RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14678
(129 letters)
>gnl|CDD|235588 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 151 bits (383), Expect = 2e-43
Identities = 56/89 (62%), Positives = 63/89 (70%), Gaps = 3/89 (3%)
Query: 27 LYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
LY REA GKP+FILHDGPPYANG HIGHA+NKILKDI ++S + G YVPGWD
Sbjct: 37 LYQKIREANKGKPKFILHDGPPYANGDIHIGHALNKILKDIIVKSKTMSGFDAPYVPGWD 96
Query: 87 CHGLPIEL---KAITSKDKLLSPLDIRKK 112
CHGLPIEL K + K K LS + RKK
Sbjct: 97 CHGLPIELKVEKKLGKKGKKLSAAEFRKK 125
>gnl|CDD|223138 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 142 bits (361), Expect = 1e-40
Identities = 49/72 (68%), Positives = 56/72 (77%), Gaps = 1/72 (1%)
Query: 26 ELYSWQREALN-GKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPG 84
++Y RE N GKP+F+LHDGPPYANG HIGHA+NKILKDI +R +QG V YVPG
Sbjct: 35 DIYEKIREERNKGKPKFVLHDGPPYANGNIHIGHALNKILKDIIVRYKTMQGYDVPYVPG 94
Query: 85 WDCHGLPIELKA 96
WDCHGLPIELK
Sbjct: 95 WDCHGLPIELKV 106
>gnl|CDD|215452 PLN02843, PLN02843, isoleucyl-tRNA synthetase.
Length = 974
Score = 137 bits (346), Expect = 1e-38
Identities = 55/90 (61%), Positives = 64/90 (71%), Gaps = 5/90 (5%)
Query: 27 LYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
+Y + NG+ F LHDGPPYANG HIGHA+NKILKD R LLQGK+VHYVPGWD
Sbjct: 21 VYKRVSDRNNGES-FTLHDGPPYANGDLHIGHALNKILKDFINRYQLLQGKKVHYVPGWD 79
Query: 87 CHGLPIELKAITSKD----KLLSPLDIRKK 112
CHGLPIELK + S D K L+P+ +R K
Sbjct: 80 CHGLPIELKVLQSLDQEARKELTPIKLRAK 109
>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 = 129 bits (327), Expect = 1e-37
Identities = 44/81 (54%), Positives = 51/81 (62%), Gaps = 7/81 (8%)
Query: 39 PEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA-- 96
PEF+ HDGPPYANG PH GHA+NKILKDI R +QG V PGWDCHGLPIELK
Sbjct: 1 PEFVFHDGPPYANGLPHYGHALNKILKDIINRYKTMQGYYVPRRPGWDCHGLPIELKVEK 60
Query: 97 ---ITSKDKL--LSPLDIRKK 112
I+ K + + + K
Sbjct: 61 ELGISGKKDIEKMGIAEFNAK 81
>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 = 127 bits (321), Expect = 3e-35
Identities = 47/88 (53%), Positives = 58/88 (65%), Gaps = 7/88 (7%)
Query: 32 REALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLP 91
++ GKPEFI HDGPPYANG+ H+GHA+NKILKDI LR +QG V PGWD HGLP
Sbjct: 29 KKLNKGKPEFIFHDGPPYANGSIHLGHALNKILKDIILRYKTMQGFNVTRKPGWDTHGLP 88
Query: 92 IELKA-----ITSKDKL--LSPLDIRKK 112
IE K I+ K ++ L + R+K
Sbjct: 89 IEHKVEKKLGISGKKEISSLEIEEFREK 116
>gnl|CDD|237514 PRK13804, ileS, isoleucyl-tRNA synthetase; Provisional.
Length = 961
Score = 126 bits (320), Expect = 5e-35
Identities = 45/70 (64%), Positives = 54/70 (77%)
Query: 26 ELYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGW 85
+LY RE G+P+F+LHDGPPYANG HIGHA+NKILKD+ +RS + G +YVPGW
Sbjct: 41 DLYKKLREQAKGRPKFVLHDGPPYANGNIHIGHALNKILKDVIVRSKQMLGFDANYVPGW 100
Query: 86 DCHGLPIELK 95
DCHGLPIE K
Sbjct: 101 DCHGLPIEWK 110
>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 = 112 bits (281), Expect = 6e-30
Identities = 38/69 (55%), Positives = 44/69 (63%)
Query: 27 LYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
+ E GKP F +HDGPP A G HIGHA+NK LKDI +R +QG V +VPGWD
Sbjct: 11 YFKKSLENGKGKPSFTIHDGPPNATGLLHIGHALNKTLKDIVIRYKRMQGFDVLWVPGWD 70
Query: 87 CHGLPIELK 95
HGLP E K
Sbjct: 71 HHGLPTEQK 79
>gnl|CDD|235681 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 975
Score = 108 bits (273), Expect = 1e-28
Identities = 32/75 (42%), Positives = 44/75 (58%), Gaps = 5/75 (6%)
Query: 32 REALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLP 91
E G PEF+ +DGPP ANG PH GH + + +KD+ R ++G +V GWD HGLP
Sbjct: 34 IENREGGPEFVFYDGPPTANGLPHYGHLLTRTIKDVVPRYKTMKGYKVERRAGWDTHGLP 93
Query: 92 IELKA-----ITSKD 101
+EL+ I+ K
Sbjct: 94 VELEVEKELGISGKK 108
>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 = 83.6 bits (207), Expect = 2e-20
Identities = 29/56 (51%), Positives = 38/56 (67%)
Query: 41 FILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
F + PPYANG+ H+GHA+ I+ D R ++G V ++PGWD HGLPIELKA
Sbjct: 2 FYVTTPPPYANGSLHLGHALTHIIADFIARYKRMRGYEVPFLPGWDTHGLPIELKA 57
>gnl|CDD|215477 PLN02882, PLN02882, aminoacyl-tRNA ligase.
