RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17243
(392 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 = 157 bits (400), Expect = 2e-45
Identities = 75/256 (29%), Positives = 124/256 (48%), Gaps = 7/256 (2%)
Query: 2 GGMDCLVNVWQMNSHELQSTMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVWGLTLGSVV 61
G D + VW + + EL T++GH V VA S + + SGS D T ++W L G V
Sbjct: 27 GSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECV 86
Query: 62 STFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVWVADNAQLLYSALGPS---KCLTVTHN 118
T H S + +VA D R + +S + I VW + + L + G + + + +
Sbjct: 87 RTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPD 146
Query: 119 MKYIVSGDGDNSLRIWPTSPQTHKDDERFTVSHSEEITCFTVTWDSQYLITGSRDMSLKV 178
++ S D ++++W +T K T H+ E+ + D + L++ S D ++K+
Sbjct: 147 GTFVASSSQDGTIKLW--DLRTGKCVATLT-GHTGEVNSVAFSPDGEKLLSSSSDGTIKL 203
Query: 179 WQVVGGKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEHFLAGHLG 238
W + GK L GH + V+ VA + + L+ SGS+D + VWD+ TG L+GH
Sbjct: 204 WDLSTGKCLGTLRGHENGVNSVAFS-PDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTN 262
Query: 239 CVTCVKLAGDGTVAMS 254
VT + + DG S
Sbjct: 263 SVTSLAWSPDGKRLAS 278
Score = 138 bits (350), Expect = 3e-38
Identities = 57/226 (25%), Positives = 106/226 (46%), Gaps = 9/226 (3%)
Query: 2 GGMDCLVNVWQMNSHELQSTMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVWGLTLGSVV 61
G D + +W + + E T+ GH + VS VA SP+ S S D T KVW + G +
Sbjct: 69 GSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCL 128
Query: 62 STFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVWVADNAQLLYSALGPSK---CLTVTHN 118
+T + H + +VA D V +S + G I +W + + + G + + + +
Sbjct: 129 TTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPD 188
Query: 119 MKYIVSGDGDNSLRIW-PTSPQTHKDDERFTVSHSEEITCFTVTWDSQYLITGSRDMSLK 177
+ ++S D ++++W ++ + H + + D L +GS D +++
Sbjct: 189 GEKLLSSSSDGTIKLWDLSTGKCLGT----LRGHENGVNSVAFSPDGYLLASGSEDGTIR 244
Query: 178 VWQVVGGKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWD 223
VW + G+ Q L GHT+ V+ +A + + + SGS D + +WD
Sbjct: 245 VWDLRTGECVQTLSGHTNSVTSLAWS-PDGKRLASGSADGTIRIWD 289
Score = 136 bits (345), Expect = 2e-37
Identities = 62/238 (26%), Positives = 110/238 (46%), Gaps = 9/238 (3%)
Query: 21 TMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVWGLTLGSVVSTFKSHQSTILAVAVLSDS 80
T++GH V+CVA SP+ +GS D T KVW L G ++ T K H + VA +D
Sbjct: 4 TLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADG 63
Query: 81 RRVVTSDKAGVIAVWVADNAQLLYSALGPSK---CLTVTHNMKYIVSGDGDNSLRIWPTS 137
+ + I +W + + + + G + + + + + + S D ++++W
Sbjct: 64 TYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVW--- 120
Query: 138 PQTHKDDERFTV-SHSEEITCFTVTWDSQYLITGSRDMSLKVWQVVGGKLAQVLVGHTDH 196
T+ H++ + + D ++ + S+D ++K+W + GK L GHT
Sbjct: 121 -DVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGE 179
Query: 197 VSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEHFLAGHLGCVTCVKLAGDGTVAMS 254
V+ VA + + L+ S S D + +WD+ TG L GH V V + DG + S
Sbjct: 180 VNSVAFSPDGEKLLSSSS-DGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLAS 236
