RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780777|ref|YP_003065190.1| uridylate kinase [Candidatus
Liberibacter asiaticus str. psy62]
(242 letters)
>gnl|CDD|58620 cd04254, AAK_UMPK-PyrH-Ec, UMP kinase (UMPK)-Ec, the
microbial/chloroplast uridine monophosphate kinase
(uridylate kinase) enzyme that catalyzes UMP
phosphorylation and plays a key role in pyrimidine
nucleotide biosynthesis; regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinase of E.
coli (Ec) is known to function as a homohexamer, with
GTP and UTP being allosteric effectors. Like other
related enzymes (carbamate kinase, aspartokinase, and
N-acetylglutamate kinase) the E. coli and most bacterial
and chloroplast UMPKs (this CD) have a conserved,
N-terminal, lysine residue proposed to function in the
catalysis of the phosphoryl group transfer, whereas most
archaeal UMPKs appear to lack this residue and the
Pyrococcus furiosus structure has an additional Mg ion
bound to the ATP molecule which is proposed to function
as the catalysis instead. Members of this CD belong to
the Amino Acid Kinase Superfamily (AAK)..
Length = 231
Score = 295 bits (758), Expect = 5e-81
Identities = 127/234 (54%), Positives = 168/234 (71%), Gaps = 3/234 (1%)
Query: 7 KRVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVAE 66
KRVLLK+SGEALAG +GFG+D + +NRI +I EV G+E+ IVVGGGNIFRG+
Sbjct: 1 KRVLLKLSGEALAGENGFGIDPEVLNRIAREIKEVVDLGVEVAIVVGGGNIFRGASAAEA 60
Query: 67 NYLLCERSTVDSMGMLSTVINALALDLALRKINVPTVILSSIFMPQVCEVFSCRNAVSYL 126
+R+T D MGML+TVINALAL AL + V T ++S+I M V E + R A+ +L
Sbjct: 61 GM---DRATADYMGMLATVINALALQDALESLGVKTRVMSAIPMQGVAEPYIRRRAIRHL 117
Query: 127 SQGKVVIFSGGTGNAFLTTDSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDS 186
+G+VVIF+GGTGN F TTD+AAALRA EI ADVILK T+VDGVY ADP+ + ++ R+D
Sbjct: 118 EKGRVVIFAGGTGNPFFTTDTAAALRAIEINADVILKATKVDGVYDADPKKNPNAKRYDH 177
Query: 187 LTYNQFIEKGLKVMDCASVVLARDCSIPIIVFSIHSPGGIWGGLSGIGRSTIIS 240
LTY++ + KGLKVMD + L RD ++PI+VF+I+ PG + + G G T+IS
Sbjct: 178 LTYDEVLSKGLKVMDATAFTLCRDNNLPIVVFNINEPGNLLKAVKGEGVGTLIS 231
>gnl|CDD|30874 COG0528, PyrH, Uridylate kinase [Nucleotide transport and
metabolism].
Length = 238
Score = 269 bits (690), Expect = 4e-73
Identities = 123/237 (51%), Positives = 163/237 (68%), Gaps = 4/237 (1%)
Query: 6 YKRVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVA 65
Y R+LLK+SGEALAG GFG+D + ++RI +I E+ G+E+ +VVGGGNI RG A
Sbjct: 5 YMRILLKLSGEALAGEQGFGIDPEVLDRIANEIKELVDLGVEVAVVVGGGNIARGYIGAA 64
Query: 66 ENYLLCERSTVDSMGMLSTVINALALDLALRKINVPTVILSSIFMPQVCEVFSCRNAVSY 125
+R T D MGML+TV+NALAL AL ++ V T + S+I MPQV E +S R A+ +
Sbjct: 65 AGM---DRVTADYMGMLATVMNALALQDALERLGVDTRVQSAIAMPQVAEPYSRREAIRH 121
Query: 126 LSQGKVVIFSGGTGNAFLTTDSAAALRASEIGADVILKGT-QVDGVYSADPRVHASSTRF 184
L +G+VVIF GGTGN TTD+AAALRA EI ADV+LK T +VDGVY ADP+ + ++
Sbjct: 122 LEKGRVVIFGGGTGNPGFTTDTAAALRAEEIEADVLLKATNKVDGVYDADPKKDPDAKKY 181
Query: 185 DSLTYNQFIEKGLKVMDCASVVLARDCSIPIIVFSIHSPGGIWGGLSGIGRSTIISG 241
D+LTY++ ++ GLKVMD + LARD IPIIVF+I+ PG + L G TI+
Sbjct: 182 DTLTYDEVLKIGLKVMDPTAFSLARDNGIPIIVFNINKPGNLKRALKGEEVGTIVEP 238
>gnl|CDD|58605 cd04239, AAK_UMPK-like, AAK_UMPK-like: UMP kinase (UMPK)-like, the
microbial/chloroplast uridine monophosphate kinase
(uridylate kinase) enzyme that catalyzes UMP
phosphorylation and plays a key role in pyrimidine
nucleotide biosynthesis. Regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinases of E.
coli (Ec) and Pyrococcus furiosus (Pf) are known to
function as homohexamers, with GTP and UTP being
allosteric effectors. Like other related enzymes
(carbamate kinase, aspartokinase, and N-acetylglutamate
kinase) the E. coli and most bacterial UMPKs have a
conserved, N-terminal, lysine residue proposed to
function in the catalysis of the phosphoryl group
transfer, whereas most archaeal UMPKs appear to lack
this residue and the Pyrococcus furiosus structure has
an additional Mg ion bound to the ATP molecule which is
proposed to function as the catalysis instead. Also
included in this CD are the alpha and beta subunits of
the Mo storage protein (MosA and MosB) characterized as
an alpha4-beta4 octamer containing an ATP-dependent,
polynuclear molybdenum-oxide cluster. These and related
sequences in this CD are members of the Amino Acid
Kinase Superfamily (AAK)..
Length = 229
Score = 255 bits (653), Expect = 9e-69
Identities = 114/233 (48%), Positives = 155/233 (66%), Gaps = 4/233 (1%)
Query: 8 RVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVAEN 67
R++LK+SGEALAG G G+D + + I +I EV G+E+ IVVGGGNI RG A
Sbjct: 1 RIVLKLSGEALAG-EGGGIDPEVLKEIAREIKEVVDLGVEVAIVVGGGNIARGYIAAARG 59
Query: 68 YLLCERSTVDSMGMLSTVINALALDLALRKINVPTVILSSIFMPQVCEVFSCRNAVSYLS 127
R+T D +GML+TV+NALAL AL K+ V T ++S+I M V E + R A+ +L
Sbjct: 60 M---PRATADYIGMLATVMNALALQDALEKLGVKTRVMSAIPMQGVAEPYIRRRAIRHLE 116
Query: 128 QGKVVIFSGGTGNAFLTTDSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDSL 187
+G++VIF GGTGN TTD+AAALRA EIGADV+LK T VDGVY ADP+ + + ++D +
Sbjct: 117 KGRIVIFGGGTGNPGFTTDTAAALRAEEIGADVLLKATNVDGVYDADPKKNPDAKKYDRI 176
Query: 188 TYNQFIEKGLKVMDCASVVLARDCSIPIIVFSIHSPGGIWGGLSGIGRSTIIS 240
+Y++ ++KGLKVMD ++ L R IPIIVF+ PG + L G T+I
Sbjct: 177 SYDELLKKGLKVMDATALTLCRRNKIPIIVFNGLKPGNLLRALKGEHVGTLIE 229
>gnl|CDD|144336 pfam00696, AA_kinase, Amino acid kinase family. This family
includes kinases that phosphorylate a variety of amino
acid substrates, as well as uridylate kinase and
carbamate kinase. This family includes: Aspartokinase
EC:2.7.2.4. Acetylglutamate kinase EC:2.7.2.8. Glutamate
5-kinase EC:2.7.2.11. Uridylate kinase EC:2.7.4.-.
