RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2399
(232 letters)
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 337 bits (868), Expect = e-113
Identities = 114/219 (52%), Positives = 148/219 (67%), Gaps = 8/219 (3%)
Query: 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIM 71
R+I VT ALPYANG +H+GH++EYIQADIWVR+Q M + +V F+CADDAHG IM
Sbjct: 2 RKILVTCALPYANGPIHLGHLVEYIQADIWVRYQRM-----RGHEVLFVCADDAHGTPIM 56
Query: 72 IAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKL 131
+ AEK G+TP+E I + K+ GF I FDN+ ST S EN +L Q+IY L +
Sbjct: 57 LKAEKEGITPEELIARYHAEHKRDFAGFGISFDNYGSTHSEENRELAQEIYLKLK-ENGY 115
Query: 132 IINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILS 191
I K I Q +DP K +FLPDR++KG CP C A+DQYGD CE C + Y+PT+LINP S +S
Sbjct: 116 IYEKTIEQLYDPEKGMFLPDRFVKGTCPKCGAEDQYGDNCEVCGATYSPTELINPKSAIS 175
Query: 192 GTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPEI 230
G P++K S+HFFFKL R +FL++W LQP +
Sbjct: 176 GATPVLKESEHFFFKLP--RFEEFLKEWITRSGELQPNV 212
>gnl|CDD|237029 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed.
Length = 556
Score = 254 bits (652), Expect = 3e-82
Identities = 77/219 (35%), Positives = 115/219 (52%), Gaps = 10/219 (4%)
Query: 12 RRIFVTTALPYANGELHIGHIME-YIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAI 70
RI +T+A PYANG LH+GH+ + AD++ R+Q ++ + V F+ D HG I
Sbjct: 3 MRILITSAWPYANGPLHLGHLAGSGLPADVFARYQRLKGNE-----VLFVSGSDEHGTPI 57
Query: 71 MIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAK 130
+AA+K G+TP+E + K+ I +D + T S + ++VQ+ + LY
Sbjct: 58 ELAAKKEGVTPQELADKYHEEHKEDFKKLGISYDLFTRTTSPNHHEVVQEFFLKLYEN-G 116
Query: 131 LIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSIL 190
I K I Q + P FLPDRY++G CP C + GD C+ C ++ PT LINP S +
Sbjct: 117 YIYKKTIEQAYCPSDGRFLPDRYVEGTCPYCGYEGARGDQCDNCGALLDPTDLINPRSKI 176
Query: 191 SGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229
SG+ P + ++HFF L + LR W I P
Sbjct: 177 SGSTPEFRETEHFFLDLP--AFAERLRAW-IESSGDWPP 212
>gnl|CDD|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family
includes methionyl tRNA synthetases.
Length = 388
Score = 235 bits (602), Expect = 1e-76
Identities = 80/216 (37%), Positives = 117/216 (54%), Gaps = 8/216 (3%)
Query: 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIA 73
+TTALPY NG HIGH+ I AD++ R+ ++ V F+ D HG I +A
Sbjct: 1 FLITTALPYVNGPPHIGHLYTTIPADVYARYLRLR-----GYDVLFVTGTDEHGTKIELA 55
Query: 74 AEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLII 133
AEK G+TP+E ++ K+ F I FD++ T S + +LVQ+ + LY K I
Sbjct: 56 AEKEGVTPQELVDRYHEEFKELFKKFNISFDDFIRTTSERHKELVQEFFLKLYEK-GDIY 114
Query: 134 NKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193
+ ++ FLPDRY++G CP C ++D GD CE C PT+LINP S +SG+
Sbjct: 115 EGEYEGWYCVSDERFLPDRYVEGTCPYCGSEDARGDQCEVCGRPLEPTELINPRSAISGS 174
Query: 194 KPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229
P +K +H+FF+LS + D L +W + P
Sbjct: 175 TPELKEEEHYFFRLSKFQ--DKLLEWIKENPDEPPS 208
>gnl|CDD|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 558
Score = 230 bits (589), Expect = 1e-72
Identities = 78/211 (36%), Positives = 120/211 (56%), Gaps = 8/211 (3%)
Query: 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGA 68
K +++I VTTALPY NG H+GH+ Y+ AD++ R+ ++ +V+F+ D HG
