RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12911
(356 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 = 97.8 bits (244), Expect = 2e-23
Identities = 69/303 (22%), Positives = 115/303 (37%), Gaps = 45/303 (14%)
Query: 29 EDSISCMAFSPSTLPQYFLIAGSWDNNVRCWEVEPNGKTIPKSMQGMSEPVLDVAWIDDG 88
++C+AFSP L GS D ++ W++E + ++++G + PV DVA DG
Sbjct: 9 TGGVTCVAFSPDGK---LLATGSGDGTIKVWDLETG--ELLRTLKGHTGPVRDVAASADG 63
Query: 89 TKVFMAGCDKTVKCWDLASNQS-MQVAQHDAPVKTCHWIKAPNYTCLMTGSWDKTLKFWD 147
T + DKT++ WDL + + + H + V + + P+ L + S DKT+K WD
Sbjct: 64 TYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFS--PDGRILSSSSRDKTIKVWD 121
Query: 148 LRTPQPIMTINLPE---RCYCADVDYPLAVVGTAGRGIVLYQLE-GKP-QEFKKTESPLK 202
+ T + + T+ D + I L+ L GK +
Sbjct: 122 VETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEV- 180
Query: 203 YQNRCIAIFRDKKKQPAGYGLGSVEGRVAIQYVNPANPKDNFTFKCHRSNGGAGGVQDIY 262
+A D +K S +G + + + D T KC + G
Sbjct: 181 ---NSVAFSPDGEK----LLSSSSDGTIKL-W-------DLSTGKCLGTLRG-----HEN 220
Query: 263 AVNGIVFHPVHGTLATVGSEGTFSFWDKDARTKLKPSEAMDMSISTCALNHNGQIFAYAV 322
VN + F P LA+ +GT WD ++ H + + A
Sbjct: 221 GVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQ-----------TLSGHTNSVTSLAW 269
Query: 323 SYD 325
S D
Sbjct: 270 SPD 272
Score = 82.8 bits (205), Expect = 4e-18
Identities = 33/120 (27%), Positives = 59/120 (49%), Gaps = 8/120 (6%)
Query: 29 EDSISCMAFSPSTLPQYFLIAGSWDNNVRCWEVEPNGKTIPKSMQGMSEPVLDVAWIDDG 88
++ +AFSP L++ S D ++ W++ GK + +++G V VA+ DG
Sbjct: 177 TGEVNSVAFSPDGEK---LLSSSSDGTIKLWDLS-TGKCL-GTLRGHENGVNSVAFSPDG 231
Query: 89 TKVFMAGCDKTVKCWDLASNQSMQVAQ-HDAPVKTCHWIKAPNYTCLMTGSWDKTLKFWD 147
+ D T++ WDL + + +Q H V + W +P+ L +GS D T++ WD
Sbjct: 232 YLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAW--SPDGKRLASGSADGTIRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 90.1 bits (222), Expect = 6e-20
Identities = 60/312 (19%), Positives = 125/312 (40%), Gaps = 27/312 (8%)
Query: 17 NPNKDFEVVSPPEDSISCMAFSPSTLPQYFLIAGSWDNNVRCWEVEPNGKTIPKSMQGMS 76
P K + +S++ +AFSP + S D ++ W++ GK + ++ G +
Sbjct: 143 TPGKLIRTLEGHSESVTSLAFSPDG--KLLASGSSLDGTIKLWDLR-TGKPL-STLAGHT 198
Query: 77 EPVLDVAWIDDGTKVFM-AGCDKTVKCWDLASNQSMQVAQHDAPVKTCHWIKAPNYTCLM 135
+PV +A+ DG + D T++ WDL++ + ++ +P+ + L
Sbjct: 199 DPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSF-SPDGSLLA 257
Query: 136 TGSWDKTLKFWDLRTP-QPIMTINLPERCYCA---DVDYPLAVVGTAGRGIVLYQLEGKP 191
+GS D T++ WDLR+ + T++ + D L G++ + L+ LE
Sbjct: 258 SGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGK 317
Query: 192 QEFKKTESPLKYQNRCIAIFRDKKKQPAGYGLGSVEGRVAIQYVNPANPKDNFTFKCHRS 251
T + ++ D +G GS +G + + + P T + H +
Sbjct: 318 LLSSLTLKGHEGPVSSLSFSPDGSLLVSG---GSDDGTIRLWDLRTGKPL--KTLEGHSN 372
Query: 252 NGGAGGVQDIYAVNGIVFHPVHGTLATVGSEGTFSFWDKDARTKLKPSEAMDMSISTCAL 311
V + F P +++ ++GT WD + L+ + +++
Sbjct: 373 ------------VLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDF 420
Query: 312 NHNGQIFAYAVS 323
+ +G+ A S
Sbjct: 421 SPDGKSLASGSS 432
Score = 85.9 bits (211), Expect = 2e-18
Identities = 61/281 (21%), Positives = 112/281 (39%), Gaps = 34/281 (12%)
Query: 17 NPNKDFEVVSPPEDSISCMAFSPSTLPQYFLIAGSWDNNVRCWEVEPNGKTIPKSMQGMS 76
