain,
which is subject to both deletions and rearrangements.
This editing region hydrolyzes mischarged cognate tRNAs
and thus prevents the incorporation of chemically
similar amino acids.
Length = 338
Score = 105 bits (264), Expect = 3e-23
Identities = 86/353 (24%), Positives = 148/353 (41%), Gaps = 73/353 (20%)
Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIA-KAAQNAGVTTKVFV 73
Y N PH GHA I+ D++ R+ + G V G D HG I K + G++ K
Sbjct: 11 YANGLPHYGHALNKILKDIINRYKTMQGYYVPRRPGWDCHGLPIELKVEKELGISGK--- 67
Query: 74 DQNSRNFRDMADVLDISYDDFI---RTTEKRHHDTCRILWKKISDKGDIYKGCY------ 124
D+ + +F R R+ D ++++ D ++ Y
Sbjct: 68 ----------KDIEKMGIAEFNAKCREFALRYVDEQEEQFQRLGVWVD-WENPYKTMDPE 116
Query: 125 ---SGWYSLRDEAYYNDDEVYKGADGQYYNAQHNPV------QWMEEEGYFFRLSAYQDK 175
S W+ + + +Y+G + P+ QW F R++ +D+
Sbjct: 117 YMESVWWVFK--QLHEKGLLYRGYKVVPW-----PLIYRATPQW------FIRVTKIKDR 163
Query: 176 LLSYYES---HPEFILPIERRNEVISFVKSGLKDLSLSRKTFDWGIKIP----DDP---- 224
LL + PE++ +N ++++ +D +SR+ + WG IP +D
Sbjct: 164 LLEANDKVNWIPEWV-----KNRFGNWLE-NRRDWCISRQRY-WGTPIPVWYCEDCGEVL 216
Query: 225 ----QYIMYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILR--FHAIYWPAF 278
++ VW D+ + Y + + +PAD + G D R F+++ +
Sbjct: 217 VRRVPDVLDVWFDSGSMPYAQLHYPFENEDFEEL-FPADFILEGSDQTRGWFYSLLLLST 275
Query: 279 LLSANLPLPKKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLV 330
L P K V HGF+L G K+SKSLGN +DP EV+++ G DALR ++
Sbjct: 276 ALFGKAPY-KNVIVHGFVLDEDGRKMSKSLGNYVDPQEVVDKYGADALRLWVA 327
>gnl|CDD|30409 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 101 bits (252), Expect = 7e-22
Identities = 80/270 (29%), Positives = 128/270 (47%), Gaps = 26/270 (9%)
Query: 219 KIPDDPQYIMYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILR--FHAIYWP 276
++PD ++ VW D+ + T L + K AD ++ G D R F++
Sbjct: 524 RVPD----VLDVWFDSGS---TPYAVLHPRENLKFPALFADFYLEGSDQTRGWFYSSLLT 576
Query: 277 AFLLSANLPLPKKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIAC 335
+ L P K V +HGF+L KG K+SKSLGNV+DP +VI++ G D LR ++
Sbjct: 577 STALFGRAPY-KNVLTHGFVLDEKGRKMSKSLGNVVDPQDVIDKYGADILRLWVASS-DY 634
Query: 336 GKDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPT--PGAFTESDESILSV 393
+D + + LK ++ I N R + L D+D P E D ILS
Sbjct: 635 WEDLRFSDEILK--QVREVYRKIRN-TYRFLLGNLDDFDPKKDAVLPEELRELDRWILSR 691
Query: 394 CSRVLQEIRENMQNQLIHRALAQVISLVSEV--DRYFDAQKP--WELKKTNPDR--ASTV 447
+ +++E+RE +N H+ + +++ VSE + Y D K + +PDR A T
Sbjct: 692 LNSLVKEVREAYENYDFHKVVRALMNFVSEDLSNWYLDIIKDRLYTEAADSPDRRAAQTT 751
Query: 448 LYVTVEVIRQLAILLQAFVPKLANKIFDIL 477
LY +++ L LL +P A +I+ L
Sbjct: 752 LY---HILKALVRLLAPILPFTAEEIWQNL 778
Score = 51.4 bits (123), Expect = 6e-07
Identities = 38/146 (26%), Positives = 60/146 (41%), Gaps = 20/146 (13%)
Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKI-AKAAQNAGVTTKVFV 73
Y N HIGHA I+ D++ R+ + G DV + G D HG I K + G+ K
Sbjct: 59 YANGNIHIGHALNKILKDIIVRYKTMQGYDVPYVPGWDCHGLPIELKVEKKLGIGKKDIE 118
Query: 74 DQNSRNFRDM-----ADVLDISYDDFIR-----------TTEKRHHDTCRILW--KKISD 115
FR+ + +D + F R T ++ + W K++ +
Sbjct: 119 SFGVEEFREKCREFALEQVDEQKEQFKRLGVWGDWENPYKTMDPSYEE-SVWWAFKELYE 177
Query: 116 KGDIYKGCYSGWYSLRDEAYYNDDEV 141
KG +Y+G +S R E + EV
Sbjct: 178 KGLLYRGYKPVPWSPRCETALAEAEV 203
>gnl|CDD|30841 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 86.1 bits (213), Expect = 2e-17
Identities = 45/183 (24%), Positives = 76/183 (41%), Gaps = 8/183 (4%)
Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKA 61
+ EK Y+ YP+ H+GH I DV+AR+ R+ G +VL G D G A
Sbjct: 31 DKPEKFYVLVMFPYPSGALHVGHVRNYTIGDVIARYKRMQGYNVLHPMGWDAFGLPAENA 90
Query: 62 AQNAGVTTKVFVDQNSRNFRDMADVLDISYD---DFIRTTEKRHHDTCRILWKKISDKGD 118
A G + N + L S D +F T + ++ + + K+ +KG
Sbjct: 91 AIKIGTDPAKWTYYNIAYMKKQLKSLGFSIDWRREFA-TCDPEYYKWIQWQFLKLYEKGL 149
Query: 119 IYKGCYSGWYSLRDEAYYNDDEVYKGADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLLS 178
Y+ + D +++V G + PV+ E +FF+++ Y D+LL
Sbjct: 150 AYRKEAPVNWCPVDGTVLANEQVIDGGCWR----CGEPVEIKELTQWFFKITDYADELLD 205
Query: 179 YYE 181
+
Sbjct: 206 DLD 208
Score = 67.6 bits (165), Expect = 7e-12
Identities = 53/240 (22%), Positives = 107/240 (44%), Gaps = 34/240 (14%)
Query: 249 DGSKAKFW-PADLHVIGKDILRFH---AIYWPAFLLSANL----PLPKKVFSHGFILHK- 299
D + +W P DL++ G + H ++ L L KK+ + G +L +
Sbjct: 517 DREEFNYWYPVDLYIGGIEHAVLHLLYFRFFHKALFDEGLVPKDEPFKKLITQGMVLGEE 576
Query: 300 GEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIG 359
GEK+SKS GNV+DP E +E+ G D +R +++ +D + + G+ G
Sbjct: 577 GEKMSKSKGNVVDPEEAVEKYGADTVRLYIMFAAPPEQDLEWSESGV---------EGAR 627
Query: 360 NLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENM-QNQLIHRALAQVI 418
+ R +++ + + ++ E + + R ++++ E+ Q + A+A ++
Sbjct: 628 RFLQRVWNLVKEHLEKLVEELT--KEQGKEDRWLLHRTIKKVTEDFEARQTFNTAIAALM 685
Query: 419 SLVSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDILF 478
L++ + +Y L++T DR V E + LL F P +A ++++ L
Sbjct: 686 ELLNALRKY--------LRRTEGDRK-----VLREALETWVRLLAPFAPHIAEELWEELG 732
>gnl|CDD|143905 pfam00133, tRNA-synt_1, tRNA synthetases class I (I, L, M and V).
