RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2113
(183 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 = 95.9 bits (239), Expect = 2e-24
Identities = 41/129 (31%), Positives = 68/129 (52%), Gaps = 10/129 (7%)
Query: 43 TPLITLKGHKEAISAVQWTAVDE-IITSSWDHTLKIWDAELGGMKKGAIVKSTFSSHKEW 101
L TLKGH + V +A + + S D T+++WD E G T + H +
Sbjct: 42 ELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDLETGE------CVRTLTGHTSY 95
Query: 102 VQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWS-DYRYIMSG 160
V SV +SP D ++ S+S D ++K+WD+ + K L + GH D V V +S D ++ S
Sbjct: 96 VSSVAFSP-DGRILSSSSRDKTIKVWDVETGK-CLTTLRGHTDWVNSVAFSPDGTFVASS 153
Query: 161 GQDNSVRVF 169
QD +++++
Sbjct: 154 SQDGTIKLW 162
Score = 95.5 bits (238), Expect = 3e-24
Identities = 38/127 (29%), Positives = 62/127 (48%), Gaps = 10/127 (7%)
Query: 47 TLKGHKEAISAVQWTAVDE-IITSSWDHTLKIWDAELGGMKKGAIVKSTFSSHKEWVQSV 105
TLKGH ++ V ++ + + T S D T+K+WD E G + T H V+ V
Sbjct: 4 TLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETG------ELLRTLKGHTGPVRDV 57
Query: 106 RWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWS-DYRYIMSGGQDN 164
S L S S D +++LWDL + + + + GH V V +S D R + S +D
Sbjct: 58 AASADGTYLA-SGSSDKTIRLWDLETGEC-VRTLTGHTSYVSSVAFSPDGRILSSSSRDK 115
Query: 165 SVRVFKT 171
+++V+
Sbjct: 116 TIKVWDV 122
Score = 95.1 bits (237), Expect = 4e-24
Identities = 44/136 (32%), Positives = 73/136 (53%), Gaps = 10/136 (7%)
Query: 39 ILQKTPLITLKGHKEAISAVQWTAVDEIIT-SSWDHTLKIWDAELGGMKKGAIVKSTFSS 97
+ L TL+GH + +++V ++ + SS D T+K+WD G T +
Sbjct: 122 VETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVA------TLTG 175
Query: 98 HKEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWSDYRYI 157
H V SV +SP D + +S+S D ++KLWDL + K L + GHE+ V V +S Y+
Sbjct: 176 HTGEVNSVAFSP-DGEKLLSSSSDGTIKLWDLSTGKC-LGTLRGHENGVNSVAFSPDGYL 233
Query: 158 M-SGGQDNSVRVFKTK 172
+ SG +D ++RV+ +
Sbjct: 234 LASGSEDGTIRVWDLR 249
Score = 91.2 bits (227), Expect = 1e-22
Identities = 39/126 (30%), Positives = 70/126 (55%), Gaps = 10/126 (7%)
Query: 47 TLKGHKEAISAVQWTAV-DEIITSSWDHTLKIWDAELGGMKKGAIVKSTFSSHKEWVQSV 105
TL GH +++V ++ +++++SS D T+K+WD + G + T H+ V SV
Sbjct: 172 TLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWD-----LSTGKCLG-TLRGHENGVNSV 225
Query: 106 RWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWS-DYRYIMSGGQDN 164
+SP D L S S D ++++WDLR+ + + GH + V + WS D + + SG D
Sbjct: 226 AFSP-DGYLLASGSEDGTIRVWDLRT-GECVQTLSGHTNSVTSLAWSPDGKRLASGSADG 283
Query: 165 SVRVFK 170
++R++
Sbjct: 284 TIRIWD 289
Score = 59.3 bits (144), Expect = 6e-11
Identities = 25/82 (30%), Positives = 39/82 (47%), Gaps = 3/82 (3%)
Query: 92 KSTFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNW 151
+ T H V V +SP D +L + S D ++K+WDL L + GH V V
