RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10942
(537 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 = 148 bits (375), Expect = 1e-40
Identities = 72/220 (32%), Positives = 102/220 (46%), Gaps = 33/220 (15%)
Query: 286 ELLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDKLLASGSLDKTVK 345
+LLA+GS D T+KVW G L + KGH + V S + LASGS DKT++
Sbjct: 22 KLLATGSGDGTIKVWDLETGELLRTL-----KGHTGPVRDVAASADGTYLASGSSDKTIR 76
Query: 346 VWSTTGGLKLLNVLRGHKK----------GTQIVSTGADGLLKLWSIKTSTCVSTFDKHA 395
+W G + + L GH G + S+ D +K+W ++T C++T H
Sbjct: 77 LWDLETG-ECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGH- 134
Query: 396 LKIWTLAITKDENQIITGGVWFVNFSPLDRILISSSGDATIKLWCLTDYVCLKSLEGHDA 455
T V V FSP + SSS D TIKLW L C+ +L GH
Sbjct: 135 ----------------TDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTG 178
Query: 456 SVLRCHFINKGTQIVSTGADGLLKLWSIKTSTCVSTFDKH 495
V F G +++S+ +DG +KLW + T C+ T H
Sbjct: 179 EVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH 218
Score = 148 bits (375), Expect = 1e-40
Identities = 69/207 (33%), Positives = 98/207 (47%), Gaps = 33/207 (15%)
Query: 286 ELLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDKLLASGSLDKTVK 345
+L+S S DKT+KVW G K L LRGH +N V SP+ +AS S D T+K
Sbjct: 106 RILSSSSRDKTIKVWDVETG-KCLTTLRGH----TDWVNSVAFSPDGTFVASSSQDGTIK 160
Query: 346 VWSTTGGLKLLNVLRGHK----------KGTQIVSTGADGLLKLWSIKTSTCVSTFDKHA 395
+W G K + L GH G +++S+ +DG +KLW + T C+ T H
Sbjct: 161 LWDLRTG-KCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH- 218
Query: 396 LKIWTLAITKDENQIITGGVWFVNFSPLDRILISSSGDATIKLWCLTDYVCLKSLEGHDA 455
GV V FSP +L S S D TI++W L C+++L GH
Sbjct: 219 ----------------ENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTN 262
Query: 456 SVLRCHFINKGTQIVSTGADGLLKLWS 482
SV + G ++ S ADG +++W
Sbjct: 263 SVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 147 bits (373), Expect = 2e-40
Identities = 80/220 (36%), Positives = 108/220 (49%), Gaps = 33/220 (15%)
Query: 286 ELLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDKLLASGSLDKTVK 345
LASGS DKT+++W G + + L GH ++ V SP+ ++L+S S DKT+K
Sbjct: 64 TYLASGSSDKTIRLWDLETG-ECVRTL----TGHTSYVSSVAFSPDGRILSSSSRDKTIK 118
Query: 346 VWSTTGGLKLLNVLRGHKK----------GTQIVSTGADGLLKLWSIKTSTCVSTFDKHA 395
VW G K L LRGH GT + S+ DG +KLW ++T CV+T H
Sbjct: 119 VWDVETG-KCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGH- 176
Query: 396 LKIWTLAITKDENQIITGGVWFVNFSPLDRILISSSGDATIKLWCLTDYVCLKSLEGHDA 455
TG V V FSP L+SSS D TIKLW L+ CL +L GH+
Sbjct: 177 ----------------TGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHEN 220
Query: 456 SVLRCHFINKGTQIVSTGADGLLKLWSIKTSTCVSTFDKH 495
V F G + S DG +++W ++T CV T H
Sbjct: 221 GVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGH 260
Score = 137 bits (348), Expect = 7e-37
Identities = 72/189 (38%), Positives = 93/189 (49%), Gaps = 28/189 (14%)
Query: 317 KGHEKDINCVTVSPNDKLLASGSLDKTVKVWSTTGGLKLLNVLRGHKK----------GT 366
KGH + CV SP+ KLLA+GS D T+KVW G +LL L+GH GT
Sbjct: 6 KGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETG-ELLRTLKGHTGPVRDVAASADGT 64
Query: 367 QIVSTGADGLLKLWSIKTSTCVSTFDKHALKIWTLAITKDENQIITGGVWFVNFSPLDRI 426
+ S +D ++LW ++T CV T H T V V FSP RI
Sbjct: 65 YLASGSSDKTIRLWDLETGECVRTLTGH-----------------TSYVSSVAFSPDGRI 107
Query: 427 LISSSGDATIKLWCLTDYVCLKSLEGHDASVLRCHFINKGTQIVSTGADGLLKLWSIKTS 486
