RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17342
(401 letters)
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 76.3 bits (186), Expect = 5e-15
Identities = 49/223 (21%), Positives = 91/223 (40%), Gaps = 17/223 (7%)
Query: 166 HTHPVFCMSVIGTQNAHNLISISNDGRLCSWSLEMLSSPQETRDLQYNNKQTKNLAVLSL 225
H + ++ L+S S+DG + W L+ L + + + +V L
Sbjct: 64 HEDSITSIAFSPDG--ELLLSGSSDGTIKLWDLD------NGEKLIKSLEGLHDSSVSKL 115
Query: 226 AFPQNDVNNFVVGCEDGNVYSACRHGNKAGN-VECYEGHEGPVVGLSSHRAQGHIDFSHL 284
A D N+ ++ + + G + EGH V L+ D L
Sbjct: 116 ALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSP-----DGKLL 170
Query: 285 YLTSSYDWSVKLWNIKENKPVHSFNEFRDYVMDVQWSPINPALFATVEVAGRVDLWNLNL 344
SS D ++KLW+++ KP+ + D V + +SP L A+ G + LW+L+
Sbjct: 171 ASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLST 230
Query: 345 DTEVPATSAIVEGAPALSRVTWTPNGTQLCVGDEKGAITMFDV 387
+ +T + G +++P+G+ L G G I ++D+
Sbjct: 231 GKLLRST---LSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDL 270
Score = 70.1 bits (170), Expect = 5e-13
Identities = 57/294 (19%), Positives = 106/294 (36%), Gaps = 29/294 (9%)
Query: 96 DGVCLIWNTKFKKTTPEFEFFCQSPVLSCCFAKFNPYLILGGTYSGQIVLWDTRVQKKTP 155
DG +W+ V S F+ L G + G I LWD R K
Sbjct: 133 DGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPL- 191
Query: 156 VHRTPLSVMAHTHPVFCMSVIGTQNAHNLISISNDGRLCSWSLEMLSSPQETRDLQYNNK 215
++ HT PV ++ + S S+DG + W L + L ++
Sbjct: 192 -----STLAGHTDPVSSLAFSPDGGLL-IASGSSDGTIRLWDLS--TGKLLRSTLSGHSD 243
Query: 216 QTKNLAVLSLAFPQNDVNNFVVGCEDGNVYSACRHGNKAGNVECYEGHEGPVVGLSSHRA 275
+ +F + + G DG + + + + GH V+ ++
Sbjct: 244 SVVS------SFSPDG-SLLASGSSDGTIR-LWDLRSSSSLLRTLSGHSSSVLSVAFSPD 295
Query: 276 QGHIDFSHLYLTSSYDWSVKLWNIKENKPVHSFNEF--RDYVMDVQWSPINPALFATVEV 333
L + S D +V+LW+++ K + S V + +SP L +
Sbjct: 296 ------GKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSD 349
Query: 334 AGRVDLWNLNLDTEVPATSAIVEGAPALSRVTWTPNGTQLCVGDEKGAITMFDV 387
G + LW+L + +EG + V+++P+G + G G + ++D+
Sbjct: 350 DGTIRLWDLRTGKPL----KTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDL 399
Score = 66.7 bits (161), Expect = 5e-12
Identities = 49/251 (19%), Positives = 83/251 (33%), Gaps = 31/251 (12%)
Query: 96 DGVCLIWNTKFKKTTPEFEFFCQSPVLSCCFAKFNPYLILGGTYSGQIVLWDTRVQKKTP 155
DG +W+ K S + F+ L G G I LWD R
Sbjct: 220 DGTIRLWDLSTGKLLRS-TLSGHSDSVVSSFSPDGSLLASGS-SDGTIRLWDLRSSSSLL 277
Query: 156 VHRTPLSVMAHTHPVFCMSVIGTQNAHNLISISNDGRLCSWSLEMLSSPQETRDLQYNNK 215
++ H+ V ++ + L S S+DG + W LE +
Sbjct: 278 R-----TLSGHSSSVLSVAFSP--DGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEG- 329
Query: 216 QTKNLAVLSLAFPQNDVNNFVVGCEDGNVYSACRHGNKAGNVECYEGHEGPVVGLSSHRA 275
V SL+F + G +DG + K P+ L H
Sbjct: 330 -----PVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGK------------PLKTLEGHSN 372
Query: 276 QGHIDFS---HLYLTSSYDWSVKLWNIKENKPVHSFNEFRDYVMDVQWSPINPALFATVE 332
+ FS + + S D +V+LW++ + + + V + +SP +L +
Sbjct: 373 VLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDGKSLASGSS 432
