RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3680
(422 letters)
>gnl|CDD|234866 PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed.
Length = 333
Score = 402 bits (1037), Expect = e-140
Identities = 139/328 (42%), Positives = 211/328 (64%), Gaps = 7/328 (2%)
Query: 36 QRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENIQL 95
+R+ SGIQPTG LHLGNY GA++ W LQ++ E FCI DLH++T+ Q ++L+EN +
Sbjct: 2 KRVLSGIQPTGKLHLGNYLGAIKNWVELQDEYE-CFFCIADLHALTVPQDPEELRENTRE 60
Query: 96 MAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAELKQS-P 154
+AA LACGIDP+KS +F QS VPEH +LAW+L C+ + L M + +K A+ K++
Sbjct: 61 LAADYLACGIDPEKSTIFVQSHVPEHAELAWILNCITPLGELERMTQFKDKSAKQKENVS 120
Query: 155 TGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFPIPQLLPQDE 214
GLF YPVL AADILLYKA +P G DQ ++ L + + FNN + ++FP+P+ L
Sbjct: 121 AGLFTYPVLMAADILLYKADLVPVGEDQKQHLELTRDIARRFNNLYGEVFPVPEPLIPKV 180
Query: 215 SAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCT--SAVTYDPENRP 272
A +V L P+KKMSKSD + N+ I + D P+ I +K KKA+TD + YD N+P
Sbjct: 181 GA-RVMGLDGPTKKMSKSDPNDNNTINLLDDPKTIAKKIKKAVTDSERLREIRYDLPNKP 239
Query: 273 AVSNLITLHALCTNQLPQDICTQVKH--LNTGQYKLLLADVLVEKFKPIRDEIEYLMKSK 330
VSNL+T+++ + + +++ + + G +K LA+ +VE PIR+ E L+
Sbjct: 240 EVSNLLTIYSALSGESIEELEAEYEAGGKGYGDFKKDLAEAVVEFLAPIRERYEELLADP 299
Query: 331 EHLEKVLLDGSIRAQAIAVETWDEVKSA 358
+L+++L +G+ +A+A+A +T EV+ A
Sbjct: 300 AYLDEILAEGAEKARAVASKTLKEVREA 327
>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 314
Score = 324 bits (832), Expect = e-109
Identities = 122/321 (38%), Positives = 188/321 (58%), Gaps = 15/321 (4%)
Query: 31 KISFPQRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKH--KD 88
+ R+ SGIQP+G LHLGNY GA++ W LQ + + F I DLH+IT++Q +D
Sbjct: 1 ENMKKFRVLSGIQPSGKLHLGNYLGAIRNWVLLQEEYYECFFFIADLHAITVRQDPTEED 60
Query: 89 LKENIQLMAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCA 148
L++ + +AA LA G+DP+KS +F QS+VPEH +LAW+L+C+ L M + +K A
Sbjct: 61 LRQATREVAADYLAVGLDPEKSTIFLQSEVPEHAELAWLLSCVTNFGELERMTQFKDKSA 120
Query: 149 ELKQS-PTGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFPIP 207
+ +S P GL YPVLQAADILLY+AT +P G DQ ++ L + + FN+ + ++FP+P
Sbjct: 121 KKGESIPIGLLTYPVLQAADILLYQATLVPVGEDQDQHLELTRDIARRFNHLYGEVFPLP 180
Query: 208 Q-LLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTSAVTY 266
+ L+ + ++ L P KMSKS D NS I + D P+ I +K KKA TD + + Y
Sbjct: 181 EALISKV---ARLPGLDGP-GKMSKS--DPNSAIFLLDDPKTIRKKIKKAATDGPTLIEY 234
Query: 267 DPENRPAVSNLITLHALCT-NQLPQDI---CTQVKHLNTGQYKLLLADVLVEKFKPIRDE 322
+P V NL +++ + +I + L G+ K LA+ + E KPI++
Sbjct: 235 RKGGKPEVCNLFEIYSAFFEDDSILEIEAEYRGGE-LGCGECKKELAEAIQEFLKPIQER 293
Query: 323 IEYLMKSKEHLEKVLLDGSIR 343
E L + +L+ +L G+ +
Sbjct: 294 REELREDPAYLDDILRKGAEK 314
>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 = 306 bits (787), Expect = e-103
Identities = 116/283 (40%), Positives = 169/283 (59%), Gaps = 9/283 (3%)
Query: 37 RIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKH-KDLKENIQL 95
R+ SGIQP+G+LHLG+Y GA + W LQ G ++ F I DLH++T+KQ ++L++N +
Sbjct: 1 RVLSGIQPSGSLHLGHYLGAFRFWVWLQEAGYELFFFIADLHALTVKQLDPEELRQNTRE 60
Query: 96 MAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAELKQSPT 155
A LACG+DP+KS +F QS VPEH +LAW+L+C+ T L M + +K A+ +
Sbjct: 61 NAKDYLACGLDPEKSTIFFQSDVPEHYELAWLLSCVVTFGELERMTGFKDKSAQGESVNI 120
Query: 156 GLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFPIPQLLPQDES 215
GL YPVLQAADILLYKA +P G+DQ ++ L + + FN + +IFP P L +
Sbjct: 121 GLLTYPVLQAADILLYKACLVPVGIDQDPHLELTRDIARRFNKLYGEIFPKPAALLSKGA 180
Query: 216 AGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTSAVTYDPENRPAVS 275
+ L+ PSKKMSKSD N+ I +TD P+ I +K KA TD P VS
Sbjct: 181 --FLPGLQGPSKKMSKSDP--NNAIFLTDSPKEIKKKIMKAATDGGRTEHRRDGGGPGVS 236
Query: 276 NLITLHALCTNQLPQDICTQVKH----LNTGQYKLLLADVLVE 314
NL+ +++ N +++ ++ L G+ K LLA+ + E
Sbjct: 237 NLVEIYSAFFNDDDEELEEIDEYRSGGLGYGECKKLLAEAIQE 279
>gnl|CDD|215478 PLN02886, PLN02886, aminoacyl-tRNA ligase.