Score = 122 bits (308), Expect = 4e-32
Identities = 59/211 (27%), Positives = 87/211 (41%), Gaps = 21/211 (9%)
Query: 61 VSTFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVWVADNAQLLYS----ALGPSKCLTVT 116
T K H + VA D + + T G I VW + +LL +
Sbjct: 2 RRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASA 61
Query: 117 HNMKYIVSGDGDNSLRIWPTSPQTHKDDERFT-VSHSEEITCFTVTWDSQYLITGSRDMS 175
Y+ SG D ++R+W + T H+ ++ + D + L + SRD +
Sbjct: 62 DG-TYLASGSSDKTIRLWDLE----TGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKT 116
Query: 176 LKVWQVVGGKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEHFLAG 235
+KVW V GK L GHTD V+ VA + V S S+D + +WD+ TG L G
Sbjct: 117 IKVWDVETGKCLTTLRGHTDWVNSVAFSPDGT-FVASSSQDGTIKLWDLRTGKCVATLTG 175
Query: 236 HLGCVTCVKL----------AGDGTVAMSDL 256
H G V V + DGT+ + DL
Sbjct: 176 HTGEVNSVAFSPDGEKLLSSSSDGTIKLWDL 206
Score = 52.3 bits (126), Expect = 1e-07
Identities = 29/65 (44%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 186 LAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEHFLAGHLGCVTCVKL 245
L + L GHT V+CVA + K L+ +GS D + VWD+ETG L GH G V V
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGK-LLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAA 59
Query: 246 AGDGT 250
+ DGT
Sbjct: 60 SADGT 64
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 109 bits (273), Expect = 2e-26
Identities = 68/244 (27%), Positives = 112/244 (45%), Gaps = 10/244 (4%)
Query: 1 MGGMDCLVNVWQMNSH-ELQSTMEGHLNTVSCVAISPN-SIFAVSGSEDNTAKVWGLTLG 58
+D V +W +++ +L T+EGH +V+ +A SP+ + A S D T K+W L G
Sbjct: 129 SSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTG 188
Query: 59 SVVSTFKSHQSTILAVAVLSDSRRVVTS-DKAGVIAVWVADNAQLLYSAL---GPSKCLT 114
+ST H + ++A D ++ S G I +W +LL S L S +
Sbjct: 189 KPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSS 248
Query: 115 VTHNMKYIVSGDGDNSLRIWPTSPQTHKDDERFTVSHSEEITCFTVTWDSQYLITGSRDM 174
+ + + SG D ++R+W + R HS + + D + L +GS D
Sbjct: 249 FSPDGSLLASGSSDGTIRLWDLR--SSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDG 306
Query: 175 SLKVWQVVGGKLAQVL--VGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEHF 232
++++W + GKL L GH VS ++ + LV GS D + +WD+ TG
Sbjct: 307 TVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKT 366
Query: 233 LAGH 236
L GH
Sbjct: 367 LEGH 370
Score = 94.4 bits (233), Expect = 4e-21
Identities = 65/255 (25%), Positives = 122/255 (47%), Gaps = 11/255 (4%)
Query: 2 GGMDCLVNVWQMNSHELQSTMEGHLNTVSCVAISPNS-IFAVSGSEDNTAKVWGLTLGSV 60
+D + +W + + + ST+ GH + VS +A SP+ + SGS D T ++W L+ G +
Sbjct: 174 SSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKL 233
Query: 61 V-STFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVW-VADNAQLLYSALGPSK---CLTV 115
+ ST H ++++ + D + + G I +W + ++ LL + G S +
Sbjct: 234 LRSTLSGHSDSVVS-SFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAF 292
Query: 116 THNMKYIVSGDGDNSLRIWPTSPQTHKDDERFTVSHSEEITCFTVT-WDSQYLITGSRDM 174
+ + K + SG D ++R+W H ++ + + S + GS D
Sbjct: 293 SPDGKLLASGSSDGTVRLWDLETGKLLSSLTLK-GHEGPVSSLSFSPDGSLLVSGGSDDG 351
