RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 014523
(423 letters)
>gnl|CDD|177973 PLN02339, PLN02339, NAD+ synthase (glutamine-hydrolysing).
Length = 700
Score = 562 bits (1450), Expect = 0.0
Identities = 217/289 (75%), Positives = 243/289 (84%), Gaps = 3/289 (1%)
Query: 1 MNASGSHHQLRKLDYRIRAFISATHSRGGVYMYSNQQGCDGGRLYFDGCSCVVVNGDMIA 60
N SGSHHQLRKL+ R+ SATH GGVY+Y+NQ+GCDGGRLY+DGC+C+VVNG+++A
Sbjct: 196 SNGSGSHHQLRKLNTRLDLIRSATHKCGGVYLYANQRGCDGGRLYYDGCACIVVNGEVVA 255
Query: 61 QGSQFSLRDVEVVVAQVDLDAVAGFRGSISSFQEQASCKTKISSVAVQYSLCQPFNLKMS 120
QGSQFSL+DVEVV A VDLDAV FRGSISSF+EQAS K ++ SVAV + LC PF+L +
Sbjct: 256 QGSQFSLQDVEVVTACVDLDAVVSFRGSISSFREQASSKKRVPSVAVPFKLCPPFSLSLV 315
Query: 121 LSGPLKITYHSPEEEIAFGPGCWLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLV 180
S PLKI YHSPEEEIA GP CWLWDYLRRSGASGFLLPLSGGADSSSVAAIVG MCQLV
Sbjct: 316 PSSPLKIRYHSPEEEIALGPACWLWDYLRRSGASGFLLPLSGGADSSSVAAIVGSMCQLV 375
Query: 181 VKEIANGDEQVKADAIRIGRYANGEFPTESREFAKRIFYTVFMGSENSSQETRMRAKKLA 240
VK I GDEQVKADA RIG YA+GE PT+S+EFAKRIFYTV+MGSENSS+ETR RAK+LA
Sbjct: 376 VKAIREGDEQVKADARRIGNYADGEVPTDSKEFAKRIFYTVYMGSENSSEETRSRAKQLA 435
Query: 241 DEIGSWHLDVSIDTVVSAFLSLFQTLTGKRPRYKLDEVDMGMTYEELSV 289
DEIGS HLDV ID VVSA LSLFQTLTGKRPRYK VD G E L++
Sbjct: 436 DEIGSSHLDVKIDGVVSAVLSLFQTLTGKRPRYK---VDGGSNAENLAL 481
Score = 269 bits (689), Expect = 2e-83
Identities = 98/115 (85%), Positives = 103/115 (89%)
Query: 274 KLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 333
+ DE DMGMTYEEL VYGRLRKIF CGPVSMFKNLC+ W RL+PSEVA KVK FFKYYS
Sbjct: 584 QTDEEDMGMTYEELGVYGRLRKIFRCGPVSMFKNLCHEWNGRLSPSEVAAKVKDFFKYYS 643
Query: 334 INRHKMTVLTPSYHAESYSPEDNRFDLRQFLYNARWPYQFRKIDELVKELDGEKV 388
INRHKMT LTPSYHAESYSP+DNRFDLRQFLYN RWPYQFRKIDELV+ELDGE V
Sbjct: 644 INRHKMTTLTPSYHAESYSPDDNRFDLRQFLYNTRWPYQFRKIDELVEELDGETV 698
>gnl|CDD|238309 cd00553, NAD_synthase, NAD+ synthase is a homodimer, which
catalyzes the final step in de novo nicotinamide adenine
dinucleotide (NAD+) biosynthesis, an amide transfer from
either ammonia or glutamine to nicotinic acid adenine
dinucleotide (NaAD). The conversion of NaAD to NAD+
occurs via an NAD-adenylate intermediate and requires
ATP and Mg2+. The intemediate is subsequently cleaved
into NAD+ and AMP. In many prokaryotes, such as E. coli
, NAD synthetase consists of a single domain and is
strictly ammonia dependent. In contrast, eukaryotes and
other prokaryotes have an additional N-terminal
amidohydrolase domain that prefer glutamine,
Interestingly, NAD+ synthases in these prokaryotes, can
also utilize ammonia as an amide source .