Length = 389
Score = 284 bits (729), Expect = 7e-93
Identities = 127/345 (36%), Positives = 190/345 (55%), Gaps = 22/345 (6%)
Query: 31 KISFPQRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLK 90
K++ +R+ SG+QPTG++HLGNY GA++ W ALQ D FC+VDLH+IT+ ++L
Sbjct: 42 KVARKKRVVSGVQPTGSIHLGNYLGAIKNWVALQET-YDTFFCVVDLHAITLPHDPRELG 100
Query: 91 ENIQLMAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAEL 150
+ + AA LACGIDP K+ +F QS VP H +L W+L+C + LN M + EK
Sbjct: 101 KATRSTAAIYLACGIDPSKASVFVQSHVPAHAELMWLLSCSTPIGWLNKMIQFKEKSR-- 158
Query: 151 KQSP----TGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFD----- 201
K GL YPVL A+DILLY+A +P G DQ ++ L + + NN +
Sbjct: 159 KAGDENVGVGLLTYPVLMASDILLYQADLVPVGEDQKQHLELTRDIAERVNNLYGGRKWK 218
Query: 202 -------KIFPIPQ-LLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKC 253
+F +P+ L+P + +V SL D + KMSKS S+I + DPP+VI K
Sbjct: 219 KLGGRGGSVFKVPEALIPP--AGARVMSLTDGTSKMSKSAPSDQSRINLLDPPDVIANKI 276
Query: 254 KKALTDCTSAVTYDPENRPAVSNLITLHALCTNQLPQDICTQVKHLNTGQYKLLLADVLV 313
K+ TD + +D RP +NL++++ L T + +++ + + G +K LL D L+
Sbjct: 277 KRCKTDSFPGLEFDNPERPECNNLLSIYQLVTGKTKEEVLAECGDMRWGDFKPLLTDALI 336
Query: 314 EKFKPIRDEIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSA 358
E PI+ E +M +L+ VL +G+ A IA T V A
Sbjct: 337 EHLSPIQVRYEEIMSDPSYLDSVLKEGADAAAEIADRTLANVYQA 381
>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 = 268 bits (687), Expect = 2e-87
Identities = 126/334 (37%), Positives = 188/334 (56%), Gaps = 21/334 (6%)
Query: 35 PQRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKD-LKENI 93
R+ +GIQP+G +HLG+Y GA+QT Q G ++ CI DLH+IT+KQ D L++
Sbjct: 2 KFRVLTGIQPSGKMHLGHYLGAIQTKWLQQF-GVELFICIADLHAITVKQTDPDALRKAR 60
Query: 94 QLMAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAELKQS 153
+ +AA LA G+DP+K+ +F QS PEH +LAW+L+C T L M + +K ++ +
Sbjct: 61 EELAADYLAVGLDPEKTFIFLQSDYPEHYELAWLLSCQVTFGELKRMTQFKDK-SQAENV 119
Query: 154 PTGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFPIPQLLPQD 213
P GL YPVLQAADILLY+A +P G+DQ ++ L L + FN KF FP P+ L
Sbjct: 120 PIGLLSYPVLQAADILLYQADLVPVGIDQDQHLELTRDLAERFNKKFKNFFPKPESL-IS 178
Query: 214 ESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTSAVTYDPENRPA 273
+ ++ L KKMSKS D NS I +TD P+ I +K +KA TD ++ +P
Sbjct: 179 KFFPRLMGLSG--KKMSKS--DPNSAIFLTDTPKQIKKKIRKAATDGGRVTLFEHREKPG 234
Query: 274 VSNLITLHALCTNQLPQDICTQVKH---------LNTGQYKLLLADVLVEKFKPIRDEIE 324
V NL+ ++ + L D ++K L G+ K L +VL E K I++
Sbjct: 235 VPNLLVIYQYLSFFLIDD--DKLKEIYEAYKSGKLGYGECKKALIEVLQEFLKEIQE--R 290
Query: 325 YLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSA 358
++E L+K+L G+ +A+ A +T +V A
Sbjct: 291 RAEIAEEILDKILEPGAKKARETANKTLADVYKA 324
>gnl|CDD|183400 PRK12282, PRK12282, tryptophanyl-tRNA synthetase II; Reviewed.
Length = 333
Score = 222 bits (568), Expect = 2e-69
Identities = 109/337 (32%), Positives = 165/337 (48%), Gaps = 25/337 (7%)
Query: 35 PQRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIK-QKHKDLKENI 93
I +G +PTG LHLG+Y G+++ ALQN+ E + I D ++T + + ++ NI
Sbjct: 2 KPIILTGDRPTGKLHLGHYVGSLKNRVALQNEHEQFV-LIADQQALTDNAKNPEKIRRNI 60
Query: 94 QLMAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAELKQS 153
+A LA GIDP KS +F QSQ+PE +L L TV RL PT K E+ Q
Sbjct: 61 LEVALDYLAVGIDPAKSTIFIQSQIPELAELTMYYMNLVTVARLERNPTV--K-TEIAQK 117
Query: 154 ------PTGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDK-IFPI 206
P G YPV QAADI +KAT +P G DQ+ I + + FN+ + +
Sbjct: 118 GFGRSIPAGFLTYPVSQAADITAFKATLVPVGDDQLPMIEQTREIVRRFNSLYGTDVLVE 177
Query: 207 PQ-LLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTSAVT 265
P+ LLP+ AG++ L D KMSKS + I ++D + I +K TD +
Sbjct: 178 PEALLPE---AGRLPGL-DGKAKMSKSL---GNAIYLSDDADTIKKKVMSMYTDPNH-IR 229
Query: 266 YDPENRPAVSNLIT-LHALCTN-QLPQDICTQVKH--LNTGQYKLLLADVLVEKFKPIRD 321
+ + + + T L A + ++ + L + K L +VL E PIR+
Sbjct: 230 VEDPGKVEGNVVFTYLDAFDPDKAEVAELKAHYQRGGLGDVKCKRYLEEVLQELLAPIRE 289
Query: 322 EIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSA 358
K ++ ++L GS +A+ +A +T EVK A
Sbjct: 290 RRAEFAKDPGYVLEILKAGSEKAREVAAQTLSEVKDA 326
>gnl|CDD|216003 pfam00579, tRNA-synt_1b, tRNA synthetases class I (W and Y).
Length = 291
Score = 208 bits (531), Expect = 2e-64
Identities = 95/299 (31%), Positives = 133/299 (44%), Gaps = 28/299 (9%)
Query: 35 PQRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKD---LKE 91
P R+++G PTG LHLG Y + Q G +V F I DL +I + L
Sbjct: 5 PLRVYTGFDPTGPLHLG-YLVPLMKLVQFQQAGHEVFFLIGDLTAIIGDPSKSEERKLLS 63
Query: 92 NIQLMAAS--LLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAE 149
+++ + LACG+DP+KS + S EH +LAW+L L LN M + +
Sbjct: 64 REEVLENAKAQLACGLDPEKSEIVNNSDWLEHLELAWLLRDLGNHFSLNRMLQFKDVKKR 123
Query: 150 LKQS---PTGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFPI 206
LKQ+ G F YP+LQAADILL KA P G DQ +I L L + FN K F
Sbjct: 124 LKQNPGISLGEFTYPLLQAADILLLKADLQPGGSDQWGHIELGRDLARRFNKKV---FKK 180
Query: 207 P-QLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTSAVT 265
P L + + D KKMSKS NS I + D E + +K +KA TD V
Sbjct: 181 PVGLTN------PLLTGLDGGKKMSKS--AGNSAIFLDDEKESVYKKIQKAYTDPDREVR 232
Query: 266 YDPENRPAVSN-LITLHALCTNQLPQDIC------TQVKHLNTGQYKLLLADVLVEKFK 317
D + +SN I + + P+ ++ G K A+ + +
Sbjct: 233 KDLKLFTELSNEEIEILEAFLGKGPKREAEELLAREVTGLVHGGDLKKAAAEAVNALLE 291
>gnl|CDD|183592 PRK12556, PRK12556, tryptophanyl-tRNA synthetase; Provisional.
