RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1869
(205 letters)
>gnl|CDD|215477 PLN02882, PLN02882, aminoacyl-tRNA ligase.
Length = 1159
Score = 391 bits (1006), Expect = e-129
Identities = 138/196 (70%), Positives = 156/196 (79%)
Query: 10 DFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVT 69
F K+EE IL W E + F+ LK+++G P Y FYDGPPFATGLPHYGHILAG IKD+VT
Sbjct: 9 SFPKQEEKILSLWSEIDAFKTQLKRTEGLPEYIFYDGPPFATGLPHYGHILAGTIKDIVT 68
Query: 70 RYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSS 129
RY G HV RRFGWDCHGLPVE+EIDKKLGIK DV KMGI +YN ECR IV RYS
Sbjct: 69 RYQSMTGHHVTRRFGWDCHGLPVEYEIDKKLGIKRRDDVLKMGIDKYNEECRSIVTRYSK 128
Query: 130 EWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTPL 189
EWEK V R GRWIDF+NDYKT+ P +MES+WWVF +L+ KGLVY+G KVMPYSTAC TPL
Sbjct: 129 EWEKTVTRTGRWIDFENDYKTMDPKFMESVWWVFKQLFEKGLVYKGFKVMPYSTACKTPL 188
Query: 190 SNFESGQNYKEVVDPA 205
SNFE+G NYK+V DPA
Sbjct: 189 SNFEAGLNYKDVSDPA 204
>gnl|CDD|235681 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 975
Score = 337 bits (868), Expect = e-110
Identities = 109/205 (53%), Positives = 146/205 (71%)
Query: 1 MVQPVPEYIDFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHIL 60
M V DF EE +L+FWKE++IF++ ++ +G P + FYDGPP A GLPHYGH+L
Sbjct: 3 MYPEVDSQPDFPALEEEVLKFWKENDIFEKSIENREGGPEFVFYDGPPTANGLPHYGHLL 62
Query: 61 AGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLEC 120
IKDVV RY G+ VERR GWD HGLPVE E++K+LGI G D+ + GI ++N +C
Sbjct: 63 TRTIKDVVPRYKTMKGYKVERRAGWDTHGLPVELEVEKELGISGKKDIEEYGIEKFNEKC 122
Query: 121 RKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMP 180
R+ V+RY+ EWE+ +R+GRW+DFDN YKTL YMES+WW +L++KGL+Y+G +V+P
Sbjct: 123 RESVLRYTDEWEEYTERLGRWVDFDNPYKTLDNEYMESVWWALKQLYDKGLLYKGYRVVP 182
Query: 181 YSTACNTPLSNFESGQNYKEVVDPA 205
Y C TPLSN E Q YK+V DP+
Sbjct: 183 YCPRCETPLSNHEVAQGYKDVKDPS 207
>gnl|CDD|223138 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 285 bits (731), Expect = 6e-91
Identities = 82/197 (41%), Positives = 127/197 (64%), Gaps = 4/197 (2%)
Query: 10 DFAKEEENILRFWKEHEIFQE-CLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVV 68
+ K+E IL+FW+E++I+++ +++KGKP++ +DGPP+A G H GH L +KD++
Sbjct: 19 NLPKKEPKILKFWEENDIYEKIREERNKGKPKFVLHDGPPYANGNIHIGHALNKILKDII 78
Query: 69 TRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYS 128
RY G+ V GWDCHGLP+E +++KKLGI D+ G+ ++ +CR+ +
Sbjct: 79 VRYKTMQGYDVPYVPGWDCHGLPIELKVEKKLGIGK-KDIESFGVEEFREKCREFALEQV 137
Query: 129 SEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTP 188
E ++ KR+G W D++N YKT+ P Y ES+WW F EL+ KGL+YRG K +P+S C T
Sbjct: 138 DEQKEQFKRLGVWGDWENPYKTMDPSYEESVWWAFKELYEKGLLYRGYKPVPWSPRCETA 197
Query: 189 LSNFESGQNYKEVVDPA 205
L+ E Y +V DP+
Sbjct: 198 LAEAEV--EYGDVKDPS 212
>gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional.
Length = 1205
Score = 284 bits (729), Expect = 1e-89
Identities = 120/201 (59%), Positives = 148/201 (73%)
Query: 5 VPEYIDFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAI 64
V E + +EEE +L++WK + F K +K K Y FYDGPPFATGLPHYGH+LAG I
Sbjct: 68 VSENPNIVEEEEKVLKYWKSIDAFNTSNKLAKNKKAYIFYDGPPFATGLPHYGHLLAGII 127
Query: 65 KDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIV 124
KD VTRY +Q GF VER+FGWDCHGLP+E+EI+K+ I D+ KMGI YN +CR IV
Sbjct: 128 KDCVTRYFYQCGFSVERKFGWDCHGLPIEYEIEKENNINKKEDILKMGIDVYNEKCRGIV 187
Query: 125 MRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTA 184
++YS+EW K V+RIGRWIDF NDYKT+ +MES+WWVFSEL+ VY+ KVMPYS
Sbjct: 188 LKYSNEWVKTVERIGRWIDFKNDYKTMDKTFMESVWWVFSELYKNNYVYKSFKVMPYSCK 247
Query: 185 CNTPLSNFESGQNYKEVVDPA 205
CNTP+SNFE NYK+ DP+
Sbjct: 248 CNTPISNFELNLNYKDTPDPS 268
>gnl|CDD|215739 pfam00133, tRNA-synt_1, tRNA synthetases class I (I, L, M and V).
Other tRNA synthetase sub-families are too dissimilar to
be included.
Length = 606
Score = 271 bits (695), Expect = 2e-88
Identities = 84/189 (44%), Positives = 113/189 (59%), Gaps = 2/189 (1%)
Query: 17 NILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVTRYAHQNG 76
I +FW E F++ L+ KGKP ++ +DGPP ATGL H GH L +KD+V RY G
Sbjct: 1 QIYQFWDEQGYFKKSLENGKGKPSFTIHDGPPNATGLLHIGHALNKTLKDIVIRYKRMQG 60
Query: 77 FHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSSEWEKVVK 136
F V GWD HGLP E +++KKLGIKG D K+G ++ +CR+ M Y+ E K
Sbjct: 61 FDVLWVPGWDHHGLPTEQKVEKKLGIKGKKDRHKLGREKFREKCREWKMEYADEIRSQFK 120
Query: 137 RIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTPLSNFESGQ 196
R+G D+D +Y TL P ++W VF L +KGL+YRG K + +S A NT LS E
Sbjct: 121 RLGVSGDWDREYFTLDPGLEAAVWRVFVRLHDKGLIYRGKKPVNWSPALNTALSEAEV-- 178
Query: 197 NYKEVVDPA 205
YK+V P+
Sbjct: 179 EYKDVKGPS 187
>gnl|CDD|173909 cd00818, IleRS_core, catalytic core domain of isoleucyl-tRNA
synthetases. Isoleucine amino-acyl tRNA synthetases
(IleRS) catalytic core domain . This class I enzyme is a
monomer which aminoacylates the 2'-OH of the nucleotide
at the 3' of the appropriate tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. IleRS has an insertion in the core domain,
which is subject to both deletions and rearrangements.