Sbjct: 2 RRTLKGHTGGVTCVAFSP-DGKLLATGSGDGTIKVWDL-ETGELLRTLKGHTGPVRDVAA 59
Query: 152 SDY-RYIMSGGQDNSVRVFKTK 172
S Y+ SG D ++R++ +
Sbjct: 60 SADGTYLASGSSDKTIRLWDLE 81
Score = 37.3 bits (87), Expect = 0.002
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 42 KTPLITLKGHKEAISAVQWTA-VDEIITSSWDHTLKIWD 79
+ TL GH +++++ W+ + + S D T++IWD
Sbjct: 251 GECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 35.8 bits (83), Expect = 0.007
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 141 GHEDKVMCVNWS-DYRYIMSGGQDNSVRVFKTKHQ 174
GH V CV +S D + + +G D +++V+ +
Sbjct: 7 GHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETG 41
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 74.7 bits (182), Expect = 4e-16
Identities = 38/133 (28%), Positives = 69/133 (51%), Gaps = 8/133 (6%)
Query: 43 TPLITLKGHKEAISAVQWTAVDEII--TSSWDHTLKIWDAELGGMKKGAIVKSTFSSHKE 100
+ TL+GH E+++++ ++ +++ SS D T+K+WD G ST + H +
Sbjct: 146 KLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGK------PLSTLAGHTD 199
Query: 101 WVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWSDYRYIMSG 160
V S+ +SP L S S D +++LWDL + K+ + GH D V+ D + SG
Sbjct: 200 PVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASG 259
Query: 161 GQDNSVRVFKTKH 173
D ++R++ +
Sbjct: 260 SSDGTIRLWDLRS 272
Score = 71.3 bits (173), Expect = 7e-15
Identities = 45/147 (30%), Positives = 75/147 (51%), Gaps = 10/147 (6%)
Query: 39 ILQKTPLITLKGHKEAISAVQWTAVDE--IITSSWDHTLKIWDAELGGMKKGAIVKSTFS 96
+ PL TL GH + +S++ ++ I + S D T+++WD + G +++ST S
Sbjct: 185 LRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWD-----LSTGKLLRSTLS 239
Query: 97 SHKEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWS-DYR 155
H + V S +SP D L S S D +++LWDLRS L + GH V+ V +S D +
Sbjct: 240 GHSDSVVSS-FSP-DGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGK 297
Query: 156 YIMSGGQDNSVRVFKTKHQPKSGQKSK 182
+ SG D +VR++ + +
Sbjct: 298 LLASGSSDGTVRLWDLETGKLLSSLTL 324
Score = 62.8 bits (151), Expect = 6e-12
Identities = 43/146 (29%), Positives = 71/146 (48%), Gaps = 13/146 (8%)
Query: 34 SFFQLILQKTPLITLKG-HKEAISAVQWTAVDE----IITSSWDHTLKIWDAELGGMKKG 88
+ L + + +L+G H ++S + ++ D + +SS D T+K+WD G
Sbjct: 90 KLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPG---- 145
Query: 89 AIVKSTFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMC 148
+ T H E V S+ +SP L +S D ++KLWDLR+ K PL + GH D V
Sbjct: 146 -KLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGK-PLSTLAGHTDPVSS 203
Query: 149 VNWSDY--RYIMSGGQDNSVRVFKTK 172
+ +S I SG D ++R++
Sbjct: 204 LAFSPDGGLLIASGSSDGTIRLWDLS 229
Score = 59.3 bits (142), Expect = 8e-11
Identities = 38/134 (28%), Positives = 65/134 (48%), Gaps = 8/134 (5%)
Query: 42 KTPLITLKGHKEAISAVQWTAVDE-IITSSWDHTLKIWDAELGGMKKGAIVKSTFSSHKE 100
+ L TL GH ++ +V ++ + + + S D T+++WD E + T H+