Length = 332
Score = 166 bits (421), Expect = 8e-48
Identities = 104/339 (30%), Positives = 170/339 (50%), Gaps = 28/339 (8%)
Query: 35 PQRIFSGIQPTGTLHLGNYFGAVQTWSALQ---NKGEDVIFCIVDLHSITIKQKHKDLKE 91
+ + +GI+PTG HLGNY GA++ ALQ N ++ I D H++ + +
Sbjct: 3 EKIMLTGIKPTGYPHLGNYIGAIK--PALQMAKNYEGKALYFIADYHALNAVHDPEQFRS 60
Query: 92 NIQLMAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTY---VEKCA 148
+ +AA+ L+ G+DP+ I ++QS VPE +LAW+L+CL +N Y V++
Sbjct: 61 YTREVAATWLSLGLDPEDVIFYRQSDVPEIFELAWILSCLTPKGLMNRAHAYKAKVDQNK 120
Query: 149 ELKQSP-----TGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKI 203
E GL+ YP+L AADILL++ATH+P G DQI +I +A + FN+ F
Sbjct: 121 EAGLDLDAGVNMGLYTYPILMAADILLFQATHVPVGKDQIQHIEIARDIATYFNHTFGDT 180
Query: 204 FPIPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTSA 263
F +P+ + Q+E G + D +KMSKS + I + E + + K TD S+
Sbjct: 181 FTLPEYVIQEE--GAILPGLD-GRKMSKS---YGNVIPLFAEQEKLRKLIFKIKTD--SS 232
Query: 264 VTYDPENRPAVSNLITLHALCTNQLPQDICTQVKHLNT----GQYKLLLADVLVEKFKPI 319
+ +P++ P S L T++ +++ + + T G K L V+ +
Sbjct: 233 LPNEPKD-PETSALFTIYKEFAT--EEEVQSMREKYETGIGWGDVKKELFRVVDRELAGP 289
Query: 320 RDEIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSA 358
R++ M L++ L G+ RA+ IA E+K A
Sbjct: 290 REKYAMYMNEPSLLDEALEKGAERAREIAKPNLAEIKKA 328
>gnl|CDD|237036 PRK12284, PRK12284, tryptophanyl-tRNA synthetase; Reviewed.
Length = 431
Score = 151 bits (384), Expect = 2e-41
Identities = 107/344 (31%), Positives = 169/344 (49%), Gaps = 32/344 (9%)
Query: 35 PQRIFSGIQPTGTLHLGNYFGAVQ-TWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENI 93
R+ +GI TGT HLGNY GA++ +A + G + + + D H++ IK D I
Sbjct: 2 TTRVLTGITTTGTPHLGNYAGAIRPAIAASRQPGVESFYFLADYHAL-IKC---DDPARI 57
Query: 94 QL----MAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTY---VEK 146
Q +AA+ LA G+DP++ ++QS +PE +L W+LTC+ LN Y V+K
Sbjct: 58 QRSTLEIAATWLAAGLDPERVTFYRQSDIPEIPELTWLLTCVAGKGLLNRAHAYKAAVDK 117
Query: 147 CAELKQSP-----TGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFD 201
+ P GLF+YPVL AADIL++ A +P G DQI +I +A + Q FN+ +
Sbjct: 118 NVAAGEDPDAGVTAGLFMYPVLMAADILMFNAHKVPVGRDQIQHIEMARDIAQRFNHLYG 177
Query: 202 K-IFPIPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDC 260
F +P+ + +ES + L +KMSKS ++ I + P E + + +TD
Sbjct: 178 GEFFVLPEAV-IEESVATLPGLD--GRKMSKS---YDNTIPLFAPREELKKAIFSIVTDS 231
Query: 261 -TSAVTYDPENRPAVSNLITLH-ALCTNQLPQDICTQVKH-LNTGQYKLLLADVLVEKFK 317
D E S L L+ A T + + + G K L + + +
Sbjct: 232 RAPGEPKDTEG----SALFQLYQAFATPEETAAFRQALADGIGWGDAKQRLFERIDRELA 287
Query: 318 PIRDEIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSAAVG 361
P+R+ E L+ +E +LL G+ +A+ IA E++ AVG
Sbjct: 288 PMRERYEALIARPADIEDILLAGAAKARRIATPFLAELRE-AVG 330
>gnl|CDD|183401 PRK12283, PRK12283, tryptophanyl-tRNA synthetase; Reviewed.
