RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11036
(239 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 = 98.6 bits (246), Expect = 1e-24
Identities = 64/231 (27%), Positives = 100/231 (43%), Gaps = 44/231 (19%)
Query: 12 LWDIPSEAQVSTFTNHTTIYKVPLMLYSTPQDYVRAGTVSPVSSDIVISGSYDKTVNVYD 71
LWD+ + V T T HT YV + SP I+ S S DKT+ V+D
Sbjct: 77 LWDLETGECVRTLTGHT--------------SYVSSVAFSP-DGRILSSSSRDKTIKVWD 121
Query: 72 TRSPDPVMSVN-HGSPVESVLCLPSGGIFVTGGGLD--VCIWDMLGGGKLLHKFTCHHKT 128
+ + ++ H V SV P G FV D + +WD L GK + T H
Sbjct: 122 VETGKCLTTLRGHTDWVNSVAFSPDGT-FVASSSQDGTIKLWD-LRTGKCVATLTGHTGE 179
Query: 129 VTSLCLASGGKRLISASLDHHAKIYEM-TLKTVSSFTGGLD------------------- 168
V S+ + G++L+S+S D K++++ T K + + G +
Sbjct: 180 VNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSE 239
Query: 169 ---VCIWDMLGGGKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIYE 216
+ +WD L G+ + + H +VTSL + GKRL S S D +I++
Sbjct: 240 DGTIRVWD-LRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 88.2 bits (219), Expect = 7e-21
Identities = 57/233 (24%), Positives = 94/233 (40%), Gaps = 39/233 (16%)
Query: 9 IVALWDIPSEAQVSTFTNHTTIYKVPLMLYSTPQDYVRAGTVSPVSSDIVISGSYDKTVN 68
+ +WD+ + + T HT VR S + + SGS DKT+
Sbjct: 32 TIKVWDLETGELLRTLKGHT--------------GPVRDVAASADGTYLA-SGSSDKTIR 76
Query: 69 VYDTRSPDPVMSVN-HGSPVESVLCLPSGGIFVTGGG-LDVCIWDMLGGGKLLHKFTCHH 126
++D + + V ++ H S V SV P G I + + +WD+ G K L H
Sbjct: 77 LWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETG-KCLTTLRGHT 135
Query: 127 KTVTSLCLASGGKRLISASLDHHAKIYEMTLKTVSSFTGGLDVCIWDMLGGGKLLHKFTC 186
V S+ + G + S+S D K+ WD L GK + T
Sbjct: 136 DWVNSVAFSPDGTFVASSSQDGTIKL-------------------WD-LRTGKCVATLTG 175
Query: 187 HHKTVTSLCLASGGKRLISASLDHHAKIYEMVNFSPVHTLDY-PSPVLSIDVS 238
H V S+ + G++L+S+S D K++++ + TL + V S+ S
Sbjct: 176 HTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFS 228
Score = 79.3 bits (196), Expect = 1e-17
Identities = 45/188 (23%), Positives = 77/188 (40%), Gaps = 24/188 (12%)
Query: 54 SSDIVISGSYDKTVNVYDTRSPDPVMS-VNHGSPVESVLCLPSGG-IFVTGGGLDVCIWD 111
++ +GS D T+ V+D + + + + H PV V G + + +WD
Sbjct: 20 DGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD 79
Query: 112 MLGGGKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIYEMTLKTVSSFTGGLDVCI 171
L G+ + T H V+S+ + G+ L S+S D KT+ +
Sbjct: 80 -LETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRD----------KTI---------KV 119
Query: 172 WDMLGGGKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIYEMVNFSPVHTL-DYPS 230
WD+ G K L H V S+ + G + S+S D K++++ V TL +
Sbjct: 120 WDVETG-KCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTG 178
Query: 231 PVLSIDVS 238
V S+ S
Sbjct: 179 EVNSVAFS 186
Score = 56.2 bits (136), Expect = 2e-09
Identities = 31/145 (21%), Positives = 55/145 (37%), Gaps = 25/145 (17%)
Query: 118 LLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIYEMTLKTVSS--------------- 162
L H VT + + GK L + S D K++++ +
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS 60
Query: 163 ------FTGGLD--VCIWDMLGGGKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKI 214
+G D + +WD L G+ + T H V+S+ + G+ L S+S D K+
Sbjct: 61 ADGTYLASGSSDKTIRLWD-LETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKV 119
Query: 215 YEMVNFSPVHTLDY-PSPVLSIDVS 238
+++ + TL V S+ S
Sbjct: 120 WDVETGKCLTTLRGHTDWVNSVAFS 144
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 67.0 bits (162), Expect = 8e-13
Identities = 58/233 (24%), Positives = 91/233 (39%), Gaps = 37/233 (15%)
Query: 10 VALWDIPSEAQVSTFTNHTTIYKVPLMLYSTPQDYVRAGTVSPVSSDIVISGSYDKTVNV 69
+ LWD+ + +ST HT D V + SP ++ SGS D T+ +
Sbjct: 180 IKLWDLRTGKPLSTLAGHT--------------DPVSSLAFSPDGGLLIASGSSDGTIRL 225
Query: 70 YDTRSPDPVMSVNHGSPVESVLCLPSGGIFVTGGGLD--VCIWDMLGGGKLLHKFTCHHK 127
+D + + S G V G + G D + +WD+ LL + H
Sbjct: 226 WDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSS 285
Query: 128 TVTSLCLASGGKRLISASLDHHAKIYEMTLKTVSSFTGGLDVCIWDMLGGGKL-LHKFTC 186
+V S+ + GK L S S D V +WD+ G L
Sbjct: 286 SVLSVAFSPDGKLLASGSSDG-------------------TVRLWDLETGKLLSSLTLKG 326
