RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780285|ref|YP_003064698.1| arginyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(586 letters)
>gnl|CDD|30368 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 476 bits (1226), Expect = e-135
Identities = 207/615 (33%), Positives = 309/615 (50%), Gaps = 68/615 (11%)
Query: 1 MYLFADFSSRLKNYLKEIDCKIKVEKKILDRIVIERPRDCAHGHLSTNAAMILSRPLGLD 60
M + ++ L I++E P+D HG +TN A L++ LG +
Sbjct: 1 MNIKQLLKEKIAEALSAA-----GLDVEEIEILVEPPKDPEHGDFATNIAFQLAKKLGKN 55
Query: 61 PLTIAELIVARIKIDPDVDSVFIAGKGFINLYLSPSYLRKILSSIVVSGIE-YGRNLIGK 119
P IAE I ++ D ++ V IAG GFIN +LSP +L ++L I+ G + YGR+ +GK
Sbjct: 56 PREIAEEIAEKLDTDEIIEKVEIAGPGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGK 115
Query: 120 GTKVNIEFVSANPTGPMHVGHCRCAVVGDTLASLMAFSGYEVTREYYINDAGAQINTLAL 179
G KV IE+ SANPTGP+H+GH R A++GD+LA ++ F GY+VTRE Y+ND G QI LAL
Sbjct: 116 GKKVVIEYSSANPTGPLHIGHLRNAIIGDSLARILEFLGYDVTRENYVNDWGTQIGMLAL 175
Query: 180 SVFWRYQQALYNNDSDLPEGYYPGVYLKHVGKELADKYS-SELLNFPEEKWLPIVKDYS- 237
S R ++AL Y G Y + K+L + E E + L + +
Sbjct: 176 SYEKRGREALG---LTPEPDGYLGEYYVKIAKDLEEDPGNDEEEAREEVEKLESGDEEAE 232
Query: 238 -----VQAMMKIIRDDLKALNIQHDIFISEDDFHRGDPSPIRDIIDNLARQGYVYEGILP 292
V ++ I++ L L ++ D++ SE + + ++++L +G +YE
Sbjct: 233 LWRKFVDLSLEGIKETLDRLGVKFDVYDSEGESFYNG--KVEKVVEDLEEKGLLYE---- 286
Query: 293 PPKSKTTQKCDMDRKQLLFRSTMVGDDVDRPLLKSDGSYTYFAADLAYFKCKYERGFDNM 352
L + GDD DR L KSDG+Y YF D+AY K+ERGFD +
Sbjct: 287 -DDGALVVD--------LLKFKKFGDDKDRVLQKSDGTYLYFTRDIAYHLYKFERGFDKL 337
Query: 353 IYVMGSDHSGYVKRLEAVAAAVSEKKAQINVLLCELVRLYRDGMPIKMSKRAGDFITLRH 412
IYV+G+D G+ K+L+AV + + VLL + V L R G +KMS RAG+ +TL
Sbjct: 338 IYVLGADQHGHFKQLKAVLELLGYGPDK-EVLLHQGVGLVRGGEGVKMSTRAGNVVTLDD 396
Query: 413 VVDE----------------------VGSDSVRFMMLWRKNSELLDFDFCKVKEQSKENP 450
++DE VG D+VR+ L R + FD+ K N
Sbjct: 397 LLDEAGERAPEEMEEKEEKNEEIAEVVGIDAVRYADLSRSRDKDYVFDWDKALSFEG-NT 455
Query: 451 VFYVQYAYARCRSIFRQAKDIFPDLDFDLFPRNVIPQESEFDTSELQLIVHLAEYPRVIE 510
YVQYA+AR SI R+A + DL + + E +L+ L E+P V+E
Sbjct: 456 APYVQYAHARICSILRKAGEDELDLSTEAD-------ALLTELEERELVKKLLEFPEVLE 508
Query: 511 NATIAQEPYKLAFYLYDLASVFHGHWSHGRENPRLRFVQANNRKLTMMRLQLVHAVASII 570
A EP++LA YLYDLA F+ ++ + A N +L RL LV A ++
Sbjct: 509 EAAEELEPHRLANYLYDLAGSFNSFYNA------CPVLGAENEELRAARLALVKATRQVL 562
Query: 571 NSGLNIIGVESPNEM 585
+GL+++G+E+P M
Sbjct: 563 KNGLDLLGIEAPERM 577
>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 = 209 bits (534), Expect = 2e-54
Identities = 97/285 (34%), Positives = 139/285 (48%), Gaps = 74/285 (25%)
Query: 122 KVNIEFVSANPTGPMHVGHCRCAVVGDTLASLMAFSGYEVTREYYINDAGAQINTLALSV 181
K+ +EFVSANPTGP+HVGH R A++GD+LA ++ F GY+VTREYYIND G QI L LS+
Sbjct: 1 KILVEFVSANPTGPLHVGHLRNAIIGDSLARILEFLGYDVTREYYINDWGRQIGLLILSL 60
Query: 182 FWRYQQALYNNDSDLPEGYYPGVYLKHVGKELADKYSSELLNFPEEKWLPIVKDYSVQAM 241
EKW +V++
Sbjct: 61 ---------------------------------------------EKWRKLVEE-----S 70
Query: 242 MKIIRDDLKALNIQHDIFISEDDFHRGDPSPIRDIIDNLARQGYVYEGILPPPKSKTTQK 301
+K + L+++ D++ E + +++ L G +YE
Sbjct: 71 IKADLETYGRLDVRFDVWFGESSYLGLMG----KVVELLEELGLLYE------------- 113
Query: 302 CDMDRKQLLFRSTMVGDDVDRPLLKSDGSYTYFAADLAYFKCKYERGFDNMIYVMGSDHS 361
+ L T GDD DR L++SDG+YTYF D+AY K+ERG D +IYV+G+DH
Sbjct: 114 ---EDGALWLDLTEFGDDKDRVLVRSDGTYTYFTRDIAYHLDKFERGADKIIYVVGADHH 170
Query: 362 GYVKRLEAVAAAVSEKKAQ-INVLLCELVRLYRDGMPIKMSKRAG 405
G+ KRL A + +A+ + LL +V L ++G KMS RAG
Sbjct: 171 GHFKRLFAALELLGYDEAKKLEHLLYGMVNLPKEG---KMSTRAG 212
>gnl|CDD|144375 pfam00750, tRNA-synt_1d, tRNA synthetases class I (R). Other tRNA
synthetase sub-families are too dissimilar to be
included. This family includes only arginyl tRNA
synthetase.