Sbjct: 274 SSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLE----TGKLLSSLTLKGHEG 329
Query: 101 WVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWS-DYRYIMS 159
V S+ +SP L S D +++LWDLR+ K L V+ V++S D R + S
Sbjct: 330 PVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKT--LEGHSNVLSVSFSPDGRVVSS 387
Query: 160 GGQDNSVRVFKTKH 173
G D +VR++
Sbjct: 388 GSTDGTVRLWDLST 401
Score = 45.1 bits (105), Expect = 7e-06
Identities = 39/135 (28%), Positives = 70/135 (51%), Gaps = 12/135 (8%)
Query: 41 QKTPLITLKGHKEAISAVQWTAVDEIITS--SWDHTLKIWDAELGGMKKGAIVKSTFSSH 98
+ +TLKGH+ +S++ ++ ++ S S D T+++WD G K
Sbjct: 317 KLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLK-------TLEG 369
Query: 99 KEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWS-DYRYI 157
V SV +SP D ++ S S D +V+LWDL + + + GH +V +++S D + +
Sbjct: 370 HSNVLSVSFSP-DGRVVSSGSTDGTVRLWDLSTGSLLRN-LDGHTSRVTSLDFSPDGKSL 427
Query: 158 MSGGQDNSVRVFKTK 172
SG DN++R++ K
Sbjct: 428 ASGSSDNTIRLWDLK 442
Score = 42.0 bits (97), Expect = 8e-05
Identities = 23/93 (24%), Positives = 45/93 (48%), Gaps = 8/93 (8%)
Query: 40 LQKTPLITLKGHKEAISAVQWTAVDEIITS-SWDHTLKIWDAELGGMKKGAIVKSTFSSH 98
L+ + + +V ++ +++S S D T+++WD G + + H
Sbjct: 358 LRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLR------NLDGH 411
Query: 99 KEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRS 131
V S+ +SP D + S S DN+++LWDL++
Sbjct: 412 TSRVTSLDFSP-DGKSLASGSSDNTIRLWDLKT 443
Score = 34.3 bits (77), Expect = 0.024
Identities = 19/90 (21%), Positives = 41/90 (45%), Gaps = 6/90 (6%)
Query: 86 KKGAIVKSTFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLG-HED 144
+ H++ + S+ +SP +L +S S D ++KLWDL + + + + G H+
Sbjct: 52 SLPDLSSLLLRGHEDSITSIAFSPDG-ELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDS 110
Query: 145 KVMCVNW----SDYRYIMSGGQDNSVRVFK 170
V + + + S D +V+++
Sbjct: 111 SVSKLALSSPDGNSILLASSSLDGTVKLWD 140
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 50.5 bits (120), Expect = 1e-07
Identities = 38/170 (22%), Positives = 73/170 (42%), Gaps = 51/170 (30%)
Query: 44 PLITLKGHKEAISAVQWTAV--DEIITSSWDHTLKIWDAELGGMKKGAIVKSTFSSHKEW 101
P++ L + +S + W + ++ +S+++ +++WD + + +V + H++
Sbjct: 525 PVVELAS-RSKLSGICWNSYIKSQVASSNFEGVVQVWD-----VARSQLV-TEMKEHEKR 577
Query: 102 VQSVRWSPIDPQLFVSASFDNSVKL----------------------------------- 126
V S+ +S DP L S S D SVKL
Sbjct: 578 VWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSESGRSLAFGS 637
Query: 127 -------WDLRSPKVPLFDMLGHEDKVMCVNWSDYRYIMSGGQDNSVRVF 169
+DLR+PK+PL M+GH V V + D ++S DN+++++
Sbjct: 638 ADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDSSTLVSSSTDNTLKLW 687
Score = 40.1 bits (93), Expect = 3e-04
Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 16/83 (19%)
Query: 16 MTVGALLTLTNIEVTSLPS----------------FFQLILQKTPLITLKGHKEAISAVQ 59