Other tRNA synthetase sub-families are too dissimilar to
be included.
Length = 606
Score = 76.3 bits (188), Expect = 2e-14
Identities = 39/117 (33%), Positives = 59/117 (50%), Gaps = 14/117 (11%)
Query: 219 KIPDDPQYIMYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIYWPAF 278
+ D ++ W + + +T GY +F+PAD+ + G D R W
Sbjct: 486 QDED----VLDTWFSSGSWPFSTLGYPFTNTPEFKRFFPADMLLEGSDQTRG----WFYR 537
Query: 279 LLSANLPL----P-KKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFL 329
++ L P K V HG + +G K+SKSLGNVIDP++VI++ G DALR +L
Sbjct: 538 MIVLGTALTGSAPYKNVLVHGLVRDEQGRKMSKSLGNVIDPLDVIDKYGADALRLWL 594
Score = 52.8 bits (127), Expect = 2e-07
Identities = 32/144 (22%), Positives = 52/144 (36%), Gaps = 23/144 (15%)
Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKI-AK 60
K + I HIGHA + D++ R+ R+ G DVL+ G D HG K
Sbjct: 20 KGKPSFTIHDGPPNATGLLHIGHALNKTLKDIVIRYKRMQGFDVLWVPGWDHHGLPTEQK 79
Query: 61 AAQNAGVTTKV--------------------FVDQNSRNFRDMADVLDISYDDFIRTTEK 100
+ G+ K + D+ F+ + D + F T +
Sbjct: 80 VEKKLGIKGKKDRHKLGREKFREKCREWKMEYADEIRSQFKRLGVSGDWDREYF--TLDP 137
Query: 101 RHHDTCRILWKKISDKGDIYKGCY 124
++ ++ DKG IY+G
Sbjct: 138 GLEAAVWRVFVRLHDKGLIYRGKK 161
>gnl|CDD|173901 cd00802, class_I_aaRS_core, catalytic core domain of class I amino
acyl-tRNA synthetase. Class I amino acyl-tRNA
synthetase (aaRS) catalytic core domain. These enzymes
are mostly monomers which aminoacylate the 2'-OH of the
nucleotide at the 3' of the appropriate tRNA. The core
domain is based on the Rossman fold and is responsible
for the ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding.
Length = 143
Score = 65.2 bits (159), Expect = 4e-11
Identities = 24/91 (26%), Positives = 37/91 (40%), Gaps = 2/91 (2%)
Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVD 74
PN HIGH ++ D LA+ +R G V D+ G I A G K FV+
Sbjct: 7 TPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIGDPANKKGENAKAFVE 66
Query: 75 QNSRNFRDMADVL-DISYDDFIR-TTEKRHH 103
+ ++ + + + D + TE H
Sbjct: 67 RWIERIKEDVEYMFLQAADFLLLYETECDIH 97
Score = 28.2 bits (63), Expect = 5.4
Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 2/52 (3%)
Query: 257 PADLHVIGKDILRFHAIYWPAFLLSANLPLPKKVFSHGFILHK-GEKISKSL 307
D+H+ G D L H L A P + G ++ G K+SKS
Sbjct: 93 ECDIHLGGSDQL-GHIELGLELLKKAGGPARPFGLTFGRVMGADGTKMSKSK 143
>gnl|CDD|35654 KOG0433, KOG0433, KOG0433, Isoleucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 937
Score = 65.0 bits (158), Expect = 5e-11
Identities = 58/270 (21%), Positives = 98/270 (36%), Gaps = 39/270 (14%)
Query: 225 QYIMYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILR--FHAIYWPAFLLSA 282
IM VW D+ +++ AD+++ G D R F + + +
Sbjct: 542 TDIMDVWFDSGSSWSAVLDNEREH--------VADVYLEGVDQFRGWFQSSLLTSVAVQN 593
Query: 283 NLPLPKKVFSHGFIL-HKGEKISKSLGNVIDPIEVIE------EVGVDALRYFLVR---- 331
P KKV HGF L G K+SKSLGNV+DP V + G D LR+++
Sbjct: 594 KAPY-KKVIVHGFTLDENGNKMSKSLGNVVDPTMVTDGSLKQPAYGADGLRFWVAGSENT 652
Query: 332 -EIACGKDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESI 390
E G D + +GNL + + D+ +
Sbjct: 653 GESKIGPKILDQVDEKLIKFRNTFRFLLGNLQDFDGKQVKFPLKDL-------RYIDQYM 705
Query: 391 LSVCSRVLQEIRENMQNQLIHRALAQV----ISLVSEVDRYFDAQKP--WELKKTNPDRA 444
L +++ I E + + + + +S YFD K + K + R
Sbjct: 706 LQQLDAIVKRIIELYNDYKFRKVVNDLQQFLQRNLSAF--YFDIVKDRLYCDKVGSESRR 763
Query: 445 STVLYVTVEVIRQLAILLQAFVPKLANKIF 474
S ++ LA ++ +P LA +++
Sbjct: 764 S-AQTTLHHLLHNLAHIISPILPHLAEEVW 792
Score = 33.4 bits (76), Expect = 0.16
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 6/74 (8%)
Query: 17 NAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHG------QKIAKAAQNAGVTTK 70
N H+GHA I+ D++ R G L+ G D HG + ++ ++ G T
Sbjct: 67 NGNLHLGHALNKILKDIINRILLAQGKSALYVPGWDCHGLPIESTKALSSLTESEGSRTP 126
Query: 71 VFVDQNSRNFRDMA 84
+ + +R F D A
Sbjct: 127 LEIRAKARIFADEA 140
>gnl|CDD|35653 KOG0432, KOG0432, KOG0432, Valyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 995
Score = 61.8 bits (150), Expect = 5e-10
Identities = 76/299 (25%), Positives = 120/299 (40%), Gaps = 67/299 (22%)
Query: 239 LTTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIYWPAFL------LSANLPLPKKVFS 292
+T G+ + K F+P L G DIL F W A + L+ LP K+V
Sbjct: 529 FSTLGWPEETKDFK-NFYPLSLLETGHDILFF----WVARMVMLGLKLTGELPF-KEVLL 582
Query: 293 HGFIL-HKGEKISKSLGNVIDPIEVIE--------------------------------- 318
HG + G K+SKSLGNVIDP++VI+
Sbjct: 583 HGLVRDAHGRKMSKSLGNVIDPLDVIDGISLEKLHAKLLSGNLDPREVEKAKKGQKKDFP 642
