RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9383
(133 letters)
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 28.5 bits (64), Expect = 1.2
Identities = 11/53 (20%), Positives = 19/53 (35%)
Query: 4 FKTESEFFVSFSISPLGMRHFSELLDQLQFFEFIGRRDKFQDQSSFVIKQYDN 56
F + E V SP G+R+F ++ RR + ++ N
Sbjct: 253 FGRDFEVPVDEDGSPRGLRYFVRREPPIRELAESIRRSALAELATLAALLVRN 305
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 27.7 bits (62), Expect = 2.0
Identities = 11/80 (13%), Positives = 24/80 (30%), Gaps = 9/80 (11%)
Query: 12 VSFSISPLGMRHFSELLDQLQFFEFIGRRDKFQDQSSFVIKQYDNVEGADQPDLILEMLA 71
V + G+ H +L + + + +K + I + +L+ L
Sbjct: 21 VLAELHDFGLVHLEDLEEGEKGLKE---LEKLKVAEVAQISLSSLLSE------VLDYLR 71
Query: 72 RLSQSILRENDLENSKRGLD 91
+ R L L+
Sbjct: 72 SVKGLEGRLFILPEEVEKLE 91
>gnl|CDD|233339 TIGR01278, DPOR_BchB, light-independent protochlorophyllide
reductase, B subunit. Alternate name: dark
protochlorophyllide reductase This enzyme describes the
B subunit of the dark form protochlorophyllide
reductase, a nitrogenase-like enzyme. This subunit shows
homology to the nitrogenase molybdenum-iron protein. It
catalyzes a step in bacteriochlorophyll biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 511
Score = 27.8 bits (62), Expect = 2.0
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 37 IGRRDKFQDQSSFVIKQYDNVEGADQPDLILEMLARLSQSILRENDLENSKRGLDL 92
+ RRD + + ++ V+ +PDLI+ + + S+L+E DL N L
Sbjct: 60 VDRRDLARGSQTRLVDTVRRVDDRFKPDLIV-VTPSCTSSLLQE-DLGNLAAAAGL 113
>gnl|CDD|215013 smart01074, Cdc6_C, CDC6, C terminal. The C terminal domain of
CDC6 assumes a winged helix fold, with a five
alpha-helical bundle (alpha15-alpha19) structure,
backed on one side by three beta strands (beta6-beta8).
It has been shown that this domain acts as a
DNA-localisation factor, however its exact function is,
as yet, unknown. Putative functions include: (1)
mediation of protein-protein interactions and (2)
regulation of nucleotide binding and hydrolysis.
Mutagenesis studies have shown that this domain is
essential for appropriate Cdc6 activity.
Length = 84
Score = 26.1 bits (58), Expect = 3.0
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 7/39 (17%)
Query: 13 SFSISPLGMRHFSELLDQLQFFEFI-------GRRDKFQ 44
+ PL +LL++L+ I GRR + +
Sbjct: 31 ELGVDPLTYTRIYDLLNELEMLGIIELRVSNRGRRGRTR 69
>gnl|CDD|173810 cd07484, Peptidases_S8_Thermitase_like, Peptidase S8 family domain
in Thermitase-like proteins. Thermitase is a
non-specific, trypsin-related serine protease with a
very high specific activity. It contains a subtilisin
like domain. The tertiary structure of thermitase is
similar to that of subtilisin BPN'. It contains a
Asp/His/Ser catalytic triad. Members of the peptidases
S8 (subtilisin and kexin) and S53 (sedolisin) clan
include endopeptidases and exopeptidases. The S8 family
has an Asp/His/Ser catalytic triad similar to that found
in trypsin-like proteases, but do not share their
three-dimensional structure and are not homologous to
trypsin. Serine acts as a nucleophile, aspartate as an
electrophile, and histidine as a base. The S53 family
contains a catalytic triad Glu/Asp/Ser with an
additional acidic residue Asp in the oxyanion hole,
similar to that of subtilisin. The serine residue here
is the nucleophilic equivalent of the serine residue in
the S8 family, while glutamic acid has the same role
here as the histidine base. However, the aspartic
acid residue that acts as an electrophile is quite
different. In S53 the it follows glutamic acid, while
in S8 it precedes histidine. The stability of these
enzymes may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. There is a great diversity in the
characteristics of their members: some contain disulfide
bonds, some are intracellular while others are
extracellular, some function at extreme temperatures,
and others at high or low pH values.
Length = 260
Score = 26.5 bits (59), Expect = 4.8
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 98 FSG-SQAAKHLMGLAAANYAGGP 119
SG S A H+ G+AA Y+ GP
Sbjct: 220 MSGTSMATPHVAGVAALLYSQGP 242
>gnl|CDD|237391 PRK13473, PRK13473, gamma-aminobutyraldehyde dehydrogenase;
Provisional.
Length = 475
Score = 26.4 bits (59), Expect = 4.9
Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 96 RGFSGSQAAKHLMGLAAANYAGG 118
R F+G AA+ L G AA Y G
Sbjct: 109 RFFAG--AARCLEGKAAGEYLEG 129
>gnl|CDD|234387 TIGR03901, MYXO-CTERM, MYXO-CTERM domain. This model describes
MYXO-CTERM, a C-terminal putative protein sorting
domain, analogous to LPXTG (TIGR01167) and PEP-CTERM
(TIGR02595). It is restricted to the Myxococcales, a
division of the Deltaproteobacteria, with over 60
members occurring in Plesiocystis pacifica SIR-1. An
example protein is TraA, involved in outer membrane
exchange (lipids and proteins) through which one strain
of Myxococcus can repair a mobility defect in another.
The trusted cutoff for this model is set artificially
high to avoid false positives, and consequently only
about half of all members are recognized.
Length = 31
Score = 23.6 bits (52), Expect = 7.3
Identities = 10/26 (38%), Positives = 10/26 (38%)
Query: 99 SGSQAAKHLMGLAAANYAGGPGRRRR 124
SG A LA A RRRR
Sbjct: 6 SGGGGAAGPGALALLGLALLALRRRR 31
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 0.136 0.377
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,850,942
Number of extensions: 616107
Number of successful extensions: 489
Number of sequences better than 10.0: 1
Number of HSP's gapped: 489
Number of HSP's successfully gapped: 23
Length of query: 133
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 47
Effective length of database: 7,123,158
Effective search space: 334788426
Effective search space used: 334788426
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: 53 (24.1 bits)