RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 015773
(400 letters)
>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
Length = 383
Score = 793 bits (2050), Expect = 0.0
Identities = 332/384 (86%), Positives = 359/384 (93%), Gaps = 3/384 (0%)
Query: 15 QVVSPWEVSS--SGKIDYDKLIDKFGCQRLDQSLVDRVQRLTGRPPHVFLRRGVFFAHRD 72
QVV+PWEVS+ GKIDYDKL+DKFGCQRLD SL+DRV+RLTGRP H FLRRGVFFAHRD
Sbjct: 1 QVVTPWEVSAKDGGKIDYDKLVDKFGCQRLDPSLIDRVERLTGRPAHPFLRRGVFFAHRD 60
Query: 73 LNDILDAYEKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVIQLTDDEKC 132
L +ILDAYEKGEKFYLYTGRGPSSEALHLGHL+PFMFT +YLQDAFKVPLVIQLTDDEK
Sbjct: 61 LEEILDAYEKGEKFYLYTGRGPSSEALHLGHLIPFMFT-KYLQDAFKVPLVIQLTDDEKF 119
Query: 133 MWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSDFDYVGGAFYKNMVKVAKCVTYNKV 192
+WKNLSVEESQRLARENAKDIIACGFDV +TFIFSDFDYVGGAFYKNMVK+AKCVT N+V
Sbjct: 120 LWKNLSVEESQRLARENAKDIIACGFDVERTFIFSDFDYVGGAFYKNMVKIAKCVTLNQV 179
Query: 193 VGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDPYFRMTRDV 252
GIFGF+GED+IGK+SFP VQA PSFPSSFPHLF GKD LRCLIPCAIDQDPYFRMTRDV
Sbjct: 180 RGIFGFSGEDNIGKISFPAVQAAPSFPSSFPHLFGGKDKLRCLIPCAIDQDPYFRMTRDV 239
Query: 253 APRIGYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQES 312
APR+GY+KPALIES FFPALQGE+GKMSASDPNSAIYVTD+ K IKNKINKYAFSGGQ++
Sbjct: 240 APRLGYYKPALIESRFFPALQGESGKMSASDPNSAIYVTDTPKEIKNKINKYAFSGGQDT 299
Query: 313 VELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVE 372
VE HR+LGANLEVDIP KYL+FFLEDDAELE IKKEYG+G MLTGEVK+RL +VLTE+VE
Sbjct: 300 VEEHRELGANLEVDIPWKYLNFFLEDDAELERIKKEYGSGRMLTGEVKKRLIEVLTEIVE 359
Query: 373 RHQVARAAVTDEMVDAFMAVRPLP 396
RHQ ARAAVTDEMVDAFMAVRPLP
Sbjct: 360 RHQRARAAVTDEMVDAFMAVRPLP 383
>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
Length = 368
Score = 348 bits (895), Expect = e-118
Identities = 143/384 (37%), Positives = 215/384 (55%), Gaps = 29/384 (7%)
Query: 12 EREQVVSPWEVSSSGKIDYDKLIDKFGCQRLDQSLVDRVQRLTGRPPHVFLRRGVFFAHR 71
E E +V+PWEVS G +DYDKL ++FG + + L + PH +RRG+ F HR
Sbjct: 1 EDEFMVTPWEVS--GIVDYDKLFEEFGIEPFTEVL-PELPE-----PHPLMRRGIIFGHR 52
Query: 72 DLNDILDAYEKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVIQLTDDEK 131
D + IL+AY G+ F +YTG PS +H+GH + F ++ Q+ F + I + DDE
Sbjct: 53 DYDKILEAYRNGKPFAVYTGFMPSGP-MHIGHKMVFDEL-KWHQE-FGANVYIPIADDEA 109
Query: 132 CMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSDFDYVGGAFYKNM-VKVAKCVTYN 190
+ LS EE++ A E D+IA GFD KT I+ + ++ ++AK V ++
Sbjct: 110 YAARGLSWEETREWAYEYILDLIALGFDPDKTEIYFQSEN---IKVYDLAFELAKKVNFS 166
Query: 191 KVVGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDPYFRMTR 250
++ I+GFTGE +IG + +P QA P L G L+P IDQDP+ R+TR
Sbjct: 167 ELKAIYGFTGETNIGHIFYPATQAADIL---HPQLEEGP--KPTLVPVGIDQDPHIRLTR 221
Query: 251 DVAPRI----GYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAF 306
D+A R+ G+ KP+ F P L G GKMS+S P SAIY+TD + +K KI K A
Sbjct: 222 DIAERLHGGYGFIKPSSTYHKFMPGLTG--GKMSSSKPESAIYLTDDPETVKKKIMK-AL 278
Query: 307 SGGQESVELHRKLGANLEVDIPVKYLSFFL-EDDAELEHIKKEYGAGGMLTGEVKQRLAK 365
+GG+ ++E RKLG + + + L + L EDD EL+ I +E +G +L GE K+ A+
Sbjct: 279 TGGRATLEEQRKLGGEPDECVVYELLLYHLEEDDKELKEIYEECRSGELLCGECKKEAAE 338
Query: 366 VLTELVERHQVARAAVTDEMVDAF 389
+ E ++ HQ R E+++ +
Sbjct: 339 KIAEFLKEHQEKREEA-REILEKY 361
>gnl|CDD|232888 TIGR00233, trpS, tryptophanyl-tRNA synthetase. This model
represents tryptophanyl-tRNA synthetase. Some members of
the family have a pfam00458 domain amino-terminal to the
region described by this model [Protein synthesis, tRNA
aminoacylation].