Length = 248
Score = 107 bits (270), Expect = 7e-27
Identities = 46/139 (33%), Positives = 60/139 (43%), Gaps = 36/139 (25%)
Query: 131 SPEEEIAFGPGCWLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEIANGDEQ 190
EEI +L DYLR+SG G +L LSGG DS+ VAA+ G E
Sbjct: 1 EDLEEIINALVLFLRDYLRKSGFKGVVLGLSGGIDSALVAALAVRAL---------GREN 51
Query: 191 VKADAIRIGRYANGEFPTESREFAKRIFYTVFMGSENSSQETRMRAKKLADEIGSWHLDV 250
V +FM S SS+ETR AK+LA+ +G H+++
Sbjct: 52 V---------------------------LALFMPSRYSSEETREDAKELAEALGIEHVNI 84
Query: 251 SIDTVVSAFLSLFQTLTGK 269
ID V AFL+L G
Sbjct: 85 DIDPAVEAFLALLGESGGS 103
Score = 65.3 bits (160), Expect = 5e-12
Identities = 22/64 (34%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 276 DEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYSIN 335
DE ++GM YEEL + LR GP L P + E VK F+ Y N
Sbjct: 196 DEDELGMPYEELDQFLYLRLEGGLGP-----------EEILAPGIIEEVVKRVFRLYKKN 244
Query: 336 RHKM 339
HK
Sbjct: 245 EHKR 248
>gnl|CDD|143594 cd07570, GAT_Gln-NAD-synth, Glutamine aminotransferase (GAT,
glutaminase) domain of glutamine-dependent NAD
synthetases (class 7 and 8 nitrilases).
Glutamine-dependent NAD synthetases are bifunctional
enzymes, which have an N-terminal GAT domain and a
C-terminal NAD+ synthetase domain. The GAT domain is a
glutaminase (EC 3.5.1.2) which hydrolyses L-glutamine to
L-glutamate and ammonia. The ammonia is used by the NAD+
synthetase domain in the ATP-dependent amidation of
nicotinic acid adenine dinucleotide. Glutamine
aminotransferases are categorized depending on their
active site residues into different unrelated classes.
This class of GAT domain belongs to a larger nitrilase
superfamily comprised of nitrile- or amide-hydrolyzing
enzymes and amide-condensing enzymes, which depend on a
Glu-Lys-Cys catalytic triad. This superfamily has been
classified in the literature based on global and
structure based sequence analysis into thirteen
different enzyme classes (referred to as 1-13), this
subgroup corresponds to classes 7 and 8. Members of this
superfamily generally form homomeric complexes, the
basic building block of which is a homodimer.
Mycobacterium tuberculosis glutamine-dependent NAD+
synthetase forms a homooctamer.
Length = 261
Score = 91.8 bits (229), Expect = 4e-21
Identities = 33/97 (34%), Positives = 46/97 (47%), Gaps = 7/97 (7%)
Query: 2 NASGSHHQLRKLDYRIRAFISATHSRGGVYMYSNQQGCDGGRLYFDGCSCVVVN-GDMIA 60
N S S L K DYR S + G Y+Y N Q L FDG S + N G+++A
Sbjct: 168 NLSASPFHLGKQDYRRELVSSRSARTGLPYVYVN-QVGGQDDLVFDGGSFIADNDGELLA 226
Query: 61 QGSQFSLRDVEVVVAQVDLDAVAGFRGSISSFQEQAS 97
+ +F E +A VDLD + R SSF ++ +
Sbjct: 227 EAPRF-----EEDLADVDLDRLRSERRRNSSFLDEEA 258
>gnl|CDD|217093 pfam02540, NAD_synthase, NAD synthase. NAD synthase (EC:6.3.5.1)
is involved in the de novo synthesis of NAD and is
induced by stress factors such as heat shock and glucose
limitation.
Length = 242
Score = 56.6 bits (137), Expect = 3e-09
Identities = 37/122 (30%), Positives = 52/122 (42%), Gaps = 36/122 (29%)
Query: 143 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEIANGDEQVKADAIRIGRYA 202
+L DY+++SGA G +L LSGG DS A+V + + G E V A
Sbjct: 8 FLRDYVQKSGAKGVVLGLSGGIDS----AVVAYLAVKAL-----GKENVLA--------- 49
Query: 203 NGEFPTESREFAKRIFYTVFMGSENSSQETRMRAKKLADEIGSWHLDVSIDTVVSAFLSL 262
+ M S NSS+E A LA+ +G + + I +V AF L
Sbjct: 50 ------------------LIMPSINSSEEDVQDALALAENLGINYKTIDIKPIVRAFSQL 91
Query: 263 FQ 264
FQ
Sbjct: 92 FQ 93
Score = 30.4 bits (69), Expect = 1.4
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 13/64 (20%)
Query: 276 DEVDMGMTYEELSVY-GRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYSI 334
DE ++G+ Y+EL L ++ + L P+EV E+V
Sbjct: 187 DEDELGIPYDELDQILKGLEELKQSEEEIIDLGL---------PAEVVERV---ENLIQK 234
Query: 335 NRHK 338
+ HK
Sbjct: 235 SEHK 238
>gnl|CDD|237577 PRK13981, PRK13981, NAD synthetase; Provisional.
