RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11876
(68 letters)
>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 = 57.0 bits (138), Expect = 1e-11
Identities = 22/63 (34%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTW 64
D R+ ++ S D TI +WD K + TL+GH++WV ++ FS + ++ DG+I W
Sbjct: 104 DGRILSSSSRDKTIKVWDVETGKC-LTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLW 162
Query: 65 DIN 67
D+
Sbjct: 163 DLR 165
Score = 57.0 bits (138), Expect = 1e-11
Identities = 24/64 (37%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTW 64
D + S D TI LWD K + TL+GH N V ++ FS LL + DG+I W
Sbjct: 188 DGEKLLSSSSDGTIKLWDLSTGKC-LGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVW 246
Query: 65 DINK 68
D+
Sbjct: 247 DLRT 250
Score = 54.3 bits (131), Expect = 1e-10
Identities = 25/64 (39%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTW 64
D A+ S D TI LWD R K V TL GH+ V ++ FS L+++ DG+I W
Sbjct: 146 DGTFVASSSQDGTIKLWDLRTGKC-VATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLW 204
Query: 65 DINK 68
D++
Sbjct: 205 DLST 208
Score = 52.7 bits (127), Expect = 4e-10
Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTW 64
D + A+ S+D TI +WD R V+TL GH+N V ++ +S L + DG+I W
Sbjct: 230 DGYLLASGSEDGTIRVWDLRT-GECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIW 288
Query: 65 D 65
D
Sbjct: 289 D 289
Score = 52.0 bits (125), Expect = 9e-10
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 1 MIFLDTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGS 60
D A+ S D TI LWD + VRTL GH+++V ++ FS +L ++ D +
Sbjct: 58 AASADGTYLASGSSDKTIRLWDLETGE-CVRTLTGHTSYVSSVAFSPDGRILSSSSRDKT 116
Query: 61 IYTWDINK 68
I WD+
Sbjct: 117 IKVWDVET 124
Score = 51.2 bits (123), Expect = 2e-09
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTW 64
D ++ AT S D TI +WD + +RTL+GH+ V+++ S+ L + D +I W
Sbjct: 20 DGKLLATGSGDGTIKVWDLETGEL-LRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLW 78
Query: 65 DINK 68
D+
Sbjct: 79 DLET 82
Score = 39.2 bits (92), Expect = 2e-05
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 30 VRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTWDIN 67
RTL+GH+ V + FS LL T DG+I WD+
Sbjct: 2 RRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLE 39
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 51.6 bits (122), Expect = 1e-09
Identities = 25/64 (39%), Positives = 37/64 (57%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTW 64
D + A+ S D TI LWD R+ + +RTL GHS+ V ++ FS LL + DG++ W
Sbjct: 252 DGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLW 311
Query: 65 DINK 68
D+
Sbjct: 312 DLET 315
Score = 42.8 bits (99), Expect = 2e-06
Identities = 24/62 (38%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 6 TRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTWD 65
+ A+ S D TI LWD K TL GHS+ V + FS +LL + DG+I WD
Sbjct: 211 GLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSS-FSPDGSLLASGSSDGTIRLWD 269
Query: 66 IN 67
+
Sbjct: 270 LR 271
Score = 40.1 bits (92), Expect = 1e-05
Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTW 64
D RV ++ S D T+ LWD +R L GH++ V +++FS L + D +I W
Sbjct: 381 DGRVVSSGSTDGTVRLWDLSTGS-LLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLW 439
Query: 65 DINK 68
D+
Sbjct: 440 DLKT 443
Score = 40.1 bits (92), Expect = 2e-05
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTR-VRTLQGHSNWVKNIEFSSKDNLLVTAG-FDGSIY 62
D ++ A+ S D T+ LWD K TL+GH V ++ FS +LLV+ G DG+I
Sbjct: 295 DGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIR 354
Query: 63 TWDINK 68
WD+
Sbjct: 355 LWDLRT 360
Score = 39.7 bits (91), Expect = 2e-05
Identities = 22/62 (35%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 8 VFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDN-LLVTAGFDGSIYTWDI 66
+ + S D TI LWD R K + TL GH++ V ++ FS L+ + DG+I WD+
Sbjct: 170 LASGSSLDGTIKLWDLRTGKP-LSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDL 228
Query: 67 NK 68
+
Sbjct: 229 ST 230
Score = 39.3 bits (90), Expect = 3e-05
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAG-FDGSIYT 63
++ + A+ S D T+ LWD +RTL+GHS V ++ FS LL + DG+I
Sbjct: 123 NSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKL 182
Query: 64 WDINK 68