Length = 345
Score = 196 bits (499), Expect = 2e-50
Identities = 106/369 (28%), Positives = 163/369 (44%), Gaps = 54/369 (14%)
Query: 101 ILSSIVVSGIEYGRNLIGKGTKVNIEFVSANPTGPMHVGHCRCAVVGDTLASLMAFSGYE 160
I++ I+ G + + + KV +EF S NP P+HVGH R ++GD L+ L+ F GY+
Sbjct: 1 IVTKILAQGGL--GSALLENKKVVVEFSSPNPAKPIHVGHLRSTIIGDALSRLLEFLGYD 58
Query: 161 VTREYYINDAGAQINTLALSVFWRYQQALYNND--SDLPEGYYPGVYLKHVGKELADKYS 218
V RE Y+ D G Q L S+ ++ L DL +G Y G+ ++ +E+ K +
Sbjct: 59 VVRENYVGDWGTQFGMLIASLEAAAKEELTVPMPIQDLEDG-YRGIKKDYIAEEIFAKEA 117
Query: 219 SELLNFPEEKWLPIVKDYSVQAMMKIIRDDLKALNIQHDIFISEDDFHRGDPSPIRDIID 278
+ + ++ V + I+ L + D+ + E + D +
Sbjct: 118 RNAVVLLQSG-DEEFREMWVLLIFDHIKQSLNKIYDDFDVTLHEGESVYKGRMN--DAVK 174
Query: 279 NLARQGYVYEGILPPPKSKTTQKCDMDRKQLLFRSTMVGDDVDRPLLKSDGSYTYFAADL 338
+L G VYE + L T GDD DR ++KSDG Y DL
Sbjct: 175 DLKDNGLVYE----------------NDGALWLFLTEFGDDKDRVVIKSDGGALYITTDL 218
Query: 339 AYFKCKYE-RGFDNMIYVMGSDHSGYVKRLEAVAAAVSEKKAQINVL-LCELVRLYRDGM 396
AY K + E RGFD +IYV+G+D G+++RL A AAA+ + VL + V L +DG
Sbjct: 219 AYAKERLEQRGFDLIIYVLGADQHGHIQRLFAAAAALGYDPESVEVLHIGFGVVLGKDGK 278
Query: 397 PIKMSKRAGDFITLRHVVDE--------------------------VGSDSVRFMMLWRK 430
MS RAG+ +TL ++DE +G D+ R+ L
Sbjct: 279 R--MSTRAGNVVTLDDLLDEALERAMDIKEKNRDLTADELEAVATAIGVDAARYADLSSN 336
Query: 431 NSELLDFDF 439
FD
Sbjct: 337 RDTDYIFDL 345
>gnl|CDD|36409 KOG1195, KOG1195, KOG1195, Arginyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 567
Score = 130 bits (329), Expect = 9e-31
Identities = 124/552 (22%), Positives = 215/552 (38%), Gaps = 106/552 (19%)
Query: 84 AGKGFINLYLSPSYLRK-ILSSIVVSGIEYGRNLIGKGTKVNIEFVSANPTGPMHVGHCR 142
A F+ +L+ L K +L I +YG+N +G G K+ +EF S N P HVGH R
Sbjct: 72 ASGPFVQFFLNRRRLIKSVLPIIEEQREKYGKNELGSGKKIVVEFSSPNIAKPFHVGHLR 131
Query: 143 CAVVGDTLASLMAFSGYEVTREYYINDAGAQINTLALSVFWRYQQALYNNDSDL---PEG 199
++G+ LA+L G+EVTR Y+ D G Q LAL LY ++ +L P
Sbjct: 132 STIIGNFLANLHEALGWEVTRVNYLGDWGKQFGLLALGF------QLYGDEEELQLNPIK 185
Query: 200 YYPGVYLKHVGKELADKYS---------SELLNFPEE---KWLPIVKDYSVQAMMKIIRD 247
+ VY+K + K+ L + EE W +D S++ ++K
Sbjct: 186 HLFDVYVK-INKDAEKDPDTAEEAREFFKRLEDGDEEHLKLWQRF-RDLSIEKLIKT--- 240
Query: 248 DLKALNIQHDIFISEDDFHRGDPSPIRDIIDNLARQGYVYEGILPPPKSKTTQKCDMDRK 307
LN++ D + E +++ +D L E
Sbjct: 241 -YNRLNVKFDEYSGESQVSN---EKMQEALDLLRSANLTEE----------------IDG 280
Query: 308 QLLFRSTMVGDDVDR-PLLKSDGSYTYFAADLAYFKCKYER-GFDNMIYVMGSDHSGYVK 365
++ + + + + KSDG+ Y D+A + E+ FD +IYV+ S +
Sbjct: 281 TIVIDLSKIDKKAGKAVVQKSDGTTLYLTRDIAAALDRLEKYSFDRLIYVVDSQQKDHFC 340
Query: 366 RLEAVAAAVSEKKAQINVLLCELVRLYRDGMPIKMSKRAGDFITLRHVVDE--------- 416
+L + + A+ + V G MS R G + L +++E
Sbjct: 341 QLFEILKKMGFDWAK----KLQHVNF---GRVQGMSTRKGKVVFLDDILEEAREQMLEVM 393
Query: 417 -------------------VGSDSVRFMMLWRKNSELLDFDFCKVKEQSKENPVFYVQYA 457
+G +V + +F + +V + + Y+QY
Sbjct: 394 ASNKTKPVQMANPDEVADRLGLSAVIVQDFKGRRISNYEFSWNRVL-SFEGDTGPYLQYT 452