Length = 327
Score = 291 bits (748), Expect = 7e-97
Identities = 111/320 (34%), Positives = 162/320 (50%), Gaps = 30/320 (9%)
Query: 84 EKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQ 143
+KF + TG PS +HLGH + + T Q F V L I + D K ++
Sbjct: 1 KKFRVLTGIQPSG-KMHLGHYLGAIQTKWLQQ--FGVELFICIADLHAITVKQTD-PDAL 56
Query: 144 RLAREN-AKDIIACGFDVTKTFIFSDFDYVGGAFYKNMVKVAKCVTYNKVVGIFGFTGED 202
R ARE A D +A G D KTFIF DY Y+ ++ VT+ ++ + F +
Sbjct: 57 RKAREELAADYLAVGLDPEKTFIFLQSDY--PEHYELAWLLSCQVTFGELKRMTQFKDKS 114
Query: 203 H-----IGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIG 257
IG +S+P +QA L+P IDQD + +TRD+A R
Sbjct: 115 QAENVPIGLLSYPVLQAADILLYQAD-----------LVPVGIDQDQHLELTRDLAERFN 163
Query: 258 ------YHKPALIESSFFPALQGETG-KMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQ 310
+ KP + S FFP L G +G KMS SDPNSAI++TD+ K IK KI K A GG+
Sbjct: 164 KKFKNFFPKPESLISKFFPRLMGLSGKKMSKSDPNSAIFLTDTPKQIKKKIRKAATDGGR 223
Query: 311 ESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTEL 370
++ HR+ + + +YLSFFL DD +L+ I + Y +G + GE K+ L +VL E
Sbjct: 224 VTLFEHREKPGVPNLLVIYQYLSFFLIDDDKLKEIYEAYKSGKLGYGECKKALIEVLQEF 283
Query: 371 VERHQVARAAVTDEMVDAFM 390
++ Q RA + +E++D +
Sbjct: 284 LKEIQERRAEIAEEILDKIL 303
>gnl|CDD|173903 cd00806, TrpRS_core, catalytic core domain of tryptophanyl-tRNA
synthetase. Tryptophanyl-tRNA synthetase (TrpRS)
catalytic core domain. TrpRS is a homodimer which
attaches Tyr to the appropriate tRNA. TrpRS is a class I
tRNA synthetases, so it aminoacylates 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 class I characteristic
HIGH and KMSKS motifs, which are involved in ATP
binding.
Length = 280
Score = 288 bits (739), Expect = 4e-96
Identities = 104/298 (34%), Positives = 145/298 (48%), Gaps = 32/298 (10%)
Query: 87 YLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLA 146
+ +G PS +LHLGH + +LQ+A L + D K L EE ++
Sbjct: 1 RVLSGIQPSG-SLHLGHYLGAFRFWVWLQEA-GYELFFFIADLHALTVKQLDPEELRQNT 58
Query: 147 RENAKDIIACGFDVTKTFIFSDFDYVGGAFYKNMVKVAKCVTYNKVVGIFGFT------G 200
RENAKD +ACG D K+ IF D Y+ ++ VT+ ++ + GF
Sbjct: 59 RENAKDYLACGLDPEKSTIFFQSDV--PEHYELAWLLSCVVTFGELERMTGFKDKSAQGE 116
Query: 201 EDHIGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYH- 259
+IG +++P +QA CL+P IDQDP+ +TRD+A R
Sbjct: 117 SVNIGLLTYPVLQAADILLYKA-----------CLVPVGIDQDPHLELTRDIARRFNKLY 165
Query: 260 -----KPALIES--SFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQES 312
KPA + S +F P LQG + KMS SDPN+AI++TDS K IK KI K A GG+
Sbjct: 166 GEIFPKPAALLSKGAFLPGLQGPSKKMSKSDPNNAIFLTDSPKEIKKKIMKAATDGGR-- 223
Query: 313 VELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTEL 370
HR+ G V V+ S F DD E EY +GG+ GE K+ LA+ + E
