RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031818
(152 letters)
>gnl|CDD|177973 PLN02339, PLN02339, NAD+ synthase (glutamine-hydrolysing).
Length = 700
Score = 275 bits (704), Expect = 6e-90
Identities = 99/116 (85%), Positives = 103/116 (88%)
Query: 2 KQLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYY 61
Q DE DMGMTYEEL VYGRLRKIF CGPVSMFKNLC+ W RL+PSEVA KVK FFKYY
Sbjct: 583 SQTDEEDMGMTYEELGVYGRLRKIFRCGPVSMFKNLCHEWNGRLSPSEVAAKVKDFFKYY 642
Query: 62 SINRHKMTVLTPSYHAESYSPEDNRFDLRQFLYNARWPYQFRKIDELVKELDGEKV 117
SINRHKMT LTPSYHAESYSP+DNRFDLRQFLYN RWPYQFRKIDELV+ELDGE V
Sbjct: 643 SINRHKMTTLTPSYHAESYSPDDNRFDLRQFLYNTRWPYQFRKIDELVEELDGETV 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 = 67.2 bits (165), Expect = 2e-14
Identities = 23/66 (34%), Positives = 28/66 (42%), Gaps = 11/66 (16%)
Query: 3 QLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 62
Q DE ++GM YEEL + LR GP L P + E VK F+ Y
Sbjct: 194 QTDEDELGMPYEELDQFLYLRLEGGLGP-----------EEILAPGIIEEVVKRVFRLYK 242
Query: 63 INRHKM 68
N HK
Sbjct: 243 KNEHKR 248
>gnl|CDD|223249 COG0171, NadE, NAD synthase [Coenzyme metabolism].
Length = 268
Score = 33.8 bits (78), Expect = 0.019
Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 19/66 (28%)
Query: 3 QLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 62
Q DE ++GM YEEL L + + E+ +K++ Y
Sbjct: 204 QTDEAELGMPYEELDDI--LYGLLE--------------NGQEISEELVKKIERL---YK 244
Query: 63 INRHKM 68
+ HK
Sbjct: 245 KSEHKR 250
>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 = 32.0 bits (73), Expect = 0.093
Identities = 15/68 (22%), Positives = 23/68 (33%), Gaps = 20/68 (29%)
Query: 3 QLDEVDMGMTYEELSVYGRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYS 62
Q DE ++G+TY+EL Y + + V E VK
Sbjct: 192 QTDETELGITYDELDDYLKGIEELS--------------------QTVQEVVKRIESLVQ 231
Query: 63 INRHKMTV 70
+ HK +
Sbjct: 232 KSEHKRRL 239
>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 = 31.6 bits (72), Expect = 0.11
Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 13/66 (19%)
Query: 3 QLDEVDMGMTYEELSVY-GRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYY 61
Q DE ++G+ Y+EL L ++ + L P+EV E+V
Sbjct: 185 QTDEDELGIPYDELDQILKGLEELKQSEEEIIDLGL---------PAEVVERV---ENLI 232
Query: 62 SINRHK 67
+ HK
Sbjct: 233 QKSEHK 238
>gnl|CDD|224348 COG1431, COG1431, Argonaute homolog, implicated in RNA metabolism
[Translation, ribosomal structure and biogenesis].
Length = 685
Score = 29.5 bits (66), Expect = 0.79
Identities = 7/47 (14%), Positives = 20/47 (42%)
Query: 78 ESYSPEDNRFDLRQFLYNARWPYQFRKIDELVKELDGEKVPFGESSD 124
++ + D + + + P + +++KE+D E++ E
Sbjct: 370 KNSNGIDWKVEGLTLHVAGKRPKMKDDLTKIIKEIDVEELKKQEMYK 416
>gnl|CDD|235057 PRK02628, nadE, NAD synthetase; Reviewed.