Carbamate kinase EC:2.7.2.2.
Length = 230
Score = 95.9 bits (239), Expect = 9e-21
Identities = 64/237 (27%), Positives = 108/237 (45%), Gaps = 31/237 (13%)
Query: 7 KRVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVAE 66
KR+++K+ G +L D D++ RI +IA + GI++ +V GGG
Sbjct: 1 KRIVIKLGGSSLT-------DEDAIKRIAEEIALLSELGIKVVVVSGGGGFTDKLLAAYG 53
Query: 67 NYL-LCERSTVDSMGMLSTVINALALDL---ALRKINVPTV--ILSSIFMPQVCEVFSCR 120
+ R T + G++ A LD+ A ++ V +LS + V +
Sbjct: 54 IAEKIGLRVTAGATGLIIEAALAGLLDIVVSAGERLGARAVALLLSDGGIGAVRLDANDT 113
Query: 121 NAVS-YLSQGKVVIFSGGTGN---------AFLTTDSAAALRASEIGADVILKGTQVDGV 170
A+ L +G V + +G G ++D+ AAL A +GAD ++ T VDGV
Sbjct: 114 EAIKELLEEGVVPVITGFGGENDTGETTTLGRGSSDTLAALLAEALGADKLIILTDVDGV 173
Query: 171 YSADPRVHASSTRFDSLTYNQFIE--------KGLKVMDCASVVLARDCSIPIIVFS 219
Y+ADPR + L+Y++ E G+KV D A++ AR IP+++ +
Sbjct: 174 YTADPRKVPDAKLIPELSYDEAEELLAAGDGTGGMKVKDPAALKAARRGGIPVVIVN 230
>gnl|CDD|58619 cd04253, AAK_UMPK-PyrH-Pf, AAK_UMPK-PyrH-Pf: UMP kinase (UMPK)-Pf,
the mostly archaeal uridine monophosphate kinase
(uridylate kinase) enzymes that catalyze UMP
phosphorylation and play a key role in pyrimidine
nucleotide biosynthesis; regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinase of
Pyrococcus furiosus (Pf) is known to function as a
homohexamer, with GTP and UTP being allosteric
effectors. Like other related enzymes (carbamate kinase,
aspartokinase, and N-acetylglutamate kinase) the E. coli
and most bacterial UMPKs have a conserved, N-terminal,
lysine residue proposed to function in the catalysis of
the phosphoryl group transfer, whereas most archaeal
UMPKs (this CD) appear to lack this residue and the
Pyrococcus furiosus structure has an additional Mg ion
bound to the ATP molecule which is proposed to function
as the catalysis instead. Members of this CD belong to
the Amino Acid Kinase Superfamily (AAK)..
Length = 221
Score = 95.7 bits (238), Expect = 1e-20
Identities = 68/241 (28%), Positives = 106/241 (43%), Gaps = 30/241 (12%)
Query: 8 RVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVAEN 67
R+++ + G LA D D + A++ + G ++ +VVGGG + R VA
Sbjct: 1 RIVISLGGSVLAP----EKDADFIKEY-ANVLRKISDGHKVAVVVGGGRLAREYISVARK 55
Query: 68 YLLCERSTVDSMGMLSTVINALALDLALRKINVPTVILSSIFMPQVCEVFSCRNAVSYLS 127
E + +D +G+++T +NA L AL P S A+ +
Sbjct: 56 LGASE-AFLDEIGIMATRLNARLLIAALGDAYPPVPT-------------SYEEALEAMF 101
Query: 128 QGKVVIFSGGTGNAFLTTDSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDSL 187
GK+V+ GGT +TD+ AAL A +GAD+++ T VDGVYS DPR + +FD L
Sbjct: 102 TGKIVV-MGGTEPGQ-STDAVAALLAERLGADLLINATNVDGVYSKDPRKDPDAKKFDRL 159
Query: 188 TYNQFIE--------KGLKV-MDCASVVLARDCSIPIIVFSIHSPGGIWGGLSGIGRSTI 238
+ ++ I+ G D + + I IV P + L G TI
Sbjct: 160 SADELIDIVGKSSWKAGSNEPFDPLAAKIIERSGIKTIVVDGRDPENLERALKGEFVGTI 219
Query: 239 I 239
I
Sbjct: 220 I 220
>gnl|CDD|58599 cd02115, AAK, Amino Acid Kinases (AAK) superfamily, catalytic
domain; present in such enzymes like N-acetylglutamate
kinase (NAGK), carbamate kinase (CK), aspartokinase
(AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK).
The AAK superfamily includes kinases that phosphorylate
a variety of amino acid substrates. These kinases
catalyze the formation of phosphoric anhydrides,
generally with a carboxylate, and use ATP as the source
of the phosphoryl group; are involved in amino acid
biosynthesis. Some of these kinases control the process
via allosteric feed-back inhibition..
Length = 248
Score = 73.5 bits (180), Expect = 5e-14
Identities = 52/256 (20%), Positives = 93/256 (36%), Gaps = 34/256 (13%)
Query: 10 LLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVAENYL 69
++K G +++ + + + + ++ ++G + +V G G + L
Sbjct: 1 VIKFGGSSVS-------SEERLRNLARILVKLASEGGRVVVVHGAGPQITDELLAHGELL 53
Query: 70 LCERS------TVDSMGMLSTVINALALDLALRKINVPTVILS---------SIFMPQVC 114
R D++ + ++ L + AL + + V L +
Sbjct: 54 GYARGLRITDRETDALAAMGEGMSNLLIAAALEQHGIKAVPLDLTQAGFASPNQGHVGKI 113
Query: 115 EVFSCRNAVSYLSQGKVVIFSGGTG--------NAFLTTDSAAALRASEIGADVILKGTQ 166
S S L G + I SG G +DS AAL A+ + AD ++ T
Sbjct: 114 TKVSTDRLKSLLENGILPILSGFGGTDEKETGTLGRGGSDSTAALLAAALKADRLVILTD 173
Query: 167 VDGVYSADPRVHASSTRFDSLTY---NQFIEKGLKVMDCASVVLARDCSIPIIVFSIHSP 223
VDGVY+ADPR + LTY + G V+ + A IP+ + +
Sbjct: 174 VDGVYTADPRKVPDAKLLSELTYEEAAELAYAGAMVLKPKAADPAARAGIPVRIANT-EN 232
Query: 224 GGIWGGLSGIGRSTII 239
G + G T+I
Sbjct: 233 PGALALFTPDGGGTLI 248
>gnl|CDD|58612 cd04246, AAK_AK-DapG-like, AAK_AK-DapG-like: Amino Acid Kinase
Superfamily (AAK), AK-DapG-like; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
diaminopimelate-sensitive aspartokinase isoenzyme AKI
(DapG), a monofunctional enzymes found in Bacilli
(Bacillus subtilis 168), Clostridia, and Actinobacteria
bacterial species, as well as, the catalytic AK domain
of the lysine-sensitive aspartokinase isoenzyme AKII of
Bacillus subtilis 168, the lysine plus
threonine-sensitive aspartokinase of Corynebacterium
glutamicum, and related isoenzymes. In Bacillus
subtilis, the regulation of the diaminopimelate-lysine
biosynthetic pathway involves dual control by
diaminopimelate and lysine, effected through separate
diaminopimelate- and lysine-sensitive aspartokinase
isoenzymes. The role of the AKI isoenzyme is most likely
to provide a constant level of aspartyl-beta-phosphate
for the biosynthesis of diaminopimelate for
peptidoglycan synthesis and dipicolinate during
sporulation. The B. subtilis 168 AKII is induced by
methionine, and repressed and inhibited by lysine. In
Corynebacterium glutamicum and other various
Gram-positive bacteria, the DAP-lysine pathway is
feedback regulated by the concerted action of lysine and
threonine. Also included in this CD are the
aspartokinases of the extreme thermophile, Thermus
thermophilus HB27, the Gram-negative obligate
methylotroph, Methylophilus methylotrophus AS1, and
those single aspartokinase isoenzyme types found in
Pseudomonas, C. glutamicum, and Amycolatopsis
lactamdurans. The B. subtilis AKI is tetrameric
consisting of two alpha and two beta subunits; the alpha
(43 kD) and beta (17 kD) subunit formed by two in-phase
overlapping genes. The alpha subunit contains the AK
catalytic domain and two ACT domains. The beta subunit
contains two ACT domains. The B. subtilis 168 AKII
aspartokinase is also described as tetrameric consisting
of two alpha and two beta subunits. Some archeal
aspartokinases in this group lack recognizable ACT
domains..
