RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14982
(72 letters)
>gnl|CDD|201341 pfam00612, IQ, IQ calmodulin-binding motif. Calmodulin-binding
motif.
Length = 21
Score = 38.1 bits (90), Expect = 6e-06
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 30 EKAATKIQAVFRGHKTRK 47
KAA KIQA +RG+ RK
Sbjct: 1 RKAAIKIQAAWRGYLARK 18
Score = 26.9 bits (61), Expect = 0.15
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 9 EKAATKIQAVFR 20
KAA KIQA +R
Sbjct: 1 RKAAIKIQAAWR 12
>gnl|CDD|197470 smart00015, IQ, Calmodulin-binding motif. Short
calmodulin-binding motif containing conserved Ile and
Gln residues.
Length = 23
Score = 36.9 bits (87), Expect = 2e-05
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 28 ETEKAATKIQAVFRGHKTRK 47
+AA IQA +RG+ RK
Sbjct: 1 RLTRAAIIIQAAWRGYLARK 20
Score = 26.1 bits (59), Expect = 0.31
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 7 ETEKAATKIQAVFR 20
+AA IQA +R
Sbjct: 1 RLTRAAIIIQAAWR 14
>gnl|CDD|185341 PRK15444, pduC, propanediol dehydratase large subunit; Provisional.
Length = 554
Score = 28.1 bits (63), Expect = 0.31
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 9 EKAATKIQAVFRDIDLEDPETEK--AAT 34
KAA +QAVFR++ L E+ AAT
Sbjct: 413 NKAARALQAVFRELGLPPITDEEVEAAT 440
>gnl|CDD|145440 pfam02286, Dehydratase_LU, Dehydratase large subunit. This family
contains the large subunit of the trimeric diol
dehydratases and glycerol dehydratases. These enzymes
are produced by some enterobacteria in response to
growth substances.
Length = 554
Score = 27.8 bits (62), Expect = 0.36
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 9 EKAATKIQAVFRDIDLEDPETE--KAAT 34
KAA IQAVF + L E +AAT
Sbjct: 413 NKAARAIQAVFEGLGLPPITDEEVEAAT 440
>gnl|CDD|226437 COG3924, COG3924, Predicted membrane protein [Function unknown].
Length = 80
Score = 27.0 bits (60), Expect = 0.42
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 15 IQAVFRDIDLEDPETE 30
++ +FRDI LED +
Sbjct: 65 VKFIFRDIPLEDDDAA 80
>gnl|CDD|239658 cd03687, Dehydratase_LU, Dehydratase large subunit. This family
contains the large (alpha) subunit of B12-dependent
glycerol dehydratases (GDHs) and B12-dependent diol
dehydratases (DDHs). GDH is isofunctional with DDH.
These enzymes can each catalyze the conversion of
1,2-propanediol, glycerol, and 1,2-ethanediol to the
corresponding aldehydes via a coenzyme B12
(adenosylcobalamin)-dependent radical mechanism. Both
enzymes exhibit a subunit composition of
alpha2beta2gamma2. The enzymes differ in substrate
specificity; glycerol is the preferred substrate for GDH
and 1,2-propanediol for DDH. GDH shows almost equal
affinity for both (R) and (S)-isomers while DDH prefers
the (S) isomer. GDH plays a key role in the
dihydroxyacetone (DHA) pathway and DDH in the anaerobic
degradation of 1,2-diols. The radical mechanism has been
well studied for Klebsiella oxytoca DDH and involves
binding of 1,2-propanediol to the enzyme to induce
hemolytic cleavage of the Co-C5' bond of the coenzyme to
form cob(II)alamin and the adenosyl radical. Hydrogen
abstraction from the substrate follows producing a
substrate generated radical and 5'-deoxyadenosine.
Rearrangement to the product radical is then followed by
abstraction of a hydrogen atom from 5'-deoxyadenosine to
produce the hydrated propionaldehyde and regenerate the
adenosyl radical. After the Co-C5' bond is reformed and
the hydrated aldehyde dehydrated, the process is
complete. GDH has a higher affinity for coenzyme B12
than DDH. Both GDH and DDH are activated by various
monovalent cations with K+, NH4+, and Rb+ being the most
effective. However, DDH differs from GDH in that it is
partially active with Cs+ and Na+. In general, the alpha
and beta subunits for both enzymes are on different
chains. However, for a subset of the GDHs, alpha and
beta subunits appear to be on a single chain.