Sbjct: 2 KMMKKILVTTALPYPNGPPHLGHLYTYLAADVYARYLRLR-----GYEVFFLTGTDEHGT 56
Query: 69 AIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNK 128
I + AEK G+TP+E ++ K+ I FDN+ T S E+ +LVQ+ + LY +
Sbjct: 57 KIELKAEKEGITPQELVDKNHEEFKELFKALNISFDNFIRTTSPEHKELVQEFFLKLY-E 115
Query: 129 AKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYS 188
I ++ + FLPDRY++G CP C +D GD CE C PT+LINP
Sbjct: 116 NGDIYLREYEGLYCVSCERFLPDRYVEGTCPKCGGEDARGDQCENCGRTLDPTELINPVC 175
Query: 189 ILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219
++SG P ++ +H+FF+LS + D L +W
Sbjct: 176 VISGATPEVREEEHYFFRLS--KFQDKLLEW 204
>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 = 208 bits (530), Expect = 3e-64
Identities = 80/206 (38%), Positives = 115/206 (55%), Gaps = 8/206 (3%)
Query: 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIA 73
I +TTALPYANG+ H+GH I AD++ R++ ++ V F+C D HG I +
Sbjct: 1 ILITTALPYANGKPHLGHAYTTILADVYARYKRLRGYE-----VLFVCGTDEHGTKIELK 55
Query: 74 AEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLII 133
AE+ G+TPKE ++ K I FD + T E+ ++VQKI+ L I
Sbjct: 56 AEQEGLTPKELVDKYHEEFKDDWKWLNISFDRFIRTTDEEHKEIVQKIFQKLKEN-GYIY 114
Query: 134 NKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193
K+I Q + P +FLPDRY++G CP C ++D GD CE C PT+LINP + G
Sbjct: 115 EKEIKQLYCPECEMFLPDRYVEGTCPKCGSEDARGDHCEVCGRHLEPTELINPRCKICGA 174
Query: 194 KPIIKSSKHFFFKLSDKRCIDFLRKW 219
KP ++ S+H+FF+LS L +W
Sbjct: 175 KPELRDSEHYFFRLS--AFEKELEEW 198
>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 = 139 bits (354), Expect = 3e-40
Identities = 49/207 (23%), Positives = 79/207 (38%), Gaps = 53/207 (25%)
Query: 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMI 72
++ +TTALPY NG H+GH+ + AD++ R+Q + + V F+ D HG I
Sbjct: 1 KVLITTALPYVNGVPHLGHLYGTVLADVFARYQRL-----RGYDVLFVTGTDEHGTKIEQ 55
Query: 73 AAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLI 132
AE+ G+TP+E + K I FD + T S + ++VQ+ + LY I
Sbjct: 56 KAEEEGVTPQELCDKYHEIFKDLFKWLNISFDYFIRTTSPRHKEIVQEFFKKLYEN-GYI 114
Query: 133 INKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSG 192
+ + FL
Sbjct: 115 YEGEYEGLYCVSCERFL------------------------------------------- 131
Query: 193 TKPIIKSSKHFFFKLSDKRCIDFLRKW 219
P + +H+FF+LS + D L +W
Sbjct: 132 --PEWREEEHYFFRLSKFQ--DRLLEW 154
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 112 bits (282), Expect = 2e-28
Identities = 64/205 (31%), Positives = 97/205 (47%), Gaps = 12/205 (5%)
Query: 12 RRIFVTTALPYANGELHIGHIME-YIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAI 70
R I +T+ALPY N H+G+I+ + AD++ R+ ++ N +IC D +G A
Sbjct: 17 RNILITSALPYVNNVPHLGNIIGCVLSADVFARYCRLRGYN-----AIYICGTDEYGTAT 71
Query: 71 MIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAK 130
A + TPKE + + K+ D F I FD + T + + ++ Q I+ L
Sbjct: 72 ETKALEENCTPKEICDKYHAIHKEVYDWFDISFDKFGRTSTPQQTEICQAIFKKLMENNW 131
Query: 131 LIINKKINQFFDPIKNIFLPDRYIKGECPI--CNAKDQYGDFCECCSSIYTPTKLINPYS 188
L N + Q + FL DR ++G CP CN GD CE C + PT+LI+P
Sbjct: 132 LSENT-MQQLYCDTCQKFLADRLVEGTCPTEGCNYDSARGDQCEKCGKLLNPTELIDPKC 190
Query: 189 ILSGTKPIIKSSKHFFF---KLSDK 210
+ P I+ + H F L DK
Sbjct: 191 KVCKNTPRIRDTDHLFLELPLLKDK 215
>gnl|CDD|237012 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed.