Length = 398
Score = 145 bits (367), Expect = 3e-39
Identities = 66/172 (38%), Positives = 101/172 (58%), Gaps = 11/172 (6%)
Query: 34 FPQRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENI 93
FP R+ SG++PTG LHLG+Y G ++ W LQ++ E F + D H++T H + E I
Sbjct: 1 FPDRVLSGMRPTGRLHLGHYHGVLKNWVKLQHEYE-CFFFVADWHALT---THYETPEVI 56
Query: 94 QL----MAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTY---VEK 146
+ M LA G+DP ++ LF QS+VPEH +L +L+ + + L +PTY EK
Sbjct: 57 EKNVWDMVIDWLAAGVDPAQATLFIQSKVPEHAELHLLLSMITPLGWLERVPTYKDQQEK 116
Query: 147 CAELKQSPTGLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNN 198
E S G YP+LQ+ADIL+Y+A +P G DQ+ ++ + + + FN+
Sbjct: 117 LKEKDLSTYGFLGYPLLQSADILIYRAGLVPVGEDQVPHVEMTREIARRFNH 168
Score = 40.3 bits (95), Expect = 0.002
Identities = 38/160 (23%), Positives = 71/160 (44%), Gaps = 13/160 (8%)
Query: 203 IFPIPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTS 262
I P PQ L + S K+ L +KMSKS + I + + PE + +K + TD
Sbjct: 243 ILPEPQALLTEAS--KMPGLD--GQKMSKS---YGNTIGLREDPESVTKKIRTMPTDPAR 295
Query: 263 AVTYDPENRPAVSNLITLHALCTN----QLPQDICTQVKHLNTGQYKLLLADVLVEKFKP 318
DP + P + LH + ++ + Q C + + K + D ++ + +P
Sbjct: 296 VRRTDPGD-PEKCPVWQLHQVYSDEETKEWVQKGCRSAG-IGCLECKQPVIDAILREQQP 353
Query: 319 IRDEIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSA 358
+R+ + + ++ DG +A+ +A ET +V+ A
Sbjct: 354 MRERAQKYEDDPSLVRAIVADGCEKARKVARETMRDVREA 393
>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 = 98.9 bits (246), Expect = 2e-23
Identities = 65/239 (27%), Positives = 88/239 (36%), Gaps = 34/239 (14%)
Query: 38 IFSGIQPTG-TLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHK--------- 87
++ GI PT +LH+G+ G + T+ Q+ G IF I I K
Sbjct: 2 LYCGIDPTADSLHIGHLIG-LLTFRRFQHAGHRPIFLIGGQTGIIGDPSGKKSERTLNDP 60
Query: 88 -DLKENIQLMAASLLACGID--PQKSILFQQSQVP---EHTQLAWVLTCLCTVNRLNHMP 141
++++NI+ +AA LA GI P ++ LF S P H Q L VN +
Sbjct: 61 EEVRQNIRRIAAQYLAVGIFEDPTQATLFNNSDWPGPLAHIQFLRDLGKHVYVNYMERKT 120
Query: 142 TYVEKCAELKQSPTGLFLYPVLQAADILLYKATH----IPAGLDQIHNINLANHLTQLFN 197
++ + E F YP LQAAD LL T P G DQ NI L L + FN
Sbjct: 121 SFQSRSEE--GISATEFTYPPLQAADFLLLNTTEGCDIQPGGSDQWGNITLGRELARRFN 178
Query: 198 NKFDKIFPIPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKA 256
L V L P K KS+ P + A
Sbjct: 179 GFTIAEGLTIPL---------VTKLDGP--KFGKSESGPKWLDTEKTSPYEFYQFWINA 226
>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
Length = 368
Score = 79.1 bits (196), Expect = 4e-16
Identities = 64/247 (25%), Positives = 103/247 (41%), Gaps = 62/247 (25%)
Query: 38 IFSGIQPTGTLHLGNYFGAVQT-WSALQNKGEDVIFCIVDLHS-----ITIKQKHKDLKE 91
+++G P+G +H+G+ + W Q G +V I D + ++ ++ + E
Sbjct: 69 VYTGFMPSGPMHIGHKMVFDELKW--HQEFGANVYIPIADDEAYAARGLSWEETREWAYE 126
Query: 92 NIQLMAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAELK 151
I L+A G DP K+ ++ QS+ + LA+ L ++N +ELK
Sbjct: 127 YI----LDLIALGFDPDKTEIYFQSENIKVYDLAFELA-----KKVNF--------SELK 169
Query: 152 -------QSPTGLFLYPVLQAADILL------YKATHIPAGLDQIHNINLANHLTQLFNN 198
++ G YP QAADIL K T +P G+DQ +I L + + +
Sbjct: 170 AIYGFTGETNIGHIFYPATQAADILHPQLEEGPKPTLVPVGIDQDPHIRLTRDIAERLHG 229
Query: 199 KFDKIFP-------IPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVR 251
+ I P +P L KMS S +S I +TD PE + +
Sbjct: 230 GYGFIKPSSTYHKFMPGLT---------------GGKMSSSKPES--AIYLTDDPETVKK 272
Query: 252 KCKKALT 258
K KALT
Sbjct: 273 KIMKALT 279
>gnl|CDD|236286 PRK08560, PRK08560, tyrosyl-tRNA synthetase; Validated.
Length = 329
Score = 69.1 bits (170), Expect = 5e-13
Identities = 69/235 (29%), Positives = 97/235 (41%), Gaps = 49/235 (20%)
Query: 41 GIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENIQLMA--- 97
G +P+G +HLG+ + + LQ G V + D H+ + K DL+E I+ +A
Sbjct: 36 GFEPSGKIHLGHLL-TMNKLADLQKAGFKVTVLLADWHAY-LNDK-GDLEE-IRKVAEYN 91
Query: 98 -ASLLACGIDPQKS--IL---FQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAELK 151
A G+DP K+ +L FQ E+ L L T+ R T + + E
Sbjct: 92 KKVFEALGLDPDKTEFVLGSEFQLD--KEYWLLVLKLAKNTTLARARRSMTIMGRRME-- 147
Query: 152 QSPTGLFLYPVLQAADILLYKATHIP-AGLDQ--IHNI---NLANHLTQLFNNKFDKIFP 205
+ +YP++Q ADI Y I G+DQ IH + L + K P
Sbjct: 148 EPDVSKLVYPLMQVADI-FYLDVDIAVGGMDQRKIHMLAREVLPKL-------GYKK--P 197
Query: 206 I----PQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKA 256
+ P LL L KMSKS S I + D PE I RK KKA
Sbjct: 198 VCIHTP-LLT---------GLDGGGIKMSKS--KPGSAIFVHDSPEEIRRKIKKA 240
>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 = 56.6 bits (137), Expect = 9e-09
Identities = 54/241 (22%), Positives = 93/241 (38%), Gaps = 26/241 (10%)
Query: 35 PQRIFSGIQPTGT-LHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSI----TIKQKHKDL 89
+++ G PT LHLG+ + Q G +VI + D ++ + K + + L
Sbjct: 30 KIKLYVGFDPTAPSLHLGHLV-PLLKLRDFQQAGHEVIVLLGDATALIGDPSGKSEERKL 88
Query: 90 --KENIQLMAASL---LACGIDPQKSILFQQSQ---VPEHTQLAWVLTCLCTVNRLNHMP 141
+E +Q A ++ +A +D +K+ S+ + L + +VNR+
Sbjct: 89 LTREEVQENAENIKKQIARFLDFEKAKFVNNSEWLLKLNYIDFIRDLGKIFSVNRMLRRD 148
Query: 142 TYVEKCAELKQSPTGLFLYPVLQAADIL-LYKATHIPAGLDQIHNINLANHLTQLFNNK- 199
+ + S + F+YP+LQA D + L I G DQ NI L +
Sbjct: 149 AFSSRLER-GISLSE-FIYPLLQAYDFVYLNVDLQI-GGSDQWGNILKGRDLIRRNLPSL 205
Query: 200 -FDKIFPIPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKALT 258
F P+ L P D K K +S + + + P+ V+K K T
Sbjct: 206 GFGLTVPL--LTPADG----EKMGKSEGGAVSLDEGKYDFYQFWINTPDEDVKKILKLFT 259
Query: 259 D 259
Sbjct: 260 F 260
>gnl|CDD|173541 PTZ00348, PTZ00348, tyrosyl-tRNA synthetase; Provisional.