Length = 679
Score = 27.9 bits (63), Expect = 2.2
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 90 RQFLYNARWPYQFRKIDELVKELDGEKVPFG 120
R+F Y RW L G++VPFG
Sbjct: 129 REF-YEKRWFAPGDGARGETIRLCGQEVPFG 158
>gnl|CDD|239242 cd02932, OYE_YqiM_FMN, Old yellow enzyme (OYE) YqjM-like FMN
binding domain. YqjM is involved in the oxidative stress
response of Bacillus subtilis. Like the other OYE
members, each monomer of YqjM contains FMN as a
non-covalently bound cofactor and uses NADPH as a
reducing agent. The YqjM enzyme exists as a
homotetramer that is assembled as a dimer of
catalytically dependent dimers, while other OYE members
exist only as monomers or dimers. Moreover, the protein
displays a shared active site architecture where an
arginine finger at the COOH terminus of one monomer
extends into the active site of the adjacent monomer and
is directly involved in substrate recognition. Another
remarkable difference in the binding of the ligand in
YqjM is represented by the contribution of the
NH2-terminal tyrosine instead of a COOH-terminal
tyrosine in OYE and its homologs.
Length = 336
Score = 27.8 bits (63), Expect = 2.5
Identities = 9/26 (34%), Positives = 10/26 (38%), Gaps = 4/26 (15%)
Query: 83 EDNRFDL----RQFLYNARWPYQFRK 104
E R DL R+ L N WP
Sbjct: 310 ESGRADLVALGRELLRNPYWPLHAAA 335
>gnl|CDD|204116 pfam09013, YopH_N, YopH, N-terminal. The N-terminal domain of
YopH is a compact structure composed of four
alpha-helices and two beta-hairpins. Helices alpha-1
and alpha-3 are parallel to each other and antiparallel
to helices alpha-2 and alpha-4. This domain targets
YopH for secretion from the bacterium and translocation
into eukaryotic cells, and has phosphotyrosyl
peptide-binding activity, allowing for recognition of
p130Cas and paxillin.
Length = 121
Score = 26.8 bits (59), Expect = 2.5
Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 4/72 (5%)
Query: 20 GRLRKIFHCGPVSMFKNLCYRWGARLTPSEVAEKVKHFFKYYSINRHKMTVLTPSYHAES 79
G+LR + F+ L GAR + A++V K ++N+ + L PS +
Sbjct: 23 GKLRGNVAANKETTFQGLTITSGARESEKAFAQEVLEHVKNTALNQEDVAKLLPSTVKHN 82
Query: 80 YSPEDNRFDLRQ 91
N F+LR
Sbjct: 83 L----NNFELRS 90
>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 = 27.8 bits (62), Expect = 2.6
Identities = 19/77 (24%), Positives = 26/77 (33%), Gaps = 7/77 (9%)
Query: 48 SEVAEKVKHFFK--YYSIN--RHKMTVLTPSYHAESYSPEDNRFDLRQFLYNARWPYQFR 103
E K +I K L E Y F+ R FL +A + Y
Sbjct: 330 EEYISVYIEIIKNELDNIKNRSKKAEELALIKATEIYKVSGEGFEKRNFLAHAGFEYN-- 387
Query: 104 KIDELVKELDGEKVPFG 120
+ E+ KE D V +G
Sbjct: 388 -VVEVKKEKDKIYVRYG 403
>gnl|CDD|237200 PRK12778, PRK12778, putative bifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta;
Provisional.
Length = 752
Score = 27.8 bits (62), Expect = 2.7
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 118 PFGESSDHEKMGTTLDGGGGMGV 140
P G S+ E GT + GGG+GV
Sbjct: 88 PLGNPSEIENYGTVVCAGGGVGV 110
>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 = 27.6 bits (61), Expect = 2.9
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 89 LRQFLYNARWPYQFRKIDELVKEL 112
LR Y + Y KI E V E
Sbjct: 304 LRYIFYEGSYKYWIAKIHEAVDET 327
>gnl|CDD|226264 COG3741, HutG, N-formylglutamate amidohydrolase [Amino acid
transport and metabolism].