This editing region hydrolyzes mischarged cognate tRNAs
and thus prevents the incorporation of chemically
similar amino acids.
Length = 338
Score = 256 bits (655), Expect = 1e-85
Identities = 77/143 (53%), Positives = 108/143 (75%)
Query: 39 PRYSFYDGPPFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDK 98
P + F+DGPP+A GLPHYGH L +KD++ RY G++V RR GWDCHGLP+E +++K
Sbjct: 1 PEFVFHDGPPYANGLPHYGHALNKILKDIINRYKTMQGYYVPRRPGWDCHGLPIELKVEK 60
Query: 99 KLGIKGPADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMES 158
+LGI G D+ KMGIA++N +CR+ +RY E E+ +R+G W+D++N YKT+ P YMES
Sbjct: 61 ELGISGKKDIEKMGIAEFNAKCREFALRYVDEQEEQFQRLGVWVDWENPYKTMDPEYMES 120
Query: 159 IWWVFSELWNKGLVYRGVKVMPY 181
+WWVF +L KGL+YRG KV+P+
Sbjct: 121 VWWVFKQLHEKGLLYRGYKVVPW 143
>gnl|CDD|232953 TIGR00392, ileS, isoleucyl-tRNA synthetase. The isoleucyl tRNA
synthetase (IleS) is a class I amino acyl-tRNA ligase
and is particularly closely related to the valyl tRNA
synthetase. This model may recognize IleS from every
species, including eukaryotic cytosolic and
mitochondrial forms [Protein synthesis, tRNA
aminoacylation].
Length = 861
Score = 253 bits (647), Expect = 2e-79
Identities = 86/204 (42%), Positives = 130/204 (63%), Gaps = 2/204 (0%)
Query: 4 PVPEYIDFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGA 63
P + +K EE IL FW+E++IF++ K +KGKP + F+DGPP+A G H GH L
Sbjct: 1 KFPMRGNLSKREEKILAFWQENDIFEKVKKLNKGKPEFIFHDGPPYANGSIHLGHALNKI 60
Query: 64 IKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKI 123
+KD++ RY GF+V R+ GWD HGLP+E +++KKLGI G +++ + I ++ +CR+
Sbjct: 61 LKDIILRYKTMQGFNVTRKPGWDTHGLPIEHKVEKKLGISGKKEISSLEIEEFREKCREF 120
Query: 124 VMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYST 183
++ E + +R+G W D++N YKT+ P Y ES WW+F E KGL+YRG+K + +S
Sbjct: 121 ALKQIEEQREQFQRLGVWGDWENPYKTMDPSYEESQWWLFKEAHEKGLLYRGLKPVYWSP 180
Query: 184 ACNTPLSNFESGQN--YKEVVDPA 205
C T L+ E YK+V DP+
Sbjct: 181 RCRTALAEAEVEYKENYKDVKDPS 204
>gnl|CDD|237514 PRK13804, ileS, isoleucyl-tRNA synthetase; Provisional.
Length = 961
Score = 127 bits (321), Expect = 6e-34
Identities = 62/172 (36%), Positives = 97/172 (56%), Gaps = 10/172 (5%)
Query: 13 KEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVTRYA 72
++E I W+E +++++ +Q+KG+P++ +DGPP+A G H GH L +KDV+ R
Sbjct: 28 QKEPEIQARWEEIDLYKKLREQAKGRPKFVLHDGPPYANGNIHIGHALNKILKDVIVRSK 87
Query: 73 HQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSSEWE 132
GF GWDCHGLP+E++I++K KG + ++ +A++ ECR+ Y+ W
Sbjct: 88 QMLGFDANYVPGWDCHGLPIEWKIEEKYRAKG-KNKDEVPVAEFRKECRE----YALSWI 142
Query: 133 KV----VKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVK-VM 179
V KR+G D+DN Y T+ I F + KG +YRG K VM
Sbjct: 143 DVQREEFKRLGVLGDWDNPYTTMDFHAEARIAREFGKFAAKGQLYRGSKPVM 194
>gnl|CDD|185674 cd00668, Ile_Leu_Val_MetRS_core, catalytic core domain of
isoleucyl, leucyl, valyl and methioninyl tRNA
synthetases. Catalytic core domain of isoleucyl,
leucyl, valyl and methioninyl tRNA synthetases. These
class I enzymes are all monomers. However, in some
species, MetRS functions as a homodimer, as a result of
an additional C-terminal domain. These enzymes
aminoacylate the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. Enzymes in
this subfamily share an insertion in the core domain,
which is subject to both deletions and rearrangements.
This editing region hydrolyzes mischarged cognate tRNAs
and thus prevents the incorporation of chemically
similar amino acids. MetRS has a significantly shorter
insertion, which lacks the editing function.
Length = 312
Score = 121 bits (305), Expect = 2e-33
Identities = 45/139 (32%), Positives = 73/139 (52%), Gaps = 4/139 (2%)
Query: 40 RYSFYDGPPFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKK 99
++ PP+A G H GH L I D + RY G+ V GWD HGLP+E + ++K
Sbjct: 1 KFYVTTPPPYANGSLHLGHALTHIIADFIARYKRMRGYEVPFLPGWDTHGLPIELKAERK 60
Query: 100 LGIKGPADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESI 159
G K + I ++ + ++ V S E ++ +R+G D+ ++Y T P Y +++
Sbjct: 61 GGRKK----KTIWIEEFREDPKEFVEEMSGEHKEDFRRLGISYDWSDEYITTEPEYSKAV 116
Query: 160 WWVFSELWNKGLVYRGVKV 178
+FS L+ KGL+YRG
Sbjct: 117 ELIFSRLYEKGLIYRGTHP 135
>gnl|CDD|235588 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 122 bits (308), Expect = 3e-32
Identities = 69/208 (33%), Positives = 111/208 (53%), Gaps = 34/208 (16%)
Query: 12 AKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGH----ILAGAIKDV 67
K E IL+ W+E++++Q+ + +KGKP++ +DGPP+A G H GH IL KD+
Sbjct: 22 PKREPEILKRWEENDLYQKIREANKGKPKFILHDGPPYANGDIHIGHALNKIL----KDI 77
Query: 68 VTRYAHQNGFHVERRF--GWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVM 125
+ + +GF + GWDCHGLP+E +++KKLG KG K+ A++ +CR+
Sbjct: 78 IVKSKTMSGFDA--PYVPGWDCHGLPIELKVEKKLGKKG----KKLSAAEFRKKCRE--- 128
Query: 126 RYSSEWEKVV-------KRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVK- 177
Y+ E V KR+G D+DN Y T+ Y +I ++ KG +Y+G+K
Sbjct: 129 -YALEQ---VDIQREDFKRLGVLGDWDNPYLTMDFKYEANIIRALGKMAKKGYLYKGLKP 184
Query: 178 VMPYSTACNTPLSNFESGQNYKEVVDPA 205
V + C + L+ E Y + P+
Sbjct: 185 VY-WCPDCGSALAEAEV--EYHDKTSPS 209
>gnl|CDD|232969 TIGR00422, valS, valyl-tRNA synthetase. The valyl-tRNA synthetase
(ValS) is a class I amino acyl-tRNA ligase and is
particularly closely related to the isoleucyl tRNA
synthetase [Protein synthesis, tRNA aminoacylation].