Length = 682
Score = 54.9 bits (132), Expect = 4e-08
Identities = 66/231 (28%), Positives = 100/231 (43%), Gaps = 27/231 (11%)
Query: 37 RIFSGIQPTGTLHLGN-YFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENIQL 95
R + G +P+G +H+ F AV Q G + +F + D ++ + +L E I++
Sbjct: 34 RCYDGFEPSGRMHIAQGIFKAVNVNKCTQA-GCEFVFWVADWFALMNDKVGGEL-EKIRI 91
Query: 96 MAASLL----ACGIDPQKSI-LFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAEL 150
+ L+ A G+D K + L+ ++ H W + + R N + ++KC +
Sbjct: 92 VGRYLIEVWKAAGMDMDKVLFLWSSEEITNHANTYWRT--VLDIGRQNTI-ARIKKCCTI 148
Query: 151 --KQSPT---GLFLYPVLQAADILLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFP 205
K T LYP++Q ADI KA GLDQ LA L K
Sbjct: 149 MGKTEGTLTAAQVLYPLMQCADIFFLKADICQLGLDQRKVNMLAREYCDLIGRKLK---- 204
Query: 206 IPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKA 256
P +L AG LK KMSKSD D S I + D E + RK ++A
Sbjct: 205 -PVILSHHMLAG----LKQGQAKMSKSDPD--SAIFMEDTEEDVARKIRQA 248
>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 = 49.1 bits (118), Expect = 1e-06
Identities = 58/249 (23%), Positives = 87/249 (34%), Gaps = 55/249 (22%)
Query: 36 QRIFSGIQPTGT-LHLGNYFGAVQTWSALQNKGEDVIFCIVDLH---------SITIKQK 85
+++ G PT LHLG+ + Q G +VI I D S K
Sbjct: 1 LKVYIGFDPTAPSLHLGHLV-PLMKLRDFQQAGHEVIVLIGDATAMIGDPSGKSEERKLL 59
Query: 86 HKDL-KENIQLMAASLLACG--IDPQKSIL-----FQQSQ-------VPEHTQLAWVLTC 130
+L +EN + L A I P+K+ + S + +H + +L
Sbjct: 60 DLELIRENAKYYKKQLKAILDFIPPEKAKFVNNSDWLLSLYTLDFLRLGKHFTVNRMLRR 119
Query: 131 LCTVNRL--NHMPTYVEKCAELKQSPTGLFLYPVLQAADIL-LYKATHIPAGLDQIHNIN 187
RL ++ E F+YP+LQA D + L + G DQ NI
Sbjct: 120 DAVKVRLEEEEGISFSE------------FIYPLLQAYDFVYLDVDLQL-GGSDQRGNIT 166
Query: 188 LANHLTQLFNNKFDKIFPIPQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPE 247
L L + K P LL G KMSKS+ + + D P
Sbjct: 167 LGRDLIRKLGYKKVVGLTTP-LLT--GLDG---------GKMSKSE-GNAIWDPVLDSPY 213
Query: 248 VIVRKCKKA 256
+ +K + A
Sbjct: 214 DVYQKIRNA 222
>gnl|CDD|240282 PTZ00126, PTZ00126, tyrosyl-tRNA synthetase; Provisional.
Length = 383
Score = 49.7 bits (119), Expect = 2e-06
Identities = 57/230 (24%), Positives = 96/230 (41%), Gaps = 28/230 (12%)
Query: 39 FSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENIQLMAA 98
+ G +P+G +H+ + L G +F + D ++ + DL+ I+ +
Sbjct: 70 YDGFEPSGRMHIAQGILKAINVNKLTKAGCVFVFWVADWFALLNNKMGGDLE-KIRKVGE 128
Query: 99 SLL----ACGIDPQK-SILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKC------ 147
+ A G+D L+ ++ ++ W+ + + R ++ T +++C
Sbjct: 129 YFIEVWKAAGMDMDNVRFLWASEEINKNPNDYWLR--VMDIARSFNI-TRIKRCSQIMGR 185
Query: 148 AELKQSPTGLFLYPVLQAADILLYKATHIPAGLDQIHNIN-LANHLTQLFNNKFDKIFPI 206
+E + P LYP +Q ADI KA G+DQ +N LA K I
Sbjct: 186 SEGDEQPCAQILYPCMQCADIFYLKADICQLGMDQ-RKVNMLAREYCDKKKIKKKPIILS 244
Query: 207 PQLLPQDESAGKVKSLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKKA 256
+LP L + +KMSKSD NS I + D E + RK KKA
Sbjct: 245 HHMLP---------GLLEGQEKMSKSDP--NSAIFMEDSEEDVNRKIKKA 283
>gnl|CDD|223240 COG0162, TyrS, Tyrosyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 401
Score = 46.8 bits (112), Expect = 1e-05
Identities = 52/256 (20%), Positives = 78/256 (30%), Gaps = 62/256 (24%)
Query: 35 PQRIFSGIQPTGT-LHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENI 93
P R++ G PT LHLG+ + Q+ G I I D + I +E
Sbjct: 32 PLRVYIGFDPTAPSLHLGHLV-PLMKLRRFQDAGHKPIVLIGDATA-MIGDPSGKSEE-R 88
Query: 94 QLMAASLLACGIDPQKSILFQQSQVPE--------------------------HTQLAWV 127
+L+ + ++I Q + + H + +
Sbjct: 89 KLLTRETVLENA---ETIKKQLGKFLDNKAEFVNNSDWLKKLNYLDFLRDVGKHFSVNRM 145
Query: 128 LTCLCTVNRL--NHMPTYVEKCAELKQSPTGLFLYPVLQAADIL-LYKATHIPAGLDQIH 184
L RL ++ E F YP+LQA D + L K + G DQ
Sbjct: 146 LRRDDVKKRLEREQGISFTE------------FNYPLLQAYDFVYLNKDLQL-GGSDQWG 192
Query: 185 NINLANHLTQLFNNKFDKIFPI--PQLLPQDESAGKV--KSLKDPSKKMSKSDLDSNSKI 240
NI L + K K+ + P LL GK KS S+ S
Sbjct: 193 NILAGRDLIRRLGQK--KVVGLTTP-LLTG--LDGKKMGKSEGG--AVWLDSEK--TSPY 243
Query: 241 EITDPPEVIVRKCKKA 256
+ I K
Sbjct: 244 DFYQYWMNIEDADVKR 259
>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 = 39.4 bits (92), Expect = 8e-04
Identities = 40/204 (19%), Positives = 56/204 (27%), Gaps = 70/204 (34%)
Query: 38 IFSGIQPTGTLHLGNY-----FGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKEN 92
FSGI P G LH+G+ F + I I D + +K +
Sbjct: 2 TFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIGDPANKKGE-- 59
Query: 93 IQLMAASLLACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVEKCAELKQ 152
+ W+ +K+
Sbjct: 60 -------------------------NAKAFVERWI--------------------ERIKE 74
Query: 153 SPTGLFLYPVLQAADILL---YKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFPIPQL 209
Y LQAAD LL + G DQ+ +I L L K P
Sbjct: 75 ----DVEYMFLQAADFLLLYETECDIHLGGSDQLGHI--ELGLELL---KKAGGPARPFG 125
Query: 210 LPQDESAGKVKSLKDPSKKMSKSD 233
L + G+V + KMSKS
Sbjct: 126 L----TFGRV--MGADGTKMSKSK 143
>gnl|CDD|173912 cd02156, nt_trans, nucleotidyl transferase superfamily. nt_trans
(nucleotidyl transferase) This superfamily includes the
class I amino-acyl tRNA synthetases, pantothenate
synthetase (PanC), ATP sulfurylase, and the
cytidylyltransferases, all of which have a conserved
dinucleotide-binding domain.