Query: 319 ----EVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKDYD 374
E G DALR+ L G+D + D L+ N + N R L +
Sbjct: 643 NGIPECGTDALRFALCSYTTQGRD--INLDVLRVEGYRHFCNKLWNAT-RFALQRLG--E 697
Query: 375 GMIPTPGAFTESDES-----ILSVCSRVLQEIRENMQNQLIHRALAQVIS--LVSEVDRY 427
+P+P +ES ILS + ++E+ E+++ + H A + + + L D Y
Sbjct: 698 NFVPSPTEDLSGNESLVDEWILSRLAEAVEEVNESLEARNFHLATSALYAFWLYDLCDVY 757
Query: 428 FDAQKP--WELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDILFVADENR 484
+A KP W + A VLY ++ + LL F+P + +++ L ++
Sbjct: 758 LEATKPLLWGDSEALAYEARRVLYRCLDNGLR---LLHPFMPFITEELWQRLPRRKGSK 813
Score = 44.1 bits (104), Expect = 1e-04
Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 11/55 (20%)
Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQ 75
HIGHA + I D LAR++R+ G VL+ GTD +AG+ T+V V++
Sbjct: 91 HIGHALTVAIQDALARYNRMHGYQVLWVPGTD-----------HAGIATQVVVEK 134
>gnl|CDD|35656 KOG0435, KOG0435, KOG0435, Leucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 876
Score = 59.2 bits (143), Expect = 2e-09
Identities = 54/189 (28%), Positives = 83/189 (43%), Gaps = 21/189 (11%)
Query: 8 YISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGV 67
YI + YP+ HIGH I+D+LARF+R+ G +V+ G D G AA GV
Sbjct: 60 YILSMFPYPSGALHIGHVRVYTISDILARFYRMKGYNVIHPMGWDAFGLPAENAAIERGV 119
Query: 68 TTKVFVDQNSRNFRDMADVLDISYD--DFIRTTEKRHHDTCRILWKKISDKGDIYKGCYS 125
+ N + L IS+D I T E ++ + ++ K+ +KG Y
Sbjct: 120 HPASWTINNIAKMKQQLKSLGISFDWDREISTCEPDYYKWTQWIFLKLFEKGLAY----- 174
Query: 126 GWYSLRDEAYYNDDEVYK--------GADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLL 177
+ EA N D V K ADG + + V+ + +F + +AY +LL
Sbjct: 175 -----QAEAEVNWDPVDKTVLANEQVDADGCSWRSGA-KVEKKKLRQWFIKTTAYAKRLL 228
Query: 178 SYYESHPEF 186
E+ PE+
Sbjct: 229 DGLETLPEW 237
Score = 50.4 bits (120), Expect = 1e-06
Identities = 58/305 (19%), Positives = 112/305 (36%), Gaps = 74/305 (24%)
Query: 228 MYVWIDALTNYLTTTGYLD--NP----DGSKAKFW-PADLHVIGKDILRFHAIY---WPA 277
M ++D+ YL YLD NP D +KAK P D+++ GK+ H +Y
Sbjct: 494 MDTFVDSSWYYLR---YLDPKNPEEPFDKAKAKKNMPVDVYIGGKEHAVLHLLYARFIAK 550
Query: 278 FLLSANL---PLP-KKVFSHGFILHKG--------------------------------- 300
FL + P K+ + G + K
Sbjct: 551 FLKDIGVVSTAEPFTKLITQGMVRGKTFRTKESGKYLGPEEVQQVNDHQNKFVLKNDKEV 610
Query: 301 -----EKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLK--KRVNAD 353
EK+SKS N +DP +V+ E GVD R +++ +++ + KR
Sbjct: 611 VVVTYEKMSKSKHNGVDPADVVLEYGVDTTRLYILFAAPPRDPINWNESAIPGIKRWLQR 670
Query: 354 LANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQ-NQLIHR 412
+ + ++ KD F + + ++++ E+ + ++
Sbjct: 671 IWALVSQILQARDDGKAKDL---KKLTDGFDAETRKLKETYNFFIKQVTEHYEVLFSLNT 727
Query: 413 ALAQVISLVSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANK 472
A++ ++ L + + + A K + +RA + L I+L F P +A++
Sbjct: 728 AISDMMGLTNALKK---ALKIVLVHSPEFERA----------LEALVIMLAPFAPHVASE 774
Query: 473 IFDIL 477
++ L
Sbjct: 775 LWSAL 779
>gnl|CDD|35658 KOG0437, KOG0437, KOG0437, Leucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 1080
Score = 51.6 bits (123), Expect = 5e-07
Identities = 28/80 (35%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 255 FWPADLHVIGKDILRFHAIYWPAFL-----LSANLPLPKKVFSHGFILHKGEKISKSLGN 309
F+P DL V GKD++ H + FL L PK + ++G ++ EK+SKS GN
Sbjct: 661 FYPIDLRVSGKDLIPNHLTF---FLYNHVALFPEKKWPKGIRANGHLMLNSEKMSKSTGN 717
Query: 310 VIDPIEVIEEVGVDALRYFL 329
+ + IE+ G D R L
Sbjct: 718 FMTLEQAIEKFGADGTRLAL 737
Score = 37.3 bits (86), Expect = 0.011
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKA 61
K + K +++ Y N + H+GHA+ + + + + RL G +VLF G G I +
Sbjct: 41 KSKPKFFVTFPYPYMNGRLHLGHAFSLSKVEFASGYERLQGKNVLFPFGFHCTGMPIKAS 100
Query: 62 A 62
A
Sbjct: 101 A 101
>gnl|CDD|35655 KOG0434, KOG0434, KOG0434, Isoleucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 1070
Score = 49.2 bits (117), Expect = 3e-06
Identities = 53/232 (22%), Positives = 96/232 (41%), Gaps = 17/232 (7%)
Query: 256 WPADLHVIGKDILR--FHAIYWPAFLLSANLPLPKKVFSHGFIL-HKGEKISKSLGNVID 312
+PAD G D R F+ + + L P K V +G +L G+K+SK L N D
Sbjct: 553 FPADFIAEGLDQTRGWFYTLLVLSTALFGKPPF-KNVIVNGLVLAEDGKKMSKRLKNYPD 611
Query: 313 PIEVIEEVGVDALRYFLVRE-IACGKDGFYDKDGLK---KRVNADLANGIGNLVS----- 363
P +I + G DALR +L+ + ++ + ++G++ K V N LV
Sbjct: 612 PSLIINKYGADALRLYLINSPVVRAENLKFKEEGVREVVKDVLLPWYNSYRFLVQNAALL 671
Query: 364 RSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSE 423
+ + +D + + D IL+ ++ +RE M ++ + +++ + E
Sbjct: 672 KKETGKDFVFDDSVTSSNVM---DRWILASTQSLVGFVREEMDQYRLYTVVPRLLKFIDE 728