Length = 861
Score = 102 bits (255), Expect = 3e-25
Identities = 52/198 (26%), Positives = 95/198 (47%), Gaps = 9/198 (4%)
Query: 6 PEYIDFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIK 65
P+ D + E+ + W++ F+ + KP + PP TG H GH L +I+
Sbjct: 2 PKDYDPHEVEKKWYKKWEKSGFFK--PDGNSNKPPFCIDIPPPNVTGSLHIGHALNWSIQ 59
Query: 66 DVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPA--DVAKMGIAQYNLECRKI 123
D++ RY G++V G D G+ + +++KKLG +G D+ G ++ + +
Sbjct: 60 DIIARYKRMKGYNVLWLPGTDHAGIATQVKVEKKLGAEGKTKHDL---GREEFREKIWEW 116
Query: 124 VMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYST 183
+ +KR+G +D+ + T+ +++ F L+ KGL+YRG ++ +
Sbjct: 117 KEESGGTIKNQIKRLGASLDWSRERFTMDEGLSKAVKEAFVRLYEKGLIYRGEYLVNWDP 176
Query: 184 ACNTPLSNFESGQNYKEV 201
NT +S+ E YKEV
Sbjct: 177 KLNTAISDIEV--EYKEV 192
>gnl|CDD|215452 PLN02843, PLN02843, isoleucyl-tRNA synthetase.
Length = 974
Score = 100 bits (251), Expect = 1e-24
Identities = 55/180 (30%), Positives = 92/180 (51%), Gaps = 6/180 (3%)
Query: 15 EENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVTRYAHQ 74
E I + W+E+++++ ++ G+ ++ +DGPP+A G H GH L +KD + RY
Sbjct: 9 EPEIQKLWEENQVYKRVSDRNNGES-FTLHDGPPYANGDLHIGHALNKILKDFINRYQLL 67
Query: 75 NGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAK-MGIAQYNLECRKIVMRYSSEWEK 133
G V GWDCHGLP+E ++ + L + K + + + K + +
Sbjct: 68 QGKKVHYVPGWDCHGLPIELKVLQSL----DQEARKELTPIKLRAKAAKFAKKTVDTQRE 123
Query: 134 VVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTPLSNFE 193
KR G W D++N Y TL P Y + VF +++ G +YRG K + +S + T L+ E
Sbjct: 124 SFKRYGVWGDWENPYLTLDPEYEAAQIEVFGQMFLNGYIYRGRKPVHWSPSSRTALAEAE 183
>gnl|CDD|223599 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 100 bits (251), Expect = 1e-24
Identities = 56/203 (27%), Positives = 96/203 (47%), Gaps = 19/203 (9%)
Query: 6 PEYIDFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIK 65
P+ D + EE + W+E F+ ++ KP +S PP TG H GH L ++
Sbjct: 2 PKTYDPKEIEEKWYKKWEESGYFKP--DPNEDKPPFSIDTPPPNVTGSLHMGHALNYTLQ 59
Query: 66 DVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNL---ECRK 122
D++ RY G++V G D G+ + ++K+L A GI +++L E K
Sbjct: 60 DILARYKRMRGYNVLWPPGTDHAGIATQVVVEKQL--------AAEGITRHDLGREEFLK 111
Query: 123 IVMRYSSEWEKVV----KRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKV 178
+ E + +R+G +D+ + T+ P ++ F L+ KGL+YRG ++
Sbjct: 112 KCWEWKEESGGTIREQLRRLGVSVDWSRERFTMDPGLSRAVQEAFVRLYEKGLIYRGERL 171
Query: 179 MPYSTACNTPLSNFESGQNYKEV 201
+ + C T +S+ E YKEV
Sbjct: 172 VNWCPKCRTAISDIEV--EYKEV 192
>gnl|CDD|185677 cd00817, ValRS_core, catalytic core domain of valyl-tRNA
synthetases. Valine amino-acyl tRNA synthetase (ValRS)
catalytic core domain. This enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. ValRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements. This editing region
hydrolyzes mischarged cognate tRNAs and thus prevents
the incorporation of chemically similar amino acids.
Length = 382
Score = 98.1 bits (245), Expect = 2e-24
Identities = 44/158 (27%), Positives = 80/158 (50%), Gaps = 1/158 (0%)
Query: 47 PPFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPA 106
PP TG H GH L I+D++ RY G++V G D G+ + ++KKLGI+G
Sbjct: 9 PPNVTGSLHMGHALNNTIQDIIARYKRMKGYNVLWPPGTDHAGIATQVVVEKKLGIEG-K 67
Query: 107 DVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSEL 166
+G ++ +C + + + +KR+G +D+ +Y T+ P ++ F L
Sbjct: 68 TRHDLGREEFLEKCWEWKEESGGKIREQLKRLGASVDWSREYFTMDPGLSRAVQEAFVRL 127
Query: 167 WNKGLVYRGVKVMPYSTACNTPLSNFESGQNYKEVVDP 204
+ KGL+YR +++ + T +S+ E +V++P
Sbjct: 128 YEKGLIYRDNRLVNWCPKLRTAISDIEVCSRSGDVIEP 165
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 96.8 bits (242), Expect = 2e-23
Identities = 49/180 (27%), Positives = 89/180 (49%), Gaps = 16/180 (8%)
Query: 1 MVQPVPEYIDFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHIL 60
M+ +P+ D + EE + W+E ++ + KP YS PP +G H GH+
Sbjct: 2 MMPELPKKYDPEELEEKWQKIWEEEGTYKF--DPDERKPVYSIDTPPPTVSGSLHIGHVF 59
Query: 61 AGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVA-----KMGIAQ 115
+ D + RY G++V GWD +GLP E +++K GI+ D++ ++
Sbjct: 60 SYTHTDFIARYQRMRGYNVFFPQGWDDNGLPTERKVEKYYGIR-KDDISREEFIEL---- 114
Query: 116 YNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRG 175
CR++ ++ ++ +R+G +D+ +Y+T+ P Y F +L+ KGL+YR
Sbjct: 115 ----CRELTDEDEKKFRELWRRLGLSVDWSLEYQTISPEYRRISQKSFLDLYKKGLIYRA 170
>gnl|CDD|232956 TIGR00396, leuS_bact, leucyl-tRNA synthetase, eubacterial and
mitochondrial family. The leucyl-tRNA synthetases
belong to two families so broadly different that they
are represented by separate models. This model includes
both eubacterial and mitochondrial leucyl-tRNA
synthetases. It generates higher scores for some
valyl-tRNA synthetases than for any archaeal or
eukaryotic cytosolic leucyl-tRNA synthetase. Note that
the enzyme from Aquifex aeolicus is split into alpha and
beta chains; neither chain is long enough to score above
the trusted cutoff, but the alpha chain scores well
above the noise cutoff. The beta chain must be found by
a model and search designed for partial length matches
[Protein synthesis, tRNA aminoacylation].