+++G + T NI PS ++ L K PL T+ GH + +S V+
Sbjct: 609 VSIGTIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVR 668
Query: 60 WTAVDEIITSSWDHTLKIWDAEL 82
+ +++SS D+TLK+WD +
Sbjct: 669 FVDSSTLVSSSTDNTLKLWDLSM 691
Score = 38.5 bits (89), Expect = 0.001
Identities = 32/106 (30%), Positives = 49/106 (46%), Gaps = 13/106 (12%)
Query: 70 SWDHTLKIWDAELGGMKKGAIVKSTFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKLWDL 129
S DH + +D ++ + T H + V VR+ +D VS+S DN++KLWDL
Sbjct: 637 SADHKVYYYD-----LRNPKLPLCTMIGHSKTVSYVRF--VDSSTLVSSSTDNTLKLWDL 689
Query: 130 RSP-----KVPLFDMLGHEDKVMCVNWS-DYRYIMSGGQDNSVRVF 169
+ PL +GH + V S YI +G + N V V+
Sbjct: 690 SMSISGINETPLHSFMGHTNVKNFVGLSVSDGYIATGSETNEVFVY 735
Score = 29.3 bits (65), Expect = 1.3
Identities = 21/85 (24%), Positives = 43/85 (50%), Gaps = 4/85 (4%)
Query: 102 VQSVRWSPIDPQLFVSASFDNSVKLWDLRSPKVPLFDMLGHEDKVMCVNWS--DYRYIMS 159
+ + W+ S++F+ V++WD+ ++ + +M HE +V +++S D + S
Sbjct: 535 LSGICWNSYIKSQVASSNFEGVVQVWDVARSQL-VTEMKEHEKRVWSIDYSSADPTLLAS 593
Query: 160 GGQDNSVRVFKTKHQPKSGQ-KSKA 183
G D SV+++ G K+KA
Sbjct: 594 GSDDGSVKLWSINQGVSIGTIKTKA 618
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 49.6 bits (118), Expect = 2e-07
Identities = 28/98 (28%), Positives = 54/98 (55%), Gaps = 4/98 (4%)
Query: 40 LQKTPLITLKGHKEAISAVQWT-AVDEIITS-SWDHTLKIWDA--ELGGMKKGAIVKSTF 95
++K P+I LKGH +I +Q+ EI+ S S D T+++W+ +K+ +
Sbjct: 62 MRKPPVIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHNDESVKEIKDPQCIL 121
Query: 96 SSHKEWVQSVRWSPIDPQLFVSASFDNSVKLWDLRSPK 133
HK+ + + W+P++ + S+ FD+ V +WD+ + K
Sbjct: 122 KGHKKKISIIDWNPMNYYIMCSSGFDSFVNIWDIENEK 159
Score = 39.2 bits (91), Expect = 6e-04
Identities = 27/121 (22%), Positives = 58/121 (47%), Gaps = 21/121 (17%)
Query: 78 WDAELGG----------MKKGAIVKSTFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKLW 127
W+ E GG M+K ++K H + ++++P ++ S S D ++++W
Sbjct: 45 WEVEGGGLIGAIRLENQMRKPPVIK--LKGHTSSILDLQFNPCFSEILASGSEDLTIRVW 102
Query: 128 DLRSP-------KVPLFDMLGHEDKVMCVNWSDYRY-IM-SGGQDNSVRVFKTKHQPKSG 178
++ K P + GH+ K+ ++W+ Y IM S G D+ V ++ +++ ++
Sbjct: 103 EIPHNDESVKEIKDPQCILKGHKKKISIIDWNPMNYYIMCSSGFDSFVNIWDIENEKRAF 162
Query: 179 Q 179
Q
Sbjct: 163 Q 163
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 43.5 bits (103), Expect = 8e-07
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 94 TFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKLWD 128
T H V SV +SP D L S S D +V++WD
Sbjct: 6 TLKGHTGPVTSVAFSP-DGNLLASGSDDGTVRVWD 39
Score = 38.9 bits (91), Expect = 5e-05
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 42 KTPLITLKGHKEAISAVQWTAVDE-IITSSWDHTLKIWD 79
L TLKGH +++V ++ + + S D T+++WD
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 35.0 bits (81), Expect = 0.001
