RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 006717
(634 letters)
>gnl|CDD|215291 PLN02532, PLN02532, asparagine-tRNA synthetase.
Length = 633
Score = 999 bits (2585), Expect = 0.0
Identities = 433/628 (68%), Positives = 517/628 (82%), Gaps = 12/628 (1%)
Query: 11 TTTTATPVTLTWRYSNRVLLKTILESGDGGLGLVNERVVIGGWVKTSKEVKKEPMPPPPA 70
TTA+P+T + +YSNRV+LKTIL DGG GLV +RVV+GGWVK++KEVKKEP PPPP
Sbjct: 14 GDTTASPITPS-KYSNRVVLKTILGRSDGGAGLVGKRVVVGGWVKSAKEVKKEPAPPPPP 72
Query: 71 DFAGDAAAKSSKEKEKEKDVSCVEILQSRIPFFRTIIRVLGGSAGISNNVPLREKLEALV 130
A +S K DV C EILQSR+P FR+I +VL G + P+REK E +
Sbjct: 73 QSPSSAGDQSPGHK----DVRCTEILQSRVPIFRSIAKVLSGGG---STYPVREKTEIAI 125
Query: 131 PK--PPPPSTVFLQVSDGSCVASLQVVVESTLVSPSKIRPIGTCLMVEGVLKQP-SVQGK 187
K PPPPS +L +SDGSCVASLQVVV+S L +++ GTC++ EGVLK P QGK
Sbjct: 126 QKSAPPPPSVAYLLISDGSCVASLQVVVDSALAPLTQLMATGTCILAEGVLKLPLPAQGK 185
Query: 188 HAVELKVEKILHIGTVDHDKYPLSRKRLPMDMLRDSAHFRPRTTTVASVMRIRSSLTHAT 247
H +EL+VEKILHIGTVD +KYPLS+KRLP+DMLRD +HFRPRTTTVASV R+RS+LTHAT
Sbjct: 186 HVIELEVEKILHIGTVDPEKYPLSKKRLPLDMLRDFSHFRPRTTTVASVTRVRSALTHAT 245
Query: 248 HTFFQNHGFLYVQVPVITTTDSEGFSEKFQVTTLFDKR-EKEGPKTAKDIEGVNLDILKA 306
HTFFQ+HGFLYVQVP+ITTTD+ GF E F+VTTL K +KE K + EG++L+ +KA
Sbjct: 246 HTFFQDHGFLYVQVPIITTTDATGFGEMFRVTTLLGKSDDKEEKKPVHETEGISLEAVKA 305
Query: 307 SIKEKSNKVEELKRSESNREALIAAVQDLRKTNELVSHLESRDKLLQAPSVKTDKVNFSE 366
+IKEK+N VEELKRSESNREAL+AA QDLRKTN+L S LE+++KL SVK DK++FS+
Sbjct: 306 AIKEKTNLVEELKRSESNREALVAAEQDLRKTNQLASQLEAKEKLKTGTSVKADKLSFSK 365
Query: 367 DFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQL 426
DFFSR TYLTVSGRLHLESYACALGNVY+FGPRFRA++ +S++H AEM MVE E+AFS+L
Sbjct: 366 DFFSRPTYLTVSGRLHLESYACALGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSEL 425
Query: 427 EDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYTEAVKA 486
EDAM CA+DYFKFLCKW+LE+CS+D++FVSKRID T RL+++ISSS ++I+YTEAV
Sbjct: 426 EDAMNCAEDYFKFLCKWVLENCSEDMKFVSKRIDKTISTRLEAIISSSLQRISYTEAVDL 485
Query: 487 LEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYVRLNDDGNTVA 546
L++ T+K FETK EWG+ALT EHLSYLADEIYK+PVI+YNYPK +KPFYVRLNDDG TVA
Sbjct: 486 LKQATDKKFETKPEWGIALTTEHLSYLADEIYKKPVIIYNYPKELKPFYVRLNDDGKTVA 545
Query: 547 AFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGTVKHSGFSFGF 606
AFD+VVPK GTVITGSQNEER+D+LN RI+ELGLPREQYEWYLDLRRHGTVKHSGFS GF
Sbjct: 546 AFDLVVPKVGTVITGSQNEERMDILNARIEELGLPREQYEWYLDLRRHGTVKHSGFSLGF 605
Query: 607 DLMVLFTTGLTDVRDAIPFPRSLGKAYN 634
+LMVLF TGL DVRDAIPFPRS GKA N
Sbjct: 606 ELMVLFATGLPDVRDAIPFPRSWGKANN 633
>gnl|CDD|177867 PLN02221, PLN02221, asparaginyl-tRNA synthetase.
Length = 572
Score = 566 bits (1459), Expect = 0.0
Identities = 265/584 (45%), Positives = 377/584 (64%), Gaps = 30/584 (5%)
Query: 63 EPMPPPPADFAGDAAAKSSKEKEKEKDVSCVEILQSRIPFFRTIIRVLGGSAGISNNVPL 122
+ + PP A + +K + R+ R+I+ G AG++
Sbjct: 3 DEIVPPANQLAAVSLENDGSTVQKAQ-------FSDRVLI-RSILDRPDGGAGLAGQ--- 51
Query: 123 REKLEALVP---KPPPPSTVFLQVSDGSCVASLQVVVESTLVSPSKIRPIGTCLMVEGVL 179
+ ++ V + + FL+V+DGSC A+LQV+V+S+L S + GTC+ V+GVL
Sbjct: 52 KVRIGGWVKTGREQGKGTFAFLEVNDGSCPANLQVMVDSSLYDLSTLVATGTCVTVDGVL 111
Query: 180 K-QPSVQG-KHAVELKVEKILHIGTVDHDKYPLSRKRLPMDMLRDSAHFRPRTTTVASVM 237
K P +G K +EL VEK++ +GTVD KYPL + +L ++ LRD H R RT ++++V
Sbjct: 112 KVPPEGKGTKQKIELSVEKVIDVGTVDPTKYPLPKTKLTLEFLRDVLHLRSRTNSISAVA 171
Query: 238 RIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEGFSEKFQVTTLFDKREK-------EGP 290
RIR++L ATH+FFQ H FLY+ P+ITT+D EG E FQVTTL + E+ P
Sbjct: 172 RIRNALAFATHSFFQEHSFLYIHTPIITTSDCEGAGEMFQVTTLINYTERLEQDLIDNPP 231
Query: 291 KTAKDIEGVNLDILKASIKEKSNKVEELKRSESNREALIAAVQDLRKTNELVSHLESRDK 350
T D+E L +KE+ V +LK +++++E + AAV +L+ E ++H+E R K
Sbjct: 232 PTEADVEAARL-----IVKERGEVVAQLKAAKASKEEITAAVAELKIAKESLAHIEERSK 286
Query: 351 LLQAPSVKTDKVNFSEDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKH 410
L K K+++S+DFF RQ +LTVSG+L +E+YACAL +VY+FGP FRAE +S+H
Sbjct: 287 LKPGLPKKDGKIDYSKDFFGRQAFLTVSGQLQVETYACALSSVYTFGPTFRAENSHTSRH 346
Query: 411 AAEMLMVETEIAFSQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSV 470
AE MVE EIAF+ LED M CA+ Y K++CKW+L+ C D+E ++K D CIDRL+ V
Sbjct: 347 LAEFWMVEPEIAFADLEDDMNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCIDRLRMV 406
Query: 471 ISSSFEKITYTEAVKALEKVTE--KIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYP 528
S+ F +ITYTEA++ LE+ K F+ +EWG+ L +EH YL + ++++P+IVYNYP
Sbjct: 407 ASTPFGRITYTEAIELLEEAVAKGKEFDNNVEWGIDLASEHERYLTEVLFQKPLIVYNYP 466
Query: 529 KAVKPFYVRLNDDGNTVAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWY 588
K +K FY+RLNDD TVAA D++VPK G +I GSQ EER D++ RI+E+GLP E YEWY
Sbjct: 467 KGIKAFYMRLNDDEKTVAAMDVLVPKVGELIGGSQREERYDVIKQRIEEMGLPIEPYEWY 526
Query: 589 LDLRRHGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFPRSLGKA 632
LDLRR+GTVKH GF GF+ M+LF TG+ ++RD IPFPR GKA
Sbjct: 527 LDLRRYGTVKHCGFGLGFERMILFATGIDNIRDVIPFPRYPGKA 570
Score = 50.4 bits (120), Expect = 2e-06
Identities = 21/40 (52%), Positives = 31/40 (77%)
Query: 23 RYSNRVLLKTILESGDGGLGLVNERVVIGGWVKTSKEVKK 62
++S+RVL+++IL+ DGG GL ++V IGGWVKT +E K
Sbjct: 28 QFSDRVLIRSILDRPDGGAGLAGQKVRIGGWVKTGREQGK 67
>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
Length = 450
Score = 402 bits (1035), Expect = e-135
Identities = 149/277 (53%), Positives = 204/277 (73%), Gaps = 1/277 (0%)
Query: 357 VKTDKVNFSEDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKHAAEMLM 416
V T ++FS+DFF ++ YLTVSG+L+ E+YA ALG VY+FGP FRAE + +H AE M
Sbjct: 174 VTTLDLDFSKDFFGKEAYLTVSGQLYAEAYAMALGKVYTFGPTFRAENSNTRRHLAEFWM 233
Query: 417 VETEIAFSQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFE 476
+E E+AF+ LED M A++ K++ K++LE+C DLEF+++R+D I+RL++ I S F
Sbjct: 234 IEPEMAFADLEDNMDLAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDIERLENFIESPFP 293
Query: 477 KITYTEAVKALEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYV 536
+ITYTEA++ L+K +K FE +EWG L +EH YLA+E +K+PV V NYPK +K FY+
Sbjct: 294 RITYTEAIEILQKSGKK-FEFPVEWGDDLGSEHERYLAEEHFKKPVFVTNYPKDIKAFYM 352
Query: 537 RLNDDGNTVAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGT 596
RLN DG TVAA D++ P G +I GSQ EER+D+L RIKELGL +E Y WYLDLRR+G+
Sbjct: 353 RLNPDGKTVAAMDLLAPGIGEIIGGSQREERLDVLEARIKELGLNKEDYWWYLDLRRYGS 412
Query: 597 VKHSGFSFGFDLMVLFTTGLTDVRDAIPFPRSLGKAY 633
V HSGF GF+ +V + TGL ++RD IPFPR+ G+A
Sbjct: 413 VPHSGFGLGFERLVAYITGLDNIRDVIPFPRTPGRAE 449
Score = 144 bits (367), Expect = 1e-37
Identities = 60/145 (41%), Positives = 85/145 (58%), Gaps = 4/145 (2%)
Query: 139 VFLQVSDGSCVASLQVVVESTLVSPSKIR--PIGTCLMVEGVLKQPSVQGKHAVELKVEK 196
FLQ+ DGSC LQVV ++ +I+ G+ ++V G + S + EL+ K
Sbjct: 35 AFLQLRDGSCFKQLQVVKDNGEEYFEEIKKLTTGSSVIVTGTVV-ESPRAGQGYELQATK 93
Query: 197 ILHIGTVDHDKYPLSRKRLPMDMLRDSAHFRPRTTTVASVMRIRSSLTHATHTFFQNHGF 256
I IG D YP+ +KR ++ LR+ AH RPRT +VMRIR++L A H FF +GF
Sbjct: 94 IEVIGEDPED-YPIQKKRHSIEFLREIAHLRPRTNKFGAVMRIRNTLAQAIHEFFNENGF 152
Query: 257 LYVQVPVITTTDSEGFSEKFQVTTL 281
++V P+IT +D EG E F+VTTL
Sbjct: 153 VWVDTPIITASDCEGAGELFRVTTL 177
>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase.