L SSS D TIK+W + CL +L GH V F GT + S+ DG +KLW ++T
Sbjct: 108 LSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTG 167
Query: 487 TCVSTFDKH 495
CV+T H
Sbjct: 168 KCVATLTGH 176
Score = 41.2 bits (97), Expect = 9e-04
Identities = 15/64 (23%), Positives = 28/64 (43%)
Query: 446 CLKSLEGHDASVLRCHFINKGTQIVSTGADGLLKLWSIKTSTCVSTFDKHALKIRNSDSE 505
++L+GH V F G + + DG +K+W ++T + T H +R+ +
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS 60
Query: 506 NDHK 509
D
Sbjct: 61 ADGT 64
Score = 31.5 bits (72), Expect = 0.88
Identities = 32/194 (16%), Positives = 59/194 (30%), Gaps = 23/194 (11%)
Query: 2 KFCVTCFDVIPQITSEFSVHCGRDKVLFTWDLSSRKQLRSYPAYESLETCAVFHLSDETE 61
V T S DK + WDL + + +R+ + S + F
Sbjct: 51 TGPVRDVAASADGTYLAS--GSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDG--- 105
Query: 62 SKSGGKTFVLAGGEKSLLHYYETSAVKELYQ-HGLSSPLVRIVRSSVKRMYAVVTADHNI 120
+ + + ++ K L G + + + S A + D I
Sbjct: 106 ------RILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTI 159
Query: 121 SLYRLNSETGLEERPNKILKFRKQFVGFSDEILDIALLGEEDSHIVVASNEYLNGGDLSG 180
L+ L + K G + E+ +A + + + +S+ + DLS
Sbjct: 160 KLWDLRT-----------GKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLST 208
Query: 181 LVKLGANRSHNEWF 194
LG R H
Sbjct: 209 GKCLGTLRGHENGV 222
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 104 bits (258), Expect = 1e-23
Identities = 74/247 (29%), Positives = 107/247 (43%), Gaps = 38/247 (15%)
Query: 286 ELLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDKLLASGSLDKTVK 345
ELL SGS D T+K+W G KL+ L G + + N LLAS SLD TVK
Sbjct: 78 ELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVK 137
Query: 346 VWSTTGGLKLLNVLRGHKKGTQ-----------IVSTGADGLLKLWSIKTSTCVSTFDKH 394
+W + KL+ L GH + + DG +KLW ++T +ST H
Sbjct: 138 LWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGH 197
Query: 395 ALKIWTLAITKDENQIITGGVW--------------------------FVNFSPLDRILI 428
+ +LA + D +I G +FSP +L
Sbjct: 198 TDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLA 257
Query: 429 SSSGDATIKLWCL-TDYVCLKSLEGHDASVLRCHFINKGTQIVSTGADGLLKLWSIKTST 487
S S D TI+LW L + L++L GH +SVL F G + S +DG ++LW ++T
Sbjct: 258 SGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGK 317
Query: 488 CVSTFDK 494
+S+
Sbjct: 318 LLSSLTL 324
Score = 102 bits (253), Expect = 4e-23
Identities = 71/244 (29%), Positives = 113/244 (46%), Gaps = 42/244 (17%)
Query: 287 LLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDKLLASGSLDKTVKV 346
L+ASGS D T+++W + G L + L GH + SP+ LLASGS D T+++
Sbjct: 213 LIASGSSDGTIRLWDLSTGKLLRSTLSGHSDS-----VVSSFSPDGSLLASGSSDGTIRL 267
Query: 347 WSTTGGLKLLNVLRGHKK----------GTQIVSTGADGLLKLWSIKTSTCVS--TFDKH 394
W LL L GH G + S +DG ++LW ++T +S T H
Sbjct: 268 WDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGH 327
Query: 395 ALKIWTLAITKDENQIITGG-------------------------VWFVNFSPLDRILIS 429
+ +L+ + D + +++GG V V+FSP R++ S
Sbjct: 328 EGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSS 387
Query: 430 SSGDATIKLWCLTDYVCLKSLEGHDASVLRCHFINKGTQIVSTGADGLLKLWSIKTSTCV 489
S D T++LW L+ L++L+GH + V F G + S +D ++LW +KTS
Sbjct: 388 GSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKS 447
Query: 490 STFD 493
+F
Sbjct: 448 VSFS 451
Score = 77.1 bits (188), Expect = 6e-15
Identities = 60/197 (30%), Positives = 84/197 (42%), Gaps = 35/197 (17%)