Length = 239
Score = 70.9 bits (174), Expect = 3e-13
Identities = 37/113 (32%), Positives = 58/113 (51%), Gaps = 12/113 (10%)
Query: 124 SYLSQGKVVI---FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSAD 174
L +G VV+ F G + +TT D+ A A+ + AD T VDGVY+AD
Sbjct: 121 EALEEGDVVVVAGFQGVNEDGEITTLGRGGSDTTAVALAAALKADRCEIYTDVDGVYTAD 180
Query: 175 PRVHASSTRFDSLTYNQFIE---KGLKVMDCASVVLARDCSIPIIVFSIHSPG 224
PR+ + + D ++Y++ +E G KV+ SV LA+ ++P+ V S S
Sbjct: 181 PRIVPKARKLDVISYDEMLEMASLGAKVLHPRSVELAKKYNVPLRVRSSFSEN 233
>gnl|CDD|58627 cd04261, AAK_AKii-LysC-BS, AAK_AKii-LysC-BS: Amino Acid Kinase
Superfamily (AAK), AKii; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the
lysine-sensitive aspartokinase isoenzyme AKII of
Bacillus subtilis 168, and the lysine plus
threonine-sensitive aspartokinase of Corynebacterium
glutamicum, and related sequences. In B. subtilis 168,
the regulation of the diaminopimelate (Dap)-lysine
biosynthetic pathway involves dual control by Dap and
lysine, effected through separate Dap- and
lysine-sensitive aspartokinase isoenzymes. The B.
subtilis 168 AKII is induced by methionine, and
repressed and inhibited by lysine. Although
Corynebacterium glutamicum is known to contain a single
aspartokinase isoenzyme type, both the succinylase and
dehydrogenase variant pathways of DAP-lysine synthesis
operate simultaneously in this organism. In this
organism and other various Gram-positive bacteria, the
DAP-lysine pathway is feedback regulated by the
concerted action of lysine and theronine. Also included
in this CD are the aspartokinases of the extreme
thermophile, Thermus thermophilus HB27, the
Gram-negative obligate methylotroph, Methylophilus
methylotrophus AS1, and those single aspartokinases
found in Pseudomons, C. glutamicum, and Amycolatopsis
lactamdurans. B. subtilis 168 AKII, and the C.
glutamicum, Streptomyces clavuligerus and A.
lactamdurans aspartokinases are described as tetramers
consisting of two alpha and two beta subunits; the alpha
(44 kD) and beta (18 kD) subunits formed by two in-phase
overlapping polypeptides..
Length = 239
Score = 68.6 bits (168), Expect = 1e-12
Identities = 39/113 (34%), Positives = 59/113 (52%), Gaps = 12/113 (10%)
Query: 124 SYLSQGKVVI---FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSAD 174
L +G VVI F G + +TT D++A A+ +GAD T VDGVY+AD
Sbjct: 121 ELLEEGDVVIVAGFQGINEDGDITTLGRGGSDTSAVALAAALGADRCEIYTDVDGVYTAD 180
Query: 175 PRVHASSTRFDSLTYNQFIE---KGLKVMDCASVVLARDCSIPIIVFSIHSPG 224
PR+ + + D ++Y++ +E G KV+ SV LA+ +P+ V S S
Sbjct: 181 PRIVPKARKLDEISYDEMLEMASLGAKVLHPRSVELAKKYGVPLRVLSSFSEE 233
>gnl|CDD|30873 COG0527, LysC, Aspartokinases [Amino acid transport and
metabolism].
Length = 447
Score = 59.2 bits (143), Expect = 1e-09
Identities = 37/126 (29%), Positives = 61/126 (48%), Gaps = 12/126 (9%)
Query: 112 QVCEVFSCRNAVSYLSQGKVVI---FSGGTGNAFLTT------DSAAALRASEIGADVIL 162
++ + S R + L +GKV + F G + TT D +AA A+ +GAD +
Sbjct: 157 RILDEDSERRLLRLLEEGKVPVVAGFQGINEDGETTTLGRGGSDYSAAALAAALGADEVE 216
Query: 163 KGTQVDGVYSADPRVHASSTRFDSLTYNQFIE---KGLKVMDCASVVLARDCSIPIIVFS 219
T VDGVY+ADPR+ + ++Y + +E G KV+ +V A IP+ + +
Sbjct: 217 IWTDVDGVYTADPRIVPDARLLPEISYEEALELAYLGAKVLHPRAVEPAMRSGIPLRIKN 276
Query: 220 IHSPGG 225
+P
Sbjct: 277 TFNPDA 282
>gnl|CDD|58600 cd04234, AAK_AK, AAK_AK: Amino Acid Kinase Superfamily (AAK),
Aspartokinase (AK); this CD includes the N-terminal
catalytic domain of aspartokinase
(4-L-aspartate-4-phosphotransferase;). AK is the first
enzyme in the biosynthetic pathway of the aspartate
family of amino acids (lysine, threonine, methionine,
and isoleucine) and the bacterial cell wall component,
meso-diaminopimelate. It also catalyzes the conversion
of aspartate and ATP to aspartylphosphate and ADP. One
mechanism for the regulation of this pathway is by the
production of several isoenzymes of aspartokinase with
different repressors and allosteric inhibitors. Pairs of
ACT domains are proposed to specifically bind amino
acids leading to allosteric regulation of the enzyme. In
Escherichia coli, three different aspartokinase
isoenzymes are regulated specifically by lysine,
methionine, and threonine. AK-HSDHI (ThrA) and AK-HSDHII
(MetL) are bifunctional enzymes that consist of an
N-terminal AK and a C-terminal homoserine dehydrogenase
(HSDH). ThrA and MetL are involved in threonine and
methionine biosynthesis, respectively. The third
isoenzyme, AKIII (LysC), is monofunctional and is
involved in lysine synthesis. The three Bacillus
subtilis isoenzymes, AKI (DapG), AKII (LysC), and AKIII
(YclM), are feedback-inhibited by meso-diaminopimelate,
lysine, and lysine plus threonine, respectively. The E.
coli lysine-sensitive AK is described as a homodimer,
whereas, the B. subtilis lysine-sensitive AK is
described as a heterodimeric complex of alpha- and beta-
subunits that are formed from two in-frame overlapping
genes. A single AK enzyme type has been described in
Pseudomonas, Amycolatopsis, and Corynebacterium. The
fungal aspartate pathway is regulated at the AK step,
with L-Thr being an allosteric inhibitor of the
Saccharomyces cerevisiae AK (Hom3). At least two
distinct AK isoenzymes can occur in higher plants, one
is a monofunctional lysine-sensitive isoenzyme, which is
involved in the overall regulation of the pathway and
can be synergistically inhibited by
S-adenosylmethionine. The other isoenzyme is a
bifunctional, threonine-sensitive AK-HSDH protein. Also
included in this CD is the catalytic domain of the
Methylomicrobium alcaliphilum ectoine AK, the first
enzyme of the ectoine biosynthetic pathway, found in
this bacterium, and several other
halophilic/halotolerant bacteria..
