RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7370
(247 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 = 168 bits (427), Expect = 1e-47
Identities = 78/203 (38%), Positives = 120/203 (59%), Gaps = 3/203 (1%)
Query: 46 KCIDFNKIVPYNDSATAENDAFLRMDNNTLWALINF--TQPGYDKLKPTLTYSIRMSTTL 103
+C+ +K Y+D A ++ N WA + F P L P + Y IRM +
Sbjct: 518 ECLVLDKFESYDDEVQLTQRALSLLEENRFWAGVVFPDMYPWTSSLPPHVKYKIRMDIDV 577
Query: 104 IGDT-YISDHFYTLDPRSRPLYDLKYITFGFAYLQDMVEQSIIQEHTGRKSTPGIVLQQF 162
+ T I D ++ PR+ P+ D +YI GFAYLQDMVEQ I + + GI LQQ
Sbjct: 578 VEKTNKIKDRYWDSGPRADPVEDFRYIWGGFAYLQDMVEQGITRSQMQAEPPVGIYLQQM 637
Query: 163 PYPCYIEDQFIKAVSKTFPLFMVLSWVFACAMICKSIVYEKQERLKEMMRVMGLSNGVHW 222
PYPC+++D F+ +++ FP+FMVL+W+++ +M KSIV EK+ RLKE ++ G+SN V W
Sbjct: 638 PYPCFVDDSFMIILNRCFPIFMVLAWIYSVSMTVKSIVLEKELRLKETLKNQGVSNAVIW 697
Query: 223 TAWFIDSIVVMIITAVLLSLLLV 245
WF+DS +M ++ LL++ ++
Sbjct: 698 CTWFLDSFSIMSMSIFLLTIFIM 720
>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 = 45.0 bits (107), Expect = 1e-05
Identities = 19/66 (28%), Positives = 34/66 (51%)
Query: 180 FPLFMVLSWVFACAMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIVVMIITAVL 239
L + L + +I SIV EK+ R+KE + V G+S + + ++V +I ++
Sbjct: 98 LGLLLFLLILIGALIIALSIVEEKESRIKERLLVSGVSPLKYLLGKILGDLLVGLIQLLI 157
Query: 240 LSLLLV 245
+ LLL
Sbjct: 158 ILLLLF 163
>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 = 1.3
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 198 SIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIV 231
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 = 29.9 bits (68), Expect = 1.3
Identities = 11/61 (18%), Positives = 28/61 (45%)
Query: 183 FMVLSWVFACAMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIVVMIITAVLLSL 242
F +L I + +ER+ ++R + + G + I ++++ ++T + L +
Sbjct: 156 FFLLDGERLRQGIISFLPKRYRERVDAILREINDTLGGYLLGQVIVALIIGVLTFIGLLI 215
Query: 243 L 243
L
Sbjct: 216 L 216
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 28.8 bits (65), Expect = 2.4
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 116 LDPRSRPLYD-LKYITFGFAYLQDMVEQSII 145
+DP RPLYD L I G ++ + E+ +I
Sbjct: 200 VDPYLRPLYDALYDI-LGAERVEALDERGVI 229
>gnl|CDD|215303 PLN02552, PLN02552, isopentenyl-diphosphate delta-isomerase.
Length = 247
Score = 28.5 bits (64), Expect = 3.2
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 201 YEKQERLKEMMRVMGLSNGVHWTAWF 226
Y +E LKEMMR +G+ + WF
Sbjct: 194 YVNREELKEMMRK---ESGLKLSPWF 216
>gnl|CDD|224195 COG1276, PcoD, Putative copper export protein [Inorganic ion
transport and metabolism].
Length = 289
Score = 28.1 bits (63), Expect = 3.9
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 3/61 (4%)
Query: 180 FPLFMVLSWVFACAMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIVVMIITAVL 239
F LF+ L VF A+ + R R + L VH A S + +++
Sbjct: 8 FILFLGLMLVFGVAVFGAWLA-PVSIRRLLTKRSLRL--QVHAAALGGISALALLVYQGG 64
Query: 240 L 240
Sbjct: 65 A 65
>gnl|CDD|227226 COG4889, COG4889, Predicted helicase [General function prediction
only].