Query: 333 VAGRVDLWNLN 343
+ LW+L
Sbjct: 433 D-NTIRLWDLK 442
Score = 56.3 bits (134), Expect = 1e-08
Identities = 56/284 (19%), Positives = 103/284 (36%), Gaps = 23/284 (8%)
Query: 118 QSPVLSCCFAKFNPYLILGGTYSGQIVLWDTRVQKKTPVHRTPLSVMAHTHPVFCMSVIG 177
+ + S F+ L+ G G I LWD +K H V +++
Sbjct: 65 EDSITSIAFSPDGELLLSGS-SDGTIKLWDLDNGEKLIKSLE----GLHDSSVSKLALSS 119
Query: 178 TQNAHNLISISN-DGRLCSWSLEMLSSPQETRDLQYNNKQTKNLAVLSLAFPQNDVNNFV 236
L++ S+ DG + W L T + + +V SLAF +
Sbjct: 120 PDGNSILLASSSLDGTVKLWDLSTPGKLIRT-------LEGHSESVTSLAFSPDGKLLAS 172
Query: 237 VGCEDGNVYSACRHGNKAGNVECYEGHEGPVVGLSSHRAQGHIDFSHLYLTSSYDWSVKL 296
DG + K + GH PV L+ D L + S D +++L
Sbjct: 173 GSSLDGTIKLWDLRTGK--PLSTLAGHTDPVSSLAFS-----PDGGLLIASGSSDGTIRL 225
Query: 297 WNIKENKPVHSFNEFRDYVMDVQWSPINPALFATVEVAGRVDLWNLNLDTEVPATSAIVE 356
W++ K + S + +SP + +L A+ G + LW+L + + T +
Sbjct: 226 WDLSTGKLLRSTLSGHSDSVVSSFSP-DGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHS 284
Query: 357 GAPALSRVTWTPNGTQLCVGDEKGAITMFDVGEVGIACLKFITS 400
+ + V ++P+G L G G + ++D+ + +
Sbjct: 285 SS--VLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKG 326
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 70.1 bits (172), Expect = 2e-13
Identities = 57/270 (21%), Positives = 97/270 (35%), Gaps = 32/270 (11%)
Query: 119 SPVLSCCFAKFNPYLILGGTYSGQIVLWDTRVQKKTPVHRTPLSVMAHTHPVFCMSVIGT 178
V F+ L G G I +WD + ++ HT PV V +
Sbjct: 10 GGVTCVAFSPDGKLLATGS-GDGTIKVWDLETGEL------LRTLKGHTGPVRD--VAAS 60
Query: 179 QNAHNLISISNDGRLCSWSLEMLSSPQETRDLQYNNKQTKNLAVLSLAFPQNDVNNFVVG 238
+ L S S+D + W LE + + R L + V S+AF + +
Sbjct: 61 ADGTYLASGSSDKTIRLWDLE---TGECVRTLTGHTS-----YVSSVAF--SPDGRILSS 110
Query: 239 C-EDGNVYSACRHGNKAGNVECYEGHEGPVVGLSSHRAQGHIDFSHLYLTSSYDWSVKLW 297
D + + GH V ++ +SS D ++KLW
Sbjct: 111 SSRDKTI--KVWDVETGKCLTTLRGHTDWVNSVAFSP------DGTFVASSSQDGTIKLW 162
Query: 298 NIKENKPVHSFNEFRDYVMDVQWSPINPALFATVEVAGRVDLWNLNLDTEVPATSAIVEG 357
+++ K V + V V +SP L ++ G + LW+L+ + +
Sbjct: 163 DLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSS-DGTIKLWDLSTGKCL--GTLRGHE 219
Query: 358 APALSRVTWTPNGTQLCVGDEKGAITMFDV 387
S V ++P+G L G E G I ++D+
Sbjct: 220 NGVNS-VAFSPDGYLLASGSEDGTIRVWDL 248
Score = 58.9 bits (143), Expect = 9e-10
Identities = 51/278 (18%), Positives = 96/278 (34%), Gaps = 46/278 (16%)
Query: 68 VTYMDWSTQHPELLLASYHRNKEAPNEPDGVCLIWNTKFKKTTPEFEFFCQSPVLSCCFA 127
V + S L S D +W+ + + S V S F+
Sbjct: 54 VRDVAASADGTYLASGSS----------DKTIRLWDLETGECVRTLTGH-TSYVSSVAFS 102
Query: 128 KFNPYLILGGTYSGQIVLWDTRVQKKTPVHRTPLSVMAHTHPVFCMSVIGTQNAHNLISI 187
+ ++ + I +WD T T L HT V ++ + S
Sbjct: 103 P-DGRILSSSSRDKTIKVWDVE----TGKCLTTLR--GHTDWVNSVAFSPDGTF--VASS 153
Query: 188 SNDG--RLCSWSLEMLSSPQETRDLQYNNKQTKNLAVLSLAFPQNDVNNFVVGCEDGN-- 243
S DG +L W L + + L + + V S+AF D + DG
Sbjct: 154 SQDGTIKL--WDLR---TGKCVATLTGHTGE-----VNSVAF-SPDGEKLLSSSSDGTIK 202
Query: 244 VYSACRHGNKAGNVECYEGHEGPVVGLSSHRAQGHIDFSHLYLTSSYDWSVKLWNIKENK 303