Length = 105
Score = 36.0 bits (83), Expect = 0.005
Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 38 IFSGIQPTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENIQLMA 97
+P G LH+G+ + A + + I D + + Q +L+E + +
Sbjct: 2 ARFPGEP-GYLHIGHAKLICR---AKGIADQ-CVVRIDDNPPVKVWQDPHELEERKESIE 56
Query: 98 ASLLACGIDPQKSI 111
+ CG D Q++
Sbjct: 57 EDISVCGEDFQQNR 70
>gnl|CDD|226972 COG4624, COG4624, Iron only hydrogenase large subunit, C-terminal
domain [General function prediction only].
Length = 411
Score = 34.4 bits (79), Expect = 0.10
Identities = 14/74 (18%), Positives = 25/74 (33%), Gaps = 8/74 (10%)
Query: 227 KKMSKSDLDSNSKIEITDPPEVIVRKCKKALTDCTS---AVTYDPENRPAV-SNLITLHA 282
+ K D + K EI+ E I +L+DC + +T ++ S L
Sbjct: 7 VSVEKDDETYDGKYEISSMLEKI----SISLSDCLACSGCITSCEVKAISLQSGKKVLEE 62
Query: 283 LCTNQLPQDICTQV 296
L + +
Sbjct: 63 LEDLFCDKIVLVSN 76
>gnl|CDD|232986 TIGR00464, gltX_bact, glutamyl-tRNA synthetase, bacterial family.
The glutamyl-tRNA synthetases of the eukaryotic cytosol
and of the Archaea are more similar to glutaminyl-tRNA
synthetases than to bacterial glutamyl-tRNA synthetases.
This model models just the bacterial and mitochondrial
forms of the enzyme. In many species, the charging of
tRNA(gln) proceeds first through misacylation with Glu
and then transamidation. For this reason, glutamyl-tRNA
synthetases may act on both tRNA(gln) and tRNA(glu).
This model is highly specific. Proteins with positive
scores below the trusted cutoff may be fragments rather
than full-length sequences [Protein synthesis, tRNA
aminoacylation].
Length = 470
Score = 34.3 bits (79), Expect = 0.12
Identities = 29/137 (21%), Positives = 47/137 (34%), Gaps = 31/137 (22%)
Query: 44 PTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDLKENIQLMAASLLA- 102
PTG LH+G A+ + ++ G + + I D DL+ NI+ ++L
Sbjct: 10 PTGYLHIGGARTALFNYLFAKHTGGEFLLRIED----------TDLERNIEEAEEAILEG 59
Query: 103 ---CGIDPQKSILFQQSQVPEHTQLAWVLT-------CLCTVNRLNH----------MPT 142
GI + +Q ++ + + A L C C+ RL P
Sbjct: 60 LKWLGISWDEGPYYQSQRLDIYKKYAKELLEEGLAYRCYCSKERLERLREEQKANKETPR 119
Query: 143 YVEKCAELKQSPTGLFL 159
Y C L L
Sbjct: 120 YDRHCRNLHNEEIENAL 136
>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
Length = 383
Score = 33.9 bits (78), Expect = 0.12
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 221 SLKDPSKKMSKSDLDSNSKIEITDPPEVIVRKCKK 255
+L+ S KMS SD NS I +TD P+ I K K
Sbjct: 258 ALQGESGKMSASD--PNSAIYVTDTPKEIKNKINK 290
>gnl|CDD|225960 COG3426, COG3426, Butyrate kinase [Energy production and
conversion].
Length = 358
Score = 33.9 bits (78), Expect = 0.14
Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 10/66 (15%)
Query: 313 VEKFKPIRDEIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSAAVGGILTAFGQGTY 372
+EKFK I D+ E+ K+ + + + + Q + +D V GG+L GTY
Sbjct: 38 LEKFKRIPDQFEF---RKDAILEFIDE-----QGYNISKFDAV--VGRGGLLRPIPGGTY 87
Query: 373 LGTPEM 378
+ +M
Sbjct: 88 VVNEKM 93
>gnl|CDD|224302 COG1384, LysS, Lysyl-tRNA synthetase (class I) [Translation,
ribosomal structure and biogenesis].
Length = 521
Score = 33.1 bits (76), Expect = 0.32
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 6/47 (12%)
Query: 35 PQRIFSGIQPTGTLHLGNYFGAVQTWS----ALQNKGEDVIF-CIVD 76
+ +GI P+G +H+GN F V T AL+++G++V I D
Sbjct: 20 EYVVATGISPSGLIHIGN-FREVLTADAVRRALRDRGDEVRLIYISD 65
>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 = 31.1 bits (71), Expect = 1.1
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 40 SGIQPTGTLHLGNYFGAVQTWS----ALQNKGEDVIF-CIVD 76
SGI P+G +H+GN F V T AL++ G +V D
Sbjct: 25 SGISPSGHIHIGN-FREVITADLVARALRDLGFEVRLIYSWD 65
>gnl|CDD|235099 PRK03011, PRK03011, butyrate kinase; Provisional.
