RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7369
(265 letters)
>gnl|CDD|130324 TIGR01257, rim_protein, retinal-specific rim ABC transporter. This
model describes the photoreceptor protein (rim protein)
in eukaryotes. It is the member of ABC transporter
superfamily. Rim protein is a membrane glycoprotein
which is localized in the photoreceptor outer segment
discs. Mutation/s in its genetic loci is implicated in
the recessive Stargardt's disease [Transport and binding
proteins, Other].
Length = 2272
Score = 153 bits (387), Expect = 4e-42
Identities = 67/149 (44%), Positives = 100/149 (67%), Gaps = 3/149 (2%)
Query: 66 ISDRFYTLDPRSRPLYDLKYITFGFAYLQDMVEQSIIQEHTGRESTPGIVLQQFPYPCYI 125
I DR++ PR+ P+ D +YI GFAYLQDMVEQ I + E GI LQQ PYPC++
Sbjct: 584 IKDRYWDSGPRADPVEDFRYIWGGFAYLQDMVEQGITRSQMQAEPPVGIYLQQMPYPCFV 643
Query: 126 EDQFIKAVSKTFPLFMVLSWVFACSMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFID 185
+D F+ +++ FP+FMVL+W+++ SM KSIV EK+ RLKE ++ G+SN V W WF+D
Sbjct: 644 DDSFMIILNRCFPIFMVLAWIYSVSMTVKSIVLEKELRLKETLKNQGVSNAVIWCTWFLD 703
Query: 186 SIVVMIITAVLLSLLLVCIDFNKIVPYND 214
S +M ++ LL++ ++ +I+ Y+D
Sbjct: 704 SFSIMSMSIFLLTIFIM---HGRILHYSD 729
Score = 28.8 bits (64), Expect = 3.5
Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 196 LLSLLLVCIDFNKIVPYNDSATAENDAFLRMDNNTLWALINF--TQPGYDKLKPTLTYSI 253
L + L C+ +K Y+D A ++ N WA + F P L P + Y I
Sbjct: 512 LANQYLECLVLDKFESYDDEVQLTQRALSLLEENRFWAGVVFPDMYPWTSSLPPHVKYKI 571
Query: 254 R 254
R
Sbjct: 572 R 572
>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein. This
family is related to the ABC-2 membrane transporter
family pfam01061.
Length = 278
Score = 45.4 bits (108), Expect = 1e-05
Identities = 19/66 (28%), Positives = 34/66 (51%)
Query: 137 FPLFMVLSWVFACSMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIVVMIITAVL 196
L + L + +I SIV EK+ R+KE + V G+S + + ++V +I ++
Sbjct: 98 LGLLLFLLILIGALIIALSIVEEKESRIKERLLVSGVSPLKYLLGKILGDLLVGLIQLLI 157
Query: 197 LSLLLV 202
+ LLL
Sbjct: 158 ILLLLF 163
>gnl|CDD|193513 cd03893, M20_Dipept_like, M20 Dipeptidases. Peptidase M20 family,
dipeptidase-like subfamily. This group contains a large
variety of enzymes, including cytosolic nonspecific
dipeptidase (CNDP), Xaa-methyl-His dipeptidase
(anserinase), canosinase, DUG2 type proteins, as well as
many proteins inferred by homology to be dipeptidases.
These enzymes have been shown to act on a wide range of
dipeptides, but not larger peptides. For example,
anserinase mainly catalyzes the hydrolysis of
N-alpha-acetylhistidine while carnosinase degrades
beta-alanyl-L-histidine. Substrates of CNDP are varied
and not limited to Xaa-His dipeptides. DUG2 proteins
contain a metallopeptidase domain and a large N-terminal
WD40 repeat region, and are involved in the alternative
pathway of glutathione degradation.
Length = 428
Score = 30.3 bits (69), Expect = 1.0
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 246 KPTLTYSIRGNCNC 259
P LT S+RG N
Sbjct: 173 VPALTTSLRGIANV 186
>gnl|CDD|212522 cd09998, HDAC_Hos3, Class II histone deacetylases Hos3 and related
proteins. Fungal histone deacetylase Hos3 from
Saccharomyces cerevisiae is a Zn-dependent enzyme
belonging to HDAC class II. It catalyzes hydrolysis of
an N(6)-acetyl-lysine residue of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
Histone deacetylases usually act via association with
DNA binding proteins to target specific chromatin
regions. Hos3 deacetylase is homodimer, in vitro it
shows specificity to H4, H3 and H2A.