Length = 842
Score = 75.2 bits (185), Expect = 6e-16
Identities = 48/166 (28%), Positives = 73/166 (43%), Gaps = 21/166 (12%)
Query: 10 DFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVT 69
+ + EE + W E++ F+ + KP+Y P+ +G H GH+ I DV++
Sbjct: 2 NHIEIEEKWQQKWDENKTFK--VTDDSSKPKYYILSMFPYPSGALHMGHVRNYTITDVLS 59
Query: 70 RYAHQNGFHVERRFGWDCHGLPVE-FEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYS 128
RY G++V GWD GLP E I + PA IA M+
Sbjct: 60 RYYRMKGYNVLHPIGWDAFGLPAENAAIKRG---IHPAKWTYENIAN---------MK-- 105
Query: 129 SEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYR 174
K ++ +G D+D + T P Y + W+F EL+ KGL Y
Sbjct: 106 ----KQLQALGFSYDWDREIATCDPEYYKWTQWIFLELFEKGLAYV 147
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 72.3 bits (178), Expect = 6e-15
Identities = 52/182 (28%), Positives = 81/182 (44%), Gaps = 18/182 (9%)
Query: 10 DFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVT 69
+ + EE + W+E ++F E + S ++ P+ +G H GH+ I DV+
Sbjct: 6 NPREIEEKWQKRWEEAKVF-EADEDSDKPEKFYVLVMFPYPSGALHVGHVRNYTIGDVIA 64
Query: 70 RYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSS 129
RY G++V GWD GLP E K+G PA YN+
Sbjct: 65 RYKRMQGYNVLHPMGWDAFGLPAE-NAAIKIGTD-PAK-----WTYYNIA---------- 107
Query: 130 EWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTPL 189
+K +K +G ID+ ++ T P Y + I W F +L+ KGL YR + + T L
Sbjct: 108 YMKKQLKSLGFSIDWRREFATCDPEYYKWIQWQFLKLYEKGLAYRKEAPVNWCPVDGTVL 167
Query: 190 SN 191
+N
Sbjct: 168 AN 169
>gnl|CDD|178177 PLN02563, PLN02563, aminoacyl-tRNA ligase.
Length = 963
Score = 66.0 bits (161), Expect = 8e-13
Identities = 52/195 (26%), Positives = 83/195 (42%), Gaps = 27/195 (13%)
Query: 11 FAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLP-HYGHILAGAIKDVVT 69
F + E R+W+E+ F+ KP++ D P+ +G H GH D++
Sbjct: 82 FHEIEPKWQRYWEENRTFRTPDDVDTSKPKFYVLDMFPYPSGAGLHVGHPEGYTATDILA 141
Query: 70 RYAHQNGFHVERRFGWDCHGLPVE-FEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYS 128
RY G++V GWD GLP E + I+ G P IA++ +
Sbjct: 142 RYKRMQGYNVLHPMGWDAFGLPAEQYAIET--GTH-PKITTLKNIARFRSQ--------- 189
Query: 129 SEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTP 188
+K +G D+D + T P Y + W+F +L +GL Y+ + + A T
Sbjct: 190 ------LKSLGFSYDWDREISTTEPEYYKWTQWIFLQLLKRGLAYQAEVPVNWCPALGTV 243
Query: 189 LSNFESGQNYKEVVD 203
L+N +EVVD
Sbjct: 244 LAN-------EEVVD 251
>gnl|CDD|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA
synthetases. Leucyl tRNA synthetase (LeuRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. In Aquifex
aeolicus, the gene encoding LeuRS is split in two, just
before the KMSKS motif. Consequently, LeuRS is a
heterodimer, which likely superimposes with the LeuRS
monomer found in most other organisms. LeuRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements and thus differs between
prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This
editing region hydrolyzes mischarged cognate tRNAs and
thus prevents the incorporation of chemically similar
amino acids.
Length = 314
Score = 64.6 bits (158), Expect = 1e-12
Identities = 36/128 (28%), Positives = 59/128 (46%), Gaps = 17/128 (13%)
Query: 48 PFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPAD 107
P+ +G H GH+ I D++ RY G++V G+D GLP E K+G P D
Sbjct: 9 PYPSGALHVGHVRTYTIGDIIARYKRMQGYNVLFPMGFDAFGLPAE-NAAIKIGRD-PED 66
Query: 108 VAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELW 167
+ I + ++ +KR+G D+ ++ T P Y + W+F +L+
Sbjct: 67 WTEYNIKK---------------MKEQLKRMGFSYDWRREFTTCDPEYYKFTQWLFLKLY 111
Query: 168 NKGLVYRG 175
KGL Y+
Sbjct: 112 EKGLAYKK 119
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family
includes methionyl tRNA synthetases.
Length = 388
Score = 61.1 bits (149), Expect = 3e-11
Identities = 36/142 (25%), Positives = 59/142 (41%), Gaps = 23/142 (16%)
Query: 48 PFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRF--GWDCHGLPVEFEIDKKLGIKGP 105
P+ G PH GH+ DV RY G+ V F G D HG +E +K+
Sbjct: 8 PYVNGPPHIGHLYTTIPADVYARYLRLRGYDV--LFVTGTDEHGTKIELAAEKE------ 59
Query: 106 ADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSE 165
+ +++V RY E++++ K+ I FD+ +T + E + F +
Sbjct: 60 -----------GVTPQELVDRYHEEFKELFKKFN--ISFDDFIRTTSERHKELVQEFFLK 106
Query: 166 LWNKGLVYRGVKVMPYSTACNT 187
L+ KG +Y G Y +
Sbjct: 107 LYEKGDIYEGEYEGWYCVSDER 128
>gnl|CDD|232955 TIGR00395, leuS_arch, leucyl-tRNA synthetase, archaeal and
cytosolic family. The leucyl-tRNA synthetases belong to
two families so broadly different that they are
represented by separate models. This model includes both
archaeal and cytosolic eukaryotic leucyl-tRNA
synthetases; the eubacterial and mitochondrial forms
differ so substantially that some other tRNA ligases
score higher by this model than does any eubacterial
LeuS [Protein synthesis, tRNA aminoacylation].
