RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 020961
(319 letters)
>gnl|CDD|215478 PLN02886, PLN02886, aminoacyl-tRNA ligase.
Length = 389
Score = 517 bits (1332), Expect = 0.0
Identities = 202/277 (72%), Positives = 223/277 (80%), Gaps = 6/277 (2%)
Query: 27 SRGGLPSKYCKTPGLIRQNRNLATHNGCGFRCYCNVSLSEPTAPVASSSSVKKRIVSGVQ 86
S G + PG + + A+ C C + + P + KKR+VSGVQ
Sbjct: 1 SSLGSLGRLLSKPGPLSGS---ASSASC---CSAATAATAPEKEAPPKVARKKRVVSGVQ 54
Query: 87 PTGSIHLGNYLGAIKNWIALQNSYETLFFIVDLHAITLPYDTQQLSKATRETAAIYLACG 146
PTGSIHLGNYLGAIKNW+ALQ +Y+T F +VDLHAITLP+D ++L KATR TAAIYLACG
Sbjct: 55 PTGSIHLGNYLGAIKNWVALQETYDTFFCVVDLHAITLPHDPRELGKATRSTAAIYLACG 114
Query: 147 IDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAGGENVGVALLTYPV 206
ID SKASVFVQSHV AH ELMWLLS +TPIGWLNKMIQFKEKS KAG ENVGV LLTYPV
Sbjct: 115 IDPSKASVFVQSHVPAHAELMWLLSCSTPIGWLNKMIQFKEKSRKAGDENVGVGLLTYPV 174
Query: 207 LMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGGRGGAIFKVPEPL 266
LMASDILLYQ+D VPVGEDQKQHLELTR++AERVN LYGGRKWKKLGGRGG++FKVPE L
Sbjct: 175 LMASDILLYQADLVPVGEDQKQHLELTRDIAERVNNLYGGRKWKKLGGRGGSVFKVPEAL 234
Query: 267 IPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDV 303
IPPAGARVMSLTDG SKMSKSAPSDQSRINLLDP DV
Sbjct: 235 IPPAGARVMSLTDGTSKMSKSAPSDQSRINLLDPPDV 271
>gnl|CDD|234866 PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed.
Length = 333
Score = 405 bits (1043), Expect = e-142
Identities = 135/229 (58%), Positives = 162/229 (70%), Gaps = 13/229 (5%)
Query: 78 KKRIVSGVQPTGSIHLGNYLGAIKNWIALQNSYETLFFIVDLHAITLPYDTQQLSKATRE 137
KKR++SG+QPTG +HLGNYLGAIKNW+ LQ+ YE F I DLHA+T+P D ++L + TRE
Sbjct: 1 KKRVLSGIQPTGKLHLGNYLGAIKNWVELQDEYECFFCIADLHALTVPQDPEELRENTRE 60
Query: 138 TAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAGGENV 197
AA YLACGID K+++FVQSHV H EL W+L+ TP+G L +M QFK+KS K ENV
Sbjct: 61 LAADYLACGIDPEKSTIFVQSHVPEHAELAWILNCITPLGELERMTQFKDKSAK-QKENV 119
Query: 198 GVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGGRGG 257
L TYPVLMA+DILLY++D VPVGEDQKQHLELTR++A R N LYG
Sbjct: 120 SAGLFTYPVLMAADILLYKADLVPVGEDQKQHLELTRDIARRFNNLYGE----------- 168
Query: 258 AIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHK 306
+F VPEPLIP GARVM L KMSKS P+D + INLLD K
Sbjct: 169 -VFPVPEPLIPKVGARVMGLDGPTKKMSKSDPNDNNTINLLDDPKTIAK 216
>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 314
Score = 310 bits (796), Expect = e-105
Identities = 125/239 (52%), Positives = 156/239 (65%), Gaps = 20/239 (8%)
Query: 78 KKRIVSGVQPTGSIHLGNYLGAIKNWIALQNSY-ETLFFIVDLHAITLPYDT--QQLSKA 134
K R++SG+QP+G +HLGNYLGAI+NW+ LQ Y E FFI DLHAIT+ D + L +A
Sbjct: 5 KFRVLSGIQPSGKLHLGNYLGAIRNWVLLQEEYYECFFFIADLHAITVRQDPTEEDLRQA 64
Query: 135 TRETAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAGG 194
TRE AA YLA G+D K+++F+QS V H EL WLLS T G L +M QFK+KS K G
Sbjct: 65 TREVAADYLAVGLDPEKSTIFLQSEVPEHAELAWLLSCVTNFGELERMTQFKDKSAKKG- 123
Query: 195 ENVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGG 254
E++ + LLTYPVL A+DILLYQ+ VPVGEDQ QHLELTR++A R N+LYG
Sbjct: 124 ESIPIGLLTYPVLQAADILLYQATLVPVGEDQDQHLELTRDIARRFNHLYGE-------- 175
Query: 255 RGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHKFFRRFLT 313