Length = 227
Score = 58.6 bits (142), Expect = 2e-09
Identities = 36/109 (33%), Positives = 57/109 (52%), Gaps = 12/109 (11%)
Query: 127 SQGKVVI---FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSADPRV 177
GKV + F G + +TT D +AA A+ +GAD + T VDG+Y+ADPR+
Sbjct: 111 EIGKVPVVTGFIGRNEDGEITTLGRGGSDYSAAALAAALGADEVEIWTDVDGIYTADPRI 170
Query: 178 HASSTRFDSLTYNQFIE---KGLKVMDCASVVLARDCSIPIIVFSIHSP 223
+ ++Y++ +E G KV+ +V AR +IPI V + +P
Sbjct: 171 VPEARLIPEISYDEALELAYFGAKVLHPRAVEPARKANIPIRVKNTFNP 219
>gnl|CDD|58626 cd04260, AAK_AKi-DapG-BS, AAK_AKi-DapG-BS: Amino Acid Kinase
Superfamily (AAK), AKi-DapG; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
diaminopimelate-sensitive aspartokinase isoenzyme AKI
(DapG), a monofunctional class enzyme found in Bacilli
(Bacillus subtilis 168), Clostridia, and Actinobacteria
bacterial species. In Bacillus subtilis, the regulation
of the diaminopimelate-lysine biosynthetic pathway
involves dual control by diaminopimelate and lysine,
effected through separate diaminopimelate- and
lysine-sensitive aspartokinase isoenzymes. AKI activity
is invariant during the exponential and stationary
phases of growth and is not altered by addition of amino
acids to the growth medium. The role of this isoenzyme
is most likely to provide a constant level of
aspartyl-beta-phosphate for the biosynthesis of
diaminopimelate for peptidoglycan synthesis and
dipicolinate during sporulation. The B. subtilis AKI is
tetrameric consisting of two alpha and two beta
subunits; the alpha (43 kD) and beta (17 kD) subunit
formed by two in-phase overlapping genes. The alpha
subunit contains the AK catalytic domain and two ACT
domains. The beta subunit contains two ACT domains..
Length = 244
Score = 53.4 bits (128), Expect = 6e-08
Identities = 37/112 (33%), Positives = 58/112 (51%), Gaps = 12/112 (10%)
Query: 124 SYLSQGKVVI---FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSAD 174
S L +G VV+ F G T + +TT D+ AA + + A+ + T VDG+ +AD
Sbjct: 126 SALKEGDVVVVAGFQGVTEDGEVTTLGRGGSDTTAAALGAALNAEYVEIYTDVDGIMTAD 185
Query: 175 PRVHASSTRFDSLTYN---QFIEKGLKVMDCASVVLARDCSIPIIVFSIHSP 223
PRV ++ D ++YN Q +G KV+ +V +A +IPI + S S
Sbjct: 186 PRVVPNARILDVVSYNEVFQMAHQGAKVIHPRAVEIAMQANIPIRIRSTMSE 237
>gnl|CDD|58609 cd04243, AAK_AK-HSDH-like, AAK_AK-HSDH-like: Amino Acid Kinase
Superfamily (AAK), AK-HSDH-like; this family includes
the N-terminal catalytic domain of aspartokinase (AK) of
the bifunctional enzyme AK- homoserine dehydrogenase
(HSDH). These aspartokinases are found in such bacteria
as E. coli (AKI-HSDHI, ThrA and AKII-HSDHII, MetL) and
in higher plants (Z. mays AK-HSDH). AK and HSDH are the
first and third enzymes in the biosynthetic pathway of
the aspartate family of amino acids. AK catalyzes the
phosphorylation of Asp to P-aspartyl phosphate. HSDH
catalyzes the NADPH-dependent conversion of Asp
3-semialdehyde to homoserine. ThrA and MetL are involved
in threonine and methionine biosynthesis, respectively.
In E. coli, ThrA is subject to allosteric regulation by
the end product L-threonine and the native enzyme is
reported to be tetrameric. As with bacteria, plant AK
and HSDH are feedback inhibited by pathway end products.
Maize AK-HSDH is a Thr-sensitive 180-kD enzyme.
Arabidopsis AK-HSDH is an alanine-activated,
threonine-sensitive enzyme whose ACT domains, located
C-terminal to the AK catalytic domain, were shown to be
involved in allosteric activation. Also included in this
CD is the catalytic domain of the aspartokinase (AK) of
the lysine-sensitive aspartokinase isoenzyme AKIII, a
monofunctional class enzyme (LysC) found in some
bacteria such as E. coli. In E. coli, LysC is reported
to be a homodimer of 50 kD subunits. Also included in
this CD is the catalytic domain of aspartokinase (AK)
of the bifunctional enzyme AK - DAP decarboxylase
(DapDC) found in some bacteria. DapDC, which is the lysA
gene product, catalyzes the decarboxylation of DAP to
lysine..
Length = 293
Score = 49.8 bits (119), Expect = 7e-07
Identities = 34/109 (31%), Positives = 54/109 (49%), Gaps = 12/109 (11%)
Query: 127 SQGKVVI---FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSADPRV 177
GKVV+ F + TT D +AAL A+ + A+ + T VDGVY+ADPR
Sbjct: 177 EHGKVVVTQGFIASNEDGETTTLGRGGSDYSAALLAALLDAEEVEIWTDVDGVYTADPRK 236
Query: 178 HASSTRFDSLTYNQFIEK---GLKVMDCASVVLARDCSIPIIVFSIHSP 223
+ L+Y++ +E G KV+ ++ A +IPI + + +P
Sbjct: 237 VPDARLLKELSYDEAMELAYFGAKVLHPRTIQPAIRKNIPIFIKNTFNP 285
>gnl|CDD|58624 cd04258, AAK_AKiii-LysC-EC, AAK_AKiii-LysC-EC: Amino Acid Kinase
Superfamily (AAK), AKiii-LysC-EC: this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is
a monofunctional class enzyme (LysC) found in some
bacteria such as E. coli. Aspartokinase is the first
enzyme in the aspartate metabolic pathway and catalyzes
the conversion of aspartate and ATP to aspartylphosphate
and ADP. In E. coli, LysC is reported to be a homodimer
of 50 kD subunits..
Length = 292
Score = 49.5 bits (118), Expect = 8e-07
Identities = 44/168 (26%), Positives = 76/168 (45%), Gaps = 22/168 (13%)
Query: 82 LSTVINALAL---DLALRKINVPTVILS-SIF---MPQVCEVF-SCRNAVSYLSQGKVVI 133
+S+++ + AL + +V TV+ + S F P + + + L G VV+
Sbjct: 123 MSSLLFSEALREQGVPAEWFDVRTVLRTDSRFGRAAPDLNALAELAAKLLKPLLAGTVVV 182
Query: 134 ---FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRF 184
F G T TT D +AAL A + A+ + T V G+Y+ DPR+ ++
Sbjct: 183 TQGFIGSTEKGRTTTLGRGGSDYSAALLAEALHAEELQIWTDVAGIYTTDPRICPAARAI 242
Query: 185 DSLTYNQFIEK---GLKVMDCASVVLARDCSIPIIVFSIHSP--GGIW 227
+++ + E G KV+ A+++ A +IP+ V S P GG
Sbjct: 243 KEISFAEAAEMATFGAKVLHPATLLPAIRKNIPVFVGSSKDPEAGGTL 290
>gnl|CDD|58623 cd04257, AAK_AK-HSDH, AAK_AK-HSDH: Amino Acid Kinase Superfamily
(AAK), AK-HSDH; this CD includes the N-terminal
catalytic domain of aspartokinase (AK) of the
bifunctional enzyme AK - homoserine dehydrogenase
(HSDH). These aspartokinases are found in bacteria (E.
coli AKI-HSDHI, ThrA and E. coli AKII-HSDHII, MetL) and
higher plants (Z. mays AK-HSDH). AK and HSDH are the
first and third enzymes in the biosynthetic pathway of
the aspartate family of amino acids. AK catalyzes the
phosphorylation of Asp to P-aspartyl phosphate. HSDH
catalyzes the NADPH-dependent conversion of Asp
3-semialdehyde to homoserine. ThrA and MetL are involved
in threonine and methionine biosynthesis, respectively.