Length = 358
Score = 30.9 bits (71), Expect = 1.1
Identities = 19/65 (29%), Positives = 26/65 (40%), Gaps = 10/65 (15%)
Query: 314 EKFKPIRDEIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSAAVGGILTAFGQGTYL 373
EKFK I D+ E+ K+ + L + I + D V GG+L GTY
Sbjct: 38 EKFKTIIDQYEF---RKQAILDFLKE-----HGIDLSELDAV--VGRGGLLKPIPGGTYR 87
Query: 374 GTPEM 378
M
Sbjct: 88 VNEAM 92
>gnl|CDD|216786 pfam01921, tRNA-synt_1f, tRNA synthetases class I (K). This
family includes only lysyl tRNA synthetases from
prokaryotes.
Length = 357
Score = 30.7 bits (70), Expect = 1.4
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 35 PQRIFSGIQPTGTLHLGNYFGAVQTWS----ALQNKGEDV-IFCIVD 76
+ +GI P+G H+GN F V AL+ +G + + D
Sbjct: 20 EILVETGIGPSGLPHIGN-FREVLRTDAVRRALRKRGFETRLIYFSD 65
>gnl|CDD|232987 TIGR00467, lysS_arch, lysyl-tRNA synthetase, archaeal and
spirochete. This model represents the lysyl-tRNA
synthetases that are class I amino-acyl tRNA
synthetases. It includes archaeal and spirochete
examples of the enzyme. All other known examples are
class IIc amino-acyl tRNA synthetases and seem to form
a separate orthologous set [Protein synthesis, tRNA
aminoacylation].
Length = 515
Score = 30.6 bits (69), Expect = 1.6
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 37 RIFSGIQPTGTLHLGNY---FGAVQTWSALQNKGEDVIF 72
+ SGI P+G +H+GN+ A AL++ G + F
Sbjct: 21 TVASGITPSGHIHIGNFREVITADAIARALRDSGSEARF 59
>gnl|CDD|237094 PRK12410, PRK12410, glutamylglutaminyl-tRNA synthetase;
Provisional.
Length = 433
Score = 29.6 bits (67), Expect = 3.3
Identities = 30/125 (24%), Positives = 47/125 (37%), Gaps = 26/125 (20%)
Query: 44 PTGTLHLGNYFGAVQTWSALQNKGEDVIFCIVDL-HSITIKQKHKDLKENIQLMAASLLA 102
PTG +H+GN A+ + + + ED + I D I+ K K++ E + L
Sbjct: 8 PTGDMHIGNLRAAIFNYIVAKQQNEDFLIRIEDTDKERNIEGKDKEILEILNLF------ 61
Query: 103 CGIDPQKSILFQQSQVPEHTQLAWVL-------TCLCTVNRLNHMPT----------YVE 145
GI K +++Q + H Q+A L C C+ L Y
Sbjct: 62 -GISWDK-LVYQSENLKFHRQMAEKLLSEKKAFACFCSEEELEAKKEKAKNEKKPYRYDG 119
Query: 146 KCAEL 150
C L
Sbjct: 120 TCENL 124
>gnl|CDD|235417 PRK05337, PRK05337, beta-hexosaminidase; Provisional.
Length = 337
Score = 29.4 bits (67), Expect = 3.6
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 95 LMAASLLACGID 106
LMAA L ACGID
Sbjct: 105 LMAAELRACGID 116
>gnl|CDD|226857 COG4449, COG4449, Predicted protease of the Abi (CAAX) family
[General function prediction only].
Length = 827
Score = 29.2 bits (65), Expect = 4.7
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 330 KEHLEKVLLDGSIRAQAIAVETWDEVKSAAV----GGILTAFGQGTYLGT 375
K ++KVL+D + A+A+ W E GGI A G+ LGT
Sbjct: 335 KGTVQKVLVDPRSDSPAVALGQWQEGDRLLGMHLFGGIGGALGEKIMLGT 384
>gnl|CDD|181086 PRK07695, PRK07695, transcriptional regulator TenI; Provisional.
Length = 201
Score = 28.4 bits (64), Expect = 5.8
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 80 ITIKQKHKDLKENIQLMAASLLACGIDPQKSIL 112
I I+++ K KE + SLL G+ K I+
Sbjct: 31 IHIREREKSAKE-LYEGVESLLKKGVPASKLII 62
>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains
34 amino acids
[WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-
X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found
in a variety of organisms including bacteria,
cyanobacteria, yeast, fungi, plants, and humans in
various subcellular locations; involved in a variety of
functions including protein-protein interactions, but
common features in the interaction partners have not
been defined; involved in chaperone, cell-cycle,
transciption, and protein transport complexes; the
number of TPR motifs varies among proteins (1,3-11,13
15,16,19); 5-6 tandem repeats generate a right-handed
helical structure with an amphipathic channel that is
thought to accomodate an alpha-helix of a target
protein; it has been proposed that TPR proteins
preferably interact with WD-40 repeat proteins, but in
many instances several TPR-proteins seem to aggregate to
multi-protein complexes; examples of TPR-proteins
include, Cdc16p, Cdc23p and Cdc27p components of the
cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal
targeting signals, the Tom70p co-receptor for
mitochondrial targeting signals, Ser/Thr phosphatase 5C
and the p110 subunit of O-GlcNAc transferase; three
copies of the repeat are present here.
Length = 100
Score = 27.3 bits (61), Expect = 6.2
Identities = 16/90 (17%), Positives = 27/90 (30%), Gaps = 11/90 (12%)
Query: 251 RKCKKALTDCTSAVTYDPENRPAVSNLITLHALCTN-QLPQDICTQVKHLNTGQYKLL-- 307
+AL A+ DP+N A NL + + + + L+ K
Sbjct: 14 GDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYN 73
Query: 308 LADVLVEKFKPIRDEIEYLMKSKEHLEKVL 337
L + ++ E EK L
Sbjct: 74 LGLAYYKL--------GKYEEALEAYEKAL 95
>gnl|CDD|218094 pfam04454, Linocin_M18, Encapsulating protein for peroxidase. The
Linocin_M18 is found in eubacteria and archaea. These
proteins, referred to as encapsulins, form
nanocompartments within the bacterium which contain
ferritin-like proteins or peroxidases, enzymes involved
in oxidative-stress response. These enzymes are targeted
to the interior of encapsulins via unique C-terminal
extensions.