Length = 1159
Score = 77.8 bits (192), Expect = 8e-18
Identities = 32/73 (43%), Positives = 42/73 (57%), Gaps = 5/73 (6%)
Query: 37 GKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELK- 95
G PE+I +DGPP+A G PH GH + +KDI R + G V GWDCHGLP+E +
Sbjct: 36 GLPEYIFYDGPPFATGLPHYGHILAGTIKDIVTRYQSMTGHHVTRRFGWDCHGLPVEYEI 95
Query: 96 ----AITSKDKLL 104
I +D +L
Sbjct: 96 DKKLGIKRRDDVL 108
>gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional.
Length = 1205
Score = 69.2 bits (169), Expect = 8e-15
Identities = 33/78 (42%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 37 GKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
K +I +DGPP+A G PH GH + I+KD R G V GWDCHGLPIE +
Sbjct: 100 NKKAYIFYDGPPFATGLPHYGHLLAGIIKDCVTRYFYQCGFSVERKFGWDCHGLPIEYE- 158
Query: 97 ITSKDKLLSPLDIRKKGL 114
I ++ + DI K G+
Sbjct: 159 IEKENNINKKEDILKMGI 176
>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 = 66.4 bits (163), Expect = 5e-14
Identities = 23/50 (46%), Positives = 28/50 (56%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKAI 97
PY NG PH+GH +L D+ R L+G V +V G D HG IE KA
Sbjct: 9 PYVNGVPHLGHLYGTVLADVFARYQRLRGYDVLFVTGTDEHGTKIEQKAE 58
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 64.2 bits (157), Expect = 4e-13
Identities = 22/51 (43%), Positives = 28/51 (54%)
Query: 47 PPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKAI 97
PY NG PH+GH + D+ R L+G V ++ G D HG IELKA
Sbjct: 13 LPYPNGPPHLGHLYTYLAADVYARYLRLRGYEVFFLTGTDEHGTKIELKAE 63
>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 = 64.3 bits (157), Expect = 4e-13
Identities = 22/58 (37%), Positives = 34/58 (58%)
Query: 38 KPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELK 95
KP F + PP G+ HIGHA+N ++DI R ++G V ++PG D G+ ++K
Sbjct: 32 KPPFCIDIPPPNVTGSLHIGHALNWSIQDIIARYKRMKGYNVLWLPGTDHAGIATQVK 89
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This
family includes methionyl tRNA synthetases.
Length = 388
Score = 63.4 bits (155), Expect = 6e-13
Identities = 24/50 (48%), Positives = 27/50 (54%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKAI 97
PY NG PHIGH I D+ R L+G V +V G D HG IEL A
Sbjct: 8 PYVNGPPHIGHLYTTIPADVYARYLRLRGYDVLFVTGTDEHGTKIELAAE 57
>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 = 63.6 bits (155), Expect = 8e-13
Identities = 27/49 (55%), Positives = 31/49 (63%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
PYANG PH+GHA IL D+ R L+G V +V G D HG IELKA
Sbjct: 8 PYANGKPHLGHAYTTILADVYARYKRLRGYEVLFVCGTDEHGTKIELKA 56
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 62.1 bits (152), Expect = 2e-12
Identities = 24/49 (48%), Positives = 29/49 (59%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
PYANG H+GH V I DI +R ++G V +V D HG PI LKA
Sbjct: 11 PYANGPIHLGHLVEYIQADIWVRYQRMRGHEVLFVCADDAHGTPIMLKA 59
>gnl|CDD|223599 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 61.9 bits (151), Expect = 3e-12
Identities = 21/59 (35%), Positives = 32/59 (54%)
Query: 37 GKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELK 95
KP F + PP G+ H+GHA+N L+DI R ++G V + PG D G+ ++
Sbjct: 31 DKPPFSIDTPPPNVTGSLHMGHALNYTLQDILARYKRMRGYNVLWPPGTDHAGIATQVV 89
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 61.4 bits (150), Expect = 4e-12
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 2/71 (2%)
Query: 25 SELYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPG 84
Y + + KP + + PP +G+ HIGH + D R ++G V + G
Sbjct: 26 EGTYKFDPDE--RKPVYSIDTPPPTVSGSLHIGHVFSYTHTDFIARYQRMRGYNVFFPQG 83
Query: 85 WDCHGLPIELK 95
WD +GLP E K
Sbjct: 84 WDDNGLPTERK 94
>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 = 59.6 bits (145), Expect = 1e-11
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 47 PPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELK 95
PP G+ H+GHA+N ++DI R ++G V + PG D G+ ++
Sbjct: 9 PPNVTGSLHMGHALNNTIQDIIARYKRMKGYNVLWPPGTDHAGIATQVV 57
>gnl|CDD|237029 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed.