Length = 938
Score = 58.3 bits (141), Expect = 4e-10
Identities = 34/150 (22%), Positives = 61/150 (40%), Gaps = 11/150 (7%)
Query: 48 PFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGP-- 105
P+ G+ H GH I +V R+ G +V G+ G P+ + + + +
Sbjct: 34 PYLNGVMHAGHCRTFTIPEVSARFERMKGKNVLFPLGFHVTGTPI-LGLAELIKRRDELT 92
Query: 106 -------ADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMES 158
+ + + ++ + IV +S E E K +G ID+ +KT P+Y
Sbjct: 93 IKNYTEVHAIPREELLKFT-DPEYIVEYFSREAESACKSMGYSIDWRRSFKTTDPYYDRF 151
Query: 159 IWWVFSELWNKGLVYRGVKVMPYSTACNTP 188
I W ++L GL+ +G + Y P
Sbjct: 152 IEWQMNKLKELGLIVKGEHPVRYCPKDGNP 181
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 56.2 bits (135), Expect = 2e-09
Identities = 44/173 (25%), Positives = 77/173 (44%), Gaps = 1/173 (0%)
Query: 21 FWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVTRYAHQNGFHVE 80
FW+E F + + +P +S PP TG H GH L ++DV+ R+ +GF+
Sbjct: 31 FWQERGYFH-GDEHDRTRPPFSIVLPPPNVTGSLHLGHALTATLQDVLIRWKRMSGFNTL 89
Query: 81 RRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGR 140
G D G+ + ++K+L +G + +Y S + K +G
Sbjct: 90 WLPGTDHAGIATQMIVEKELKKTEKKSRHDLGREAFLERVWAWKEQYGSRIGEQHKALGA 149
Query: 141 WIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTPLSNFE 193
+D+ + T+ ++ VF L +GL+YR K++ + C T LS+ E
Sbjct: 150 SLDWQRERFTMDEGLSRAVREVFVRLHEEGLIYREKKLINWCPDCRTALSDLE 202
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 55.7 bits (135), Expect = 2e-09
Identities = 36/147 (24%), Positives = 57/147 (38%), Gaps = 27/147 (18%)
Query: 47 PPFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRF--GWDCHGLPVEFEIDKKLGIKG 104
P+ G PH GH+ DV RY G+ V F G D HG +E + +K+
Sbjct: 13 LPYPNGPPHLGHLYTYLAADVYARYLRLRGYEV--FFLTGTDEHGTKIELKAEKE----- 65
Query: 105 PADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRW--IDFDNDYKTLYPWYMESIWWV 162
+ +++V + E K + + I FDN +T P + E +
Sbjct: 66 ------------GITPQELVDKNHEE----FKELFKALNISFDNFIRTTSPEHKELVQEF 109
Query: 163 FSELWNKGLVYRGVKVMPYSTACNTPL 189
F +L+ G +Y Y +C L
Sbjct: 110 FLKLYENGDIYLREYEGLYCVSCERFL 136
>gnl|CDD|173907 cd00814, MetRS_core, catalytic core domain of methioninyl-tRNA
synthetases. Methionine tRNA synthetase (MetRS)
catalytic core domain. This class I enzyme aminoacylates
the 2'-OH of the nucleotide at the 3' of the appropriate
tRNA. MetRS, which consists of the core domain and an
anti-codon binding domain, functions as a monomer.
However, in some species the anti-codon binding domain
is followed by an EMAP domain. In this case, MetRS
functions as a homodimer. The core domain is based on
the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. As a result of a deletion event, MetRS has a
significantly shorter core domain insertion than IleRS,
ValRS, and LeuR. Consequently, the MetRS insertion
lacks the editing function.
Length = 319
Score = 54.8 bits (133), Expect = 4e-09
Identities = 35/153 (22%), Positives = 64/153 (41%), Gaps = 23/153 (15%)
Query: 48 PFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRF--GWDCHGLPVEFEIDKKLGIKGP 105
P+ G+PH GH+ + DV RY G+ V F G D HG +E + +++
Sbjct: 9 PYVNGVPHLGHLYGTVLADVFARYQRLRGYDV--LFVTGTDEHGTKIEQKAEEE------ 60
Query: 106 ADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSE 165
+ +++ +Y ++ + K + I FD +T P + E + F +
Sbjct: 61 -----------GVTPQELCDKYHEIFKDLFKWLN--ISFDYFIRTTSPRHKEIVQEFFKK 107
Query: 166 LWNKGLVYRGVKVMPYSTACNTPLSNFESGQNY 198
L+ G +Y G Y +C L + ++Y
Sbjct: 108 LYENGYIYEGEYEGLYCVSCERFLPEWREEEHY 140
>gnl|CDD|232957 TIGR00398, metG, methionyl-tRNA synthetase. The methionyl-tRNA
synthetase (metG) is a class I amino acyl-tRNA ligase.
This model appears to recognize the methionyl-tRNA
synthetase of every species, including eukaryotic
cytosolic and mitochondrial forms. The UPGMA difference
tree calculated after search and alignment according to
This model shows an unusual deep split between two
families of MetG. One family contains forms from the
Archaea, yeast cytosol, spirochetes, and E. coli, among
others. The other family includes forms from yeast
mitochondrion, Synechocystis sp., Bacillus subtilis, the
Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori.
The E. coli enzyme is homodimeric, although monomeric
forms can be prepared that are fully active. Activity of
this enzyme in bacteria includes aminoacylation of
fMet-tRNA with Met; subsequent formylation of the Met to
fMet is catalyzed by a separate enzyme. Note that the
protein from Aquifex aeolicus is split into an alpha
(large) and beta (small) subunit; this model does not
include the C-terminal region corresponding to the beta
chain [Protein synthesis, tRNA aminoacylation].
Length = 530
Score = 49.7 bits (119), Expect = 3e-07
Identities = 34/140 (24%), Positives = 55/140 (39%), Gaps = 19/140 (13%)
Query: 48 PFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPAD 107
P+A G PH GH + DV RY G+ V G D HG +E + +++
Sbjct: 8 PYANGKPHLGHAYTTILADVYARYKRLRGYEVLFVCGTDEHGTKIELKAEQE-------- 59
Query: 108 VAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELW 167
L +++V +Y E++ K + I FD +T + E + +F +L
Sbjct: 60 ---------GLTPKELVDKYHEEFKDDWKWLN--ISFDRFIRTTDEEHKEIVQKIFQKLK 108
Query: 168 NKGLVYRGVKVMPYSTACNT 187
G +Y Y C
Sbjct: 109 ENGYIYEKEIKQLYCPECEM 128
>gnl|CDD|215509 PLN02943, PLN02943, aminoacyl-tRNA ligase.