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 133 KVPLFDMLGHEDKVMCVNWS-DYRYIMSGGQDNSVRVFK 170
L + GH V V +S D + SG D +VRV+
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 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 = 43.5 bits (103), Expect = 8e-07
Identities = 15/38 (39%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 91 VKSTFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKLWD 128
+ T H V SV +SP D + S S D ++KLWD
Sbjct: 4 LLKTLKGHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
Score = 38.8 bits (91), Expect = 5e-05
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 41 QKTPLITLKGHKEAISAVQWTAVDE-IITSSWDHTLKIWD 79
L TLKGH +++V ++ + + + S D T+K+WD
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 34.2 bits (79), Expect = 0.002
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 132 PKVPLFDMLGHEDKVMCVNWS-DYRYIMSGGQDNSVRVFK 170
L + GH V V +S D +Y+ SG D +++++
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|227498 COG5170, CDC55, Serine/threonine protein phosphatase 2A, regulatory
subunit [Signal transduction mechanisms].
Length = 460
Score = 30.0 bits (67), Expect = 0.72
Identities = 25/124 (20%), Positives = 49/124 (39%), Gaps = 2/124 (1%)
Query: 9 LTLGVIFMTVGALLTLTNIEVTSLPSFFQLILQKTPLITLKGHKEAISAVQWTAVDEIIT 68
L+ G L + + + L ++I K + H I+++ + + E +
Sbjct: 129 LSDSFHSPMGGPLTSTKELLLPRLSEHDEIIAAKPCRVYANAHPYHINSISFNSDKETLL 188
Query: 69 SSWDHTLKIWDAEL--GGMKKGAIVKSTFSSHKEWVQSVRWSPIDPQLFVSASFDNSVKL 126
S+ D + +W+ E+ G I E + S + P +F+ +S +KL
Sbjct: 189 SADDLRINLWNLEIIDGSFNIVDIKPHNMEELTEVITSAEFHPEMCNVFMYSSSKGEIKL 248
Query: 127 WDLR 130
DLR
Sbjct: 249 NDLR 252
Score = 27.7 bits (61), Expect = 4.0
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 122 NSVKLWDLRSPKVPLFDMLGHED 144
+VK+WD+ K P+ + H D
Sbjct: 301 LTVKIWDVNMAKNPIKTIPMHCD 323
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 29.1 bits (65), Expect = 1.4
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 8/73 (10%)
Query: 105 VRWSPIDPQLFVSASFDNSVKLWDL------RSPKVPLFDMLGHEDKVMCVNW--SDYRY 156
V ++P DPQ +AS D ++ W + ++ P+ + GH KV V++ S
Sbjct: 81 VAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVSFHPSAMNV 140
Query: 157 IMSGGQDNSVRVF 169
+ S G D V V+
Sbjct: 141 LASAGADMVVNVW 153
>gnl|CDD|236251 PRK08375, PRK08375, putative monovalent cation/H+ antiporter
subunit D; Reviewed.
Length = 487
Score = 28.7 bits (65), Expect = 1.9
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 14/63 (22%)
Query: 1 MSTNKFGILTLGVIFMTVGALLT--LTN----IEVTSLPSFFQLILQKTPLITLKGHKEA 54
+F L L ++ +GALLT L N +E+ SL S+ L+ + G + A
Sbjct: 103 HRQTRFYALFLLLLAGLLGALLTADLFNLFVFLEIMSLSSY--------ALVAMGGDRRA 154
Query: 55 ISA 57
++A
Sbjct: 155 LAA 157
>gnl|CDD|179313 PRK01637, PRK01637, hypothetical protein; Reviewed.