Query: 424 VDRYFDAQKPWELKKTN-PDRASTVLYVTVEVIRQLAILLQAFVPKLANKIF 474
+ ++ LK N L V EV+ L ++ F P I+
Sbjct: 729 LTNWYIRFNRRRLKGENGEHDCHNALNVLFEVLFTLVRVMAPFTPFFTEYIY 780
Score = 29.5 bits (66), Expect = 2.4
Identities = 16/54 (29%), Positives = 20/54 (37%)
Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHG 55
K R K + PH GH I D++ R+ G V G D HG
Sbjct: 35 KGRPKFTFYDGPPFATGLPHYGHILASTIKDIVTRYATQTGHHVERRFGWDTHG 88
>gnl|CDD|30564 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 46.0 bits (109), Expect = 3e-05
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 7/84 (8%)
Query: 20 PHIGHAYEMIIADVLARFHRLDGLDVLFT---TGTDEHGQKIAKAAQNAGVTTKVFVDQN 76
HIGHA ++ DVL R+ R G V + T D+ KI A+ G++ + ++
Sbjct: 36 AHIGHARTYVVFDVLRRYLRYLGYKVTYVRNITDIDD---KIINRAREEGLSIREVAERY 92
Query: 77 SRNFRDMADVLDISY-DDFIRTTE 99
F + D L++ D R TE
Sbjct: 93 IAAFFEDMDALNVLPPDIEPRATE 116
Score = 43.7 bits (103), Expect = 1e-04
Identities = 18/43 (41%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 289 KVFSH-GFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLV 330
K + H GF+ GEK+SKSLGN I +++++ + LR FL+
Sbjct: 254 KYWMHNGFLNIDGEKMSKSLGNFITVRDLLKKYDPEVLRLFLL 296
>gnl|CDD|173899 cd00672, CysRS_core, catalytic core domain of cysteinyl tRNA
synthetase. Cysteinyl tRNA synthetase (CysRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding.
Length = 213
Score = 42.2 bits (100), Expect = 3e-04
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 289 KVFSH-GFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLV 330
+ + H G + GEK+SKSLGN I + +++ + LR L+
Sbjct: 160 RYWLHTGHLTIDGEKMSKSLGNFITVRDALKKYDPEVLRLALL 202
Score = 37.2 bits (87), Expect = 0.011
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 20 PHIGHAYEMIIADVLARFHRLDGLDVLFT---TGTDEHGQKIAKAAQNAGVTTKVFVDQN 76
HIGHA ++ DVL R+ G V + T D+ KI K A+ G++ K D
Sbjct: 34 AHIGHARTYVVFDVLRRYLEDLGYKVRYVQNITDIDD---KIIKRAREEGLSWKEVADYY 90
Query: 77 SRNFRDMADVLDISYDDF 94
++ F + L++ D
Sbjct: 91 TKEFFEDMKALNVLPPDV 108
>gnl|CDD|110410 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic
domain. This family includes only cysteinyl tRNA
synthetases.
Length = 301
Score = 40.4 bits (95), Expect = 0.001
Identities = 25/82 (30%), Positives = 35/82 (42%), Gaps = 1/82 (1%)
Query: 20 PHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQNSRN 79
HIGHA + DVL R+ + G DV F + KI K AQ G + + +
Sbjct: 23 SHIGHARSAVAFDVLRRYLQALGYDVQFVQNFTDIDDKIIKRAQQQGESFRELAARFITA 82
Query: 80 FRDMADVLDISYDDF-IRTTEK 100
+ D L++ D R TE
Sbjct: 83 YTKDMDALNVLPPDLEPRVTEH 104
Score = 36.9 bits (86), Expect = 0.011
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 289 KVFSH-GFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFL 329
K + H G ++ +GEK+SKSLGN + +V++ LRYFL
Sbjct: 239 KYWLHNGHLMIEGEKMSKSLGNFLTIRDVLKRYDPRILRYFL 280
>gnl|CDD|153416 cd07962, Anticodon_Ia_Val, Anticodon-binding domain of valyl tRNA
synthetases. This domain is found in valyl tRNA
synthetases (ValRS), which belong to the class Ia
aminoacyl tRNA synthetases. It lies C-terminal to the
catalytic core domain, and recognizes and specifically
binds to the tRNA anticodon. ValRS catalyzes the
transfer of valine to the 3'-end of its tRNA.
Length = 135
Score = 39.8 bits (94), Expect = 0.002
Identities = 27/123 (21%), Positives = 48/123 (39%), Gaps = 13/123 (10%)
Query: 362 VSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVISLV 421
+R V M L+D D P + + +D ILS ++ ++E+ E ++N A +
Sbjct: 19 AARFVLMNLEDDDEPEEDPESLSLADRWILSRLNKTVEEVTEALENYRFSEAATALYEFF 78
Query: 422 SEV--DRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDILFV 479
D Y + KP L + + V+ + LL F+P F+
Sbjct: 79 WNDFCDWYLELVKP-RLYGEDEEEKKAARATLYYVLETILRLLHPFMP----------FI 127
Query: 480 ADE 482
+E
Sbjct: 128 TEE 130
>gnl|CDD|153408 cd07375, Anticodon_Ia_like, Anticodon-binding domain of class Ia
aminoacyl tRNA synthetases and similar domains. This
domain is found in a variety of class Ia aminoacyl tRNA
synthetases, C-terminal to the catalytic core domain. It
recognizes and specifically binds to the anticodon of
the tRNA. Aminoacyl tRNA synthetases catalyze the
transfer of cognate amino acids to the 3'-end of their
tRNAs by specifically recognizing cognate from
non-cognate amino acids. Members include valyl-,
leucyl-, isoleucyl-, cysteinyl-, arginyl-, and
methionyl-tRNA synthethases. This superfamily also
includes a domain from MshC, an enzyme in the mycothiol
biosynthetic pathway.