Length = 556
Score = 59.5 bits (145), Expect = 2e-11
Identities = 24/51 (47%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 48 PYANGTPHIGHAVNKILK-DITLRSNLLQGKRVHYVPGWDCHGLPIELKAI 97
PYANG H+GH L D+ R L+G V +V G D HG PIEL A
Sbjct: 12 PYANGPLHLGHLAGSGLPADVFARYQRLKGNEVLFVSGSDEHGTPIELAAK 62
>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 = 50.7 bits (122), Expect = 2e-08
Identities = 20/50 (40%), Positives = 26/50 (52%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKAI 97
PY +G H+GH + DI R +QG V + G+D GLP E AI
Sbjct: 9 PYPSGALHVGHVRTYTIGDIIARYKRMQGYNVLFPMGFDAFGLPAENAAI 58
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 49.6 bits (119), Expect = 5e-08
Identities = 21/50 (42%), Positives = 27/50 (54%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKAI 97
PY +G H+GH N + D+ R +QG V + GWD GLP E AI
Sbjct: 43 PYPSGALHVGHVRNYTIGDVIARYKRMQGYNVLHPMGWDAFGLPAENAAI 92
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 49.4 bits (119), Expect = 6e-08
Identities = 22/48 (45%), Positives = 25/48 (52%)
Query: 49 YANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y NG PHIGHA I D R LQG V ++ G D HG I+ A
Sbjct: 14 YPNGKPHIGHAYTTIAADALARYKRLQGYDVFFLTGTDEHGQKIQQAA 61
>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 = 45.5 bits (108), Expect = 2e-06
Identities = 22/65 (33%), Positives = 33/65 (50%)
Query: 36 NGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELK 95
+ KP++ + PY +G H+GH N + D+ R ++G V + GWD GLP E
Sbjct: 26 SSKPKYYILSMFPYPSGALHMGHVRNYTITDVLSRYYRMKGYNVLHPIGWDAFGLPAENA 85
Query: 96 AITSK 100
AI
Sbjct: 86 AIKRG 90
>gnl|CDD|237012 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed.
Length = 511
Score = 44.9 bits (107), Expect = 2e-06
Identities = 21/50 (42%), Positives = 27/50 (54%)
Query: 47 PPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y NG PHIGHA + D+ R L+G V ++ G D HG I+ KA
Sbjct: 9 IYYPNGKPHIGHAYTTLAADVLARFKRLRGYDVFFLTGTDEHGQKIQRKA 58
>gnl|CDD|215509 PLN02943, PLN02943, aminoacyl-tRNA ligase.
Length = 958
Score = 41.1 bits (96), Expect = 5e-05
Identities = 23/75 (30%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 27 LYSWQREALNGKPE-------FILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRV 79
+Y+W KP F++ PP G+ H+GHA+ L+DI +R N ++G+
Sbjct: 69 IYNWWESQGYFKPNFDRGGDPFVIPMPPPNVTGSLHMGHAMFVTLEDIMVRYNRMKGRPT 128
Query: 80 HYVPGWDCHGLPIEL 94
++PG D G+ +L
Sbjct: 129 LWIPGTDHAGIATQL 143
>gnl|CDD|178177 PLN02563, PLN02563, aminoacyl-tRNA ligase.