Sbjct: 224 -TEHRRDGGGPGVSNLVEIYSAFFNDDDEELEEIDEYRSGGLGYGECKKLLAEAIQEF 280
>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 314
Score = 235 bits (602), Expect = 4e-75
Identities = 89/328 (27%), Positives = 143/328 (43%), Gaps = 37/328 (11%)
Query: 81 EKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVIQLTDDEKCMWKNLSVE 140
E +KF + +G PS + LHLG+ + + N L + D + E
Sbjct: 1 ENMKKFRVLSGIQPSGK-LHLGNYLGAIR-NWVLLQEEYYECFFFIADLHAITVRQDPTE 58
Query: 141 ES-QRLARENAKDIIACGFDVTKTFIFSDFDYVGGAFYKNMVKVAKCVTYNKVVGIFGFT 199
E ++ RE A D +A G D K+ IF + + ++ + ++ + F
Sbjct: 59 EDLRQATREVAADYLAVGLDPEKSTIFLQSEV--PEHAELAWLLSCVTNFGELERMTQFK 116
Query: 200 GED-------HIGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDPYFRMTRDV 252
+ IG +++P +QA L+ L+P DQD + +TRD+
Sbjct: 117 DKSAKKGESIPIGLLTYPVLQAADIL------LYQA-----TLVPVGEDQDQHLELTRDI 165
Query: 253 APRIGYH------KPALI--ESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKY 304
A R + P + + + P L G GKMS SDPNSAI++ D K I+ KI K
Sbjct: 166 ARRFNHLYGEVFPLPEALISKVARLPGLDGP-GKMSKSDPNSAIFLLDDPKTIRKKIKKA 224
Query: 305 AFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLA 364
A G ++ +RK G EV + S F EDD+ LE I+ EY G + GE K+ LA
Sbjct: 225 ATDG--PTLIEYRK-GGKPEVCNLFEIYSAFFEDDSILE-IEAEYRGGELGCGECKKELA 280
Query: 365 KVLTELVERHQVARAAVTDEMVDAFMAV 392
+ + E ++ Q R + ++ +
Sbjct: 281 EAIQEFLKPIQERREELREDP-AYLDDI 307
>gnl|CDD|216003 pfam00579, tRNA-synt_1b, tRNA synthetases class I (W and Y).
Length = 291
Score = 94.6 bits (236), Expect = 5e-22
Identities = 75/313 (23%), Positives = 122/313 (38%), Gaps = 45/313 (14%)
Query: 82 KGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVI----QLTDDEKCMWKNL 137
K +YTG P+ LHLG+LVP M ++ Q +V +I + D +
Sbjct: 2 KERPLRVYTGFDPTGP-LHLGYLVPLMKLVQFQQAGHEVFFLIGDLTAIIGD-----PSK 55
Query: 138 SVEESQRLAR---ENAKDIIACGFDVTKTFIFSDFDYVGGAFYKNMVKV-AKCVTYNKVV 193
S E ENAK +ACG D K+ I ++ D++ + + + + +
Sbjct: 56 SEERKLLSREEVLENAKAQLACGLDPEKSEIVNNSDWLE---HLELAWLLRDLGNHFSLN 112
Query: 194 GIFGFTG----EDHIGKVSF-----PPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDP 244
+ F +S P +QA + L D L P DQ
Sbjct: 113 RMLQFKDVKKRLKQNPGISLGEFTYPLLQA-----ADILLLK--AD----LQPGGSDQWG 161
Query: 245 YFRMTRDVAPRIGYHKPALIESSFFPALQGETG--KMSASDPNSAIYVTDSAKAIKNKIN 302
+ + RD+A R P L G G KMS S NSAI++ D +++ KI
Sbjct: 162 HIELGRDLARRFNKKVFKKPVGLTNPLLTGLDGGKKMSKSAGNSAIFLDDEKESVYKKI- 220
Query: 303 KYAFSGGQESVELHRKLGANLEVDIPV-KYLSFFLEDDA--ELEHIKKEYGAGGMLTGEV 359
+ A++ E+ + L E+ + L FL E E + G + G++
Sbjct: 221 QKAYTDPDR--EVRKDLKLFTELSNEEIEILEAFLGKGPKREAEELLAREVTGLVHGGDL 278
Query: 360 KQRLAKVLTELVE 372
K+ A+ + L+E
Sbjct: 279 KKAAAEAVNALLE 291
>gnl|CDD|236286 PRK08560, PRK08560, tyrosyl-tRNA synthetase; Validated.