Length = 117
Score = 38.3 bits (89), Expect = 0.005
Identities = 20/110 (18%), Positives = 40/110 (36%), Gaps = 2/110 (1%)
Query: 355 ANGIGNLVSRSVSMILKDYDGMIP--TPGAFTESDESILSVCSRVLQEIRENMQNQLIHR 412
A N + R +S K G P E+D +L+ ++ ++
Sbjct: 7 ARAFLNRLYRLLSFFRKALGGTQPKWDNELLEEADRELLARLQEFIKRTTNALEALDPTT 66
Query: 413 ALAQVISLVSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILL 462
A+ ++ +E++ Y D KP + + VL + V+ +L
Sbjct: 67 AVQELFKFTNELNWYLDELKPALQTEELREAVLAVLRAALVVLTKLLAPF 116
>gnl|CDD|145212 pfam01921, tRNA-synt_1f, tRNA synthetases class I (K). This family
includes only lysyl tRNA synthetases from prokaryotes.
Length = 355
Score = 35.7 bits (83), Expect = 0.030
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 295 FILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVR 331
+L G K+S S GN I E +E ++LR+ + R
Sbjct: 271 ILLKGGGKMSSSKGNGITIEEWLEYAPPESLRFLMFR 307
>gnl|CDD|173900 cd00674, LysRS_core_class_I, catalytic core domain of class I
lysyl tRNA synthetase. Class I lysyl tRNA synthetase
(LysRS) catalytic core domain. This class I enzyme is a
monomer which aminoacylates the 2'-OH of the nucleotide
at the 3' of the appropriate tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. The class I LysRS is found only in archaea and
some bacteria and has evolved separately from class II
LysRS, as the two do not share structural or sequence
similarity.
Length = 353
Score = 34.6 bits (80), Expect = 0.058
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 287 PKKVFSHGFILHKG-EKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDG 345
P + FI KG K+S S GNVI P + +E + LRY R K +D D
Sbjct: 259 PPVPVMYEFIGLKGGGKMSSSKGNVITPSDWLEVAPPEVLRYLYARRKNPEKHIGFDLDI 318
Query: 346 LK 347
L+
Sbjct: 319 LR 320
Score = 28.4 bits (64), Expect = 4.8
Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLF 47
K +EK +++ I+ P+ HIG+ E+I AD++AR R G +V
Sbjct: 16 KGKEKYVVASGIS-PSGHIHIGNFREVITADLVARALRDLGFEVRL 60
>gnl|CDD|31574 COG1384, LysS, Lysyl-tRNA synthetase (class I) [Translation,
ribosomal structure and biogenesis].
Length = 521
Score = 34.8 bits (80), Expect = 0.060
Identities = 15/45 (33%), Positives = 21/45 (46%)
Query: 287 PKKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVR 331
P +L G K+S S GNVI + +E + LRY + R
Sbjct: 262 PVPFVYEWILLKGGGKMSSSKGNVISLSDWLEVAPPEVLRYLIAR 306
>gnl|CDD|37218 KOG2007, KOG2007, KOG2007, Cysteinyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 586
Score = 32.3 bits (73), Expect = 0.29
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 289 KVFSH-GFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVR 331
F H G + GEK+SKSL N I E +++ LR +
Sbjct: 291 NYFLHTGHLTINGEKMSKSLKNFITIKEALKKYSPRQLRLAFLL 334
Score = 29.2 bits (65), Expect = 2.7
Identities = 30/126 (23%), Positives = 47/126 (37%), Gaps = 11/126 (8%)
Query: 3 EREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLD-GLDVLFTTGTDEHGQKIAKA 61
+ YI Y ++ H+GHA + D+L R R G DV F + KI K
Sbjct: 54 NKVTWYICGPTVYDSS--HMGHARSYVSFDILRRILRDYFGYDVTFVMNITDVDDKIIKR 111
Query: 62 AQNAGVT------TKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISD 115
A+ + ++ F +DMA + + R +E + +KI D
Sbjct: 112 ARKEEMGEKPLSLSERFCYYEEEFLQDMAALNVLPPTVQTRVSE--YVPQIIKFIQKIID 169
Query: 116 KGDIYK 121
G Y
Sbjct: 170 NGYAYA 175
>gnl|CDD|30368 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 30.6 bits (69), Expect = 1.1
Identities = 18/49 (36%), Positives = 21/49 (42%)
Query: 14 AYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAA 62
A P HIGH II D LAR G DV ++ G +I A
Sbjct: 126 ANPTGPLHIGHLRNAIIGDSLARILEFLGYDVTRENYVNDWGTQIGMLA 174
>gnl|CDD|112744 pfam03945, Endotoxin_N, delta endotoxin, N-terminal domain. This
family contains insecticidal toxins produced by Bacillus
species of bacteria. During spore formation the bacteria
produce crystals of this protein. When an insect ingests
these proteins they are activated by proteolytic
cleavage. The N terminus is cleaved in all of the
proteins and a C terminal extension is cleaved in some
members. Once activated the endotoxin binds to the gut
epithelium and causes cell lysis leading to death. This
activated region of the delta endotoxin is composed of
three structural domains. The N-terminal helical domain
is involved in membrane insertion and pore formation.
The second and third domains are involved in receptor
binding.
Length = 224
Score = 29.9 bits (68), Expect = 1.8
Identities = 20/83 (24%), Positives = 35/83 (42%), Gaps = 4/83 (4%)
Query: 396 RVLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVI 455
+V Q I + + Q+ +RA+A++ L + D Y +A + WE N V
Sbjct: 49 QVEQLIDQRISEQVRNRAIARLNGLGNSYDIYLEALEEWEKNPNNTRSREAV----RTRF 104
Query: 456 RQLAILLQAFVPKLANKIFDILF 478
L L +P A +++L
Sbjct: 105 NILDSLFTNAIPSFAVSGYEVLL 127
>gnl|CDD|153412 cd07958, Anticodon_Ia_Leu_BEm, Anticodon-binding domain of
bacterial and eukaryotic mitochondrial leucyl tRNA
synthetases. This domain is found in leucyl tRNA
synthetases (LeuRS), which belong to the class Ia
aminoacyl tRNA synthetases. It lies C-terminal to the
catalytic core domain. In contrast to other class Ia
enzymes, the anticodon is not used as an identity
element in LeuRS (with exceptions such as Saccharomyces
cerevisiae and some other eukaryotes). No
anticodon-binding site can be defined for this family,
which includes bacterial and eukaryotic mitochondrial
members, as well as LeuRS from the archaeal
Halobacteria. LeuRS catalyzes the transfer of leucine to
the 3'-end of its tRNA.