Length = 963
Score = 40.6 bits (95), Expect = 7e-05
Identities = 25/61 (40%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 38 KPEFILHDGPPYANGTP-HIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
KP+F + D PY +G H+GH DI R +QG V + GWD GLP E A
Sbjct: 109 KPKFYVLDMFPYPSGAGLHVGHPEGYTATDILARYKRMQGYNVLHPMGWDAFGLPAEQYA 168
Query: 97 I 97
I
Sbjct: 169 I 169
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 40.4 bits (94), Expect = 1e-04
Identities = 18/62 (29%), Positives = 32/62 (51%)
Query: 33 EALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPI 92
E +P F + PP G+ H+GHA+ L+D+ +R + G ++PG D G+
Sbjct: 42 EHDRTRPPFSIVLPPPNVTGSLHLGHALTATLQDVLIRWKRMSGFNTLWLPGTDHAGIAT 101
Query: 93 EL 94
++
Sbjct: 102 QM 103
>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 = 40.2 bits (94), Expect = 1e-04
Identities = 17/57 (29%), Positives = 28/57 (49%)
Query: 36 NGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPI 92
+ + +F L PY NG H GH + +++ R ++GK V + G+ G PI
Sbjct: 22 DDREKFFLTMAYPYLNGVMHAGHCRTFTIPEVSARFERMKGKNVLFPLGFHVTGTPI 78
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 39.5 bits (92), Expect = 2e-04
Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 7/70 (10%)
Query: 28 YSWQR-------EALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVH 80
Y+W +A + KP F++ PP G HIGHA+ ++D +R + G
Sbjct: 110 YAWWEKSGYFGADAKSSKPPFVIVLPPPNVTGALHIGHALTAAIEDTIIRWKRMSGYNAL 169
Query: 81 YVPGWDCHGL 90
+VPG D G+
Sbjct: 170 WVPGVDHAGI 179
>gnl|CDD|177869 PLN02224, PLN02224, methionine-tRNA ligase.
Length = 616
Score = 38.5 bits (89), Expect = 4e-04
Identities = 29/88 (32%), Positives = 38/88 (43%), Gaps = 5/88 (5%)
Query: 14 KNIPDLSE--CGFSELY---SWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDIT 68
K +P S+ G LY S Q ++ F+L Y N PH+G A I D
Sbjct: 39 KKLPYYSQFSSGKRALYCTSSSQESTVDEADTFVLTTPLYYVNAPPHMGSAYTTIAADSI 98
Query: 69 LRSNLLQGKRVHYVPGWDCHGLPIELKA 96
R L GK+V ++ G D HG I A
Sbjct: 99 ARFQRLLGKKVIFITGTDEHGEKIATSA 126
>gnl|CDD|240411 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein;
Provisional.
Length = 995
Score = 36.5 bits (85), Expect = 0.002
Identities = 18/54 (33%), Positives = 31/54 (57%)
Query: 33 EALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
++LN +F++ PP G HIGHA+ ++D +R + ++G +VPG D
Sbjct: 54 KSLNSGKKFVIVLPPPNVTGYLHIGHALTGAIQDSLIRYHRMKGDETLWVPGTD 107
>gnl|CDD|215518 PLN02959, PLN02959, aminoacyl-tRNA ligase.
Length = 1084
Score = 35.0 bits (81), Expect = 0.007
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 8/58 (13%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNL--LQGKRVHYVPGWDCHGLPIELKAITSKDKL 103
PY NG H+GHA + L + + L+G V + C G+PI KA S DKL
Sbjct: 54 PYMNGLLHLGHAFS--LSKLEFAAAYHRLRGANVLLPFAFHCTGMPI--KA--SADKL 105
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 33.5 bits (78), Expect = 0.020
Identities = 23/52 (44%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRV-HYVP-GWDCHGLPIELKAI 97
PY +G H+GH N + D+ R +QG V H P GWD GLP E AI
Sbjct: 41 PYPSGGLHMGHVRNYTIGDVIARYKRMQGYNVLH--PMGWDAFGLPAENAAI 90
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed.
Length = 874
Score = 33.2 bits (77), Expect = 0.023
Identities = 17/40 (42%), Positives = 25/40 (62%)
Query: 47 PPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
PP G+ H+GHA+N L+DI +R +QG ++PG D
Sbjct: 44 PPNVTGSLHMGHALNNTLQDILIRYKRMQGYNTLWLPGTD 83
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 32.8 bits (75), Expect = 0.031
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 48 PYANGTPHIGHAVNKILK-DITLRSNLLQGKRVHYVPGWDCHGLPIELKAITSKDKLLSP 106
PY N PH+G+ + +L D+ R L+G Y+ G D +G E KA+ +P
Sbjct: 26 PYVNNVPHLGNIIGCVLSADVFARYCRLRGYNAIYICGTDEYGTATETKALEEN---CTP 82
Query: 107 LDIRKK 112
+I K
Sbjct: 83 KEICDK 88
>gnl|CDD|233393 TIGR01392, homoserO_Ac_trn, homoserine O-acetyltransferase. This
family describes homoserine-O-acetyltransferase, an
enzyme of methionine biosynthesis. This model has been
rebuilt to identify sequences more broadly, including a
number of sequences suggested to be homoserine
O-acetyltransferase based on proximity to other Met
biosynthesis genes [Amino acid biosynthesis, Aspartate
family].