Query: 317 KGHEKDINCVTVSPNDKLLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGTQ--------- 367
+GHE I + SP+ +LL SGS D T+K+W G KL+ L G +
Sbjct: 62 RGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPD 121
Query: 368 -----IVSTGADGLLKLWSIKTST-CVSTFDKHALKIWTLAITKDENQIITGGVWFVNFS 421
+ S+ DG +KLW + T + T + H + V + FS
Sbjct: 122 GNSILLASSSLDGTVKLWDLSTPGKLIRTLEGH-----------------SESVTSLAFS 164
Query: 422 PLDRILISSSG-DATIKLWCLTDYVCLKSLEGHDASVLRCHFINKGT-QIVSTGADGLLK 479
P ++L S S D TIKLW L L +L GH V F G I S +DG ++
Sbjct: 165 PDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIR 224
Query: 480 LWSIKTSTCV-STFDKH 495
LW + T + ST H
Sbjct: 225 LWDLSTGKLLRSTLSGH 241
Score = 35.8 bits (81), Expect = 0.054
Identities = 33/115 (28%), Positives = 53/115 (46%), Gaps = 6/115 (5%)
Query: 403 ITKDENQIITGGVWFVNFSPLDRILISSSGDATIKLWCL-TDYVCLKSLEG-HDASVLRC 460
++ + + + FSP +L+S S D TIKLW L +KSLEG HD+SV +
Sbjct: 56 LSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKL 115
Query: 461 HFINKGTQIV---STGADGLLKLWSIKTST-CVSTFDKHALKIRNSDSENDHKGF 511
+ + S+ DG +KLW + T + T + H+ + + D K
Sbjct: 116 ALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLL 170
Score = 32.0 bits (71), Expect = 0.98
Identities = 30/165 (18%), Positives = 58/165 (35%), Gaps = 12/165 (7%)
Query: 5 VTCFDVIPQITSEFSVHCGRDKVLFTWDLSSRKQLRSYPAYESLETCAVFHLSDETESKS 64
V+ P D + WDLS+ K LR + H S S
Sbjct: 201 VSSLAFSPD-GGLLIASGSSDGTIRLWDLSTGKLLR---------STLSGHSDSVVSSFS 250
Query: 65 GGKTFVLAGGEKSLLHYYETSAVKELYQH--GLSSPLVRIVRSSVKRMYAVVTADHNISL 122
+ + +G + ++ + L + G SS ++ + S ++ A ++D + L
Sbjct: 251 PDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRL 310
Query: 123 YRLNSETGLEERPNKILKFRKQFVGFSDEILDIALLGEEDSHIVV 167
+ L + L K + + FS + + G +D I +
Sbjct: 311 WDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRL 355
Score = 29.7 bits (65), Expect = 5.1
Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 4/69 (5%)
Query: 419 NFSPLDRILISSSGDATIKLWCLTDYVCLKSLEGHDASVLRCHFINKGTQIVSTGADGLL 478
S +L++ D+ + L L+ L GH+ S+ F G ++S +DG +
Sbjct: 34 GSSESGILLLALLSDSLVSLPDLSSL----LLRGHEDSITSIAFSPDGELLLSGSSDGTI 89
Query: 479 KLWSIKTST 487
KLW +
Sbjct: 90 KLWDLDNGE 98
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 48.9 bits (117), Expect = 5e-08
Identities = 17/32 (53%), Positives = 20/32 (62%)
Query: 317 KGHEKDINCVTVSPNDKLLASGSLDKTVKVWS 348
KGH + V SP+ LLASGS D TV+VW
Sbjct: 8 KGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 40.4 bits (95), Expect = 4e-05
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 445 VCLKSLEGHDASVLRCHFINKGTQIVSTGADGLLKLWS 482
L++L+GH V F G + S DG +++W
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 35.4 bits (82), Expect = 0.002
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 412 TGGVWFVNFSPLDRILISSSGDATIKLW 439
TG V V FSP +L S S D T+++W
Sbjct: 11 TGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 28.9 bits (65), Expect = 0.54
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 287 LLASGSLDKTVKVWS 301
LLASGS D TV+VW
Sbjct: 25 LLASGSDDGTVRVWD 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 = 48.5 bits (116), Expect = 7e-08
Identities = 16/32 (50%), Positives = 20/32 (62%)
Query: 317 KGHEKDINCVTVSPNDKLLASGSLDKTVKVWS 348
KGH + V SP+ K LASGS D T+K+W
Sbjct: 9 KGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 40.8 bits (96), Expect = 3e-05
