RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13416
(67 letters)
>gnl|CDD|173506 PTZ00281, PTZ00281, actin; Provisional.
Length = 376
Score = 130 bits (329), Expect = 6e-39
Identities = 58/64 (90%), Positives = 60/64 (93%)
Query: 1 MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ 60
M E+V ALV+DNGSGMCKAGFAGDDAPRAVFPSIVGRPRH GVMVGMGQKDSYVGDEAQ
Sbjct: 1 MDGEDVQALVIDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHTGVMVGMGQKDSYVGDEAQ 60
Query: 61 SKRG 64
SKRG
Sbjct: 61 SKRG 64
>gnl|CDD|240225 PTZ00004, PTZ00004, actin-2; Provisional.
Length = 378
Score = 109 bits (273), Expect = 1e-30
Identities = 49/64 (76%), Positives = 53/64 (82%)
Query: 1 MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ 60
M EE A VVDNGSGM KAGFAGDDAPR VFPSIVGRP++ G+MVGM +KD YVGDEAQ
Sbjct: 1 MSVEETNAAVVDNGSGMVKAGFAGDDAPRCVFPSIVGRPKNPGIMVGMEEKDCYVGDEAQ 60
Query: 61 SKRG 64
KRG
Sbjct: 61 DKRG 64
>gnl|CDD|214592 smart00268, ACTIN, Actin. ACTIN subfamily of
ACTIN/mreB/sugarkinase/Hsp70 superfamily.
Length = 373
Score = 97.7 bits (244), Expect = 3e-26
Identities = 39/59 (66%), Positives = 45/59 (76%), Gaps = 1/59 (1%)
Query: 6 VAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRG 64
V A+V+DNGSG KAGFAG+D P+ VFPSIVGRP+ MVG KD +VGDEAQ KRG
Sbjct: 1 VPAIVIDNGSGTIKAGFAGEDFPQVVFPSIVGRPKDGKGMVG-DAKDIFVGDEAQEKRG 58
>gnl|CDD|200935 pfam00022, Actin, Actin.
Length = 367
Score = 95.8 bits (239), Expect = 1e-25
Identities = 42/61 (68%), Positives = 48/61 (78%), Gaps = 5/61 (8%)
Query: 4 EEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKR 63
+EV+ALV+DNGSG KAGFAG+DAPRAV PS+VGRPR +GVMV YVGDEA SKR
Sbjct: 1 DEVSALVIDNGSGTTKAGFAGEDAPRAVIPSVVGRPRGRGVMV-----KYYVGDEALSKR 55
Query: 64 G 64
Sbjct: 56 P 56
>gnl|CDD|227602 COG5277, COG5277, Actin and related proteins [Cytoskeleton].
Length = 444
Score = 89.8 bits (223), Expect = 4e-23
Identities = 36/66 (54%), Positives = 45/66 (68%), Gaps = 1/66 (1%)
Query: 1 MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPR-HQGVMVGMGQKDSYVGDEA 59
M + V +V+DNGSG KAGFAG+D P VFPSIVGR R VM +KD+YVG+EA
Sbjct: 1 MTGDNVPTIVIDNGSGTTKAGFAGNDTPTTVFPSIVGRRRDEDSVMEDTEEKDTYVGNEA 60
Query: 60 QSKRGS 65
Q+ R +
Sbjct: 61 QNDRDN 66
>gnl|CDD|240426 PTZ00466, PTZ00466, actin-like protein; Provisional.
Length = 380
Score = 75.4 bits (185), Expect = 4e-18
Identities = 28/56 (50%), Positives = 42/56 (75%)
Query: 9 LVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRG 64
+++DNG+G KAGFAG+D P VFPS VGRP+++ VM G + + +VG++A+ RG
Sbjct: 15 IIIDNGTGYIKAGFAGEDVPNLVFPSYVGRPKYKRVMAGAVEGNIFVGNKAEEYRG 70
>gnl|CDD|185631 PTZ00452, PTZ00452, actin; Provisional.
Length = 375
Score = 74.4 bits (182), Expect = 1e-17
Identities = 32/57 (56%), Positives = 41/57 (71%)
Query: 8 ALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRG 64
A+V+DNGSG CK G AGDDAP + FP+IVGR + + K+ YVG+EAQ+KRG
Sbjct: 7 AVVIDNGSGYCKIGIAGDDAPTSCFPAIVGRSKQNDGIFSTFNKEYYVGEEAQAKRG 63
>gnl|CDD|240343 PTZ00280, PTZ00280, Actin-related protein 3; Provisional.