Length = 540
Score = 54.4 bits (132), Expect = 6e-08
Identities = 68/272 (25%), Positives = 96/272 (35%), Gaps = 98/272 (36%)
Query: 2 NASGSHHQLRKLDYRIRAFISATHSRGGVYM-YSNQQGCDGGR--LYFDGCSCVVVNGD- 57
+ S + K D R A + A G+ + Y NQ G G+ L FDG S V+N D
Sbjct: 167 VPNASPYHRGKPDLRE-AVLRARVRETGLPLVYLNQVG---GQDELVFDGAS-FVLNADG 221
Query: 58 -MIAQGSQFSLRDVEVVVAQVDLDAVA-GFRGSISSFQEQASCKTKISSVAVQYSLCQPF 115
+ A+ F E +A VD D G+R P
Sbjct: 222 ELAARLPAF-----EEQIAVVDFDRGEDGWR-------------------------PLPG 251
Query: 116 NLKMSLSGPLKITYHSPEEEIAFGPGCW------LWDYLRRSGASGFLLPLSGGADSSSV 169
+ G E E + L DY+R++G G +L LSGG DS+ V
Sbjct: 252 PIAPPPEG---------EAED------YRALVLGLRDYVRKNGFPGVVLGLSGGIDSALV 296
Query: 170 AAIVGCMCQLVVKEIANGDEQVKADAIRIGRYANGEFPTESREFAKRIFYTVFMGSENSS 229
AAI V A G E+V+A V M S +S
Sbjct: 297 AAI-------AVD--ALGAERVRA---------------------------VMMPSRYTS 320
Query: 230 QETRMRAKKLADEIGSWHLDVSIDTVVSAFLS 261
+E+ A LA +G + + I+ AF +
Sbjct: 321 EESLDDAAALAKNLGVRYDIIPIEPAFEAFEA 352
>gnl|CDD|233019 TIGR00552, nadE, NAD+ synthetase. NAD+ synthetase is a nearly
ubiquitous enzyme for the final step in the biosynthesis
of the essensial cofactor NAD. The member of this family
from Bacillus subtilis is a strictly NH(3)-dependent
NAD(+) synthetase of 272 amino acids. Proteins
consisting only of the domain modeled here may be named
as NH3-dependent NAD+ synthetase. Amidotransferase
activity may reside in a separate protein, or not be
present. Some other members of the family, such as from
Mycobacterium tuberculosis, are considerably longer,
contain an apparent amidotransferase domain, and show
glutamine-dependent as well as NH(3)-dependent activity
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pyridine nucleotides].
Length = 250
Score = 47.4 bits (113), Expect = 5e-06
Identities = 26/129 (20%), Positives = 50/129 (38%), Gaps = 36/129 (27%)
Query: 143 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEIANGDEQVKADAIRIGRYA 202
+L Y+++SGA G +L LSGG DS+ VAA+ V+A
Sbjct: 12 FLRGYVQKSGAKGVVLGLSGGIDSAVVAAL-----------------CVEA--------- 45
Query: 203 NGEFPTESREFAKRIFYTVFMGSENSSQETRMRAKKLADEIGSWHLDVSIDTVVSAFLSL 262
++ + S + ++ A LA+ +G + ++ I + ++F +
Sbjct: 46 ----------LGEQNHALLLPHSVQTPEQDVQDALALAEPLGINYKNIDIAPIAASFQAQ 95
Query: 263 FQTLTGKRP 271
+T
Sbjct: 96 TETGDELSD 104
>gnl|CDD|223249 COG0171, NadE, NAD synthase [Coenzyme metabolism].