Length = 958
Score = 48.4 bits (115), Expect = 8e-07
Identities = 45/184 (24%), Positives = 78/184 (42%), Gaps = 4/184 (2%)
Query: 10 DFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVT 69
DF EE I +W+ F+ + G P + PP TG H GH + ++D++
Sbjct: 62 DFTSEER-IYNWWESQGYFKPNFDRG-GDP-FVIPMPPPNVTGSLHMGHAMFVTLEDIMV 118
Query: 70 RYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSS 129
RY G G D G+ + ++K L +G +G ++ + +Y
Sbjct: 119 RYNRMKGRPTLWIPGTDHAGIATQLVVEKMLASEG-IKRTDLGRDEFTKRVWEWKEKYGG 177
Query: 130 EWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTPL 189
+KR+G D+ + TL ++ F L KGL+Y+G ++ +S T +
Sbjct: 178 TITNQIKRLGASCDWSRERFTLDEQLSRAVVEAFVRLHEKGLIYQGSYMVNWSPNLQTAV 237
Query: 190 SNFE 193
S+ E
Sbjct: 238 SDLE 241
>gnl|CDD|237029 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed.
Length = 556
Score = 48.3 bits (116), Expect = 9e-07
Identities = 39/143 (27%), Positives = 60/143 (41%), Gaps = 26/143 (18%)
Query: 48 PFATGLPHYGHILAGAI--KDVVTRYAHQNGFHVERRF--GWDCHGLPVEFEIDKKLGIK 103
P+A G H GH+ AG+ DV RY G V F G D HG P+E K G+
Sbjct: 12 PYANGPLHLGHL-AGSGLPADVFARYQRLKGNEV--LFVSGSDEHGTPIELAAKK-EGV- 66
Query: 104 GPADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVF 163
P ++A +Y E ++ K++G I +D +T P + E + F
Sbjct: 67 TPQELAD---------------KYHEEHKEDFKKLG--ISYDLFTRTTSPNHHEVVQEFF 109
Query: 164 SELWNKGLVYRGVKVMPYSTACN 186
+L+ G +Y+ Y +
Sbjct: 110 LKLYENGYIYKKTIEQAYCPSDG 132
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 48.0 bits (114), Expect = 1e-06
Identities = 42/173 (24%), Positives = 80/173 (46%), Gaps = 2/173 (1%)
Query: 21 FWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVTRYAHQNGFHVE 80
+W++ F K SK P + PP TG H GH L AI+D + R+ +G++
Sbjct: 112 WWEKSGYFGADAKSSK--PPFVIVLPPPNVTGALHIGHALTAAIEDTIIRWKRMSGYNAL 169
Query: 81 RRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGR 140
G D G+ + ++KKL + +G ++ E K Y ++R+G
Sbjct: 170 WVPGVDHAGIATQVVVEKKLMRERHLTRHDIGREEFVSEVWKWKDEYGGTILNQLRRLGA 229
Query: 141 WIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTACNTPLSNFE 193
+D+ + T+ +++ F L+ +GL+YR ++++ + T +S+ E
Sbjct: 230 SLDWSRECFTMDEQRSKAVTEAFVRLYKEGLIYRDIRLVNWDCTLRTAISDVE 282
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 47.8 bits (115), Expect = 1e-06
Identities = 56/207 (27%), Positives = 85/207 (41%), Gaps = 53/207 (25%)
Query: 10 DFAKEEENILRFWKEHEIFQECLKQSKGKPRYS---FYDGPPFATGLPHYGHILAGAIKD 66
+ + E+ ++W+E++ F+ + K Y F P+ +G H GH+ I D
Sbjct: 6 NPKEIEKKWQKYWEENKTFK--TTEDSSKKYYVLDMF----PYPSGGLHMGHVRNYTIGD 59
Query: 67 VVTRYAHQNGFHVERRFGWDCHGLPVE-FEIDKKLGIKGPADVAKMGIAQYNLECRKIVM 125
V+ RY G++V GWD GLP E I PA+ IA M
Sbjct: 60 VIARYKRMQGYNVLHPMGWDAFGLPAENAAIKTG---THPAEWTYENIAN---------M 107
Query: 126 RYSSEWEKVVKRIGRWIDF-------DNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKV 178
+ K +K +G D+ D +Y Y W W+F +L+ KGL YR K
Sbjct: 108 K------KQLKSLGFSYDWSREIATCDPEY---YKWTQ----WIFLKLYEKGLAYR--KE 152
Query: 179 MP--YSTACNTPLSNFESGQNYKEVVD 203
P + T L+N E +V+D
Sbjct: 153 SPVNWCPVDGTVLAN-E------QVID 172
>gnl|CDD|240411 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein;
Provisional.
Length = 995
Score = 45.0 bits (107), Expect = 1e-05
Identities = 42/200 (21%), Positives = 85/200 (42%), Gaps = 18/200 (9%)
Query: 15 EENILRFWKEHEIFQ--ECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVTRYA 72
E +W++ F+ E K ++ PP TG H GH L GAI+D + RY
Sbjct: 34 ESGWYEWWEKSGFFKPAEDAKSLNSGKKFVIVLPPPNVTGYLHIGHALTGAIQDSLIRYH 93
Query: 73 HQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMR------ 126
G G D G+ + ++KKL + + +++L + + +
Sbjct: 94 RMKGDETLWVPGTDHAGIATQVVVEKKL-------MKEENKTRHDLGREEFLKKVWEWKD 146
Query: 127 -YSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIWWVFSELWNKGLVYRGVKVMPYSTAC 185
+ + ++R+G +D+ + T+ +++ F L+ GL+YR +++ +
Sbjct: 147 KHGNNICNQLRRLGSSLDWSREVFTMDEQRSKAVKEAFVRLYEDGLIYRDTRLVNWCCYL 206
Query: 186 NTPLSNFESGQNYKEVVDPA 205
T +S+ E ++E+ P
Sbjct: 207 KTAISDIEV--EFEEIEKPT 224
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 42.5 bits (101), Expect = 8e-05
Identities = 44/149 (29%), Positives = 66/149 (44%), Gaps = 21/149 (14%)
Query: 54 PHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGI-----KGPADV 108
H GH I DV+ RY G++V + G P+ LGI +G +
Sbjct: 1 LHVGHGRTYTIGDVIARYKRMRGYNVLFPMAFHVTGTPI-------LGIAERIARGDPET 53
Query: 109 AKM-----GIAQYNLEC----RKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESI 159
++ GI + LE IV +S E ++ +KRIG ID+ ++ T P Y + I
Sbjct: 54 IELYKSLYGIPEEELEKFKDPEYIVEYFSEEAKEDMKRIGYSIDWRREFTTTDPEYSKFI 113
Query: 160 WWVFSELWNKGLVYRGVKVMPYSTACNTP 188
W F +L KGL+ +G + Y N P
Sbjct: 114 EWQFRKLKEKGLIVKGSHPVRYCPNDNNP 142
>gnl|CDD|237012 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed.