Length = 511
Score = 93.8 bits (234), Expect = 4e-22
Identities = 54/222 (24%), Positives = 95/222 (42%), Gaps = 42/222 (18%)
Query: 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIM 71
++ ++TT + Y NG+ HIGH + AD+ RF+ ++ G V+F+ D HG I
Sbjct: 1 KKFYITTPIYYPNGKPHIGHAYTTLAADVLARFKRLR---GYD--VFFLTGTDEHGQKIQ 55
Query: 72 IAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKL 131
AE+AG++P+E + S+ K+ + I +D++ T + + VQ+I+ L
Sbjct: 56 RKAEEAGISPQELADRNSAAFKRLWEALNISYDDFIRTTDPRHKEAVQEIFQRLLA---- 111
Query: 132 IINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIYTPTKLINP--YS 188
G+ I +Y G +C C YT ++LI
Sbjct: 112 -----------------------NGD--IY--LGKYEGWYCVRCEEFYTESELIEDGYRC 144
Query: 189 ILSGTKPIIKSSKHFFFKLSDKRCIDFLRK-WAIHDKRLQPE 229
+G + +FF+LS D L + + + +QP
Sbjct: 145 PPTGAPVEWVEEESYFFRLSKY--QDKLLELYEANPDFIQPA 184
>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 = 90.2 bits (224), Expect = 2e-21
Identities = 42/131 (32%), Positives = 60/131 (45%), Gaps = 20/131 (15%)
Query: 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMI 72
+ +VTT PYANG LH+GH + +I AD R++ M+ V F+ D HG I +
Sbjct: 1 KFYVTTPPPYANGSLHLGHALTHIIADFIARYKRMRGYE-----VPFLPGWDTHGLPIEL 55
Query: 73 AAEKAGM-------------TPKEFINNISSNRKKYLDGFYIKFD--NWYSTDSIENIDL 117
AE+ G PKEF+ +S K+ I +D + Y T E
Sbjct: 56 KAERKGGRKKKTIWIEEFREDPKEFVEEMSGEHKEDFRRLGISYDWSDEYITTEPEYSKA 115
Query: 118 VQKIYDTLYNK 128
V+ I+ LY K
Sbjct: 116 VELIFSRLYEK 126
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 81.8 bits (203), Expect = 6e-18
Identities = 57/196 (29%), Positives = 92/196 (46%), Gaps = 38/196 (19%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
++TT + Y NG+ HIGH I AD R++ +Q G V+F+ D HG I AA
Sbjct: 7 YITTPIYYPNGKPHIGHAYTTIAADALARYKRLQ---GY--DVFFLTGTDEHGQKIQQAA 61
Query: 75 EKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134
EKAG TP+E+++ IS+ K+ I +D + T + +VQKI++ LY +
Sbjct: 62 EKAGKTPQEYVDEISAGFKELWKKLDISYDKFIRTTDERHKKVVQKIFEKLYEQG----- 116
Query: 135 KKINQFFDPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIYTPTKLIN-PYSILSG 192
D Y KGE Y G +C C + +T ++L++ G
Sbjct: 117 ----------------DIY-KGE---------YEGWYCVSCETFFTESQLVDGGKCPDCG 150
Query: 193 TKPIIKSSKHFFFKLS 208
+ + + +FF++S
Sbjct: 151 REVELVKEESYFFRMS 166
>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 = 60.3 bits (147), Expect = 8e-11
Identities = 34/118 (28%), Positives = 49/118 (41%), Gaps = 11/118 (9%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
++ PY +G LH+GH+ Y DI R++ MQ G V F DA G AA
Sbjct: 3 YILVMFPYPSGALHVGHVRTYTIGDIIARYKRMQ---GY--NVLFPMGFDAFGLPAENAA 57
Query: 75 EKAGMTP----KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNK 128
K G P + I + K+ GF + ++T E Q ++ LY K
Sbjct: 58 IKIGRDPEDWTEYNIKKMKEQLKRM--GFSYDWRREFTTCDPEYYKFTQWLFLKLYEK 113
>gnl|CDD|215452 PLN02843, PLN02843, isoleucyl-tRNA synthetase.
Length = 974
Score = 52.1 bits (125), Expect = 7e-08
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 25/107 (23%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAI-------MIA 73
PYANG+LHIGH + I D R+Q +Q ++V+++ D HG I +
Sbjct: 41 PYANGDLHIGHALNKILKDFINRYQLLQ-----GKKVHYVPGWDCHGLPIELKVLQSLDQ 95
Query: 74 AEKAGMTP-----------KEFINNISSNRKKYLDGFYIKFDNWYST 109
+ +TP K+ ++ + K+Y G + ++N Y T
Sbjct: 96 EARKELTPIKLRAKAAKFAKKTVDTQRESFKRY--GVWGDWENPYLT 140
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 51.9 bits (125), Expect = 9e-08
Identities = 34/121 (28%), Positives = 48/121 (39%), Gaps = 11/121 (9%)
Query: 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIM 71
+ +V PY +G LH+GH+ Y D+ R++ MQ N V DA G
Sbjct: 34 EKFYVLVMFPYPSGALHVGHVRNYTIGDVIARYKRMQGYN-----VLHPMGWDAFGLPAE 88
Query: 72 IAAEKAGMTPK----EFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYN 127
AA K G P I + K GF I + ++T E +Q + LY
Sbjct: 89 NAAIKIGTDPAKWTYYNIAYMKKQLKSL--GFSIDWRREFATCDPEYYKWIQWQFLKLYE 146
Query: 128 K 128
K
Sbjct: 147 K 147
>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 = 49.2 bits (118), Expect = 5e-07
Identities = 34/127 (26%), Positives = 49/127 (38%), Gaps = 24/127 (18%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAG-- 78
PYANG H GH + I DI R++ MQ V D HG I + EK
Sbjct: 10 PYANGLPHYGHALNKILKDIINRYKTMQ-----GYYVPRRPGWDCHGLPIELKVEKELGI 64
Query: 79 --------MTPKEFINNISSNRKKYLD---------GFYIKFDNWYSTDSIENIDLVQKI 121
M EF +Y+D G ++ ++N Y T E ++ V +
Sbjct: 65 SGKKDIEKMGIAEFNAKCREFALRYVDEQEEQFQRLGVWVDWENPYKTMDPEYMESVWWV 124
Query: 122 YDTLYNK 128
+ L+ K
Sbjct: 125 FKQLHEK 131
>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 = 48.5 bits (116), Expect = 1e-06
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-GM 79
PYANG +H+GH + I DI +R++ MQ G V D HG I EK G+
Sbjct: 45 PYANGSIHLGHALNKILKDIILRYKTMQ---GF--NVTRKPGWDTHGLPIEHKVEKKLGI 99
Query: 80 TPKEFINNIS 89
+ K+ I+++
Sbjct: 100 SGKKEISSLE 109
>gnl|CDD|223138 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 46.8 bits (112), Expect = 4e-06
Identities = 24/56 (42%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK 76
PYANG +HIGH + I DI VR++ MQ G V ++ D HG I + EK
Sbjct: 58 PYANGNIHIGHALNKILKDIIVRYKTMQ---GYD--VPYVPGWDCHGLPIELKVEK 108
>gnl|CDD|177869 PLN02224, PLN02224, methionine-tRNA ligase.