K ++ D +S +AFSP + +GS D +R W++ GK + ++ G S
Sbjct: 186 RTGKPLSTLAGHTDPVSSLAFSPD--GGLLIASGSSDGTIRLWDLS-TGKLLRSTLSGHS 242
Query: 77 EPVLDVAWIDDGTKVFMAGCDKTVKCWDLASNQS--MQVAQHDAPVKTCHWIKAPNYTCL 134
+ V+ ++ DG+ + D T++ WDL S+ S ++ H + V + + P+ L
Sbjct: 243 DSVVS-SFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFS--PDGKLL 299
Query: 135 MTGSWDKTLKFWDLRTPQPIMTINLPE-RCYCADVDYP-----LAVVGTAGRGIVLYQLE 188
+GS D T++ WDL T + + ++ L + + + L G+ I L+ L
Sbjct: 300 ASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLR 359
Query: 189 GKPQEFKKTESPLKYQNRCIAIFRDKKKQPAGYGLGSVEGRVAIQYVNPANPKDNFTFKC 248
++ D + GS +G V + ++ T
Sbjct: 360 TGKPLKTLEGHSNVL---SVSFSPDGRV----VSSGSTDGTVRLWDLS--------TGSL 404
Query: 249 HRSNGGAGGVQDIYAVNGIVFHPVHGTLATVGSEGTFSFWD 289
R+ G V + F P +LA+ S+ T WD
Sbjct: 405 LRNLDGHTSR-----VTSLDFSPDGKSLASGSSDNTIRLWD 440
Score = 83.6 bits (205), Expect = 1e-17
Identities = 70/310 (22%), Positives = 119/310 (38%), Gaps = 37/310 (11%)
Query: 29 EDSISCMAFSPSTLPQYFLIAGSWDNNVRCWEVEPNGKTIPKSMQGMSEPVLDVAWID-D 87
EDSI+ +AFSP L++GS D ++ W+++ K I V +A D
Sbjct: 65 EDSITSIAFSPD---GELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPD 121
Query: 88 GTKVFMAG--CDKTVKCWDLAS--NQSMQVAQHDAPVKTCHWIKAPNYTCLMTGSWDKTL 143
G + +A D TVK WDL++ + H V + + S D T+
Sbjct: 122 GNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPD-GKLLASGSSLDGTI 180
Query: 144 KFWDLRTPQPIMTINLPERCYCADVDY-----PLAVVGTAGRGIVLYQLEGKPQEFKKTE 198
K WDLRT +P+ T+ + + L G++ I L+ L K
Sbjct: 181 KLWDLRTGKPLSTLAGHTDPVS-SLAFSPDGGLLIASGSSDGTIRLWDL----STGKLLR 235
Query: 199 SPLK-YQNRCIAIFRDKKKQPAGYGLGSVEGRVAIQYVNPANPKDNFTFKCHRSNGGAGG 257
S L + + ++ F A GS +G + + + ++ T H S
Sbjct: 236 STLSGHSDSVVSSFSPDGSLLA---SGSSDGTIRL-WDLRSSSSLLRTLSGHSS------ 285
Query: 258 VQDIYAVNGIVFHPVHGTLATVGSEGTFSFWDKD--ARTKLKPSEAMDMSISTCALNHNG 315
+V + F P LA+ S+GT WD + + + +S+ + + +G
Sbjct: 286 -----SVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDG 340
Query: 316 QIFAYAVSYD 325
+ S D
Sbjct: 341 SLLVSGGSDD 350
Score = 79.0 bits (193), Expect = 4e-16
Identities = 67/303 (22%), Positives = 119/303 (39%), Gaps = 25/303 (8%)
Query: 23 EVVSPPEDSISCMAFSPSTLPQYFLIAGSWDNNVRCWEVEPNGKTIPKSMQGMSEPVLDV 82
+ + S+S +A S L + S D V+ W++ GK I ++++G SE V +
Sbjct: 103 SLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGKLI-RTLEGHSESVTSL 161
Query: 83 AWIDDGTKVFMAGC-DKTVKCWDLASNQSMQV-AQHDAPVKTCHWIKAPNYTCLMTGSWD 140
A+ DG + D T+K WDL + + + A H PV + + + +GS D
Sbjct: 162 AFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLL-IASGSSD 220
Query: 141 KTLKFWDLRTPQPIMTI---NLPERCYCADVDYPLAVVGTAGRGIVLYQLEGKPQEFKKT 197
T++ WDL T + + + + D L G++ I L+ L +
Sbjct: 221 GTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTL 280
Query: 198 ESPLKYQNRCIAIFRDKKKQPAGYGLGSVEGRVAIQYVNPANPKDNFTFKCHRSNGGAGG 257
+A D K + GS +G V + + + T K H
Sbjct: 281 SGH-SSSVLSVAFSPDGKLLAS----GSSDGTVRLWDLETGKLLSSLTLKGHEG------ 329
Query: 258 VQDIYAVNGIVFHPVHGTLATVGSE-GTFSFWDKDARTKLKPSEAMDMSISTCALNHNGQ 316
V+ + F P L + GS+ GT WD LK E ++ + + + +G+
Sbjct: 330 -----PVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHS-NVLSVSFSPDGR 383