Length = 351
Score = 31.9 bits (73), Expect = 0.075
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 23 GFSELYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKR 78
F+E+ QR+A+ P + +DG Y +G P G A+ ++L +T RS +R
Sbjct: 170 AFNEV---QRQAILADPNW--NDGDYYEDGQPDRGLALARMLAHLTYRSEESMAER 220
>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 = 30.5 bits (69), Expect = 0.12
Identities = 13/50 (26%), Positives = 18/50 (36%)
Query: 47 PPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
NG HIGH + D ++ G +V + D G I A
Sbjct: 5 GITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIGDPA 54
>gnl|CDD|233731 TIGR02108, PQQ_syn_pqqB, coenzyme PQQ biosynthesis protein B. This
model describes coenzyme PQQ biosynthesis protein B, a
gene required for the biosynthesis of
pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is
required for some glucose dehydrogenases and alcohol
dehydrogenases. Note that this gene appears to be
required for PQQ in biosynthesis in Methylobacterium
extorquens (under the name pqqG) and in Klebiella
pneumoniae but that the equivalent pqqV in Acinetobacter
calcoaceticus is not necessary for heterologous
expression of PQQ biosynthesis in E. coli. Based on this
latter finding, it is suggested (Goosen, et al. 1989)
that PqqB might be a transporter or a PQQ-dependent
enzyme rather than a PQQ biosynthesis enzyme
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 302
Score = 30.5 bits (69), Expect = 0.22
Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 23/68 (33%)
Query: 34 ALNGKPEFILHDG--------------PPYA---NGTPHIGHAVNKILKDITLRSNLLQG 76
ALN K EF + P Y+ G PH G + ++D G
Sbjct: 137 ALNEKFEFRIVARPGLEFTPFAVPGKAPLYSEHRAGDPHPGDTLGLKIED------GTTG 190
Query: 77 KRVHYVPG 84
KR+ Y+PG
Sbjct: 191 KRLFYIPG 198
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 29.1 bits (66), Expect = 0.62
Identities = 10/39 (25%), Positives = 17/39 (43%)
Query: 54 PHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPI 92
H+GH + D+ R ++G V + + G PI
Sbjct: 1 LHVGHGRTYTIGDVIARYKRMRGYNVLFPMAFHVTGTPI 39
>gnl|CDD|240418 PTZ00437, PTZ00437, glutaminyl-tRNA synthetase; Provisional.
Length = 574
Score = 29.2 bits (65), Expect = 0.62
Identities = 15/34 (44%), Positives = 15/34 (44%), Gaps = 3/34 (8%)
Query: 26 ELYSWQREALNGKPEFILHDGPPYANGTPHIGHA 59
EL GKP F PP NG HIGHA
Sbjct: 39 ELLEKHEAVTGGKPYFRF---PPEPNGFLHIGHA 69
>gnl|CDD|130447 TIGR01380, glut_syn, glutathione synthetase, prokaryotic. This
model was built using glutathione synthetases found in
Gram-negative bacteria. This gene does not appear to be
present in genomes of Gram-positive bacteria.
Glutathione synthetase has an ATP-binding domain in the
COOH terminus and catalyzes the second step in the
glutathione biosynthesis pathway: ATP +
gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate
+ glutathione. Glutathione is a tripeptide that
functions as a reductant in many cellular reactions
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Glutathione and analogs].
Length = 312
Score = 28.9 bits (65), Expect = 0.79
Identities = 22/82 (26%), Positives = 28/82 (34%), Gaps = 15/82 (18%)
Query: 33 EALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVP-----GWDC 87
E G +L DG P IG AV +I R NL G R C
Sbjct: 202 EIKEGDKRILLIDGEP-------IGAAVARIPAGGEFRGNLAVGGRGEATELSERDREIC 254
Query: 88 HGLPIELKAITSKDKLLSPLDI 109
+ ELK + L +D+
Sbjct: 255 ADVAPELK---RRGLLFVGIDV 273
>gnl|CDD|237793 PRK14703, PRK14703, glutaminyl-tRNA synthetase/YqeY domain fusion
protein; Provisional.
Length = 771
Score = 28.5 bits (64), Expect = 1.2
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 47 PPYANGTPHIGHA 59
PP NG HIGHA
Sbjct: 37 PPEPNGYLHIGHA 49
>gnl|CDD|240634 cd12157, PTDH, Thermostable Phosphite Dehydrogenase. Phosphite
dehydrogenase (PTDH), a member of the D-specific
2-hydroxyacid dehydrogenase family, catalyzes the
NAD-dependent formation of phosphate from phosphite
(hydrogen phosphonate). PTDH has been suggested as a
potential enzyme for cofactor regeneration systems. The
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD-binding
domain.
Length = 318
Score = 28.0 bits (63), Expect = 1.3
Identities = 12/25 (48%), Positives = 18/25 (72%), Gaps = 2/25 (8%)
Query: 53 TPHIGHAVNKILKDITLRS--NLLQ 75
TPHIG AV+++ +I L + N+LQ
Sbjct: 290 TPHIGSAVDEVRLEIELEAALNILQ 314
>gnl|CDD|212564 cd11674, lambda-1, inner capsid protein lambda-1 or VP3. The
reovirus inner capsid protein lambda-1 displays
nucleoside triphosphate phosphohydrolase (NTPase),
RNA-5'-triphosphatase (RTPase), and RNA helicase
activity and may play a role in the transcription of the
virus genome, the unwinding or reannealing of
double-stranded RNA during RNA synthesis. The RTPase
activity constitutes the first step in the capping of
RNA, resulting in a 5'-diphosphorylated RNA plus-strand.
lambda1 is an Orthoreovirus core protein, VP3 is the
homologous core protein in Aquareoviruses.