Length = 254
Score = 28.4 bits (64), Expect = 6.4
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 375 TPEMDGLLLVSYRWADYQLTLAFD 398
P +DG +LVS R D+ LT+ D
Sbjct: 209 APAIDGAVLVSTRGGDFDLTVGQD 232
>gnl|CDD|227200 COG4863, COG4863, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 439
Score = 28.3 bits (63), Expect = 7.9
Identities = 17/105 (16%), Positives = 29/105 (27%), Gaps = 9/105 (8%)
Query: 169 LLYKATHIPAGLDQIHNINLANHLTQLFNNKFDKIFPIPQLLPQDESAGKVKSLKDPSKK 228
L+ + T D I + LP K K +K+
Sbjct: 172 LILEVTVESKNYDNIEADLKDRQSYMAAFSLVSIGSRKEFFLP-------SKPTKLDTKE 224
Query: 229 MSKSDLDSN--SKIEITDPPEVIVRKCKKALTDCTSAVTYDPENR 271
+ +N + +D V + TD S + + NR
Sbjct: 225 YVTESISTNTFKQALFSDSSIVRSSNGRNTYTDGISVIDVNLSNR 269
>gnl|CDD|226401 COG3884, FatA, Acyl-ACP thioesterase [Lipid metabolism].
Length = 250
Score = 28.2 bits (63), Expect = 8.4
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 310 DVLVEKFKPIRD----EIEYLMKSKEHLEKVLLDGSIRAQAIAVETWDEVKSAA 359
+ +E K + I Y + E + DG + A V DE+K+AA
Sbjct: 195 RLTLEYVKEVAPGEKITIVYEVHPLESKHQFTSDGQVNALTYIV--GDEIKAAA 246
>gnl|CDD|143450 cd07132, ALDH_F3AB, Aldehyde dehydrogenase family 3 members A1, A2,
and B1 and related proteins. NAD(P)+-dependent,
aldehyde dehydrogenase, family 3 members A1 and B1
(ALDH3A1, ALDH3B1, EC=1.2.1.5) and fatty aldehyde
dehydrogenase, family 3 member A2 (ALDH3A2, EC=1.2.1.3),
and similar sequences are included in this CD. Human
ALDH3A1 is a homodimer with a critical role in cellular
defense against oxidative stress; it catalyzes the
oxidation of various cellular membrane lipid-derived
aldehydes. Corneal crystalline ALDH3A1 protects the
cornea and underlying lens against UV-induced oxidative
stress. Human ALDH3A2, a microsomal homodimer, catalyzes
the oxidation of long-chain aliphatic aldehydes to fatty
acids. Human ALDH3B1 is highly expressed in the kidney
and liver and catalyzes the oxidation of various medium-
and long-chain saturated and unsaturated aliphatic
aldehydes.
Length = 443
Score = 28.3 bits (64), Expect = 8.5
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 173 ATHIPAGLDQI--HNINL-ANHLTQLFNNKFDKIF 204
A IP LD+ + T+L +FD IF
Sbjct: 147 AELIPKYLDKECYPVVLGGVEETTELLKQRFDYIF 181
>gnl|CDD|173905 cd00808, GluRS_core, catalytic core domain of discriminating
glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA
synthetase (GluRS) catalytic core domain . The
discriminating form of GluRS is only found in bacteria
and cellular organelles. GluRS is a monomer that
attaches Glu to the appropriate tRNA. Like other class
I tRNA synthetases, GluRS 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 the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding.
Length = 239
Score = 27.9 bits (63), Expect = 8.8
Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 23/86 (26%)
Query: 44 PTGTLHLGNYFGAVQTWS-ALQNKGEDVIFCIVDLHSITIKQKHKDLKENIQLMAASLLA 102
PTG LH+G A+ + A ++ G I I D D + ++ ++L
Sbjct: 10 PTGFLHIGGARTALFNYLFARKHGG-KFILRIED----------TDQERSVPEAEEAILE 58
Query: 103 ----CGIDPQKSIL-------FQQSQ 117
G+D + ++QS+
Sbjct: 59 ALKWLGLDWDEGPDVGGPYGPYRQSE 84
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 28.4 bits (64), Expect = 8.9
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 190 NHLT-QLFNNKFDKIFPIPQLLPQDESAGKV----KSLKDPSKKMSKSD 233
HL F +K +F L+P+DE K+ L + +KMSKS
Sbjct: 539 LHLLYFRFFHKA--LFDE-GLVPKDEPFKKLITQGMVLGEEGEKMSKSK 584
>gnl|CDD|185494 PTZ00168, PTZ00168, mitochondrial carrier protein; Provisional.
Length = 259
Score = 28.0 bits (62), Expect = 8.9
Identities = 25/121 (20%), Positives = 52/121 (42%), Gaps = 26/121 (21%)
Query: 32 ISFPQRIFSGIQPT--GTLHLGNYFGAVQTWSALQNKGEDVIFCIVDLHSITIKQKHKDL 89
S ++++SGI PT GT+ +F +C +L + + +++
Sbjct: 39 FSDIKKLYSGILPTLVGTVPASAFF-----------------YCFYELSKKLLTEYRENI 81
Query: 90 -KENIQLMAASL---LACGIDPQKSILFQQSQVPEHTQLAWVLTCLCTVNRLNHMPTYVE 145
K N+ L++ S+ AC + I+ Q QV + VL + + + +P+++
Sbjct: 82 SKTNLYLISTSIAEITACIVRLPFEIVKQNMQVSGNIS---VLKTIYEITQREGLPSFLG 138
Query: 146 K 146
K
Sbjct: 139 K 139
>gnl|CDD|132378 TIGR03335, F390_ftsA, coenzyme F390 synthetase. This enzyme,
characterized in Methanobacterium thermoautotrophicum
and found in several other methanogens, modifies
coenzyme F420 by ligation of AMP (or GMP) from ATP (or
GTP). On F420, it activates an aromatic hydroxyl group,
which is unusual chemistry for an adenylyltransferase.
This enzyme name has been attached to numbers of
uncharacterized genes likely to instead act as
phenylacetate CoA ligase, based on proximity to
predicted indolepyruvate ferredoxin oxidoreductase
(1.2.7.8) genes. The enzyme acts during transient
exposure of the organism to oxygen [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other,
Energy metabolism, Methanogenesis].
Length = 445
Score = 28.3 bits (63), Expect = 9.1
Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 31 KISFPQRIFSGIQPTGTLHLGNYFGAVQTWSALQNKGED 69
K +FP RI +PTG + + F ++ ++ +G D
Sbjct: 164 KCTFPIRIIESYRPTGI--VASVFKLLRLARRMKAEGID 200
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
0.320 0.135 0.408
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,373,597
Number of extensions: 2054473
Number of successful extensions: 1802
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1745
Number of HSP's successfully gapped: 53
Length of query: 422
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 323
Effective length of database: 6,546,556
Effective search space: 2114537588
Effective search space used: 2114537588
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 (26.9 bits)