Length = 1518
Score = 28.6 bits (64), Expect = 4.0
Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 9/76 (11%)
Query: 40 EEYKNNKCIDFNKIV---PYNDSATAENDAFLRMDNNTLWALI------NFTQPGYDKLK 90
E K K I I+ PY+ +END + L + N T + L+
Sbjct: 939 ERLKRQKEIPIRVIIGNPPYSAGQKSENDNNQNLSYPKLDKRVYESYGKNSTATNKNSLR 998
Query: 91 PTLTYSIRMSTTLIGD 106
+ +IR ++ I D
Sbjct: 999 DSYIRAIRWASDRIKD 1014
>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 = 4.5
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 116 LDPRSRPLYDLKYITFGFAYLQDMVEQSIIQ 146
+DP RPLYD Y G ++ ++E+ +I+
Sbjct: 76 VDPYLRPLYDALYDMLGAEKVEKLIERGVIE 106
>gnl|CDD|177439 PHA02620, PHA02620, VP3; Provisional.
Length = 353
Score = 28.1 bits (62), Expect = 4.9
Identities = 20/93 (21%), Positives = 33/93 (35%), Gaps = 26/93 (27%)
Query: 65 DAFLRMDNNTLWALINFTQPGYDKLKPTLTYSIRMSTTLIGDTYISDHFYTLDP------ 118
D+ R T W ++N P Y+ I D++ L P
Sbjct: 190 DSLARFLEETTWTIVN---------APINLYN-----------SIQDYYSALSPIRPSMV 229
Query: 119 RSRPLYDLKYITFGFAYLQDMVEQSIIQEHTGR 151
R + ++FG +Y Q + + I+E T R
Sbjct: 230 RQVAEREGTQVSFGHSYSQSIDDADSIEEVTQR 262
>gnl|CDD|224582 COG1668, NatB, ABC-type Na+ efflux pump, permease component [Energy
production and conversion / Inorganic ion transport and
metabolism].
Length = 407
Score = 27.8 bits (62), Expect = 5.3
Identities = 14/68 (20%), Positives = 26/68 (38%)
Query: 180 FPLFMVLSWVFACAMICKSIVYEKQERLKEMMRVMGLSNGVHWTAWFIDSIVVMIITAVL 239
L + +A M+ S+ EK+ R E++ +S + + +V + L
Sbjct: 191 IFLLFFIPLSYAGQMVADSVAGEKERRTLEVLLSSPVSRSEIVFGKILGAALVGLTQIAL 250
Query: 240 LSLLLVIT 247
L L I
Sbjct: 251 WLLALTIA 258
>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family. This is a family of
predicted permeases and hypothetical transmembrane
proteins. Buchnera aphidicola lolC has been shown to
transport lipids targeted to the outer membrane across
the inner membrane. Both lolC and Streptococcus
cristatus tptD have been shown to require ATP. This
region contains three transmembrane helices.
Length = 121
Score = 26.4 bits (59), Expect = 6.8
Identities = 14/67 (20%), Positives = 28/67 (41%), Gaps = 3/67 (4%)
Query: 182 LFMVLSWVFACAMICKSIVYEKQERLKEM--MRVMGLSNGVHWTAWFIDSIVVMIITAVL 239
L VL + A ++ + ER +E+ ++ +G S + +++ + L
Sbjct: 2 LLSVLILLLALLILLNLLSISISERRREIGILKALGASKK-QIFKLLLLEALLLGLIGSL 60
Query: 240 LSLLLVI 246
L LLL
Sbjct: 61 LGLLLGF 67
>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 = 9.7
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 5/27 (18%)
Query: 125 DLKYITFGFAYLQD-----MVEQSIIQ 146
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
0.325 0.137 0.420
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,522,463
Number of extensions: 1165541
Number of successful extensions: 1631
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1626
Number of HSP's successfully gapped: 34
Length of query: 247
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 153
Effective length of database: 6,768,326
Effective search space: 1035553878
Effective search space used: 1035553878
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 (26.1 bits)