RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16727
(210 letters)
>gnl|CDD|202894 pfam04117, Mpv17_PMP22, Mpv17 / PMP22 family. The 22-kDa
peroxisomal membrane protein (PMP22) is a major
component of peroxisomal membranes. PMP22 seems to be
involved in pore forming activity and may contribute to
the unspecific permeability of the organelle membrane.
PMP22 is synthesised on free cytosolic ribosomes and
then directed to the peroxisome membrane by specific
targeting information. Mpv17 is a closely related
peroxisomal protein. In mouse, the Mpv17 protein is
involved in the development of early-onset
glomerulosclerosis. More recently a homolog of Mpv17 in
S. cerevisiae has been been found to be an integral
membrane protein of the inner mitochondrial membrane
where it has been proposed to have a role in ethanol
metabolism and tolerance during heat-shock. Defects in
MPV17 is associated with mitochondrial DNA depletion
syndrome (MDDS) and Navajo neurohepatopathy (NNH). MDDS
is a clinically heterogeneous group of disorders
characterized by a reduction in mitochondrial DNA
(mtDNA) copy number. Primary mtDNA depletion is
inherited as an autosomal recessive trait and may affect
single organs, typically muscle or liver, or multiple
tissues. Individuals with the hepatocerebral form of
mitochondrial DNA depletion syndrome have early
progressive liver failure and neurologic abnormalities,
hypoglycemia, and increased lactate in body fluids. NNH
is an autosomal recessive disease that is prevalent
among Navajo children in the South Western states of
America. The major clinical features are hepatopathy,
peripheral neuropathy, corneal anesthesia and scarring,
acral mutilation, cerebral leukoencephalopathy, failure
to thrive, and recurrent metabolic acidosis with
intercurrent infections. Infantile, childhood, and
classic forms of NNH have been described. Mitochondrial
DNA depletion was detected in the livers of patients,
suggesting a primary defect in mtDNA maintenance.
Length = 68
Score = 84.2 bits (209), Expect = 8e-22
Identities = 28/68 (41%), Positives = 43/68 (63%)
Query: 123 LNLLQGLSWDEAVTKVQNSYFDILLTGYQIWPAVQVVNFYFIPIQYRVLLVQAVAVVWNT 182
+ LL+G S +E K++ ++ L +++WP VQ +NF F+P+ YRVL V V + WNT
Sbjct: 1 MGLLEGKSLEEIKEKLKEKFWPTLKANWKVWPPVQFINFAFVPVHYRVLFVNLVGIGWNT 60
Query: 183 YLSWKLNS 190
YLS+ N
Sbjct: 61 YLSYVNNK 68
>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in
two-component regulatory system with EvgA; Provisional.
Length = 1197
Score = 29.7 bits (66), Expect = 1.3
Identities = 26/94 (27%), Positives = 46/94 (48%), Gaps = 9/94 (9%)
Query: 107 DQLIFSPVFIAILVTSLNLLQGLSWDEAVTKVQNSYF--DILLTGYQI----WPAVQVVN 160
D++I A +++ NL Q L+ +V+ QN YF ++T I ++ VV
Sbjct: 176 DEVIHQSFPKATIISFTNLYQALA---SVSAGQNDYFIGSNIITSSMISRYFTHSLNVVK 232
Query: 161 FYFIPIQYRVLLVQAVAVVWNTYLSWKLNSTTVE 194
+Y P QY L + +V+ N L+ +++ T E
Sbjct: 233 YYNSPRQYNFFLTRKESVILNEVLNRFVDALTNE 266
>gnl|CDD|222394 pfam13809, Tubulin_2, Tubulin like. Many of the residues conserved
in Tubulin, pfam00091, are also highly conserved in this
family.
Length = 345
Score = 27.7 bits (62), Expect = 4.5
Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 3/73 (4%)
Query: 8 GTYLVSRKIQEVGVYIASLMGLGDVIAQSLAVHNFTSLMGLGDVIAQTFIDGKQLTQINP 67
YLVS K E G ++ L L ++IA ++ +FTS G + I+ +
Sbjct: 248 FCYLVSNKNGE-GGFVLVLDDLRNMIADNIYQLDFTSEFAPGKKSVRDNINQENAQPDPG 306
Query: 68 MR--TLQYSVVGL 78
R +Y GL
Sbjct: 307 GRPQNQRYLTFGL 319
>gnl|CDD|202568 pfam03181, BURP, BURP domain. The BURP domain is found at the
C-terminus of several different plant proteins. It was
named after the proteins in which it was first
identified: the BNM2 clone-derived protein from Brassica
napus; USPs and USP-like proteins; RD22 from Arabidopsis
thaliana; and PG1beta from Lycopersicon esculentum. This
domain is around 230 amino acid residues long. It
possesses the following conserved features: two
phenylalanine residues at its N-terminus; two cysteine
residues; and four repeated cysteine-histidine motifs,
arranged as: CH-X(10)-CH-X(25-27)-CH-X(25-26)-CH, where
X can be any amino acid. The function of this domain is
unknown.
Length = 216
Score = 27.3 bits (61), Expect = 5.5
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 3/41 (7%)
Query: 10 YLVSR--KIQEVGVYIASLMGLGDVIAQSLAV-HNFTSLMG 47
Y V + + Y L+G +++AV H TS
Sbjct: 144 YAVFYCHTVPKTRAYEVDLVGADGTKVKAVAVCHTDTSAWN 184
>gnl|CDD|227087 COG4744, COG4744, Uncharacterized conserved protein [Function
unknown].
Length = 121
Score = 26.0 bits (57), Expect = 8.5
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 109 LIFSPVFIAILVTSLNLLQGLSWDEAVTKVQN 140
++FS + LV S +L + LS +E +T V+N
Sbjct: 33 MVFSVALLIALVMSYHLPELLSSNEDITIVKN 64
>gnl|CDD|185194 PRK15294, PRK15294, putative fimbrial outer membrane usher protein
SthC; Provisional.
Length = 845
Score = 27.0 bits (59), Expect = 9.7
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 4/40 (10%)
Query: 21 VYIASLMG----LGDVIAQSLAVHNFTSLMGLGDVIAQTF 56
VY A+L+G LGD+ A SL V N S + GDV++ T
Sbjct: 403 VYHAALIGTGLNLGDLGALSLDVTNSWSKIKAGDVVSDTL 442
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
0.323 0.137 0.404
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,563,052
Number of extensions: 1001800
Number of successful extensions: 842
Number of sequences better than 10.0: 1
Number of HSP's gapped: 842
Number of HSP's successfully gapped: 31
Length of query: 210
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 117
Effective length of database: 6,812,680
Effective search space: 797083560
Effective search space used: 797083560
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.7 bits)