Length = 616
Score = 46.2 bits (109), Expect = 6e-06
Identities = 31/111 (27%), Positives = 49/111 (44%), Gaps = 5/111 (4%)
Query: 16 VTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAE 75
+TT L Y N H+G I AD RFQ + ++V FI D HG I +A
Sbjct: 73 LTTPLYYVNAPPHMGSAYTTIAADSIARFQRLL-----GKKVIFITGTDEHGEKIATSAA 127
Query: 76 KAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLY 126
G P E + IS + + I +D + T ++ +V++ Y ++
Sbjct: 128 ANGRNPPEHCDIISQSYRTLWKDLDIAYDKFIRTTDPKHEAIVKEFYARVF 178
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 43.3 bits (103), Expect = 7e-05
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 7/48 (14%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYF-ICADDAHG 67
P +G LHIGH+ Y D R+Q M+ N V+F DD +G
Sbjct: 47 PTVSGSLHIGHVFSYTHTDFIARYQRMRGYN-----VFFPQGWDD-NG 88
>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 = 42.9 bits (101), Expect = 8e-05
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAA 69
D + F+T A PY NG +H GH + ++ RF+ M+ N V F G
Sbjct: 23 DREKFFLTMAYPYLNGVMHAGHCRTFTIPEVSARFERMKGKN-----VLFPLGFHVTGTP 77
Query: 70 IMIAAEK 76
I+ AE
Sbjct: 78 ILGLAEL 84
>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 = 41.6 bits (98), Expect = 2e-04
Identities = 30/127 (23%), Positives = 47/127 (37%), Gaps = 24/127 (18%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK---- 76
P A G LHIGH + DI +R++ MQ G V ++ D HG EK
Sbjct: 32 PNATGLLHIGHALNKTLKDIVIRYKRMQ---GFD--VLWVPGWDHHGLPTEQKVEKKLGI 86
Query: 77 ------AGMTPKEFINNISSNRKKYLD---------GFYIKFDNWYSTDSIENIDLVQKI 121
+ ++F + +Y D G +D Y T V ++
Sbjct: 87 KGKKDRHKLGREKFREKCREWKMEYADEIRSQFKRLGVSGDWDREYFTLDPGLEAAVWRV 146
Query: 122 YDTLYNK 128
+ L++K
Sbjct: 147 FVRLHDK 153
>gnl|CDD|237514 PRK13804, ileS, isoleucyl-tRNA synthetase; Provisional.
Length = 961
Score = 40.7 bits (96), Expect = 5e-04
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQ 48
PYANG +HIGH + I D+ VR + M
Sbjct: 63 PYANGNIHIGHALNKILKDVIVRSKQML 90
>gnl|CDD|235588 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 40.5 bits (96), Expect = 5e-04
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 11/70 (15%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK---- 76
PYANG++HIGH + I DI V+ + M G ++ D HG I + EK
Sbjct: 58 PYANGDIHIGHALNKILKDIIVKSKTMS---GF--DAPYVPGWDCHGLPIELKVEKKLGK 112
Query: 77 --AGMTPKEF 84
++ EF
Sbjct: 113 KGKKLSAAEF 122
>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 = 39.2 bits (92), Expect = 0.001
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDN 51
P G LH+GH + DI R++ M+ N
Sbjct: 10 PNVTGSLHMGHALNNTIQDIIARYKRMKGYN 40
>gnl|CDD|223599 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 38.8 bits (91), Expect = 0.002
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 5/56 (8%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK 76
P G LH+GH + Y DI R++ M+ N V + D G A + EK
Sbjct: 42 PNVTGSLHMGHALNYTLQDILARYKRMRGYN-----VLWPPGTDHAGIATQVVVEK 92
>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 = 37.0 bits (86), Expect = 0.007
Identities = 36/127 (28%), Positives = 54/127 (42%), Gaps = 8/127 (6%)
Query: 20 LPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGM 79
PY +G LH+GH+ Y D+ R+ M+ N V DA G AA K G+
Sbjct: 37 FPYPSGALHMGHVRNYTITDVLSRYYRMKGYN-----VLHPIGWDAFGLPAENAAIKRGI 91
Query: 80 TPKEFINNISSNRKKYLD--GFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKI 137
P ++ +N KK L GF +D +T E Q I+ L+ + L K+
Sbjct: 92 HPAKWTYENIANMKKQLQALGFSYDWDREIATCDPEYYKWTQWIFLELF-EKGLAYVKEA 150
Query: 138 NQFFDPI 144
+ + P
Sbjct: 151 DVNWCPN 157
>gnl|CDD|107347 cd06352, PBP1_NPR_GC_like, Ligand-binding domain of membrane
guanylyl-cyclase receptors. Ligand-binding domain of
membrane guanylyl-cyclase receptors. Membrane guanylyl
cyclases (GC) have a single membrane-spanning region and
are activated by endogenous and exogenous peptides. This
family can be divided into three major subfamilies: the
natriuretic peptide receptors (NPRs), sensory
organ-specific membrane GCs, and the
enterotoxin/guanylin receptors. The binding of peptide
ligands to the receptor results in the activation of the
cytosolic catalytic domain. Three types of NPRs have
been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/
GC-B, and NPR-C. In addition, two of the GCs, GC-D and
GC-G, appear to be pseudogenes in humans. Atrial
natriuretic peptide (ANP) and brain natriuretic peptide
(BNP) are produced in the heart, and both bind to the
NPR-A. NPR-C, also termed the clearance receptor, binds
each of the natriuretic peptides and can alter
circulating levels of these peptides. The ligand binding
domain of the NPRs exhibits strong structural similarity
to the type I periplasmic binding fold protein family.