Query: 458 YARCRSIFRQAKDIFPDL----DFDLFPRNVIPQESEFDTSELQLIVHLAEYPRVIENAT 513
++R RS+ R+ D+ D DF L L L+ L ++P V+E +
Sbjct: 453 HSRLRSLERKFSDVTLDDLDEIDFSLLTEPDA----------LLLVRLLLQFPEVVEKSM 502
Query: 514 IAQEPYKLAFYLYDLASVFHGHWSHGRENPRLRFVQANNRKLTMMRLQLVHAVASIINSG 573
EP L YL+ LA + V+ + ++ + RL L AV ++N+G
Sbjct: 503 EQLEPCTLVTYLFKLAHAVSSAYKILW-------VKDSPMEIALARLLLFSAVRQVLNNG 555
Query: 574 LNIIGVESPNEM 585
+ ++G+ + M
Sbjct: 556 MRLLGITPVDRM 567
>gnl|CDD|39627 KOG4426, KOG4426, KOG4426, Arginyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 656
Score = 129 bits (326), Expect = 2e-30
Identities = 144/595 (24%), Positives = 251/595 (42%), Gaps = 98/595 (16%)
Query: 43 GHLSTNAAMILSRPL-----GLDPLTIAELIVARIKIDPDVDSVFIAGKGFINLYLSPSY 97
G N AM LS L P +A+ + + V+ IAG GFIN++LS Y
Sbjct: 108 GDYQCNNAMGLSSKLKGKGINKRPRDVAQELQKHLPTSEMVEKCEIAGPGFINVFLSKDY 167
Query: 98 LRKILSSIVVSGIEYGRNLIGKGTKVNIEFVSANPTGPMHVGHCRCAVVGDTLASLMAFS 157
+ K +S+++V+G++ L K +V ++F S N MHVGH R ++GD+L L+ FS
Sbjct: 168 MSKQISNLLVNGVKLPT-LSVK--RVLVDFSSPNIAKEMHVGHLRSTIIGDSLCRLLEFS 224
Query: 158 GYEVTREYYINDAGAQINTLALSVFWRYQQALYNND--SDLPEGYYPGVYLKHVGKELAD 215
G +V R ++ D G Q L +F ++ L + DL Y KE
Sbjct: 225 GVDVLRRNHVGDWGTQFGMLIAHLFDKFPDYLSVSPPIGDLQVFY----------KESKK 274
Query: 216 KYSSELLNFPEEKWLPIVK-----DYSVQAMMKIIRDDLKALNIQH---DIFISE--DDF 265
++ + F + + +V+ +A I K + DI + E + F
Sbjct: 275 RFDED-EEFKKRAYQAVVRLQGGDPDIRKAWALICDVSRKEFQKVYNRLDISLKERGESF 333
Query: 266 HRGDPSPIRDIIDNLARQGYVYEGILPPPKSKTTQKCDMDRKQLLFRSTMVGDDVDRPLL 325
++ + ++++ L +G V E D ++++F G D+ ++
Sbjct: 334 YQ---DRMAEVVEELKSKGLVEED---------------DGRRIMF---PEGCDIPLTVV 372
Query: 326 KSDGSYTYFAADLAYFKCK-YERGFDNMIYVMGSDHSGYVKRLEAVA---AAVSEKKAQI 381
KSDG +TY +DLA K + E D +IYV+ S S + + A + ++
Sbjct: 373 KSDGGFTYDTSDLAALKYRLNEEKADWIIYVVDSGQSQHFNTIFKAARKAGWLDPTYPRV 432
Query: 382 NVLLCELVRLYRDGMPIKMSKRAGDFITLRHVVDE------------------------- 416
+ LV L D K R+G+ + L ++DE
Sbjct: 433 EHVGFGLV-LGEDKK--KFKTRSGETVRLLDLLDEGKKRSKEKLIERGRDKVLTPEELDA 489
Query: 417 ----VGSDSVRFMMLWRKNSELLD--FDFCKVKEQSKENPVFYVQYAYARCRSIFRQAKD 470
V +++ L ++ + D F F K+ E + N Y+ YAY R SI R++
Sbjct: 490 AQEAVAYGCIKYADL--SHNRITDYIFSFDKMLE-DRGNTAVYLLYAYTRICSIARKSGK 546
Query: 471 IFPDLDFDLFPRNVIPQESEFDTSELQLIVHLAEYPRVIENATIAQEPYKLAFYLYDLAS 530
DL +L I + E E +L HL ++ ++E A + + L YLY+LA+
Sbjct: 547 DNVDLIKELKKTGKIALDHE---KEWKLGKHLLKFAEIVEKALDSLFLHVLCDYLYELAT 603
Query: 531 VFHGHWSHGRENPRLRFVQANNRKLTMMRLQLVHAVASIINSGLNIIGVESPNEM 585
+F + + + + + M RL L A A+++ +I+G++ +M
Sbjct: 604 LFTEFYDSCYVIEKNK--EGEIPFVNMSRLLLCEATAAVMRKCFHILGIKPVYKM 656
>gnl|CDD|153410 cd07956, Anticodon_Ia_Arg, Anticodon-binding domain of arginyl tRNA
synthetases. This domain is found in arginyl tRNA
synthetases (ArgRS), 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. ArgRS catalyzes the
transfer of arginine to the 3'-end of its tRNA.
