RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17913
(121 letters)
>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional.
Length = 545
Score = 47.5 bits (113), Expect = 2e-07
Identities = 23/65 (35%), Positives = 29/65 (44%), Gaps = 8/65 (12%)
Query: 8 GTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMSAMGLYNKNSGFSRFNVSGGG 67
G +Y F TP R A+ LV VL EA Q V P L ++S N+ S + GG
Sbjct: 475 GASYTFLTPDKYRLARDLVKVLREAKQPVPPELEKLS--------NERSNGTERRRWGGY 526
Query: 68 GGGGG 72
G
Sbjct: 527 GRFSN 531
>gnl|CDD|213361 cd12827, EcCorA_ZntB-like_u2, uncharacterized bacterial subfamily
of the Escherichia coli CorA-Salmonella typhimurium ZntB
family. A uncharacterized subfamily of the Escherichia
coli CorA-Salmonella typhimurium ZntB (EcCorA-ZntB_like)
family of the MIT superfamily of essential membrane
proteins involved in transporting divalent cations
(uptake or efflux) across membranes.The EcCorA-ZntB-like
family includes the Mg2+ transporters Escherichia coli
and Salmonella typhimurium CorAs, which can also
transport Co2+, and Ni2+. Structures of the
intracellular domain of EcCorA-ZntB-like family members,
Vibrio parahaemolyticus and Salmonella typhimurium ZntB,
form funnel-shaped homopentamers, the tip of the funnel
is formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA. Natural
variants such as GVN and GIN, such as occur in some ZntB
family proteins, may be associated with the transport of
different divalent cations, such as zinc and cadmium.
The functional diversity of MIT transporters may also be
due to minor structural differences regulating gating,
substrate selection, and transport.
Length = 289
Score = 31.7 bits (73), Expect = 0.054
Identities = 9/47 (19%), Positives = 17/47 (36%), Gaps = 11/47 (23%)
Query: 13 FFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMSA------MGLYN 53
+ + L DV+IE Q EM+++ + M +
Sbjct: 178 RSLKLDEEDKELLEDVIIENKQ-----AIEMAEIYSDILSGLMDAFA 219
>gnl|CDD|224429 COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase
type [General function prediction only].
Length = 271
Score = 29.6 bits (67), Expect = 0.33
Identities = 16/44 (36%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 50 GLYNKNSGFSRFNVSGGGGGGGGYKRKNTDDYGSDGTRAKSGRW 93
G ++SG SGGG GGG+ GS G SG W
Sbjct: 232 GRRRRSSGSGGSGGSGGGSSGGGFSGGG----GSSGGGGASGSW 271
>gnl|CDD|203379 pfam06028, DUF915, Alpha/beta hydrolase of unknown function
(DUF915). This family consists of several bacterial
proteins of unknown function. Members of this family
have an alpha/beta hydrolase fold.
Length = 255
Score = 29.2 bits (66), Expect = 0.44
Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 1/69 (1%)
Query: 18 NARHAKQLVDVLIEANQSVTPALSEMSQMSAMGLYNKNSGFSRFNVSGGGGGGGGYKRKN 77
+ ++ V E N++ + M N F +FN G GG
Sbjct: 62 SKDAKNPIIKVGFEDNRNASFDKQAKWLKKVMSYLQSNYNFKKFNAVGHSMGGLAATYY- 120
Query: 78 TDDYGSDGT 86
+DYG+D +
Sbjct: 121 MEDYGNDKS 129
>gnl|CDD|180777 PRK06958, PRK06958, single-stranded DNA-binding protein;
Provisional.
Length = 182
Score = 28.6 bits (64), Expect = 0.65
Identities = 20/47 (42%), Positives = 23/47 (48%)
Query: 65 GGGGGGGGYKRKNTDDYGSDGTRAKSGRWDQSSSGGYGGAAKGYQSR 111
GGGG GGY G G ++SG +SGG GG A G SR
Sbjct: 118 GGGGDEGGYGGGGGGGGGGYGGESRSGGGGGRASGGGGGGAGGGASR 164
Score = 25.1 bits (55), Expect = 9.7
Identities = 22/53 (41%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 64 SGGGGGGGGYKRKNTDDYGSDGTRAKSGRWDQSSSGGYGGAAKGYQSRGYRGG 116
GGGGGGG + YG G G +S SGG GG A G G GG
Sbjct: 113 GSGGGGGGGDE----GGYGGGGGGGGGGYGGESRSGGGGGRASGGGGGGAGGG 161
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 28.2 bits (63), Expect = 1.1
Identities = 18/59 (30%), Positives = 18/59 (30%), Gaps = 8/59 (13%)
Query: 58 FSRFNVSGGGGGGGGYKRKNTDDYGSDGTRAKSGRWDQSSSGGYGGAAKGYQSRGYRGG 116
GG GGG G G G GR G GG G RG GG
Sbjct: 1 GMGGGFGGGRGGGRGGGGGGGRGGGGRGGGRGGGR-----GRGRGGGGGG---RGGGGG 51
Score = 25.8 bits (57), Expect = 7.1
Identities = 17/51 (33%), Positives = 19/51 (37%)
Query: 57 GFSRFNVSGGGGGGGGYKRKNTDDYGSDGTRAKSGRWDQSSSGGYGGAAKG 107
GF G GGGGGG + G G R + GG GG G
Sbjct: 5 GFGGGRGGGRGGGGGGGRGGGGRGGGRGGGRGRGRGGGGGGRGGGGGGGPG 55
>gnl|CDD|218666 pfam05633, DUF793, Protein of unknown function (DUF793). This
family consists of several plant proteins of unknown
function.