+F +PE LI AR+ L DG KMSKS P+ S I LLD K ++ T
Sbjct: 176 ----VFPLPEALISKV-ARLPGL-DGPGKMSKSDPN--SAIFLLDDPKTIRKKIKKAAT 226
>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 = 297 bits (763), Expect = e-101
Identities = 111/236 (47%), Positives = 143/236 (60%), Gaps = 19/236 (8%)
Query: 80 RIVSGVQPTGSIHLGNYLGAIKNWIALQNS-YETLFFIVDLHAITLPY-DTQQLSKATRE 137
R++SG+QP+GS+HLG+YLGA + W+ LQ + YE FFI DLHA+T+ D ++L + TRE
Sbjct: 1 RVLSGIQPSGSLHLGHYLGAFRFWVWLQEAGYELFFFIADLHALTVKQLDPEELRQNTRE 60
Query: 138 TAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAGGENV 197
A YLACG+D K+++F QS V H EL WLLS G L +M FK+KS A GE+V
Sbjct: 61 NAKDYLACGLDPEKSTIFFQSDVPEHYELAWLLSCVVTFGELERMTGFKDKS--AQGESV 118
Query: 198 GVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGGRGG 257
+ LLTYPVL A+DILLY++ VPVG DQ HLELTR++A R N LYG
Sbjct: 119 NIGLLTYPVLQAADILLYKACLVPVGIDQDPHLELTRDIARRFNKLYGE----------- 167
Query: 258 AIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHKFFRRFLT 313
IF P L+ GA + L KMSKS P+ + I L D K + T
Sbjct: 168 -IFPKPAALLSK-GAFLPGLQGPSKKMSKSDPN--NAIFLTDSPKEIKKKIMKAAT 219
>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 = 267 bits (685), Expect = 2e-88
Identities = 110/237 (46%), Positives = 134/237 (56%), Gaps = 20/237 (8%)
Query: 78 KKRIVSGVQPTGSIHLGNYLGAIKNWIALQNSYETLFFIVDLHAITLP-YDTQQLSKATR 136
K R+++G+QP+G +HLG+YLGAI+ Q E I DLHAIT+ D L KA
Sbjct: 2 KFRVLTGIQPSGKMHLGHYLGAIQTKWLQQFGVELFICIADLHAITVKQTDPDALRKARE 61
Query: 137 ETAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAGGEN 196
E AA YLA G+D K +F+QS H EL WLLS G L +M QFK+KS EN
Sbjct: 62 ELAADYLAVGLDPEKTFIFLQSDYPEHYELAWLLSCQVTFGELKRMTQFKDKSQA---EN 118
Query: 197 VGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGGRG 256
V + LL+YPVL A+DILLYQ+D VPVG DQ QHLELTR+LAER N +
Sbjct: 119 VPIGLLSYPVLQAADILLYQADLVPVGIDQDQHLELTRDLAERFNKKF------------ 166
Query: 257 GAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHKFFRRFLT 313
F PE LI R+M L+ KMSKS P+ S I L D K R+ T
Sbjct: 167 KNFFPKPESLISKFFPRLMGLSG--KKMSKSDPN--SAIFLTDTPKQIKKKIRKAAT 219
>gnl|CDD|216003 pfam00579, tRNA-synt_1b, tRNA synthetases class I (W and Y).
Length = 291
Score = 238 bits (610), Expect = 1e-77
Identities = 80/241 (33%), Positives = 113/241 (46%), Gaps = 29/241 (12%)
Query: 80 RIVSGVQPTGSIHLGNYLGAIKNWIALQNS-YETLFFIVDLHAITLPYD---TQQLSKAT 135
R+ +G PTG +HLG YL + + Q + +E F I DL AI ++L
Sbjct: 7 RVYTGFDPTGPLHLG-YLVPLMKLVQFQQAGHEVFFLIGDLTAIIGDPSKSEERKLLSRE 65
Query: 136 RETAAI--YLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAG 193
LACG+D K+ + S H+EL WLL LN+M+QFK+ +
Sbjct: 66 EVLENAKAQLACGLDPEKSEIVNNSDWLEHLELAWLLRDLGNHFSLNRMLQFKDVKKRLK 125
Query: 194 -GENVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKL 252
+ + TYP+L A+DILL ++D P G DQ H+EL R+LA R N
Sbjct: 126 QNPGISLGEFTYPLLQAADILLLKADLQPGGSDQWGHIELGRDLARRFNKKV-------- 177
Query: 253 GGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHKFFRRFL 312
FK P L P +++ DG KMSKSA + S I L D K+ +K ++
Sbjct: 178 -------FKKPVGLTNP----LLTGLDGGKKMSKSAGN--SAIFLDDEKESVYKKIQKAY 224
Query: 313 T 313
T
Sbjct: 225 T 225
>gnl|CDD|183400 PRK12282, PRK12282, tryptophanyl-tRNA synthetase II; Reviewed.
