RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8428
(328 letters)
>gnl|CDD|218246 pfam04756, OST3_OST6, OST3 / OST6 family. The proteins in this
family are part of a complex of eight ER proteins that
transfers core oligosaccharide from dolichol carrier to
Asn-X-Ser/Thr motifs. This family includes both OST3 and
OST6, each of which contains four predicted
transmembrane helices. Disruption of OST3 and OST6 leads
to a defect in the assembly of the complex. Hence, the
function of these genes seems to be essential for
recruiting a fully active complex necessary for
efficient N-glycosylation.
Length = 138
Score = 98.6 bits (246), Expect = 3e-25
Identities = 41/156 (26%), Positives = 68/156 (43%), Gaps = 32/156 (20%)
Query: 160 AIVKWIADRTDI-QIRVFRPPNYSGPMAFIMLFAIVAVFLYVKRNNLEFLYNKLMWGVAA 218
I ++ADRT + +++ RPPN S P + + ++ +
Sbjct: 1 QIAPFVADRTKVPDLKIPRPPNISIPSIMVCMLIVLISY--------------------- 39
Query: 219 VLFCFAMISGQMWNHIRGPPFIHKNQNG------IAYIHGSSQGQFVLETYIVILLNAAI 272
F +ISG ++N IRGPPFI K+ + + ++HG SQGQF +E IV L
Sbjct: 40 ----FLIISGTIYNVIRGPPFIGKDPDEHGKSRPVVFMHGRSQGQFGIEGLIVSFLYTMG 95
Query: 273 VVGMILISEAATRKNDVRVRRTMAVVGLGLVAFFFS 308
+G IL+ + + + + +GL S
Sbjct: 96 GLGFILLDYVNKKSKKKGKQNRILLAAIGLTLIVVS 131
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 31.5 bits (72), Expect = 0.71
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 8/53 (15%)
Query: 147 DTLDIQRVGYSAEAIVKWIADRTDIQIRVFRPPNYSGPMAFIMLFAIVAVFLY 199
D +DI+R AE +K I + I +R P+ P AF +L A + +
Sbjct: 738 DKMDIER----AEEFLKRIKEG-KITVRELPEPS---PFAFNLLVAGSSDVVL 782
>gnl|CDD|218687 pfam05679, CHGN, Chondroitin N-acetylgalactosaminyltransferase.
Length = 504
Score = 30.0 bits (68), Expect = 1.8
Identities = 15/57 (26%), Positives = 21/57 (36%), Gaps = 12/57 (21%)
Query: 109 LFFILVDFDEGSDVFQMLRLNT-------API-FMHFPAK----GKPKPSDTLDIQR 153
LF VD SD R+NT PI F + + P +T D+ +
Sbjct: 351 LFLCDVDMVFTSDFLNRCRMNTIQGFQVYFPIVFSEYDPEWSSARDPPECETCDVGQ 407
>gnl|CDD|219297 pfam07103, DUF1365, Protein of unknown function (DUF1365). This
family consists of several bacterial and plant proteins
of around 250 residues in length. The function of this
family is unknown.
Length = 244
Score = 29.4 bits (67), Expect = 2.2
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 6/34 (17%)
Query: 95 VANSFRYSQMYSNKLFFILVDFDEGSDVFQMLRL 128
V ++FRY +F +L+D DE ++ ++ RL
Sbjct: 16 VRHAFRYR------VFMLLLDLDELPELPRLSRL 43
>gnl|CDD|148025 pfam06170, DUF983, Protein of unknown function (DUF983). This
family consists of several bacterial proteins of unknown
function.
Length = 86
Score = 26.8 bits (60), Expect = 5.7
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 263 YIVILLNAAIVVGMILISEAATR 285
Y VIL+ IVV + L E A R
Sbjct: 29 YFVILIVGHIVVPLALWVEVAYR 51
>gnl|CDD|227333 COG5000, NtrY, Signal transduction histidine kinase involved in
nitrogen fixation and metabolism regulation [Signal
transduction mechanisms].
Length = 712
Score = 28.2 bits (63), Expect = 6.8
Identities = 12/64 (18%), Positives = 28/64 (43%), Gaps = 10/64 (15%)
Query: 262 TYIVILLNAAIVVGMI------LISEAATRKNDV---RVRRTMAVVGLGLVAFFFSVILS 312
++ +N A+++ + +I R+ R+ + + LVA +VI++
Sbjct: 39 ILALVAVNLALLLILSAVIGRKVIRLLKARRLGKAGSRLHVRIVGL-FSLVAVIPAVIVA 97
Query: 313 IFRS 316
IF +
Sbjct: 98 IFSA 101
>gnl|CDD|206740 cd09913, EHD, Eps15 homology domain (EHD), C-terminal domain.