Query: 175 SLKVWQVVGGKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEHFLA 234
++++W + GK + L GH++ V V+ + + +V SGS D + +WD+ TG L
Sbjct: 352 TIRLWDLRTGKPLKTLEGHSN-VLSVSFSPDGR-VVSSGSTDGTVRLWDLSTGSLLRNLD 409
Query: 235 GHLGCVTCVKLAGDG 249
GH VT + + DG
Sbjct: 410 GHTSRVTSLDFSPDG 424
Score = 83.6 bits (205), Expect = 2e-17
Identities = 63/233 (27%), Positives = 117/233 (50%), Gaps = 14/233 (6%)
Query: 2 GGMDCLVNVWQMNS-HELQSTMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVWGL-TLGS 59
G D + +W +++ L+ST+ GH ++V + SP+ SGS D T ++W L + S
Sbjct: 217 GSSDGTIRLWDLSTGKLLRSTLSGHSDSVVS-SFSPDGSLLASGSSDGTIRLWDLRSSSS 275
Query: 60 VVSTFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVWVADNAQLLYSAL-----GPSKCLT 114
++ T H S++L+VA D + + + G + +W + +LL S GP L+
Sbjct: 276 LLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLS 335
Query: 115 VTHNMKYIVSGDG-DNSLRIWPTSPQTHKDDERFTVSHSEEITCFTVTWDSQYLITGSRD 173
+ + +VSG D ++R+W T+ + + + D + + +GS D
Sbjct: 336 FSPDGSLLVSGGSDDGTIRLW----DLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTD 391
Query: 174 MSLKVWQVVGGKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMET 226
++++W + G L + L GHT V+ + + KSL SGS D+ + +WD++T
Sbjct: 392 GTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDGKSLA-SGSSDNTIRLWDLKT 443
Score = 76.7 bits (187), Expect = 3e-15
Identities = 64/246 (26%), Positives = 118/246 (47%), Gaps = 18/246 (7%)
Query: 19 QSTMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVWGLTLGS--VVSTFKSHQSTILAVAV 76
+ GH ++++ +A SP+ +SGS D T K+W L G + S H S++ +A+
Sbjct: 58 SLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLAL 117
Query: 77 LS---DSRRVVTSDKAGVIAVW-VADNAQLLYSALGPSK---CLTVTHNMKYIVSGDG-D 128
S +S + +S G + +W ++ +L+ + G S+ L + + K + SG D
Sbjct: 118 SSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLD 177
Query: 129 NSLRIWPTSPQTHKDDERFTVSHSEEITCFTVTWDSQYLI-TGSRDMSLKVWQVVGGKL- 186
++++W H++ ++ + D LI +GS D ++++W + GKL
Sbjct: 178 GTIKLWDLRTGKP---LSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLL 234
Query: 187 AQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEH-FLAGHLGCVTCVKL 245
L GH+D S V+ + SL+ SGS D + +WD+ + L+GH V V
Sbjct: 235 RSTLSGHSD--SVVSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAF 292
Query: 246 AGDGTV 251
+ DG +
Sbjct: 293 SPDGKL 298
Score = 66.3 bits (160), Expect = 8e-12
Identities = 38/202 (18%), Positives = 84/202 (41%), Gaps = 6/202 (2%)
Query: 57 LGSVVSTFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVWVADNAQLLYSALGPSKCLTVT 116
L + ++L++ ++ ++++ + LL + +
Sbjct: 16 LKKSELGPSLNSLSLLSLGSSESGILLLALLSDSLVSLPDLSS-LLLRGHEDSITSIAFS 74
Query: 117 HNMKYIVSGDGDNSLRIWPTSPQTHKDDERFTVSHSEEITCFTV---TWDSQYLITGSRD 173
+ + ++SG D ++++W H ++ + +S L + S D
Sbjct: 75 PDGELLLSGSSDGTIKLWDLDNGEKLIKS-LEGLHDSSVSKLALSSPDGNSILLASSSLD 133
Query: 174 MSLKVWQVVG-GKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWDMETGGEEHF 232
++K+W + GKL + L GH++ V+ +A + K L S D + +WD+ TG
Sbjct: 134 GTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLST 193