Length = 1166
Score = 27.4 bits (61), Expect = 2.5
Identities = 6/33 (18%), Positives = 12/33 (36%), Gaps = 1/33 (3%)
Query: 68 TLRSNLLQGKRVH-YVPGWDCHGLPIELKAITS 99
++ + + V P + LP EL +
Sbjct: 686 SMTGAMTAFRIVKSMTPAYIAELLPTELAVLAP 718
>gnl|CDD|130316 TIGR01249, pro_imino_pep_1, proline iminopeptidase,
Neisseria-type subfamily. This model represents one of
two related families of proline iminopeptidase in the
alpha/beta fold hydrolase family. The fine
specificities of the various members, including both
the range of short peptides from which proline can be
removed and whether other amino acids such as alanine
can be also removed, may vary among members.
Length = 306
Score = 27.1 bits (60), Expect = 2.9
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 26 ELYSWQREALNGKPEFILHDGP 47
+LY Q +GKP LH GP
Sbjct: 16 QLYYEQSGNPDGKPVVFLHGGP 37
>gnl|CDD|183082 PRK11302, PRK11302, DNA-binding transcriptional regulator HexR;
Provisional.
Length = 284
Score = 26.9 bits (60), Expect = 3.2
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 37 GKPEFILHDGPPYANGTPHIGHAVN 61
G P+F LH ANGTP++ V
Sbjct: 62 GFPDFKLHLAQSLANGTPYVNRNVE 86
>gnl|CDD|173899 cd00672, CysRS_core, catalytic core domain of cysteinyl tRNA
synthetase. Cysteinyl tRNA synthetase (CysRS)
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.
Length = 213
Score = 26.8 bits (60), Expect = 3.4
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 54 PHIGHAVNKILKDITLRSNLLQGKRVHYV 82
HIGHA ++ D+ R G +V YV
Sbjct: 34 AHIGHARTYVVFDVLRRYLEDLGYKVRYV 62
>gnl|CDD|223293 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 464
Score = 26.8 bits (60), Expect = 3.4
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 54 PHIGHAVNKILKDITLRSNLLQGKRVHYV 82
HIGHA ++ D+ R G +V YV
Sbjct: 36 AHIGHARTYVVFDVLRRYLRYLGYKVTYV 64
>gnl|CDD|188783 cd09397, LIM1_UF1, LIM domain in proteins of unknown function. The
first Lim domain of a LIM domain containing protein: The
functions of the proteins are unknown. The members of
this family contain two copies of LIM domain. The LIM
domain is 50-60 amino acids in size and shares two
characteristic zinc finger motifs. The two zinc fingers
contain eight conserved residues, mostly cysteines and
histidines, which coordinately bond to two zinc atoms.
LIM domains function as adaptors or scaffolds to support
the assembly of multimeric protein.
Length = 58
Score = 25.3 bits (56), Expect = 3.7
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 87 CHGLPIELKAITSKDKLLS 105
C L IE K+I+SKD LS
Sbjct: 4 CG-LEIEGKSISSKDGELS 21
>gnl|CDD|226906 COG4529, COG4529, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 474
Score = 27.0 bits (60), Expect = 3.7
Identities = 10/40 (25%), Positives = 14/40 (35%), Gaps = 2/40 (5%)
Query: 11 DLFKNIPDLSECGFSELYSWQREALNGKPEFILHDGPPYA 50
+ PD+ F ++ PE I HDG Y
Sbjct: 60 RMSAFAPDI-PQDFVRWLQ-KQLQRYRDPEDINHDGQAYP 97
>gnl|CDD|185676 cd00807, GlnRS_core, catalytic core domain of glutaminyl-tRNA
synthetase. Glutaminyl-tRNA synthetase (GlnRS)
cataytic core domain. These enzymes attach Gln to the
appropriate tRNA. Like other class I tRNA synthetases,
they aminoacylate 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.
GlnRS contains the characteristic class I HIGH and
KMSKS motifs, which are involved in ATP binding. These
enzymes function as monomers. Archaea and most bacteria
lack GlnRS. In these organisms, the
"non-discriminating" form of GluRS aminoacylates both
tRNA(Glu) and tRNA(Gln) with Glu, which is converted to
Gln when appropriate by a transamidation enzyme.
Length = 238
Score = 26.4 bits (59), Expect = 4.0
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 47 PPYANGTPHIGHA 59
PP NG HIGHA
Sbjct: 7 PPEPNGYLHIGHA 19
>gnl|CDD|188093 TIGR00864, PCC, polycystin cation channel protein. The
Polycystin Cation Channel (PCC) Family (TC 1.A.5)
Polycystin is a huge protein of 4303aas. Its repeated
leucine-rich (LRR) segment is found in many proteins.