Length = 333
Score = 209 bits (534), Expect = 1e-65
Identities = 82/232 (35%), Positives = 124/232 (53%), Gaps = 19/232 (8%)
Query: 78 KKRIVSGVQPTGSIHLGNYLGAIKNWIALQNSYETLFFIVDLHAITL-PYDTQQLSKATR 136
K I++G +PTG +HLG+Y+G++KN +ALQN +E I D A+T + +++ +
Sbjct: 2 KPIILTGDRPTGKLHLGHYVGSLKNRVALQNEHEQFVLIADQQALTDNAKNPEKIRRNIL 61
Query: 137 ETAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEK-SHKAGGE 195
E A YLA GID +K+++F+QS + EL + + L + K + + K G
Sbjct: 62 EVALDYLAVGIDPAKSTIFIQSQIPELAELTMYYMNLVTVARLERNPTVKTEIAQKGFGR 121
Query: 196 NVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGGR 255
++ LTYPV A+DI +++ VPVG+DQ +E TRE+ R N LY
Sbjct: 122 SIPAGFLTYPVSQAADITAFKATLVPVGDDQLPMIEQTREIVRRFNSLY----------- 170
Query: 256 GGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLD-PKDVSHK 306
G + PE L+P AG R+ L DG +KMSK S + I L D + K
Sbjct: 171 GTDVLVEPEALLPEAG-RLPGL-DGKAKMSK---SLGNAIYLSDDADTIKKK 217
>gnl|CDD|183401 PRK12283, PRK12283, tryptophanyl-tRNA synthetase; Reviewed.
Length = 398
Score = 209 bits (533), Expect = 9e-65
Identities = 79/193 (40%), Positives = 123/193 (63%), Gaps = 11/193 (5%)
Query: 79 KRIVSGVQPTGSIHLGNYLGAIKNWIALQNSYETLFFIVDLHAITLPYDT-QQLSKATRE 137
R++SG++PTG +HLG+Y G +KNW+ LQ+ YE FF+ D HA+T Y+T + + K +
Sbjct: 3 DRVLSGMRPTGRLHLGHYHGVLKNWVKLQHEYECFFFVADWHALTTHYETPEVIEKNVWD 62
Query: 138 TAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAGGENV 197
+LA G+D ++A++F+QS V H EL LLS TP+GWL ++ +K++ K +++
Sbjct: 63 MVIDWLAAGVDPAQATLFIQSKVPEHAELHLLLSMITPLGWLERVPTYKDQQEKLKEKDL 122
Query: 198 GV-ALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRK-------- 248
L YP+L ++DIL+Y++ VPVGEDQ H+E+TRE+A R N+LYG
Sbjct: 123 STYGFLGYPLLQSADILIYRAGLVPVGEDQVPHVEMTREIARRFNHLYGREPGFEEKAEA 182
Query: 249 -WKKLGGRGGAIF 260
KKLG + ++
Sbjct: 183 AIKKLGKKRAKLY 195
>gnl|CDD|183592 PRK12556, PRK12556, tryptophanyl-tRNA synthetase; Provisional.
Length = 332
Score = 182 bits (463), Expect = 4e-55
Identities = 90/246 (36%), Positives = 136/246 (55%), Gaps = 29/246 (11%)
Query: 78 KKRIVSGVQPTGSIHLGNYLGAIKNWIALQNSYE--TLFFIVDLHAITLPYDTQQLSKAT 135
+K +++G++PTG HLGNY+GAIK + + +YE L+FI D HA+ +D +Q T
Sbjct: 3 EKIMLTGIKPTGYPHLGNYIGAIKPALQMAKNYEGKALYFIADYHALNAVHDPEQFRSYT 62
Query: 136 RETAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFK---EKSHKA 192
RE AA +L+ G+D + QS V EL W+LS TP G +N+ +K +++ +A
Sbjct: 63 REVAATWLSLGLDPEDVIFYRQSDVPEIFELAWILSCLTPKGLMNRAHAYKAKVDQNKEA 122
Query: 193 G-----GENVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGR 247
G G N+G L TYP+LMA+DILL+Q+ VPVG+DQ QH+E+ R++A N+ +
Sbjct: 123 GLDLDAGVNMG--LYTYPILMAADILLFQATHVPVGKDQIQHIEIARDIATYFNHTF--- 177
Query: 248 KWKKLGGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHKF 307
G F +PE +I ++ DG KMSKS + I L ++ K
Sbjct: 178 ---------GDTFTLPEYVI-QEEGAILPGLDG-RKMSKSY---GNVIPLFAEQEKLRKL 223
Query: 308 FRRFLT 313
+ T
Sbjct: 224 IFKIKT 229
>gnl|CDD|237036 PRK12284, PRK12284, tryptophanyl-tRNA synthetase; Reviewed.