Length = 565
Score = 388 bits (999), Expect = e-128
Identities = 202/508 (39%), Positives = 295/508 (58%), Gaps = 80/508 (15%)
Query: 137 STVFLQVSDGSCVASLQVV----------VESTLVSPSKIRPIGTCLMVEGVLKQPSVQG 186
S F++V+DGSC++++Q V VES L++ G ++V+G + S G
Sbjct: 124 SVTFIEVNDGSCLSNMQCVMTPDAEGYDQVESGLIT------TGASVLVQGTVVS-SQGG 176
Query: 187 KHAVELKVEKILHIGTVDHDKYPLSRKRLPMDMLRDSAHFRPRTTTVASVMRIRSSLTHA 246
K VELKV KI+ +G D YP+ +KR+ + LR AH RPRT T +V R+R++L +A
Sbjct: 177 KQKVELKVSKIVVVGKSD-PSYPIQKKRVSREFLRTKAHLRPRTNTFGAVARVRNALAYA 235
Query: 247 THTFFQNHGFLYVQVPVITTTDSEGFSEKFQVTTLFDKREKEGPKTAKDIEGVNLDILKA 306
TH FFQ +GF++V P+IT A D EG
Sbjct: 236 THKFFQENGFVWVSSPIIT---------------------------ASDCEG-------- 260
Query: 307 SIKEKSNKVEELKRSESNREALIAAVQDLRKTNELVSHLESRDKLLQA-PSVKTDKVNFS 365
A + T + + E+ L+ P K +++S
Sbjct: 261 ------------------------AGEQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWS 296
Query: 366 EDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQ 425
+DFF + +LTVSG+L+ E+YA AL +VY+FGP FRAE +S+H AE M+E E+AF+
Sbjct: 297 QDFFGKPAFLTVSGQLNGETYATALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFAD 356
Query: 426 LEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYTEAVK 485
L D M CA Y +++ K+ILE+C +D+EF + I+ IDRL V+ +F +++YT+A++
Sbjct: 357 LNDDMACATAYLQYVVKYILENCKEDMEFFNTWIEKGIIDRLSDVVEKNFVQLSYTDAIE 416
Query: 486 ALEKVTEKIFETKLEWGVALTAEHLSYLADEIYK-RPVIVYNYPKAVKPFYVRLNDDGNT 544
L K +K FE ++WG+ L +EH Y+ +E + RPVI+ +YPK +K FY+R NDDG T
Sbjct: 417 LLLKAKKK-FEFPVKWGLDLQSEHERYITEEAFGGRPVIIRDYPKEIKAFYMRENDDGKT 475
Query: 545 VAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGTVKHSGFSF 604
VAA DM+VP+ G +I GSQ EER++ L R+ EL L +E Y WYLDLRR+G+V H+GF
Sbjct: 476 VAAMDMLVPRVGELIGGSQREERLEYLEARLDELKLNKESYWWYLDLRRYGSVPHAGFGL 535
Query: 605 GFDLMVLFTTGLTDVRDAIPFPRSLGKA 632
GF+ +V F TG+ ++RDAIPFPR G A
Sbjct: 536 GFERLVQFATGIDNIRDAIPFPRVPGSA 563
>gnl|CDD|240414 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 368 bits (947), Expect = e-120
Identities = 192/508 (37%), Positives = 293/508 (57%), Gaps = 41/508 (8%)
Query: 140 FLQVSDGSCVASLQVVVESTLVSPSKIRP--IGTCLMVEGVLKQPSVQG-------KHAV 190
F+ ++DGSC +LQ++V+ ++ + K+ +G C G L VQ K V
Sbjct: 103 FVNLNDGSCHLNLQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNENKKGLLKENV 162
Query: 191 ELKVEK------ILHIGTVDHDKYPLSRKRLPMDMLRDSAHFRPRTTTVASVMRIRSSLT 244
EL ++ ++ +D KYPLS+K + LR+ AH RPR+ ++SV+RIR++L
Sbjct: 163 ELALKDNSIHNFEIYGENLDPQKYPLSKKNHGKEFLREVAHLRPRSYFISSVIRIRNALA 222
Query: 245 HATHTFFQNHGFLYVQVPVITTTDSEGFSEKFQVTTLFDKREKEGPKTAKDIEGVNLDIL 304
ATH FFQ+ GFLY+ P+ITT+D EG E F VTTL G + D
Sbjct: 223 IATHLFFQSRGFLYIHTPLITTSDCEGGGEMFTVTTLL---------------GEDADYR 267
Query: 305 KASIKEKSNKVEELKRSESNREALIAAVQDLRKTNELVSHLESRDKLLQAPSVKTDKVNF 364
K NK E KR + ++ VS D+ L +++
Sbjct: 268 AIPRVNKKNKKGE-KREDILNTCNANNNNGNSSSSNAVSSPAYPDQYL---------IDY 317
Query: 365 SEDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAFS 424
+DFFS+Q +LTVSG+L LE+ ++G+VY+FGP FRAE +S+H AE M+E EIAF+
Sbjct: 318 KKDFFSKQAFLTVSGQLSLENLCSSMGDVYTFGPTFRAENSHTSRHLAEFWMIEPEIAFA 377
Query: 425 QLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYTEAV 484
L D M+ A+ Y K+ ++L + D+ + + ++ I RL++++ F KITYT +
Sbjct: 378 DLYDNMELAESYIKYCIGYVLNNNFDDIYYFEENVETGLISRLKNILDEDFAKITYTNVI 437
Query: 485 KALEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYVRLNDDGNT 544
L+ ++ FE ++WG+ L +EH ++A++I+K+PVIVYNYPK +K FY++LN+D T
Sbjct: 438 DLLQPYSDS-FEVPVKWGMDLQSEHERFVAEQIFKKPVIVYNYPKDLKAFYMKLNEDQKT 496
Query: 545 VAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGTVKHSGFSF 604
VAA D++VPK G VI GSQ E+ ++ L+ IKE L E Y WY LR+ G+ H+GF
Sbjct: 497 VAAMDVLVPKIGEVIGGSQREDNLERLDKMIKEKKLNMESYWWYRQLRKFGSHPHAGFGL 556
Query: 605 GFDLMVLFTTGLTDVRDAIPFPRSLGKA 632
GF+ +++ TG+ +++D IPFPR G A
Sbjct: 557 GFERLIMLVTGVDNIKDTIPFPRYPGHA 584
>gnl|CDD|232982 TIGR00457, asnS, asparaginyl-tRNA synthetase. In a multiple
sequence alignment of representative asparaginyl-tRNA
synthetases (asnS), archaeal/eukaryotic type
aspartyl-tRNA synthetases (aspS_arch), and bacterial
type aspartyl-tRNA synthetases (aspS_bact), there is a
striking similarity between asnS and aspS_arch in gap
pattern and in sequence, and a striking divergence of
aspS_bact. Consequently, a separate model was built for
each of the three groups. This model, asnS, represents
asparaginyl-tRNA synthetases from the three domains of
life. Some species lack this enzyme and charge tRNA(asn)
by misacylation with Asp, followed by transamidation of
Asp to Asn [Protein synthesis, tRNA aminoacylation].
