RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8996
(95 letters)
>gnl|CDD|215823 pfam00258, Flavodoxin_1, Flavodoxin.
Length = 142
Score = 44.7 bits (106), Expect = 3e-07
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 36 TEVLRMDEYDMSS-IEHEALILVVASTFGNGDPPENGQEFAQNLHALRIGEDA 87
V+ +D+ D + I E L+L V ST+G+G+PP+N + F L + +
Sbjct: 28 VVVVSLDDVDETEEILEEDLVLFVTSTYGDGEPPDNAKPFEDWLLLFGLPLEG 80
>gnl|CDD|223446 COG0369, CysJ, Sulfite reductase, alpha subunit (flavoprotein)
[Inorganic ion transport and metabolism].
Length = 587
Score = 45.1 bits (107), Expect = 8e-07
Identities = 18/55 (32%), Positives = 26/55 (47%)
Query: 31 ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALRIGE 85
A V +D+Y I E L+L V ST G G+PP+N F + L + +
Sbjct: 74 AAGLQVLVASLDDYKPKDIAEERLLLFVVSTQGEGEPPDNAVAFHEFLKGKKAPK 128
>gnl|CDD|233643 TIGR01931, cysJ, sulfite reductase [NADPH] flavoprotein,
alpha-component. This model describes an
NADPH-dependent sulfite reductase flavoprotein subunit.
Most members of this family are found in Cys
biosynthesis gene clusters. The closest homologs below
the trusted cutoff are designated as subunits nitrate
reductase.
Length = 597
Score = 44.7 bits (106), Expect = 1e-06
Identities = 17/52 (32%), Positives = 29/52 (55%)
Query: 31 ANNYTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHALR 82
A ++ + D+Y ++ E L+L+V ST G G+PPE F + LH+ +
Sbjct: 85 AAGFSVRLSSADDYKFKQLKKERLLLLVISTQGEGEPPEEAISFHKFLHSKK 136
>gnl|CDD|182862 PRK10953, cysJ, sulfite reductase subunit alpha; Provisional.
Length = 600
Score = 34.3 bits (79), Expect = 0.004
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 43 EYDMSSIEHEALILVVASTFGNGDPPE 69
+Y I E L++VV ST G G+PPE
Sbjct: 100 DYKFKQIAQEKLLIVVTSTQGEGEPPE 126
>gnl|CDD|181608 PRK09004, PRK09004, FMN-binding protein MioC; Provisional.
Length = 146
Score = 33.3 bits (77), Expect = 0.006
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 34 YTTEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNL 78
++TE L D + L L+V ST G GD P+N Q F + L
Sbjct: 31 FSTETLHGPLLD--DLSASGLWLIVTSTHGAGDLPDNLQPFFEEL 73
>gnl|CDD|235854 PRK06703, PRK06703, flavodoxin; Provisional.
Length = 151
Score = 30.1 bits (68), Expect = 0.083
Identities = 11/46 (23%), Positives = 23/46 (50%)
Query: 36 TEVLRMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81
+ MD D + I++ + T+G+GD P ++F ++L +
Sbjct: 33 VVLQEMDGMDAEELLAYDGIILGSYTWGDGDLPYEAEDFHEDLENI 78
>gnl|CDD|181230 PRK08105, PRK08105, flavodoxin; Provisional.
Length = 149
Score = 27.5 bits (62), Expect = 0.65
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 54 LILVVASTFGNGDPPENGQEFAQNL 78
L+LVV ST G GD P++ Q L
Sbjct: 51 LVLVVTSTTGQGDLPDSIVPLFQAL 75
>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha
subunit. The sequences of ATP synthase F1 alpha and
beta subunits are related and both contain a
nucleotide-binding site for ATP and ADP. They have a
common amino terminal domain but vary at the C-terminus.
The beta chain has catalytic activity, while the alpha
chain is a regulatory subunit. The alpha-subunit
contains a highly conserved adenine-specific
noncatalytic nucleotide-binding domain. The conserved
amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton
translocating ATP synthase F1, alpha subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), B subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 501
Score = 26.2 bits (58), Expect = 2.5
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 35 TTEVLRMDEYDMSSIEHEALILVVASTFGNGD--PPENGQEFAQNLHA 80
E+L+ +Y S+E + +IL A T G D P + ++F Q L A
Sbjct: 415 VVELLKQPQYKPLSVEEQVVIL-FAGTKGYLDDIPVDKIRKFEQALLA 461
>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18). Rab18 subfamily.
Mammalian Rab18 is implicated in endocytic transport and
is expressed most highly in polarized epithelial cells.