Query: 233 LAGHLGCVTCVKLAGDGTVAMS 254
LAGH V+ + + DG + ++
Sbjct: 194 LAGHTDPVSSLAFSPDGGLLIA 215
Score = 64.0 bits (154), Expect = 4e-11
Identities = 42/165 (25%), Positives = 75/165 (45%), Gaps = 11/165 (6%)
Query: 2 GGMDCLVNVWQMNSHELQSTM--EGHLNTVSCVAISPN-SIFAVSGSEDNTAKVWGLTLG 58
G D V +W + + +L S++ +GH VS ++ SP+ S+ GS+D T ++W L G
Sbjct: 302 GSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTG 361
Query: 59 SVVSTFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVWVADN---AQLLYSALGPSKCLTV 115
+ T + H S +L+V+ D R V + G + +W + L L
Sbjct: 362 KPLKTLEGH-SNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDF 420
Query: 116 THNMKYIVSGDGDNSLRIWPTSPQTHK----DDERFTVSHSEEIT 156
+ + K + SG DN++R+W D + S S +++
Sbjct: 421 SPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGKVLASKSSDLS 465
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 43.9 bits (104), Expect = 2e-06
Identities = 16/37 (43%), Positives = 23/37 (62%)
Query: 17 ELQSTMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVW 53
+L T++GH V+ VA SP+ SGS+D T +VW
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 37.7 bits (88), Expect = 3e-04
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 184 GKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWD 223
GKL + L GHT V+ VA + + +L+ SGS D + VWD
Sbjct: 1 GKLLRTLKGHTGPVTSVAFS-PDGNLLASGSDDGTVRVWD 39
Score = 34.6 bits (80), Expect = 0.003
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 151 HSEEITCFTVTWDSQYLITGSRDMSLKVW 179
H+ +T + D L +GS D +++VW
Sbjct: 10 HTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 31.6 bits (72), Expect = 0.049
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 58 GSVVSTFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVW 95
G ++ T K H + +VA D + + G + VW
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 28.1 bits (63), Expect = 0.71
Identities = 5/23 (21%), Positives = 12/23 (52%)
Query: 112 CLTVTHNMKYIVSGDGDNSLRIW 134
+ + + + SG D ++R+W
Sbjct: 16 SVAFSPDGNLLASGSDDGTVRVW 38
>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 = 42.3 bits (100), Expect = 7e-06
Identities = 18/39 (46%), Positives = 25/39 (64%)
Query: 15 SHELQSTMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVW 53
S EL T++GH V+ VA SP+ + SGS+D T K+W
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 37.7 bits (88), Expect = 3e-04
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 184 GKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWD 223
G+L + L GHT V+ VA + + + SGS D + +WD
Sbjct: 2 GELLKTLKGHTGPVTSVAFS-PDGKYLASGSDDGTIKLWD 40
Score = 35.4 bits (82), Expect = 0.002
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 151 HSEEITCFTVTWDSQYLITGSRDMSLKVW 179
H+ +T + D +YL +GS D ++K+W
Sbjct: 11 HTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 34.6 bits (80), Expect = 0.003
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 58 GSVVSTFKSHQSTILAVAVLSDSRRVVTSDKAGVIAVW 95
G ++ T K H + +VA D + + + G I +W
Sbjct: 2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 29.2 bits (66), Expect = 0.32