WD+
Sbjct: 183 WDLRT 187
Score = 32.0 bits (71), Expect = 0.013
Identities = 22/68 (32%), Positives = 37/68 (54%), Gaps = 4/68 (5%)
Query: 5 DTRVFATCSDDTTIALWDARNLKTRVRTLQG-HSNWVKNIEFSSKDN---LLVTAGFDGS 60
D + + S D TI LWD N + +++L+G H + V + SS D LL ++ DG+
Sbjct: 76 DGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGT 135
Query: 61 IYTWDINK 68
+ WD++
Sbjct: 136 VKLWDLST 143
Score = 31.2 bits (69), Expect = 0.020
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 25 NLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTWDINK 68
L+GH + + +I FS LL++ DG+I WD++
Sbjct: 53 LPDLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDN 96
Score = 27.7 bits (60), Expect = 0.43
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 6 TRVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTWD 65
+ + + SDD TI LWD R K + V ++ FS ++ + DG++ WD
Sbjct: 341 SLLVSGGSDDGTIRLWDLRTGKPLKTL--EGHSNVLSVSFSPDGRVVSSGSTDGTVRLWD 398
Query: 66 INK 68
++
Sbjct: 399 LST 401
>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 = 40.8 bits (96), Expect = 6e-07
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 27 KTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTWD 65
++TL+GH+ V ++ FS L + DG+I WD
Sbjct: 2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 25.0 bits (55), Expect = 1.0
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 5 DTRVFATCSDDTTIALWD 22
D + A+ SDD TI LWD
Sbjct: 23 DGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 40.8 bits (96), Expect = 7e-07
Identities = 15/39 (38%), Positives = 23/39 (58%)
Query: 27 KTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTWD 65
+RTL+GH+ V ++ FS NLL + DG++ WD
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 26.2 bits (58), Expect = 0.43
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 5 DTRVFATCSDDTTIALWD 22
D + A+ SDD T+ +WD
Sbjct: 22 DGNLLASGSDDGTVRVWD 39
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 39.5 bits (92), Expect = 2e-05
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 3 FLDTRVFATCSDDTTIALWD------ARNLKTRVRTLQGHSNWVKNIEF-SSKDNLLVTA 55
F ++F T S+D TI W +N+ + LQGH+ V + F S N+L +A
Sbjct: 86 FDPQKLF-TASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVSFHPSAMNVLASA 144
Query: 56 GFDGSIYTWDINK 68
G D + WD+ +
Sbjct: 145 GADMVVNVWDVER 157
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 35.3 bits (81), Expect = 8e-04
Identities = 17/69 (24%), Positives = 36/69 (52%), Gaps = 8/69 (11%)
Query: 6 TRVFATCSDDTTIALWDARNLKTRVR-------TLQGHSNWVKNIEFSSKDN-LLVTAGF 57
+ + A+ S+D TI +W+ + V+ L+GH + I+++ + ++ ++GF
Sbjct: 87 SEILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHKKKISIIDWNPMNYYIMCSSGF 146
Query: 58 DGSIYTWDI 66
D + WDI
Sbjct: 147 DSFVNIWDI 155
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 31.6 bits (71), Expect = 0.017
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 7 RVFATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYTWDI 66
R A S D + +D RN K + T+ GHS V + F LV++ D ++ WD+
Sbjct: 631 RSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDSST-LVSSSTDNTLKLWDL 689
Query: 67 N 67
+
Sbjct: 690 S 690
Score = 30.8 bits (69), Expect = 0.027
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 4/61 (6%)
Query: 10 ATCSDDTTIALWD-ARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFD-GSIYTWDIN 67
A+ + + + +WD AR+ V ++ H V +I++SS D L+ +G D GS+ W IN
Sbjct: 549 ASSNFEGVVQVWDVARS--QLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSIN 606
Query: 68 K 68
+
Sbjct: 607 Q 607
Score = 27.0 bits (59), Expect = 0.68
Identities = 15/67 (22%), Positives = 28/67 (41%), Gaps = 5/67 (7%)
Query: 3 FLDTRVFATCSDDTTIALWDARNL-----KTRVRTLQGHSNWVKNIEFSSKDNLLVTAGF 57
F+D+ + S D T+ LWD +T + + GH+N + S D + T
Sbjct: 669 FVDSSTLVSSSTDNTLKLWDLSMSISGINETPLHSFMGHTNVKNFVGLSVSDGYIATGSE 728
Query: 58 DGSIYTW 64
++ +
Sbjct: 729 TNEVFVY 735
>gnl|CDD|191625 pfam06869, DUF1258, Protein of unknown function (DUF1258). This
family represents a conserved region approximately 260
residues long within a number of hypothetical proteins
of unknown function that seem to be specific to C.
elegans. Note that this family contains a number of
conserved cysteine and histidine residues.