Length = 329
Score = 95.3 bits (238), Expect = 5e-22
Identities = 76/243 (31%), Positives = 111/243 (45%), Gaps = 44/243 (18%)
Query: 81 EKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDA-FKVPLVIQLTD-----DEKCMW 134
E E+ Y G PS + +HLGHL+ M LQ A FKV + L D ++K
Sbjct: 26 ESKEEPKAYIGFEPSGK-IHLGHLL-TMNKLADLQKAGFKV--TVLLADWHAYLNDKG-- 79
Query: 135 KNLSVEESQRLARENAKDIIACGFDVTKT-FIF-SDF----DYVGGAFYKNMVKVAKCVT 188
+EE +++A N K A G D KT F+ S+F +Y ++K+AK T
Sbjct: 80 ---DLEEIRKVAEYNKKVFEALGLDPDKTEFVLGSEFQLDKEYWL-----LVLKLAKNTT 131
Query: 189 YNKV---VGIFGFTGEDH-IGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCA-IDQD 243
+ + I G E+ + K+ +P +Q F +L I +DQ
Sbjct: 132 LARARRSMTIMGRRMEEPDVSKLVYPLMQVADIF------------YLDVDIAVGGMDQR 179
Query: 244 PYFRMTRDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINK 303
+ R+V P++GY KP I + L G KMS S P SAI+V DS + I+ KI K
Sbjct: 180 KIHMLAREVLPKLGYKKPVCIHTPLLTGLDGGGIKMSKSKPGSAIFVHDSPEEIRRKIKK 239
Query: 304 YAF 306
A+
Sbjct: 240 -AY 241
>gnl|CDD|234866 PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed.
Length = 333
Score = 65.9 bits (162), Expect = 6e-12
Identities = 46/149 (30%), Positives = 66/149 (44%), Gaps = 14/149 (9%)
Query: 235 LIPCAIDQDPYFRMTRDVAPRIGYH------KP-ALI--ESSFFPALQGETGKMSASDPN 285
L+P DQ + +TRD+A R P LI + L G T KMS SDPN
Sbjct: 141 LVPVGEDQKQHLELTRDIARRFNNLYGEVFPVPEPLIPKVGARVMGLDGPTKKMSKSDPN 200
Query: 286 --SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELE 343
+ I + D K I KI K A + + E+ L EV + S + +E
Sbjct: 201 DNNTINLLDDPKTIAKKIKK-AVTDSERLREIRYDLPNKPEVSNLLTIYSALSGE--SIE 257
Query: 344 HIKKEYGAGGMLTGEVKQRLAKVLTELVE 372
++ EY AGG G+ K+ LA+ + E +
Sbjct: 258 ELEAEYEAGGKGYGDFKKDLAEAVVEFLA 286
>gnl|CDD|173902 cd00805, TyrRS_core, catalytic core domain of tyrosinyl-tRNA
synthetase. Tyrosinyl-tRNA synthetase (TyrRS) catalytic
core domain. TyrRS is a homodimer which attaches Tyr to
the appropriate tRNA. TyrRS is a class I tRNA
synthetases, so it aminoacylates 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 formationof the enzyme bound
aminoacyl-adenylate. It contains the class I
characteristic HIGH and KMSKS motifs, which are involved
in ATP binding.
Length = 269
Score = 63.0 bits (154), Expect = 3e-11
Identities = 71/302 (23%), Positives = 123/302 (40%), Gaps = 54/302 (17%)
Query: 88 LYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVI-----QLTD--DEKCMWKNLSVE 140
+Y G P++ +LHLGHLVP M + Q +V ++I + D + K L +E
Sbjct: 3 VYIGFDPTAPSLHLGHLVPLMKLRDFQQAGHEVIVLIGDATAMIGDPSGKSEERKLLDLE 62
Query: 141 ESQRLARENAKDIIACG-FDVTKTFIFSD-FDYVGGAFYKNMVKVAKCVTYNKVVGIFGF 198
+ A+ K + A F + F + D++ + + +++ K T N+++
Sbjct: 63 LIRENAKYYKKQLKAILDFIPPEKAKFVNNSDWLLSLYTLDFLRLGKHFTVNRMLRRDAV 122
Query: 199 TG----EDHIG--KVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCAI---DQDPYFRMT 249
E+ I + +P +QA +L D + DQ +
Sbjct: 123 KVRLEEEEGISFSEFIYPLLQAYDFV-----YLD--VD-------LQLGGSDQRGNITLG 168
Query: 250 RDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSA-IYVTDSAKAIKNKINKYAFSG 308
RD+ ++GY K + + L G GKMS S+ N+ V DS + KI AF
Sbjct: 169 RDLIRKLGYKKVVGLTTPLLTGLDG--GKMSKSEGNAIWDPVLDSPYDVYQKIRN-AFDP 225
Query: 309 GQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLT 368
+K +F D E+E +++E+ G L + K+ LA+ LT
Sbjct: 226 DVLEF---------------LKLFTFL--DYEEIEELEEEHAEGP-LPRDAKKALAEELT 267
Query: 369 EL 370
+L
Sbjct: 268 KL 269
>gnl|CDD|183400 PRK12282, PRK12282, tryptophanyl-tRNA synthetase II; Reviewed.