Length = 511
Score = 41.0 bits (97), Expect = 2e-04
Identities = 30/145 (20%), Positives = 57/145 (39%), Gaps = 31/145 (21%)
Query: 47 PPFATGLPHYGH----ILAGAIKDVVTRYAHQNGFHVERRF--GWDCHGLPVEFEIDKKL 100
+ G PH GH + A DV+ R+ G+ V F G D HG ++
Sbjct: 9 IYYPNGKPHIGHAYTTLAA----DVLARFKRLRGYDV--FFLTGTDEHGQKIQ------- 55
Query: 101 GIKGPADVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYPWYMESIW 160
+ + +++ R S+ ++++ + + I +D+ +T P + E++
Sbjct: 56 ---------RKAEEA-GISPQELADRNSAAFKRLWEALN--ISYDDFIRTTDPRHKEAVQ 103
Query: 161 WVFSELWNKGLVYRGVKVMPYSTAC 185
+F L G +Y G Y C
Sbjct: 104 EIFQRLLANGDIYLGKYEGWYCVRC 128
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed.
Length = 874
Score = 33.2 bits (77), Expect = 0.099
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 162 VFSELWNKGLVYRGVKVMPYSTACNTPLSNFESGQNYKEV 201
VF L+ KGL+YRG +++ + T LS+ E YKEV
Sbjct: 158 VFVRLYEKGLIYRGKRLVNWDPKLQTALSDLEV--EYKEV 195
Score = 31.2 bits (72), Expect = 0.38
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 3/70 (4%)
Query: 10 DFAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGHILAGAIKDVVT 69
D + E + W+E F+ K +S PP TG H GH L ++D++
Sbjct: 10 DPKEVEAKWYQKWEEKGYFK---PDDNSKKPFSIVIPPPNVTGSLHMGHALNNTLQDILI 66
Query: 70 RYAHQNGFHV 79
RY G++
Sbjct: 67 RYKRMQGYNT 76
>gnl|CDD|173850 cd01161, VLCAD, Very long chain acyl-CoA dehydrogenase. VLCAD is
an acyl-CoA dehydrogenase (ACAD), which is found in the
mitochondria of eukaryotes and in some bacteria. It
catalyzes the alpha,beta dehydrogenation of the
corresponding trans-enoyl-CoA by FAD, which becomes
reduced. The reduced form of ACAD is reoxidized in the
oxidative half-reaction by electron-transferring
flavoprotein (ETF), from which the electrons are
transferred to the mitochondrial respiratory chain
coupled with ATP synthesis. VLCAD acts as a homodimer.
Length = 409
Score = 31.7 bits (72), Expect = 0.24
Identities = 20/59 (33%), Positives = 25/59 (42%), Gaps = 18/59 (30%)
Query: 59 ILAGAIKDVVTRYA-------------HQNGFHVERRFGWDCHGLPVEFEIDKKLGIKG 104
I G I D+ T +A F VER FG +G P +KK+GIKG
Sbjct: 178 ITNGGIADIFTVFAKTEVKDATGSVKDKITAFIVERSFGGVTNGPP-----EKKMGIKG 231
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 31.3 bits (71), Expect = 0.33
Identities = 31/142 (21%), Positives = 49/142 (34%), Gaps = 24/142 (16%)
Query: 48 PFATGLPHYGHILAGAIK-DVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPA 106
P+ +PH G+I+ + DV RY G++ G D +G E K L
Sbjct: 26 PYVNNVPHLGNIIGCVLSADVFARYCRLRGYNAIYICGTDEYGTATE---TKAL------ 76
Query: 107 DVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRW--IDFDNDYKTLYPWYMESIWWVFS 164
+ N ++I +Y + K + W I FD +T P E +F
Sbjct: 77 --------EENCTPKEICDKY----HAIHKEVYDWFDISFDKFGRTSTPQQTEICQAIFK 124
Query: 165 ELWNKGLVYRGVKVMPYSTACN 186
+L + Y C
Sbjct: 125 KLMENNWLSENTMQQLYCDTCQ 146
>gnl|CDD|216112 pfam00773, RNB, RNB domain. This domain is the catalytic domain of
ribonuclease II.
Length = 322
Score = 29.6 bits (67), Expect = 1.1
Identities = 18/77 (23%), Positives = 24/77 (31%), Gaps = 19/77 (24%)
Query: 2 VQPVPEYI---DFAKEEENILRFWKEHEIFQECLKQSKGKP----------------RYS 42
V P P+ D K + + E Q+ L++ K P YS
Sbjct: 226 VHPEPDLEKLQDLLKSALELDLDEEGLESLQKLLEELKDSPERRLLNLLLRRTLPRAEYS 285
Query: 43 FYDGPPFATGLPHYGHI 59
P F GL Y H
Sbjct: 286 TTPAPHFGLGLEIYTHF 302
>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 = 27.8 bits (62), Expect = 2.4
Identities = 16/107 (14%), Positives = 33/107 (30%), Gaps = 13/107 (12%)
Query: 47 PPFATGLPHYGHILAGAIKDVVTRYAHQNGFHVERRFGWDCHGLPVEFEIDKKLGIKGPA 106
G H GH+ D + + + G+ V D G G+ G
Sbjct: 5 GITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAG-----------GLIGDP 53
Query: 107 DVAKMGIAQYNLECRKIVMRYSSEWEKVVKRIGRWIDFDNDYKTLYP 153
K A+ +E + + R + E + + ++ ++
Sbjct: 54 ANKKGENAKAFVE--RWIERIKEDVEYMFLQAADFLLLYETECDIHL 98
>gnl|CDD|232937 TIGR00358, 3_prime_RNase, VacB and RNase II family 3'-5'
exoribonucleases. This model is defined to identify a
pair of paralogous 3-prime exoribonucleases in E. coli,
plus the set of proteins apparently orthologous to one
or the other in other eubacteria. VacB was characterized
originally as required for the expression of virulence
genes, but is now recognized as the exoribonuclease
RNase R (Rnr). Its paralog in E. coli and H. influenzae
is designated exoribonuclease II (Rnb). Both are
involved in the degradation of mRNA, and consequently
have strong pleiotropic effects that may be difficult to
disentangle. Both these proteins share domain-level
similarity (RNB, S1) with a considerable number of other
proteins, and full-length similarity scoring below the
trusted cutoff to proteins associated with various
phenotypes but uncertain biochemistry; it may be that
these latter proteins are also 3-prime exoribonucleases
[Transcription, Degradation of RNA].