Identities = 6/23 (26%), Positives = 14/23 (60%)
Query: 112 CLTVTHNMKYIVSGDGDNSLRIW 134
+ + + KY+ SG D ++++W
Sbjct: 17 SVAFSPDGKYLASGSDDGTIKLW 39
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 41.2 bits (96), Expect = 9e-04
Identities = 36/138 (26%), Positives = 66/138 (47%), Gaps = 6/138 (4%)
Query: 5 DCLVNVWQMNSHELQSTMEGHLNTVSCVAISP-NSIFAVSGSEDNTAKVWGLTLGSVVST 63
+ +V VW + +L + M+ H V + S + SGS+D + K+W + G + T
Sbjct: 554 EGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGT 613
Query: 64 FKSHQSTILAVAVLSDSRRVVTSDKAG-VIAVWVADNAQL-LYSALGPSKCLTVTH--NM 119
K+ ++ I V S+S R + A + + N +L L + +G SK ++ +
Sbjct: 614 IKT-KANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDS 672
Query: 120 KYIVSGDGDNSLRIWPTS 137
+VS DN+L++W S
Sbjct: 673 STLVSSSTDNTLKLWDLS 690
Score = 32.4 bits (73), Expect = 0.47
Identities = 47/184 (25%), Positives = 78/184 (42%), Gaps = 19/184 (10%)
Query: 82 RVVTSDKAGVIAVWVADNAQLLYSALGPSKCL----TVTHNMKYIVSGDGDNSLRIWPTS 137
+V +S+ GV+ VW +QL+ K + + + + SG D S+++W +
Sbjct: 547 QVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSIN 606
Query: 138 PQTHKDDERFTVSHSEEITCFTVTWDS-QYLITGSRDMSLKVWQVVGGKLAQ-VLVGHTD 195
T+ I C +S + L GS D + + + KL ++GH+
Sbjct: 607 QGVSIG----TIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSK 662
Query: 196 HVSCVAVAVTNKSLVVSGSKDSNLIVWDME---TGGEE---HFLAGHLGCVTCVKLA-GD 248
VS V + S +VS S D+ L +WD+ +G E H GH V L+ D
Sbjct: 663 TVS--YVRFVDSSTLVSSSTDNTLKLWDLSMSISGINETPLHSFMGHTNVKNFVGLSVSD 720
Query: 249 GTVA 252
G +A
Sbjct: 721 GYIA 724
Score = 31.6 bits (71), Expect = 0.92
Identities = 18/37 (48%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 21 TMEGHLNTVSCVAISPNSIFAVSGSEDNTAKVWGLTL 57
TM GH TVS V +S VS S DNT K+W L++
Sbjct: 656 TMIGHSKTVSYVRFVDSSTL-VSSSTDNTLKLWDLSM 691
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 34.2 bits (78), Expect = 0.14
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 8/70 (11%)
Query: 164 SQYLITGSRDMSLKVWQVVGG-------KLAQ-VLVGHTDHVSCVAVAVTNKSLVVSGSK 215
S+ L +GS D++++VW++ K Q +L GH +S + N ++ S
Sbjct: 87 SEILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHKKKISIIDWNPMNYYIMCSSGF 146
Query: 216 DSNLIVWDME 225
DS + +WD+E
Sbjct: 147 DSFVNIWDIE 156
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 31.4 bits (71), Expect = 0.78
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 7/73 (9%)
Query: 162 WDSQYLITGSRDMSLKVWQVVGGKLAQV-------LVGHTDHVSCVAVAVTNKSLVVSGS 214
+D Q L T S D ++ W + L Q L GHT V V+ + +++ S
Sbjct: 86 FDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVSFHPSAMNVLASAG 145
Query: 215 KDSNLIVWDMETG 227
D + VWD+E G
Sbjct: 146 ADMVVNVWDVERG 158
Score = 28.7 bits (64), Expect = 5.8
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 167 LITGSRDMSLKVWQVVGGKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVWD 223
L + DM + VW V GK +V+ H+D ++ + + + SL+ + SKD L + D
Sbjct: 141 LASAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNL-DGSLLCTTSKDKKLNIID 196
>gnl|CDD|235315 PRK04841, PRK04841, transcriptional regulator MalT; Provisional.