Length = 431
Score = 155 bits (394), Expect = 4e-44
Identities = 84/216 (38%), Positives = 124/216 (57%), Gaps = 21/216 (9%)
Query: 80 RIVSGVQPTGSIHLGNYLGAIKNWIA--LQNSYETLFFIVDLHAITLPYDTQQLSKATRE 137
R+++G+ TG+ HLGNY GAI+ IA Q E+ +F+ D HA+ D ++ ++T E
Sbjct: 4 RVLTGITTTGTPHLGNYAGAIRPAIAASRQPGVESFYFLADYHALIKCDDPARIQRSTLE 63
Query: 138 TAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFK---EKSHKAGG 194
AA +LA G+D + + + QS + EL WLL+ G LN+ +K +K+ AG
Sbjct: 64 IAATWLAAGLDPERVTFYRQSDIPEIPELTWLLTCVAGKGLLNRAHAYKAAVDKNVAAGE 123
Query: 195 E---NVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKK 251
+ V L YPVLMA+DIL++ + VPVG DQ QH+E+ R++A+R N+LY
Sbjct: 124 DPDAGVTAGLFMYPVLMAADILMFNAHKVPVGRDQIQHIEMARDIAQRFNHLY------- 176
Query: 252 LGGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKS 287
GG F +PE +I + A + L DG KMSKS
Sbjct: 177 ----GGEFFVLPEAVIEESVATLPGL-DG-RKMSKS 206
>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 = 120 bits (302), Expect = 3e-32
Identities = 61/267 (22%), Positives = 101/267 (37%), Gaps = 59/267 (22%)
Query: 81 IVSGVQPTG-SIHLGNYLGAIKNWIALQNS-YETLFFIVDLHAIT----------LPYDT 128
+ G+ PT S+H+G+ +G + + Q++ + +F I I D
Sbjct: 2 LYCGIDPTADSLHIGHLIG-LLTFRRFQHAGHRPIFLIGGQTGIIGDPSGKKSERTLNDP 60
Query: 129 QQLSKATRETAAIYLACGIDNS--KASVFVQSHV---RAHVELMWLLSSATPIGWLNKMI 183
+++ + R AA YLA GI +A++F S AH++ + L + ++ +
Sbjct: 61 EEVRQNIRRIAAQYLAVGIFEDPTQATLFNNSDWPGPLAHIQFLRDLGKHVYVNYMERKT 120
Query: 184 QFKEKSHKAGGENVGVALLTYPVLMASDILLYQS----DFVPVGEDQKQHLELTRELAER 239
F+ +S + + TYP L A+D LL + D P G DQ ++ L RELA R
Sbjct: 121 SFQSRSEEG----ISATEFTYPPLQAADFLLLNTTEGCDIQPGGSDQWGNITLGRELARR 176
Query: 240 VNYLYGGRKWKKLGGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLL- 298
N F + E L P V L K KS +
Sbjct: 177 FN-----------------GFTIAEGLTIP---LVTKLDG--PKFGKSESGPKWLDTEKT 214
Query: 299 DPKDVSHKF----------FRRFLTFL 315
P + + ++ TFL
Sbjct: 215 SPYEFYQFWINAVDSDVINILKYFTFL 241
>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
Length = 368
Score = 67.6 bits (166), Expect = 1e-12
Identities = 65/246 (26%), Positives = 96/246 (39%), Gaps = 55/246 (22%)
Query: 81 IVSGVQPTGSIHLGNYLGAIKNWIALQNSYETLFF-IVDLHAITLPYDTQQLS-----KA 134
+ +G P+G +H+G+ + Q ++ I D A Y + LS +
Sbjct: 69 VYTGFMPSGPMHIGHKM-VFDELKWHQEFGANVYIPIADDEA----YAARGLSWEETREW 123
Query: 135 TRETAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAG- 193
E +A G D K ++ QS +L A + K + F E G
Sbjct: 124 AYEYILDLIALGFDPDKTEIYFQSENIKVYDL------AFELA---KKVNFSELKAIYGF 174
Query: 194 GENVGVALLTYPVLMASDILLYQSDF------VPVGEDQKQHLELTRELAERVNYLYGGR 247
+ + YP A+DIL Q + VPVG DQ H+ LTR++AER++ YG
Sbjct: 175 TGETNIGHIFYPATQAADILHPQLEEGPKPTLVPVGIDQDPHIRLTRDIAERLHGGYG-- 232
Query: 248 KWKKLGGRGGAIFKVPEPLIPPAG--ARVM-SLTDGLSKMSKSAPSDQSRINLLD-PKDV 303
I P+ + M LT G KMS S P +S I L D P+ V
Sbjct: 233 ------------------FIKPSSTYHKFMPGLTGG--KMSSSKP--ESAIYLTDDPETV 270
Query: 304 SHKFFR 309
K +
Sbjct: 271 KKKIMK 276
>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 = 53.9 bits (130), Expect = 4e-08