Length = 286
Score = 28.3 bits (64), Expect = 2.0
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 9/46 (19%)
Query: 8 ILTLGVIFMTVGA-------LLTLTNIEVTSLPSFFQLILQKTPLI 46
ILTLG + GA LL+L E + L +L+ PL+
Sbjct: 138 ILTLGPLL--AGASLAISSYLLSLRWFEASDLSGVIDNLLRILPLL 181
>gnl|CDD|218936 pfam06201, PITH, PITH domain. This family was formerly known as
DUF1000. The full-length, Txnl1, protein which is a
probable component of the 26S proteasome, uses its
C-terminal, PITH, domain to associate specifically with
the 26S proteasome. PITH derives from
proteasome-interacting thioredoxin domain.
Length = 151
Score = 27.9 bits (63), Expect = 2.2
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 87 KGAIVKSTFSSHKEWVQSVRW--SPIDPQLFVSASFDNSVKL 126
+G+ KS F E + + S D QL ++ F VKL
Sbjct: 19 EGSGAKSLFKPWDERLDPEPYLESDADEQLLINIPFTQPVKL 60
>gnl|CDD|187607 cd05349, BKR_2_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP]reductase (BKR), subgroup 2, classical (c) SDR.
This subgroup includes Rhizobium sp. NGR234 FabG1. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 246
Score = 27.8 bits (62), Expect = 2.9
Identities = 14/50 (28%), Positives = 21/50 (42%)
Query: 16 MTVGALLTLTNIEVTSLPSFFQLILQKTPLITLKGHKEAISAVQWTAVDE 65
M G LL +T+ + F I Q TPL + ++ AV + A
Sbjct: 180 MVSGGLLKVTDASAATPKEVFDAIAQTTPLGKVTTPQDIADAVLFFASPW 229
>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 = 27.9 bits (62), Expect = 3.1
Identities = 24/118 (20%), Positives = 39/118 (33%), Gaps = 15/118 (12%)
Query: 33 PSFFQLILQKTPLITLKGHKEAISAVQWTAVDE--------IITSSWDHTLKIWDAELGG 84
S+ + + P + A SA T V + T S D TL++W+ + G
Sbjct: 194 SSWLRSLRGLLPFQRYGKDRLASSAAASTIVSSSEVNGQTFLFTLSLDGTLRVWNLDTG- 252
Query: 85 MKKGAIVKSTFSSHKEWVQSVRWSPIDPQLF----VSASFDNSVKLWDLRSPKVPLFD 138
+ A + S S V +SP F V + + + P L
Sbjct: 253 --QCAFLPSRADSGGSRYLCVTYSPFSSGEFKFFSVKSGALVDSSVIEDSFPDALLLP 308
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 27.7 bits (62), Expect = 3.5
Identities = 15/50 (30%), Positives = 20/50 (40%)
Query: 16 MTVGALLTLTNIEVTSLPSFFQLILQKTPLITLKGHKEAISAVQWTAVDE 65
M G LL T+ + F LI TPL + +E AV + A
Sbjct: 186 MVSGGLLRTTDASAATPDEVFDLIAATTPLRKVTTPQEFADAVLFFASPW 235
>gnl|CDD|215126 PLN02204, PLN02204, diacylglycerol kinase.
Length = 601
Score = 27.5 bits (61), Expect = 4.5
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 11/60 (18%)
Query: 130 RSPKVPLFDML-----GHEDKVMCVNWSD---YRYIMSGGQDNSVRVFKTKHQPKSGQKS 181
RS K P +L GH+D C +W D G+ ++ VF P SG+ S
Sbjct: 118 RSRKEPCLWVLAVYTFGHKDLQTCQSWVDRLNASLNKEVGRPKNLLVFV---HPLSGKGS 174
>gnl|CDD|234421 TIGR03970, Rv0697, dehydrogenase, Rv0697 family. This model
describes a set of dehydrogenases belonging to the
glucose-methanol-choline oxidoreductase (GMC
oxidoreductase) family. Members of the present family
are restricted to Actinobacterial genome contexts
containing also members of families TIGR03962 and
TIGR03969 (the mycofactocin system), and are proposed to
be uniform in function.