Length = 414
Score = 48.2 bits (115), Expect = 2e-08
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 8 ALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMV---GMGQKDSYVGDEAQSKRG 64
+V+DNG+G K G+AG+ P + P+++ Q G D Y+GDEA +
Sbjct: 6 VVVIDNGTGYTKMGYAGNTEPTYIIPTLIADNSKQSRRRSKKGFEDLDFYIGDEALAASK 65
Query: 65 SY 66
SY
Sbjct: 66 SY 67
>gnl|CDD|212657 cd00012, NBD_sugar-kinase_HSP70_actin, Nucleotide-Binding Domain
of the sugar kinase/HSP70/actin superfamily. This
superfamily includes the actin family, the HSP70 family
of molecular chaperones and nucleotide exchange
factors, the ROK (repressor, ORF, kinase) family, the
hexokinase family, the FGGY family (which includes
glycerol kinase and similar carbohydrate kinases such
as rhamnulokinase and xylulokinase), the
exopolyphosphatase/guanosine pentaphosphate
phosphohydrolase/nucleoside triphosphate
diphosphohydrolase family, propionate kinase/acetate
kinase family, glycerol dehydratase reactivase,
2-hydroxyglutaryl-CoA dehydratase component A,
N-acetylglucosamine kinase, butyrate kinase 2,
Escherichia coli YeaZ and similar glycoproteases, the
cell shape-determining protein MreB, the plasmid DNA
segregation factor ParM, cell cycle proteins FtsA, Pili
assembly protein PilM, ethanolamine utilization protein
EutJ, and similar proteins. The nucleotide-binding site
residues are conserved; the nucleotide sits in a deep
cleft formed between the two lobes of the
nucleotide-binding domain (NBD). Substrate binding to
superfamily members is associated with closure of this
catalytic site cleft. The functional activities of
several members of the superfamily, including
hexokinases, actin, and HSP70s, are modulated by
allosteric effectors, which may act on the cleft
closure.
Length = 185
Score = 30.6 bits (69), Expect = 0.025
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 9 LVVDNGSGMCKAGFAGDDA---PRAVFPSIVGRPRHQGV 44
L +D GS KAG A D P + P+ VGRP
Sbjct: 1 LGIDIGSTSTKAGVADLDGEILPEEIVPTPVGRPGAVTD 39
>gnl|CDD|237554 PRK13909, PRK13909, putative recombination protein RecB;
Provisional.
Length = 910
Score = 27.2 bits (61), Expect = 0.48
Identities = 12/26 (46%), Positives = 12/26 (46%), Gaps = 7/26 (26%)
Query: 47 GMGQKDS----YVGDEAQSK---RGS 65
G GQK YVGD QS RG
Sbjct: 358 GEGQKKFRSFFYVGDVKQSIYRFRGG 383
>gnl|CDD|198362 cd07789, FGGY_CsGK_like, Cellulomonas sp. glycerol kinase-like
proteins; belongs to the FGGY family of carbohydrate
kinases. This subgroup corresponds to a small group of
bacterial glycerol kinases (GK) with similarity to
Cellulomonas sp. glycerol kinase (CsGK). CsGK might
exist as a dimer. Its monomer is composed of two large
domains separated by a deep cleft that forms the active
site. This model includes both the N-terminal domain,
which adopts a ribonuclease H-like fold, and the
structurally related C-terminal domain. The regulation
of the catalytic activity of this group has not yet been
examined. Members in this subgroup belong to the FGGY
family of carbohydrate kinases.
Length = 495
Score = 26.6 bits (59), Expect = 0.97
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 7/45 (15%)
Query: 4 EEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGM 48
E +A V DNG F+G AP R +GV+VG+
Sbjct: 329 ETLARTVEDNGGVYFVPAFSGLFAPY-------WRSDARGVIVGL 366
>gnl|CDD|130176 TIGR01106, ATPase-IIC_X-K, sodium or proton efflux -- potassium
uptake antiporter, P-type ATPase, alpha subunit. This
model describes the P-type ATPases responsible for the
exchange of either protons or sodium ions for potassium
ions across the plasma membranes of eukaryotes. Unlike
most other P-type ATPases, members of this subfamily
require a beta subunit for activity. This model
encompasses eukaryotes and consists of two functional
types, a Na/K antiporter found widely distributed in
eukaryotes and a H/K antiporter found only in
vertebrates. The Na+ or H+/K+ antiporter P-type ATPases
have been characterized as Type IIC based on a published
phylogenetic analysis. Sequences from Blastocladiella
emersonii (GP|6636502, GP|6636502 and PIR|T43025), C.
elegans (GP|2315419, GP|6671808 and PIR|T31763) and
Drosophila melanogaster (GP|7291424) score below trusted
cutoff, apparently due to long branch length (excessive
divergence from the last common ancestor) as evidenced
by a phylogenetic tree. Experimental evidence is needed
to determine whether these sequences represent ATPases
with conserved function. Aside from fragments, other
sequences between trusted and noise appear to be
bacterial ATPases of unclear lineage, but most likely
calcium pumps [Energy metabolism, ATP-proton motive
force interconversion].