Length = 156
Score = 115 bits (290), Expect = 4e-26
Identities = 56/175 (32%), Positives = 91/175 (52%), Gaps = 23/175 (13%)
Query: 415 DEVGSDSVRFMMLWRKNSELLDFDFCKVKEQSKE-NPVFYVQYAYARCRSIFRQAKDIFP 473
+EVG +V++ L K + FD+ ++ S E + Y+QYA+AR SI R+A +
Sbjct: 1 EEVGVGAVKYQDLSNKRIKDYTFDWERM--LSFEGDTGPYLQYAHARLCSILRKAGETIE 58
Query: 474 ---DLDFDLFPRNVIPQESEFDTSELQLIVHLAEYPRVIENATIAQEPYKLAFYLYDLAS 530
D D L +P+ E D LI+ LA++P V++NA EP+ +A YL+DLA
Sbjct: 59 AEADADLSL-----LPEPDERD-----LILLLAKFPEVVKNAAETLEPHTIATYLFDLAH 108
Query: 531 VFHGHWSHGRENPRLRFVQANNRKLTMMRLQLVHAVASIINSGLNIIGVESPNEM 585
F ++ + A +L RL LV A ++ +GL+++G+E+P M
Sbjct: 109 AFSKFYNA------CPVLGAEE-ELRNARLALVAAARQVLANGLDLLGIEAPERM 156
>gnl|CDD|147737 pfam05746, DALR_1, DALR anticodon binding domain. This all alpha
helical domain is the anticodon binding domain in
Arginyl and glycyl tRNA synthetase. This domain is known
as the DALR domain after characteristic conserved amino
acids.
Length = 117
Score = 106 bits (268), Expect = 1e-23
Identities = 45/132 (34%), Positives = 74/132 (56%), Gaps = 15/132 (11%)
Query: 454 VQYAYARCRSIFRQAKDIFPDLDFDLFPRNVIPQESEFDTSELQLIVHLAEYPRVIENAT 513
+QYA+AR SI R+A ++ +LD I + E +L+ L ++P V+E A
Sbjct: 1 LQYAHARICSILRKAGELGINLD--------IDALLLLEEEEKELLKALLQFPEVVEEAA 52
Query: 514 IAQEPYKLAFYLYDLASVFHGHWSHGRENPRLRFVQANNRKLTMMRLQLVHAVASIINSG 573
EP++LA YLYDLAS FH +++ R V + + RL L+ AV ++ +G
Sbjct: 53 EELEPHRLANYLYDLASAFHSFYNNCR-------VLDEDDEERNARLALLKAVRQVLKNG 105
Query: 574 LNIIGVESPNEM 585
L+++G+E+P +M
Sbjct: 106 LDLLGIEAPEKM 117
>gnl|CDD|146238 pfam03485, Arg_tRNA_synt_N, Arginyl tRNA synthetase N terminal
domain. This domain is found at the amino terminus of
Arginyl tRNA synthetase, also called additional domain
1 (Add-1). It is about 140 residues long and it has
been suggested that this domain will be involved in
tRNA recognition.
Length = 84
Score = 78.4 bits (194), Expect = 5e-15
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 7 FSSRLKNYLKEIDCKIKVEKKILDRIVIERPRDCAHGHLSTNAAMILSRPLGLDPLTIAE 66
+ L + VIE P+D G +TN AM+L++ L +P IAE
Sbjct: 3 LKKAIAAALAKAG-----LDLEEIDPVIETPKDPEFGDYATNVAMLLAKKLKKNPREIAE 57
Query: 67 LIVARIKIDPDVDSVFIAGKGFINLYL 93
I ++ ++ V IAG GFIN +L
Sbjct: 58 EIAEKLPKSDLIEKVEIAGPGFINFFL 84
>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 = 41.7 bits (98), Expect = 5e-04
Identities = 20/54 (37%), Positives = 24/54 (44%)
Query: 125 IEFVSANPTGPMHVGHCRCAVVGDTLASLMAFSGYEVTREYYINDAGAQINTLA 178
F P G +H+GH R V D LA GY+V I+DAG I A
Sbjct: 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIGDPA 54
>gnl|CDD|30492 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 40.6 bits (95), Expect = 0.001
Identities = 36/164 (21%), Positives = 50/164 (30%), Gaps = 63/164 (38%)
Query: 132 PTGPMHVGHCRCAVVGDTLASLMAFSGYEV-----TREYYINDAGAQINTLALSVFWRYQ 186
P GP H+GH + D A + GYEV T E+ G +I A
Sbjct: 16 PNGPPHLGHLYTYLAADVYARYLRLRGYEVFFLTGTDEH-----GTKIELKAEK------ 64
Query: 187 QALYNNDSDLPEGYYPGVYLKHVGKELADKYSSELLNFPEEKWLPIVKDYSVQAMMKIIR 246
EG P +EL DK + +
Sbjct: 65 -----------EGITP--------QELVDKNH------------------------EEFK 81
Query: 247 DDLKALNIQHDIFIS-EDDFHRGDPSPIRDIIDNLARQGYVYEG 289
+ KALNI D FI H+ +++ L G +Y
Sbjct: 82 ELFKALNISFDNFIRTTSPEHKEL---VQEFFLKLYENGDIYLR 122
Score = 30.2 bits (68), Expect = 1.6
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDFDF 439
KMSK G+ + ++++ G D++R+ + R+ E D DF
Sbjct: 333 KMSKSRGNVVDPDELLEQYGVDALRYYLA-RELPEGSDGDF 372
>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 = 38.7 bits (91), Expect = 0.004
Identities = 39/164 (23%), Positives = 52/164 (31%), Gaps = 63/164 (38%)
Query: 132 PTGPMHVGHCRCAVVGDTLASLMAFSGYEV-----TREYYINDAGAQINTLALSVFWRYQ 186
G H+GH V+ D A GY+V T E+ G +I A
Sbjct: 11 VNGVPHLGHLYGTVLADVFARYQRLRGYDVLFVTGTDEH-----GTKIEQKAEE------ 59
Query: 187 QALYNNDSDLPEGYYPGVYLKHVGKELADKYSSELLNFPEEKWLPIVKDYSVQAMMKIIR 246
EG P +EL DKY +I +
Sbjct: 60 -----------EGVTP--------QELCDKYH------------------------EIFK 76
Query: 247 DDLKALNIQHDIFIS-EDDFHRGDPSPIRDIIDNLARQGYVYEG 289
D K LNI D FI H+ +++ L GY+YEG
