RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9932
(80 letters)
>gnl|CDD|216059 pfam00685, Sulfotransfer_1, Sulfotransferase domain.
Length = 254
Score = 49.6 bits (119), Expect = 8e-09
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 5/60 (8%)
Query: 3 LTVFPKEQILIVNGDRLIEDPVPELQRIERFLNLEPH-----INHDNFYFNHTKGFYCLK 57
+ P IL + + L +DP E+++I FL + + F + KG CL
Sbjct: 150 WKLRPPGNILFLRYEDLKKDPRGEIKKIAEFLGIPLTEEELDKIVKHLSFENMKGNPCLN 209
>gnl|CDD|131580 TIGR02528, EutP, ethanolamine utilization protein, EutP. This
protein is found within operons which code for
polyhedral organelles containing the enzyme ethanolamine
ammonia lyase. The function of this gene is unknown,
although the presence of an N-terminal GxxGxGK motif
implies a GTP-binding site [Energy metabolism, Amino
acids and amines].
Length = 142
Score = 30.9 bits (70), Expect = 0.035
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 1 MLLTVFPKEQILIVNGDRLIEDPVPELQRIERFLNL 36
++F K I +V L E V +++R + L
Sbjct: 82 GFASIFVKPVIGLVTKIDLAEADV-DIERAKELLET 116
>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 = 29.5 bits (67), Expect = 0.12
Identities = 16/40 (40%), Positives = 19/40 (47%), Gaps = 10/40 (25%)
Query: 5 VFPKEQILIVNGDRLIEDPVPELQRIE-RFLNLEPHINHD 43
VFP E +L V G P+ E Q +E LNL IN
Sbjct: 98 VFPNEPLLTVEG------PLIEAQLLETLLLNL---INFQ 128
>gnl|CDD|143505 cd06836, PLPDE_III_ODC_DapDC_like_1, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzymes, Uncharacterized Proteins with
similarity to Ornithine and Diaminopimelate
Decarboxylases. This subfamily contains uncharacterized
proteins with similarity to 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. They exist as homodimers with active
sites that lie at the interface between the TIM barrel
domain of one subunit and the beta-sandwich domain of
the other subunit. 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. Homodimer formation and the presence of
the PLP cofactor may be required for catalytic activity.
Length = 379
Score = 29.3 bits (66), Expect = 0.15
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 20/71 (28%)
Query: 17 DRLIED-PVPELQRIERFLNLEPHINHDNFYFNHTKGFYCLKDNSMERC------LRESK 69
+R++ D P + L L IN DNF +ER +E+
Sbjct: 72 ERIVFDSPAKTRAELREALELGVAINIDNF-------------QELERIDALVAEFKEAS 118
Query: 70 GRKHVRVHPKV 80
R +RV+P+V
Sbjct: 119 SRIGLRVNPQV 129
>gnl|CDD|236426 PRK09243, PRK09243, nicotinate phosphoribosyltransferase;
Validated.
Length = 464
Score = 28.6 bits (65), Expect = 0.25
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 10/40 (25%)
Query: 5 VFPKEQILIVNGDRLIEDPVPELQRIE-RFLNLEPHINHD 43
VFP E +L V G P+ E Q +E LN+ IN
Sbjct: 107 VFPNEPLLRVEG------PLAEAQLLETLLLNI---INFQ 137
>gnl|CDD|226699 COG4248, COG4248, Uncharacterized protein with protein kinase and
helix-hairpin-helix DNA-binding domains [General
function prediction only].
Length = 637
Score = 26.9 bits (59), Expect = 1.3
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 25 PELQRIERFLNLEPHINHDNF 45
PELQ + F+ E NHDNF
Sbjct: 185 PELQTLPSFVGFERTANHDNF 205
>gnl|CDD|226072 COG3542, COG3542, Uncharacterized conserved protein [Function
unknown].