Length = 353
Score = 29.7 bits (67), Expect = 1.5
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 155 SIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIV 188
S + E+ ERL+ V+GLS VH + W + I
Sbjct: 20 STIVERPERLRAS--VLGLSAAVHGSKWSAELIE 51
>gnl|CDD|216594 pfam01594, UPF0118, Domain of unknown function DUF20. This
transmembrane region is found in putative permeases and
predicted transmembrane proteins it has no known
function. It is not clear what source suggested that
these proteins may be permeases and this information
should be treated with caution.
Length = 327
Score = 29.1 bits (66), Expect = 2.0
Identities = 11/61 (18%), Positives = 28/61 (45%)
Query: 140 FMVLSWVFACSMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIVVMIITAVLLSL 199
F +L I + +ER+ ++R + + G + I ++++ ++T + L +
Sbjct: 156 FFLLDGERLRQGIISFLPKRYRERVDAILREINDTLGGYLLGQVIVALIIGVLTFIGLLI 215
Query: 200 L 200
L
Sbjct: 216 L 216
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 29.2 bits (66), Expect = 2.5
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 73 LDPRSRPLYD-LKYITFGFAYLQDMVEQSII 102
+DP RPLYD L I G ++ + E+ +I
Sbjct: 200 VDPYLRPLYDALYDI-LGAERVEALDERGVI 229
>gnl|CDD|224582 COG1668, NatB, ABC-type Na+ efflux pump, permease component [Energy
production and conversion / Inorganic ion transport and
metabolism].
Length = 407
Score = 28.9 bits (65), Expect = 3.2
Identities = 14/72 (19%), Positives = 26/72 (36%)
Query: 137 FPLFMVLSWVFACSMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIVVMIITAVL 196
L + +A M+ S+ EK+ R E++ +S + + +V + L
Sbjct: 191 IFLLFFIPLSYAGQMVADSVAGEKERRTLEVLLSSPVSRSEIVFGKILGAALVGLTQIAL 250
Query: 197 LSLLLVCIDFNK 208
L L F
Sbjct: 251 WLLALTIATFLS 262
>gnl|CDD|215303 PLN02552, PLN02552, isopentenyl-diphosphate delta-isomerase.
Length = 247
Score = 28.5 bits (64), Expect = 3.5
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 158 YEKQERLKEMMRVMGLSNGVHWTAWF 183
Y +E LKEMMR +G+ + WF
Sbjct: 194 YVNREELKEMMRK---ESGLKLSPWF 216
>gnl|CDD|190347 pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic protein
and predicted ATPase that is induced by phosphate
starvation.
Length = 205
Score = 27.8 bits (63), Expect = 4.7
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 73 LDPRSRPLYDLKYITFGFAYLQDMVEQSIIQ 103
+DP RPLYD Y G ++ ++E+ +I+
Sbjct: 76 VDPYLRPLYDALYDMLGAEKVEKLIERGVIE 106
>gnl|CDD|132588 TIGR03549, TIGR03549, YcaO domain protein. This family consists of
remarkably well-conserved proteins from gamma and beta
Proteobacteria, heavily skewed towards organisms of
marine environments. Its gene neighborhood is not
conserved. This family has an OsmC-like N-terminal
domain. It shares a YcaO domain, frequently associated
with ATP-dependent cyclodehydration for peptide
modification. The function is unknown. Fifteen of the
first sixteen members of this family are from
selenouridine-positive genomes, but this correlation may
not be meaningful.
Length = 718
Score = 27.5 bits (61), Expect = 9.2
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 42 LEEYKNS--QMFGAKLMSTALIGDTYISDRFYTLDPRSRPL 80
LE+Y+ + +M+G + M A+IG S RFY L P S L
Sbjct: 662 LEDYRRNFNRMYGEETMD-AVIGSVNGSVRFYGLTPTSMKL 701
>gnl|CDD|220919 pfam10974, DUF2804, Protein of unknown function (DUF2804). This is
a family of proteins with unknown function.
Length = 333
Score = 27.2 bits (61), Expect = 9.9
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 5/27 (18%)
Query: 82 DLKYITFGFAYLQD-----MVEQSIIQ 103
DL Y+ F YL D +VEQ+ +
Sbjct: 60 DLGYLGSAFVYLYDFKTGRLVEQTWLT 86
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
0.326 0.137 0.420
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,398,337
Number of extensions: 1251086
Number of successful extensions: 1639
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1635
Number of HSP's successfully gapped: 39
Length of query: 265
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 170
Effective length of database: 6,723,972
Effective search space: 1143075240
Effective search space used: 1143075240
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 (21.7 bits)
S2: 58 (26.0 bits)