Sbjct: 77 DLFKWLNISFDYFIRTTSPRHKE---IVQEFFKKLYENGYIYEG 117
>gnl|CDD|30564 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 36.7 bits (85), Expect = 0.016
Identities = 24/110 (21%), Positives = 44/110 (40%), Gaps = 14/110 (12%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMML---WRKNSELLDFDFCKVKEQSKENPVFYVQ 455
KMSK G+FIT+R ++ + + +R +L +R DF + + + + +
Sbjct: 268 KMSKSLGNFITVRDLLKKYDPEVLRLFLLSSHYRS-----PLDFSEELLEEAKKALERLY 322
Query: 456 YAYARCRSIFRQAKDIFPDLDFDLFPRNVIPQ-ESEFDTSE-LQLIVHLA 503
A R R D F + +F+T + L ++ LA
Sbjct: 323 NALRR----LRDLAGDAELADLKEFEARFREALDDDFNTPKALAVLFELA 368
Score = 33.3 bits (76), Expect = 0.18
Identities = 22/78 (28%), Positives = 30/78 (38%), Gaps = 10/78 (12%)
Query: 137 HVGHCRCAVVGDTLASLMAFSGYEVTREYYIND------AGAQINTLALSVFWRYQQALY 190
H+GH R VV D L + + GY+VT I D A+ L++ A +
Sbjct: 37 HIGHARTYVVFDVLRRYLRYLGYKVTYVRNITDIDDKIINRAREEGLSIREVAERYIAAF 96
Query: 191 NNDSD----LPEGYYPGV 204
D D LP P
Sbjct: 97 FEDMDALNVLPPDIEPRA 114
>gnl|CDD|30409 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 36.3 bits (84), Expect = 0.023
Identities = 31/122 (25%), Positives = 51/122 (41%), Gaps = 6/122 (4%)
Query: 328 DGSYTYFAADLAYFKCKYERGFDNMIYVMGSD-HSGYVKRLEAVAAAVSEKKAQINVLLC 386
D T +A K+ F + Y+ GSD G+ + A+ + NVL
Sbjct: 534 DSGSTPYAVLHPRENLKFPALFADF-YLEGSDQTRGWFYSSLLTSTALFGRAPYKNVLTH 592
Query: 387 ELVRLYRDGMPIKMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDFDFCKVKEQS 446
V D KMSK G+ + + V+D+ G+D +R + E L F ++ +Q
Sbjct: 593 GFVL---DEKGRKMSKSLGNVVDPQDVIDKYGADILRLWVASSDYWEDLRFSD-EILKQV 648
Query: 447 KE 448
+E
Sbjct: 649 RE 650
>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 = 36.2 bits (84), Expect = 0.025
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 4/85 (4%)
Query: 344 KYERGFDNMIYVMGSD-HSGYVKRLEAVAAAVSEKKAQINVLLCELVRLYRDGMPIKMSK 402
+++R F + + GSD G+ R+ + A++ NVL+ LVR D KMSK
Sbjct: 514 EFKRFFPADMLLEGSDQTRGWFYRMIVLGTALTGSAPYKNVLVHGLVR---DEQGRKMSK 570
Query: 403 RAGDFITLRHVVDEVGSDSVRFMML 427
G+ I V+D+ G+D++R +
Sbjct: 571 SLGNVIDPLDVIDKYGADALRLWLA 595
>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 = 35.2 bits (82), Expect = 0.045
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDF 437
KMSK G+FIT+R + + + +R +L LDF
Sbjct: 174 KMSKSLGNFITVRDALKKYDPEVLRLALLSSHYRSPLDF 212
Score = 31.0 bits (71), Expect = 0.90
Identities = 30/106 (28%), Positives = 37/106 (34%), Gaps = 22/106 (20%)
Query: 121 TKVNIEFVSANPT-------GP-----MHVGHCRCAVVGDTLASLMAFSGYEVTREYYIN 168
T+ EFV NP GP H+GH R VV D L + GY+V I
Sbjct: 7 TRQKEEFVPLNPGLVTMYVCGPTVYDYAHIGHARTYVVFDVLRRYLEDLGYKVRYVQNIT 66
Query: 169 DAGAQINTLA--LSVFW----RYQQALYNNDSD----LPEGYYPGV 204
D +I A + W Y + D LP P V
Sbjct: 67 DIDDKIIKRAREEGLSWKEVADYYTKEFFEDMKALNVLPPDVVPRV 112
>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 = 35.3 bits (82), Expect = 0.046
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 382 NVLLCELVRLYRDGMPIKMSKRAGDFITLRHVVDEVGSDSVRF 424
V L LVR D KMSK G+ I V+D G+D++RF
Sbjct: 329 EVYLHGLVR---DEDGRKMSKSLGNVIDPLDVIDGYGADALRF 368
Score = 28.0 bits (63), Expect = 6.7
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 131 NPTGPMHVGHCRCAVVGDTLASLMAFSGYEV 161
N TG +H+GH + D +A GY V
Sbjct: 11 NVTGSLHMGHALNNTIQDIIARYKRMKGYNV 41
>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 = 35.3 bits (82), Expect = 0.047
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 354 YVMGSD-HSGYVKRLEAVAAAVSEKKAQINVLLCELVRLYRDGMPIKMSKRAGDFITLRH 412
+ GSD G+ L ++ A+ K NV++ V L DG KMSK G+++ +
Sbjct: 256 ILEGSDQTRGWFYSLLLLSTALFGKAPYKNVIVHGFV-LDEDGR--KMSKSLGNYVDPQE 312
Query: 413 VVDEVGSDSVRFMMLW 428
VVD+ G+D++R +
Sbjct: 313 VVDKYGADALRLWVAS 328
>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 = 34.5 bits (80), Expect = 0.075
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 132 PTGPMHVGHCRCAVVGDTLASLMAFSGYEV 161
P+G +HVGH R +GD +A GY V
Sbjct: 11 PSGALHVGHVRTYTIGDIIARYKRMQGYNV 40
Score = 34.5 bits (80), Expect = 0.089
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMML 427
KMSK G+ +T + + G+D+ R +L
Sbjct: 275 KMSKSKGNVVTPDEAIKKYGADAARLYIL 303