However, trypanosomal Rab, TbRAB18, is upregulated in
the BSF (Blood Stream Form) stage and localized
predominantly to elements of the Golgi complex. In human
and mouse cells, Rab18 has been identified in lipid
droplets, organelles that store neutral lipids. GTPase
activating proteins (GAPs) interact with GTP-bound Rab
and accelerate the hydrolysis of GTP to GDP. Guanine
nucleotide exchange factors (GEFs) interact with
GDP-bound Rabs to promote the formation of the GTP-bound
state. Rabs are further regulated by guanine nucleotide
dissociation inhibitors (GDIs), which facilitate Rab
recycling by masking C-terminal lipid binding and
promoting cytosolic localization. Most Rab GTPases
contain a lipid modification site at the C-terminus,
with sequence motifs CC, CXC, or CCX. Lipid binding is
essential for membrane attachment, a key feature of most
Rab proteins. Due to the presence of truncated sequences
in this CD, the lipid modification site is not available
for annotation.
Length = 161
Score = 25.3 bits (56), Expect = 4.1
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 40 RMDEYDMSSIEHEALILVVASTF---GNGDPPENGQEFAQNLHALRIGEDANNSI 91
++E D S +A+ ++V + E GQ+FA+ + L I A I
Sbjct: 94 WLNELDTYSTNPDAVKMLVGNKIDKENREVTREEGQKFARKHNMLFIETSAKTRI 148
>gnl|CDD|130565 TIGR01501, MthylAspMutase, methylaspartate mutase, S subunit.
This model represents the S (sigma) subunit of
methylaspartate mutase (glutamate mutase), a
cobalamin-dependent enzyme that catalyzes the first
step in a pathway of glutamate fermentation [Energy
metabolism, Amino acids and amines, Energy metabolism,
Fermentation].
Length = 134
Score = 25.2 bits (55), Expect = 4.7
Identities = 8/25 (32%), Positives = 19/25 (76%)
Query: 42 DEYDMSSIEHEALILVVASTFGNGD 66
+E+ ++IE +A ++V+S +G+G+
Sbjct: 42 EEFIKAAIETKADAILVSSLYGHGE 66
>gnl|CDD|221982 pfam13206, VSG_B, Trypanosomal VSG domain. This family
represents the B-type variant surface glycoproteins
from trypanosomal parasites. This family is related to
pfam00913.
Length = 253
Score = 25.2 bits (55), Expect = 5.5
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 53 ALILVVASTFGNGDPPENGQEFA 75
L+L + +N EFA
Sbjct: 4 LLLLAALAAAAAAAAGDNAAEFA 26
>gnl|CDD|235805 PRK06458, PRK06458, hydrogenase 4 subunit F; Validated.
Length = 490
Score = 25.3 bits (56), Expect = 6.1
Identities = 17/42 (40%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 40 RMDEYDMSSIEHEALILVVASTFGNGDPPENGQEFAQNLHAL 81
R+ Y SSIEH LI G G P FA LH L
Sbjct: 307 RLFAY--SSIEHMGLIAF---ALGIGGPLGI---FAALLHML 340
>gnl|CDD|220098 pfam09057, Smac_DIABLO, Second Mitochondria-derived Activator of
Caspases. Second Mitochondria-derived Activator of
Caspases promotes apoptosis by activating caspases in
the cytochrome c/Apaf-1/caspase-9 pathway, and by
opposing the inhibitory activity of inhibitor of
apoptosis proteins (XIAP-BIR3). The protein assumes an
elongated three-helix bundle structure, and forms a
dimer in solution.
Length = 234
Score = 25.2 bits (55), Expect = 6.5
Identities = 12/40 (30%), Positives = 17/40 (42%)
Query: 14 SEVHYANNYTTESEVHYANNYTTEVLRMDEYDMSSIEHEA 53
S+V + E+E A + E+ RM EY S E
Sbjct: 184 SQVEEVRQLSKEAEKKLAESKAEEIQRMAEYASSIDLSEL 223
>gnl|CDD|222927 PHA02774, PHA02774, E1; Provisional.
Length = 613
Score = 25.2 bits (56), Expect = 6.8
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 8 EPAFSISE-VHYA--NNYTTESEV--HYA 31
F +S+ V +A N+YT ESE+ YA
Sbjct: 316 AEQFDLSKMVQWAYDNDYTDESEIAYEYA 344
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
0.310 0.127 0.349
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,646,557
Number of extensions: 367620
Number of successful extensions: 204
Number of sequences better than 10.0: 1
Number of HSP's gapped: 204
Number of HSP's successfully gapped: 17
Length of query: 95
Length of database: 10,937,602
Length adjustment: 62
Effective length of query: 33
Effective length of database: 8,187,654
Effective search space: 270192582
Effective search space used: 270192582
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 (21.7 bits)
S2: 53 (24.4 bits)