It contains 16 polycystic kidney disease (PKD) domains,
one LDL-receptor class A domain, one C-type lectin
family domain, and 16-18 putative TMSs in positions
between residues 2200 and 4100. Polycystin-L has been
shown to be a cation (Na+, K+ and Ca2+) channel that is
activated by Ca2+. Two members of the PCC family
(polycystin 1 and 2) are mutated in autosomal dominant
polycystic kidney disease, and polycystin-L is deleted
in mice with renal and retinal defects. Note: this
model is restricted to the amino half for technical
reasons.
Length = 2740
Score = 27.0 bits (59), Expect = 4.1
Identities = 19/66 (28%), Positives = 26/66 (39%), Gaps = 13/66 (19%)
Query: 5 ISLYLQDLFKNIPDLSE-----------CGFSELYSWQRE--ALNGKPEFILHDGPPYAN 51
IS + + N+ +LSE CG + L W E +PE L GP
Sbjct: 7 ISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEKGVKVRQPEAALCAGPGALA 66
Query: 52 GTPHIG 57
G P +G
Sbjct: 67 GQPLLG 72
>gnl|CDD|235424 PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional.
Length = 554
Score = 26.6 bits (60), Expect = 4.3
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 47 PPYANGTPHIGHA 59
PP NG HIGHA
Sbjct: 35 PPEPNGYLHIGHA 47
>gnl|CDD|129547 TIGR00455, apsK, adenylylsulfate kinase (apsK). This protein,
adenylylsulfate kinase, is often found as a fusion
protein with sulfate adenylyltransferase. Important
residue (active site in E.coli) is residue 100 of the
seed alignment [Central intermediary metabolism, Sulfur
metabolism].
Length = 184
Score = 26.3 bits (58), Expect = 4.3
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 31 QREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRV 79
+R+ALNG ++ +G I +A+ K L+ R +L G V
Sbjct: 9 ERQALNGHRGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNV 57
>gnl|CDD|240404 PTZ00402, PTZ00402, glutamyl-tRNA synthetase; Provisional.
Length = 601
Score = 26.5 bits (58), Expect = 4.6
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 4/24 (16%)
Query: 47 PPYANGTPHIGHA----VNKILKD 66
PP A+G HIGHA +N +L D
Sbjct: 58 PPEASGFLHIGHAKAALINSMLAD 81
>gnl|CDD|185672 cd00418, GlxRS_core, catalytic core domain of glutamyl-tRNA and
glutaminyl-tRNA synthetase. Glutamyl-tRNA
synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS)
cataytic core domain. These enzymes attach Glu or Gln,
respectively, to the appropriate tRNA. Like other class
I tRNA synthetases, they aminoacylate 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. These enzymes function as monomers.
Archaea, cellular organelles, and some bacteria lack
GlnRS. In these cases, the "non-discriminating" form
of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln)
with Glu, which is converted to Gln when appropriate by
a transamidation enzyme. The discriminating form of
GluRS differs from GlnRS and the non-discriminating
form of GluRS in their C-terminal anti-codon binding
domains.
Length = 230
Score = 26.3 bits (58), Expect = 4.9
Identities = 8/26 (30%), Positives = 9/26 (34%)
Query: 47 PPYANGTPHIGHAVNKILKDITLRSN 72
P G HIGHA + R
Sbjct: 7 APSPTGYLHIGHARTALFNFAFARKY 32
>gnl|CDD|132488 TIGR03447, mycothiol_MshC, cysteine--1-D-myo-inosityl
2-amino-2-deoxy-alpha-D-glucopyranoside ligase.
Members of this protein family are MshC,
l-cysteine:1-D-myo-inosityl
2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an
enzyme that uses ATP to ligate a Cys residue to a
mycothiol precursor molecule, in the second to last
step in mycothiol biosynthesis. This enzyme shows
considerable homology to Cys--tRNA ligases, and many
instances are misannotated as such. Mycothiol is found
in Mycobacterium tuberculosis, Corynebacterium
glutamicum, Streptomyces coelicolor, and various other
members of the Actinobacteria. Mycothiol is an analog
to glutathione [Biosynthesis of cofactors, prosthetic
groups, and carriers, Glutathione and analogs].
Length = 411
Score = 26.6 bits (59), Expect = 4.9
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 53 TP----HIGHAVNKILKDITLRSNLLQGKRVHYV 82
TP H+GHA + D+ R G RVHYV
Sbjct: 45 TPYDATHLGHAATYLTFDLVNRVWRDAGHRVHYV 78
>gnl|CDD|198447 cd10479, EphR_LBD_A1, Ligand Binding Domain of Ephrin type-A
Receptor 1. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA1 is downregulated in some advanced
colorectal and myeloid cancers and upregulated in
neuroblasoma and glioblastoma. EphRs contain a ligand
binding domain and two fibronectin repeats
extracellularly, a transmembrane segment, and a
cytoplasmic tyrosine kinase domain. Binding of the
ephrin ligand to EphR requires cell-cell contact since
both are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling). Ephrin/EphR
interaction mainly results in cell-cell repulsion or
adhesion.