Length = 268
Score = 46.1 bits (110), Expect = 1e-05
Identities = 29/133 (21%), Positives = 48/133 (36%), Gaps = 32/133 (24%)
Query: 143 WLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEIANGDEQVKADAIRIGRYA 202
+L DYL+++G G +L LSGG DS A+V + + +
Sbjct: 15 FLRDYLKKAGFKGVVLGLSGGIDS----ALVLALAVRALGK------------------- 51
Query: 203 NGEFPTESREFAKRIFYTVFMGSENSSQETRMRAKKLADEIGSWHLDVSIDTVVSAFLSL 262
+K V + + Q A+ LA+ +G + +++I V AFL
Sbjct: 52 ---------GDSKENVLAVRLPYGYTVQADEEDAQDLAEALGIDYKEINIKPAVDAFLKK 102
Query: 263 FQTLTGKRPRYKL 275
L L
Sbjct: 103 LLKLFLGIYLEDL 115
Score = 33.8 bits (78), Expect = 0.15
Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 19/64 (29%)
Query: 276 DEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYSIN 335
DE ++GM YEEL L + + E+ +K++ Y +
Sbjct: 206 DEAELGMPYEELDDI--LYGLLE--------------NGQEISEELVKKIERL---YKKS 246
Query: 336 RHKM 339
HK
Sbjct: 247 EHKR 250
>gnl|CDD|234831 PRK00768, nadE, NAD synthetase; Reviewed.
Length = 268
Score = 44.7 bits (107), Expect = 3e-05
Identities = 27/72 (37%), Positives = 39/72 (54%), Gaps = 15/72 (20%)
Query: 132 PEEEI----AFGPGCWLWDYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEI--A 185
PEEEI F L DYL++SG +L +SGG DS+ + G + QL V+E+
Sbjct: 18 PEEEIRRRVDF-----LKDYLKKSGLKSLVLGISGGQDST----LAGRLAQLAVEELRAE 68
Query: 186 NGDEQVKADAIR 197
GD+ + A+R
Sbjct: 69 TGDDDYQFIAVR 80
>gnl|CDD|184435 PRK13980, PRK13980, NAD synthetase; Provisional.
Length = 265
Score = 42.1 bits (100), Expect = 2e-04
Identities = 33/125 (26%), Positives = 48/125 (38%), Gaps = 36/125 (28%)
Query: 146 DYLRRSGASGFLLPLSGGADSSSVAAIVGCMCQLVVKEIANGDEQVKADAIRIGRYANGE 205
+ + ++GA G +L LSGG DS+ VA L VK A G E V A
Sbjct: 23 EEVEKAGAKGVVLGLSGGIDSAVVAY-------LAVK--ALGKENVLA------------ 61
Query: 206 FPTESREFAKRIFYTVFMGSENSSQETRMRAKKLADEIGSWHLDVSIDTVVSAFLSLFQT 265
+ M S S E A+ +A+++G + + I +V AF S
Sbjct: 62 ---------------LLMPSSVSPPEDLEDAELVAEDLGIEYKVIEITPIVDAFFSAIPD 106
Query: 266 LTGKR 270
R
Sbjct: 107 ADRLR 111
>gnl|CDD|223465 COG0388, COG0388, Predicted amidohydrolase [General function
prediction only].
Length = 274
Score = 41.7 bits (98), Expect = 4e-04
Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 29 GVYM-YSNQQGCDGGRLYFDGCSCVVV-NGDMIAQGSQFSLRDVEVVVAQVDLDAVAGFR 86
VY+ +N+ G DG L F G S ++ +G+++A+ + + V++A +DL +A R
Sbjct: 197 QVYVLAANRAGFDGAGLEFCGHSAIIDPDGEVLAEAGEE---EEGVLLADIDLAELAEVR 253
Query: 87 GSISSFQE 94
I ++
Sbjct: 254 RKIPVLKD 261
>gnl|CDD|236038 PRK07521, flgK, flagellar hook-associated protein FlgK; Validated.
Length = 483
Score = 39.5 bits (93), Expect = 0.003
Identities = 21/62 (33%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 41 GGRLYFDGCSCVVVNGD----MIAQGS---QFSLRDVEVVVAQVDLDAVAGFRGSISSFQ 93
G +Y DG V + G +A GS LRD Q LD +A RG I+ F
Sbjct: 249 GNAVYIDG---VPLTGGSGVMPLAGGSLAALLQLRDEIAPTYQAQLDEIA--RGLITRFA 303
Query: 94 EQ 95
E
Sbjct: 304 ES 305
>gnl|CDD|235057 PRK02628, nadE, NAD synthetase; Reviewed.