Length = 453
Score = 334 bits (858), Expect = e-108
Identities = 132/277 (47%), Positives = 196/277 (70%), Gaps = 1/277 (0%)
Query: 357 VKTDKVNFSEDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKHAAEMLM 416
V T ++FS+DFF ++ YLTVSG+L+LE+YA AL VY+FGP FRAEK +S+H +E M
Sbjct: 177 VSTGNIDFSQDFFGKEAYLTVSGQLYLETYALALSKVYTFGPTFRAEKSNTSRHLSEFWM 236
Query: 417 VETEIAFSQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFE 476
+E E+AF+ L D ++ A+ K++ K +LE+CS++L+F+ K D I RL+++I++ F
Sbjct: 237 IEPEMAFANLNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLENIINNKFA 296
Query: 477 KITYTEAVKALEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYV 536
+ITYT+A++ L++ + FE + WG L EH +LA+E +K PV V NYPK +K FY+
Sbjct: 297 RITYTDAIEILKESDKN-FEYEDFWGDDLQTEHERFLAEEYFKPPVFVTNYPKDIKAFYM 355
Query: 537 RLNDDGNTVAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGT 596
+LNDDG TVAA D++ P G +I GS+ E+ +D L R+KE+GL + WYLDLR++G+
Sbjct: 356 KLNDDGKTVAAMDLLAPGIGEIIGGSEREDDLDKLENRMKEMGLDTDALNWYLDLRKYGS 415
Query: 597 VKHSGFSFGFDLMVLFTTGLTDVRDAIPFPRSLGKAY 633
V HSGF GF+ ++ + TGL ++RDAIPFPR+ G
Sbjct: 416 VPHSGFGLGFERLLAYITGLENIRDAIPFPRTPGNIN 452
Score = 130 bits (329), Expect = 2e-32
Identities = 55/146 (37%), Positives = 88/146 (60%), Gaps = 5/146 (3%)
Query: 140 FLQVSDGSCVASLQVVV----ESTLVSPSKIRPIGTCLMVEGVLKQPSVQGKHAVELKVE 195
FL+++DGS + +Q V+ L K G+ + V G + + +G+ VEL+V+
Sbjct: 36 FLELNDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESPGKGQ-PVELQVK 94
Query: 196 KILHIGTVDHDKYPLSRKRLPMDMLRDSAHFRPRTTTVASVMRIRSSLTHATHTFFQNHG 255
KI +G + D YPL +K ++ LRD AH R RT T+ +VMR+R++L+ A H +FQ +G
Sbjct: 95 KIEVVGEAEPDDYPLQKKEHSLEFLRDIAHLRLRTNTLGAVMRVRNALSQAIHRYFQENG 154
Query: 256 FLYVQVPVITTTDSEGFSEKFQVTTL 281
F +V P++T+ D EG E F+V+T
Sbjct: 155 FTWVSPPILTSNDCEGAGELFRVSTG 180
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 292 bits (750), Expect = 1e-92
Identities = 124/271 (45%), Positives = 175/271 (64%), Gaps = 10/271 (3%)
Query: 364 FSEDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAF 423
F D+F ++ YLT S +L+ E+ A AL V++ GP FRAEK + +H +E M++ E+AF
Sbjct: 173 FKVDYFDKEAYLTQSPQLYKEALAAALERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAF 232
Query: 424 SQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYTEA 483
+ L D M A++ K+L K +LE+C+ +LEF+ + L+ S+ F +ITY EA
Sbjct: 233 ADLNDVMDLAEELIKYLFKKVLEECADELEFLGRDNSE-----LKRPESAPFPRITYKEA 287
Query: 484 VKALEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYVRLNDDG- 542
++ LE EK FE K+EWG L EH YL +E +K PV V NYPK +KPFY+R + D
Sbjct: 288 IEILE---EKGFE-KVEWGDDLGTEHERYLGEEYFKPPVFVTNYPKEIKPFYMRPDPDNP 343
Query: 543 NTVAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGTVKHSGF 602
TVA+FD++ P GG +I GSQ E D+L RIKE GL E YEWYLDLR++G H+GF
Sbjct: 344 GTVASFDLLAPGGGEIIGGSQREHDYDLLVERIKEKGLDPESYEWYLDLRKYGMPPHAGF 403
Query: 603 SFGFDLMVLFTTGLTDVRDAIPFPRSLGKAY 633
G + +V++ GL ++R+AIPFPR G+ Y
Sbjct: 404 GLGLERLVMYILGLDNIREAIPFPRDPGRLY 434
Score = 112 bits (282), Expect = 2e-26
Identities = 51/150 (34%), Positives = 76/150 (50%), Gaps = 10/150 (6%)
Query: 140 FLQVSDGSCVASLQVVVESTLVSPSKIR----PIGTCLMVEGVLKQPSVQGKHAVELKVE 195
FL + DGS +Q VV V + + + ++V G++K S + EL+VE
Sbjct: 36 FLVLRDGSGF--IQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKA-SPKAPQGFELQVE 92
Query: 196 KILHIGTVDHDKYPLSRKRLPM-DMLRDSAHFRPRTTTVASVMRIRSSLTHATHTFFQNH 254
KI +G D YP+ +K + L D+ H RT + +V +IRSS+ A FF +
Sbjct: 93 KIEVLGEAD-PPYPIDKKEHSELETLLDNRHLDLRTPKIQAVFKIRSSILRAIREFFYEN 151
Query: 255 GFLYVQVPVITTTDSEGFSEKFQVTTLFDK 284
GF V P+IT + +EG E F+V FDK
Sbjct: 152 GFTEVHTPIITASATEGGGELFKVDY-FDK 180
>gnl|CDD|238399 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II
core domain. Assignment to class II aminoacyl-tRNA
synthetases (aaRS) based upon its structure and the
presence of three characteristic sequence motifs in the
core domain. This family includes AsnRS as well as a
subgroup of AspRS. AsnRS and AspRS are homodimers,
which attach either asparagine or aspartate to the 3'OH
group of ribose of the appropriate tRNA. While archaea
lack asnRS, they possess a non-discriminating aspRS,
which can mischarge Asp-tRNA with Asn. Subsequently, a
tRNA-dependent aspartate amidotransferase converts the
bound aspartate to asparagine. The catalytic core domain
is primarily responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate.
Length = 322
Score = 275 bits (707), Expect = 9e-88
Identities = 101/266 (37%), Positives = 153/266 (57%), Gaps = 11/266 (4%)
Query: 364 FSEDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAF 423
F +F + YL S +L+ E AL VY GP FRAEK + +H +E M+E E+AF
Sbjct: 63 FKVSYFGKPAYLAQSPQLYKEMLIAALERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAF 122
Query: 424 -SQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYTE 482
+ M ++ K++ K +LE C+K+LE V++ ++R F +ITY E
Sbjct: 123 IEDYNEVMDLIEELIKYIFKRVLERCAKELELVNQ------LNRELLKPLEPFPRITYDE 176
Query: 483 AVKALEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYVRLNDD- 541
A++ L + E +++WG L+ EH L + + PV V +YPK +KPFY++ +DD
Sbjct: 177 AIELLREKGV---EEEVKWGEDLSTEHERLLGEIVKGDPVFVTDYPKEIKPFYMKPDDDN 233
Query: 542 GNTVAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGTVKHSG 601
TV +FD+++P G ++ GSQ D L RIKE GL E +EWYLDLR++G H G
Sbjct: 234 PETVESFDLLMPGVGEIVGGSQRIHDYDELEERIKEHGLDPESFEWYLDLRKYGMPPHGG 293
Query: 602 FSFGFDLMVLFTTGLTDVRDAIPFPR 627
F G + +V++ GL ++R+AI FPR
Sbjct: 294 FGLGLERLVMWLLGLDNIREAILFPR 319
Score = 76.1 bits (188), Expect = 5e-15
Identities = 27/71 (38%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 214 RLPMDMLRDSAHFRPRTTTVASVMRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEGFS 273
++ L D+ H RT V ++ RIRS + A F + +GF V P IT+TD+EG +
Sbjct: 1 DANLETLLDNRHLDLRTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGA 60
Query: 274 EKFQVTTLFDK 284
E F+V + F K
Sbjct: 61 ELFKV-SYFGK 70
>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).