>gnl|CDD|35658 KOG0437, KOG0437, KOG0437, Leucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 1080
Score = 33.8 bits (77), Expect = 0.12
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRF 424
KMSK G+F+TL +++ G+D R
Sbjct: 710 KMSKSTGNFMTLEQAIEKFGADGTRL 735
>gnl|CDD|35656 KOG0435, KOG0435, KOG0435, Leucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 876
Score = 33.8 bits (77), Expect = 0.12
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 132 PTGPMHVGHCRCAVVGDTLASLMAFSGYEV 161
P+G +H+GH R + D LA GY V
Sbjct: 68 PSGALHIGHVRVYTISDILARFYRMKGYNV 97
>gnl|CDD|30871 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 33.7 bits (77), Expect = 0.14
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 391 LYRDGMPIKMSKRAGDFITLRHVVDEVGSDSVRFMM 426
L RD KMSK G+ I V+D+ G+D++RF +
Sbjct: 517 LVRDEQGRKMSKSKGNVIDPLDVIDKYGADALRFTL 552
>gnl|CDD|35655 KOG0434, KOG0434, KOG0434, Isoleucyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 1070
Score = 33.4 bits (76), Expect = 0.16
Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 7/105 (6%)
Query: 342 KCKYERGFDNMIYVMGSDHS-GYVKRLEAVAAAVSEKKAQINVLLCELVRLYRDGMPIKM 400
K ++E F G D + G+ L ++ A+ K NV++ LV L DG KM
Sbjct: 546 KEEFEENFPADFIAEGLDQTRGWFYTLLVLSTALFGKPPFKNVIVNGLV-LAEDGK--KM 602
Query: 401 SKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDFDFCKVKEQ 445
SKR ++ ++++ G+D++R ++ NS ++ + K KE+
Sbjct: 603 SKRLKNYPDPSLIINKYGADALRLYLI---NSPVVRAENLKFKEE 644
>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 = 33.1 bits (76), Expect = 0.21
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 398 IKMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSEL-LDFD 438
KMS G+ IT ++ + +R++ RKN E + FD
Sbjct: 274 GKMSSSKGNVITPSDWLEVAPPEVLRYLYARRKNPEKHIGFD 315
>gnl|CDD|30841 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 32.9 bits (75), Expect = 0.24
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 132 PTGPMHVGHCRCAVVGDTLASLMAFSGYEV 161
P+G +HVGH R +GD +A GY V
Sbjct: 45 PSGALHVGHVRNYTIGDVIARYKRMQGYNV 74
Score = 31.8 bits (72), Expect = 0.56
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMML 427
KMSK G+ + V++ G+D+VR ++
Sbjct: 579 KMSKSKGNVVDPEEAVEKYGADTVRLYIM 607
>gnl|CDD|31574 COG1384, LysS, Lysyl-tRNA synthetase (class I) [Translation,
ribosomal structure and biogenesis].
Length = 521
Score = 32.5 bits (74), Expect = 0.29
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 397 PIKMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDFDF 439
KMS G+ I+L ++ + +R+++ K + +DFDF
Sbjct: 275 GGKMSSSKGNVISLSDWLEVAPPEVLRYLIARTKPNRHIDFDF 317
>gnl|CDD|185682 cd09287, GluRS_non_core, catalytic core domain of
non-discriminating glutamyl-tRNA synthetase.
Non-discriminating Glutamyl-tRNA synthetase (GluRS)
cataytic core domain. These enzymes attach Glu to the
appropriate tRNA. Like other class I tRNA synthetases,
they aminoacylate the 2'-OH of the nucleotide at the 3'
end of the 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. These enzymes function as
monomers. Archaea and most bacteria lack GlnRS. In these
organisms, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme.
Length = 240
Score = 32.3 bits (74), Expect = 0.41
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 131 NPTGPMHVGHCRCAVVGDTLA 151
NP GP+H+GH R A++ A
Sbjct: 9 NPNGPLHLGHARAAILNGEYA 29
>gnl|CDD|37218 KOG2007, KOG2007, KOG2007, Cysteinyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 586
Score = 31.5 bits (71), Expect = 0.62
Identities = 21/108 (19%), Positives = 38/108 (35%), Gaps = 14/108 (12%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDFDFCKVKEQSKENPVFYVQYAY 458
KMSK +FIT++ + + +R L + LD+ ++ +
Sbjct: 305 KMSKSLKNFITIKEALKKYSPRQLRLAFLLHQWRSPLDY---------SDSTMEQALQLE 355
Query: 459 ARCRSIFRQAKDIFPDLDFDLFPRNVIPQESEF--DTSELQLIVHLAE 504
+ F K + L + +E+E D + Q VH A
Sbjct: 356 KSLNNFFLDVKAL---LRGAKPFEKLSEKEAELLEDFGKTQTAVHAAL 400
>gnl|CDD|110410 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic
domain. This family includes only cysteinyl tRNA
synthetases.
