RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2445
(654 letters)
>gnl|CDD|222477 pfam13965, SID-1_RNA_chan, dsRNA-gated channel SID-1. This is a
family of proteins that are transmembrane dsRNA-gated
channels. They passively transport dsRNA into cells and
do not act as ATP-dependent pumps. They are required for
systemic RNA interference.
Length = 567
Score = 501 bits (1292), Expect = e-172
Identities = 238/588 (40%), Positives = 328/588 (55%), Gaps = 74/588 (12%)
Query: 99 SEPIFYNFQ-FDHMTESVLLVVESSDELCMTLSVQNISCPVVDLERNVQYRGQWQTVSSK 157
SEPI+Y + F SV + ++S D++CMT+SVQN +CPV DL +V Y G++QT ++K
Sbjct: 1 SEPIYYFYYFFPQNVSSVHIELDSDDDICMTVSVQNANCPVFDLPVDVDYNGRYQTFTTK 60
Query: 158 GGMLLKKSDFPLGLFIVFVV-HSDDYDCSGHKGSFQFKRNKAISFSIEKNISDENYLIAS 216
G+ + K++FP G F VFVV DD CSG+ R K+I+F++ + +Y + +
Sbjct: 61 AGITISKTEFPFGFFRVFVVIKPDDSACSGNTSRKINNRTKSITFNVTI-LESISYFVPT 119
Query: 217 LALLSIFAGIYVVAFFIGIKCIRCCPSMYIPSPADILSPEEPTRYGIPHHFGFFYSMGMA 276
LA++ F + + F + + I P P+ +
Sbjct: 120 LAMV-FFLLSFCLLFIVFVIHIFRNRRDLRSRDIISFEPS-PSEQRAMDLQPDQSEEDSS 177
Query: 277 LIMEGVLSAC--YHVCPSHSNFQF--GSRKP----------------------------- 303
+L A V ++ SRK
Sbjct: 178 ERENDILMADQQIMVIREKASLYVSDLSRKDQRPLKQDSLSYLWQILTIAVFYILPVLQL 237
Query: 304 -----KVLNDSGNEDMCYYNYLCSHPFWNLSDINHIFSNIGYVFLGFLFILITVNRERAS 358
KVLN +G++DMCYYN+LC+HP LSD N+IFSNIGY+ G LFI+I RER
Sbjct: 238 VITYQKVLNSTGDQDMCYYNFLCAHPLGELSDFNNIFSNIGYILYGLLFIVIVYCRERRH 297
Query: 359 LPNNKRYGIPHHFGFFYSMGMALIMEGVLSACYHVCPSHSNFQFDTSFMYVIAMLSLLKI 418
P+ +RYGIP H+G FY+MG+ALIMEG+LSACYHVCP+ SNFQFDTSFMYVI L ++K+
Sbjct: 298 RPS-ERYGIPEHYGLFYAMGLALIMEGILSACYHVCPNDSNFQFDTSFMYVICGLCMIKL 356
Query: 419 YQSRHPDINATAYSTFVALAFVIFVGMVGVLDETLTFYVIFTVIHVLVCMVLS-AQIYYM 477
YQ+RHPDINATAY+TF L VI +G++G+ + +++F +IH+LV + LS A+IYYM
Sbjct: 357 YQNRHPDINATAYTTFGVLGVVILLGLIGIFSKNSIVWILFAIIHILVVLYLSLAKIYYM 416
Query: 478 GRWKLDARVFHRVCGVCIADIRSGPRHCCRPMYPSRLVLLIFGNLFNWALAAAQLRYHMV 537
G WKL R F LL F N+ N+A A L +
Sbjct: 417 GSWKLKLRFF----------------------------LLAF-NIVNFAAAVYGLTLSPI 447
Query: 538 NFGTYFLAVFMVNLCLYLMFYITMKYLSGEKIMAHTGLYLAASILLWTGALYFFFNKSIS 597
+F + L +F+ NL LYL+FYI MK +S EKI L +++ W A YFFF
Sbjct: 448 DFAQFLLYIFIGNLILYLVFYILMKLISSEKICKKAILCGFLALIAWAAAGYFFFQDDSD 507
Query: 598 WAGTPAESRTYNRPCLVLNFYDHHDVWHVLSALAMFFSFMCLLALDDD 645
W TPAESR N+PC++L+FYD HD+WH LSA+A+FF+FM LL LDDD
Sbjct: 508 WTRTPAESRQLNKPCILLDFYDSHDLWHFLSAIALFFTFMFLLTLDDD 555
Score = 114 bits (288), Expect = 9e-27
Identities = 91/316 (28%), Positives = 131/316 (41%), Gaps = 56/316 (17%)
Query: 1 MLLKKSDFPLGLFIVFVV-HSDDYDCSGHKGSFQFKRNKAISF--SIEKNISDENYLIAS 57
+ + K++FP G F VFVV DD CSG+ R K+I+F +I ++IS +A
Sbjct: 63 ITISKTEFPFGFFRVFVVIKPDDSACSGNTSRKINNRTKSITFNVTILESISYFVPTLAM 122
Query: 58 LALLSIFAGIYVVAFFIGIKCIRCCPSMYMLSDQRHLMASPSEPIFYNFQFDHMTESVLL 117
+ L F + + F I I R D SPSE + Q D E
Sbjct: 123 VFFLLSF-CLLFIVFVIHIFRNR---RDLRSRDIISFEPSPSEQRAMDLQPDQSEEDSSE 178
Query: 118 ----VVESSDELCMTLSVQNISCPVVDLERNVQYRGQWQTVSSKGGMLLKKSDFPLGLFI 173
++ + ++ + ++ V DL R Q + ++S +L + +F
Sbjct: 179 RENDILMADQQIMVIREKASLY--VSDLSRKDQRPLKQDSLSYLWQILT------IAVFY 230
Query: 174 VFVVHSDDYDCSGHKGSFQFKRNKAISFSIEKNISDE---NYLIA-SLALLSIFAGI--- 226
+ V ++Q D N+L A L LS F I
Sbjct: 231 ILPVLQLVI-------TYQ-------KVLNSTGDQDMCYYNFLCAHPLGELSDFNNIFSN 276
Query: 227 --YVV--AFFIGIKCIRCCPSMYIPSPADILSPEEPTRYGIPHHFGFFYSMGMALIMEGV 282
Y++ FI I R RYGIP H+G FY+MG+ALIMEG+
Sbjct: 277 IGYILYGLLFIVIVYCRERRHRP------------SERYGIPEHYGLFYAMGLALIMEGI 324
Query: 283 LSACYHVCPSHSNFQF 298
LSACYHVCP+ SNFQF
Sbjct: 325 LSACYHVCPNDSNFQF 340
>gnl|CDD|227456 COG5127, COG5127, Vacuolar H+-ATPase V1 sector, subunit C [Energy
production and conversion].