Length = 345
Score = 167 bits (425), Expect = 2e-46
Identities = 74/277 (26%), Positives = 118/277 (42%), Gaps = 18/277 (6%)
Query: 368 FFSRQTYLTVSGRLHLESYACA-LGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQL 426
F++++ YL S +L+ + A V+ P FR E + +H E ++ E++F
Sbjct: 67 FYAKEAYLPQSPQLYKQLLMVAGFDRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMSFVDY 126
Query: 427 EDAMKCADDYFKFLCKWILEDCSKDLEF-----VSKRIDMT-CIDRLQSV---ISSSFEK 477
ED M +D K++ K +L + RI I+R S + E
Sbjct: 127 EDVMDLTEDLIKYVFKKVLGKREELELLGIELPEFPRITYAEAIERYGSDKPDLRFGLEL 186
Query: 478 ITYTEAVKALE--KVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFY 535
TE K E E G + L D+ PV V ++P PFY
Sbjct: 187 KDVTEIFKGSEFKVFAEAGDVVDKALGALRSELGEENLGDKDKDNPVFVTDFPLFEHPFY 246
Query: 536 VRLNDDGNTVA-AFDMVVPKGGTVITGSQNEERIDMLNTRIKELGL----PREQYEWYLD 590
+ ++D +A FD+V+ GG + GS + R +ELGL E++ +YLD
Sbjct: 247 MPKDEDPPGLAERFDLVLN-GGEIGGGSIRIHDPEEQRKRFEELGLDPEEAEEKFGFYLD 305
Query: 591 LRRHGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFPR 627
++G H G G D +V+ TGL +R+ I FP+
Sbjct: 306 ALKYGMPPHGGIGLGLDRLVMLLTGLESIREVIAFPK 342
Score = 49.1 bits (118), Expect = 3e-06
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 229 RTTTVASVMRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEGFSEKFQVTTLF 282
R + + +++RS + A F GFL V+ P++T + EG + F V + F
Sbjct: 14 RRPKMQANLKLRSKIIKAIREFLDERGFLEVETPILTKSTPEGGARDFLVPSKF 67
>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 146 bits (371), Expect = 3e-39
Identities = 77/276 (27%), Positives = 136/276 (49%), Gaps = 21/276 (7%)
Query: 364 FSEDFFSRQTYLTVSGRLHLESYACALGNVYSFGPRFRAE--KKESSKHAAEMLMVETEI 421
S DF+ + YL S LH + LG ++ P FR E K++ +H E ++ EI
Sbjct: 76 ISIDFYGVEYYLADSMILHKQLALRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEI 135
Query: 422 AFSQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYT 481
+ L++ M +D K+L K +LE+ +LEF + + + F++IT+
Sbjct: 136 EGADLDEVMDLIEDLIKYLVKELLEEHEDELEFFGRDL---------PHLKRPFKRITHK 186
Query: 482 EAVKAL-EKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYVRLND 540
EAV+ L E+ I +L E L+ E ++ P + + PK + FY R +
Sbjct: 187 EAVEILNEEGCRGIDLEELGS------EGEKSLS-EHFEEPFWIIDIPKGSREFYDREDP 239
Query: 541 DGNTVA-AFDMVVPKG-GTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGTVK 598
+ V +D+++P+G G ++G + E + + RI+E G+ E+Y+WYL++ + G +
Sbjct: 240 ERPGVLRNYDLLLPEGYGEAVSGGEREYEYEEIVERIREHGVDPEKYKWYLEMAKEGPLP 299
Query: 599 HSGFSFGFDLMVLFTTGLTDVRDAIPFPRSLGKAYN 634
+GF G + + + GL +R+ PFPR G
Sbjct: 300 SAGFGIGVERLTRYICGLRHIREVQPFPRVPGIVAL 335
Score = 30.0 bits (68), Expect = 3.7
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 232 TVASVMRIRSSLTHATHTFFQNHGFLYVQVPVITT-TDS 269
V++++SS+ T F GF+ V P+I+ TD
Sbjct: 25 KYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDP 63
>gnl|CDD|235354 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 129 bits (327), Expect = 3e-32
Identities = 70/241 (29%), Positives = 118/241 (48%), Gaps = 21/241 (8%)
Query: 393 VYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQL-EDAMKCADDYFKFLCKWILEDCSKD 451
V+ GP FRAE+ +S+H E ++ E+ F ED M ++ +++ + + E+C K+
Sbjct: 205 VFEIGPVFRAEEHNTSRHLNEYTSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENCEKE 264
Query: 452 LEFVSKRIDMTCIDRLQSVISSSFEKITYTEAVKALEKVTEKIFETKLEWGVALTAEHLS 511
LE + + V + +ITY EA++ L+ +I WG L E
Sbjct: 265 LELLGIELP---------VPETPIPRITYDEAIEILKSKGNEI-----SWGDDLDTEGER 310
Query: 512 YLADEIYKR----PVIVYNYPKAVKPFYV-RLNDDGNTVAAFDMVVPKGGTVITGSQNEE 566
L + + + + +YP +PFY DD +FD++ +G + +G Q
Sbjct: 311 LLGEYVKEEYGSDFYFITDYPSEKRPFYTMPDEDDPEISKSFDLLF-RGLEITSGGQRIH 369
Query: 567 RIDMLNTRIKELGLPREQYEWYLDLRRHGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFP 626
R DML IKE GL E +E+YL+ ++G H GF G + + + GL ++R+A+ FP
Sbjct: 370 RYDMLVESIKEKGLNPESFEFYLEAFKYGMPPHGGFGLGLERLTMKLLGLENIREAVLFP 429
Query: 627 R 627
R
Sbjct: 430 R 430
Score = 45.6 bits (109), Expect = 6e-05
Identities = 43/163 (26%), Positives = 69/163 (42%), Gaps = 30/163 (18%)
Query: 139 VFLQVSDGSCVASLQVVVESTLVSPSKIR----PIGTCLMVEGVLKQPSVQGKHAVELKV 194
FL + D S + QVVV+ + + + V G +K + + VE+
Sbjct: 35 AFLILRDRSGII--QVVVKKKVDEELFETIKKLKRESVVSVTGTVK-ANPKAPGGVEVIP 91
Query: 195 EKILHIGTVDHDKYPL--SRK-------RL---PMDMLRDSAHFRPRTTTVASVMRIRSS 242
E+I + + + PL S K RL +D LR RPR V ++ +IRS
Sbjct: 92 EEIEVLNKAE-EPLPLDISGKVLAELDTRLDNRFLD-LR-----RPR---VRAIFKIRSE 141
Query: 243 LTHATHTFFQNHGFLYVQVPVITTTDSEGFSEKFQVTTLFDKR 285
+ A F +GF + P I + +EG +E F + F+K
Sbjct: 142 VLRAFREFLYENGFTEIFTPKIVASGTEGGAELFPI-DYFEKE 183
>gnl|CDD|129550 TIGR00458, aspS_nondisc, nondiscriminating aspartyl-tRNA
synthetase. In a multiple sequence alignment of
representative asparaginyl-tRNA synthetases (asnS),
archaeal/eukaryotic type aspartyl-tRNA synthetases
(aspS_arch), and bacterial type aspartyl-tRNA
synthetases (aspS_bact), there is a striking similarity
between asnS and aspS_arch in gap pattern and in
sequence, and a striking divergence of aspS_bact.
Consequently, a separate model was built for each of the
three groups. This model, aspS_arch, represents
aspartyl-tRNA synthetases from the eukaryotic cytosol
and from the Archaea. In some species, this enzyme
aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn)
is subsequently transamidated to Asn-tRNA(asn) [Protein
synthesis, tRNA aminoacylation].
Length = 428
Score = 112 bits (281), Expect = 2e-26
Identities = 72/280 (25%), Positives = 133/280 (47%), Gaps = 19/280 (6%)
Query: 350 KLLQAPSVKTDKVNFSEDFFSRQTYLTVSGRLHLESY-ACALGNVYSFGPRFRAEKKESS 408
KL+ + + ++ F +F R+ +L S +L+ + A VY GP FRAE+ +
Sbjct: 159 KLVASATEGGTEL-FPITYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTH 217
Query: 409 KHAAEMLMVETEIAFSQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQ 468
+H E ++ E+AF D M ++ + + + E C+ LE + +++
Sbjct: 218 RHLNEATSIDIEMAFEDHHDVMDILEELVVRVFEDVPERCAHQLETLEFKLE-------- 269
Query: 469 SVISSSFEKITYTEAVKALEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYP 528
F ++TY EA++ +I WG L+ E L +E + ++P
Sbjct: 270 -KPEGKFVRLTYDEAIEMANAKGVEI-----GWGEDLSTEAEKALGEE-MDGLYFITDWP 322
Query: 529 KAVKPFYVRLN-DDGNTVAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEW 587
++PFY + D+ +FD++ + + +G+Q D+L RIK GL E ++
Sbjct: 323 TEIRPFYTMPDEDNPEISKSFDLMY-RDLEISSGAQRIHLHDLLVERIKAKGLNPEGFKD 381
Query: 588 YLDLRRHGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFPR 627
YL+ +G H+G+ G + V+F GL ++R+A+ FPR
Sbjct: 382 YLEAFSYGMPPHAGWGLGAERFVMFLLGLKNIREAVLFPR 421
Score = 41.3 bits (97), Expect = 0.001
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 229 RTTTVASVMRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEGFSEKFQVT 279
R TV ++ RIRS + + F GF+ V P + + +EG +E F +T
Sbjct: 125 RRPTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPIT 175
>gnl|CDD|238358 cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA synthetase class II
core domain. This domain is the core catalytic domain of
class II aminoacyl-tRNA synthetases of the subgroup
containing aspartyl, lysyl, and asparaginyl tRNA
synthetases. It is primarily responsible for
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. Class II assignment is based upon
its structure and the presence of three characteristic
sequence motifs. Nearly all class II tRNA synthetases
are dimers and enzymes in this subgroup are homodimers.
These enzymes attach a specific amino acid to the 3' OH
group of ribose of the appropriate tRNA.
Length = 269
Score = 97.5 bits (243), Expect = 1e-22
Identities = 56/260 (21%), Positives = 98/260 (37%), Gaps = 51/260 (19%)
Query: 374 YLTVSGRLHLESY-ACALGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQLEDAMKC 432
YL +S +L + L V+ FR E ++H E M++ E+AF+ ED ++
Sbjct: 52 YLRISPQLFKKRLMVGGLDRVFEINRNFRNEDL-RARHQPEFTMMDLEMAFADYEDVIEL 110
Query: 433 ADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYTEAVKALEKVTE 492
+ + L + +L + F + F ++TY EA+
Sbjct: 111 TERLVRHLAREVLGVTAVTYGFELEDF------------GLPFPRLTYREAL-------- 150
Query: 493 KIFETKLEWGVALTAEHLSYLADEIYKRPVIVYNYPKAVKPFYVRLNDDGNTVA-AFDMV 551
E Y +P+ + +YP + +D +A AFD+
Sbjct: 151 -----------------------ERYGQPLFLTDYPAEMHSPLASPHDVNPEIADAFDLF 187
Query: 552 VPKGGTVITGSQNEERIDMLNTRIKELGL----PREQYEWYLDLRRHGTVKHSGFSFGFD 607
+ G V GS D+ +E G+ E +E+YL +G H G G D
Sbjct: 188 I-NGVEVGNGSSRLHDPDIQAEVFQEQGINKEAGMEYFEFYLKALEYGLPPHGGLGIGID 246
Query: 608 LMVLFTTGLTDVRDAIPFPR 627
+++ T +R+ I FP+
Sbjct: 247 RLIMLMTNSPTIREVIAFPK 266
Score = 34.4 bits (79), Expect = 0.12
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 237 MRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEGFSEKFQV 278
++RS + A F + GFL V+ P++ + F V
Sbjct: 1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLV 42
>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 89.0 bits (221), Expect = 2e-18
Identities = 73/274 (26%), Positives = 123/274 (44%), Gaps = 24/274 (8%)
Query: 364 FSEDFFSRQTYLTVSGRLHLESYACA-LGNVYSFGPRFRAEKKESSKHAAEM--LMVETE 420
F D+ + L S +LH + C V+ GP FRAE + +H E L +E E
Sbjct: 264 FRLDYKGQPACLAQSPQLHKQMAICGDFRRVFEIGPVFRAEDSFTHRHLCEFTGLDLEME 323
Query: 421 IAFSQLEDAMKCADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITY 480
I E + D+ F + + E C K+LE + ++ + L + ++T+
Sbjct: 324 IKEHYSE-VLDVVDELFVAIFDGLNERCKKELEAIREQYPFEPLKYLPKTL-----RLTF 377
Query: 481 TEAVKALEKVTEKI-----FETKLEWGVALTAEHLSYLADEIYKRPV-IVYNYPKAVKPF 534
E ++ L++ ++ T+ E L L E Y I++ YP AV+PF
Sbjct: 378 AEGIQMLKEAGVEVDPLGDLNTESE-------RKLGQLVKEKYGTDFYILHRYPLAVRPF 430
Query: 535 YVRLN-DDGNTVAAFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRR 593
Y DD +FD+ + +G +I+G+Q ++L R +E G+ + Y+D R
Sbjct: 431 YTMPCPDDPKYSNSFDVFI-RGEEIISGAQRVHDPELLEKRAEECGIDVKTISTYIDSFR 489
Query: 594 HGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFPR 627
+G H GF G + +V+ GL ++R FPR
Sbjct: 490 YGAPPHGGFGVGLERVVMLFCGLNNIRKTSLFPR 523
>gnl|CDD|239813 cd04318, EcAsnRS_like_N, EcAsnRS_like_N: N-terminal, anticodon
recognition domain of the type found in Escherichia coli
asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis
thaliana and Saccharomyces cerevisiae mitochondrial (mt)
AsnRS. This domain is a beta-barrel domain (OB fold)
involved in binding the tRNA anticodon stem-loop. The
enzymes in this group are homodimeric class2b
aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the
specific attachment of amino acids (AAs) to their
cognate tRNAs during protein biosynthesis. This 2-step
reaction involves i) the activation of the AA by ATP in
the presence of magnesium ions, followed by ii) the
transfer of the activated AA to the terminal ribose of
tRNA. In the case of the class2b aaRSs, the activated
AA is attached to the 3'OH of the terminal ribose.
