RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13801
(88 letters)
>gnl|CDD|178473 PLN02885, PLN02885, nicotinate phosphoribosyltransferase.
Length = 545
Score = 122 bits (309), Expect = 1e-34
Identities = 43/60 (71%), Positives = 52/60 (86%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSDS 83
L TDLYQ TMAYAYWK+GK D AVFDLFFR+NPF GE+T+FAGLEEC+RF+ NF+++D
Sbjct: 13 LLTDLYQFTMAYAYWKAGKHLDRAVFDLFFRKNPFGGEYTVFAGLEECLRFIANFKFTDD 72
>gnl|CDD|238804 cd01570, NAPRTase_A, Nicotinate phosphoribosyltransferase
(NAPRTase), subgroup A. Nicotinate
phosphoribosyltransferase catalyses the formation of
NAMN and PPi from 5-phosphoribosy -1-pyrophosphate
(PRPP) and nicotinic acid, this is the first, and also
rate limiting, reaction in the NAD salvage synthesis.
This salvage pathway serves to recycle NAD degradation
products. This subgroup is present in bacteria and
eukaryota (except funghi).
Length = 327
Score = 113 bits (284), Expect = 5e-32
Identities = 36/60 (60%), Positives = 46/60 (76%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSDS 83
L TDLYQ+TMA AYWK GK AVF+LFFR+ PF G + +FAGLEE + +LENFR+++
Sbjct: 2 LLTDLYQLTMAQAYWKEGKHNKPAVFELFFRKLPFGGGYAVFAGLEELLEYLENFRFTEE 61
>gnl|CDD|233446 TIGR01513, NAPRTase_put, putative nicotinate
phosphoribosyltransferase. A deep split separates two
related families of proteins, one of which includes
experimentally characterized examples of nicotinate
phosphoribosyltransferase, an the first enzyme of NAD
salvage biosynthesis. This model represents the other
family. Members have a different (longer) spacing of
several key motifs and have an additional C-terminal
domain of up to 100 residues. One argument suggesting
that this family represents the same enzyme is that no
species has a member of both families. Another is that
the gene encoding this protein is located near other
NAD salvage biosynthesis genes in Nostoc and in at
least four different Gram-positive bacteria. NAD and
NADP are ubiquitous in life. Most members of this
family are Gram-positive bacteria. An additional set of
mutually closely related archaeal sequences score
between the trusted and noise cutoffs [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridine
nucleotides].
Length = 443
Score = 94.7 bits (236), Expect = 1e-24
Identities = 30/60 (50%), Positives = 42/60 (70%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSDS 83
L TDLY++TMA Y++ GK AVF++FFR+ PF + +FAGLE+ + FLENFR+
Sbjct: 2 LLTDLYELTMAQGYFREGKANQPAVFEVFFRKLPFGRGYAVFAGLEDLLEFLENFRFDAE 61
>gnl|CDD|236426 PRK09243, PRK09243, nicotinate phosphoribosyltransferase;
Validated.
Length = 464
Score = 94.1 bits (235), Expect = 3e-24
Identities = 29/60 (48%), Positives = 41/60 (68%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSDS 83
L TDLY++TMA AY + G AVF+LFFR+ PF + +FAGLE + +LEN R+++
Sbjct: 11 LLTDLYELTMAQAYLRDGIHNRRAVFELFFRKLPFGRGYAVFAGLERLLEYLENLRFTEE 70
>gnl|CDD|237112 PRK12484, PRK12484, nicotinate phosphoribosyltransferase;
Provisional.
Length = 443
Score = 79.8 bits (197), Expect = 3e-19
Identities = 27/60 (45%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSDS 83
L TDLY++TMA AY + G ++ A F LF+R+ P F I AGL + + FLE FR+ +
Sbjct: 6 LLTDLYEVTMANAYLREG-MSAPATFSLFYRKLPDGRGFLIAAGLADVVEFLEAFRFDEQ 64
>gnl|CDD|238801 cd01567, NAPRTase_PncB, Nicotinate phosphoribosyltransferase
(NAPRTase) family. Nicotinate phosphoribosyltransferase
catalyses the formation of NAMN and PPi from
5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic
acid, this is the first, and also rate limiting,
reaction in the NAD salvage synthesis. This salvage
pathway serves to recycle NAD degradation products.