Length = 117
Score = 29.5 bits (67), Expect = 2.0
Identities = 19/93 (20%), Positives = 40/93 (43%), Gaps = 13/93 (13%)
Query: 378 PTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELK 437
+E D+ + + ++++ E+++ + A+A ++ LV+ + +Y K
Sbjct: 31 AAAAELSEEDKELRRKLHKTIKKVTEDIERLRFNTAIAALMELVNALYKYK--------K 82
Query: 438 KTNPDRASTVLYVTVEVIRQLAILLQAFVPKLA 470
K A V E + L +LL F P +A
Sbjct: 83 KDAQHAA-----VLREALETLVLLLAPFAPHIA 110
>gnl|CDD|185675 cd00671, ArgRS_core, catalytic core domain of arginyl-tRNA
synthetases. Arginyl tRNA synthetase (ArgRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate.
There are at least three subgroups of ArgRS. One type
contains both characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. The second
subtype lacks the KMSKS motif; however, it has a lysine
N-terminal to the HIGH motif, which serves as the
functional counterpart to the second lysine of the
KMSKS motif. A third group, which is found primarily
in archaea and a few bacteria, lacks both the KMSKS
motif and the HIGH loop lysine.
Length = 212
Score = 29.1 bits (66), Expect = 2.8
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 1/79 (1%)
Query: 16 PNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQ 75
P H+GH II D LAR G DV ++ G++I + K V++
Sbjct: 11 PTGPLHVGHLRNAIIGDSLARILEFLGYDVTREYYINDWGRQIGLLILSLEKWRK-LVEE 69
Query: 76 NSRNFRDMADVLDISYDDF 94
+ + + LD+ +D +
Sbjct: 70 SIKADLETYGRLDVRFDVW 88
>gnl|CDD|153415 cd07961, Anticodon_Ia_Ile_ABEc, Anticodon-binding domain of
archaeal, bacterial, and eukaryotic cytoplasmic
isoleucyl tRNA synthetases. This domain is found in
isoleucyl tRNA synthetases (IleRS), which belong to the
class Ia aminoacyl tRNA synthetases. It lies C-terminal
to the catalytic core domain, and recognizes and
specifically binds to the tRNA anticodon. This family
includes bacterial, archaeal, and eukaryotic cytoplasmic
members. IleRS catalyzes the transfer of isoleucine to
the 3'-end of its tRNA.
Length = 183
Score = 29.1 bits (66), Expect = 3.3
Identities = 20/94 (21%), Positives = 42/94 (44%), Gaps = 19/94 (20%)
Query: 390 ILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEV---------DRYFDAQKPWELKKTN 440
ILS + +++E+ E M+ ++ A+ ++ + E+ R+ W + +
Sbjct: 52 ILSRLNSLIKEVTEEMEAYDLYTAVRALLEFIDELTNWYIRRNRKRF------WGEEGDD 105
Query: 441 PDRAS-TVLYVTVEVIRQLAILLQAFVPKLANKI 473
A+ LY EV+ L+ L+ F P + +I
Sbjct: 106 DKLAAYATLY---EVLLTLSRLMAPFTPFITEEI 136
>gnl|CDD|29363 cd01941, YeiC_kinase_like, YeiC-like sugar kinase. Found in
eukaryotes and bacteria, YeiC-like kinase is part of
the ribokinase/pfkB sugar kinase superfamily. Its
oligomerization state is unknown at this time..
Length = 288
Score = 28.7 bits (64), Expect = 4.1
Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 12/76 (15%)
Query: 11 TAIAYPNAQPHIGHAYEMI------IADVLARFHRLDGLDVLF--TTGTDEHGQKIAKAA 62
+ + + GH + IA+ LAR G+ V G D G+ I + +
Sbjct: 16 VSGSLVPGTSNPGHVKQSPGGVGRNIAENLARL----GVSVALLSAVGDDSEGESILEES 71
Query: 63 QNAGVTTKVFVDQNSR 78
+ AG+ + V +
Sbjct: 72 EKAGLNVRGIVFEGRS 87
>gnl|CDD|173656 cd05111, PTK_HER3, Pseudokinase domain of the Protein Tyrosine
Kinase, HER3. Protein Tyrosine Kinase (PTK) family;
HER3 (ErbB3); pseudokinase domain. The PTKc (catalytic
domain) family to which this subfamily belongs, is part
of a larger superfamily that includes the catalytic
domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. HER3 is a
member of the EGFR (HER, ErbB) subfamily of proteins,
which are receptor tyr kinases (RTKs) containing an
extracellular EGF-related ligand-binding region, a
transmembrane helix, and a cytoplasmic region with a tyr
kinase domain and a regulatory C-terminal tail. Unlike
other tyr kinases, phosphorylation of the activation
loop of EGFR proteins is not critical to their
activation. Instead, they are activated by
ligand-induced dimerization, leading to the
phosphorylation of tyr residues in the C-terminal tail,
which serve as binding sites for downstream signaling
molecules. HER3 binds the neuregulin ligands, NRG1 and
NRG2. HER3 contains an impaired tyr kinase domain and
relies on its heterodimerization partners for activity
following ligand binding. The HER2-HER3 heterodimer
constitutes a high affinity co-receptor capable of
potent mitogenic signaling. HER3 participates in a
signaling pathway involved in the proliferation,
survival, adhesion, and motility of tumor cells.
Length = 279
Score = 28.8 bits (64), Expect = 4.2
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 6/44 (13%)
Query: 136 YNDDEVYKGADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLLSY 179
Y DD+ Y +Y+ P++WM E F +Q + SY
Sbjct: 160 YPDDKKY------FYSEHKTPIKWMALESILFGRYTHQSDVWSY 197
>gnl|CDD|133455 cd05313, NAD_bind_2_Glu_DH, NAD(P) binding domain of glutamate
dehydrogenase, subgroup 2. Amino acid dehydrogenase
(DH) is a widely distributed family of enzymes that
catalyzes the oxidative deamination of an amino acid to
its keto acid and ammonia with concomitant reduction of
NADP+. Glutamate DH is a multidomain enzyme that
catalyzes the reaction from glutamate to 2-oxyoglutarate
and ammonia in the presence of NAD or NADP. It is
present in all organisms. Enzymes involved in ammonia
asimilation are typically NADP+-dependent, while those
involved in glutamate catabolism are generally
NAD+-dependent. Amino acid DH-like NAD(P)-binding
domains are members of the Rossmann fold superfamily and
include glutamate, leucine, and phenylalanine DHs,
methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase, Shikimate
DH-like proteins, malate oxidoreductases, and glutamyl
tRNA reductase. Amino acid DHs catalyze the deamination
of amino acids to keto acids with NAD(P)+ as a cofactor.
The NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha -beta-alpha configuration.
NAD binding involves numerous hydrogen and van der Waals
contacts.
Length = 254
Score = 28.7 bits (65), Expect = 4.3
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 13/68 (19%)
Query: 370 LKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEVDRYFD 429
L D G + P FT E + L+EI+E + R + +YF+
Sbjct: 67 LSDSKGYVYDPDGFTG--EKL-----AELKEIKE------VRRGRVSEYAKKYGTAKYFE 113
Query: 430 AQKPWELK 437
+KPWE+
Sbjct: 114 GKKPWEVP 121
>gnl|CDD|29351 cd01167, bac_FRK, Fructokinases (FRKs) mainly from bacteria and
plants are enzymes with high specificity for fructose,
as are all FRKs, but they catalyzes the conversion of
fructose to fructose-6-phosphate, which is an entry
point into glycolysis via conversion into
glucose-6-phosphate. This is in contrast to FRKs [or
ketohexokinases (KHKs)] from mammalia and halophilic
archaebacteria, which phosphorylate fructose to
fructose-1-phosphate..
Length = 295
Score = 28.7 bits (64), Expect = 4.5
Identities = 20/82 (24%), Positives = 28/82 (34%), Gaps = 18/82 (21%)
Query: 30 IADVLARFHRLDGLDVLFTT--GTDEHGQKIAKAAQNAGV------------TTKVFVDQ 75
+A LAR G F G DE G + + + AGV TT FV
Sbjct: 34 VAVALARL----GGKAAFIGKVGDDEFGDFLLETLKEAGVDTRGIQFDPAAPTTLAFVTL 89
Query: 76 NSRNFRDMADVLDISYDDFIRT 97
++ R + D + T
Sbjct: 90 DADGERSFEFYRGPAADLLLDT 111
>gnl|CDD|132719 cd00630, RNAP_largest_subunit_C, Largest subunit of RNA polymerase
(RNAP), C-terminal domain. RNA polymerase (RNAP) is a
large multi-subunit complex responsible for the
synthesis of RNA. It is the principal enzyme of the
transcription process, and is the final target in many
regulatory pathways that control gene expression in all
living cells. At least three distinct RNAP complexes are
found in eukaryotic nuclei, RNAP I, RNAP II, and RNAP
III, for the synthesis of ribosomal RNA precursor, mRNA
precursor, and 5S and tRNA, respectively. A single
distinct RNAP complex is found in prokaryotes and
archaea, which may be responsible for the synthesis of
all RNAs. Structure studies revealed that prokaryotic
and eukaryotic RNAPs share a conserved crab-claw-shape
structure. The largest and the second largest subunits
each make up one clamp, one jaw, and part of the cleft.
The largest RNAP subunit (Rpb1) interacts with the
second-largest RNAP subunit (Rpb2) to form the DNA entry
and RNA exit channels in addition to the catalytic
center of RNA synthesis. The region covered by this
domain makes up part of the foot and jaw structures. In
archaea, some photosynthetic organisms, and some
organelles, this domain exists as a separate subunit,
while it forms the C-terminal region of the RNAP largest
subunit in eukaryotes and bacteria.
Length = 158
Score = 28.5 bits (64), Expect = 4.8
Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 13/91 (14%)
Query: 305 KSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIGNLVSR 364
K + N E++E +G++A R ++REI G+ V+ I ++++
Sbjct: 42 KEILNAASIHEMLEALGIEAARETIIREIQ----KVLASQGVS--VDRRHIELIADVMTY 95
Query: 365 SVSMILKDYDGMIPTPGAFTESDESILSVCS 395
S G+ T F S S L S
Sbjct: 96 SG-----GLRGV--TRSGFRASKTSPLMRAS 119
>gnl|CDD|107263 cd06268, PBP1_ABC_transporter_LIVBP_like, Periplasmic binding
domain of ATP-binding cassette transporter-like systems
that belong to the type I periplasmic binding fold
protein superfamily. Periplasmic binding domain of
ATP-binding cassette transporter-like systems that
belong to the type I periplasmic binding fold protein
superfamily. They are mostly present in archaea and
eubacteria, and are primarily involved in scavenging
solutes from the environment. ABC-type transporters
couple ATP hydrolysis with the uptake and efflux of a
wide range of substrates across bacterial membranes,
including amino acids, peptides, lipids and sterols, and
various drugs. These systems are comprised of
transmembrane domains, nucleotide binding domains, and
in most bacterial uptake systems, periplasmic binding
proteins (PBPs) which transfer the ligand to the
extracellular gate of the transmembrane domains. These
PBPs bind their substrates selectively and with high
affinity. Members of this group include ABC-type
Leucine-Isoleucine-Valine-Binding Proteins (LIVBP),
which are homologous to the aliphatic amidase
transcriptional repressor, AmiC, of Pseudomonas
aeruginosa. The uncharacterized periplasmic components
of various ABC-type transport systems are included in
this group.
Length = 298
Score = 28.5 bits (64), Expect = 4.8
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 44 DVLFTTGTDEHGQKIAKAAQNAGVTTKVF 72
D +F G K A+ AG+ +
Sbjct: 192 DAVFLAGYGGDAALFLKQAREAGLKVPIV 220
>gnl|CDD|38029 KOG2818, KOG2818, KOG2818, Predicted undecaprenyl diphosphate
synthase [Lipid transport and metabolism].
Length = 263
Score = 28.3 bits (63), Expect = 5.2
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 301 EKISKSLGNVIDPIEVIEEVGVDALR--YFLVREIACGKDGFYDKDGLKKRVNADLANGI 358
+K K L VI P+E E DA ++ V + YD+ G+KKR + + I
Sbjct: 62 KKGPKHLALVIHPVEDGEGSFSDASSIVFWAV-TVGIKYLSLYDRVGIKKRNMPVVRDEI 120
>gnl|CDD|32870 COG3056, COG3056, Uncharacterized lipoprotein [Cell envelope
biogenesis, outer membrane].