Length = 997
Score = 26.7 bits (59), Expect = 0.98
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 15 SGMCKAGFAGD-DAPRAVFPSIVGRPRHQGVMVGM 48
+C G D PRA P VG+ R G+ V M
Sbjct: 555 DNLCFVGLISMIDPPRAAVPDAVGKCRSAGIKVIM 589
>gnl|CDD|234454 TIGR04066, nat_prod_clost, peptide maturation system protein,
TIGR04066 family. Members of this protein family occur
in various Clostridial genomes, always in the context
of a short peptide and a radical SAM protein predicted
to modify the short peptide. PSI-BLAST analysis
suggests a sequence relationship to archaeal proteins
designated as subunits of an H+-transporting two-sector
ATPase. The modified peptide is likely to be a
bacteriocin, and this protein is a candidate to act in
either maturation or immunity.
Length = 361
Score = 26.5 bits (59), Expect = 0.99
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 5/27 (18%)
Query: 1 MCDEEVAALVVDNGSGMCKAGFAGDDA 27
+ D E+ ALV NG G+ G DA
Sbjct: 22 LKDYEIVALVSPNGWGLI-----GKDA 43
>gnl|CDD|234630 PRK00095, mutL, DNA mismatch repair protein; Reviewed.
Length = 617
Score = 25.9 bits (58), Expect = 1.7
Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 5/22 (22%)
Query: 10 VVDNGSGMCKAGFAGDDAPRAV 31
V DNG G+ + +D A+
Sbjct: 56 VRDNGCGI-----SKEDLALAL 72
>gnl|CDD|183738 PRK12775, PRK12775, putative trifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta/ferritin
domain-containing protein; Provisional.
Length = 1006
Score = 25.3 bits (55), Expect = 2.4
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 13/49 (26%)
Query: 30 AVFPSIVGRP-------------RHQGVMVGMGQKDSYVGDEAQSKRGS 65
++FPSI GR + VG+G+ + +VGD A++K
Sbjct: 374 SIFPSICGRVCPQETQCEAQCIIAKKHESVGIGRLERFVGDNARAKPVK 422
>gnl|CDD|240232 PTZ00021, PTZ00021, falcipain-2; Provisional.
Length = 489
Score = 24.7 bits (54), Expect = 4.4
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 39 PRHQGVMVGMGQKDSYVGDEAQSKRGSYY 67
P H ++VG G ++ Y D + ++ YY
Sbjct: 420 PNHAVILVGYGMEEIYNSDTKKMEKRYYY 448
>gnl|CDD|234217 TIGR03458, YgfH_subfam, succinate CoA transferase. This family
of CoA transferases includes enzymes catalyzing at
least two related but distinct activities. The E. coli
YgfH protein has been characterized as a
propionyl-CoA:succinate CoA transferase where it
appears to be involved in a pathway for the
decarboxylation of succinate to propionate. The
Clostridium kluyveri CAT1 protein has been
characterized as a acetyl-CoA:succinate CoA transferase
and is believed to be involved in anaerobic succinate
degradation. The propionate:succinate transferase
activity has been reported in the propionic acid
fermentation of propionibacterium species where it is
distinct from the coupled activities of distinct
nucleotide-triphosphate dependent succinate and
propionate/acetate CoA transferases (as inferred from
activity in the absence of NTPs). The family
represented by this model includes a member from
Propionibacterium acnes KPA171202 which is likely to be
responsible for this activity. A closely related clade
not included in this family are the Ach1p proteins of
fungi which are acetyl-CoA hydrolases. This name has
been applied to many of the proteins modeled by This
model, possibly erroneously.
Length = 485
Score = 24.1 bits (53), Expect = 7.1
Identities = 9/38 (23%), Positives = 19/38 (50%)
Query: 5 EVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQ 42
+ AA ++ +G + +GF P+AV ++ R +
Sbjct: 6 DEAAALIKDGMTVGMSGFTPAGYPKAVPAALAKRAKAA 43
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
0.317 0.136 0.409
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,364,970
Number of extensions: 249934
Number of successful extensions: 232
Number of sequences better than 10.0: 1
Number of HSP's gapped: 228
Number of HSP's successfully gapped: 18
Length of query: 67
Length of database: 10,937,602
Length adjustment: 38
Effective length of query: 29
Effective length of database: 9,252,150
Effective search space: 268312350
Effective search space used: 268312350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.1 bits)