Length = 333
Score = 62.2 bits (152), Expect = 9e-11
Identities = 86/316 (27%), Positives = 132/316 (41%), Gaps = 70/316 (22%)
Query: 90 TGRGPSSEALHLGHLVPFMFTNRY-LQDAFKVPLVI---Q-LTDDEKCMWKNLSVEESQR 144
TG P+ LHLGH V + NR LQ+ + ++I Q LTD+ + ++
Sbjct: 7 TGDRPTG-KLHLGHYVGSL-KNRVALQNEHEQFVLIADQQALTDN---------AKNPEK 55
Query: 145 LAR---ENAKDIIACGFDVTKTFIF--------SDFDYVGGAFYKNMVKVAKC---VTYN 190
+ R E A D +A G D K+ IF ++ +Y N+V VA+ T
Sbjct: 56 IRRNILEVALDYLAVGIDPAKSTIFIQSQIPELAEL----TMYYMNLVTVARLERNPTVK 111
Query: 191 KVVGIFGFTGEDHI--GKVSFPPVQAVPSFPSSFPHLFSGKDHLRC---LIPCAIDQDPY 245
+ GF I G +++P QA D L+P DQ P
Sbjct: 112 TEIAQKGF--GRSIPAGFLTYPVSQAA--------------DITAFKATLVPVGDDQLPM 155
Query: 246 FRMTRDVAPRIG--YHKPALIE-------SSFFPALQGETGKMSASDPNSAIYVTDSAKA 296
TR++ R Y L+E + P L G+ KMS S N AIY++D A
Sbjct: 156 IEQTREIVRRFNSLYGTDVLVEPEALLPEAGRLPGLDGK-AKMSKSLGN-AIYLSDDADT 213
Query: 297 IKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLT 356
IK K+ ++ + + + +E ++ YL F D AE+ +K Y GG+
Sbjct: 214 IKKKVMS-MYT---DPNHIRVEDPGKVEGNVVFTYLDAFDPDKAEVAELKAHYQRGGLGD 269
Query: 357 GEVKQRLAKVLTELVE 372
+ K+ L +VL EL+
Sbjct: 270 VKCKRYLEEVLQELLA 285
>gnl|CDD|223240 COG0162, TyrS, Tyrosyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 401
Score = 55.3 bits (134), Expect = 2e-08
Identities = 71/345 (20%), Positives = 117/345 (33%), Gaps = 79/345 (22%)
Query: 75 DILDAYEKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDA-FKVPLVI-----QLTD 128
+ L + +Y G P++ +LHLGHLVP M R QDA K ++I + D
Sbjct: 22 EELRKLLEEGPLRVYIGFDPTAPSLHLGHLVPLMKL-RRFQDAGHKPIVLIGDATAMIGD 80
Query: 129 DEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSDFDYVGGA-FYKNM------V 181
+ EE + L RE + F+ + ++V + + K +
Sbjct: 81 ------PSGKSEERKLLTRETVLENAETIKKQLGKFLDNKAEFVNNSDWLKKLNYLDFLR 134
Query: 182 KVAKCVTYNKVVGIFGFTG----EDHIG--KVSFPPVQAVPSFPSSFPHLFSGKDHLRCL 235
V K + N+++ E I + ++P +QA +L KD
Sbjct: 135 DVGKHFSVNRMLRRDDVKKRLEREQGISFTEFNYPLLQAYDFV-----YL--NKD----- 182
Query: 236 IPCAI---DQDPYFRMTRDVAPRIGYHKPALIESSFFPALQGE-------TGKMSASDPN 285
+ DQ RD+ R+G K + + L G+ S+
Sbjct: 183 --LQLGGSDQWGNILAGRDLIRRLGQKKVVGLTTPLLTGLDGKKMGKSEGGAVWLDSEKT 240
Query: 286 SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLE-DDAELEH 344
S I++ K ++L E+E
Sbjct: 241 SPYDFYQYWMNIEDADVK--------------------------RFLKLLTFLSLEEIEE 274
Query: 345 IKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAF 389
I+K G E K+ LAK +T+LV + A AA +E F
Sbjct: 275 IEKYVLKGPEPR-EAKKLLAKEVTKLVHGEEAAEAAE-EEFEKLF 317
>gnl|CDD|232889 TIGR00234, tyrS, tyrosyl-tRNA synthetase. This tyrosyl-tRNA
synthetase model starts picking up tryptophanyl-tRNA
synthetases at scores of 0 and below. The proteins found
by this model have a deep split between two groups. One
group contains bacterial and organellar eukaryotic
examples. The other contains archaeal and cytosolic
eukaryotic examples [Protein synthesis, tRNA
aminoacylation].