In E. coli, ThrA is subject to allosteric regulation by
the end product L-threonine and the native enzyme is
reported to be tetrameric. As with bacteria, plant AK
and HSDH are feedback inhibited by pathway end products.
Maize AK-HSDH is a Thr-sensitive 180-kD enzyme.
Arabidopsis AK-HSDH is an alanine-activated,
threonine-sensitive enzyme whose ACT domains, located
C-terminal to the AK catalytic domain, were shown to be
involved in allosteric activation..
Length = 294
Score = 47.5 bits (113), Expect = 4e-06
Identities = 35/111 (31%), Positives = 55/111 (49%), Gaps = 12/111 (10%)
Query: 125 YLSQGKVVI---FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSADP 175
+ S GKV++ F TT D +AA+ A+ + AD + T VDGVYSADP
Sbjct: 176 FSSNGKVIVVTGFIASNPQGETTTLGRNGSDYSAAILAALLDADQVEIWTDVDGVYSADP 235
Query: 176 RVHASSTRFDSLTYNQFIEK---GLKVMDCASVVLARDCSIPIIVFSIHSP 223
R + SL+Y + +E G KV+ ++ +IPI++ + +P
Sbjct: 236 RKVKDARLLPSLSYQEAMELSYFGAKVLHPKTIQPVAKKNIPILIKNTFNP 286
>gnl|CDD|58610 cd04244, AAK_AK-LysC-like, AAK_AK-LysC-like: Amino Acid Kinase
Superfamily (AAK), AK-LysC-like; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
lysine-sensitive AK isoenzyme found in higher plants.
The lysine-sensitive AK isoenzyme is a monofunctional
protein. It is involved in the overall regulation of the
aspartate pathway and can be synergistically inhibited
by S-adenosylmethionine. Also included in this CD is an
uncharacterized LysC-like AK found in Euryarchaeota and
some bacteria. AK catalyzes the conversion of aspartate
and ATP to aspartylphosphate and ADP..
Length = 298
Score = 45.3 bits (107), Expect = 1e-05
Identities = 30/99 (30%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 134 FSGGTGNAFLTT------DSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDSL 187
F G T + +TT D +A + + + AD I VDGV +ADPR+ + L
Sbjct: 192 FIGATEDGAITTLGRGGSDYSATIIGAALDADEIWIWKDVDGVMTADPRIVPEARTIPRL 251
Query: 188 TYNQFIEK---GLKVMDCASVVLARDCSIPIIVFSIHSP 223
+Y + +E G KV+ +V A + IP+ V + +P
Sbjct: 252 SYAEAMELAYFGAKVLHPRTVEPAMEKGIPVRVKNTFNP 290
>gnl|CDD|58611 cd04245, AAK_AKiii-YclM-BS, AAK_AKiii-YclM-BS: Amino Acid Kinase
Superfamily (AAK), AKiii-YclM-BS; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
lysine plus threonine-sensitive aspartokinase isoenzyme
AKIII, a monofunctional class enzyme found in Bacilli
(Bacillus subtilis YclM) and Clostridia species.
Aspartokinase is the first enzyme in the aspartate
metabolic pathway and catalyzes the conversion of
aspartate and ATP to aspartylphosphate and ADP. In
Bacillus subtilis (BS), YclM is reported to be a single
polypeptide of 50 kD. The Bacillus subtilis 168 AKIII is
induced by lysine and repressed by threonine, and it is
synergistically inhibited by lysine and threonine..
Length = 288
Score = 44.5 bits (105), Expect = 2e-05
Identities = 29/102 (28%), Positives = 47/102 (46%), Gaps = 9/102 (8%)
Query: 125 YLSQGKVVIFSGGTGNAFLTTDSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRF 184
Y G + FS G +D A+ A AD+ T VDG+Y+A+PR+ A+
Sbjct: 185 YSKNGDIKTFSRGG------SDITGAILARGFQADLYENFTDVDGIYAANPRIVANPKPI 238
Query: 185 DSLTYNQFIE---KGLKVMDCASVVLARDCSIPIIVFSIHSP 223
+TY + E G V +++ A + IPI + + + P
Sbjct: 239 SEMTYREMRELSYAGFSVFHDEALIPAIEAGIPINIKNTNHP 280
>gnl|CDD|35677 KOG0456, KOG0456, KOG0456, Aspartate kinase [Amino acid transport
and metabolism].
Length = 559
Score = 43.1 bits (101), Expect = 8e-05
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 3/84 (3%)
Query: 145 TDSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDSLTYNQFIE---KGLKVMD 201
+D A +G D I VDGV + DPR++ + LT+++ E G +V+
Sbjct: 285 SDLTATTIGKALGLDEIQVWKDVDGVLTCDPRIYPGARLVPYLTFDEAAELAYFGAQVLH 344
Query: 202 CASVVLARDCSIPIIVFSIHSPGG 225
S+ AR+ IP+ V + ++P
Sbjct: 345 PFSMRPAREGRIPVRVKNSYNPTA 368
>gnl|CDD|58625 cd04259, AAK_AK-DapDC, AAK_AK-DapDC: Amino Acid Kinase Superfamily
(AAK), AK-DapDC; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the bifunctional
enzyme AK - DAP decarboxylase (DapDC) found in some
bacteria. Aspartokinase is the first enzyme in the
aspartate metabolic pathway, catalyzes the conversion of
aspartate and ATP to aspartylphosphate and ADP. DapDC,
which is the lysA gene product, catalyzes the
decarboxylation of DAP to lysine..
Length = 295
Score = 41.9 bits (98), Expect = 1e-04
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 145 TDSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDSLTYNQFIE---KGLKVMD 201
+D++AA A+++ A T V G+++A+P + L Y++ E G KV+
Sbjct: 206 SDTSAAYFAAKLQAARCEIWTDVPGLFTANPHEVPHARLLKRLDYDEAQEIATMGAKVLH 265
Query: 202 CASVVLARDCSIPIIVFSIHSP 223
+ AR +IP++V S P
Sbjct: 266 PRCIPPARRANIPMVVRSTERP 287
>gnl|CDD|30612 COG0263, ProB, Glutamate 5-kinase [Amino acid transport and
metabolism].
Length = 369
Score = 38.7 bits (90), Expect = 0.002
Identities = 42/193 (21%), Positives = 84/193 (43%), Gaps = 12/193 (6%)
Query: 5 PYKRVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVV 64
+R+++K+ +L +G G+D + + +A ++ G E+ ++V G I G +
Sbjct: 5 SARRIVVKIGSSSLTDGTG-GLDRSKLEELVRQVAALHKAGHEV-VLVSSGAIAAGRTRL 62
Query: 65 ---AENYLLCERSTVDSMGMLSTVINALALDLALRKINVPTVILSSIFMPQVCEVFSCRN 121
L E+ ++G ++ A I V ++L+ + RN
Sbjct: 63 GLPKRPKTLAEKQAAAAVGQ-VRLMQLYEELFARYGIKVGQILLTRDDFSDRRRYLNARN 121
Query: 122 AVSYLSQGKVV-IFSGGTGNA-----FLTTDSAAALRASEIGADVILKGTQVDGVYSADP 175
+S L + VV I + A F D+ +AL A +GAD+++ + +DG+Y A+P
Sbjct: 122 TLSALLELGVVPIINENDTVATEEIKFGDNDTLSALVAILVGADLLVLLSDIDGLYDANP 181
Query: 176 RVHASSTRFDSLT 188
R + + +
Sbjct: 182 RTNPDAKLIPEVE 194
>gnl|CDD|31796 COG1608, COG1608, Predicted archaeal kinase [General function
prediction only].