++ + + GHE V ++ +L + S D ++++W+++ +
Sbjct: 203 LWDL----STGKCLGTLRGHENGVNSVAFSPD------GYLLASGSEDGTIRVWDLRTGE 252
Query: 304 PVHSFNEFRDYVMDVQWSPINPALFATVEVAGRVDLWN 341
V + + + V + WSP L A+ G + +W+
Sbjct: 253 CVQTLSGHTNSVTSLAWSPDGKRL-ASGSADGTIRIWD 289
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 34.7 bits (79), Expect = 0.088
Identities = 15/57 (26%), Positives = 31/57 (54%)
Query: 287 TSSYDWSVKLWNIKENKPVHSFNEFRDYVMDVQWSPINPALFATVEVAGRVDLWNLN 343
+S+++ V++W++ ++ V E V + +S +P L A+ G V LW++N
Sbjct: 550 SSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSIN 606
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 29.2 bits (66), Expect = 0.29
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 6/39 (15%)
Query: 260 YEGHEGPVVGLSSHRAQGHIDFSHLYLTSSYDWSVKLWN 298
+GH GPV ++ + + S D +V++W+
Sbjct: 7 LKGHTGPVTSVAFSPDGNLL------ASGSDDGTVRVWD 39
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats (blades)
of the beta propeller domain.
Length = 40
Score = 29.2 bits (66), Expect = 0.33
Identities = 10/42 (23%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 257 VECYEGHEGPVVGLSSHRAQGHIDFSHLYLTSSYDWSVKLWN 298
++ +GH GPV ++ ++ + S D ++KLW+
Sbjct: 5 LKTLKGHTGPVTSVAFSPDGKYL------ASGSDDGTIKLWD 40
Score = 26.1 bits (58), Expect = 3.9
Identities = 12/30 (40%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 118 QSPVLSCCFAKFNPYLILGGTYSGQIVLWD 147
PV S F+ YL G G I LWD
Sbjct: 12 TGPVTSVAFSPDGKYLASGS-DDGTIKLWD 40
Score = 25.7 bits (57), Expect = 5.6
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 162 SVMAHTHPVFCMSVIGTQNAHNLISISNDGRLCSWS 197
++ HT PV ++ + + L S S+DG + W
Sbjct: 7 TLKGHTGPVTSVAF--SPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|149835 pfam08897, DUF1841, Domain of unknown function (DUF1841). This
family of proteins are functionally uncharacterized.
Length = 137
Score = 30.7 bits (70), Expect = 0.62
Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 13/48 (27%)
Query: 55 RQFFDEKWSKNRN--------VTYMDWSTQHPELLLASYHRNKEAPNE 94
R+FF + W K + D +HPE YH E P
Sbjct: 7 RRFFCDAWRKYQAGEPLTPLETIAADVILEHPE-----YHALLEDPEA 49
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 31.8 bits (72), Expect = 0.71
Identities = 30/129 (23%), Positives = 53/129 (41%), Gaps = 24/129 (18%)
Query: 266 PVVGLSSHRA-----QGHIDFSHLYLTSSYDWSVKLWNIKENKPVHSFNEFRD------- 313
PV+ L H + Q + FS + + S D ++++W I N S E +D
Sbjct: 66 PVIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHND--ESVKEIKDPQCILKG 123
Query: 314 ---YVMDVQWSPINPALFATVEVAGRVDLWNLNLDTEVPATSAIVEGAPALSRVTWTPNG 370
+ + W+P+N + + V++W +++ E A + LS + W G
Sbjct: 124 HKKKISIIDWNPMNYYIMCSSGFDSFVNIW--DIENEKRAFQINM--PKKLSSLKWNIKG 179
Query: 371 TQL---CVG 376
L CVG
Sbjct: 180 NLLSGTCVG 188
>gnl|CDD|204739 pfam11768, DUF3312, Protein of unknown function (DUF3312). This is
a eukaryotic family of uncharacterized proteins. This
family shows similarity to WD40 repeat proteins.