Eukaryotes contain 2 sets of aaRSs, both of which are
encoded by the nuclear genome. One set concerns with
cytoplasmic protein synthesis, whereas the other
exclusively with mitochondrial protein synthesis. S.
cerevisiae mtAsnRS can charge E.coli tRNA with
asparagines. Mutations in the gene for S. cerevisiae
mtAsnRS has been found to induce a "petite" phenotype
typical for a mutation in a nuclear gene that results in
a non-functioning mitochondrial protein synthesis
system.
Length = 82
Score = 68.0 bits (167), Expect = 2e-14
Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 3/66 (4%)
Query: 139 VFLQVSDGSCVASLQVVVESTLVSPSKIR--PIGTCLMVEGVLKQPSVQGKHAVELKVEK 196
F++++DGSC+ +LQVVV+ L + +I G+ + VEGVL S K EL+ EK
Sbjct: 18 SFIELNDGSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLV-KSPGAKQPFELQAEK 76
Query: 197 ILHIGT 202
I +G
Sbjct: 77 IEVLGE 82
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 64.6 bits (157), Expect = 8e-11
Identities = 76/312 (24%), Positives = 135/312 (43%), Gaps = 41/312 (13%)
Query: 350 KLLQAPSVKTDKVNFSEDFFSRQTYLTVSGRLHLE-SYACALGNVYSFGPRFRAEKKESS 408
K++ APS V F ++F+R YL S +L+ + + V+ GP FR+E +
Sbjct: 239 KIINAPSEGGANV-FKLEYFNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFRSENSNTH 297
Query: 409 KHAAEMLMVETEIAFSQ-LEDAMKCADDYFKFLCKWI------LEDCSKDLEFVSKRIDM 461
+H E + ++ E+ ++ + + A+ F ++ + + L+ + F +
Sbjct: 298 RHLTEFVGLDVEMRINEHYYEVLDLAESLFNYIFERLATHTKELKAVCQQYPFEPLVWKL 357
Query: 462 TCIDRLQS----VISSSFE-----------------KITYTEAVKALEKVTEKIFETKLE 500
T +R++ VIS E +I Y ++ L V E K+
Sbjct: 358 TP-ERMKELGVGVISEGVEPTDKYQARVHNMDSRMLRINYMHCIELLNTV----LEEKMA 412
Query: 501 W--GVALTAEHL-SYLADEIYKRPVIVYN-YPKAVKPFY-VRLNDDGNTVAAFDMVVPKG 555
+ T E L L E Y + + +P + +PFY + DD ++DM + +G
Sbjct: 413 PTDDINTTNEKLLGKLVKERYGTDFFISDRFPSSARPFYTMECKDDERFTNSYDMFI-RG 471
Query: 556 GTVITGSQNEERIDMLNTRIKELGLPREQYEWYLDLRRHGTVKHSGFSFGFDLMVLFTTG 615
+ +G+Q D+L R K L + + Y+D R G H GF G + +V+ G
Sbjct: 472 EEISSGAQRIHDPDLLLARAKMLNVDLTPIKEYVDSFRLGAWPHGGFGVGLERVVMLYLG 531
Query: 616 LTDVRDAIPFPR 627
L++VR A FPR
Sbjct: 532 LSNVRLASLFPR 543
>gnl|CDD|232998 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and
non-spirochete bacterial. This model represents the
lysyl-tRNA synthetases that are class II amino-acyl tRNA
synthetases. It includes all eukaryotic and most
bacterial examples of the enzyme, but not archaeal or
spirochete forms [Protein synthesis, tRNA
aminoacylation].
Length = 496
Score = 60.5 bits (147), Expect = 1e-09
Identities = 65/286 (22%), Positives = 110/286 (38%), Gaps = 51/286 (17%)
Query: 374 YLTVSGRLHLESYACA-LGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQLEDAMKC 432
YL ++ L+L+ VY G FR E + H E M+E A++ ED M
Sbjct: 223 YLRIAPELYLKRLIVGGFEKVYEIGRNFRNEGV-DTTHNPEFTMIEFYQAYADYEDLMDL 281
Query: 433 ADDYFKFLCKWILEDCS---KDLEFVSKRIDMTCIDRLQSVISSSFEKITYTEAVKALEK 489
++ FKFL + +L +LE K+ F++IT EA+K +
Sbjct: 282 TENLFKFLAQELLGTTKITYGELEIDFKK---------------PFKRITMVEAIKKYDM 326
Query: 490 VTEKIFE--TKLEWGVALTAEH----------LSYLADEIYK--------RPVIVYNYPK 529
T F+ E AL + L ++ +E+++ +P + +YP
Sbjct: 327 ETGIDFDDLKDFETAKALAKKIGIEVAEKSLTLGHILNELFEQFLEHTLIQPTFITHYPA 386
Query: 530 AVKPFYVRLNDDGNTVAAFDMVVPKGGTVITGSQNEER--IDML-----NTRIKELGLPR 582
+ P R + F++ + G I + +E +D KE G
Sbjct: 387 EISPLAKRNPSNPEFTDRFELFI--AGKEIANAFSELNDPLDQRERFEQQVAEKEAGDDE 444
Query: 583 EQY--EWYLDLRRHGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFP 626
Q+ E +++ +G G G D +V+ T +RD I FP
Sbjct: 445 AQFVDEDFVEALEYGMPPTGGLGIGIDRLVMLLTDSKSIRDVILFP 490
>gnl|CDD|238398 cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) class II core
domain. Class II LysRS is a dimer which attaches a
lysine to the 3' OH group of ribose of the appropriate
tRNA. Its assignment to class II aaRS is based upon its
structure and the presence of three characteristic
sequence motifs in the core domain. It is found in
eukaryotes as well as some prokaryotes and archaea.
However, LysRS belongs to class I aaRS's in some
prokaryotes and archaea. The catalytic core domain is
primarily responsible for the ATP-dependent formation of
the enzyme bound aminoacyl-adenylate.
Length = 329
Score = 51.0 bits (123), Expect = 8e-07
Identities = 59/267 (22%), Positives = 92/267 (34%), Gaps = 53/267 (19%)
Query: 393 VYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQLEDAMKCADDYFKFLCKWILEDCSKDL 452
VY G FR E H E M+E A++ D M +D F L K I +
Sbjct: 79 VYEIGRNFRNEGI-DLTHNPEFTMIEFYEAYADYNDMMDLTEDLFSGLVKKING--KTKI 135
Query: 453 EFVSKRIDMTCIDRLQSVISSSFEKITYTEAVKA------LEKVTEKIFET--KLEWGVA 504
E+ K +D T F+++T +A+K E E+ E L +
Sbjct: 136 EYGGKELDFT----------PPFKRVTMVDALKEKTGIDFPELDLEQPEELAKLLAKLIK 185
Query: 505 LTAEH---LSYLADEI--------YKRPVIVYNYPKAVKPFYVRLNDDGNTVAAFDMVVP 553
E L L D++ +P + ++P + P R + F++ +
Sbjct: 186 EKIEKPRTLGKLLDKLFEEFVEPTLIQPTFIIDHPVEISPLAKRHRSNPGLTERFELFI- 244
Query: 554 KGGTVITGSQNEERIDMLN------------TRIKELGLPREQY--EWYLDLRRHGTVKH 599
G I + E LN + KE G E ++ +G
Sbjct: 245 -CGKEIANAYTE-----LNDPFDQRERFEEQAKQKEAGDDEAMMMDEDFVTALEYGMPPT 298
Query: 600 SGFSFGFDLMVLFTTGLTDVRDAIPFP 626
G G D +V+ T +RD I FP
Sbjct: 299 GGLGIGIDRLVMLLTDSNSIRDVILFP 325
>gnl|CDD|224111 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 502
Score = 47.2 bits (113), Expect = 2e-05
Identities = 60/256 (23%), Positives = 98/256 (38%), Gaps = 32/256 (12%)
Query: 393 VYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQLEDAMKCADDYFKFLCKWILEDCS--- 449
V+ G FR E +++ H E M+E A++ ED M ++ K L K +
Sbjct: 251 VFEIGRNFRNEGIDTT-HNPEFTMLEFYQAYADYEDLMDLTEELIKELAKEVNGTTKVTY 309
Query: 450 --KDLEFVS--KRIDMTCIDRLQSVISSSFEKITYTEAVKALEKVTEKIFETKLEWGVAL 505
++++F KRI M +D L+ + F+ + E K L K E WG+
Sbjct: 310 GGQEIDFSKPFKRITM--VDALKEYLGVDFDDLFDDEEAKELAKKHGIEVEKYGTWGLGH 367
Query: 506 TAEHLSY-LADEIYKRPVIVYNYPKAVKPFYVRLNDDGNTVAAFDMVVPKGGTVITGSQN 564
L L + +P V ++P + P R + F++ + GG I + +
Sbjct: 368 LLNELFEELVEAKLIQPTFVTDHPVEISPLAKRHRSNPGLTERFELFI--GGKEIANAYS 425
Query: 565 EERIDMLN------------TRIKELGLPREQY--EWYLDLRRHGTVKHSGFSFGFDLMV 610
E LN KE G E +++ +G G G D +V
Sbjct: 426 E-----LNDPVDQRERFEAQVEEKEAGDDEAMELDEDFVEALEYGMPPTGGLGIGIDRLV 480
Query: 611 LFTTGLTDVRDAIPFP 626
+ T +RD I FP
Sbjct: 481 MLLTNSPSIRDVILFP 496
>gnl|CDD|238400 cd00777, AspRS_core, Asp tRNA synthetase (aspRS) class II core
domain. Class II assignment is based upon its structure
and the presence of three characteristic sequence
motifs. AspRS is a homodimer, which attaches a specific
amino acid to the 3' OH group of ribose of the
appropriate tRNA. The catalytic core domain is primarily
responsible for the ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. AspRS in this family
differ from those found in the AsxRS family by a GAD
insert in the core domain.