Length = 252
Score = 37.2 bits (86), Expect = 0.004
Identities = 55/255 (21%), Positives = 93/255 (36%), Gaps = 27/255 (10%)
Query: 9 VLLKVSGEALAGISGFG-VDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVAEN 67
++LK+ G + V D + RI +I+ E IVV GG F G E
Sbjct: 3 IILKLGGSVITDKDKPRTVREDRLRRIAREIS---NGKPEKLIVVHGGGSF-GHPAAKEF 58
Query: 68 YLLCERSTVDSMGMLSTVINALALDLALRKINVPTVILSSIFMPQVCEVFSCRNAVSY-- 125
L ++ + +G T + L L+ + + + + +P F+ R +Y
Sbjct: 59 GLEGLKNYLSPLGFSLTHLAMLELNSIVVDALLDAGVRAVSVVPISFSTFNGRILYTYLE 118
Query: 126 -----LSQGKV------VIFSGGTGNAFLTTDSAAALRASEIGADVILKGTQVDGVYSAD 174
L +G V V+ G ++ D A E+ D ++ T VDGVY D
Sbjct: 119 AIKDALEKGFVPVLYGDVVPDDDNGYEIISGDDIVLHLAKELKPDRVIFLTDVDGVYDRD 178
Query: 175 PRVHASSTRFDSLTYNQFIEK--------GLKVMDCASVVLARDCSIPIIVFSIHSPGGI 226
P + + + G+ A + +AR + +F+ + P I
Sbjct: 179 PGKVPDARLLSEIEGRVALGGSGGTDVTGGIAKKLEALLEIARYGK-EVYIFNGNKPENI 237
Query: 227 WGGLSGIGRSTIISG 241
+ L G T I G
Sbjct: 238 YRALRGENVGTRIDG 252
>gnl|CDD|58608 cd04242, AAK_G5K_ProB, AAK_G5K_ProB: Glutamate-5-kinase (G5K)
catalyzes glutamate-dependent ATP cleavage; G5K
transfers the terminal phosphoryl group of ATP to the
gamma-carboxyl group of glutamate, in the first and
controlling step of proline (and, in mammals, ornithine)
biosynthesis. G5K is subject to feedback allosteric
inhibition by proline or ornithine. In microorganisms
and plants, proline plays an important role as an
osmoprotectant and, in mammals, ornithine biosynthesis
is crucial for proper ammonia detoxification, since a
G5K mutation has been shown to cause human
hyperammonaemia. Microbial G5K generally consists of two
domains: a catalytic G5K domain and one PUA (pseudo
uridine synthases and archaeosine-specific
transglycosylases) domain, and some lack the PUA domain.
G5K requires free Mg for activity, it is tetrameric, and
it aggregates to higher forms in a proline-dependent
way. G5K lacking the PUA domain remains tetrameric,
active, and proline-inhibitable, but the Mg requirement
and the proline-triggered aggregation are greatly
diminished and abolished, respectively, and more proline
is needed for inhibition. Although plant and animal G5Ks
are part of a bifunctional polypeptide, delta
1-pyrroline-5-carboxylate synthetase (P5CS), composed of
an N-terminal G5K (ProB) and a C-terminal glutamyl 5-
phosphate reductase (G5PR; ProA); bacterial and yeast
G5Ks are monofunctional single-polypeptide enzymes. In
this CD, all three domain architectures are present:
G5K, G5K+PUA, and G5K+G5PR..
Length = 251
Score = 36.6 bits (85), Expect = 0.006
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 146 DSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFD 185
D +AL A + AD+++ + VDG+Y +PR + +
Sbjct: 145 DRLSALVAGLVNADLLILLSDVDGLYDKNPRENPDAKLIP 184
Score = 26.2 bits (58), Expect = 7.5
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 8 RVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVGG 54
R+++KV L G G+D+ + + IAE+ +G E+ +V G
Sbjct: 1 RIVVKVGSSLLTDEDG-GLDLGRLASLVEQIAELRNQGKEVILVSSG 46
>gnl|CDD|30895 COG0549, ArcC, Carbamate kinase [Amino acid transport and
metabolism].
Length = 312
Score = 36.4 bits (84), Expect = 0.007
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 13/59 (22%)
Query: 126 LSQGKVVIFSGGTG-------------NAFLTTDSAAALRASEIGADVILKGTQVDGVY 171
L G VVI +GG G A + D A+AL A +I AD+++ T VD VY
Sbjct: 181 LESGHVVIAAGGGGIPVVEEGAGLQGVEAVIDKDLASALLAEQIDADLLIILTDVDAVY 239
>gnl|CDD|58621 cd04255, AAK_UMPK-MosAB, AAK_UMPK-MosAB: This CD includes the alpha
and beta subunits of the Mo storage protein (MosA and
MosB) which are related to uridine monophosphate kinase
(UMPK) enzymes that catalyze the phosphorylation of UMP
by ATP, yielding UDP, and playing a key role in
pyrimidine nucleotide biosynthesis. The Mo storage
protein from the nitrogen-fixing bacterium, Azotobacter
vinelandii, is characterized as an alpha4-beta4 octamer
containing a polynuclear molybdenum-oxide cluster which
is ATP-dependent to bind Mo and pH-dependent to release
Mo. These and related bacterial sequences in this CD are
members of the Amino Acid Kinase Superfamily (AAK)..
Length = 262
Score = 36.4 bits (84), Expect = 0.007
Identities = 28/131 (21%), Positives = 51/131 (38%), Gaps = 16/131 (12%)
Query: 125 YLSQGKVVIFSGGTGNAFLT------------TDSAAALRASEIGADVILKGTQVDGVYS 172
+L G+ + SG TD A L A IGA ++ DG+Y+
Sbjct: 131 FLKAGRAPVISGMPPYGLWEHPAEEGRIPPHRTDVGAFLLAEVIGARNLIFVKDEDGLYT 190
Query: 173 ADPRVHASSTRFDSLTYNQFIEKGLK--VMD--CASVVLARDCSIPIIVFSIHSPGGIWG 228
ADP+ + + ++ + ++K L V++ ++ + + + PG +
Sbjct: 191 ADPKKNKKAEFIPEISAAELLKKDLDDLVLERPVLDLLQNARHVKEVQIVNGLVPGNLTR 250
Query: 229 GLSGIGRSTII 239
L G TII
Sbjct: 251 ALRGEHVGTII 261
>gnl|CDD|58601 cd04235, AAK_CK, AAK_CK: Carbamate kinase (CK) catalyzes both the
ATP-phosphorylation of carbamate and carbamoyl phosphate
(CP) utilization with the production of ATP from ADP and
CP. Both CK (this CD) and nonhomologous CP synthetase
synthesize carbamoyl phosphate, an essential precursor
of arginine and pyrimidine bases, in the presence of
ATP, bicarbonate, and ammonia. CK is a homodimer of 33
kDa subunits and is a member of the Amino Acid Kinase
Superfamily (AAK)..
Length = 308
Score = 35.9 bits (83), Expect = 0.012
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 13/59 (22%)
Query: 126 LSQGKVVIFSGGTG-------------NAFLTTDSAAALRASEIGADVILKGTQVDGVY 171
+ G +VI +GG G A + D A+AL A EI AD+++ T VD VY
Sbjct: 178 VDNGVIVIAAGGGGIPVVREGGGLKGVEAVIDKDLASALLAEEINADLLVILTDVDNVY 236
>gnl|CDD|58607 cd04241, AAK_FomA-like, AAK_FomA-like: This CD includes a
fosfomycin biosynthetic gene product, FomA, and similar
proteins found in a wide range of organisms. Together,
the fomA and fomB genes in the fosfomycin biosynthetic
gene cluster of Streptomyces wedmorensis confer
high-level fosfomycin resistance. FomA and FomB proteins
converted fosfomycin to fosfomycin monophosphate and
fosfomycin diphosphate in the presence of ATP and a
magnesium ion, indicating that FomA and FomB catalyzed
phosphorylations of fosfomycin and fosfomycin
monophosphate, respectively. FomA and related sequences
in this CD are members of the Amino Acid Kinase
Superfamily (AAK)..
