RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17613
(287 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 = 79.6 bits (197), Expect = 2e-19
Identities = 26/68 (38%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 200 MSLMEGK--DDIFAELREKFLPTFQTSCIFWLPAQTINFFFLPPAARVIFVGTCSFVWIN 257
M L+EGK ++I +L+EKF PT + + W P Q INF F+P RV+FV W
Sbjct: 1 MGLLEGKSLEEIKEKLKEKFWPTLKANWKVWPPVQFINFAFVPVHYRVLFVNLVGIGWNT 60
Query: 258 ILCWLKRS 265
L ++
Sbjct: 61 YLSYVNNK 68
>gnl|CDD|220243 pfam09440, eIF3_N, eIF3 subunit 6 N terminal domain. This is the N
terminal domain of subunit 6 translation initiation
factor eIF3.
Length = 133
Score = 40.7 bits (96), Expect = 1e-04
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 2 LKQRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFD 54
L +R +V+ LQEL V + LL + V+K + S D+K +L +E
Sbjct: 67 LAAKRQEVLKELQELQEEVAPITKLLEDPEVIKNLRS--DKKANLEFLEEEHG 117
>gnl|CDD|216234 pfam00998, RdRP_3, Viral RNA dependent RNA polymerase. This family
includes viral RNA dependent RNA polymerase enzymes from
hepatitis C virus and various plant viruses.
Length = 486
Score = 30.3 bits (69), Expect = 1.1
Identities = 12/64 (18%), Positives = 19/64 (29%), Gaps = 9/64 (14%)
Query: 78 TKRYLPSFSCPVSTIMIRRFFNNYPLLSNCAVYGTMCVGAEASQQYVTKRYLNPTTPPEP 137
+R + + P S ++ NN + G VT PP+P
Sbjct: 11 KERKIYPITGPGSGLLFG-VHNN--------SLVNLRRGLVERVFKVTFDRGGQLVPPKP 61
Query: 138 IDTA 141
A
Sbjct: 62 YPGA 65
>gnl|CDD|215643 PLN03241, PLN03241, magnesium chelatase subunit H; Provisional.
Length = 1315
Score = 29.1 bits (65), Expect = 3.1
Identities = 16/75 (21%), Positives = 26/75 (34%), Gaps = 25/75 (33%)
Query: 118 EASQQYVTKRYLNP--------TTPPEPIDTAALGRYAILGTCINPNI-----LYF---- 160
E + Y+ +YL P PP ++T ALG +P+ YF
Sbjct: 245 EEAFAYIADQYLAPPSTVTPPSYAPPPLVETPALG-------LYHPDRERQQAPYFESPA 297
Query: 161 -WYKWLDKAFTGKSA 174
+ +W + A
Sbjct: 298 EYLEWYARQGAFVLA 312
>gnl|CDD|99913 cd05530, POLBc_B1, DNA polymerase type-B B1 subfamily catalytic
domain. Archaeal proteins that are involved in DNA
replication are similar to those from eukaryotes. Some
archaeal members also possess multiple family B DNA
polymerases (B1, B2 and B3). So far there is no specific
function(s) has been assigned for different members of
the archaea type B DNA polymerases. Phylogenetic
analyses of eubacterial, archaeal, and eukaryotic family
B DNA polymerases are support independent gene
duplications during the evolution of archaeal and
eukaryotic family B DNA polymerases.
Length = 372
Score = 27.7 bits (62), Expect = 8.4
Identities = 17/44 (38%), Positives = 17/44 (38%), Gaps = 11/44 (25%)
Query: 108 AVYGTMCVGAEASQQYVTKRYLNPTTPPEPIDTAALGRYAILGT 151
A YG GAE Y PP T ALGRY I T
Sbjct: 124 ASYGVF--GAENFPLY---------CPPVAESTTALGRYIITST 156
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
0.324 0.135 0.419
Gapped
Lambda K H
0.267 0.0708 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,387,039
Number of extensions: 1340510
Number of successful extensions: 1299
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1295
Number of HSP's successfully gapped: 16
Length of query: 287
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 191
Effective length of database: 6,679,618
Effective search space: 1275807038
Effective search space used: 1275807038
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.2 bits)