Length = 389
Score = 36.1 bits (84), Expect = 0.012
Identities = 12/70 (17%), Positives = 28/70 (40%), Gaps = 2/70 (2%)
Query: 16 VTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAE 75
+ AL N L + H++ + QD + ++ +C +++AA
Sbjct: 158 LEAALREFN--LTVSHVVFMEDNSGAEDLLEILQDIKRRSRIIIMCGSSEDVRELLLAAH 215
Query: 76 KAGMTPKEFI 85
G+T +++
Sbjct: 216 DLGLTSGDYV 225
>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 = 35.8 bits (83), Expect = 0.018
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 5/56 (8%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK 76
P G LHIGH + + DI R++ M+ N V ++ D G A + EK
Sbjct: 42 PNVTGSLHIGHALNWSIQDIIARYKRMKGYN-----VLWLPGTDHAGIATQVKVEK 92
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 35.1 bits (82), Expect = 0.025
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 20 LPYANGELHIGHIMEYIQADIWVRFQCMQQDN 51
PY +G LH+GH+ Y D+ R++ MQ N
Sbjct: 40 FPYPSGGLHMGHVRNYTIGDVIARYKRMQGYN 71
>gnl|CDD|215509 PLN02943, PLN02943, aminoacyl-tRNA ligase.
Length = 958
Score = 35.3 bits (81), Expect = 0.026
Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAI------MIAA 74
P G LH+GH M DI VR+ M K R +I D G A M+A+
Sbjct: 97 PNVTGSLHMGHAMFVTLEDIMVRYNRM-----KGRPTLWIPGTDHAGIATQLVVEKMLAS 151
Query: 75 E---KAGMTPKEFINNISSNRKKY 95
E + + EF + ++KY
Sbjct: 152 EGIKRTDLGRDEFTKRVWEWKEKY 175
>gnl|CDD|235681 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 975
Score = 32.4 bits (75), Expect = 0.19
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 14/74 (18%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICAD----DAHGAAIMIAAEK 76
P ANG H GH++ D+ R++ M+ G +V D HG + + EK
Sbjct: 50 PTANGLPHYGHLLTRTIKDVVPRYKTMK---GY--KVE----RRAGWDTHGLPVELEVEK 100
Query: 77 A-GMTPKEFINNIS 89
G++ K+ I
Sbjct: 101 ELGISGKKDIEEYG 114
>gnl|CDD|178177 PLN02563, PLN02563, aminoacyl-tRNA ligase.
Length = 963
Score = 32.5 bits (74), Expect = 0.20
Identities = 15/38 (39%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 15 FVTTALPYANGE-LHIGHIMEYIQADIWVRFQCMQQDN 51
+V PY +G LH+GH Y DI R++ MQ N
Sbjct: 113 YVLDMFPYPSGAGLHVGHPEGYTATDILARYKRMQGYN 150
>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 = 30.1 bits (68), Expect = 0.48
Identities = 19/69 (27%), Positives = 24/69 (34%), Gaps = 5/69 (7%)
Query: 16 VTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAE 75
T + NG LHIGH+ + D + G + DD G I A
Sbjct: 1 TTFSGITPNGYLHIGHLRTIVTFD---FLAQAYRKLGYKVRCIA-LIDD-AGGLIGDPAN 55
Query: 76 KAGMTPKEF 84
K G K F
Sbjct: 56 KKGENAKAF 64
>gnl|CDD|236646 PRK10064, PRK10064, catecholate siderophore receptor CirA;
Provisional.