Length = 301
Score = 31.5 bits (72), Expect = 0.65
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 137 HVGHCRCAVVGDTLASLMAFSGYEVT 162
H+GH R AV D L + GY+V
Sbjct: 24 HIGHARSAVAFDVLRRYLQALGYDVQ 49
>gnl|CDD|147298 pfam05041, Pecanex_C, Pecanex protein (C-terminus). This family
consists of C terminal region of the pecanex protein
homologues. The pecanex protein is a maternal-effect
neurogenic gene found in Drosophila.
Length = 232
Score = 31.0 bits (70), Expect = 0.92
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 409 TLRHVVDEVGSDSVRFMMLWRKNSELLDFDFCKVKEQ 445
TLRHVVD+ G+D + +ML R+ L F K+ +
Sbjct: 135 TLRHVVDD-GTDEYKIIMLTRR---HLSFKVIKLNRE 167
>gnl|CDD|37033 KOG1822, KOG1822, KOG1822, Uncharacterized conserved protein
[Function unknown].
Length = 2067
Score = 31.1 bits (70), Expect = 0.99
Identities = 26/135 (19%), Positives = 49/135 (36%), Gaps = 13/135 (9%)
Query: 154 MAFSGYEVTREYYINDAGAQINTLALSVFWRYQQALYNNDSDLPEGYYPGVYLKHVGKEL 213
M+ + + E + + Q + + RY + +L E L +L
Sbjct: 1 MSLASLLLLNETSLVASPEQKRPVFCLEWLRYL------ERNLNE--EQKEDLLVTQLKL 52
Query: 214 ADKYSSELLNFPEEKWLPIVKDYSVQAMMKIIRDDLKALNIQHDIFISEDDFHRGDPSPI 273
+ S L N P K SV A+ ++I + + ++ + D G PS
Sbjct: 53 EQQLISRLTNGAG---PPTRKLISV-AIARLI-SNGDSFSLYSRLNSCNDFLSDGSPSDP 107
Query: 274 RDIIDNLARQGYVYE 288
+ + L+ G +YE
Sbjct: 108 QRKLAALSCLGSLYE 122
>gnl|CDD|110451 pfam01450, IlvC, Acetohydroxy acid isomeroreductase, catalytic
domain. Acetohydroxy acid isomeroreductase catalyses
the conversion of acetohydroxy acids into dihydroxy
valerates. This reaction is the second in the synthetic
pathway of the essential branched side chain amino acids
valine and isoleucine.
Length = 146
Score = 30.3 bits (69), Expect = 1.6
Identities = 23/113 (20%), Positives = 40/113 (35%), Gaps = 26/113 (23%)
Query: 338 LAYFKC----------KYERGFDNMIYVMGSDHSGYVKRLEAVAAAVSEKKAQINVLLCE 387
+AYF+ YE G M + S + Y L K + +L +
Sbjct: 40 IAYFETLHELKLIVDLIYEGGLSGMRDSI-STTAEYGAYLWGPRIITEATKILMKEILKD 98
Query: 388 LVRLYRDGMPIK---MSKRAGD--FITLR-----HVVDEVGSDSVRFMMLWRK 430
+ ++G K + AG+ R H +++VG +R +M K
Sbjct: 99 I----QNGTFAKEWLLENSAGNPRLNKERKEIREHPIEKVGKK-LRKLMPELK 146
>gnl|CDD|100095 cd05802, GlmM, GlmM is a bacterial phosphoglucosamine mutase (PNGM)
that belongs to the alpha-D-phosphohexomutase
superfamily. It is required for the interconversion of
glucosamine-6-phosphate and glucosamine-1-phosphate in
the biosynthetic pathway of UDP-N-acetylglucosamine, an
essential precursor to components of the cell envelope.
In order to be active, GlmM must be phosphorylated,
which can occur via autophosphorylation or by the
Ser/Thr kinase StkP. GlmM functions in a classical
ping-pong bi-bi mechanism with
glucosamine-1,6-diphosphate as an intermediate. Other
members of the alpha-D-phosphohexomutase superfamily
include phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model..
Length = 434
Score = 30.1 bits (69), Expect = 1.8
Identities = 23/78 (29%), Positives = 30/78 (38%), Gaps = 20/78 (25%)
Query: 2 YLFADFSSRLKNYLKEIDCKIKVEKKILD--RIVIERPRDCAHGHLSTNAAMILSRPLGL 59
Y D R +LK K +L +IV+ DCA+G A + LG
Sbjct: 145 YRIDDARGRYIEFLKST-----FPKDLLSGLKIVL----DCANGAAYKVAPEVFRE-LG- 193
Query: 60 DPLTIAELIVARIKIDPD 77
AE+IV I PD
Sbjct: 194 -----AEVIV--INNAPD 204
>gnl|CDD|133142 cd05475, nucellin_like, Nucellins, plant aspartic proteases
specifically expressed in nucellar cells during
degradation. Nucellins are important regulators of
nucellar cell's progressive degradation after ovule
fertilization. This degradation is a characteristic of
programmed cell death. Nucellins are plant aspartic
proteases specifically expressed in nucellar cells
during degradation. The enzyme is characterized by
having two aspartic protease catalytic site motifs, the
Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in
the C-terminal region, and two other regions nearly
identical to two regions of plant aspartic proteases.
Aspartic proteases are bilobal enzymes, each lobe
contributing a catalytic Asp residue, with an extended
active site cleft localized between the two lobes of the
molecule. One lobe may be evolved from the other through
ancient gene-duplication event. Although the
three-dimensional structures of the two lobes are very
similar, the amino acid sequences are more divergent,
except for the conserved catalytic site motif.
Length = 273
Score = 30.0 bits (68), Expect = 1.9
Identities = 15/34 (44%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 309 LLFRSTMVGDDVDRPLLKSDGSYTYFAADLAYFK 342
LLF G + S SYTYF A AYFK
Sbjct: 166 LLFNGQPTGGKGLEVVFDSGSSYTYFNAQ-AYFK 198
>gnl|CDD|143812 pfam00022, Actin, Actin.
