RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16887
(160 letters)
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 31.6 bits (72), Expect = 0.10
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 30 RPVVLFGP---VADLARDKLLKDFPDKFSAPHPR 60
RP+VL GP + LL ++P+KF
Sbjct: 3 RPIVLSGPSGVGKSHIKKALLDEYPEKFGYSVSH 36
>gnl|CDD|220211 pfam09375, Peptidase_M75, Imelysin. The imelysin peptidase was
first identified in Pseudomonas aeruginosa. The active
site residues have not been identified. However, His201
and Glu204 are completely conserved in the family and
occur in an HXXE motif that is also found in family
M14.
Length = 282
Score = 30.4 bits (69), Expect = 0.31
Identities = 12/41 (29%), Positives = 17/41 (41%), Gaps = 9/41 (21%)
Query: 15 FPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFS 55
A++RV FGPV DL R+ + +PD
Sbjct: 42 RLAWQRVE---------PFRFGPVDDLNREGQINFWPDDEG 73
>gnl|CDD|235974 PRK07229, PRK07229, aconitate hydratase; Validated.
Length = 646
Score = 29.0 bits (66), Expect = 1.1
Identities = 10/16 (62%), Positives = 10/16 (62%), Gaps = 2/16 (12%)
Query: 141 KPGNSHGICHPVKLNN 156
KPGN GICH V L
Sbjct: 94 KPGN--GICHQVHLER 107
>gnl|CDD|183697 PRK12714, flgK, flagellar hook-associated protein FlgK;
Provisional.
Length = 624
Score = 28.4 bits (63), Expect = 1.8
Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 10/79 (12%)
Query: 34 LFGPVADLARDKLLKDFPDKFSAPHPRRRNQEKFRWSSFFNSLTKVSATCLTSYGFYVDL 93
L +L+R + L ++ A + WS+FF+S + +S+ ++
Sbjct: 74 LLDSGGELSRLQQLSSLSNRVDALYSNTATNVAGLWSNFFDSTSALSSNASST------- 126
Query: 94 LFGSNRSDDLDSNPRVYTR 112
+ R LDS + TR
Sbjct: 127 ---AERQSMLDSGNSLATR 142
>gnl|CDD|214504 smart00072, GuKc, Guanylate kinase homologues. Active enzymes
catalyze ATP-dependent phosphorylation of GMP to GDP.
Structure resembles that of adenylate kinase. So-called
membrane-associated guanylate kinase homologues
(MAGUKs) do not possess guanylate kinase activities;
instead at least some possess protein-binding
functions.
Length = 174
Score = 27.6 bits (62), Expect = 2.6
Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 4/55 (7%)
Query: 3 WDDVVFGDSISKFP-AYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSA 56
+ + I + P A+ERV RP + G D ++F D +
Sbjct: 4 GKGTLLAELIQEIPDAFERVVSHTTRPPRPGEVNG--VDYHFVS-KEEFEDDIKS 55
>gnl|CDD|202206 pfam02327, BChl_A, Bacteriochlorophyll A protein.
Bacteriochlorophyll A protein is involved in the energy
transfer system of green photosynthetic bacteria. The
protein forms a homotrimer, with each monomer unit
containing seven molecules of bacteriochlorophyll A.
Length = 357
Score = 26.9 bits (59), Expect = 4.7
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 10/59 (16%)
Query: 20 RVSLRHPGFIRPVVLFGPVA---DLARDKLLK-----DFPDKFSAPHPRRRNQEKFRWS 70
R L HP + P+V G V D D LK + +++AP R +N E++RWS
Sbjct: 277 RRILNHP--LIPLVHHGMVGKFNDFTVDTQLKIVLPKGYKIRYAAPQFRSQNLEEYRWS 333
>gnl|CDD|203397 pfam06149, DUF969, Protein of unknown function (DUF969). Family of
uncharacterized bacterial membrane proteins.
Length = 218
Score = 26.8 bits (60), Expect = 5.1
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 25 HPGFIRPVVLFGPVADLARDKLLKDFPDK 53
H F+RP++ P+A+ A + +K
Sbjct: 115 HAQFVRPLIA--PMAEAAAESRYGKLTEK 141
>gnl|CDD|147845 pfam05914, RIB43A, RIB43A. This family consists of several
RIB43A-like eukaryotic proteins. Ciliary and flagellar
microtubules contain a specialised set of
protofilaments, termed ribbons, that are composed of
tubulin and several associated proteins. RIB43A was
first characterized in the unicellular biflagellate,
Chlamydomonas reinhardtii although highly related
sequences are present in several higher eukaryotes
including humans. The function of this protein is
unknown although the structure of RIB43A and its
association with the specialised protofilament ribbons
and with basal bodies is relevant to the proposed role
of ribbons in forming and stabilising doublet and
triplet microtubules and in organising their
three-dimensional structure. Human RIB43A homologues
could represent a structural requirement in centriole
replication in dividing cells.
Length = 379
Score = 26.9 bits (60), Expect = 5.4
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 60 RRRNQEKFRWSSFFNSLTKV 79
RRRN+E R S FN+ +
Sbjct: 18 RRRNRELERQSRIFNAKVRT 37
>gnl|CDD|235433 PRK05368, PRK05368, homoserine O-succinyltransferase; Provisional.
Length = 302
Score = 26.3 bits (59), Expect = 7.0
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 45 KLLKDFPDKFSAPHPR 60
LL+ F D F PH R
Sbjct: 178 PLLRGFDDSFLVPHSR 193
>gnl|CDD|187562 cd05252, CDP_GD_SDR_e, CDP-D-glucose 4,6-dehydratase, extended (e)
SDRs. This subgroup contains CDP-D-glucose
4,6-dehydratase, an extended SDR, which catalyzes the
conversion of CDP-D-glucose to
CDP-4-keto-6-deoxy-D-glucose. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 336
Score = 26.5 bits (59), Expect = 7.8
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 10 DSISKFPAYERVSLRHPGFIRP 31
D I F A ERV +R+P IRP
Sbjct: 205 DCIRAFEAGERVIIRNPNAIRP 226
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
0.321 0.139 0.441
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,376,149
Number of extensions: 740655
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 618
Number of HSP's successfully gapped: 19
Length of query: 160
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 71
Effective length of database: 6,990,096
Effective search space: 496296816
Effective search space used: 496296816
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: 55 (24.9 bits)