Length = 280
Score = 45.6 bits (109), Expect = 3e-05
Identities = 27/95 (28%), Positives = 46/95 (48%), Gaps = 6/95 (6%)
Query: 539 NDDGNTVA-AFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPRE----QYEWYLDLRR 593
D + A A+D+V+ G + GS D+ + LGL E ++ + L+ +
Sbjct: 185 KDPEDARAQAYDLVL-NGVELGGGSIRIHDPDIQEKVFEILGLSEEEAEEKFGFLLEAFK 243
Query: 594 HGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFPRS 628
+G H G + G D +V+ TG +RD I FP++
Sbjct: 244 YGAPPHGGIALGLDRLVMLLTGSESIRDVIAFPKT 278
Score = 38.3 bits (90), Expect = 0.008
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 237 MRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEG 271
+R+RS + A F GF+ ++ P++T + EG
Sbjct: 1 LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEG 35
>gnl|CDD|211576 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type.
Asparate--tRNA ligases in this family may be
discriminating (6.1.1.12) or nondiscriminating
(6.1.1.23). In a multiple sequence alignment of
representative asparaginyl-tRNA synthetases (asnS),
archaeal/eukaryotic type aspartyl-tRNA synthetases
(aspS_arch), and bacterial type aspartyl-tRNA
synthetases (aspS_bact), there is a striking similarity
between asnS and aspS_arch in gap pattern and in
sequence, and a striking divergence of aspS_bact.
Consequently, a separate model was built for each of the
three groups. This model, aspS_bact, represents
aspartyl-tRNA synthetases from the Bacteria and from
mitochondria. In some species, this enzyme aminoacylates
tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently
transamidated to Asn-tRNA(asn). This model generates
very low scores for the archaeal type of aspS and for
asnS; scores between the trusted and noise cutoffs
represent fragmentary sequences [Protein synthesis, tRNA
aminoacylation].
Length = 583
Score = 45.5 bits (108), Expect = 7e-05
Identities = 25/86 (29%), Positives = 48/86 (55%), Gaps = 5/86 (5%)
Query: 547 AFDMVVPKGGTVITGSQNEERIDMLNTRIKELGL----PREQYEWYLDLRRHGTVKHSGF 602
A+D+V+ G + GS ++ + LG+ RE++ + L+ ++GT H+GF
Sbjct: 469 AYDLVL-NGVELGGGSIRIHDPEVQKKVFEILGIDPEEAREKFGFLLEAFKYGTPPHAGF 527
Query: 603 SFGFDLMVLFTTGLTDVRDAIPFPRS 628
+ G D +++ TG ++RD I FP++
Sbjct: 528 ALGLDRLMMLLTGTDNIRDVIAFPKT 553
Score = 33.6 bits (77), Expect = 0.39
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 237 MRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEG 271
+++R +T A F GFL ++ P++T + EG
Sbjct: 138 LKLRHKVTKAVRNFLDQQGFLEIETPMLTKSTPEG 172
>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed.
Length = 505
Score = 43.5 bits (102), Expect = 2e-04
Identities = 59/280 (21%), Positives = 102/280 (36%), Gaps = 42/280 (15%)
Query: 374 YLTVSGRLHLESYACA-LGNVYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQLEDAMKC 432
YL ++ L+L+ V+ FR E S +H E M+E +A++ D ++
Sbjct: 235 YLRIAPELYLKRLVVGGFERVFEINRNFRNEGI-SVRHNPEFTMMELYMAYADYHDLIEL 293
Query: 433 ADDYFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQSVISSSFEKITYTEAVK------- 485
+ F+ L + +L + + + D FEK+T EA+K
Sbjct: 294 TESLFRTLAQEVLG--TTKVTYGEHVFDF----------GKPFEKLTMREAIKKYRPETD 341
Query: 486 --------ALEKVTEKI-FETKLEWGVA-LTAEHLSYLADEIYKRPVIVYNYPKAVKPFY 535
A + + E I + WG+ + E +A+ +P + YP V P
Sbjct: 342 MADLDNFDAAKALAESIGITVEKSWGLGRIVTEIFDEVAEAHLIQPTFITEYPAEVSPLA 401
Query: 536 VRLNDDGNTVAAFDMVVPKGGTVITG---------SQNEERIDMLNTRIKELGLPREQYE 586
R + + F+ + GG I Q E + +N + E
Sbjct: 402 RRNDVNPEITDRFEFFI--GGREIGNGFSELNDAEDQAERFQEQVNAKAAGDDEAMFYDE 459
Query: 587 WYLDLRRHGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFP 626
Y+ +G +G G D M++ T +RD I FP
Sbjct: 460 DYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVILFP 499
>gnl|CDD|215490 PLN02903, PLN02903, aminoacyl-tRNA ligase.
Length = 652
Score = 39.4 bits (92), Expect = 0.006
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 5/86 (5%)
Query: 547 AFDMVVPKGGTVITGSQNEERIDMLNTRIKELGLPREQYE----WYLDLRRHGTVKHSGF 602
A+DMV G + GS R D+ ++ +GL E+ E + L+ G H G
Sbjct: 537 AYDMVY-NGVEIGGGSLRIYRRDVQQKVLEAIGLSPEEAESKFGYLLEALDMGAPPHGGI 595
Query: 603 SFGFDLMVLFTTGLTDVRDAIPFPRS 628
++G D +V+ G +RD I FP++
Sbjct: 596 AYGLDRLVMLLAGAKSIRDVIAFPKT 621
>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 585
Score = 38.7 bits (91), Expect = 0.009
Identities = 26/89 (29%), Positives = 46/89 (51%), Gaps = 11/89 (12%)
Query: 547 AFDMVVPKGGTVITGSQNEERI---DMLNTRIKELGL----PREQYEWYLDLRRHGTVKH 599
A+D+V+ G + GS RI ++ + LG+ E++ + L+ ++G H
Sbjct: 472 AYDLVL-NGYELGGGSI---RIHDPEIQEKVFEILGISPEEAEEKFGFLLEAFKYGAPPH 527
Query: 600 SGFSFGFDLMVLFTTGLTDVRDAIPFPRS 628
G +FG D +V+ TG +RD I FP++
Sbjct: 528 GGIAFGLDRLVMLLTGAESIRDVIAFPKT 556
Score = 33.7 bits (78), Expect = 0.31
Identities = 12/35 (34%), Positives = 22/35 (62%)
Query: 237 MRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEG 271
+++RS +T A F + GFL ++ P++T + EG
Sbjct: 141 LKLRSKVTKAIRNFLDDQGFLEIETPILTKSTPEG 175
>gnl|CDD|217020 pfam02403, Seryl_tRNA_N, Seryl-tRNA synthetase N-terminal domain.
This domain is found associated with the Pfam tRNA
synthetase class II domain (pfam00587) and represents
the N-terminal domain of seryl-tRNA synthetase.
Length = 108
Score = 33.0 bits (76), Expect = 0.092
Identities = 17/54 (31%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 301 LDILKASIKEKSNKVEELKRSESNREALIAAVQDLRKTNELVSHLESRDKLLQA 354
L+ L+A E S ++ + K+ + + EALIA V++L + + LE+ + L+A
Sbjct: 45 LEELQAERNELSKEIGKAKKKKEDAEALIAEVKEL---KDELKALEAELRELEA 95
>gnl|CDD|184327 PRK13789, PRK13789, phosphoribosylamine--glycine ligase;
Provisional.
Length = 426
Score = 33.7 bits (77), Expect = 0.25
Identities = 39/141 (27%), Positives = 58/141 (41%), Gaps = 22/141 (15%)
Query: 313 NKVEELKRSESNREALIAAVQDLRKTNELVSHLE--------SRDKLLQAPSVK-TDKVN 363
K++ L RE+ IA LRK+N L+S L+ D+LL A S DK +
Sbjct: 3 VKLKVLLIGSGGRESAIAFA--LRKSN-LLSELKVFPGNGGFPDDELLPADSFSILDKSS 59
Query: 364 FSEDFFSRQTYLTVSGRLH--LESYA--CALGNVYSFGPRFRAEKKESSKHAAEMLMVET 419
S L V G + +A A + FGP + E SKH A+ LM E
Sbjct: 60 VQSFLKSNPFDLIVVGPEDPLVAGFADWAAELGIPCFGPDSYCAQVEGSKHFAKSLMKEA 119
Query: 420 EI------AFSQLEDAMKCAD 434
+I F++ ++ +
Sbjct: 120 KIPTASYKTFTEYSSSLSYLE 140
>gnl|CDD|234778 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 33.9 bits (79), Expect = 0.26
Identities = 33/158 (20%), Positives = 60/158 (37%), Gaps = 32/158 (20%)
Query: 393 VYSFGPRFRAEKKESSKHAAEMLMVETEIAFSQLEDAMKCADDYFKFLCKWILEDCSKDL 452
VY G FR E ++H E M+E A++ D M ++ + L + +L + +
Sbjct: 243 VYEIGRNFRNEGI-DTRHNPEFTMLEFYQAYADYNDMMDLTEELIRHLAQAVLG--TTKV 299
Query: 453 EFVSKRIDMTCIDRLQSVISSSFEKITYTEAVKALEKVTEKIFETKLEWGVALTAEH--- 509
+ ID F+++T +A+K E + E AL E
Sbjct: 300 TYQGTEID----------FGPPFKRLTMVDAIK--EYTGVDFDDMTDEEARALAKELGIE 347
Query: 510 ------LSYLADEIYK--------RPVIVYNYPKAVKP 533
L L +E+++ +P + +YP + P
Sbjct: 348 VEKSWGLGKLINELFEEFVEPKLIQPTFITDYPVEISP 385
>gnl|CDD|178335 PLN02734, PLN02734, glycyl-tRNA synthetase.