Length = 369
Score = 29.5 bits (67), Expect = 2.7
Identities = 31/128 (24%), Positives = 48/128 (37%), Gaps = 34/128 (26%)
Query: 57 LGLDPLTIAELIVARI-KIDPDVDSVFIAGKGFINLYLSPSYLRK-ILSSIVVSGIEYGR 114
+G + I ELI I D D LR +L++IVV+G G
Sbjct: 260 IGSESAGIPELIYDSINACDVD--------------------LRPSLLANIVVTG---GT 296
Query: 115 NLI-GKGTKVNIEFVSANPTGP---MH-VGHCRCAVV---GDTLASLMAFSGYEVTREYY 166
L G ++ E P+G + + R G LASL F V+++ Y
Sbjct: 297 TLFPGFTERLEKELAQLAPSGVKVKIIAPPNERKYSAWIGGSILASLGTFQQMWVSKQEY 356
Query: 167 INDAGAQI 174
+ G+ +
Sbjct: 357 -EEHGSSV 363
>gnl|CDD|30358 COG0008, GlnS, Glutamyl- and glutaminyl-tRNA synthetases
[Translation, ribosomal structure and biogenesis].
Length = 472
Score = 29.5 bits (66), Expect = 2.8
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 131 NPTGPMHVGHCRCAVVGDTLA 151
+PTG +H+GH R A++ A
Sbjct: 17 SPTGYLHIGHARTALLNYLYA 37
>gnl|CDD|145212 pfam01921, tRNA-synt_1f, tRNA synthetases class I (K). This family
includes only lysyl tRNA synthetases from prokaryotes.
Length = 355
Score = 29.1 bits (66), Expect = 3.4
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDFDF 439
KMS G+ IT+ ++ +S+RF+M K + DF
Sbjct: 278 KMSSSKGNGITIEEWLEYAPPESLRFLMFRVKPKKAKRLDF 318
>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 = 28.9 bits (65), Expect = 3.8
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 399 KMSKRAGDFITLRHVVDEVGSDSVRFMMLWRKNSELLDFDF 439
KMSK G+ I VV++ G+D++R+ + D
Sbjct: 273 KMSKSKGNVIDPSDVVEKYGADALRYYLT-SLAPYGDDIRL 312
>gnl|CDD|143593 cd07569, DCase, N-carbamyl-D-amino acid amidohydrolase (DCase,
class 6 nitrilases). DCase hydrolyses
N-carbamyl-D-amino acids to produce D-amino acids. It is
an important biocatalyst in the pharmaceutical industry,
producing useful D-amino acids for example in the
preparation of beta-lactam antibiotics. This subgroup
belongs to a larger nitrilase superfamily comprised of
nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified in
the literature based on global and structure based
sequence analysis into thirteen different enzyme classes
(referred to as 1-13), this subgroup corresponds to
class 6. Members of this superfamily generally form
homomeric complexes, the basic building block of which
is a homodimer. Agrobacterium radiobacter DCase forms a
tetramer (dimer of dimers). Some DCases may form
trimers.
Length = 302
Score = 28.8 bits (65), Expect = 4.4
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 7/41 (17%)
Query: 459 ARCRSIFRQAKD------IFPDLDF-DLFPRNVIPQESEFD 492
AR ++ +A +FP+L FPR P E+E D
Sbjct: 25 ARLIALLEEAASRGAQLVVFPELALTTFFPRWYFPDEAELD 65
>gnl|CDD|185672 cd00418, GlxRS_core, catalytic core domain of glutamyl-tRNA and
glutaminyl-tRNA synthetase. Glutamyl-tRNA
synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS)
cataytic core domain. These enzymes attach Glu or Gln,
respectively, to the appropriate tRNA. Like other class
I tRNA synthetases, they aminoacylate the 2'-OH of the
nucleotide at the 3' end of the 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. These enzymes function as monomers. Archaea,
cellular organelles, and some bacteria lack GlnRS. In
these cases, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme. The discriminating form of GluRS
differs from GlnRS and the non-discriminating form of
GluRS in their C-terminal anti-codon binding domains.
Length = 230
Score = 28.6 bits (64), Expect = 5.4
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 131 NPTGPMHVGHCRCAVVGDTLA 151
+PTG +H+GH R A+ A
Sbjct: 9 SPTGYLHIGHARTALFNFAFA 29
>gnl|CDD|35653 KOG0432, KOG0432, KOG0432, Valyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 995
Score = 28.3 bits (63), Expect = 6.7
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 131 NPTGPMHVGHCRCAVVGDTLASLMAFSGYEV 161
N TG +H+GH + D LA GY+V
Sbjct: 85 NVTGSLHIGHALTVAIQDALARYNRMHGYQV 115
>gnl|CDD|39606 KOG4405, KOG4405, KOG4405, GDP dissociation inhibitor [Signal
transduction mechanisms, Intracellular trafficking,
secretion, and vesicular transport].
Length = 547
Score = 28.1 bits (62), Expect = 8.2
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 457 AYARCRSIFRQAKDIFPDLDFDLFPRNVIPQESEFDTSELQ 497
A + R++F++ IFP DF PR P+E D + Q
Sbjct: 484 AVEQARTLFQK---IFPSEDF--LPRAPNPEEIITDGEDDQ 519
>gnl|CDD|177026 CHL00094, dnaK, heat shock protein 70.
Length = 621
Score = 27.8 bits (62), Expect = 8.5
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 121 TKVNIEFVSANPTGPMHV 138
T++N+ F++A TGP H+
Sbjct: 274 TEINLPFITATQTGPKHI 291
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 0.412
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 7,342,264
Number of extensions: 407760
Number of successful extensions: 1041
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1016
Number of HSP's successfully gapped: 62
Length of query: 586
Length of database: 6,263,737
Length adjustment: 99
Effective length of query: 487
Effective length of database: 4,124,446
Effective search space: 2008605202
Effective search space used: 2008605202
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 (26.9 bits)