RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 036219
(149 letters)
>gnl|CDD|233147 TIGR00840, b_cpa1, sodium/hydrogen exchanger 3. The Monovalent
Cation:Proton Antiporter-1 (CPA1) Family (TC 2.A.36)The
CPA1 family is a large family of proteins derived from
Gram-positive and Gram-negative bacteria, blue green
bacteria, yeast, plants and animals.Transporters from
eukaryotes have been functionally characterized, and all
of these catalyze Na+:H+ exchange. Their primary
physiological functions may be in(1) cytoplasmic pH
regulation, extruding the H+ generated during
metabolism, and (2) salt tolerance (in plants), due to
Na+ uptake into vacuoles.This model is specific for the
eukaryotic members members of this family [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 559
Score = 34.4 bits (79), Expect = 0.017
Identities = 32/117 (27%), Positives = 51/117 (43%), Gaps = 7/117 (5%)
Query: 13 ILQIMMLVLSFVLGHVLRRHKFYYLPEASASLLIGLSVGALANISNTETNIRYSFSFNEL 72
IL + + F L H + R +PE+ ++ GL VG + S S+ L
Sbjct: 15 ILLASLAKIGFHLTHKVIR----AVPESVLLIVYGLLVGGIIKASPHIDPPTLDSSYFFL 70
Query: 73 ICSSATCLVMILFSWQKPFFSNFGAIVTFAIFGTFLASMVMGIPVSVLFLLCSSFCF 129
L F Q+ FF N G+I+ FA+ GT + + V+G+ L+ +C F
Sbjct: 71 YLLPPIVLDAGYFMPQRNFFENLGSILIFAVVGTLINAFVIGL---SLYGICLIGGF 124
>gnl|CDD|184389 PRK13912, PRK13912, nuclease NucT; Provisional.
Length = 177
Score = 29.7 bits (67), Expect = 0.40
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 9/65 (13%)
Query: 12 IILQIMMLVLSFVLGHVLRRHKFYYLPEASASLLIGLSVGALANISNTETNIR---YSFS 68
I+ + +LV LG + + Y+LP L L + ISN ++I+ YSF+
Sbjct: 4 KIVGVFLLVGC--LGVLQAKSSLYFLPYEQKDALNKLV----SLISNARSSIKIAIYSFT 57
Query: 69 FNELI 73
++
Sbjct: 58 HKDIA 62
>gnl|CDD|184004 PRK13365, PRK13365, protocatechuate 4,5-dioxygenase subunit beta;
Provisional.
Length = 279
Score = 28.3 bits (63), Expect = 1.3
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 15 QIMMLVLSFVLGHVLRR-HKFYYLPEASASLLIGLSVG 51
QIM L + LG +R+ H+ YYL +A ++ G
Sbjct: 241 QIMWLAMRGALGGPIRKLHQNYYLMTTTAMTVVLYEPG 278
>gnl|CDD|182695 PRK10747, PRK10747, putative protoheme IX biogenesis protein;
Provisional.
Length = 398
Score = 28.1 bits (63), Expect = 2.1
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 4 EQQATGVGIILQIMMLVLSFVLGHVLRR 31
E TG+ IIL + M+VL F + +LRR
Sbjct: 38 ETSVTGLAIILILAMVVL-FAIEWLLRR 64
>gnl|CDD|239584 cd03507, Delta12-FADS-like, The Delta12 Fatty Acid Desaturase
(Delta12-FADS)-like CD includes the integral-membrane
enzymes, delta-12 acyl-lipid desaturases, oleate
12-hydroxylases, omega3 and omega6 fatty acid
desaturases, and other related proteins, found in a wide
range of organisms including higher plants, green algae,
diatoms, nematodes, fungi, and bacteria. The expression
of these proteins appears to be temperature dependent:
decreases in temperature result in increased levels of
fatty acid desaturation within membrane lipids
subsequently altering cell membrane fluidity. An
important enzyme for the production of polyunsaturates
in plants is the oleate delta-12 desaturase (Arabidopsis
FAD2) of the endoplasmic reticulum. This enzyme accepts
l-acyl-2-oleoyl-sn-glycero-3-phosphocholine as substrate
and requires NADH:cytochrome b oxidoreductase,
cytochrome b, and oxygen for activity. FAD2 converts
oleate(18:1) to linoleate (18:2) and is closely related
to oleate 12-hydroxylase which catalyzes the
hydroxylation of oleate to ricinoleate. Plastid-bound
desaturases (Arabidopsis delta-12 desaturase (FAD6),
omega-3 desaturase (FAD8), omega-6 desaturase (FAD6)),
as well as, the cyanobacterial thylakoid-bound FADSs
require oxygen, ferredoxin, and ferredoxin
oxidoreductase for activity. As in higher plants, the
cyanobacteria delta-12 (DesA) and omega-3 (DesB) FADSs
desaturate oleate (18:1) to linoleate (18:2) and
linoleate (18:2) to linolenate (18:3), respectively.