Length = 684
Score = 33.9 bits (78), Expect = 0.30
Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 301 LDILKASIKEKSNKVEELKRSESNREALIAAVQDLRKTNELVSHLESRDKLLQAPSVKTD 360
L +A++ + N V LK S++++ + AA++ L L + +K LQA
Sbjct: 9 LAEKQAAVTAQGNAVRALKASKADKAEIDAAIEKL---KALKLEKSALEKELQAAVGAGG 65
Query: 361 KVNFSEDFFSRQTYLTVSGRL 381
S++ F + T+ RL
Sbjct: 66 DGAASKEAFRQAVVNTLERRL 86
>gnl|CDD|107374 cd06379, PBP1_iGluR_NMDA_NR1, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NR1, an essential channel-forming subunit
of the NMDA receptor. N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NR1, an essential channel-forming subunit
of the NMDA receptor. The ionotropic N-methyl-d-asparate
(NMDA) subtype of glutamate receptor serves critical
functions in neuronal development, functioning, and
degeneration in the mammalian central nervous system.
The functional NMDA receptor is a heterotetramer
ccomposed of two NR1 and two NR2 (A, B, C, and D) or of
NR3 (A and B) subunits. The receptor controls a cation
channel that is highly permeable to monovalent ions and
calcium and exhibits voltage-dependent inhibition by
magnesium. Dual agonists, glutamate and glycine, are
required for efficient activation of the NMDA receptor.
When co-expressed with NR1, the NR3 subunits form
receptors that are activated by glycine alone and
therefore can be classified as excitatory glycine
receptors. NR1/NR3 receptors are calcium-impermeable and
unaffected by ligands acting at the NR2
glutamate-binding site.
Length = 377
Score = 32.8 bits (75), Expect = 0.49
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 5/90 (5%)
Query: 256 FLYVQVPVITTTDSEGFSEKFQVTTLFDKRE-KEGPKTAKDIE----GVNLDILKASIKE 310
F + +V ++ + D EG + + + TL ++RE + K K +E N+ L KE
Sbjct: 152 FKWNKVILLVSDDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEPGEKNVTSLLQEAKE 211
Query: 311 KSNKVEELKRSESNREALIAAVQDLRKTNE 340
+++V L SE + + L T E
Sbjct: 212 LTSRVILLSASEDDAAVIYRNAGMLNMTGE 241
>gnl|CDD|234775 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 32.7 bits (76), Expect = 0.63
Identities = 12/35 (34%), Positives = 23/35 (65%)
Query: 237 MRIRSSLTHATHTFFQNHGFLYVQVPVITTTDSEG 271
+++RS +T A F ++GFL ++ P++T + EG
Sbjct: 141 LKLRSKVTSAIRNFLDDNGFLEIETPILTKSTPEG 175
Score = 32.7 bits (76), Expect = 0.73
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 578 LGLPREQYE----WYLDLRRHGTVKHSGFSFGFDLMVLFTTGLTDVRDAIPFP 626
LG+ E+ E + LD ++G H G +FG D +V+ G +RD I FP
Sbjct: 504 LGISEEEAEEKFGFLLDALKYGAPPHGGIAFGLDRLVMLLAGADSIRDVIAFP 556
>gnl|CDD|147609 pfam05517, p25-alpha, p25-alpha. This family encodes a 25 kDa
protein that is phosphorylated by a Ser/Thr-Pro kinase.
It has been described as a brain specific protein, but
it is found in Tetrahymena thermophila.
Length = 151
Score = 31.6 bits (72), Expect = 0.65
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 450 KDLEFVSKRIDMTCIDRLQS-VISSSFEKITYTEAVKALEKVTEKIFETKLE 500
KD + + K++ T +D + S V + S +ITY + KAL ++ K + E
Sbjct: 29 KDCKVIDKKVTATDVDIIFSKVKAKSARRITYEQFEKALSELAAKKKKEADE 80
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 32.3 bits (75), Expect = 0.87
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 301 LDILKASIKEKSNKVEELKRSESNREALIAAVQDLRKTNELVSHLESRDKLLQA 354
L+ L+A S ++ + KR + EALIA V++L E + LE+ L+A
Sbjct: 44 LEELQAERNALSKEIGQAKRKGEDAEALIAEVKEL---KEEIKALEAELDELEA 94
>gnl|CDD|221100 pfam11380, DUF3184, Protein of unknown function (DUF3184). This
eukaryotic family of proteins has no known function.
Length = 629
Score = 31.4 bits (71), Expect = 1.6
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 122 LREKLEALVPKPPPPSTVFLQVSDGSCVASL 152
+EK A PPPP + L DG A+L
Sbjct: 301 RKEKDSAAPTPPPPPLHIVLDNDDGCAPATL 331
>gnl|CDD|235492 PRK05480, PRK05480, uridine/cytidine kinase; Provisional.
Length = 209
Score = 30.5 bits (70), Expect = 1.8
Identities = 10/30 (33%), Positives = 19/30 (63%), Gaps = 6/30 (20%)
Query: 549 DMVVPKGGTVITGSQNEERIDMLNTRIKEL 578
D+++P+GG +N ID+L +I++L
Sbjct: 182 DIIIPEGG------KNRVAIDILKAKIRQL 205
>gnl|CDD|219337 pfam07217, Het-C, Heterokaryon incompatibility protein Het-C. In
filamentous fungi, het loci (for heterokaryon
incompatibility) are believed to regulate
self/nonself-recognition during vegetative growth. As
filamentous fungi grow, hyphal fusion occurs within an
individual colony to form a network. Hyphal fusion can
occur also between different individuals to form a
heterokaryon, in which genetically distinct nuclei
occupy a common cytoplasm. However, heterokaryotic cells
are viable only if the individuals involved have
identical alleles at all het loci.
Length = 602
Score = 31.2 bits (71), Expect = 2.2
Identities = 21/59 (35%), Positives = 28/59 (47%), Gaps = 15/59 (25%)
Query: 465 DRLQSVISSSFEKITYTEAVKALEKVTEKIFETKLEWGVALTAEHLSYLADEIYKRPVI 523
D++ IS++ EKI LE + EKI ET LT S LA + RP+I
Sbjct: 382 DKVVKSISNAIEKIP------GLESLIEKISET-------LTVFVFSLLAP--FIRPII 425
>gnl|CDD|220686 pfam10312, Cactin_mid, Conserved mid region of cactin. This is the
conserved middle region of a family of proteins referred
to as cactins. The region contains two of three
predicted coiled-coil domains. Most members of this
family have a CactinC_cactus pfam09732 domain at the
C-terminal end. Upstream of Mid_cactin in Drosophila
members are a serine-rich region, some non-typical RD
motifs and three predicted bipartite nuclear
localisation signals, none of which are well-conserved.
Cactin associates with IkappaB-cactus as one of the
intracellular members of the Rel (NF-kappaB) pathway
which is conserved in invertebrates and vertebrates. In
mammals, this pathway controls the activities of the
immune and inflammatory response genes as well as viral
genes, and is critical for cell growth and survival. In
Drosophila, the Rel pathway functions in the innate
cellular and humoral immune response, in muscle
development, and in the establishment of dorsal-ventral
polarity in the early embryo.
Length = 190
Score = 30.0 bits (68), Expect = 2.3
Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 8/82 (9%)
Query: 296 IEGVNLDILKASIKEKSNKVEELKRSESNRE---ALIAAVQDLRKTNELVSHLESRDKLL 352
+EG+ D L+ ++ EL+++ NRE AL+ +D + E D+
Sbjct: 67 LEGLTEDELEELEED-IKVYLELEKNPKNREYWNALLIICEDELEKLEKKEAEGRADRSG 125
Query: 353 QAPSVKTDKVNFSEDFFSRQTY 374
SV D V S ++Y
Sbjct: 126 LHSSVAAD-VK---KILSGKSY 143
>gnl|CDD|188630 cd00408, DHDPS-like, Dihydrodipicolinate synthase family.
Dihydrodipicolinate synthase family. A member of the
class I aldolases, which use an active-site lysine which
stabilizes a reaction intermediate via Schiff base
formation, and have TIM beta/alpha barrel fold. The
dihydrodipicolinate synthase family comprises several
pyruvate-dependent class I aldolases that use the same
catalytic step to catalyze different reactions in
different pathways and includes such proteins as
N-acetylneuraminate lyase, MosA protein,
5-keto-4-deoxy-glucarate dehydratase,
trans-o-hydroxybenzylidenepyruvate hydratase-aldolase,
trans-2'-carboxybenzalpyruvate hydratase-aldolase, and
2-keto-3-deoxy- gluconate aldolase. The family is also
referred to as the N-acetylneuraminate lyase (NAL)
family.
Length = 281
Score = 30.2 bits (69), Expect = 2.9
Identities = 13/45 (28%), Positives = 16/45 (35%), Gaps = 6/45 (13%)
Query: 507 AEHLSYLADEIYKRPVIVYNYPKAVK-----PFYVRLNDDGNTVA 546
H +AD PVI+YN P RL + N V
Sbjct: 112 VAHFKAVADAS-DLPVILYNIPGRTGVDLSPETIARLAEHPNIVG 155
>gnl|CDD|219186 pfam06810, Phage_GP20, Phage minor structural protein GP20. This
family consists of several phage minor structural
protein GP20 sequences of around 180 residues in length.