Length = 487
Score = 27.5 bits (61), Expect = 4.6
Identities = 10/19 (52%), Positives = 10/19 (52%)
Query: 91 VKSTFSSHKEWVQSVRWSP 109
V S F H EWV RW P
Sbjct: 284 VGSDFVDHPEWVLPYRWRP 302
>gnl|CDD|203351 pfam05922, Inhibitor_I9, Peptidase inhibitor I9. This family
includes the proteinase B inhibitor from Saccharomyces
cerevisiae and the activation peptides from peptidases
of the subtilisin family. The subtilisin propeptides are
known to function as molecular chaperones, assisting in
the folding of the mature peptidase, but have also been
shown to act as 'temporary inhibitors'.
Length = 76
Score = 25.3 bits (56), Expect = 6.3
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 85 MKKGAIVKSTFSSHKEWVQSVR 106
K G + FSSHK W S +
Sbjct: 6 FKDGVSKAAVFSSHKSWHASSK 27
>gnl|CDD|222724 pfam14385, DUF4416, Domain of unknown function (DUF4416). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 176 and 187 amino
acids in length. There is a conserved DPG sequence
motif.
Length = 163
Score = 26.4 bits (59), Expect = 6.9
Identities = 9/42 (21%), Positives = 14/42 (33%), Gaps = 9/42 (21%)
Query: 86 KKGAIVKSTFSSHKEWVQSV------RWSPIDPQLFVSASFD 121
+V S+ EW V ++ PID + S
Sbjct: 3 PPAKLVIGVLSNDDEWFPEVKPLLEEKFGPID---YESPPLP 41
>gnl|CDD|232942 TIGR00366, TIGR00366, TIGR00366 family protein. [Hypothetical
proteins, Conserved].
Length = 438
Score = 26.7 bits (59), Expect = 7.1
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 7 GILTLGVIFMTVGALLTLTNIEVTSLPSFFQLILQKTPLITLKGHKEAISAV 58
GI+ LG+ F G LTL ++ + L L+L KTP+ ++ A +V
Sbjct: 259 GIIYLGMYFYEKGFNLTLNSVNLIFL--IVGLLLHKTPMAYMRAITRAARSV 308
>gnl|CDD|236856 PRK11128, PRK11128, putative 3-phenylpropionic acid transporter;
Provisional.
Length = 382
Score = 26.4 bits (59), Expect = 8.6
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 8 ILTLGVIFMTVGALLTLT--------NIEVTSLPSFFQLILQKTPL 45
ILT GV M +G LL T E P++ L+ + T
Sbjct: 163 ILTAGVASMLLGQLLRPTIMPQGESRQQESAGWPAWKALLKEPTVW 208
>gnl|CDD|173301 PRK14840, PRK14840, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 250
Score = 26.3 bits (58), Expect = 9.5
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 8/40 (20%)
Query: 141 GHEDKVMCVNWSDYRYIMSGGQDNSVRVFKTKHQPKSGQK 180
+ V+ +N+ GG+D VR FK HQ + +K
Sbjct: 140 SRMELVLAINY--------GGKDELVRAFKKLHQDLANKK 171
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
0.319 0.132 0.405
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: 8,982,865
Number of extensions: 789805
Number of successful extensions: 760
Number of sequences better than 10.0: 1
Number of HSP's gapped: 701
Number of HSP's successfully gapped: 48
Length of query: 183
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 92
Effective length of database: 6,901,388
Effective search space: 634927696
Effective search space used: 634927696
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: 56 (25.4 bits)