Length = 272
Score = 27.3 bits (61), Expect = 3.1
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 38 CYRWGARLTPSEVAEKVKHFFKYY 61
Y +G TP+E +++ +K Y
Sbjct: 106 LYIYGGAPTPAEALARLETLWKPY 129
>gnl|CDD|218690 pfam05683, Fumerase_C, Fumarase C-terminus. This family consists
of the C terminal region of several bacterial fumarate
hydratase proteins (FumA and FumB). Fumarase, or
fumarate hydratase (EC 4.2.1.2), is a component of the
citric acid cycle. In facultative anaerobes such as
Escherichia coli, fumarase also engages in the
reductive pathway from oxaloacetate to succinate during
anaerobic growth.
Length = 205
Score = 27.1 bits (61), Expect = 3.5
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 7 VDMGMTYEELSVYGRLRKIFHCGPV 31
V+M E L V + R I++ GPV
Sbjct: 66 VEMLDRGEPLPVDLKGRFIYYVGPV 90
>gnl|CDD|178102 PLN02484, PLN02484, probable pectinesterase/pectinesterase
inhibitor.
Length = 587
Score = 27.6 bits (61), Expect = 3.5
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 73 PSYHAESYSPEDNRFDLRQFLYNARW 98
P Y + + E ++F + QF+Y + W
Sbjct: 548 PGYRVITSTVEASKFTVAQFIYGSSW 573
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 27.2 bits (61), Expect = 3.5
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 42 GARLTPSEVAEKV 54
G RLTP +VAE V
Sbjct: 203 GVRLTPEDVAEAV 215
>gnl|CDD|178126 PLN02510, PLN02510, probable 1-acyl-sn-glycerol-3-phosphate
acyltransferase.
Length = 374
Score = 27.4 bits (61), Expect = 3.6
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 96 ARWPYQFRKIDELVKELDGEKVPFGE 121
A WP+ F KI++ G+KVP E
Sbjct: 67 ALWPFLFEKINKTKVVFSGDKVPPEE 92
>gnl|CDD|227047 COG4703, COG4703, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 74
Score = 25.9 bits (57), Expect = 3.7
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 79 SYSPEDNRFDLRQFLYNARWPYQFRKID 106
YS ++ F+LR R Y F ID
Sbjct: 38 KYSEDNETFELR--DVEDREKYPFDDID 63
>gnl|CDD|234134 TIGR03169, Nterm_to_SelD, pyridine nucleotide-disulfide
oxidoreductase family protein. Members of this protein
family include N-terminal sequence regions of
(probable) bifunctional proteins whose C-terminal
sequences are SelD, or selenide,water dikinase, the
selenium donor protein necessary for selenium
incorporation into protein (as selenocysteine), tRNA
(as 2-selenouridine), or both. However, some members of
this family occur in species that do not show selenium
incorporation, and the function of this protein family
is unknown.
Length = 364
Score = 26.9 bits (60), Expect = 4.9
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 63 INRHKMTVLT---PSYHAESYSPEDNRFDLRQ 91
IN T + P A YS ++ R DLR+
Sbjct: 31 INPSSTTPYSGMLPGMIAGHYSLDEIRIDLRR 62
>gnl|CDD|150691 pfam10045, DUF2280, Uncharacterized conserved protein (DUF2280).
Members of this family of hypothetical bacterial
proteins have no known function.