Length = 383
Score = 31.4 bits (71), Expect = 1.6
Identities = 37/158 (23%), Positives = 59/158 (37%), Gaps = 28/158 (17%)
Query: 165 SDFPLGLFIVFVVH--SDDYDCSGHKGSF---QFKRNKAISFSIEKNISDENYLIASL-A 218
SD LF V+V +D+ + F +F +N +S + +++
Sbjct: 217 SDEEYVLFKVYVFKKGEEDFRTMAREEKFMVREFDKNMVLSEEMIAERDRAAEKESAMEK 276
Query: 219 LLSIFAGIYVVAFFIG---IKCIRCCPSMYIPSPADILSPEEPTRYGIPHHFGFFYSMGM 275
+L FA + + F IK +R +Y+ S +L RYG+P F FF + G
Sbjct: 277 ILMRFAHVALTEVFRIWIHIKLLR----VYVES---VL------RYGLPPEFMFFITRGE 323
Query: 276 ALIMEGVLS---ACYHVCPSHSNFQFGSRKPKVLNDSG 310
V + A PS+ K ND G
Sbjct: 324 KKSESKVKAQLIAIAKNLPSNR---IVYEKEGDNNDEG 358
>gnl|CDD|200488 cd11350, AmyAc_4, Alpha amylase catalytic domain found in an
uncharacterized protein family. The Alpha-amylase
family comprises the largest family of glycoside
hydrolases (GH), with the majority of enzymes acting on
starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
(GH31). The family members are quite extensive and
include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 390
Score = 30.3 bits (69), Expect = 3.0
Identities = 14/79 (17%), Positives = 25/79 (31%), Gaps = 12/79 (15%)
Query: 260 RYGIPHHFGFF----YSMGMALIMEGVLSACYHVCP-SHSNFQFGSRKPKVLNDSGNEDM 314
YG P + G+A+I++ V + P + + + P N
Sbjct: 77 AYGTPEDLKRLVDECHQRGIAVILDVVYNHAEGQSPLARLYWDYWYNPPPADPPWFNVWG 136
Query: 315 CYYNYLCSHPFWNLSDINH 333
H ++ D NH
Sbjct: 137 -------PHFYYVGYDFNH 148
>gnl|CDD|172536 PRK14042, PRK14042, pyruvate carboxylase subunit B; Provisional.
Length = 596
Score = 30.5 bits (68), Expect = 3.0
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 10/73 (13%)
Query: 241 CPSMYIPSPADILSPEEPTRY--------GIPHHFGFFYSMGMALI--MEGVLSACYHVC 290
C S+ I A +L+P G+P H + G+A I E VL+ C H+
Sbjct: 168 CDSIAIKDMAGLLTPTVTVELYAGLKQATGLPVHLHSHSTSGLASICHYEAVLAGCNHID 227
Query: 291 PSHSNFQFGSRKP 303
+ S+F G+ P
Sbjct: 228 TAISSFSGGASHP 240
>gnl|CDD|237276 PRK13024, PRK13024, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 755
Score = 29.4 bits (67), Expect = 8.1
Identities = 7/43 (16%), Positives = 15/43 (34%), Gaps = 10/43 (23%)
Query: 426 INATAYSTFVALAFVI--------FVGMVGVLDETLTFYVIFT 460
I+A + + A + G++ + L Y+ T
Sbjct: 265 IDAGIIAGIIGFALIFLFMLVYYGLPGLIANI--ALLLYIFLT 305
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
0.331 0.143 0.460
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 33,957,644
Number of extensions: 3401239
Number of successful extensions: 5000
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4974
Number of HSP's successfully gapped: 88
Length of query: 654
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 551
Effective length of database: 6,369,140
Effective search space: 3509396140
Effective search space used: 3509396140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 62 (27.6 bits)