Query: 187 HHKTVTSLCLASGGKRLISA-SLDHHAKIYEMVNFSPVHTLDYPSPVLSIDVS 238
H V+SL + G L+S S D +++++ P+ TL+ S VLS+ S
Sbjct: 327 HEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFS 379
Score = 62.8 bits (151), Expect = 2e-11
Identities = 49/190 (25%), Positives = 76/190 (40%), Gaps = 28/190 (14%)
Query: 32 KVPLMLYSTPQDYVRAGTVSPVSSDIVISGSYDKTVNVYDTRSPDPVMS---VNHGSPVE 88
L S V + SP ++ SGS D TV ++D + + S H PV
Sbjct: 274 SSLLRTLSGHSSSVLSVAFSP-DGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVS 332
Query: 89 SVLCLPSGGIFVTGGGLD--VCIWDMLGGGKLLHKFTCHHKTVTSLCLASGGKRLISASL 146
S+ P G + V+GG D + +WD+ G L H V S+ + G+ + S S
Sbjct: 333 SLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLE--GHSNVLSVSFSPDGRVVSSGST 390
Query: 147 DHHAKIYEMTLKTVSSFTGGLDVCIWDMLGGGKLLHKFTCHHKTVTSLCLASGGKRLISA 206
D ++++ L G LL H VTSL + GK L S
Sbjct: 391 DGTVRLWD--------------------LSTGSLLRNLDGHTSRVTSLDFSPDGKSLASG 430
Query: 207 SLDHHAKIYE 216
S D+ ++++
Sbjct: 431 SSDNTIRLWD 440
Score = 55.1 bits (131), Expect = 8e-09
Identities = 61/270 (22%), Positives = 111/270 (41%), Gaps = 36/270 (13%)
Query: 3 HDLPILIVALWDIPSEAQVSTFTNHTTIYKVPLMLYSTPQDYVRAGTVSPVSSDIVISGS 62
+ L +L + + + ++ + +L +D + + SP ++++SGS
Sbjct: 26 NSLSLLSLGSSESGILLLALLSDSLVSLPDLSSLLLRGHEDSITSIAFSP-DGELLLSGS 84
Query: 63 YDKTVNVYDTRSPDPVMSVNHGSPVESVLCL----PSGGIFVTGGGLD---VCIWDMLGG 115
D T+ ++D + + ++ G SV L P G + V +WD+
Sbjct: 85 SDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTP 144
Query: 116 GKLLHKFTCHHKTVTSLCLASGGKRLISAS-LDHHAKIYEM-TLKTVSSFTG-------- 165
GKL+ H ++VTSL + GK L S S LD K++++ T K +S+ G
Sbjct: 145 GKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSL 204
Query: 166 ---------------GLDVCIWDMLGGGKLLHKFTCHHKTVTSLCLASGGKRLISASLDH 210
+ +WD+ G L + H +V S + G L S S D
Sbjct: 205 AFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVS-SFSPDGSLLASGSSDG 263
Query: 211 HAKIYEMVNF-SPVHTLDYPS-PVLSIDVS 238
+++++ + S + TL S VLS+ S
Sbjct: 264 TIRLWDLRSSSSLLRTLSGHSSSVLSVAFS 293
>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 = 36.5 bits (85), Expect = 5e-04
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 116 GKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIYE 154
G+LL H VTS+ + GK L S S D K+++
Sbjct: 2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 36.5 bits (85), Expect = 5e-04
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 178 GKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIYE 216
G+LL H VTS+ + GK L S S D K+++
Sbjct: 2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 26.9 bits (60), Expect = 1.1
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 34 PLMLYSTPQDYVRAGTVSPVSSDIVISGSYDKTVNVYD 71
L V + SP + SGS D T+ ++D
Sbjct: 4 LLKTLKGHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
Score = 25.0 bits (55), Expect = 5.8
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 83 HGSPVESVLCLPSGGIFVTGGGLD--VCIWD 111
H PV SV P G +G D + +WD
Sbjct: 11 HTGPVTSVAFSPDGKYLASGSD-DGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 34.6 bits (80), Expect = 0.002
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 116 GKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIY 153
GKLL H VTS+ + G L S S D +++
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 34.6 bits (80), Expect = 0.002
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 178 GKLLHKFTCHHKTVTSLCLASGGKRLISASLDHHAKIY 215
GKLL H VTS+ + G L S S D +++
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 26.2 bits (58), Expect = 2.4
Identities = 12/40 (30%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 32 KVPLMLYSTPQDYVRAGTVSPVSSDIVISGSYDKTVNVYD 71
L V + SP +++ SGS D TV V+D
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSP-DGNLLASGSDDGTVRVWD 39
Score = 24.6 bits (54), Expect = 7.0
Identities = 12/31 (38%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 83 HGSPVESVLCLPSGGIFVTGGGLD--VCIWD 111
H PV SV P G + +G D V +WD
Sbjct: 10 HTGPVTSVAFSPDGNLLASGSD-DGTVRVWD 39
>gnl|CDD|236657 PRK10150, PRK10150, beta-D-glucuronidase; Provisional.