Length = 104
Score = 25.8 bits (57), Expect = 5.7
Identities = 15/37 (40%), Positives = 16/37 (43%), Gaps = 10/37 (27%)
Query: 46 TPSEVAEKVKHFFKYYSINRHKMTVLTPSYHAESYSP 82
TPSEVAE VK F +T ESY P
Sbjct: 21 TPSEVAEAVKEEFG---------IEVTRQ-QVESYDP 47
>gnl|CDD|133469 cd01414, SAICAR_synt_Sc, non-metazoan
5-aminoimidazole-4-(N-succinylcarboxamide)
ribonucleotide (SAICAR) synthase. Eukaryotic,
bacterial, and archaeal group of SAICAR synthetases
represented by the Saccharomyces cerevisiae (Sc) enzyme,
mostly absent in metazoans. SAICAR synthetase catalyzes
the seventh step of the de novo biosynthesis of purine
nucleotides (also reported as eighth step). It converts
5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP,
and L-aspartate into
5-aminoimidazole-4-(N-succinylcarboxamide)
ribonucleotide (SAICAR), ADP, and phosphate.
Length = 279
Score = 26.4 bits (59), Expect = 5.9
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 69 TVLTPS----YHAESYSPEDNR--FD---LRQFLYNARWPYQFRKIDELVKEL 112
VLTP + A+SY P + FD +R +L + W Q L E+
Sbjct: 210 EVLTPDSSRFWPADSYEPGKEQPSFDKQFVRDWLEASGWDKQDPPPPPLPAEV 262
>gnl|CDD|184435 PRK13980, PRK13980, NAD synthetase; Provisional.
Length = 265
Score = 26.3 bits (59), Expect = 6.0
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 3 QLDEVDMGMTYEEL 16
Q DE ++G +YE +
Sbjct: 196 QTDEGELGFSYETI 209
>gnl|CDD|239439 cd03323, D-glucarate_dehydratase, D-Glucarate dehydratase (GlucD)
catalyzes the dehydration of both D-glucarate and
L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) ,
the initial reaction of the catabolic pathway for
(D)-glucarate. GlucD belongs to the enolase superfamily
of enzymes, characterized by the presence of an enolate
anion intermediate which is generated by abstraction of
the alpha-proton of the carboxylate substrate by an
active site residue and that is stabilized by
coordination to the essential Mg2+ ion.
Length = 395
Score = 26.1 bits (58), Expect = 8.5
Identities = 12/43 (27%), Positives = 15/43 (34%), Gaps = 2/43 (4%)
Query: 40 RWGARLTPSEVAEKVKHFFKYYSINRHKMT--VLTPSYHAESY 80
RWG LTP V + Y K+ VL E+
Sbjct: 162 RWGEALTPEGVVRLARAAIDRYGFKSFKLKGGVLPGEEEIEAV 204
>gnl|CDD|213294 cd05928, MACS_euk, Eukaryotic Medium-chain acyl-CoA synthetase
(MACS or ACSM). MACS catalyzes the two-step activation
of medium chain fatty acids (containing 4-12 carbons).
The carboxylate substrate first reacts with ATP to form
an acyl-adenylate intermediate, which then reacts with
CoA to produce an acyl-CoA ester. The acyl-CoA is a key
intermediate in many important biosynthetic and
catabolic processes. MACS enzymes are localized to
mitochondria. Two murine MACS family proteins are found
in liver and kidney. In rodents, a MACS member is
detected particularly in the olfactory epithelium and is
called O-MACS. O-MACS demonstrates substrate preference
for the fatty acid lengths of C6-C12.
Length = 530
Score = 26.3 bits (58), Expect = 8.9
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 70 VLTPSYHAESYSPEDNRFDLRQFLYNARWPYQFRKIDELVKEL 112
VL P + S+ PE +L++ + + PY++ + E V+EL
Sbjct: 472 VLAPQF--LSHDPEQLTKELQEHVKSVTAPYKYPRKVEFVQEL 512
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
0.319 0.137 0.425
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,116,341
Number of extensions: 737907
Number of successful extensions: 804
Number of sequences better than 10.0: 1
Number of HSP's gapped: 802
Number of HSP's successfully gapped: 34
Length of query: 152
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 64
Effective length of database: 7,034,450
Effective search space: 450204800
Effective search space used: 450204800
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 (21.7 bits)
S2: 55 (24.9 bits)