Length = 679
Score = 39.8 bits (94), Expect = 0.003
Identities = 28/96 (29%), Positives = 50/96 (52%), Gaps = 10/96 (10%)
Query: 2 NASGSHHQLRKLDYRIRAFISATHSRG-GVYMYSNQQGCDGGR----LYFDGCSCVVVNG 56
N S S+ + K DYR R +++ +R Y+Y+ G L +DG + + NG
Sbjct: 201 NLSASNITVGKADYR-RLLVASQSARCLAAYVYAA---AGVGESTTDLAWDGQTLIYENG 256
Query: 57 DMIAQGSQFSLRDVEVVVAQVDLDAVAGFRGSISSF 92
+++A+ +F R+ +++VA VDL+ + R SF
Sbjct: 257 ELLAESERFP-REEQLIVADVDLERLRQERLRNGSF 291
>gnl|CDD|185554 PTZ00323, PTZ00323, NAD+ synthase; Provisional.
Length = 294
Score = 35.5 bits (82), Expect = 0.038
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 7/43 (16%)
Query: 137 AFGPGCW-------LWDYLRRSGASGFLLPLSGGADSSSVAAI 172
AF P W L +Y+RR G G + +SGG DS+ V A+
Sbjct: 23 AFNPAAWIEKKCAKLNEYMRRCGLKGCVTSVSGGIDSAVVLAL 65
>gnl|CDD|143607 cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase
superfamily (putative class 13 nitrilases). The
nitrilase superfamily is comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13).
Class 13 represents proteins that at the time were
difficult to place in a distinct similarity group; this
subgroup represents either a new class or one that was
included previously in class 13. Members of this
superfamily generally form homomeric complexes, the
basic building block of which is a homodimer.
Length = 253
Score = 34.8 bits (81), Expect = 0.059
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 6/60 (10%)
Query: 35 NQQGCDGGRLYFDGCSCVV-VNGDMIAQGSQFSLRDVEVVVAQVDLDAVAGFRGSISSFQ 93
N+ G DGG + G S V+ G+++A+ + + E++ A++DL+ VA R I F+
Sbjct: 196 NRVGTDGGNEFG-GHSMVIDPWGEVLAEAGE----EEEILTAEIDLEEVAEVRKKIPVFK 250
>gnl|CDD|107331 cd06336, PBP1_ABC_ligand_binding_like_3, Type I periplasmic
ligand-binding domain of uncharacterized ABC (ATPase
Binding Cassette)-type active transport systems that are
predicted to be involved in transport of amino acids,
peptides, or inorganic ions. This group includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (ATPase Binding Cassette)-type
active transport systems that are predicted to be
involved in transport of amino acids, peptides, or
inorganic ions. Members of this group are
sequence-similar to members of the family of ABC-type
hydrophobic amino acid transporters (HAAT), such as
leucine-isoleucine-valine-binding protein (LIVBP);
however their ligand specificity has not been determined
experimentally.
Length = 347
Score = 34.6 bits (80), Expect = 0.088
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 5/66 (7%)
Query: 155 GFLLPLSGGADSSSVAAIVGCMCQLVVKEI-ANGDEQVKADA--IRIGRYANGEFPTESR 211
GF PLSG A + + + G QL +EI A G +V + I Y + P E+
Sbjct: 3 GFSGPLSGPAAAWGLPGLRG--VQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAA 60
Query: 212 EFAKRI 217
A+R+
Sbjct: 61 ANARRL 66
>gnl|CDD|143587 cd07197, nitrilase, Nitrilase superfamily, including nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes.
This superfamily (also known as the C-N hydrolase
superfamily) contains hydrolases that break
carbon-nitrogen bonds; it includes nitrilases, cyanide
dihydratases, aliphatic amidases, N-terminal amidases,
beta-ureidopropionases, biotinidases, pantotheinase,
N-carbamyl-D-amino acid amidohydrolases, the glutaminase
domain of glutamine-dependent NAD+ synthetase,
apolipoprotein N-acyltransferases, and
N-carbamoylputrescine amidohydrolases, among others.
These enzymes depend on a Glu-Lys-Cys catalytic triad,
and work through a thiol acylenzyme intermediate.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer. These oligomers include dimers, tetramers,
hexamers, octamers, tetradecamers, octadecamers, as well
as variable length helical arrangements and
homo-oligomeric spirals. These proteins have roles in
vitamin and co-enzyme metabolism, in detoxifying small
molecules, in the synthesis of signaling molecules, and
in the post-translational modification of proteins. They
are used industrially, as biocatalysts in the fine
chemical and pharmaceutical industry, in cyanide
remediation, and in the treatment of toxic effluent.
This superfamily has been classified previously in the
literature, based on global and structure-based sequence
analysis, into thirteen different enzyme classes
(referred to as 1-13). This hierarchy includes those
thirteen classes and a few additional subfamilies. A
putative distant relative, the plasmid-borne TraB
family, has not been included in the hierarchy.