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 446 CLKSLEGHDASVLRCHFINKGTQIVSTGADGLLKLWS 482
LK+L+GH V F G + S DG +KLW
Sbjct: 4 LLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 34.2 bits (79), Expect = 0.006
Identities = 18/56 (32%), Positives = 21/56 (37%), Gaps = 17/56 (30%)
Query: 384 TSTCVSTFDKHALKIWTLAITKDENQIITGGVWFVNFSPLDRILISSSGDATIKLW 439
+ + T H TG V V FSP + L S S D TIKLW
Sbjct: 1 SGELLKTLKGH-----------------TGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 28.0 bits (63), Expect = 1.1
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 287 LLASGSLDKTVKVWS 301
LASGS D T+K+W
Sbjct: 26 YLASGSDDGTIKLWD 40
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 42.6 bits (100), Expect = 5e-04
Identities = 41/157 (26%), Positives = 66/157 (42%), Gaps = 39/157 (24%)
Query: 286 ELLASGSLDKTVKVWSTTGGLKLLNVLRGHK---KGHEKDINCVTVSP-NDKLLASGSLD 341
E+LASGS D T++VW + + ++ + KGH+K I+ + +P N ++ S D
Sbjct: 88 EILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHKKKISIIDWNPMNYYIMCSSGFD 147
Query: 342 KTVKVWSTTGGLKLLNVLRGHKKGTQIVSTGADGLLKLWSIKTS----TCV--------- 388
V +W + K+ QI LK W+IK + TCV
Sbjct: 148 SFVNIWD----------IENEKRAFQINMPKKLSSLK-WNIKGNLLSGTCVGKHMHIIDP 196
Query: 389 ------STF-----DKHALKIWTLAITKDENQIITGG 414
S+F K+ IW + D+N I++ G
Sbjct: 197 RKQEIASSFHIHDGGKNTKNIWIDGLGGDDNYILSTG 233
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 40.8 bits (95), Expect = 0.002
Identities = 31/148 (20%), Positives = 64/148 (43%), Gaps = 28/148 (18%)
Query: 366 TQIVSTGADGLLKLWSIKTSTCVSTFDKHALKIWTLAITKDENQIITGG-------VWFV 418
+Q+ S+ +G++++W + S V+ +H ++W++ + + ++ G +W +
Sbjct: 546 SQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSI 605
Query: 419 NF-------------------SPLDRILISSSGDATIKLWCLTD-YVCLKSLEGHDASVL 458
N S R L S D + + L + + L ++ GH +V
Sbjct: 606 NQGVSIGTIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVS 665
Query: 459 RCHFINKGTQIVSTGADGLLKLWSIKTS 486
F++ T +VS+ D LKLW + S
Sbjct: 666 YVRFVDSST-LVSSSTDNTLKLWDLSMS 692
Score = 38.9 bits (90), Expect = 0.008
Identities = 35/116 (30%), Positives = 51/116 (43%), Gaps = 16/116 (13%)
Query: 280 YTGGTVELLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTV-SPNDKLLASG 338
Y+ LLASGS D +VK+WS G+ + + + +I CV S + + LA G
Sbjct: 583 YSSADPTLLASGSDDGSVKLWSINQGVSIGTI------KTKANICCVQFPSESGRSLAFG 636
Query: 339 SLDKTVKVWSTTGGLKLLNVLRGHKK---------GTQIVSTGADGLLKLWSIKTS 385
S D V + L + GH K + +VS+ D LKLW + S
Sbjct: 637 SADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDSSTLVSSSTDNTLKLWDLSMS 692
Score = 37.8 bits (87), Expect = 0.016
Identities = 44/156 (28%), Positives = 66/156 (42%), Gaps = 14/156 (8%)
Query: 288 LASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPND-KLLASGSLDKTVKV 346
+AS + + V+VW + L K HEK + + S D LLASGS D +VK+
Sbjct: 548 VASSNFEGVVQVWDVA-----RSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKL 602
Query: 347 WSTTGGLKLLNVLRGHKKGTQIVSTGADGLLKLWSIKTSTCVSTFDKHALKIWTLAITKD 406
WS G+ + + K V ++ L V +D K+ +
Sbjct: 603 WSINQGVSIGTI--KTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGH 660
Query: 407 ENQIITGGVWFVNFSPLDRILISSSGDATIKLWCLT 442
+ V FV+ S L+SSS D T+KLW L+
Sbjct: 661 SKTV--SYVRFVDSS----TLVSSSTDNTLKLWDLS 690
>gnl|CDD|227642 COG5337, CotH, Spore coat assembly protein [Cell envelope
biogenesis, outer membrane].