Length = 343
Score = 79.2 bits (196), Expect = 3e-19
Identities = 27/61 (44%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSDS 83
L TDLY++TM AY VF+ FR NPF G++ +FAGLEE ++ LEN R+++
Sbjct: 2 LDTDLYKLTMMQAYLY-PYPNTRVVFEFTFRSNPFGGDYIVFAGLEEVLKLLENLRFTEE 60
Query: 84 V 84
Sbjct: 61 E 61
>gnl|CDD|224405 COG1488, PncB, Nicotinic acid phosphoribosyltransferase [Coenzyme
metabolism].
Length = 405
Score = 65.8 bits (161), Expect = 2e-14
Identities = 29/59 (49%), Positives = 38/59 (64%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSD 82
L TDLY++TM AY G VF+ FFR+ PF G + +FAGLEE + LEN R+S+
Sbjct: 15 LDTDLYKLTMLQAYLHDGPNNVTVVFEFFFRKLPFLGGYAVFAGLEEVLELLENLRFSE 73
>gnl|CDD|238286 cd00516, PRTase_typeII, Phosphoribosyltransferase (PRTase) type
II; This family contains two enzymes that play an
important role in NAD production by either allowing
quinolinic acid (QA) , quinolinate phosphoribosyl
transferase (QAPRTase), or nicotinic acid (NA),
nicotinate phosphoribosyltransferase (NAPRTase), to be
used in the synthesis of NAD. QAPRTase catalyses the
reaction of quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide
(NAMN), pyrophosphate and carbon dioxide, an important
step in the de novo synthesis of NAD. NAPRTase
catalyses a similar reaction leading to NAMN and
pyrophosphate, using nicotinic acid an PPRP as
substrates, used in the NAD salvage pathway.
Length = 281
Score = 53.0 bits (128), Expect = 7e-10
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 27 DLYQITMAYAYWKSGKVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLENFRYSDSV 84
DLY++TM AY A + R++P+ + AGLEE + LE R+ +
Sbjct: 1 DLYKLTMIQAY---PPPDTRATAEFTAREDPY----GVLAGLEEALELLELLRFPGPL 51
>gnl|CDD|239438 cd03322, rpsA, The starvation sensing protein RpsA from E.coli
and its homologs are lactonizing enzymes whose putative
targets are homoserine lactone (HSL)-derivative. They
are part of the mandelate racemase (MR)-like subfamily
of the enolase superfamily. Enzymes of this subfamily
share three conserved carboxylate ligands for the
essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and catalytic residues, a
partially conserved Lys-X-Lys motif and a conserved
histidine-aspartate dyad.
Length = 361
Score = 31.3 bits (71), Expect = 0.041
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 27 DLYQITMAYAYWKSGKVTDNAV 48
D++Q AYW+ G VT NA+
Sbjct: 64 DIWQYLYRGAYWRRGPVTMNAI 85
>gnl|CDD|131637 TIGR02588, TIGR02588, TIGR02588 family protein. The function of
this protein is unknown. It is always found as part of a
two-gene operon with TIGR02587, a protein that appears
to span the membrane seven times. It is found in Nostoc
sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium
meliloti, and Gloeobacter violaceus, so far, all of
which are bacterial [Hypothetical proteins, Conserved].
Length = 122
Score = 28.3 bits (63), Expect = 0.33
Identities = 5/27 (18%), Positives = 10/27 (37%), Gaps = 2/27 (7%)
Query: 40 SGKVTDNAVFDLFFRQNPFQGEFTIFA 66
+ +N FR +P G+ +
Sbjct: 92 ASGSKENGTL--IFRSDPRNGQLRLRV 116
>gnl|CDD|226068 COG3538, COG3538, Uncharacterized conserved protein [Function
unknown].