Length = 258
Score = 29.1 bits (65), Expect = 0.10
Identities = 12/38 (31%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 12 CSDDTTIALWDARNLKTRVRT-LQGHSNWVKNIEFSSK 48
CS++ + LW+A L + + ++ HS V+NI F+
Sbjct: 148 CSENPSTTLWNA--LIPFILSDVESHSGRVRNITFTCH 183
>gnl|CDD|240247 PTZ00055, PTZ00055, glutathione synthetase; Provisional.
Length = 619
Score = 29.0 bits (65), Expect = 0.14
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 23 ARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAGFDGSIYT 63
RN+K +R G S++ +I+ +K+ F + Y
Sbjct: 145 ERNIKDDIRCYIGRSDYFIHIDNLTKNKTQGENEFCKTCYY 185
>gnl|CDD|226641 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function
prediction only].
Length = 534
Score = 26.9 bits (60), Expect = 0.74
Identities = 10/32 (31%), Positives = 11/32 (34%)
Query: 15 DTTIALWDARNLKTRVRTLQGHSNWVKNIEFS 46
T+ L RNL G VK I F
Sbjct: 1 MMTMPLLSIRNLSVAFHQEGGTVEAVKGISFD 32
>gnl|CDD|214750 smart00633, Glyco_10, Glycosyl hydrolase family 10.
Length = 263
Score = 26.0 bits (58), Expect = 1.3
Identities = 19/53 (35%), Positives = 24/53 (45%), Gaps = 12/53 (22%)
Query: 25 NLKTRVRTLQGHS---NWVKNIEFSSKDNLL---------VTAGFDGSIYTWD 65
+K R TL HS +WV N+ S K+ LL V + G IY WD
Sbjct: 29 GIKVRGHTLVWHSQTPDWVFNLNISGKETLLARLENHIKTVVGRYKGKIYAWD 81
>gnl|CDD|144386 pfam00765, Autoind_synth, Autoinducer synthetase.
Length = 182
Score = 25.0 bits (55), Expect = 3.1
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 11/70 (15%)
Query: 1 MIFLDTRVFATCSDDTTI----ALWDARNL---KTRVRTLQGHSNWVKNIEFSSKDNLLV 53
MI T F++ DD ++ ++ K R R L G+ + + F S N
Sbjct: 70 MI---TGTFSSYFDDISLPESGNYIESSRFFVDKARARGLLGNLAPISLMLFLSMINYAR 126
Query: 54 TAGFDGSIYT 63
+G+DG IYT
Sbjct: 127 ASGYDG-IYT 135
>gnl|CDD|234917 PRK01198, PRK01198, V-type ATP synthase subunit C; Provisional.
Length = 352
Score = 24.4 bits (54), Expect = 4.4
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 6/36 (16%)
Query: 21 WDARNLKTRVRTLQGHSNWVKNIEFSSKDNLLVTAG 56
WD N+KT +R ++ + LL+ AG
Sbjct: 103 WDIHNIKTLLRGKI------LGLDAEEIEELLIPAG 132
>gnl|CDD|224315 COG1397, DraG, ADP-ribosylglycohydrolase [Posttranslational
modification, protein turnover, chaperones].
Length = 314
Score = 24.3 bits (53), Expect = 6.2
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 10 ATCSDDTTIALWDARNLKTRVRTLQGHSNWVKNIE 44
+DDT++AL A +L L ++ +
Sbjct: 55 GEWTDDTSLALCLAESL-LEGGGLDDPELFLNRLL 88
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
0.322 0.134 0.423
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,297,447
Number of extensions: 221067
Number of successful extensions: 258
Number of sequences better than 10.0: 1
Number of HSP's gapped: 241
Number of HSP's successfully gapped: 34
Length of query: 68
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 29
Effective length of database: 9,207,796
Effective search space: 267026084
Effective search space used: 267026084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.1 bits)