Length = 903
Score = 31.5 bits (72), Expect = 0.87
Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 9/43 (20%)
Query: 334 QAALAQSQH-FDQLEALWNKKSPPRSRRFEHSMSKQNSYSSRQ 375
QA LAQSQH + ++ L R E + +N
Sbjct: 415 QAWLAQSQHRYSEVNTLLA--------RAEQELKDRNIELDGT 449
>gnl|CDD|237061 PRK12327, nusA, transcription elongation factor NusA; Provisional.
Length = 362
Score = 30.2 bits (69), Expect = 1.9
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 92 IAVWVADNAQLLYSALGPSKCLTVT 116
I W D A+ + +AL P+K ++V
Sbjct: 272 IIDWSEDPAEFVANALSPAKVVSVE 296
>gnl|CDD|220155 pfam09258, Glyco_transf_64, Glycosyl transferase family 64 domain.
Members of this family catalyze the transfer reaction of
N-acetylglucosamine and N-acetylgalactosamine from the
respective UDP-sugars to the non-reducing end of
[glucuronic acid]beta 1-3[galactose]beta
1-O-naphthalenemethanol, an acceptor substrate analog of
the natural common linker of various
glycosylaminoglycans. They are also required for the
biosynthesis of heparan-sulphate.
Length = 244
Score = 29.6 bits (67), Expect = 2.2
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 8/48 (16%)
Query: 335 AALAQSQHFDQLEALWNKKSPP--RSRRFEHS------MSKQNSYSSR 374
A S H ++ LWN PP S+ + +K+NS ++R
Sbjct: 20 NHYAGSPHLAKIVVLWNNPKPPPELSKWPSPAVPLTVIRTKRNSLNNR 67
>gnl|CDD|221182 pfam11715, Nup160, Nucleoporin Nup120/160. Nup120 is conserved
from fungi to plants to humans, and is homologous with
the Nup160 of vertebrates. The nuclear core complex, or
NPC, mediates macromolecular transport across the
nuclear envelope. Deletion of the NUP120 gene causes
clustering of NPCs at one side of the nuclear envelope,
moderate nucleolar fragmentation and slower cell growth.
The vertebrate NPC is estimated to contain between 30
and 60 different proteins. most of which are not known.
Two important ones in creating the nucleoporin basket
are Nup98 and Nup153, and Nup120, in conjunction with
Nup 133, interacts with these two and itself plays a
role in mRNA export. Nup160, Nup133, Nup96, and Nup107
are all targets of phosphorylation. The phosphorylation
sites are clustered mainly at the N-terminal regions of
these proteins, which are predicted to be natively
disordered. The entire Nup107-160 subcomplex is stable
throughout the cell cycle, thus it seems unlikely that
phosphorylation affects interactions within the
Nup107-160 subcomplex, but rather that it regulates the
association of the subcomplex with the NPC and other
proteins.
Length = 511
Score = 29.8 bits (67), Expect = 2.5
Identities = 15/66 (22%), Positives = 25/66 (37%), Gaps = 6/66 (9%)
Query: 163 DSQYLITGSRDMSLKVWQVVGGKLAQVLVGHTDHVSCVAVAVTNKSLVVSGSKDSNLIVW 222
+L T S D +L+VW + G+ A L D + VT S +
Sbjct: 231 GQTFLFTLSLDGTLRVWNLDTGQCA-FLPSRADSGGSRYLCVT-----YSPFSSGEFKFF 284
Query: 223 DMETGG 228
+++G
Sbjct: 285 SVKSGA 290
>gnl|CDD|219410 pfam07433, DUF1513, Protein of unknown function (DUF1513). This
family consists of several bacterial proteins of around
360 residues in length. The function of this family is
unknown.