Identities = 55/248 (22%), Positives = 91/248 (36%), Gaps = 26/248 (10%)
Query: 78 KKRIVSGVQPTG-SIHLGNYLGAIKNWIALQNSYETLFFIVDLHA-ITLPYDTQQLSK-A 134
K ++ G PT S+HLG+ + +K Q +E + + D A I P + K
Sbjct: 30 KIKLYVGFDPTAPSLHLGHLVPLLKLRDFQQAGHEVIVLLGDATALIGDPSGKSEERKLL 89
Query: 135 TRETAAIY-------LACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKE 187
TRE +A +D KA S + + + I +N+M++
Sbjct: 90 TREEVQENAENIKKQIARFLDFEKAKFVNNSEWLLKLNYIDFIRDLGKIFSVNRMLRRDA 149
Query: 188 KSHKAGGENVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGR 247
S + + ++ YP+L A D + D G DQ ++ R+L R
Sbjct: 150 FSSRL-ERGISLSEFIYPLLQAYDFVYLNVDLQIGGSDQWGNILKGRDLIRRNL------ 202
Query: 248 KWKKLGGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHKF 307
LG F + PL+ PA M ++G +S ++ D K
Sbjct: 203 --PSLG------FGLTVPLLTPADGEKMGKSEG-GAVSLDEGKYDFYQFWINTPDEDVKK 253
Query: 308 FRRFLTFL 315
+ TFL
Sbjct: 254 ILKLFTFL 261
>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 = 49.8 bits (119), Expect = 1e-07
Identities = 40/210 (19%), Positives = 65/210 (30%), Gaps = 72/210 (34%)
Query: 81 IVSGVQPTGSIHLGNYLGAIKNWIALQNSYETLFFIVDLHAITLPYDTQQLSKATRETAA 140
SG+ P G +H+G+ + L +Y L + V
Sbjct: 2 TFSGITPNGYLHIGHLRTIVTFDF-LAQAYRKLGYKV----------------------- 37
Query: 141 IYLACGIDNSKASVFVQSHVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAGGENVGVA 200
+A ID++ + ++ + + A W+ ++
Sbjct: 38 RCIAL-IDDAGGLIGDPANKK------GENAKAFVERWIERIK----------------E 74
Query: 201 LLTYPVLMASDILL---YQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGGRGG 257
+ Y L A+D LL + D G DQ H+EL EL ++
Sbjct: 75 DVEYMFLQAADFLLLYETECDIHLGGSDQLGHIELGLELLKKAG---------------- 118
Query: 258 AIFKVPEPLIPPAGARVMSLTDGLSKMSKS 287
P L RVM +KMSKS
Sbjct: 119 -GPARPFGLTFG---RVMG--ADGTKMSKS 142
>gnl|CDD|236286 PRK08560, PRK08560, tyrosyl-tRNA synthetase; Validated.
Length = 329
Score = 49.5 bits (119), Expect = 9e-07
Identities = 60/237 (25%), Positives = 94/237 (39%), Gaps = 50/237 (21%)
Query: 84 GVQPTGSIHLGNYLGAIKNWIALQNS-YETLFFIVDLHA-ITLPYDTQQLSKATRETAAI 141
G +P+G IHLG+ L K LQ + ++ + D HA + D +++ K +
Sbjct: 36 GFEPSGKIHLGHLLTMNK-LADLQKAGFKVTVLLADWHAYLNDKGDLEEIRKVAEYNKKV 94
Query: 142 YLACGIDNSKASVFV-----QSHVRAHVELMWLLSSATPIGWLNKMIQ-FKEKSHKAGGE 195
+ A G+D K FV Q + ++ L + T L + + + E
Sbjct: 95 FEALGLDPDKTE-FVLGSEFQLDKEYWLLVLKLAKNTT----LARARRSMTIMGRRM--E 147
Query: 196 NVGVALLTYPVLMASDILLYQSDFVPVGEDQ-KQHLELTRELAERVNYLYGGRKWKKLGG 254
V+ L YP++ +DI D G DQ K H+ L RE+ ++ Y
Sbjct: 148 EPDVSKLVYPLMQVADIFYLDVDIAVGGMDQRKIHM-LAREVLPKLGY------------ 194
Query: 255 RGGAIFKVP----EPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLD-PKDVSHK 306
K P PL+ L G KMSKS P S I + D P+++ K
Sbjct: 195 ------KKPVCIHTPLLT-------GLDGGGIKMSKSKP--GSAIFVHDSPEEIRRK 236
>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 = 41.4 bits (98), Expect = 3e-04
Identities = 60/264 (22%), Positives = 90/264 (34%), Gaps = 64/264 (24%)
Query: 84 GVQPTG-SIHLGNYLGAIKNWIALQNSYETLFFIVDLHA-ITLPYDT----QQLSKATRE 137
G PT S+HLG+ + +K Q +E + I D A I P + L