Length = 654
Score = 28.5 bits (64), Expect = 2.5
Identities = 15/48 (31%), Positives = 18/48 (37%), Gaps = 2/48 (4%)
Query: 11 FAKEEENILRFWKEHEIFQECLKQSKGKPRYSFYDGPPFATGLPHYGH 58
E R E+EI L +S + YS F GL HY H
Sbjct: 456 ACWLREVKDR--PEYEILVTRLLRSLSQAEYSPEPLGHFGLGLEHYAH 501
>gnl|CDD|234114 TIGR03121, one_C_dehyd_A, formylmethanofuran dehydrogenase subunit
A. Members of this largely archaeal protein family are
subunit A of the formylmethanofuran dehydrogenase.
Nomenclature in some bacteria may reflect inclusion of
the formyltransferase described by TIGR03119 as part of
the complex, and therefore call this protein
formyltransferase/hydrolase complex Fhc subunit A. Note
that this model does not distinguish tungsten (FwdA)
from molybdenum-containing (FmdA) forms of this enzyme;
a single gene from this family is expressed
constitutively in Methanobacterium thermoautotrophicum,
which has both tungsten and molybdenum forms and may
work interchangeably.
Length = 556
Score = 28.5 bits (64), Expect = 2.7
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 7/35 (20%)
Query: 41 YSFYD-------GPPFATGLPHYGHILAGAIKDVV 68
YS Y+ GP GL GH+ GA D+
Sbjct: 430 YSLYEIAIMTRAGPAKLLGLTDRGHLGVGADADIA 464
>gnl|CDD|221750 pfam12745, HGTP_anticodon2, Anticodon binding domain of tRNAs.
This is an HGTP_anticodon binding domain, found largely
on Gcn2 proteins which bind tRNA to down regulate
translation in certain stress situations.
Length = 260
Score = 27.6 bits (62), Expect = 4.1
Identities = 12/25 (48%), Positives = 13/25 (52%)
Query: 135 VKRIGRWIDFDNDYKTLYPWYMESI 159
VK +GR D D DY L PW I
Sbjct: 78 VKNLGRKEDTDIDYDELVPWLRSEI 102
>gnl|CDD|183458 PRK12346, PRK12346, transaldolase A; Provisional.
Length = 316
Score = 27.8 bits (62), Expect = 4.6
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 5/27 (18%)
Query: 50 ATGLPHYGHILAGAIKDVVTRYAHQNG 76
A GLP Y H++ AI + + G
Sbjct: 41 AAGLPQYQHLIDDAIA-----WGKKQG 62
>gnl|CDD|224013 COG1088, RfbB, dTDP-D-glucose 4,6-dehydratase [Cell envelope
biogenesis, outer membrane].
Length = 340
Score = 27.6 bits (62), Expect = 5.2
Identities = 10/41 (24%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 125 MRYSSEWEKVVKRIGRW---IDFDNDYKTLYPWYMESIWWV 162
RY+ + K+ + +G W F+ + WY+++ WW
Sbjct: 284 RRYAIDASKIKRELG-WRPQETFETGLRKTVDWYLDNEWWW 323
>gnl|CDD|132569 TIGR03530, GldJ_short, gliding motility-associated lipoprotein
GldJ. Members of this protein family are exclusive to
the Bacteroidetes phylum (previously
Cytophaga-Flavobacteria-Bacteroides). GldJ is a
lipoprotein linked to a type of rapid surface gliding
motility found in certain Bacteroidetes, such as
Flavobacterium johnsoniae. Knockouts of GldJ abolish the
gliding phenotype. GldJ is homologous to GldK. This
model represents the GldJ homolog in Cytophaga
hutchinsonii and several other species which is of
shorter architecture than that found in Flavobacterium
johnsoniae and is represented by a separate model
(TIGR03524). Gliding motility appears closely linked to
chitin utilization in the model species Flavobacterium
johnsoniae. Bacteroidetes with members of this protein
family appear to have all of the genes associated with
gliding motility.
Length = 402
Score = 27.3 bits (60), Expect = 5.9
Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 129 SEWEKVVKR-IG-RWIDFDNDYKTLYPW 154
+EWE K IG +W+D + ++ +YPW
Sbjct: 217 AEWEYAAKALIGNQWLDENQEHGRIYPW 244
>gnl|CDD|223918 COG0849, ftsA, Cell division ATPase FtsA [Cell division and
chromosome partitioning].
Length = 418
Score = 26.8 bits (60), Expect = 7.9
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 9/56 (16%)
Query: 88 HGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSSEW----EKVVKRIG 139
H +P E+ +D + GIK P + G+ LE V+ EK V+R G
Sbjct: 128 HVIPQEYIVDGQEGIKDP--LGMSGVR---LEVEVHVITGPKNILENLEKCVERAG 178
>gnl|CDD|233300 TIGR01174, ftsA, cell division protein FtsA. This bacterial cell
division protein interacts with FtsZ, the bacterial
homolog of tubulin. It is an ATP-binding protein and
shows structural similarities to actin and heat shock
cognate protein 70 [Cellular processes, Cell division].
Length = 371
Score = 26.8 bits (60), Expect = 8.0
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 9/61 (14%)
Query: 88 HGLPVEFEIDKKLGIKGPADVAKMGIAQYNLECRKIVMRYSSEW----EKVVKRIGRWID 143
H +P E+ +D + GIK P +G++ LE ++ SS K V+R G +D
Sbjct: 121 HVIPQEYILDDQEGIKNP-----LGMSGVRLEVEVHIITGSSTILRNLVKCVERCGLEVD 175
Query: 144 F 144
Sbjct: 176 N 176
>gnl|CDD|99973 cd03800, GT1_Sucrose_synthase, This family is most closely related
to the GT1 family of glycosyltransferases. The
sucrose-phosphate synthases in this family may be unique
to plants and photosynthetic bacteria. This enzyme
catalyzes the synthesis of sucrose 6-phosphate from
fructose 6-phosphate and uridine 5'-diphosphate-glucose,
a key regulatory step of sucrose metabolism. The
activity of this enzyme is regulated by phosphorylation
and moderated by the concentration of various
metabolites and light.
Length = 398
Score = 26.7 bits (60), Expect = 9.5
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 14/57 (24%)
Query: 46 GPPFA-----TGL---PHYGHILAGAIKDVVT-----RYAHQNGF-HVERRFGWDCH 88
GP TGL P LA A++ ++T R + G R+ W+
Sbjct: 336 GPRDIVVDGVTGLLVDPRDPEALAAALRRLLTDPALRRRLSRAGLRRARARYTWERV 392
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 0.140 0.465
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,982,799
Number of extensions: 1022154
Number of successful extensions: 944
Number of sequences better than 10.0: 1
Number of HSP's gapped: 908
Number of HSP's successfully gapped: 56
Length of query: 205
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 113
Effective length of database: 6,857,034
Effective search space: 774844842
Effective search space used: 774844842
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)