Length = 604
Score = 30.0 bits (68), Expect = 1.1
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 11/53 (20%)
Query: 24 FTNHTTIYKVPLMLYSTPQDYVRAGTVSP----------VSSDIVISGSYDKT 66
F N+ I++ P+MLY+TP+ ++ TV V + +G D
Sbjct: 164 FFNYAGIHR-PVMLYTTPKTHIDDITVVTELAQDLNHASVDWSVETNGDVDSV 215
>gnl|CDD|225921 COG3386, COG3386, Gluconolactonase [Carbohydrate transport and
metabolism].
Length = 307
Score = 27.7 bits (62), Expect = 5.1
Identities = 13/57 (22%), Positives = 19/57 (33%), Gaps = 5/57 (8%)
Query: 96 GGIFV--TGGGLDVCIWDMLGGGKLLHKFTCHHKTVTSLCLAS-GGKRLISASLDHH 149
G ++V GG V ++ GKLL + K T+ L S
Sbjct: 224 GNLWVAAVWGGGRVVRFNP--DGKLLGEIKLPVKRPTNPAFGGPDLNTLYITSARSG 278
>gnl|CDD|99977 cd03805, GT1_ALG2_like, This family is most closely related to the
GT1 family of glycosyltransferases. ALG2, a
1,3-mannosyltransferase, in yeast catalyzes the
mannosylation of Man(2)GlcNAc(2)-dolichol diphosphate
and Man(1)GlcNAc(2)-dolichol diphosphate to form
Man(3)GlcNAc(2)-dolichol diphosphate. A deficiency of
this enzyme causes an abnormal accumulation of
Man1GlcNAc2-PP-dolichol and Man2GlcNAc2-PP-dolichol,
which is associated with a type of congenital disorders
of glycosylation (CDG), designated CDG-Ii, in humans.
Length = 392
Score = 27.2 bits (61), Expect = 8.1
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 7/30 (23%)
Query: 77 PVMSVNHGSPVESV-------LCLPSGGIF 99
PV++ N G P+E+V LC P+ F
Sbjct: 325 PVIACNSGGPLETVVDGETGFLCEPTPEEF 354
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 27.2 bits (60), Expect = 9.4
Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 15/86 (17%)
Query: 8 LIVALWDIPSEAQVSTFTNHTTIYKVPLMLYSTPQDYVRAGTVSPVSSDIVISGSYDKTV 67
++V +WD+ V H+ T ++ G+ ++ + S DK +
Sbjct: 148 MVVNVWDVERGKAVEVIKCHSD--------QITSLEWNLDGS-------LLCTTSKDKKL 192
Query: 68 NVYDTRSPDPVMSVNHGSPVESVLCL 93
N+ D R V SV + +S CL
Sbjct: 193 NIIDPRDGTIVSSVEAHASAKSQRCL 218
>gnl|CDD|216379 pfam01234, NNMT_PNMT_TEMT, NNMT/PNMT/TEMT family.
Length = 255
Score = 27.0 bits (60), Expect = 9.9
Identities = 13/33 (39%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 93 LPSGGIFVTGGGLDVCIWDMLGGGKLLHKFTCH 125
L GG V GG L+ W M G KF+C
Sbjct: 188 LKPGGHLVLGGVLEES-WYMFGE----KKFSCL 215
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
0.321 0.136 0.422
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: 11,853,119
Number of extensions: 1067655
Number of successful extensions: 763
Number of sequences better than 10.0: 1
Number of HSP's gapped: 725
Number of HSP's successfully gapped: 29
Length of query: 239
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 145
Effective length of database: 6,768,326
Effective search space: 981407270
Effective search space used: 981407270
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 (21.8 bits)
S2: 57 (25.7 bits)