Sbjct: 6 GFDPTAPSLHLGHLVPLMKLRDFQQAGHEVIVLIGDATAMIGDPSGKSEERKLLDLELIR 65
Query: 138 TAAIYLACGIDNSKASVFVQSHVRAHVELM----WLLSSATPIGWL-----------NKM 182
A Y + + + + WLLS + L N+M
Sbjct: 66 ENAKYYKKQLKA-----ILDFIPPEKAKFVNNSDWLLS----LYTLDFLRLGKHFTVNRM 116
Query: 183 IQFK-EKSHKAGGENVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVN 241
++ K E + + YP+L A D + D G DQ+ ++ L R+L ++
Sbjct: 117 LRRDAVKVRLEEEEGISFSEFIYPLLQAYDFVYLDVDLQLGGSDQRGNITLGRDLIRKLG 176
Query: 242 YLYGGRKWKKLGGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPK 301
Y KK + + PL+ DG KMSKS + L P
Sbjct: 177 Y-------KK-------VVGLTTPLLTGL--------DG-GKMSKSEGNAIWDPVLDSPY 213
Query: 302 DVSHKF----------FRRFLTFL 315
DV K F + TFL
Sbjct: 214 DVYQKIRNAFDPDVLEFLKLFTFL 237
>gnl|CDD|223240 COG0162, TyrS, Tyrosyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 401
Score = 41.4 bits (98), Expect = 4e-04
Identities = 56/262 (21%), Positives = 101/262 (38%), Gaps = 50/262 (19%)
Query: 78 KKRIVSGVQPTG-SIHLGNYLGAIKNWIALQNS-YETLFFIVDLHA-ITLPY-DTQQLSK 133
R+ G PT S+HLG+ + +K Q++ ++ + I D A I P +++
Sbjct: 32 PLRVYIGFDPTAPSLHLGHLVPLMK-LRRFQDAGHKPIVLIGDATAMIGDPSGKSEERKL 90
Query: 134 ATRETAAIYLACGIDNSKA-----SVFVQSHVRAHVELMWLLSS--------ATPIGWLN 180
TRET +N++ F+ + WL +N
Sbjct: 91 LTRETVL-------ENAETIKKQLGKFLDNKAEFVNNSDWLKKLNYLDFLRDVGKHFSVN 143
Query: 181 KMIQFK-EKSHKAGGENVGVALLTYPVLMASDILLYQSDFVPV-GEDQKQHLELTRELAE 238
+M++ K + + YP+L A D + Y + + + G DQ ++ R+L
Sbjct: 144 RMLRRDDVKKRLEREQGISFTEFNYPLLQAYDFV-YLNKDLQLGGSDQWGNILAGRDLIR 202
Query: 239 RVNYLYGGRKWKKLGGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPS-----DQS 293
R+ KK+ G + PL+ + M ++G + S + Q
Sbjct: 203 RLGQ-------KKVVG-------LTTPLLTGLDGKKMGKSEGGAVWLDSEKTSPYDFYQY 248
Query: 294 RINLLDPKDVSHKFFRRFLTFL 315
+N+ D DV +F + LTFL
Sbjct: 249 WMNIED-ADVK-RFL-KLLTFL 267
>gnl|CDD|225207 COG2326, COG2326, Uncharacterized conserved protein [Function
unknown].
Length = 270
Score = 36.5 bits (85), Expect = 0.010
Identities = 24/96 (25%), Positives = 41/96 (42%), Gaps = 27/96 (28%)
Query: 224 EDQKQHLELTRELAERVNYLYGGRKWKKL--------GGRGGAIFKVPEPLIPPAGARVM 275
ED ++ LEL + ++ + + G+GGAI ++ E L P GARV+
Sbjct: 48 EDYEKELELLQIELVKLQRWVAETGQRVVIVFEGRDAAGKGGAIKRITEAL-NPRGARVV 106
Query: 276 SLTDGLSKMSKSAPSDQSRINLLDPKDVSHKFFRRF 311
+L AP+D+ R +F+R+
Sbjct: 107 ALP---------APTDRER---------GQWYFQRY 124
>gnl|CDD|240282 PTZ00126, PTZ00126, tyrosyl-tRNA synthetase; Provisional.
Length = 383
Score = 34.3 bits (79), Expect = 0.075
Identities = 29/114 (25%), Positives = 49/114 (42%), Gaps = 23/114 (20%)
Query: 194 GENVGVALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLG 253
G+ A + YP + +DI ++D +G DQ++ L RE ++
Sbjct: 188 GDEQPCAQILYPCMQCADIFYLKADICQLGMDQRKVNMLAREYCDKK------------- 234
Query: 254 GRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLD-PKDVSHK 306
K+ + I + + L +G KMSKS P+ S I + D +DV+ K
Sbjct: 235 -------KIKKKPIILSHHMLPGLLEGQEKMSKSDPN--SAIFMEDSEEDVNRK 279
>gnl|CDD|173541 PTZ00348, PTZ00348, tyrosyl-tRNA synthetase; Provisional.