Length = 252
Score = 35.2 bits (81), Expect = 0.016
Identities = 53/261 (20%), Positives = 94/261 (36%), Gaps = 38/261 (14%)
Query: 8 RVLLKVSGEALAGIS-GFGVDIDSVNRICADIAEVYAKGIEIGIVVGGGNIFRGSQVVAE 66
++LK+ G + + +++ RI ++AE A ++ +V GGG+ G E
Sbjct: 1 MIILKLGGSVITDKDRPETIREENLERIARELAE--AIDEKLVLVHGGGSF--GHPKAKE 56
Query: 67 NYLLCERSTVDSMGMLSTVINALALDL----ALRKINVPTVIL--SSIFMPQVCEVFSCR 120
L + + G+ T L L+ AL + VP V + SS F+ + + S
Sbjct: 57 YGLPDGDGSFSAEGVAETHEAMLELNSIVVDALLEAGVPAVSVPPSSFFVTENGRIVSFD 116
Query: 121 NAV--SYLSQGKV------VIFSGGTGNAFLTTDSAAALRASEIGADVILKGTQVDGVYS 172
V L +G V V+ G G L+ D A + + ++ T VDGVY
Sbjct: 117 LEVIKELLDRGFVPVLHGDVVLDEGGGITILSGDDIVVELAKALKPERVIFLTDVDGVYD 176
Query: 173 ADP-------RVHASSTRFDSLTYNQF-------IEKGLKVMDCASVVLARDCSIPIIVF 218
P + S + ++ + + I + +F
Sbjct: 177 KPPPDAKLIPEIDVGSLEDILAALGSAGTDVTGGMAGKIEEL-----LELARRGIEVYIF 231
Query: 219 SIHSPGGIWGGLSGIGRSTII 239
+ P ++ L G T I
Sbjct: 232 NGDKPENLYRALLGNFIGTRI 252
>gnl|CDD|58606 cd04240, AAK_UC, AAK_UC: Uncharacterized (UC) amino acid
kinase-like proteins found mainly in archaea and a few
bacteria. Sequences in this CD are members of the Amino
Acid Kinase (AAK) superfamily..
Length = 203
Score = 32.6 bits (74), Expect = 0.11
Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 144 TTDSAAALRASEIGADVILKGTQVDGVYSADPR----VHASSTRFDS 186
T+DS AA A ++GA ++ T VDG+Y D + + A+ ++
Sbjct: 115 TSDSIAAWLAKKLGAKRLVIVTDVDGIYEKDGKLVNEIAAAELLGET 161
>gnl|CDD|58622 cd04256, AAK_P5CS_ProBA, AAK_P5CS_ProBA: Glutamate-5-kinase (G5K)
domain of the bifunctional delta
1-pyrroline-5-carboxylate synthetase (P5CS), composed of
an N-terminal G5K (ProB) and a C-terminal glutamyl 5-
phosphate reductase (G5PR, ProA), the first and second
enzyme catalyzing proline (and, in mammals, ornithine)
biosynthesis. G5K transfers the terminal phosphoryl
group of ATP to the gamma-carboxyl group of glutamate,
and is subject to feedback allosteric inhibition by
proline or ornithine. In plants, proline plays an
important role as an osmoprotectant and, in mammals,
ornithine biosynthesis is crucial for proper ammonia
detoxification, since a G5K mutation has been shown to
cause human hyperammonaemia..
Length = 284
Score = 31.4 bits (71), Expect = 0.24
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 146 DSAAALRASEIGADVILKGTQVDGVYSADPR 176
DS AA A E+ AD+++ + VDG+Y P
Sbjct: 181 DSLAARLAVELKADLLILLSDVDGLYDGPPG 211
>gnl|CDD|58613 cd04247, AAK_AK-Hom3, AAK_AK-Hom3: Amino Acid Kinase Superfamily
(AAK), AK-Hom3; this CD includes the N-terminal
catalytic domain of the aspartokinase HOM3, a
monofunctional class enzyme found in Saccharomyces
cerevisiae and other related AK domains. Aspartokinase,
the first enzyme in the aspartate metabolic pathway,
catalyzes the conversion of aspartate and ATP to
aspartylphosphate and ADP, and in fungi, is responsible
for the production of threonine, isoleucine and
methionine. S. cerevisiae has a single aspartokinase
isoenzyme type, which is regulated by feedback,
allosteric inhibition by L-threonine. Recent studies
show that the allosteric transition triggered by binding
of threonine to AK involves a large change in the
conformation of the native hexameric enzyme that is
converted to an inactive one of different shape and
substantially smaller hydrodynamic size..
Length = 306
Score = 31.1 bits (70), Expect = 0.26
Identities = 17/44 (38%), Positives = 26/44 (59%)
Query: 145 TDSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDSLT 188
TD AAL A + AD + +VDG+++ADPR ++ S+T
Sbjct: 215 TDLCAALCAVGLNADELQIWKEVDGIFTADPRKVPTARLLPSIT 258
>gnl|CDD|32237 COG2054, COG2054, Uncharacterized archaeal kinase related to
aspartokinases, uridylate kinases [General function
prediction only].
Length = 212
Score = 30.7 bits (69), Expect = 0.34
Identities = 14/33 (42%), Positives = 22/33 (66%)
Query: 143 LTTDSAAALRASEIGADVILKGTQVDGVYSADP 175
+T+DS + A++ GA ++K T VDG+Y DP
Sbjct: 116 VTSDSISVWIAAKAGATEVVKATDVDGIYEEDP 148
>gnl|CDD|147361 pfam05141, DIT1_PvcA, Pyoverdine/dityrosine biosynthesis protein.
This family includes DIT1 that is involved in
synthesising dityrosine. Dityrosine is a
sporulation-specific component of the yeast ascospore
wall that is essential for the resistance of the spores
to adverse environmental conditions. Pseudomonas
aeruginosa PvcA is involved in the biosynthesis of
pyoverdine.
Length = 274
Score = 30.7 bits (70), Expect = 0.35
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 8/37 (21%)
Query: 15 GEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIV 51
E LA ++ +N +C I VY G +I IV
Sbjct: 37 AEELA--------LERLNGLCERIQAVYPPGAKITIV 65
>gnl|CDD|36369 KOG1154, KOG1154, KOG1154, Gamma-glutamyl kinase [Amino acid
transport and metabolism].
Length = 285
Score = 30.3 bits (68), Expect = 0.43
Identities = 14/30 (46%), Positives = 22/30 (73%)
Query: 146 DSAAALRASEIGADVILKGTQVDGVYSADP 175
DS AA+ A+EI AD+++ + VDG+Y+ P
Sbjct: 170 DSLAAILAAEIKADLLILLSDVDGLYTGPP 199
>gnl|CDD|145897 pfam02989, DUF228, Lyme disease proteins of unknown function.
Length = 184
Score = 28.0 bits (62), Expect = 2.5
Identities = 33/113 (29%), Positives = 46/113 (40%), Gaps = 8/113 (7%)
Query: 2 SDFPYKR-VLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVG--GGNIF 58
FPYKR V L V L +G G D+ V C DI E + I G +
Sbjct: 68 KGFPYKRGVKLVVKETELQVEAGGGDDLYGV---CVDIDEFSKTATVVPITNNFEGYLVA 124
Query: 59 RGSQVVAENYLLCERSTV--DSMGMLSTVINALALDLALRKINVPTVILSSIF 109
+ + A + L + V G T INA+AL AL N ++ ++F
Sbjct: 125 KNKSIKAGDKLDFNKDGVLEKVTGANKTTINAIALSDALEISNDVFLVKVAVF 177
>gnl|CDD|36660 KOG1447, KOG1447, KOG1447, GTP-specific succinyl-CoA synthetase,
beta subunit [Energy production and conversion].