Length = 304
Score = 29.1 bits (66), Expect = 3.5
Identities = 19/77 (24%), Positives = 28/77 (36%), Gaps = 2/77 (2%)
Query: 73 AVAVLSDSRRV-VTSDKAGVIAVWVADNAQLLYSALGPSKC-LTVTHNMKYIVSGDGDNS 130
+VA D R V VTS + G +A+W A +LL P C + + SG G
Sbjct: 221 SVAADRDGRLVAVTSPRGGRVAIWDAATGRLLGLVALPDACGVAAAAGGFLVSSGQGKLL 280
Query: 131 LRIWPTSPQTHKDDERF 147
+ +
Sbjct: 281 RTGPGQARLLAPSGVAW 297
>gnl|CDD|183782 PRK12834, PRK12834, putative FAD-binding dehydrogenase; Reviewed.
Length = 549
Score = 29.5 bits (67), Expect = 3.7
Identities = 16/38 (42%), Positives = 17/38 (44%), Gaps = 10/38 (26%)
Query: 40 FAVSGSEDN---TAKVWGLTLGSV-------VSTFKSH 67
FA+SGSE N T K W L L V FK H
Sbjct: 352 FALSGSEQNPDLTGKDWKLLLRRRGKGAPGPVEAFKDH 389
>gnl|CDD|212136 cd11529, NTP-PPase_MazG_Cterm, Nucleoside Triphosphate
Pyrophosphohydrolase (EC 3.6.1.8) C-terminal
tandem-domain of MazG proteins from Escherichia coli and
bacterial homologs'. MazG is a NTP-PPase that
hydrolyzes all canonical NTPs into their corresponding
nucleoside monophosphates and pyrophosphate. The
prototype of this family is MazG proteins from
Escherichia coli (EcMazG) that represents the most
abundant form consisting two sequence-related domains in
tandem, this family corresponding to the C-terminal
MazG-like domain. EcMazG functions as a regulator of
cellular response to starvation by lowering the cellular
concentration of guanosine 3',5'-bispyrophosphate
(ppGpp). EcMazG exists as a dimer. Each monomer contains
two tandem MazG-like domains with similarly folded
globular structures. However, only the C-terminal domain
has well-ordered active sites and exhibits an NTPase
activity responsible for the regulation of bacterial
cell survival under nutritional stress. Divalent ions,
such as Mg2+ or Mn2+, are required for activity, along
with structural features such as EEXX(E/D) motifs and
key basic catalytic residues. It has been shown that the
C-terminus NTPase activity is responsible for regulation
of bacterial cell survival under nutritional stress.
Length = 116
Score = 27.8 bits (63), Expect = 4.0
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 17/52 (32%)
Query: 301 ERLKRRFSVSASMEEISKIPIKDNVGSQGLGPEQAALAQSQHFDQLEALWNK 352
+ +RRF MEE QG E +L ++L+ALW +
Sbjct: 80 RKFERRF---RYMEE--------LAAEQGKDLEDLSL------EELDALWEE 114
>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho
family of small GTPases. Members of the RhoBTB
subfamily of Rho GTPases are present in vertebrates,
Drosophila, and Dictyostelium. RhoBTB proteins are
characterized by a modular organization, consisting of a
GTPase domain, a proline rich region, a tandem of two
BTB (Broad-Complex, Tramtrack, and Bric a brac) domains,
and a C-terminal region of unknown function. RhoBTB
proteins may act as docking points for multiple
components participating in signal transduction
cascades. RhoBTB genes appeared upregulated in some
cancer cell lines, suggesting a participation of RhoBTB
proteins in the pathogenesis of particular tumors. Note
that the Dictyostelium RacA GTPase domain is more
closely related to Rac proteins than to RhoBTB proteins,
where RacA actually belongs. Thus, the Dictyostelium
RacA is not included here. Most Rho proteins contain a
lipid modification site at the C-terminus; however,
RhoBTB is one of few Rho subfamilies that lack this
feature.