Length = 682
Score = 34.1 bits (78), Expect = 0.11
Identities = 59/237 (24%), Positives = 100/237 (42%), Gaps = 36/237 (15%)
Query: 80 RIVSGVQPTGSIHLGN-YLGAIKNWIALQNSYETLFFIVDLHAIT---LPYDTQQLSKAT 135
R G +P+G +H+ A+ Q E +F++ D A+ + + +++
Sbjct: 34 RCYDGFEPSGRMHIAQGIFKAVNVNKCTQAGCEFVFWVADWFALMNDKVGGELEKIRIVG 93
Query: 136 RETAAIYLACGIDNSKASVFVQS--HVRAHVELMWLLSSATPIGWLNKMIQFKEKSHKAG 193
R ++ A G+D K +F+ S + H W IG N + + K K
Sbjct: 94 RYLIEVWKAAGMDMDKV-LFLWSSEEITNHANTYWRT--VLDIGRQNTIARIK-KCCTIM 149
Query: 194 GENVGV---ALLTYPVLMASDILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWK 250
G+ G A + YP++ +DI ++D +G DQ++ L RE + + GRK K
Sbjct: 150 GKTEGTLTAAQVLYPLMQCADIFFLKADICQLGLDQRKVNMLAREYCDLI-----GRKLK 204
Query: 251 KLGGRGGAIFKVPEPLIPPAGARVMSLTDGLSKMSKSAPSDQSRINLLDPK-DVSHK 306
P+I + + L G +KMSKS P S I + D + DV+ K
Sbjct: 205 --------------PVI-LSHHMLAGLKQGQAKMSKSDPD--SAIFMEDTEEDVARK 244
>gnl|CDD|112775 pfam03976, PPK2, Polyphosphate kinase 2 (PPK2). Inorganic
polyphosphate (polyP) plays a role in metabolism and
regulation and has been proposed to serve as a energy
source in a pre-ATP world. In prokaryotes, the synthesis
and utilisation of polyP are catalyzed by PPK1, PPK2 and
polyphosphatases. Proteins with a single PPK2 domain
catalyze polyP-dependent phosphorylation of ADP to ATP,
whereas proteins containing 2 fused PPK2 domains
phosphorylate AMP to ADP. The structure of PPK2 from
Pseudomonas aeruginosa has revealed a a 3-layer
alpha/beta/alpha sandwich fold with an alpha-helical lid
similar to the structures of microbial thymidylate
kinases.
Length = 229
Score = 32.7 bits (75), Expect = 0.16
Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 32/98 (32%)
Query: 224 EDQKQHLELTRELAE----------RVNYLYGGRKWKKLGGRGGAIFKVPEPLIPPAGAR 273
E + + +L EL + ++ ++ GR G+GGAI +V E L P G R
Sbjct: 6 EYEAELAKLQIELVKLQEWVYAEGKKLVVIFEGRD---AAGKGGAIKRVTEAL-NPRGYR 61
Query: 274 VMSLTDGLSKMSKSAPSDQSRINLLDPKDVSHKFFRRF 311
+++L AP+++ R S + +R+
Sbjct: 62 IVALP---------APTEEER---------SQWYLQRY 81
>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 = 31.0 bits (70), Expect = 0.28
Identities = 16/76 (21%), Positives = 22/76 (28%), Gaps = 23/76 (30%)
Query: 212 ILLYQSDFVPVGEDQKQHLELTRELAERVNYLYGGRKWKKLGGRGGAIFKVPEPLIPPAG 271
+ D GED +Q+ EL R W K + PE + P
Sbjct: 52 KESIEEDISVCGEDFQQNRELYR--------------WVK---DNITLPVDPEQVELPRL 94
Query: 272 ARVMSLTDGLSKMSKS 287
+ MSK
Sbjct: 95 N------LETTVMSKR 104
Score = 29.4 bits (66), Expect = 0.86
Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 4/68 (5%)
Query: 81 IVSGVQPTGSIHLGNYLGAIKNWIALQNSYETLFFIVDLHAITLPYDTQQLSKATRETAA 140
+P G +H+G+ I + + + I D + + D +L +
Sbjct: 2 ARFPGEP-GYLHIGHAKL-ICRAKGIA--DQCVVRIDDNPPVKVWQDPHELEERKESIEE 57
Query: 141 IYLACGID 148
CG D
Sbjct: 58 DISVCGED 65
>gnl|CDD|149420 pfam08351, DUF1726, Domain of unknown function (DUF1726). This
domain of unknown function is often found at the
N-terminus of proteins containing pfam05127. Its fold
resembles that of pfam05127, but it does not appear to
bind ATP.