Length = 545
Score = 27.5 bits (61), Expect = 0.44
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 9 EKAATKIQAVFRDIDLEDPETEK 31
KAA IQAVFR++ L E+
Sbjct: 406 NKAARAIQAVFRELGLPPITDEE 428
>gnl|CDD|191467 pfam06196, DUF997, Protein of unknown function (DUF997). Family
of predicted bacterial membrane protein with unknown
function.
Length = 75
Score = 26.8 bits (60), Expect = 0.47
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 15 IQAVFRDIDLEDPE 28
++ F+DI L+D E
Sbjct: 60 VKFFFKDIPLDDEE 73
>gnl|CDD|100014 cd00286, Tubulin_FtsZ, Tubulin/FtsZ: Family includes tubulin
alpha-, beta-, gamma-, delta-, and epsilon-tubulins as
well as FtsZ, all of which are involved in polymer
formation. Tubulin is the major component of
microtubules, but also exists as a heterodimer and as a
curved oligomer. Microtubules exist in all eukaryotic
cells and are responsible for many functions, including
cellular transport, cell motility, and mitosis. FtsZ
forms a ring-shaped septum at the site of bacterial cell
division, which is required for constriction of cell
membrane and cell envelope to yield two daughter cells.
FtsZ can polymerize into tubes, sheets, and rings in
vitro and is ubiquitous in eubacteria, archaea, and
chloroplasts.
Length = 328
Score = 27.4 bits (61), Expect = 0.52
Identities = 5/30 (16%), Positives = 10/30 (33%), Gaps = 1/30 (3%)
Query: 26 DPETEKAATKIQAVFRGHKTRKDIEETMKT 55
DP + RG + ++ E +
Sbjct: 262 DPTHGGY-IAALLLVRGPVSPSEVREGIAR 290
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 26.5 bits (59), Expect = 1.1
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 2/38 (5%)
Query: 2 DLEDPETEKAATKIQAVFRDIDLEDPETEKAATKIQAV 39
LE E +T ++A IDL +P E A I +
Sbjct: 42 ALEALAAELRSTGVKAAAYSIDLSNP--EAIAPGIAEL 77
>gnl|CDD|173239 PRK14778, PRK14778, lipoprotein signal peptidase; Provisional.
Length = 186
Score = 25.2 bits (55), Expect = 2.7
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 15 IQAVFRDIDLEDPET--EKAATKIQAVFRGHKTRKDIEETMKTGDDETQNFEQ 65
I VFR D E E+ ++ + +VF G T DIE D Q+ Q
Sbjct: 131 ILGVFRGGDNESLESRKKRRGLETGSVFEGEDTVLDIEIVDSKSDKRGQSEGQ 183
>gnl|CDD|213339 cd05137, RasGAP_CLA2_BUD2, Ras-GTPase Activating Domain of
CLA2/BUD2. CLA2/BUD2 functions as a GTPase-activating
protein (GAP) for BUD1/RSR1 and is necessary for proper
bud-site selection in yeast. BUD2 has sequence
similarity to the catalytic domain of RasGAPs, and
stimulates the hydrolysis of BUD1-GTP to BUD1-GDP.
Elimination of Bud2p activity by mutation causes a
random budding pattern with no growth defect.
Overproduction of Bud2p also alters the budding pattern.
Length = 356
Score = 25.2 bits (56), Expect = 3.1
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 15 IQAVFRDIDLEDPETEKAATKIQAVFRGHKTRKDIEETMKT 55
I V R I E+ + E ++++ + +D+EE +
Sbjct: 122 IGDVIRKICEENKDCEVDPSRVKESDS-IEKEEDLEENWEN 161
>gnl|CDD|181564 PRK08849, PRK08849, 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Provisional.