Dynamin-like C-terminal Eps15 homology domain (EHD)
proteins regulate endocytic events; they have been
linked to a number of Rab proteins through their
association with mutual effectors, suggesting a
coordinate role in endocytic regulation. Eukaryotic EHDs
comprise four members (EHD1-4) in mammals and single
members in Caenorhabditis elegans (Rme-1), Drosophila
melanogaster (Past1) as well as several eukaryotic
parasites. EHD1 regulates trafficking of multiple
receptors from the endocytic recycling compartment (ERC)
to the plasma membrane; EHD2 regulates trafficking from
the plasma membrane by controlling Rac1 activity; EHD3
regulates endosome-to-Golgi transport, and preserves
Golgi morphology; EHD4 is involved in the control of
trafficking at the early endosome and regulates exit of
cargo toward the recycling compartment as well as late
endocytic pathway. Rme-1, an ortholog of human EHD1,
controls the recycling of internalized receptors from
the endocytic recycling compartment to the plasma
membrane. In D. melanogaster, deletion of the Past1 gene
leads to infertility as well as premature death of adult
flies. Arabidopsis thaliana also has homologs of EHD
proteins (AtEHD1 and AtEHD2), possibly involved in
regulating endocytosis and signaling.
Length = 241
Score = 27.6 bits (62), Expect = 7.9
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 150 DIQRVGYSAEAIVKWIADRTDIQIRVFRP 178
R GY A+ +W A+R D+ +F P
Sbjct: 105 RQSR-GYDFNAVCRWFAERADLIFLLFDP 132
>gnl|CDD|239245 cd02947, TRX_family, TRX family; composed of two groups: Group I,
which includes proteins that exclusively encode a TRX
domain; and Group II, which are composed of fusion
proteins of TRX and additional domains. Group I TRX is a
small ancient protein that alter the redox state of
target proteins via the reversible oxidation of an
active site dithiol, present in a CXXC motif, partially
exposed at the protein's surface. TRX reduces protein
disulfide bonds, resulting in a disulfide bond at its
active site. Oxidized TRX is converted to the active
form by TRX reductase, using reducing equivalents
derived from either NADPH or ferredoxins. By altering
their redox state, TRX regulates the functions of at
least 30 target proteins, some of which are enzymes and
transcription factors. It also plays an important role
in the defense against oxidative stress by directly
reducing hydrogen peroxide and certain radicals, and by
serving as a reductant for peroxiredoxins. At least two
major types of functional TRXs have been reported in
most organisms; in eukaryotes, they are located in the
cytoplasm and the mitochondria. Higher plants contain
more types (at least 20 TRX genes have been detected in
the genome of Arabidopsis thaliana), two of which (types
f amd m) are located in the same compartment, the
chloroplast. Also included in the alignment are TRX-like
domains which show sequence homology to TRX but do not
contain the redox active CXXC motif. Group II proteins,
in addition to either a redox active TRX or a TRX-like
domain, also contain additional domains, which may or
may not possess homology to known proteins.
Length = 93
Score = 26.0 bits (58), Expect = 9.3
Identities = 15/69 (21%), Positives = 28/69 (40%), Gaps = 11/69 (15%)
Query: 69 AIVMFTALAPQRNCHICVSASDEYTIVANSFRYSQMYSNKLFFILVDFDEGSDVFQMLRL 128
+V F A C C + + +A + K+ F+ VD DE ++ + +
Sbjct: 13 VVVDFWA----PWCGPCKAIAPVLEELAEEY-------PKVKFVKVDVDENPELAEEYGV 61
Query: 129 NTAPIFMHF 137
+ P F+ F
Sbjct: 62 RSIPTFLFF 70
>gnl|CDD|215807 pfam00230, MIP, Major intrinsic protein. MIP (Major Intrinsic
Protein) family proteins exhibit essentially two
distinct types of channel properties: (1) specific water
transport by the aquaporins, and (2) small neutral
solutes transport, such as glycerol by the glycerol
facilitators.
Length = 218
Score = 27.3 bits (61), Expect = 9.3
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 187 FIMLFAIVAVFLYVKRNNLEFLYNKLMWG--VAAVLFCFAMISG 228
+ +F V L VK+ L L +G + +++C ISG
Sbjct: 19 LLFVFFGVGSALGVKKLYGGLLAVALAFGLALFTLVYCTGHISG 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
0.328 0.140 0.421
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,828,677
Number of extensions: 1649930
Number of successful extensions: 2505
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2493
Number of HSP's successfully gapped: 87
Length of query: 328
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 231
Effective length of database: 6,635,264
Effective search space: 1532745984
Effective search space used: 1532745984
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 59 (26.4 bits)