Length = 195
Score = 28.4 bits (63), Expect = 4.6
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 123 VSGDGDNSLRIWPTSPQTHKDDERFTVSHSEEIT-CFTV 160
V SLR+W T K D RF S+ + CF++
Sbjct: 60 VVDGVSVSLRLWDTFGDHDK-DRRFAYGRSDVVLLCFSI 97
>gnl|CDD|173941 cd08182, HEPD, Hydroxyethylphosphoate dehydrogenase (HEPD)
catalyzes the reduction of phosphonoacetaldehyde (PnAA)
to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate
dehydrogenase (HEPD) catalyzes the reduction of
phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate
(HEP) with either NADH or NADPH as a cofactor. NADH is
the preferred cofactor. PnAA is a biosynthetic
intermediate for several phosphonates such as the
antibiotic fosfomycin, phosphinothricin tripeptide
(PTT), and 2-aminoethylphosphonate (AEP). This enzyme is
named PhpC in PTT biosynthesis pathway in Streptomyces
hygroscopicus and S. viridochromogenes. Members of this
family are only found in bacteria.
Length = 367
Score = 28.8 bits (65), Expect = 5.1
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 5/26 (19%)
Query: 336 ALAQSQHFDQLEALWNKKSPPRSRRF 361
ALA + +E+ W+K S P SR +
Sbjct: 188 ALAHA-----IESYWSKNSTPESRAY 208
>gnl|CDD|213924 TIGR04311, rSAM_Geo_metal, putative metalloenzyme radical SAM/SPASM
domain maturase. This model describes a family of
radical SAM/SPASM enzymes largely from the
deltaproteobacteria. The family is most closely related
to radical SAM enzyme family regularly in archaea in the
vicinity of tungsten-containing oxidoreductases. A
single member of the family in archaea may correspond to
multiple tungsten enzymes, e.g. five in Pyrococcus
furiosus. Therefore, the lack of a conserved gene
neighborhood for members of this family in
deltaprotebacteria suggests members may be involved in
the maturation of multiple metalloenzymes.
Length = 423
Score = 28.8 bits (65), Expect = 5.8
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 237 LGCVTCVKLAGDGTVAMSDLPP 258
L C CVK AG + D+ P
Sbjct: 15 LRCAMCVKQAGGSDIPEGDMTP 36
>gnl|CDD|235855 PRK06707, PRK06707, amidase; Provisional.
Length = 536
Score = 28.3 bits (63), Expect = 7.3
Identities = 24/84 (28%), Positives = 35/84 (41%), Gaps = 7/84 (8%)
Query: 56 TLGSVVSTFKSHQSTILAVAVLSD-SRRVV-----TSDKAGVIAVWVADNAQLLYSALGP 109
T GS+V+ + QS + L SR + T D AG +A V D A L + +G
Sbjct: 248 TTGSIVAP-AAQQSVVGLRPSLGMVSRTGIIPLAETLDTAGPMARTVKDAATLFNAMIGY 306
Query: 110 SKCLTVTHNMKYIVSGDGDNSLRI 133
+ +T +K D L I
Sbjct: 307 DEKDVMTEKVKDKERIDYTKDLSI 330
>gnl|CDD|234601 PRK00054, PRK00054, dihydroorotate dehydrogenase electron transfer
subunit; Reviewed.
Length = 250
Score = 27.9 bits (63), Expect = 8.3
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 1/23 (4%)
Query: 294 IMMAAVDERLK-RRFSVSASMEE 315
IMM V E LK ++ S+E
Sbjct: 191 IMMKKVVEILKEKKVPAYVSLER 213
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
0.315 0.128 0.381
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: 19,118,575
Number of extensions: 1773668
Number of successful extensions: 1491
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1437
Number of HSP's successfully gapped: 45
Length of query: 392
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 293
Effective length of database: 6,546,556
Effective search space: 1918140908
Effective search space used: 1918140908
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 (21.6 bits)
S2: 60 (26.9 bits)