Omega-3 (DesB/FAD8) and omega-6 (DesD/FAD6) desaturases
catalyze reactions that introduce a double bond between
carbons three and four, and carbons six and seven,
respectively, from the methyl end of fatty acids. As
with other members of this superfamily, this domain
family has extensive hydrophobic regions that would be
capable of spanning the membrane bilayer at least twice.
Comparison of sequences also reveals the existence of
three regions of conserved histidine cluster motifs that
contain eight histidine residues: HXXXH, HXX(X)HH, and
HXXHH. These histidine residues are reported to be
catalytically essential and proposed to be the ligands
for the iron atoms contained within the homologue,
stearoyl CoA desaturase. Mutation of any one of four of
these histidines in the Synechocystis delta-12
acyl-lipid desaturase resulted in complete inactivity.
Length = 222
Score = 27.6 bits (62), Expect = 2.3
Identities = 7/49 (14%), Positives = 18/49 (36%)
Query: 93 SNFGAIVTFAIFGTFLASMVMGIPVSVLFLLCSSFCFWAIPMIWICMWL 141
+ + + + +M +LL + ++ IP + + WL
Sbjct: 110 EEYAELPKRLPYRLYRNPFLMLSLGWPYYLLLNVLLYYLIPYLVVNAWL 158
>gnl|CDD|182931 PRK11055, galM, galactose-1-epimerase; Provisional.
Length = 342
Score = 27.2 bits (61), Expect = 3.6
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 10/48 (20%)
Query: 24 VLGHVLRRHKFYYLPEASASLLIGLSVGALANISNTETNIRYSFSFNE 71
V H L+ + YLP G+ G L +++ T SF F +
Sbjct: 183 VRNHKLQINADEYLPVDEG----GIPNGGLKSVAGT------SFDFRQ 220
>gnl|CDD|152206 pfam11770, GAPT, GRB2-binding adapter (GAPT). This is a family of
transmembrane proteins which bind the growth factor
receptor-bound protein 2 (GRB2) in B cells. In contrast
to other transmembrane adaptor proteins, GAPT is not
phosphorylated upon BCR ligation. It associates with
GRB2 constitutively through its proline-rich region.
Length = 158
Score = 26.8 bits (59), Expect = 3.9
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 103 IFGTFLASMVMGIPVSVLFLLCSSFCFW 130
G ++ +GI + +L +LC C W
Sbjct: 4 CCGNSPVAVSVGISLLLLLVLCGIGCVW 31
>gnl|CDD|237376 PRK13396, PRK13396, 3-deoxy-7-phosphoheptulonate synthase;
Provisional.
Length = 352
Score = 27.0 bits (60), Expect = 4.1
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 1 LAKEQQATGVGIILQIM 17
LA ++ATG+GII ++M
Sbjct: 157 LAAAREATGLGIITEVM 173
>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 = 26.0 bits (58), Expect = 7.5
Identities = 12/65 (18%), Positives = 25/65 (38%)
Query: 72 LICSSATCLVMILFSWQKPFFSNFGAIVTFAIFGTFLASMVMGIPVSVLFLLCSSFCFWA 131
L I+ + P + G I ++F T +A + + V++LF L +
Sbjct: 106 FFIFFLHILFCIIQAVGIPGWGLCGWITAISLFSTNVAVGIFMLIVAILFTLEALLSVIL 165
Query: 132 IPMIW 136
+ +
Sbjct: 166 LKKVH 170
>gnl|CDD|221697 pfam12666, PrgI, PrgI family protein. This family of proteins is
functionally uncharacterized. This family of proteins is
found in bacteria. Proteins in this family are typically
between 116 and 146 amino acids in length. This protein
is found in an operon that is part of a Type IV
secretion system.
Length = 93
Score = 25.2 bits (56), Expect = 8.4
Identities = 15/69 (21%), Positives = 29/69 (42%), Gaps = 12/69 (17%)
Query: 56 ISNTETNIRYSFSFNELICSSATCLVMILFSWQKPFFSNFGAIVTFAIFGTFLASMVMGI 115
I+ E + + + +LIC + LV + + + GT +A+++M I
Sbjct: 6 ITKYEEKVLFGLTKRQLICLAIAALVGVGVYF-----------LLRLFLGTDVAAILM-I 53
Query: 116 PVSVLFLLC 124
V + F L
Sbjct: 54 LVMLPFALF 62
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
0.333 0.141 0.445
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,535,840
Number of extensions: 681501
Number of successful extensions: 2243
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2202
Number of HSP's successfully gapped: 262
Length of query: 149
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 61
Effective length of database: 7,034,450
Effective search space: 429101450
Effective search space used: 429101450
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 54 (24.5 bits)