Length = 544
Score = 31.6 bits (72), Expect = 0.73
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 364 VTWTPNGTQLCVGDEKGAITMFDVG 388
+ W P+ + V +E+G + FD+
Sbjct: 304 IAWHPDSAIVLVANEQGELQCFDIA 328
>gnl|CDD|215185 PLN02326, PLN02326, 3-oxoacyl-[acyl-carrier-protein] synthase III.
Length = 379
Score = 31.2 bits (71), Expect = 0.93
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 353 AIVEGAPALSR-VTWTPNGTQLCVGDEKGAITM 384
+V GA ALSR V WT GT + GD GA+ +
Sbjct: 178 VLVIGADALSRYVDWTDRGTCILFGDGAGAVVL 210
>gnl|CDD|216086 pfam00728, Glyco_hydro_20, Glycosyl hydrolase family 20, catalytic
domain. This domain has a TIM barrel fold.
Length = 335
Score = 28.8 bits (65), Expect = 5.1
Identities = 16/93 (17%), Positives = 25/93 (26%), Gaps = 13/93 (13%)
Query: 282 SHLYLTSSYDWSVKLWNIKENKPVHSFNEFRDY-----VMDVQWSPINPALFATVEVAGR 336
LYL D W + F + + D +P+ E A
Sbjct: 251 DFLYL----DHGYGKWPTERGYYWAGFMPLKKFYAWEPPYDTWGAPLEAGNVLGGEAA-- 304
Query: 337 VDLWNLNLDTEVPATSAIVEGAPALSRVTWTPN 369
LW + + AL+ W+P
Sbjct: 305 --LWGEYIRDPENLEYMVFPRLAALAERAWSPP 335
>gnl|CDD|172578 PRK14088, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 440
Score = 28.6 bits (64), Expect = 6.5
Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 22/93 (23%)
Query: 234 NFVVGCEDGNVYSAC----RHGNKAGNVECYEGHEGPVVGL-SSHRAQ--GHIDFSH--- 283
NFVVG + Y A ++ + + Y G VGL +H Q G+ +
Sbjct: 106 NFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGG-----VGLGKTHLLQSIGNYVVQNEPD 160
Query: 284 ---LYLTSSYDWSVKLWNIKENKPVHSFNEFRD 313
+Y+TS + + ++KE K NEFR+
Sbjct: 161 LRVMYITSEKFLNDLVDSMKEGK----LNEFRE 189
>gnl|CDD|182134 PRK09897, PRK09897, hypothetical protein; Provisional.
Length = 534
Score = 28.6 bits (64), Expect = 7.2
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 67 NVTYMDWSTQHPELLLASYHRNKEA 91
TY++W + + L Y KE
Sbjct: 66 YCTYLEWLQKQEDSHLQRYGVKKET 90
>gnl|CDD|223978 COG1049, AcnB, Aconitase B [Energy production and conversion].
Length = 852
Score = 28.6 bits (64), Expect = 7.5
Identities = 23/90 (25%), Positives = 35/90 (38%), Gaps = 21/90 (23%)
Query: 263 HEGPVVGLSSHRAQGHIDFSHLYLTSSYDWSVKLWNIKENKPVHSFNEFRDYVMDVQWSP 322
+ G VVG S R T+S LW++ ++ P + V+
Sbjct: 226 YVGDVVGTGSSRKSA---------TNSV-----LWHMGDDIPYVPNKRYGGIVLG---GK 268
Query: 323 INPALFATVEVAG----RVDLWNLNLDTEV 348
I P F T+E AG VD+ NL + +
Sbjct: 269 IAPIFFNTMEDAGALPIEVDVSNLEMGDVI 298
>gnl|CDD|226161 COG3635, COG3635, Predicted phosphoglycerate mutase, AP superfamily
[Carbohydrate transport and metabolism].
Length = 408
Score = 28.4 bits (64), Expect = 8.0
Identities = 9/18 (50%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 154 TPVHRTPLSVMAHT-HPV 170
T H TP+SV H+ PV
Sbjct: 346 TGDHSTPVSVKDHSGDPV 363
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
0.318 0.133 0.428
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,924,048
Number of extensions: 1816897
Number of successful extensions: 1154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1131
Number of HSP's successfully gapped: 25
Length of query: 401
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 302
Effective length of database: 6,546,556
Effective search space: 1977059912
Effective search space used: 1977059912
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.9 bits)