Length = 377
Score = 47.8 bits (114), Expect = 5e-06
Identities = 64/288 (22%), Positives = 108/288 (37%), Gaps = 48/288 (16%)
Query: 62 LRRGVFFAHRDLNDILDAYEKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDA-FKV 120
+RG+ + ++L K LY G P++ +LHLGHLVP + R Q A +V
Sbjct: 9 KKRGLEVQVPEEEELLK--LLERKIKLYVGFDPTAPSLHLGHLVPLL-KLRDFQQAGHEV 65
Query: 121 PLVI-----QLTD--DEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSDFDYVG 173
+++ + D + K L+ EE Q A EN K IA D K ++ +++
Sbjct: 66 IVLLGDATALIGDPSGKSEERKLLTREEVQENA-ENIKKQIARFLDFEKAKFVNNSEWLL 124
Query: 174 GAFYKNMV-KVAKCVTYNKVVGIFGFT---GEDH-IGKVSFPPVQAVPSFPSSFPHLFSG 228
Y + + + K + N+++ F+ + + +P +QA F +L
Sbjct: 125 KLNYIDFIRDLGKIFSVNRMLRRDAFSSRLERGISLSEFIYPLLQAY-----DFVYL--N 177
Query: 229 KDHLRCLIPCAI---DQDPYFRMTRDVAPRIGYHKPALIESSFFPALQG---------ET 276
D I DQ RD+ R P+L P L E
Sbjct: 178 VD-------LQIGGSDQWGNILKGRDLIRRNL---PSLGFGLTVPLLTPADGEKMGKSEG 227
Query: 277 GKMSASDP--NSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGAN 322
G +S + + + ++ KI K G E +E +L
Sbjct: 228 GAVSLDEGKYDFYQFWINTPDEDVKKILKLFTFLGLEEIEALVELKGP 275
>gnl|CDD|240282 PTZ00126, PTZ00126, tyrosyl-tRNA synthetase; Provisional.
Length = 383
Score = 47.0 bits (112), Expect = 9e-06
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 259 HKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINK 303
KP ++ P L KMS SDPNSAI++ DS + + KI K
Sbjct: 238 KKPIILSHHMLPGLLEGQEKMSKSDPNSAIFMEDSEEDVNRKIKK 282
>gnl|CDD|173893 cd00395, Tyr_Trp_RS_core, catalytic core domain of tyrosinyl-tRNA
and tryptophanyl-tRNA synthetase. Tyrosinyl-tRNA
synthetase (TyrRS)/Tryptophanyl-tRNA synthetase (TrpRS)
catalytic core domain. These enzymes attach Tyr or Trp,
respectively, to the appropriate tRNA. These class I
enzymes are homodimers, 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 class
I characteristic HIGH and KMSKS motifs, which are
involved in ATP binding.
Length = 273
Score = 40.4 bits (94), Expect = 8e-04
Identities = 58/313 (18%), Positives = 101/313 (32%), Gaps = 71/313 (22%)
Query: 88 LYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLAR 147
LY G P++++LH+GHL+ + T R Q A P+ + + E
Sbjct: 2 LYCGIDPTADSLHIGHLIGLL-TFRRFQHAGHRPIFLIGGQTGIIGDPSGKKSERTLNDP 60
Query: 148 EN--------AKDIIACGFDVTKT--FIFSDFDYVGGAFYKNMVKVAKCVTYNKVVGIFG 197
E A +A G T +F++ D+ G + ++ K V +
Sbjct: 61 EEVRQNIRRIAAQYLAVGIFEDPTQATLFNNSDWPGPLAHIQFLR-----DLGKHVYVNY 115
Query: 198 FTGEDHI----------GKVSFPPVQAVPSFPSSFPHLFSGKDHLRC-LIPCAIDQDPYF 246
+ + ++PP+QA F L + C + P DQ
Sbjct: 116 MERKTSFQSRSEEGISATEFTYPPLQAA-----DFLLLNT---TEGCDIQPGGSDQWGNI 167
Query: 247 RMTRDVAPR-----IGYHK-PALIESSFFPALQGETGKMSASDPNSAIYVT--DSAKAIK 298
+ R++A R I L+ P K S+ T S
Sbjct: 168 TLGRELARRFNGFTIAEGLTIPLVTKLDGP-------KFGKSESGPKWLDTEKTSPYEF- 219
Query: 299 NKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAE-LEHIKKEYGAGGMLTG 357
Y F ++ L KY +F +++ E LE + E
Sbjct: 220 -----YQFWINAVDSDVINIL----------KYFTFLSKEEIERLEQEQYE----APGYR 260
Query: 358 EVKQRLAKVLTEL 370
++ LA+ +T+
Sbjct: 261 VAQKTLAEEVTKT 273
>gnl|CDD|235645 PRK05912, PRK05912, tyrosyl-tRNA synthetase; Validated.
Length = 408
Score = 38.2 bits (90), Expect = 0.006
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 64 RGVFFAHRDLNDILDAYEKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDA 117
RG+ D + L+ E +Y G P++ +LHLGHLVP + R QDA
Sbjct: 13 RGLIEQITDEEE-LEEKLAKEPLRIYLGFDPTAPSLHLGHLVPLLKL-RRFQDA 64
>gnl|CDD|237360 PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional.
Length = 410
Score = 37.6 bits (88), Expect = 0.011
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 64 RGVFFAHRDLNDILDAYEKGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPLV 123
RG D + + ++G+ LY G P++ +LH+GHLVP M R QDA P++
Sbjct: 12 RGAINQETDEEKLRKSLKEGKPLTLYLGFDPTAPSLHIGHLVPLMKLKR-FQDAGHRPVI 70
Query: 124 I 124
+
Sbjct: 71 L 71
>gnl|CDD|173541 PTZ00348, PTZ00348, tyrosyl-tRNA synthetase; Provisional.