The function of this family is unknown.
Length = 156
Score = 29.6 bits (67), Expect = 3.0
Identities = 11/40 (27%), Positives = 23/40 (57%)
Query: 301 LDILKASIKEKSNKVEELKRSESNREALIAAVQDLRKTNE 340
D LK +K + ++E+LK+ + E L ++ L++ N+
Sbjct: 29 RDSLKKQLKNRDKQIEDLKKKVKDNEELQKKIEKLKQQNK 68
>gnl|CDD|217469 pfam03276, Gag_spuma, Spumavirus gag protein.
Length = 582
Score = 30.7 bits (69), Expect = 3.2
Identities = 16/73 (21%), Positives = 19/73 (26%)
Query: 64 PMPPPPADFAGDAAAKSSKEKEKEKDVSCVEILQSRIPFFRTIIRVLGGSAGISNNVPLR 123
PPPP+ G SS S PF + S P
Sbjct: 186 IQPPPPSSLPGLPPGSSSLAPSASSTPGNRLPRVSFNPFLPGPSPAQPSAPPASIPAPPI 245
Query: 124 EKLEALVPKPPPP 136
+ V PP P
Sbjct: 246 PPVIQYVAPPPVP 258
>gnl|CDD|239815 cd04320, AspRS_cyto_N, AspRS_cyto_N: N-terminal, anticodon
recognition domain of the type found in Saccharomyces
cerevisiae and human cytoplasmic aspartyl-tRNA
synthetase (AspRS). This domain is a beta-barrel domain
(OB fold) involved in binding the tRNA anticodon
stem-loop. The enzymes in this group are homodimeric
class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs
catalyze the specific attachment of amino acids (AAs) to
their cognate tRNAs during protein biosynthesis. This
2-step reaction involves i) the activation of the AA by
ATP in the presence of magnesium ions, followed by ii)
the transfer of the activated AA to the terminal ribose
of tRNA. In the case of the class2b aaRSs, the
activated AA is attached to the 3'OH of the terminal
ribose. Eukaryotes contain 2 sets of aaRSs, both of
which are encoded by the nuclear genome. One set
concerns with cytoplasmic protein synthesis, whereas the
other exclusively with mitochondrial protein synthesis.
Length = 102
Score = 28.3 bits (64), Expect = 3.7
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 13/70 (18%)
Query: 139 VFLQVSDGSCVASLQVVVE--STLVSPSKIR-----PIGTCLMVEGVLKQPSVQGKHA-- 189
FL + ++Q V+ + VS ++ + + VEG +K+P K
Sbjct: 19 AFLVLRQQG--YTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPIKSCTQ 76
Query: 190 --VELKVEKI 197
VEL +EKI
Sbjct: 77 QDVELHIEKI 86
>gnl|CDD|188618 cd09898, H3TH_53EXO, H3TH domain of the 5'-3' exonuclease of Taq
DNA polymerase I and homologs. H3TH
(helix-3-turn-helix) domains of the 5'-3' exonuclease
(53EXO) of mutli-domain DNA polymerase I and single
domain protein homologs are included in this family. Taq
DNA polymerase I contains a polymerase domain for
synthesizing a new DNA strand and a 53EXO domain for
cleaving RNA primers or damaged DNA strands. Taq's 53EXO
recognizes and endonucleolytically cleaves a
structure-specific DNA substrate that has a bifurcated
downstream duplex and an upstream template-primer duplex
that overlaps the downstream duplex by 1 bp. The 53EXO
cleaves the unpaired 5'-arm of the overlap flap DNA
substrate. 5'-3' exonucleases are members of the
structure-specific, 5' nuclease family that catalyzes
hydrolysis of DNA duplex-containing nucleic acid
structures during DNA replication, repair, and
recombination. These nucleases contain a PIN (PilT N
terminus) domain with a helical arch/clamp region/I
domain (not included here) and inserted within the PIN
domain is an atypical helix-hairpin-helix-2 (HhH2)-like
region. This atypical HhH2 region, the H3TH domain, has
an extended loop with at least three turns between the
first two helices, and only three of the four helices
appear to be conserved. Both the H3TH domain and the
helical arch/clamp region are involved in DNA binding.
Studies suggest that a glycine-rich loop in the H3TH
domain contacts the phosphate backbone of the template
strand in the downstream DNA duplex. The nucleases
within this family have a carboxylate rich active site
that is involved in binding essential divalent metal ion
cofactors (i. e., Mg2+ or Mn2+ or Zn2+) required for
nuclease activity. The first metal binding site is
composed entirely of Asp/Glu residues from the PIN
domain, whereas, the second metal binding site is
composed generally of two Asp residues from the PIN
domain and two Asp residues from the H3TH domain.
Together with the helical arch and network of amino
acids interacting with metal binding ions, the H3TH
region defines a positively charged active-site
DNA-binding groove in structure-specific 5' nucleases.
Length = 73
Score = 27.7 bits (63), Expect = 4.0
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 9/32 (28%)
Query: 289 GPKTA-------KDIEGV--NLDILKASIKEK 311
GPKTA +E + NLD LK ++EK
Sbjct: 25 GPKTAAKLLQEYGSLENILANLDELKGKLREK 56
>gnl|CDD|132723 cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) of Eukaryotic RNA
polymerase III (RNAP III), C-terminal domain.
Eukaryotic RNA polymerase III (RNAP III) is a large
multi-subunit complex responsible for the synthesis of
tRNAs, 5SrRNA, Alu-RNA, U6 snRNA, among others. Rpc1 is
also known as C160 in yeast. Structure studies suggest
that different RNA polymerase complexes share a similar
crab-claw-shape structure. The C-terminal domain of
Rpb1, the largest subunit of RNAP II, makes up part of
the foot and jaw structures of RNAP II. The similarity
between this domain and the C-terminal domain of Rpb1,
its counterpart in RNAP II, suggests a similar
functional and structural role.
Length = 300
Score = 29.9 bits (68), Expect = 4.4
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 436 YFKFLCKWILEDCSKDLEFVSKRIDMTCIDRLQ 468
Y + +I E S D ++ ++D I++LQ
Sbjct: 89 YLGEVASYIEEVYSPDDCYILIKLDKKIIEKLQ 121
>gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional.
Length = 880
Score = 29.7 bits (68), Expect = 5.9
Identities = 28/108 (25%), Positives = 42/108 (38%), Gaps = 39/108 (36%)
Query: 289 GPKTAK-------DIEGV--NLDILKASIKEK--SNK---------------------VE 316
G KTA +EG+ NLD +K KEK NK +E
Sbjct: 196 GEKTAAKLLQEYGSLEGLYENLDEIKGKKKEKLRENKEQAFLSRKLATIKTDVPLEVDLE 255
Query: 317 ELKRSESNREALIAAVQDLRKTNELVSHLESRDKLLQAPSVKTDKVNF 364
+L+ +RE LIA ++L E S L + A + D+ ++
Sbjct: 256 DLELQPPDREKLIALFKEL----EFKSLL---RRAAAAEAAPLDEEDY 296
>gnl|CDD|234637 PRK00107, gidB, 16S rRNA methyltransferase GidB; Reviewed.
Length = 187
Score = 28.6 bits (65), Expect = 7.1
Identities = 19/77 (24%), Positives = 28/77 (36%), Gaps = 16/77 (20%)
Query: 87 EKDVSCVEILQSRIPFFRTIIRVLGGSAGISNNVPLREKLEALVPKPPPPSTVFLQVSDG 146
E V+ V+ L +I F R + L G+ N + + E + D
Sbjct: 69 ELKVTLVDSLGKKIAFLREVAAEL----GLKNVTVVHGRAEEFGQEEKF---------DV 115
Query: 147 SC---VASLQVVVESTL 160
VASL +VE L
Sbjct: 116 VTSRAVASLSDLVELCL 132
>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed.
Length = 106
Score = 27.6 bits (62), Expect = 7.2
Identities = 8/28 (28%), Positives = 12/28 (42%)
Query: 64 PMPPPPADFAGDAAAKSSKEKEKEKDVS 91
A A K +E+E+EK+ S
Sbjct: 66 AAAAAAAAAAAAEEKKEEEEEEEEKEES 93
>gnl|CDD|188640 cd00953, KDG_aldolase, KDG (2-keto-3-deoxygluconate) aldolases
found in archaea. KDG (2-keto-3-deoxygluconate)
aldolases found in archaea. This subfamily of enzymes is
adapted for high thermostability and shows specificity
for non-phosphorylated substrates. The enzyme catalyses
the reversible aldol cleavage of 2-keto-3-dexoygluconate
to pyruvate and glyceraldehyde, the third step of a
modified non-phosphorylated Entner-Doudoroff pathway of
glucose oxidation. KDG aldolase shows no significant
sequence similarity to microbial
2-keto-3-deoxyphosphogluconate (KDPG) aldolases, and the
enzyme shows no activity with glyceraldehyde 3-phosphate
as substrate. The enzyme is a tetramer and a member of
the DHDPS family of Schiff-base-dependent class I
aldolases.
Length = 279
Score = 28.5 bits (64), Expect = 9.8
Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 11/57 (19%)
Query: 521 PVIVYNYPKAVKPFYVRLNDDGNTVAAFDMVVPKGGTVITGSQ--NEERIDMLNTRI 575
P +YNYPKA D N A ++ K G I G + NE+ ML +
Sbjct: 123 PTFIYNYPKAT-------GYDINARMAKEIK--KAGGDIIGVKDTNEDISHMLEYKR 170
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.133 0.379
Gapped
Lambda K H
0.267 0.0599 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 32,050,692
Number of extensions: 3162852
Number of successful extensions: 3412
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3348
Number of HSP's successfully gapped: 88
Length of query: 634
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 531
Effective length of database: 6,369,140
Effective search space: 3382013340
Effective search space used: 3382013340
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (27.9 bits)