Length = 663
Score = 30.6 bits (69), Expect = 0.72
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 6/43 (13%)
Query: 103 FD-NWYSTDSIENIDLVQKIYDTLYNKAKL-----IINKKINQ 139
FD NW D+IE I++V+ +LY L II KKI Q
Sbjct: 120 FDLNWIPVDAIERIEVVRGPMSSLYGSDALGGVVNIITKKIGQ 162
>gnl|CDD|215477 PLN02882, PLN02882, aminoacyl-tRNA ligase.
Length = 1159
Score = 30.1 bits (68), Expect = 1.0
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCM 47
P+A G H GHI+ DI R+Q M
Sbjct: 47 PFATGLPHYGHILAGTIKDIVTRYQSM 73
>gnl|CDD|215518 PLN02959, PLN02959, aminoacyl-tRNA ligase.
Length = 1084
Score = 29.7 bits (67), Expect = 1.5
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 13 RIFVTTALPYANGELHIGH 31
+ F PY NG LH+GH
Sbjct: 46 KFFGNFPYPYMNGLLHLGH 64
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed.
Length = 874
Score = 29.3 bits (67), Expect = 1.7
Identities = 12/28 (42%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 25 GELHIGHIME-YIQADIWVRFQCMQQDN 51
G LH+GH + +Q DI +R++ MQ N
Sbjct: 49 GSLHMGHALNNTLQ-DILIRYKRMQGYN 75
>gnl|CDD|222940 PHA02880, PHA02880, hypothetical protein; Provisional.
Length = 189
Score = 28.7 bits (64), Expect = 1.8
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 2/58 (3%)
Query: 85 INNISSNRKKYLDGFYIKFDNW-YSTDSIENID-LVQKIYDTLYNKAKLIINKKINQF 140
+ I+ R K+ D I N D ++K Y + + IIN I++F
Sbjct: 89 LEIINEYRNKFPRTVPDILSILKKIQDVISNNDIEIKKFNSVDYYEKENIINTIIDEF 146
>gnl|CDD|162605 TIGR01923, menE, O-succinylbenzoate-CoA ligase. This model
represents an enzyme, O-succinylbenzoate-CoA ligase,
which is involved in the fourth step of the menaquinone
biosynthesis pathway. O-succinylbenzoate-CoA ligase,
together with menB - naphtoate synthase, take
2-succinylbenzoate and convert it into 1,4-di-hydroxy-2-
naphtoate [Biosynthesis of cofactors, prosthetic groups,
and carriers, Menaquinone and ubiquinone].
Length = 436
Score = 29.0 bits (65), Expect = 2.1
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 104 DNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKN 146
DNW + + +I + ++ L A L I K NQ + I N
Sbjct: 153 DNWLLSLPLYHISGLSILFRWLIEGATLRIVDKFNQLLEMIAN 195
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 29.1 bits (66), Expect = 2.3
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 27 LHIGHIMEYIQADIWVRFQCMQ 48
LH+GH Y D+ R++ M+
Sbjct: 1 LHVGHGRTYTIGDVIARYKRMR 22
>gnl|CDD|220265 pfam09491, RE_AlwI, AlwI restriction endonuclease. This family
includes the AlwI (recognises GGATC), Bsp6I (recognises
GC^NGC), BstNBI (recognises GASTC), PleI(recognises
GAGTC) and MlyI (recognises GAGTC) restriction
endonucleases.
Length = 429
Score = 28.9 bits (65), Expect = 2.4
Identities = 15/74 (20%), Positives = 28/74 (37%)
Query: 82 KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFF 141
KE I+ I N +Y ++ Y ++ + + +T + K+I N QF
Sbjct: 180 KEEIDEILKNTARYPIYTRLEDYFEYMSNIDGPLLPTDDLANTKIEQLKIIANNIKEQFN 239
Query: 142 DPIKNIFLPDRYIK 155
L +Y+
Sbjct: 240 IAELLSILNSKYVV 253
>gnl|CDD|219849 pfam08454, RIH_assoc, RyR and IP3R Homology associated. This
eukaryotic domain is found in ryanodine receptors (RyR)
and inositol 1,4,5-trisphosphate receptors (IP3R) which
together form a superfamily of homotetrameric
ligand-gated intracellular Ca2+ channels. There seems to
be no known function for this domain. Also see the
IP3-binding domain pfam01365 and pfam02815.
Length = 109
Score = 27.5 bits (62), Expect = 2.5
Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 20/78 (25%)
Query: 109 TDSIENIDLVQKIYDTLYNKAKLIINKK----INQFFDPIKNIFLPDRYIKGECP----- 159
T+S + +++ + D L INKK I Q D + I+G C
Sbjct: 37 TNSKNSYNIINETVDLLLTLLGKNINKKNYELIVQCLDTLT------ELIQGPCHENQIA 90
Query: 160 ICNAKDQYGDFCECCSSI 177
+C +K F + + +
Sbjct: 91 LCESK-----FLDIATDL 103
>gnl|CDD|217218 pfam02765, Telo_bind, Telomeric single stranded DNA binding
POT1/CDC13. This domain binds single stranded telomeric
DNA and adopts an OB fold. It includes the proteins POT1
and CDC13 which have been shown to regulate telomere
length, replication and capping.