Length = 682
Score = 36.8 bits (85), Expect = 0.020
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 240 IDQDPYFRMTRDVAPRIGYH-KPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIK 298
+DQ + R+ IG KP ++ L+ KMS SDP+SAI++ D+ + +
Sbjct: 183 LDQRKVNMLAREYCDLIGRKLKPVILSHHMLAGLKQGQAKMSKSDPDSAIFMEDTEEDVA 242
Query: 299 NKI 301
KI
Sbjct: 243 RKI 245
>gnl|CDD|215478 PLN02886, PLN02886, aminoacyl-tRNA ligase.
Length = 389
Score = 35.9 bits (83), Expect = 0.031
Identities = 25/92 (27%), Positives = 36/92 (39%), Gaps = 23/92 (25%)
Query: 235 LIPCAIDQDPYFRMTRDVAPRI-------------GYHKPAL-IESSFFP-------ALQ 273
L+P DQ + +TRD+A R+ G + + P +L
Sbjct: 187 LVPVGEDQKQHLELTRDIAERVNNLYGGRKWKKLGGRGGSVFKVPEALIPPAGARVMSLT 246
Query: 274 GETGKMSASDPN--SAIYVTDSAKAIKNKINK 303
T KMS S P+ S I + D I NKI +
Sbjct: 247 DGTSKMSKSAPSDQSRINLLDPPDVIANKIKR 278
>gnl|CDD|224465 COG1548, COG1548, Predicted transcriptional regulator/sugar kinase
[Transcription / Carbohydrate transport and metabolism].
Length = 330
Score = 30.9 bits (70), Expect = 1.1
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 360 KQRLAKVLTELVERHQVARAAV--TDEMVDAF 389
K RL + L E+V + V V T E+ DAF
Sbjct: 38 KDRLEETLKEIVHKDNVDYVGVVMTAELADAF 69
>gnl|CDD|236054 PRK07573, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 640
Score = 30.6 bits (70), Expect = 1.6
Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 271 ALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVE-LHRKLG 320
A T K+S P ++ ++++I++ G+ +V+ HR+LG
Sbjct: 463 ADTIGTPKVSTDHPE----FKEAEAEVQDRIDRLLNIKGKRTVDSFHRELG 509
>gnl|CDD|202477 pfam02936, COX4, Cytochrome c oxidase subunit IV. Cytochrome c
oxidase, a 13 sub-unit complex, EC:1.9.3.1 is the
terminal oxidase in the mitochondrial electron transport
chain. This family is composed of cytochrome c oxidase
subunit IV. The Dictyostelium member of this family is
called COX VI. The yeast protein MTC3 appears to be the
yeast COX IV subunit.
Length = 142
Score = 28.5 bits (64), Expect = 3.4
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 121 PLVIQLTDDEKCMWKNLSVEESQRLAR 147
L++ L + EK WK+LS+EE + L R
Sbjct: 31 ELIMALREKEKGDWKSLSLEEKKALYR 57
>gnl|CDD|227204 COG4867, COG4867, Uncharacterized protein with a von Willebrand
factor type A (vWA) domain [General function prediction
only].
Length = 652
Score = 29.6 bits (66), Expect = 3.9
Identities = 22/65 (33%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 20 WEVSSSGKIDYDKLIDKFGCQRLDQSLVDRVQRLTGRPPHVFLRRGVFFAHRDLNDILDA 79
W S + Y+++ D G + LDQ Q L G RR V DLND+LD
Sbjct: 140 WR-SGQAREKYEQIKDLLGRELLDQRFAGMKQALAGATDDD--RRRVTEMLDDLNDLLDK 196
Query: 80 YEKGE 84
+ +GE
Sbjct: 197 HARGE 201
>gnl|CDD|215101 PLN00203, PLN00203, glutamyl-tRNA reductase.
Length = 519
Score = 28.9 bits (65), Expect = 5.2
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 350 GAGGMLTGEVKQRLAKVLTEL--VERHQVARAAVTDEMVDAFMAVRPLPNMFD 400
GAG M VK ++K T++ V R + AA+ +E D + +PL M
Sbjct: 273 GAGKMGKLLVKHLVSKGCTKMVVVNRSEERVAALREEFPDVEIIYKPLDEMLA 325
>gnl|CDD|220664 pfam10267, Tmemb_cc2, Predicted transmembrane and coiled-coil 2
protein. This family of transmembrane coiled-coil
containing proteins is conserved from worms to humans.
Its function is unknown.