Length = 434
Score = 28.1 bits (63), Expect = 0.54
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 24 LCTDLYQITMAYAYWKSGKVTDNAVFDLFFRQ 55
LC Y I +AY YWK+ D + FD FRQ
Sbjct: 137 LC---YPIQLAYLYWKATG--DTSQFDEDFRQ 163
>gnl|CDD|184298 PRK13748, PRK13748, putative mercuric reductase; Provisional.
Length = 561
Score = 27.8 bits (62), Expect = 0.65
Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 33 MAYAYWKSG-KVTDNAVFDLFFRQNPFQGEFTIFAGLEECIRFLEN 77
+A A+ + G KVT A LFFR++P GE A E I LE+
Sbjct: 285 LAQAFARLGSKVTILARSTLFFREDPAIGEAVTAAFRAEGIEVLEH 330
>gnl|CDD|238695 cd01401, PncB_like, Nicotinate phosphoribosyltransferase
(NAPRTase), related to PncB. Nicotinate
phosphoribosyltransferase catalyses the formation of
NAMN and PPi from 5-phosphoribosy -1-pyrophosphate
(PRPP) and nicotinic acid, this is the first, and also
rate limiting, reaction in the NAD salvage synthesis.
This salvage pathway serves to recycle NAD degradation
products. This subgroup is present in bacteria, archea
and funghi.
Length = 377
Score = 27.6 bits (62), Expect = 0.79
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 24 LCTDLYQITMAYAYWK 39
L TDLY++TM A
Sbjct: 4 LDTDLYKLTMQQAVLH 19
>gnl|CDD|236328 PRK08662, PRK08662, nicotinate phosphoribosyltransferase;
Reviewed.
Length = 343
Score = 26.4 bits (59), Expect = 2.0
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 18/55 (32%)
Query: 39 KSGKVTD-----------------NAVFDLFFRQNPFQGEFTIFAGLEECIRFLE 76
KSGK TD V ++ P +GE+ +FAGLEE + LE
Sbjct: 13 KSGKTTDIYFERTVEILEHAGKNPKVVAEVTASSLP-KGEWGVFAGLEEVLELLE 66
>gnl|CDD|176645 cd05282, ETR_like, 2-enoyl thioester reductase-like. 2-enoyl
thioester reductase (ETR) catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity
has been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the alcohol
dehydrogenases in this family. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation.
ADH is a member of the medium chain alcohol
dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is
comprised of 2 structurally similar halves, each of
which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a
catalytic zinc at the active site and a structural zinc
in a lobe of the catalytic domain. NAD(H) binding
occurs in the cleft between the catalytic and
coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters
in mitochondrial fatty acid synthesis. Etr1p forms
homodimers with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 323
Score = 26.5 bits (59), Expect = 2.1
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 8/29 (27%)
Query: 7 LLSMEASAVNMLCIMFWLCTDLYQITMAY 35
L+ M A+ +N +DL I+ AY
Sbjct: 30 LVRMLAAPINP--------SDLITISGAY 50
>gnl|CDD|235406 PRK05321, PRK05321, nicotinate phosphoribosyltransferase;
Provisional.
Length = 400
Score = 26.3 bits (59), Expect = 2.3
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 26 TDLYQITMAYAYWK 39
TD Y++TM A
Sbjct: 15 TDFYKLTMQQAVLH 28
>gnl|CDD|232854 TIGR00170, leuC, 3-isopropylmalate dehydratase, large subunit.
Members of this family are 3-isopropylmalate
dehydratase, large subunit, or the large subunit domain
of single-chain forms. Homoaconitase, aconitase, and
3-isopropylmalate dehydratase have similar overall
structures. All are dehydratases (EC 4.2.1.-) and bind a
Fe-4S iron-sulfur cluster. 3-isopropylmalate dehydratase
is split into large (leuC) and small (leuD) chains in
eubacteria. Several pairs of archaeal proteins resemble
the leuC and leuD pair in length and sequence but even
more closely resemble the respective domains of
homoaconitase, and their identity is uncertain. These
homologs are now described by a separate model of
subfamily (rather than equivalog) homology type, and the
priors and cutoffs for this model have been changed to
focus this equivalog family more narrowly [Amino acid
biosynthesis, Pyruvate family].