Length = 204
Score = 28.0 bits (62), Expect = 6.1
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 371 KDYDGMIPTPGAFTESDESILSVCSRVLQEIRENM-QNQLIHRALAQ 416
K+Y GAF+ S++ I V + VL ++ ++ Q+ + + Q
Sbjct: 155 KNYRATYNVEGAFSASNDEIADVLNSVLNDVIADIAQDTEVANFIKQ 201
>gnl|CDD|31207 COG1003, GcvP, Glycine cleavage system protein P
(pyridoxal-binding), C-terminal domain [Amino acid
transport and metabolism].
Length = 496
Score = 27.9 bits (62), Expect = 6.9
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 328 FLVREIACGKDGFYDKDGLKKRVNADLA 355
F V + C ++G D D L+ + +LA
Sbjct: 179 FKVVVVKCDENGNVDLDDLRAKAEDNLA 206
>gnl|CDD|107255 cd01542, PBP1_TreR_like, Ligand-binding domain of DNA
transcription repressor specific for trehalose (TreR)
which is a member of the LacI-GalR family of bacterial
transcription regulators. Ligand-binding domain of DNA
transcription repressor specific for trehalose (TreR)
which is a member of the LacI-GalR family of bacterial
transcription regulators. The ligand-binding domain of
TreR is structurally homologous to the periplasmic
sugar-binding domain of ABC-type transporters and both
domains contain the type I periplasmic binding
protein-like fold. The LacI-GalR family repressors are
composed of two functional domains: an N-terminal HTH
(helix-turn-helix) domain, which is responsible for the
DNA-binding specificity, and a C-terminal
ligand-binding domain, which is homologous to the type
I periplasmic binding proteins. As also observed in the
periplasmic binding proteins, the C-terminal domain of
the bacterial transcription repressor undergoes a
conformational change upon ligand binding which in turn
changes the DNA binding affinity of the repressor.
Length = 259
Score = 27.9 bits (63), Expect = 7.5
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 14/50 (28%)
Query: 24 HAYEMIIA-------------DVLARFHRLDGLDVLFTTGTDEHGQKIAK 60
+ Y+M++ ++LAR ++DG+ +L TT TDEH + I K
Sbjct: 28 NGYQMLLMNTNFSIEKEIEALELLAR-QKVDGIILLATTITDEHREAIKK 76
>gnl|CDD|72944 cd04659, Piwi_piwi-like_ProArk, Piwi_piwi-like_ProArk: PIWI domain,
Piwi-like subfamily found in Archaea and Bacteria. RNA
silencing refers to a group of related gene-silencing
mechanisms mediated by short RNA molecules, including
siRNAs, miRNAs, and heterochromatin-related guide RNAs.
The central component of the RNA-induced silencing
complex (RISC) and related complexes is Argonaute. The
PIWI domain is the C-terminal portion of Argonaute and
consists of two subdomains, one of which provides the 5'
anchoring of the guide RNA and the other, the catalytic
site for slicing. This domain is also found in closely
related proteins, including the Piwi subfamily, where it
is believed to perform a crucial role in germline cells,
via a similar mechanism..
Length = 404
Score = 27.7 bits (61), Expect = 7.7
Identities = 14/71 (19%), Positives = 22/71 (30%), Gaps = 11/71 (15%)
Query: 228 MYVWIDALTNYLTTTGYLDNPDGSKAKFWPA-----------DLHVIGKDILRFHAIYWP 276
YV + L T G + + P DL + IL + W
Sbjct: 319 TYVKLSDDEGLLWTHGSVPKYNTYPGMGTPRPLLLRRHSGNTDLEQLASQILGLTKLNWN 378
Query: 277 AFLLSANLPLP 287
+F + LP+
Sbjct: 379 SFQFYSRLPVT 389
>gnl|CDD|39627 KOG4426, KOG4426, KOG4426, Arginyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 656
Score = 27.6 bits (61), Expect = 9.0
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 16 PN--AQPHIGHAYEMIIADVLARFHRLDGLDVL 46
PN + H+GH II D L R G+DVL
Sbjct: 197 PNIAKEMHVGHLRSTIIGDSLCRLLEFSGVDVL 229
>gnl|CDD|173652 cd05100, PTKc_FGFR3, Catalytic domain of the Protein Tyrosine
Kinase, Fibroblast Growth Factor Receptor 3. Protein
Tyrosine Kinase (PTK) family; Fibroblast Growth Factor
Receptor 3 (FGFR3); catalytic (c) domain. The PTKc
family is part of a larger superfamily that includes the
catalytic domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. FGFR3 is
part of the FGFR subfamily, which are receptor tyr
kinases (RTKs) containing an extracellular
ligand-binding region with three immunoglobulin-like
domains, a transmembrane segment, and an intracellular
catalytic domain. The binding of FGFRs to their ligands,
the FGFs, results in receptor dimerization and
activation, and intracellular signaling. The binding of
FGFs to FGFRs is promiscuous, in that a receptor may be
activated by several ligands and a ligand may bind to
more that one type of receptor. Many FGFR3 splice
variants have been reported with the IIIb and IIIc
isoforms being the predominant forms. FGFR3 IIIc is the
isoform expressed in chondrocytes, the cells affected in
dwarfism, while IIIb is expressed in epithelial cells.
FGFR3 ligands include FGF1, FGF2, FGF4, FGF8, FGF9, and
FGF23. It is a negative regulator of long bone growth.
In the cochlear duct and in the lens, FGFR3 is involved
in differentiation while it appears to have a role in
cell proliferation in epithelial cells. Germline
mutations in FGFR3 are associated with skeletal
disorders including several forms of dwarfism. Some
missense mutations are associated with multiple myeloma
and carcinomas of the bladder and cervix. Overexpression
of FGFR3 is found in thyroid carcinoma.
Length = 334
Score = 27.3 bits (60), Expect = 9.1
Identities = 21/65 (32%), Positives = 27/65 (41%), Gaps = 16/65 (24%)
Query: 131 RDEAYYN----DDEVYKGADG---------QYYNAQHN---PVQWMEEEGYFFRLSAYQD 174
RD A N +D V K AD YY N PV+WM E F R+ +Q
Sbjct: 158 RDLAARNVLVTEDNVMKIADFGLARDVHNIDYYKKTTNGRLPVKWMAPEALFDRVYTHQS 217
Query: 175 KLLSY 179
+ S+
Sbjct: 218 DVWSF 222
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.322 0.139 0.422
Gapped
Lambda K H
0.267 0.0654 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 6,537,657
Number of extensions: 362362
Number of successful extensions: 972
Number of sequences better than 10.0: 1
Number of HSP's gapped: 939
Number of HSP's successfully gapped: 72
Length of query: 511
Length of database: 6,263,737
Length adjustment: 98
Effective length of query: 413
Effective length of database: 4,146,055
Effective search space: 1712320715
Effective search space used: 1712320715
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (27.0 bits)