Length = 162
Score = 26.3 bits (58), Expect = 1.3
Identities = 17/52 (32%), Positives = 19/52 (36%), Gaps = 9/52 (17%)
Query: 23 PVPELQRIERFLNLEPHINHDNFYFNHTKGFYCLKDNSMERCLRESKGRKHV 74
P P Q+I R L LEPH GFY S E+ R H
Sbjct: 2 PEPSAQQIIRTLGLEPHPE---------GGFYRETFRSEEKDAAGGDVRNHS 44
>gnl|CDD|239569 cd03487, RT_Bac_retron_II, RT_Bac_retron_II: Reverse
transcriptases (RTs) in bacterial retrotransposons or
retrons. The polymerase reaction of this enzyme leads
to the production of a unique RNA-DNA complex called
msDNA (multicopy single-stranded (ss)DNA) in which a
small ssDNA branches out from a small ssRNA molecule
via a 2'-5'phosphodiester linkage. Bacterial retron RTs
produce cDNA corresponding to only a small portion of
the retron genome.
Length = 214
Score = 25.6 bits (57), Expect = 2.4
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 16 GDRLIEDPVPELQRIERFL--NLEPHINHDNFYFNHTKG 52
G R I P PEL+ I+R + NL + + KG
Sbjct: 5 GFRTIYAPKPELKAIQRKILSNLLSKLPVHDAAHGFVKG 43
>gnl|CDD|131379 TIGR02326, transamin_PhnW, 2-aminoethylphosphonate--pyruvate
transaminase. Members of this family are
2-aminoethylphosphonate--pyruvate transaminase. This
enzyme acts on the most common type of naturally
occurring phosphonate. It interconverts
2-aminoethylphosphonate plus pyruvate with
2-phosphonoacetaldehyde plus alanine. The enzyme
phosphonoacetaldehyde hydrolase (EC 3.11.1.1), usually
encoded by an adjacent gene, then cleaves the C-P bond
of phosphonoacetaldehyde, adding water to yield
acetaldehyde plus inorganic phosphate. Species with this
pathway generally have an identified phosphonate ABC
transporter but do not also have the multisubunit C-P
lysase complex as found in Escherichia coli [Central
intermediary metabolism, Phosphorus compounds].
Length = 363
Score = 25.9 bits (57), Expect = 2.6
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 21 EDPVPELQRIERFLNLEPHINH 42
E P++ +E L +P I H
Sbjct: 111 EVEPPDVVEVEAILAADPAITH 132
>gnl|CDD|218128 pfam04523, Herpes_U30, Herpes virus tegument protein U30. This
family is named after the human herpesvirus protein,
but has been characterized in cytomegalovirus as UL47.
Cytomegalovirus UL47 is a component of the tegument,
which is a protein layer surrounding the viral capsid.
UL47 co-precipitates with UL48 and UL69 tegument
proteins, and the major capsid protein UL86. A
UL47-containing complex is thought to be involved in
the release of viral DNA from the disassembling virus
particle.
Length = 883
Score = 25.7 bits (57), Expect = 3.0
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 28 QRIERFLNLEPHINHDNFYFNHTK-GFYCLK 57
R+ +FLN P I+ +F F FY L+
Sbjct: 38 SRVRQFLNTLPSISGYHFTFIRRHPVFYLLR 68
>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a
circularly permuted subfamily of the Ras GTPases. YjeQ
(YloQ in Bacillus subtilis) is a ribosomal small
subunit-dependent GTPase; hence also known as RsgA.
YjeQ is a late-stage ribosomal biogenesis factor
involved in the 30S subunit maturation, and it
represents a protein family whose members are broadly
conserved in bacteria and have been shown to be
essential to the growth of E. coli and B. subtilis.
Proteins of the YjeQ family contain all sequence motifs
typical of the vast class of P-loop-containing GTPases,
but show a circular permutation, with a G4-G1-G3
pattern of motifs as opposed to the regular G1-G3-G4
pattern seen in most GTPases. All YjeQ family proteins
display a unique domain architecture, which includes an
N-terminal OB-fold RNA-binding domain, the central
permuted GTPase domain, and a zinc knuckle-like
C-terminal cysteine domain.