Length = 92
Score = 28.3 bits (64), Expect = 1.5
Identities = 9/41 (21%), Positives = 15/41 (36%)
Query: 277 LTDGLSKMSKSAPSDQSRINLLDPKDVSHKFFRRFLTFLMN 317
L L + R+ + DV +F RF+ L+
Sbjct: 44 LLPPLESWKQLYTDFHRRLVVPPYTDVKGRFNERFIRSLLE 84
>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 = 29.9 bits (67), Expect = 2.0
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 78 KKRIVSGVQPTGSIHLGNY 96
+ SG+ P+G IH+GN+
Sbjct: 19 LYTVASGITPSGHIHIGNF 37
>gnl|CDD|184108 PRK13518, PRK13518, carboxylate-amine ligase; Provisional.
Length = 357
Score = 29.0 bits (65), Expect = 3.3
Identities = 10/38 (26%), Positives = 26/38 (68%)
Query: 138 TAAIYLACGIDNSKASVFVQSHVRAHVELMWLLSSATP 175
TA +++ G+D++ +V++ + +R H+ ++ LS+ +P
Sbjct: 133 TAGLHVHVGVDDADKAVWIANELRWHLPILLALSANSP 170
>gnl|CDD|213852 TIGR03707, PPK2_P_aer, polyphosphate kinase 2, PA0141 family.
Members of this protein family are designated
polyphosphate kinase 2 (PPK2) after the characterized
protein in Pseudomonas aeruginosa. This family comprises
one of three well-separated clades in the larger family
described by pfam03976. PA0141 from this family has been
shown capable of operating in reverse, with GDP
preferred (over ADP) as a substrate, producing GTP (or
ATP) by transfer of a phosphate residue from
polyphosphate. Most species with a member of this family
also encode a polyphosphate kinase 1 (PPK1) [Central
intermediary metabolism, Phosphorus compounds].
Length = 230
Score = 28.7 bits (65), Expect = 3.7
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 21/79 (26%)
Query: 224 EDQKQHL--ELT------RELAERVNYLYGGRKWKKLGGRGGAIFKVPEPLIPPAGARVM 275
E + + L EL +E R+ ++ GR G+GG I ++ E L P GARV+
Sbjct: 8 EAELERLQIELVKLQEWVKETGARIVIVFEGRD---AAGKGGTIKRITEHL-NPRGARVV 63
Query: 276 SLTDGLSKMSKSAPSDQSR 294
+L P+D+ R
Sbjct: 64 AL---------PKPTDRER 73
>gnl|CDD|236365 PRK09041, motB, flagellar motor protein MotB; Validated.
Length = 317
Score = 28.0 bits (63), Expect = 6.1
Identities = 8/10 (80%), Positives = 10/10 (100%)
Query: 166 LMWLLSSATP 175
+MWLLSS+TP
Sbjct: 43 VMWLLSSSTP 52
>gnl|CDD|237094 PRK12410, PRK12410, glutamylglutaminyl-tRNA synthetase;
Provisional.
Length = 433
Score = 28.1 bits (63), Expect = 6.2
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 87 PTGSIHLGNYLGAIKNWI-ALQNSYETLFFIVD 118
PTG +H+GN AI N+I A Q + + L I D
Sbjct: 8 PTGDMHIGNLRAAIFNYIVAKQQNEDFLIRIED 40
>gnl|CDD|178234 PLN02627, PLN02627, glutamyl-tRNA synthetase.
Length = 535
Score = 27.8 bits (62), Expect = 8.0
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 61 NVSLSEPTAPVASSSSVKKRIVSGVQPTGSIHLGNYLGAIKNWI 104
S+ A + V+ R PTG++H+G A+ N++
Sbjct: 30 RFSVRAAAAGESKGGPVRVRFAP--SPTGNLHVGGARTALFNYL 71
>gnl|CDD|227138 COG4801, COG4801, Predicted acyltransferase [General function
prediction only].
Length = 277
Score = 27.5 bits (61), Expect = 8.2
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 12/65 (18%)
Query: 59 YCNVSLSEPTAPVASSSSVKKRIVSGVQPTGSIHLGNYLGAIKN------WIALQNSYET 112
NV + E A + SS+K ++ G + +G + I+ WI ++N
Sbjct: 66 TGNV-IVENDAYIGEFSSIKGKLTVI----GDLDIGADV-IIEGGFVAKGWIVIRNPVPV 119
Query: 113 LFFIV 117
L F+
Sbjct: 120 LEFLF 124
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 0.403
Gapped
Lambda K H
0.267 0.0820 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,866,295
Number of extensions: 1471633
Number of successful extensions: 1123
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1083
Number of HSP's successfully gapped: 39
Length of query: 319
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 222
Effective length of database: 6,635,264
Effective search space: 1473028608
Effective search space used: 1473028608
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: 59 (26.3 bits)