Length = 465
Score = 26.0 bits (57), Expect = 2.6
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 34 AYAYWKSGKVTDNAVFD 50
A AYWK+ K + AVFD
Sbjct: 258 AVAYWKTLKTDEGAVFD 274
>gnl|CDD|235490 PRK05478, PRK05478, isopropylmalate isomerase large subunit;
Validated.
Length = 466
Score = 25.9 bits (58), Expect = 2.7
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 34 AYAYWKSGKVTDNAVFD 50
A AYWK+ K ++AVFD
Sbjct: 258 AVAYWKTLKSDEDAVFD 274
>gnl|CDD|234164 TIGR03302, OM_YfiO, outer membrane assembly lipoprotein YfiO.
Members of this protein family include YfiO, a
near-essential protein of the outer membrane, part of a
complex involved in protein insertion into the bacterial
outer membrane. Many proteins in this family are
annotated as ComL, based on the involvement of this
protein in natural transformation with exogenous DNA in
Neisseria gonorrhoeae. This protein family shows
sequence similarity to, but is distinct from, the
tol-pal system protein YbgF (TIGR02795) [Protein fate,
Protein and peptide secretion and trafficking].
Length = 235
Score = 25.2 bits (56), Expect = 5.2
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 30 QITMAYAYWKSGKVTD-NAVFDLFFRQNP 57
Q+ +AYAY+KSG + A D F R +P
Sbjct: 73 QLDLAYAYYKSGDYAEAIAAADRFIRLHP 101
>gnl|CDD|181512 PRK08637, PRK08637, hypothetical protein; Provisional.
Length = 388
Score = 24.9 bits (55), Expect = 5.9
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 43 VTDNAVFDLFFRQNPFQGEFTIFAGLEECI 72
V D+A F LF+ + + F A L I
Sbjct: 188 VVDDAYFGLFYEDSYKESLFAALANLHSNI 217
>gnl|CDD|130578 TIGR01514, NAPRTase, nicotinate phosphoribosyltransferase. This
model represents nicotinate phosphoribosyltransferase,
the first enzyme in the salvage pathway of NAD
biosynthesis from nicontinate (niacin). Members are
primary proteobacterial but also include yeasts and
Methanosarcina acetivorans. A related family,
apparently non-overlapping in species distribution, is
TIGR01513. Members of that family differ in
substantially in sequence and have a long C-terminal
extension missing from this family, but are proposed
also to act as nicotinate phosphoribosyltransferase
(see model TIGR01513) [Biosynthesis of cofactors,
prosthetic groups, and carriers, Pyridine nucleotides].
Length = 394
Score = 24.7 bits (54), Expect = 7.8
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 24 LCTDLYQITMAYAYWK 39
L TDLY+ITM A +
Sbjct: 6 LDTDLYKITMHQAVFH 21
>gnl|CDD|148130 pfam06330, TRI5, Trichodiene synthase (TRI5). This family
consists of several fungal trichodiene synthase
proteins (EC:4.2.3.6). TRI5 encodes the enzyme
trichodiene synthase, which has been shown to catalyze
the first step in the trichothecene pathways of
Fusarium and Trichothecium species.
Length = 376
Score = 24.9 bits (54), Expect = 7.9
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 68 LEECIRFLENFRYSDSVPNRE 88
L +R LE RY DS RE
Sbjct: 10 LNTIVRLLEYIRYRDSNYTRE 30
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
0.329 0.139 0.441
Gapped
Lambda K H
0.267 0.0603 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,348,362
Number of extensions: 337582
Number of successful extensions: 378
Number of sequences better than 10.0: 1
Number of HSP's gapped: 374
Number of HSP's successfully gapped: 25
Length of query: 88
Length of database: 10,937,602
Length adjustment: 56
Effective length of query: 32
Effective length of database: 8,453,778
Effective search space: 270520896
Effective search space used: 270520896
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.5 bits)