Length = 387
Score = 29.0 bits (65), Expect = 5.4
Identities = 40/172 (23%), Positives = 63/172 (36%), Gaps = 27/172 (15%)
Query: 213 QAVPSFPSSFPHL----FSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYHKPALIESSF 268
QAV S P F L F D++ L +D + PR L+ S
Sbjct: 115 QAVVSKPREFASLIRNKFGSADNIAHL------KDSLEDGGPEENPRNLSGSATLVLSPK 168
Query: 269 FPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIP 328
+ + S+ +SA + SA A N + + Q+ KL L +I
Sbjct: 169 YGSDDS-------SECSSA--TSSSAGANSNSGSGPGSAVAQQQSLNLDKLLEELR-EIK 218
Query: 329 VKYLSFFLEDDAEL--EHIKKEYGAGGMLTGEVK---QRLAKVLTELVERHQ 375
LE+ E E ++++Y E + +RL + L +L E HQ
Sbjct: 219 EGQSR--LEESYERLKEQLQRDYQYITQSLQEERYRYERLEEQLNDLTELHQ 268
>gnl|CDD|221242 pfam11816, DUF3337, Domain of unknown function (DUF3337). This
family of proteins are functionally uncharacterized.
This family is only found in eukaryotes. This presumed
domain is typically between 285 to 342 amino acids in
length.
Length = 320
Score = 28.7 bits (64), Expect = 6.1
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 328 PVKYLSFFLE--DDAELEHIKKEYGAGG--------MLTGEVKQRLAKVLTELVERHQVA 377
P K +SF L+ D + +K + G ML R+ K+L + ER +
Sbjct: 211 PPK-ISFTLQPWDGSLPPLVKPDPINEGNSRLNAPRML------RVKKILAYVAERFEPD 263
Query: 378 RAAVTDEMVD 387
+ T EM
Sbjct: 264 PESRTSEMKK 273
>gnl|CDD|213830 TIGR03576, pyridox_MJ0158, pyridoxal phosphate enzyme, MJ0158
family. Members of this archaeal protein family are
pyridoxal phosphate enzymes of unknown function.
Sequence similarity to SelA, a bacterial enzyme of
selenocysteine biosynthesis, has led to some members
being misannotated as functionally equivalent, but
selenocysteine is made on tRNA in Archaea by a two-step
process that does not involve a SelA homolog [Unknown
function, Enzymes of unknown specificity].
Length = 346
Score = 28.6 bits (64), Expect = 6.6
Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 15/101 (14%)
Query: 31 DKLID--KFGCQRLDQSLVDRVQR------LTGRPPHVF-LRRGVFFAHRDLNDILDAYE 81
DKL+D + G + LVD+++ L + P + + R +L+ I DA++
Sbjct: 203 DKLMDGPRGGLLAGRKELVDKIKSVGEQFGLEAQAPLLAAVVRA--LEEFELSRIRDAFK 260
Query: 82 KGEKFYLYTGRGPSSEALHLGHLVPFMFTNRYLQDAFKVPL 122
+ E+ YL + E G F+ + ++ L
Sbjct: 261 RKEEVYLRLFDKLNVERTPTG----FVIKGVEEEKLIEIGL 297
>gnl|CDD|140293 PTZ00267, PTZ00267, NIMA-related protein kinase; Provisional.
Length = 478
Score = 28.4 bits (63), Expect = 7.1
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 329 VKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVL 367
VK+ F DD L + EYG+GG L ++KQRL + L
Sbjct: 128 VKHFDDFKSDDKLL--LIMEYGSGGDLNKQIKQRLKEHL 164
>gnl|CDD|130743 TIGR01682, moaD, molybdopterin converting factor, subunit 1,
non-archaeal. This model describes MoaD. It excludes
archaeal homologs, since many Archaea have two MoaD-like
proteins, suggesting two different functions. The Pfam
model pfam02597 describes both the thiamine biosynthesis
protein ThiS and this protein, MoaD, a subunit (together
with MoaE, pfam02391) of the molybdopterin converting
factor. Both ThiS and MoaD are involved in sulfur
transfer reactions. Distribution of this family appears
limited to species that also have a member of pfam02391,
but a number of Archaea have two different members,
suggesting functionally distinct subtypes. The
C-terminal Gly-Gly of this model is critical to function
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Molybdopterin].
Length = 80
Score = 26.5 bits (59), Expect = 7.3
Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 1/67 (1%)
Query: 329 VKYLSF-FLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVD 387
+K L F L + A + E GE+K+ LAK EL AV +E V
Sbjct: 1 IKVLYFARLREQAGTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT 60
Query: 388 AFMAVRP 394
+
Sbjct: 61 DDALLNE 67
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 28.2 bits (63), Expect = 8.3
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 103 HLVPFMFTNRYLQDAFKVPLVIQLTDDE 130
HLVP + Y A VP+++ L D+
Sbjct: 368 HLVPGYLRHPYQAGALVVPMLVTLPDEA 395
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
0.321 0.138 0.410
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,082,809
Number of extensions: 2096576
Number of successful extensions: 2267
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2225
Number of HSP's successfully gapped: 42
Length of query: 400
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 301
Effective length of database: 6,546,556
Effective search space: 1970513356
Effective search space used: 1970513356
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 (21.8 bits)
S2: 60 (26.8 bits)