RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4531
(88 letters)
>gnl|CDD|190882 pfam04144, SCAMP, SCAMP family. In vertebrates, secretory carrier
membrane proteins (SCAMPs) 1-3 constitute a family of
putative membrane-trafficking proteins composed of
cytoplasmic N-terminal sequences with NPF repeats, four
central transmembrane regions (TMRs), and a cytoplasmic
tail. SCAMPs probably function in endocytosis by
recruiting EH-domain proteins to the N-terminal NPF
repeats but may have additional functions mediated by
their other sequences.
Length = 177
Score = 81.9 bits (203), Expect = 3e-21
Identities = 37/85 (43%), Positives = 48/85 (56%)
Query: 4 HAGLMLVNILGSLLLMMHSGEIERVFLAVFFTFLLTPFSFVCWFRPAYKAFKDDSSFNFM 63
+ NI+ L L + G L++ + L TP SFVCW+RP YKAF+ DSSFNF
Sbjct: 44 LVLTLFYNIIACLALFIGGGGGTDFGLSILYFILGTPGSFVCWYRPVYKAFRTDSSFNFF 103
Query: 64 VFFFIFIFQFIVSLIQAIGTQGSGT 88
FFFIF + +IQA+G G G
Sbjct: 104 WFFFIFFLHILFCIIQAVGIPGWGL 128
>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter
subunit G; Reviewed.
Length = 197
Score = 32.0 bits (72), Expect = 0.021
Identities = 26/59 (44%), Positives = 28/59 (47%), Gaps = 10/59 (16%)
Query: 2 RIHAGLMLVNILG-SLLLM------MHSGE--IERVFLAVFFTFLLTPFSFVCWFRPAY 51
R HA + N G SLLL HSGE RV LAV F FL TP + R AY
Sbjct: 36 RTHAA-GISNTFGVSLLLFATVGYFFHSGEGFNARVLLAVLFIFLTTPVASHLINRAAY 93
>gnl|CDD|221201 pfam11744, ALMT, Aluminium activated malate transporter.
Length = 399
Score = 26.5 bits (59), Expect = 1.6
Identities = 16/59 (27%), Positives = 22/59 (37%), Gaps = 4/59 (6%)
Query: 13 LGSLLLMMHSGEIERVFLAVFFTFLLTPFSFVCWFRPAYKAFKDDSSFNFMVFFFIFIF 71
G L SG+I + FL+ + F PA KA+ + F VF F
Sbjct: 78 FGVHHLASSSGKIGEPIVIGVSVFLIGFLATFSRFHPAIKAY----DYGFRVFLLTFCL 132
>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 26.2 bits (58), Expect = 2.6
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 36 FLLTPFSFVCWFRPAYKAFKDDSSFNFMV 64
F ++PFSF+ F+ K F N V
Sbjct: 66 FGISPFSFIEGFKIGDKVFISKEGLNIPV 94
>gnl|CDD|234092 TIGR03023, WcaJ_sugtrans, Undecaprenyl-phosphate glucose
phosphotransferase. This family of proteins encompasses
the E. coli WcaJ protein involved in colanic acid
biosynthesis , the Methylobacillus EpsB protein involved
in methanolan biosynthesis , as well as the GumD protein
involved in the biosynthesis of xanthan. All of these
are closely related to the well-characterized WbaP
(formerly RfbP) protein which is the first enzyme in
O-antigen biosynthesis in Salmonella typhimurium. The
enzyme transfers galactose from UDP-galactose (NOTE: not
glucose) to a polyprenyl carrier (utilizing the highly
conserved C-terminal sugar transferase domain,
pfam02397) a reaction which takes place at the
cytoplasmic face of the inner membrane. The N-terminal
hydrophobic domain is then believed to facilitate the
"flippase" function of transferring the liposaccharide
unit from the cytoplasmic face to the periplasmic face
of the inner membrane. Most of these genes are found
within large operons dedicated to the production of
complex exopolysaccharides such as the enterobacterial
O-antigen. Colanic acid biosynthesis utilizes a
glucose-undecaprenyl carrier , knockout of EpsB
abolishes incorporation of UDP-glucose into the lipid
phase and the C-terminal portion of GumD has been shown
to be responsible for the glucosyl-1-transferase
activity.
Length = 451
Score = 26.0 bits (58), Expect = 2.6
Identities = 10/60 (16%), Positives = 22/60 (36%), Gaps = 8/60 (13%)
Query: 20 MHSGEIERVFLAVFFTFLLTPFSFVCWFRPAYKAFKDDSSFNFMVFFFIFIFQFIVSLIQ 79
+ R+ LA TFL+ + + + K + F+ + F+ + L+
Sbjct: 59 RLREMLLRILLAWTLTFLI--LALLAFL------LKYGTEFSRLWLLLWFLLALALLLLG 110
>gnl|CDD|216382 pfam01238, PMI_typeI, Phosphomannose isomerase type I. This is a
family of Phosphomannose isomerase type I enzymes (EC
5.3.1.8).
Length = 373
Score = 26.0 bits (57), Expect = 3.1
Identities = 10/29 (34%), Positives = 12/29 (41%), Gaps = 9/29 (31%)
Query: 21 HSGEIERVFLAVFFTFLLTPFSFVCWFRP 49
H E+ LTPF +C FRP
Sbjct: 123 HKPEL---------AIALTPFEGLCGFRP 142
>gnl|CDD|152466 pfam12031, DUF3518, Domain of unknown function (DUF3518). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is about 260
amino acids in length. This domain is found associated
with pfam01388.
Length = 257
Score = 25.2 bits (55), Expect = 4.7
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 1 MRIHAGLMLVNILGSLLLMMH 21
M H GL+L ILG LLL+ H
Sbjct: 27 MSRHPGLLL--ILGKLLLLHH 45
>gnl|CDD|234665 PRK00145, PRK00145, putative inner membrane protein translocase
component YidC; Provisional.
Length = 223
Score = 24.7 bits (54), Expect = 8.1
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 61 NFMVFFFIFIFQFIVSLI 78
N V FF FI F+ S+I
Sbjct: 7 NAFVQFFKFIHGFVSSVI 24
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
0.341 0.150 0.469
Gapped
Lambda K H
0.267 0.0746 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,651,358
Number of extensions: 408733
Number of successful extensions: 1958
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1850
Number of HSP's successfully gapped: 260
Length of query: 88
Length of database: 10,937,602
Length adjustment: 56
Effective length of query: 32
Effective length of database: 8,453,778
Effective search space: 270520896
Effective search space used: 270520896
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.9 bits)
S2: 53 (24.2 bits)