Length = 384
Score = 25.1 bits (55), Expect = 3.9
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 19 FRDIDLEDPETEKAATKIQAVFRGHKTRKDIEE-TMKTGDDETQNFEQEFSAD 70
F+D+D+ ETEK A F ++ R+ + M+TG D F + FS
Sbjct: 303 FKDVDVLLAETEKQGVLNDASFARYERRRRPDNLLMQTGMDL---FYKTFSNS 352
>gnl|CDD|176799 cd08965, EcNei-like_N, N-terminal domain of Escherichia coli
Nei/endonuclease VIII and related DNA glycosylases.
This family contains the N-terminal domain of
proteobacteria Nei and related DNA glycosylases. It
includes Escherichia coli Nei, and belongs to the
FpgNei_N, [N-terminal domain of Fpg
(formamidopyrimidine-DNA glycosylase, MutM)_Nei
(endonuclease VIII)] domain superfamily. DNA
glycosylases maintain genome integrity by recognizing
base lesions created by ionizing radiation, alkylating
or oxidizing agents, and endogenous reactive oxygen
species. They initiate the base-excision repair
process, which is completed with the help of enzymes
such as phosphodiesterases, AP endonucleases, DNA
polymerases and DNA ligases. DNA glycosylases cleave
the N-glycosyl bond between the sugar and the damaged
base, creating an AP (apurinic/apyrimidinic) site. Most
FpgNei DNA glycosylases use their N-terminal proline
residue as the key catalytic nucleophile, and the
reaction proceeds via a Schiff base intermediate.
Escherichia coli Nei has been well studied, it is a DNA
glycosylase/AP lyase that excises damaged pyrimidines,
including 5-hydroxycytosine, 5-hydroxyuracil, and
uracil glycol. In addition to this EcNei-like_N domain,
enzymes belonging to this family contain a helix-two
turn-helix (H2TH) domain and a canonical zinc-finger
motif.
Length = 115
Score = 24.6 bits (54), Expect = 4.0
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 4 EDPETEKAATKIQAVFRDIDLED 26
E PE +AA +I+A + LE+
Sbjct: 2 EGPEIRRAADRIEAAIKGRPLEE 24
>gnl|CDD|237575 PRK13977, PRK13977, myosin-cross-reactive antigen; Provisional.
Length = 576
Score = 24.8 bits (55), Expect = 4.5
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 21 DIDLEDPETEKAATKIQAVFRGHKTRKDIEETMKTGDD 58
DID + +K AT I H TR EET+ +D
Sbjct: 251 DIDFDITGGKKTATAI------HLTRNGKEETIDLTED 282
>gnl|CDD|238596 cd01191, INT_phiCTX_C, phiCTX phage and phage-related integrases,
site-specific recombinases, DNA breaking-rejoining
enzymes, C-terminal catalytic domain. This CD includes
various phage and bacterial integrases, including those
similar to phage integrases: Bordetella and Pseudomonas
phiCTX; E. coli Rac, Qin, and Shiga toxin 2 933W; and
Salmonella typhimurium LT2 Gifsy-2 and Fels-1; and a
putative pore-forming cytotoxin integrase from Vibrio
parahaemolyticus O3:K6.
Length = 196
Score = 24.3 bits (53), Expect = 5.7
Identities = 12/39 (30%), Positives = 14/39 (35%), Gaps = 2/39 (5%)
Query: 12 ATKIQAVFRDIDLEDPETEKAATKIQAVFRGHKTRKDIE 50
K +A RD+DL P A K QA I
Sbjct: 67 VPKTKAGTRDVDLNPPALA--ALKEQAKLTRLSRPHQIT 103
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
0.307 0.126 0.333
Gapped
Lambda K H
0.267 0.0942 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,566,359
Number of extensions: 264073
Number of successful extensions: 273
Number of sequences better than 10.0: 1
Number of HSP's gapped: 272
Number of HSP's successfully gapped: 31
Length of query: 72
Length of database: 10,937,602
Length adjustment: 42
Effective length of query: 30
Effective length of database: 9,074,734
Effective search space: 272242020
Effective search space used: 272242020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 53 (23.8 bits)