Length = 211
Score = 25.4 bits (57), Expect = 3.2
Identities = 11/37 (29%), Positives = 20/37 (54%), Gaps = 9/37 (24%)
Query: 10 QILIVNGDRLIEDPVPELQRIERFL------NLEPHI 40
Q+LIV +++P L+ ++R+L +EP I
Sbjct: 5 QVLIVFS---LKEPFFNLRLLDRYLVAAEASGIEPVI 38
>gnl|CDD|237769 PRK14616, PRK14616, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 287
Score = 25.4 bits (56), Expect = 3.9
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 2 LLTVFPKEQILIV----NGDRLIEDPVPELQRIERFLNLE 37
++TVFP+E I V N R E P+L+ + R L L+
Sbjct: 166 IVTVFPEEHISTVWAYKNFYRRFERERPDLKTLVRRLCLD 205
>gnl|CDD|200985 pfam00081, Sod_Fe_N, Iron/manganese superoxide dismutases,
alpha-hairpin domain. superoxide dismutases (SODs)
catalyze the conversion of superoxide radicals to
hydrogen peroxide and molecular oxygen. Three
evolutionarily distinct families of SODs are known, of
which the Mn/Fe-binding family is one. In humans, there
is a cytoplasmic Cu/Zn SOD, and a mitochondrial Mn/Fe
SOD. N-terminal domain is a long alpha antiparallel
hairpin. A small fragment of YTRE_LEPBI matches well -
sequencing error?.
Length = 82
Score = 24.2 bits (53), Expect = 5.6
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 36 LEPHINHDNFYFNHTK 51
LEPHI+ + +H K
Sbjct: 14 LEPHISKETMEIHHGK 29
>gnl|CDD|115093 pfam06416, DUF1076, Protein of unknown function (DUF1076). This
family consists of several hypothetical bacterial
proteins exclusive to Escherichia coli and Salmonella
typhi. The function of this family is unknown.
Length = 113
Score = 24.6 bits (54), Expect = 5.8
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 40 INHDNFYFNHTKGFYCLK 57
++ D YF+ TKG + +K
Sbjct: 96 VSRDECYFDTTKGNFVIK 113
>gnl|CDD|213793 TIGR03301, PhnW-AepZ, 2-aminoethylphosphonate aminotransferase.
This family includes a number of 2-aminoethylphosphonate
aminotransferases, some of which are indicated to
operate in the catabolism of 2-aminoethylphosphonate
(AEP) and others which are involved in the biosynthesis
of the same compound. The catabolic enzyme (PhnW, ) is
known to use pyruvate:alanine as the transfer partner
and is modeled by the equivalog-level TIGR02326. The
PhnW family is apparently a branch of a larger tree
including genes (AepZ) adjacent to others responsible
for the biosynthesis of phosphonoacetaldehyde. The
identity of the transfer partner is unknown for these
enzymes and considering the reversed flux compared to
PhnW, it may very well be different.
Length = 355
Score = 24.6 bits (54), Expect = 5.8
Identities = 11/29 (37%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 21 EDPVPELQRIERFLNLEPHINHDNFYFNH 49
E P+L RIE L +P I H H
Sbjct: 107 EYEPPDLNRIEEALAADPDITH--VATVH 133
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.325 0.144 0.445
Gapped
Lambda K H
0.267 0.0676 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,211,396
Number of extensions: 333594
Number of successful extensions: 453
Number of sequences better than 10.0: 1
Number of HSP's gapped: 452
Number of HSP's successfully gapped: 21
Length of query: 80
Length of database: 10,937,602
Length adjustment: 49
Effective length of query: 31
Effective length of database: 8,764,256
Effective search space: 271691936
Effective search space used: 271691936
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.3 bits)