Length = 389
Score = 27.9 bits (62), Expect = 1.3
Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 10/46 (21%)
Query: 66 GGGGGGGYKRKNTDDYGSDGTRAKSGRWDQSSSGGYGGAAKGYQSR 111
GG GGG++ ++ S R S G G G R
Sbjct: 173 SGGSGGGHRNRSFGRSWSFHHR----------SIGSSGGGTGGHLR 208
>gnl|CDD|235782 PRK06341, PRK06341, single-stranded DNA-binding protein;
Provisional.
Length = 166
Score = 27.5 bits (61), Expect = 1.6
Identities = 15/37 (40%), Positives = 16/37 (43%)
Query: 64 SGGGGGGGGYKRKNTDDYGSDGTRAKSGRWDQSSSGG 100
GGGGGGG D+GS G R S GG
Sbjct: 118 GEGGGGGGGGDDGGGGDFGSSGPSRGGPRPASSGGGG 154
>gnl|CDD|133434 cd05298, GH4_GlvA_pagL_like, Glycoside Hydrolases Family 4; GlvA-
and pagL-like glycosidases. Bacillus subtilis GlvA and
Clostridium acetobutylicum pagL are
6-phospho-alpha-glucosidase, catalyzing the hydrolysis
of alpha-glucopyranoside bonds to release glucose from
oligosaccharides. The substrate specificities of other
members of this subgroup are unknown. Some bacteria
simultaneously translocate and phosphorylate
disaccharides via the phosphoenolpyruvate-dependent
phosphotransferase system (PEP_PTS). After
translocation, these phospho-disaccharides may be
hydrolyzed by the GH4 glycoside hydrolases, which
include 6-phospho-beta-glucosidases,
6-phospho-alpha-glucosidases,
alpha-glucosidases/alpha-glucuronidases (only from
Thermotoga), and alpha-galactosidases. Members of this
subfamily are part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 437
Score = 27.2 bits (61), Expect = 2.2
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 18 NARHAKQLVDVLIEANQSVTPAL 40
+A+ AK+++D LIEAN+ P L
Sbjct: 414 SAKVAKEVLDDLIEANKGYWPEL 436
>gnl|CDD|224074 COG1152, CdhA, CO dehydrogenase/acetyl-CoA synthase alpha subunit
[Energy production and conversion].
Length = 772
Score = 26.7 bits (59), Expect = 3.5
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 6/27 (22%)
Query: 5 CFIGTAYAFFTPGNARHAKQLVDVLIE 31
C IGTA +A HA+ LVD LIE
Sbjct: 103 CCIGTA------CHAAHARHLVDHLIE 123
>gnl|CDD|183624 PRK12616, PRK12616, pyridoxal kinase; Reviewed.
Length = 270
Score = 26.2 bits (57), Expect = 5.5
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 21 HAKQLVDVLIEANQSVTPALSEMSQMSAMG 50
HA+ L + L +TP L E Q+S MG
Sbjct: 123 HAEALREQLAPLATVITPNLFEAGQLSGMG 152
>gnl|CDD|227151 COG4814, COG4814, Uncharacterized protein with an alpha/beta
hydrolase fold [General function prediction only].
Length = 288
Score = 25.9 bits (57), Expect = 5.6
Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 2/60 (3%)
Query: 25 LVDVLIEANQSVTPALSEMSQMSAMGLYNKNSGFSRFNVSGGGGGGGGYKRKNTDDYGSD 84
+++ E N + + AM K+ +FN G GG G DYG D
Sbjct: 103 IIEFGFEDNTA-SGLDQSKWLKKAMSYLQKHYNIPKFNAVGHSMGGLGLTYY-MIDYGDD 160
>gnl|CDD|218967 pfam06273, eIF-4B, Plant specific eukaryotic initiation factor 4B.
This family consists of several plant specific
eukaryotic initiation factor 4B proteins.
Length = 496
Score = 25.8 bits (56), Expect = 6.5
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 65 GGGGGGGGYKRKNTDDYGSDGTRAKSGRWDQSSSGGYGGA 104
GGGGGGGG + + + S RW + +G A
Sbjct: 188 GGGGGGGGGGERRSGGFRDSPGADDSDRWGRKKVETFGSA 227
>gnl|CDD|226808 COG4371, COG4371, Predicted membrane protein [Function unknown].
Length = 334
Score = 25.7 bits (56), Expect = 7.0
Identities = 9/31 (29%), Positives = 11/31 (35%)
Query: 86 TRAKSGRWDQSSSGGYGGAAKGYQSRGYRGG 116
GR S G ++GY G GG
Sbjct: 46 AARSGGRIGGGSFRAPSGYSRGYSGGGPSGG 76
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
0.313 0.132 0.394
Gapped
Lambda K H
0.267 0.0630 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,095,120
Number of extensions: 509485
Number of successful extensions: 516
Number of sequences better than 10.0: 1
Number of HSP's gapped: 450
Number of HSP's successfully gapped: 48
Length of query: 121
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 37
Effective length of database: 7,211,866
Effective search space: 266839042
Effective search space used: 266839042
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.4 bits)