Length = 141
Score = 27.8 bits (62), Expect = 2.7
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 5/41 (12%)
Query: 185 NPYSILSGTK-----PIIKSSKHFFFKLSDKRCIDFLRKWA 220
+ +++ SG P +KSSK F F +K+ ++ LRKWA
Sbjct: 100 SSWALFSGDLGAPFFPYVKSSKLFEFSDEEKKLVEALRKWA 140
>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 314
Score = 28.3 bits (64), Expect = 3.1
Identities = 11/40 (27%), Positives = 21/40 (52%), Gaps = 8/40 (20%)
Query: 25 GELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADD 64
G+LH+G+ + I+ WV +Q++ + +F AD
Sbjct: 16 GKLHLGNYLGAIR--NWVL---LQEEYY---ECFFFIADL 47
>gnl|CDD|182160 PRK09947, PRK09947, hypothetical protein; Provisional.
Length = 215
Score = 27.8 bits (62), Expect = 3.5
Identities = 6/22 (27%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 1 MKKHDSEFKDVRRIFVTTALPY 22
M E+ D+R++ +T + Y
Sbjct: 168 MDVAP-EYADIRQVESSTGVLY 188
>gnl|CDD|225324 COG2604, COG2604, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 594
Score = 28.5 bits (64), Expect = 3.6
Identities = 13/74 (17%), Positives = 29/74 (39%), Gaps = 7/74 (9%)
Query: 81 PKEFINNISSNRKKYLDGFY-----IKFDNWYSTDSIENIDLVQKIYDTLYNKAKLI--I 133
K FI I + IK +N + + + +Q+I + + +K++ + I
Sbjct: 457 NKPFIKLILLSNNSQEKAVLKLLQKIKKNNDFIKEFETDALKLQEILEKVDSKSEKLEKI 516
Query: 134 NKKINQFFDPIKNI 147
+ KI+ +
Sbjct: 517 SAKIDNIKELFDES 530
>gnl|CDD|216296 pfam01094, ANF_receptor, Receptor family ligand binding region.
This family includes extracellular ligand binding
domains of a wide range of receptors. This family also
includes the bacterial amino acid binding proteins of
known structure.
Length = 343
Score = 28.2 bits (63), Expect = 4.0
Identities = 7/38 (18%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 47 MQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEF 84
++ K+R V +C I+ A + G+ +
Sbjct: 171 LKDIKSKAR-VIVVCGSSDDLRQILRQARELGLMSGGY 207
>gnl|CDD|222085 pfam13377, Peripla_BP_3, Periplasmic binding protein-like domain.
Thi domain is found in a variety of transcriptional
regulatory proteins. It is related to bacterial
periplasmic binding proteins, although this domain is
unlikely to be found in the periplasm. This domain
likely acts to bind a small molecule ligand that the
DNA-binding domain responds to.
Length = 161
Score = 27.7 bits (62), Expect = 4.1
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 59 FICADDAHGAAIMIAAEKAGM 79
I A+D ++ A +AG+
Sbjct: 73 VIAANDELALGVLQALREAGL 93
>gnl|CDD|181342 PRK08271, PRK08271, anaerobic ribonucleoside triphosphate
reductase; Provisional.
Length = 623
Score = 27.7 bits (62), Expect = 5.6
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 11/48 (22%)
Query: 87 NISSNRKKYLDGFYIK--FDNWY----STDSIENIDLVQKIYDTLYNK 128
NIS Y D Y K F + ST + E+I +QK + +NK
Sbjct: 227 NIS-----YYDRNYFKAMFGGFVYPDGSTPNWEDIIALQKFFMEWFNK 269
>gnl|CDD|235073 PRK02813, PRK02813, putative aminopeptidase 2; Provisional.
Length = 428
Score = 27.5 bits (62), Expect = 6.6
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 62 ADDAHGAAIMI-AAEKAGMTPKEFINN 87
A DA AA+ EKAG+ +EF+N
Sbjct: 345 ATDAESAAVFKLLCEKAGVPYQEFVNR 371
>gnl|CDD|226496 COG4008, COG4008, Predicted metal-binding transcription factor
[Transcription].
Length = 153
Score = 26.8 bits (59), Expect = 6.9
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 70 IMIAAEKAGMTPKEFI 85
I A ++ G+TP+EFI
Sbjct: 31 IHEALKELGLTPEEFI 46
>gnl|CDD|227239 COG4902, COG4902, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 189
Score = 26.8 bits (59), Expect = 7.5
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 112 IENIDLVQKIYDTLYNKAKLIINKKINQ 139
E L + +Y LYNK L I + I
Sbjct: 58 REEEKLARDVYLYLYNKWNLPIFRNIAA 85
>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
Length = 368
Score = 27.1 bits (61), Expect = 8.1
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 9/40 (22%)
Query: 25 GELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADD 64
G +HIGH M + + W Q+ VY ADD
Sbjct: 77 GPMHIGHKMVFDEL-KW-----HQEFGAN---VYIPIADD 107
>gnl|CDD|173749 cd07855, STKc_ERK5, Catalytic domain of the Serine/Threonine
Kinase, Extracellular signal-Regulated Kinase 5.