Length = 473
Score = 31.9 bits (72), Expect = 0.90
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 221 GRDELKTVTLLERGKTVKEEDLFPRQSM----EPSTLEELEKRKTYH 263
G D+ + T E+G KEED FP M + EE ++ T H
Sbjct: 221 GDDQTEYKTSFEQGYEKKEEDDFPLIDMLKKINTVSDEEFKEELTKH 267
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 31.8 bits (72), Expect = 1.0
Identities = 47/200 (23%), Positives = 76/200 (38%), Gaps = 41/200 (20%)
Query: 318 GHEKDINCVTVSP-NDKLLASGSLDKTVKVWST-TGGLKL-----LNVLRGHKKGTQIV- 369
G E I V +P + + L + S D T+ W GL + L+GH K IV
Sbjct: 73 GQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVS 132
Query: 370 ----------STGADGLLKLWSIKTSTCVSTFDKHALKIWTLAITKDENQIITGGVWFVN 419
S GAD ++ +W ++ V H+ IT W ++
Sbjct: 133 FHPSAMNVLASAGADMVVNVWDVERGKAVEVIKCHS-------------DQITSLEWNLD 179
Query: 420 FSPLDRILISSSGDATIKLWCLTDYVCLKSLEGHD-ASVLRCHFINKGTQIVSTGADGL- 477
S +L ++S D + + D + S+E H A RC + + I++ G
Sbjct: 180 GS----LLCTTSKDKKLNIIDPRDGTIVSSVEAHASAKSQRCLWAKRKDLIITLGCSKSQ 235
Query: 478 ---LKLWSI-KTSTCVSTFD 493
+ LW K ++ ST D
Sbjct: 236 QRQIMLWDTRKMASPYSTVD 255
Score = 29.5 bits (66), Expect = 4.7
Identities = 26/103 (25%), Positives = 39/103 (37%), Gaps = 22/103 (21%)
Query: 407 ENQIITGGVWFVNFSPLD-RILISSSGDATIKLW----------CLTDYVCLKSLEGHDA 455
E II V F+P D + L ++S D TI W V L+ GH
Sbjct: 75 EGPIID-----VAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQ---GHTK 126
Query: 456 SV--LRCHFINKGTQIVSTGADGLLKLWSIKTSTCVSTFDKHA 496
V + H + S GAD ++ +W ++ V H+
Sbjct: 127 KVGIVSFHPSAMNV-LASAGADMVVNVWDVERGKAVEVIKCHS 168
>gnl|CDD|239044 cd02129, PA_hSPPL_like, PA_hSPPL_like: Protease-associated domain
containing human signal peptide peptidase-like
(hSPPL)-like. This group contains various PA
domain-containing proteins similar to hSPPL2a and 2b.
These SPPLs are GxGD aspartic proteases. SPPL2a is
sorted to the late endosomes, SPPL2b to the plasma
membrane. In activated dendritic cells, hSPPL2a and 2b
catalyze the intramembrane proteolysis of tumor necrosis
factor alpha triggering IL-12 production. hSPPL2a and 2b
may have a broad substrate spectrum. The significance of
the PA domain to these SPPLs has not been ascertained.
It may be a protein-protein interaction domain. At
peptidase active sites, the PA domain may participate in
substrate binding and/or promoting conformational
changes, which influence the stability and accessibility
of the site to substrate.
Length = 120
Score = 30.1 bits (68), Expect = 1.2
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 433 DATIKLWCLTDYVCLKSLEGHDASVLR--CHFINKGTQIVSTGADGLL 478
+ T + C V L+G V+R C F K S GA+GLL
Sbjct: 26 NLTSSVLCSASDVPPGGLKGKAVVVMRGNCTFYEKARLAQSLGAEGLL 73
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 31.0 bits (71), Expect = 1.9
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 199 ERILEAK---FKQSSSQQKHNTERLGRDELKTVTLLERGKTVKEEDLFPRQSMEPSTLEE 255
E +LEAK K + ++ ER R+EL+ LER +EE L + E
Sbjct: 51 EALLEAKEEVHKLRAELERELKER--RNELQR---LERRLLQREETLDRKMESLDKKEEN 105
Query: 256 LEKR 259
LEK+
Sbjct: 106 LEKK 109
>gnl|CDD|166018 PLN02377, PLN02377, 3-ketoacyl-CoA synthase.