Length = 253
Score = 34.2 bits (79), Expect = 0.089
Identities = 22/67 (32%), Positives = 39/67 (58%), Gaps = 7/67 (10%)
Query: 29 GVY-MYSNQQGCDGGRLYFDGCSCVVV-NGDMIAQGSQFSLRDVEVVVAQVDLDAVAGFR 86
GVY + +N+ G +GG L F G S +V +G+++A+ S + ++VA++DLD + R
Sbjct: 189 GVYVVAANRVGEEGG-LEFAGGSMIVDPDGEVLAEAS----EEEGILVAELDLDELREAR 243
Query: 87 GSISSFQ 93
S +
Sbjct: 244 KRWSYLR 250
>gnl|CDD|233454 TIGR01536, asn_synth_AEB, asparagine synthase
(glutamine-hydrolyzing). This model describes the
glutamine-hydrolysing asparagine synthase. A poorly
conserved C-terminal extension was removed from the
model. Bacterial members of the family tend to have a
long, poorly conserved insert lacking from archaeal and
eukaryotic sequences. Multiple isozymes have been
demonstrated, such as in Bacillus subtilis. Long-branch
members of the phylogenetic tree (which typically were
also second or third candidate members from their
genomes) were removed from the seed alignment and score
below trusted cutoff [Amino acid biosynthesis, Aspartate
family].
Length = 466
Score = 33.5 bits (77), Expect = 0.22
Identities = 20/102 (19%), Positives = 34/102 (33%), Gaps = 37/102 (36%)
Query: 160 LSGGADSSSVAAIVGCMCQLVVKEIANGDEQVKADAIRIGRYANGEFPTESREFAKRIFY 219
LSGG DSS VAAI + + +
Sbjct: 259 LSGGLDSSLVAAI--------------ARREAPRGPVHT--------------------F 284
Query: 220 TVFMGSENSSQETRMRAKKLADEIGSWH--LDVSIDTVVSAF 259
++ E+ A+K+AD +G+ H + S++ + A
Sbjct: 285 SIGFEGSPDFDESPY-ARKVADHLGTEHHEVLFSVEEGLDAL 325
>gnl|CDD|238949 cd01991, Asn_Synthase_B_C, The C-terminal domain of Asparagine
Synthase B. This domain is always found associated
n-terminal amidotransferase domain. Family members that
contain this domain catalyse the conversion of aspartate
to asparagine. Asparagine synthetase B catalyzes the
assembly of asparagine from aspartate, Mg(2+)ATP, and
glutamine. The three-dimensional architecture of the
N-terminal domain of asparagine synthetase B is similar
to that observed for glutamine
phosphoribosylpyrophosphate amidotransferase while the
molecular motif of the C-domain is reminiscent to that
observed for GMP synthetase .
Length = 269
Score = 31.6 bits (72), Expect = 0.57
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 11/60 (18%)
Query: 158 LPLSGGADSSSVAAIVGCMCQLVVKEIANGDEQVKADAIRIGRYANGEFPTESREFAKRI 217
+ LSGG DSS VAA+ E VK +I G + E +R A+ +
Sbjct: 20 VLLSGGLDSSLVAALAA----------RLLPEPVKTFSIGFGFEGSDEREY-ARRVAEHL 68
>gnl|CDD|217642 pfam03618, Kinase-PPPase, Kinase/pyrophosphorylase. This family of
regulatory proteins has ADP-dependent kinase and
inorganic phosphate-dependent pyrophosphorylase
activity.
Length = 255
Score = 30.9 bits (71), Expect = 1.0
Identities = 11/58 (18%), Positives = 24/58 (41%), Gaps = 11/58 (18%)
Query: 217 IFYTVFMGSENSSQETRMRAKKLADEIGSWHLDVSIDTVVSAFLSLFQTLTGKRPRYK 274
+FYT+ E R ++ A+ +G +D+ + L ++ G +P +
Sbjct: 56 VFYTLV------DPELREILEEFAEALGIPCVDL-----LGPLLEPLESELGIKPSPE 102
>gnl|CDD|107192 PHA02508, PHA02508, putative minor coat protein; Provisional.