Length = 177
Score = 26.1 bits (57), Expect = 5.4
Identities = 22/93 (23%), Positives = 36/93 (38%), Gaps = 22/93 (23%)
Query: 16 IPDLSECGFSELYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLL- 74
+ D E G+SE ++ LNG P ++ D P + G D LRSN +
Sbjct: 17 LLDPPEVGWSE----VQQMLNGTPLYMYQDCPVQSEGD-----------TDHWLRSNWIY 61
Query: 75 ---QGKRVHYVPGW---DCHGLPIELKAITSKD 101
+ R++ + DC P + K+
Sbjct: 62 RGEEASRIYVELQFTVRDCKSFPGGAGPLGCKE 94
>gnl|CDD|232985 TIGR00463, gltX_arch, glutamyl-tRNA synthetase, archaeal and
eukaryotic 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
eukaryotic cytosolic and archaeal forms of the enzyme.
In some eukaryotes, the glutamyl-tRNA synthetase is part
of a longer, multifunctional aminoacyl-tRNA ligase. In
many species, the charging of tRNA(gln) proceeds first
through misacylation with Glu and then transamidation.
For this reason, glutamyl-tRNA synthetases, including
all known archaeal enzymes (as of 2010) may act on both
tRNA(gln) and tRNA(glu) [Protein synthesis, tRNA
aminoacylation].
Length = 556
Score = 26.3 bits (58), Expect = 5.8
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 47 PPYANGTPHIGHAVNKILKD 66
P +G HIGHA IL
Sbjct: 99 APNPSGPLHIGHARAAILNH 118
>gnl|CDD|216096 pfam00749, tRNA-synt_1c, tRNA synthetases class I (E and Q),
catalytic domain. Other tRNA synthetase sub-families
are too dissimilar to be included. This family includes
only glutamyl and glutaminyl tRNA synthetases. In some
organisms, a single glutamyl-tRNA synthetase
aminoacylates both tRNA(Glu) and tRNA(Gln).
Length = 314
Score = 25.7 bits (57), Expect = 7.0
Identities = 7/13 (53%), Positives = 7/13 (53%)
Query: 47 PPYANGTPHIGHA 59
P G HIGHA
Sbjct: 7 APSPTGYLHIGHA 19
>gnl|CDD|143506 cd06839, PLPDE_III_Btrk_like, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzyme Btrk Decarboxylase. This
subfamily is composed of Bacillus circulans BtrK
decarboxylase and similar proteins. These proteins are
fold type III PLP-dependent enzymes that contain an
N-terminal PLP-binding TIM-barrel domain and a
C-terminal beta-sandwich domain, similar to bacterial
alanine racemases, eukaryotic ornithine decarboxylases
and diaminopimelate decarboxylases. BtrK is presumed to
function as a PLP-dependent decarboxylase involved in
the biosynthesis of the aminoglycoside antibiotic
butirosin. Homodimer formation and the presence of the
PLP cofactor may be required for catalytic activity.
Length = 382
Score = 26.0 bits (58), Expect = 7.3
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 103 LLSPLDIRKKGLHLPRLEASLLVTIIQ 129
L +PLD+ + + LP LE LV ++Q
Sbjct: 332 LCTPLDLLGRNVELPPLEPGDLVAVLQ 358
>gnl|CDD|236843 PRK11092, PRK11092, bifunctional (p)ppGpp synthetase II/
guanosine-3',5'-bis pyrophosphate
3'-pyrophosphohydrolase; Provisional.
Length = 702
Score = 25.9 bits (57), Expect = 7.3
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 44 HDGPPYANGTPHIGH--AVNKILKDITLRSNLLQGKRVHYV 82
H+G ++G P+I H AV IL ++ L L +H V
Sbjct: 34 HEGQTRSSGEPYITHPVAVACILAEMRLDYETLMAALLHDV 74
>gnl|CDD|184504 PRK14097, pgi, glucose-6-phosphate isomerase; Provisional.
Length = 448
Score = 26.0 bits (58), Expect = 7.8
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 8/31 (25%)
Query: 60 VNKILKDITLRS--------NLLQGKRVHYV 82
V K KD+T+ N L GK V +V
Sbjct: 331 VEKPRKDLTIPEDEEDLDGLNYLAGKTVDFV 361
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 0.142 0.439
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,781,365
Number of extensions: 600949
Number of successful extensions: 514
Number of sequences better than 10.0: 1
Number of HSP's gapped: 506
Number of HSP's successfully gapped: 75
Length of query: 129
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 43
Effective length of database: 7,123,158
Effective search space: 306295794
Effective search space used: 306295794
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: 53 (24.1 bits)