Serine/Threonine Kinases (STKs), Extracellular
signal-Regulated Kinase 5 (ERK5) subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ERK5 subfamily is
part of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. MAPKs are
important mediators of cellular responses to
extracellular signals. ERK5, also called Big MAPK1
(BMK1) or MAPK7, has a unique C-terminal extension,
making it approximately twice as big as other MAPKs.
This extension contains transcriptional activation
capability which is inhibited by the N-terminal half.
ERK5 is activated in response to growth factors and
stress by a cascade that leads to its phosphorylation by
the MAP2K MEK5, which in turn is regulated by the MAP3Ks
MEKK2 and MEKK3. Activated ERK5 phosphorylates its
targets including myocyte enhancer factor 2 (MEF2),
Sap1a, c-Myc, and RSK. It plays a role in EGF-induced
cell proliferation during the G1/S phase transition.
Studies on knockout mice revealed that ERK5 is essential
for cardiovascular development and plays an important
role in angiogenesis. It is also critical for neural
differentiation and survival. The ERK5 pathway has been
implicated in the pathogenesis of many diseases
including cancer, cardiac hypertrophy, and
atherosclerosis.
Length = 334
Score = 26.9 bits (60), Expect = 9.4
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 78 GMTPKEFINNISSNR-KKYLDGFYIK----FDNWYSTDSIENIDLVQKI 121
G +E +N I S+R +KY+ K + + S E +DL+ ++
Sbjct: 229 GSPSEEVLNRIGSDRVRKYIQNLPRKQPVPWSKIFPKASPEALDLLSQM 277
>gnl|CDD|131515 TIGR02462, pyranose_ox, pyranose oxidase. Pyranose oxidase (also
called glucose 2-oxidase) converts D-glucose and
molecular oxygen to 2-dehydro-D-glucose and hydrogen
peroxide. Peroxide production is believed to be
important to the wood rot fungi in which this enzyme is
found for lignin degradation.
Length = 544
Score = 27.1 bits (60), Expect = 9.5
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 120 KIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRY 153
+D LY KA+ +I +QF + I++ + +
Sbjct: 148 AEWDRLYTKAESLIGTSTDQFDESIRHNLVLRKL 181
>gnl|CDD|107261 cd04509, PBP1_ABC_transporter_GCPR_C_like, Family C of G-protein
coupled receptors and their close homologs, the type I
periplasmic-binding proteins of ATP-binding cassette
transporter-like systems. This CD includes members of
the family C of G-protein coupled receptors and their
close homologs, the type I periplasmic-binding proteins
of ATP-binding cassette transporter-like systems. The
family C GPCR includes glutamate/glycine-gated ion
channels such as the NMDA receptor, G-protein-coupled
receptors, metabotropic glutamate, GABA-B, calcium
sensing, phermone receptors, and atrial natriuretic
peptide-guanylate cyclase receptors. The glutamate
receptors that form cation-selective ion channels,
iGluR, can be classified into three different subgroups
according to their binding-affinity for the agonists
NMDA (N-methyl-D-asparate), AMPA
(alpha-amino-3-dihydro-5-methyl-3-oxo-4-
isoxazolepropionic acid), and kainate. L-glutamate is a
major neurotransmitter in the brain of vertebrates and
acts through either mGluRs or iGluRs. mGluRs subunits
possess seven transmembrane segments and a large
N-terminal extracellular domain. ABC-type
leucine-isoleucine-valine-binding protein (LIVBP) is a
bacterial periplasmic binding protein that has homology
with the amino-terminal domain of the glutamate-receptor
ion channels (iGluRs). The extracellular regions of
iGluRs are made of two PBP-like domains in tandem, a
LIVBP-like domain that constitutes the N terminus -
which is included in this CD - followed by a domain
related to lysine-arginine-ornithine-binding protein
(LAOBP) that belongs to the type II periplasmic binding
fold protein superfamily. The uncharacterized
periplasmic components of various ABC-type transport
systems are included in this group.
Length = 299
Score = 26.7 bits (59), Expect = 10.0
Identities = 12/98 (12%), Positives = 26/98 (26%), Gaps = 9/98 (9%)
Query: 53 KSRQVYFICADDAHGAAIMIAAEKAGMTPK--------EFINNISSNRKKYLDGFYIKFD 104
V +C A I+ A +AG+T + + + +G
Sbjct: 190 AKPDVIVLCGSGEDAATILKQAAEAGLTGGYPILGITLGLSDVLLEAGGEAAEGVLTGT- 248
Query: 105 NWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFD 142
++ D + K + + +D
Sbjct: 249 PYFPGDPPPESFFFVRAAAREKKKYEDQPDYFAALAYD 286
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
0.325 0.141 0.443
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,987,134
Number of extensions: 1111041
Number of successful extensions: 1618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1592
Number of HSP's successfully gapped: 93
Length of query: 232
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 138
Effective length of database: 6,768,326
Effective search space: 934028988
Effective search space used: 934028988
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (25.8 bits)