Query: 317 IFA 319
+ +
Sbjct: 384 VVS 386
Score = 57.8 bits (138), Expect = 4e-09
Identities = 52/273 (19%), Positives = 91/273 (33%), Gaps = 31/273 (11%)
Query: 64 NGKTIPKSMQGMSEPVLDVAWIDDGTKVFMAGCDKTVKCWDLASNQS---MQVAQHDAPV 120
++G + + +A+ DG + D T+K WDL + + HD+ V
Sbjct: 53 LPDLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSV 112
Query: 121 KTCHWIKAPNYTCLMT--GSWDKTLKFWDLRTP-QPIMTINL-PERCYCADV---DYPLA 173
+P+ ++ S D T+K WDL TP + I T+ E LA
Sbjct: 113 SKLALS-SPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLA 171
Query: 174 VVGTAGRGIVLYQLEGKPQEFKKTESPLKYQNRCIAIFRDKKKQPAGYGLGSVEGRVAIQ 233
+ I L+ L + + T + +A D
Sbjct: 172 SGSSLDGTIKLWDL--RTGKPLSTLAGHTDPVSSLAFSPDGGL----LIASGSSDGTIRL 225
Query: 234 YVNPANPKDNFTFKCHRSNGGAGGVQDIYAVNGIVFHPVHGTLATVGSEGTFSFWD-KDA 292
+ T H + F P LA+ S+GT WD + +
Sbjct: 226 WDLSTGKLLRSTLSGHSDS------------VVSSFSPDGSLLASGSSDGTIRLWDLRSS 273
Query: 293 RTKLKPSEAMDMSISTCALNHNGQIFAYAVSYD 325
+ L+ S+ + A + +G++ A + S D
Sbjct: 274 SSLLRTLSGHSSSVLSVAFSPDGKLLA-SGSSD 305
Score = 57.0 bits (136), Expect = 5e-09
Identities = 34/135 (25%), Positives = 59/135 (43%), Gaps = 8/135 (5%)
Query: 29 EDSISCMAFSPSTLPQYFLIAGSWDNNVRCWEVEPNGKTIPKSMQGMSEPVLDVAWIDDG 88
E +S ++FSP + GS D +R W++ VL V++ DG
Sbjct: 328 EGPVSSLSFSPD--GSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHS---NVLSVSFSPDG 382
Query: 89 TKVFMAGCDKTVKCWDLASN-QSMQVAQHDAPVKTCHWIKAPNYTCLMTGSWDKTLKFWD 147
V D TV+ WDL++ + H + V + + P+ L +GS D T++ WD
Sbjct: 383 RVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFS--PDGKSLASGSSDNTIRLWD 440
Query: 148 LRTPQPIMTINLPER 162
L+T ++ + +
Sbjct: 441 LKTSLKSVSFSPDGK 455
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 38.1 bits (89), Expect = 2e-04
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 116 HDAPVKTCHWIKAPNYTCLMTGSWDKTLKFWD 147
H PV + + +P+ L +GS D T++ WD
Sbjct: 10 HTGPVTSVAF--SPDGNLLASGSDDGTVRVWD 39
Score = 36.6 bits (85), Expect = 6e-04
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 70 KSMQGMSEPVLDVAWIDDGTKVFMAGCDKTVKCWD 104
++++G + PV VA+ DG + D TV+ WD
Sbjct: 5 RTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 35.0 bits (81), Expect = 0.002
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 29 EDSISCMAFSPSTLPQYFLIAGSWDNNVRCW 59
++ +AFSP L +GS D VR W
Sbjct: 11 TGPVTSVAFSPD---GNLLASGSDDGTVRVW 38
Score = 30.0 bits (68), Expect = 0.15
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 263 AVNGIVFHPVHGTLATVGSEGTFSFWD 289
V + F P LA+ +GT WD
Sbjct: 13 PVTSVAFSPDGNLLASGSDDGTVRVWD 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 = 37.7 bits (88), Expect = 2e-04
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 70 KSMQGMSEPVLDVAWIDDGTKVFMAGCDKTVKCWD 104
K+++G + PV VA+ DG + D T+K WD
Sbjct: 6 KTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 36.9 bits (86), Expect = 5e-04
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 116 HDAPVKTCHWIKAPNYTCLMTGSWDKTLKFWD 147
H PV + + +P+ L +GS D T+K WD
Sbjct: 11 HTGPVTSVAF--SPDGKYLASGSDDGTIKLWD 40
Score = 34.6 bits (80), Expect = 0.003
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 29 EDSISCMAFSPSTLPQYFLIAGSWDNNVRCWE 60
++ +AFSP +L +GS D ++ W+