Length = 93
Score = 29.1 bits (65), Expect = 1.3
Identities = 9/42 (21%), Positives = 16/42 (38%)
Query: 250 VSIDTVVSAFLSLFQTLTGKRPRYKLDEVDMGMTYEELSVYG 291
V +D V A L + + P + + +E LS+
Sbjct: 32 VGLDAAVDAALGAAKPMLAGLPAVAAAILAIAGVFEALSIIA 73
>gnl|CDD|143593 cd07569, DCase, N-carbamyl-D-amino acid amidohydrolase (DCase,
class 6 nitrilases). DCase hydrolyses
N-carbamyl-D-amino acids to produce D-amino acids. It is
an important biocatalyst in the pharmaceutical industry,
producing useful D-amino acids for example in the
preparation of beta-lactam antibiotics. This subgroup
belongs to a larger nitrilase superfamily comprised of
nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified in
the literature based on global and structure based
sequence analysis into thirteen different enzyme classes
(referred to as 1-13), this subgroup corresponds to
class 6. Members of this superfamily generally form
homomeric complexes, the basic building block of which
is a homodimer. Agrobacterium radiobacter DCase forms a
tetramer (dimer of dimers). Some DCases may form
trimers.
Length = 302
Score = 30.7 bits (70), Expect = 1.3
Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 48 GCSCVVV-NGDMIAQGSQFSLRDVEVVVAQVDLDAVAGFRGSISSF 92
G SC+V G+++AQ + +L D EV+VA DLD R ++ +F
Sbjct: 246 GGSCIVAPTGEIVAQAT--TLED-EVIVADCDLDLCREGRETVFNF 288
>gnl|CDD|224315 COG1397, DraG, ADP-ribosylglycohydrolase [Posttranslational
modification, protein turnover, chaperones].
Length = 314
Score = 30.4 bits (69), Expect = 1.5
Identities = 10/56 (17%), Positives = 21/56 (37%), Gaps = 8/56 (14%)
Query: 163 GADSSSVAAIVGCMCQLVVKEIANGDEQVKADAIRIGRYANGEFPTESREFAKRIF 218
G D+ ++AAI G + G+E + + + + + E A +
Sbjct: 266 GGDTDTIAAITGAIAG-----AYYGEEAIPQQLL---AELDEDLIGDLAELAYALA 313
>gnl|CDD|235419 PRK05339, PRK05339, PEP synthetase regulatory protein; Provisional.
Length = 269
Score = 30.1 bits (69), Expect = 1.8
Identities = 10/58 (17%), Positives = 22/58 (37%), Gaps = 11/58 (18%)
Query: 217 IFYTVFMGSENSSQETRMRAKKLADEIGSWHLDVSIDTVVSAFLSLFQTLTGKRPRYK 274
+FYT+ E R ++ E G +D+ + ++ + G +P +
Sbjct: 62 VFYTLV------DPELREILEERCAEFGIPCIDI-----LGPLIAPLEQELGLKPTPE 108
>gnl|CDD|176188 cd05285, sorbitol_DH, Sorbitol dehydrogenase. Sorbitol and aldose
reductase are NAD(+) binding proteins of the polyol
pathway, which interconverts glucose and fructose.
Sorbitol dehydrogenase is tetrameric and has a single
catalytic zinc per subunit. Aldose reductase catalyzes
the NADP(H)-dependent conversion of glucose to sorbital,
and SDH uses NAD(H) in the conversion of sorbitol to
fructose. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 343
Score = 29.4 bits (67), Expect = 3.8
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 14/82 (17%)
Query: 173 VGCMCQLVVKEIANGDEQVKADAIRIGRYANGEFPTESREFAKRIFYTVFMGSENSSQET 232
+G + V K A G +V I R EFAK + T + +++T
Sbjct: 174 IGLLTAAVAK--AFGATKVVVTDIDPSR----------LEFAKELGATHTVNV--RTEDT 219
Query: 233 RMRAKKLADEIGSWHLDVSIDT 254
A+K+A+ +G DV I+
Sbjct: 220 PESAEKIAELLGGKGPDVVIEC 241
>gnl|CDD|185431 PTZ00077, PTZ00077, asparagine synthetase-like protein;
Provisional.
Length = 586
Score = 29.3 bits (66), Expect = 4.0
Identities = 18/37 (48%), Positives = 20/37 (54%), Gaps = 7/37 (18%)
Query: 156 FLLPLSGGADSSSVAAIVGCMCQLVVKEIANGDEQVK 192
F L LSGG DSS VAAI V K I NG+ +
Sbjct: 240 FGLFLSGGLDSSIVAAI-------VAKLIKNGEIDLS 269
>gnl|CDD|183745 PRK12787, fliX, flagellar assembly regulator FliX; Reviewed.