Length = 412
Score = 27.7 bits (61), Expect = 2.8
Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 16/94 (17%)
Query: 128 QGKVVIFSGGTGNAFLTTDSAAALRASE--IGADVILKGTQVDGVYSADPRVHASSTRFD 185
+GK V +G G +T D L+ ++ IG + K T +GV + + A +
Sbjct: 73 RGKGVFNNGLKGGVHITKDKNVVLQLAKQMIGYRLATKQTPKEGV-KVNKVMVAEALDIS 131
Query: 186 SLTYNQFIEKGLKVMDCASVVLARDCSIPIIVFS 219
TY ++++ R+C+ P++V S
Sbjct: 132 RETY-------------LAILMDRECNGPVLVAS 152
>gnl|CDD|111283 pfam02374, ArsA_ATPase, Anion-transporting ATPase. This Pfam
family represents a conserved domain, which is sometimes
repeated, in an anion-transporting ATPase. The ATPase is
involved in the removal of arsenate, antimonite, and
arsenate from the cell.
Length = 304
Score = 26.9 bits (60), Expect = 4.5
Identities = 22/55 (40%), Positives = 26/55 (47%), Gaps = 10/55 (18%)
Query: 132 VIFSGGTGNAFLTTDSAA-ALRASEIGADVILKGTQVDGVYSADPRVHASSTRFD 185
IF GG G TT S A A+R SE G V+L S DP H+ S F+
Sbjct: 3 WIFFGGKGGVGKTTVSCATAVRLSEQGKKVLL--------VSTDP-AHSLSDSFN 48
>gnl|CDD|73214 cd00550, ArsA_ATPase, Oxyanion-translocating ATPase (ArsA). This
ATPase is involved in transport of arsenite, antimonite
or other oxyanions across biological membranes in all
three kingdoms of life. ArsA contains a highly
conserved AAA motif present in the AAA+ ATPase
superfamily associated with a variety of cellular
activities. To form a functional ATP-driven pump, ArsA
interacts with the permease ArsB, which is a
channel-forming integral membrane protein. One of the
most interesting features of ArsA is the allosteric
activation by its transport substrates. A divalent
cation, typically Mg2+, is required for its enzymatic
activity..
Length = 254
Score = 26.8 bits (59), Expect = 6.1
Identities = 17/35 (48%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 132 VIFSGGTGNAFLTTDSAA-ALRASEIGADVILKGT 165
IF GG G TT SAA A+R +E G V+L T
Sbjct: 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVST 36
>gnl|CDD|32379 COG2197, CitB, Response regulator containing a CheY-like receiver
domain and an HTH DNA-binding domain [Signal
transduction mechanisms / Transcription].
Length = 211
Score = 26.5 bits (58), Expect = 6.4
Identities = 26/98 (26%), Positives = 39/98 (39%), Gaps = 10/98 (10%)
Query: 90 ALDLALRKINVPTVILSSIFMPQVCEVFSCRNAVSYLSQGKVVIFSGGTGNAFLTTDSAA 149
ALDLA P V+L + MP + + + + + KVV+ + D A
Sbjct: 38 ALDLAREL--KPDVVLLDLSMPGMDGLEALKQLRARGPDIKVVVLTAH-------DDPAY 88
Query: 150 ALRASEIGAD-VILKGTQVDGVYSADPRVHASSTRFDS 186
+RA GAD +LK + + A V A T
Sbjct: 89 VIRALRAGADGYLLKDASPEELVEAIRAVAAGGTYLPP 126
>gnl|CDD|58617 cd04251, AAK_NAGK-UC, AAK_NAGK-UC: N-Acetyl-L-glutamate kinase -
uncharacterized (NAGK-UC). This domain is similar to
Escherichia coli and Pseudomonas aeruginosa NAGKs which
catalyze the phosphorylation of the gamma-COOH group of
N-acetyl-L-glutamate (NAG) by ATP in the second step of
microbial arginine biosynthesis. These uncharacterized
domain sequences are found in some bacteria (Deinococci
and Chloroflexi) and archea and belong to the Amino Acid
Kinase Superfamily (AAK)..
Length = 257
Score = 26.4 bits (58), Expect = 6.6
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 146 DSAAALRASEIGADVILKGTQVDGVYSADPRVHASSTRFDSLTYNQFIEKGLK 198
D AAA A+ + A+ ++ T V+G+Y D RV T D+ + + G+K
Sbjct: 167 DRAAAAIAAALKAERLILLTDVEGLY-LDGRVIERITVSDAESLLEKAGGGMK 218
>gnl|CDD|34452 COG4843, COG4843, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 179
Score = 26.4 bits (58), Expect = 8.1
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 16 EALAGISGFGVDIDSVNRICADIAEVYAKGIEIGIVVG 53
E + + G + +D+++ I IA YA G IGI+VG
Sbjct: 44 EMIVYVVGLSLVLDNLDNIANVIA--YAVGFGIGIIVG 79
>gnl|CDD|147169 pfam04869, Uso1_p115_head, Uso1 / p115 like vesicle tethering
protein, head region. Also known as General vesicular
transport factor, Transcytosis associated protein (TAP)
and Vesicle docking protein, this myosin-shaped molecule
consists of an N-terminal globular head region, a
coiled-coil tail which mediates dimerization, and a
short C-terminal acidic region. p115 tethers COP1
vesicles to the Golgi by binding the coiled coil
proteins giantin (on the vesicles) and GM130 (on the
Golgi), via its C-terminal acidic region. It is required
for intercisternal transport in the golgi stack. This
family consists of part of the head region. The head
region is highly conserved, but its function is unknown.
It does not seem to be essential for vesicle tethering.
The N-terminal part of the head region, not within this
family, contains context-detected
Armadillo/beta-catenin-like repeats (pfam00514).
Length = 306
Score = 26.1 bits (58), Expect = 8.4
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 97 KINVPTVILSSIFMPQVCEVFSCRNAVSYL 126
+ V +L+ + + F R A Y
Sbjct: 30 PVPVIVALLNWMLNENSVQPFDLRCAALYC 59
>gnl|CDD|143509 cd06842, PLPDE_III_Y4yA_like, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzyme Y4yA. This subfamily is composed
of the hypothetical Rhizobium sp. protein Y4yA and
similar uncharacterized bacterial proteins. These
proteins are homologous to eukaryotic ornithine
decarboxylase (ODC) and diaminopimelate decarboxylase
(DapDC). ODC and DapDC 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. ODC participates
in the formation of putrescine by catalyzing the
decarboxylation of ornithine, the first step in
polyamine biosynthesis. DapDC participates in the last
step of lysine biosynthesis, the conversion of
meso-2,6-diaminoheptanedioate to L-lysine. Proteins in
this subfamily may function as PLP-dependent
decarboxylases.
Length = 423
Score = 26.1 bits (58), Expect = 8.9
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 8 RVLLKVSGEALAGISGFGVDIDSVNRICADIAEVYAKGIEI 48
RVLL++S + S FG+ V +A+ + + +
Sbjct: 130 RVLLRLSPFPASLPSRFGMPAAEVRTALERLAQ-LRERVRL 169
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.138 0.395
Gapped
Lambda K H
0.267 0.0773 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,785,366
Number of extensions: 143973
Number of successful extensions: 500
Number of sequences better than 10.0: 1
Number of HSP's gapped: 482
Number of HSP's successfully gapped: 58
Length of query: 242
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,297,318
Effective search space: 648895018
Effective search space used: 648895018
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: 56 (25.3 bits)