Sbjct: 12 TGPVTSVAFSPD---GKYLASGSDDGTIKLWD 40
Score = 30.0 bits (68), Expect = 0.16
Identities = 12/46 (26%), Positives = 15/46 (32%), Gaps = 11/46 (23%)
Query: 244 FTFKCHRSNGGAGGVQDIYAVNGIVFHPVHGTLATVGSEGTFSFWD 289
T K H V + F P LA+ +GT WD
Sbjct: 6 KTLKGHTG-----------PVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 30.4 bits (68), Expect = 1.6
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 97 DKTVKCWDLASNQSM-QVAQHDAPVKTCHWIKAPNYTCLMTGSWDKTLKFWDLRTPQPIM 155
+ V+ WD+A +Q + ++ +H+ V + + + T L +GS D ++K W + I
Sbjct: 554 EGVVQVWDVARSQLVTEMKEHEKRVWSID-YSSADPTLLASGSDDGSVKLWSINQGVSIG 612
Query: 156 TINLPERCYCADVDYP 171
TI C V +P
Sbjct: 613 TIKTKANICC--VQFP 626
Score = 29.7 bits (66), Expect = 2.8
Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 86 DDGTKVFMAGCDKTVKCWDLASNQSMQVAQHDAPVKTCHWIKAPNYTCLMTGSWDKTLKF 145
+ G + D V +DL N + + KT +++ + + L++ S D TLK
Sbjct: 628 ESGRSLAFGSADHKVYYYDL-RNPKLPLCTMIGHSKTVSYVRFVDSSTLVSSSTDNTLKL 686
Query: 146 WDL 148
WDL
Sbjct: 687 WDL 689
>gnl|CDD|233240 TIGR01033, TIGR01033, DNA-binding regulatory protein, YebC/PmpR
family. This model describes a minimally characterized
protein family, restricted to bacteria excepting for
some eukaryotic sequences that have possible transit
peptides. YebC from E. coli is crystallized, and PA0964
from Pseudomonas aeruginosa has been shown to be a
sequence-specific DNA-binding regulatory protein
[Regulatory functions, DNA interactions].
Length = 238
Score = 28.0 bits (63), Expect = 7.1
Identities = 14/46 (30%), Positives = 18/46 (39%), Gaps = 7/46 (15%)
Query: 229 RVAIQYVNPAN-PKDNFTFKCHRSNGGAGGVQ------DIYAVNGI 267
R AI+ AN PKDN + G G + YA G+
Sbjct: 50 RTAIEKAKAANMPKDNIERAIKKGAGELDGSNYEEITYEGYAPGGV 95
>gnl|CDD|190042 pfam01567, Hanta_G1, Hantavirus glycoprotein G1. The medium (M)
genome segment of hantaviruses (family Bunyaviridae)
encodes the two virion glycoproteins. G1 and G2, as a
precursor protein in the complementary sense RNA.
Length = 525
Score = 28.1 bits (63), Expect = 7.5
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 8/41 (19%)
Query: 98 KTVKCWDLASNQSMQVAQHDAPVKTCHWIKAPNYTCLMTGS 138
KTV C+DL+ NQ+ H P T + I AP +TC+ S
Sbjct: 108 KTVICYDLSCNQT-----HCQP--TVYLI-APIHTCMTMKS 140
>gnl|CDD|226602 COG4117, COG4117, Thiosulfate reductase cytochrome B subunit
(membrane anchoring protein) [Energy production and
conversion].
Length = 221
Score = 27.8 bits (62), Expect = 8.3
Identities = 4/30 (13%), Positives = 7/30 (23%)
Query: 110 SMQVAQHDAPVKTCHWIKAPNYTCLMTGSW 139
+ A V+ W+ W
Sbjct: 17 GIHALLRAAGVRKTAWLNGHRIYLYSLSGW 46
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 0.134 0.432
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: 17,745,300
Number of extensions: 1630242
Number of successful extensions: 1179
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1132
Number of HSP's successfully gapped: 32
Length of query: 356
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 258
Effective length of database: 6,590,910
Effective search space: 1700454780
Effective search space used: 1700454780
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)