Length = 138
Score = 28.0 bits (63), Expect = 5.2
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 149 RRSGASGFLLPLSGGADSSSVAAIVG 174
RR+G+SGF LP + + A+
Sbjct: 19 RRTGSSGFSLPDESASGAGEARAVSA 44
>gnl|CDD|216090 pfam00733, Asn_synthase, Asparagine synthase. This family is
always found associated with pfam00310. Members of this
family catalyze the conversion of aspartate to
asparagine.
Length = 195
Score = 28.4 bits (64), Expect = 5.4
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 160 LSGGADSSSVAAI 172
LSGG DSS +AA+
Sbjct: 24 LSGGLDSSLIAAL 36
>gnl|CDD|224348 COG1431, COG1431, Argonaute homolog, implicated in RNA metabolism
[Translation, ribosomal structure and biogenesis].
Length = 685
Score = 29.1 bits (65), Expect = 5.5
Identities = 7/47 (14%), Positives = 20/47 (42%)
Query: 349 ESYSPEDNRFDLRQFLYNARWPYQFRKIDELVKELDGEKVPFSESSD 395
++ + D + + + P + +++KE+D E++ E
Sbjct: 370 KNSNGIDWKVEGLTLHVAGKRPKMKDDLTKIIKEIDVEELKKQEMYK 416
>gnl|CDD|129986 TIGR00908, 2A0305, ethanolamine permease. The three genes used as
the seed for this model (from Burkholderia pseudomallei,
Pseudomonas aeruginosa and Clostridium acetobutylicum
are all adjacent to genes for the catabolism of
ethanolamine. Most if not all of the hits to this model
have a similar arrangement of genes. This group is a
member of the Amino Acid-Polyamine-Organocation (APC)
Superfamily [Transport and binding proteins, Amino
acids, peptides and amines].
Length = 442
Score = 28.7 bits (64), Expect = 7.4
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 193 ADAIRIGRYANGEFPTESREFAKRIFYTVFMG 224
A A IG Y FP A +FY VF+G
Sbjct: 103 AIACFIGAYCESLFPVGPGWLAALVFYIVFIG 134
>gnl|CDD|233626 TIGR01897, cas_MJ1666, CRISPR-associated protein, MJ1666 family.
CRISPR is a term for Clustered, Regularly Interspaced
Short Palidromic Repeats. A number of protein families
appear only in association with these repeats and are
designated Cas (CRISPR-Associated) proteins. This model
describes a Cas protein about 400 residues in length,
found mostly in the Archaea but also in Aquifex [Mobile
and extrachromosomal element functions, Other].
Length = 410
Score = 28.5 bits (64), Expect = 7.4
Identities = 28/148 (18%), Positives = 44/148 (29%), Gaps = 34/148 (22%)
Query: 248 LDVSIDTVVSA-FLSLFQTLTGKRPRYKLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFK 306
L DT++ A F SL + + +EV + ++K+
Sbjct: 284 LGRDFDTLLKAYFHSLILEVLKIKGNSPKNEVKLE----------EIKKLA--------- 324
Query: 307 NLCYRWGARLTPSEVAEKVKHFFK--YYSIN--RHKMTVLTPSYHAESYSPEDNRFDLRQ 362
E K +I K L E Y F+ R
Sbjct: 325 -------ETFFDEEYISVYIEIIKNELDNIKNRSKKAEELALIKATEIYKVSGEGFEKRN 377
Query: 363 FLYNARWPYQFRKIDELVKELDGEKVPF 390
FL +A + Y + E+ KE D V +
Sbjct: 378 FLAHAGFEYN---VVEVKKEKDKIYVRY 402
>gnl|CDD|191924 pfam07999, RHSP, Retrotransposon hot spot protein. Members of this
family are retrotransposon hot spot proteins. They are
associated with polymorphic subtelomeric regions in
Trypanosoma. These proteins contain a P-loop motif.
Length = 439
Score = 28.4 bits (63), Expect = 8.8
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 360 LRQFLYNARWPYQFRKIDELVKEL 383
LR Y + Y KI E V E
Sbjct: 304 LRYIFYEGSYKYWIAKIHEAVDET 327
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.135 0.408
Gapped
Lambda K H
0.267 0.0580 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,751,479
Number of extensions: 2108021
Number of successful extensions: 1981
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1976
Number of HSP's successfully gapped: 48
Length of query: 423
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 323
Effective length of database: 6,502,202
Effective search space: 2100211246
Effective search space used: 2100211246
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: 60 (27.2 bits)