Length = 502
Score = 30.4 bits (68), Expect = 3.0
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 6/64 (9%)
Query: 279 FYTGGTVELLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDKLLASG 338
F GG+ LL++ S DK KL++V+R H+ +K CV +D
Sbjct: 283 FRVGGSAVLLSNKSRDKR------RSKYKLVHVVRTHRGADDKAFRCVYQEQDDAGKTGV 336
Query: 339 SLDK 342
SL K
Sbjct: 337 SLSK 340
>gnl|CDD|181499 PRK08605, PRK08605, D-lactate dehydrogenase; Validated.
Length = 332
Score = 29.7 bits (67), Expect = 3.4
Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 13/68 (19%)
Query: 239 EEDLFPR----QSMEPSTLEELEKRKTYHFPLFGIFVPEAEHGAFYTGGTVELLASGSLD 294
E LFP Q++ LE L R+ I P H AFYT V+ L +LD
Sbjct: 266 ERPLFPSDQRGQTINDPLLESLINREDV------ILTP---HIAFYTDAAVKNLIVDALD 316
Query: 295 KTVKVWST 302
T++V T
Sbjct: 317 ATLEVLQT 324
>gnl|CDD|215459 PLN02854, PLN02854, 3-ketoacyl-CoA synthase.
Length = 521
Score = 29.9 bits (67), Expect = 3.6
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 279 FYTGGTVELLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDK 333
F GG LL++ + D+ + L++ +R HK +K+ NCV +DK
Sbjct: 299 FRMGGAAVLLSNKARDRKRSKYQ------LVHTVRTHKGADDKNYNCVYQREDDK 347
>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 = 4.1
Identities = 36/185 (19%), Positives = 61/185 (32%), Gaps = 34/185 (18%)
Query: 287 LLASGSLDKTVKVWSTTGGLKLLNVLRGHKKGHEKDINCVTVSPNDKLLASGSLDKTVKV 346
L + SLD T++VW+ G R G CVT SP SG K
Sbjct: 234 FLFTLSLDGTLRVWNLDTGQCAFLPSRADSGGS--RYLCVTYSPFS----SGEF----KF 283
Query: 347 WSTTGGLKL-LNVLRGHKKGTQIVSTGADGLLKLWSIKTSTCVSTFDKHALKIWTLAITK 405
+S G + +V+ ++ D L + + F + K+WTL
Sbjct: 284 FSVKSGALVDSSVIEDSFPDALLLPLDPDSFRTLADFQED--LIDFGLSSTKLWTL---- 337
Query: 406 DENQIITGGVWFVNFS-PLDRILISSSGDATIKLWCL------TDYVCLKSLEGHDASVL 458
W N S L ++ + + + + ++ + S +G D +
Sbjct: 338 ----------WKSNGSTVLKKLHFNPETETSAADSPVGQEPPPSEAIFDPSEQGVDPAET 387
Query: 459 RCHFI 463
I
Sbjct: 388 YLDRI 392
>gnl|CDD|179990 PRK05282, PRK05282, (alpha)-aspartyl dipeptidase; Validated.
Length = 233
Score = 29.1 bits (66), Expect = 4.7
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 15/42 (35%)
Query: 64 SGGKTFVLAGGEKSLLHYYETSAVKELYQHGLSSPLVRIVRS 105
GG TF L +K+LY+ GL +P+ V++
Sbjct: 86 GGGNTFQL---------------LKQLYERGLLAPIREAVKN 112
>gnl|CDD|236065 PRK07591, PRK07591, threonine synthase; Validated.
Length = 421
Score = 28.4 bits (64), Expect = 9.7
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 326 VTVSPNDKLLASGSLDK--TVKVWSTTGGLKLLNVLRGH 362
VTV+ KL+ +G +D V+ T GLK L + G+
Sbjct: 362 VTVAVLKKLVEAGKIDPDEETVVYITGNGLKTLEAVAGY 400
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
0.317 0.134 0.400
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: 26,424,891
Number of extensions: 2512032
Number of successful extensions: 1859
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1790
Number of HSP's successfully gapped: 45
Length of query: 537
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 435
Effective length of database: 6,413,494
Effective search space: 2789869890
Effective search space used: 2789869890
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: 61 (27.3 bits)