RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11350
(471 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 = 189 bits (481), Expect = 1e-56
Identities = 87/259 (33%), Positives = 134/259 (51%), Gaps = 12/259 (4%)
Query: 139 LTSLSIYCSQVGDTRPISYCSFSPDSQHVATASWSGLCKLWTVPECELVQTFRGHDCNVG 198
L + + + G T P+ + S D ++A+ S +LW + E V+T GH V
Sbjct: 38 LETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVS 97
Query: 199 AIEFHPLPSEGAVCSLASCAQDGSVKLWSLDKDTPLANLEGHEPFRVSRIKFHPSGRFLG 258
++ F P L+S ++D ++K+W ++ L L GH + V+ + F P G F+
Sbjct: 98 SVAFSPDGR-----ILSSSSRDKTIKVWDVETGKCLTTLRGHTDW-VNSVAFSPDGTFVA 151
Query: 259 TCCWDHS---WRLDT--PLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRLWDLNQGQ 313
+ D + W L T +A L GH V+ + F P G L + D + +LWDL+ G+
Sbjct: 152 SSSQDGTIKLWDLRTGKCVATLTGHTGE-VNSVAFSPDGEKLLSSSSDGTIKLWDLSTGK 210
Query: 314 EVLHQEGHGKPVYCMSFQGDGSVVATGGLDAFGRVWDLRTGRCIMFLEGHLKSVFSVDFS 373
+ GH V ++F DG ++A+G D RVWDLRTG C+ L GH SV S+ +S
Sbjct: 211 CLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWS 270
Query: 374 PDGYHLATGSEDNAVKIWD 392
PDG LA+GS D ++IWD
Sbjct: 271 PDGKRLASGSADGTIRIWD 289
Score = 186 bits (473), Expect = 2e-55
Identities = 88/279 (31%), Positives = 134/279 (48%), Gaps = 21/279 (7%)
Query: 154 PISYCSFSPDSQHVATASWSGLCKLWTVPECELVQTFRGHDCNVGAIEFHPLPSEGAVCS 213
++ +FSPD + +AT S G K+W + EL++T +GH V +
Sbjct: 11 GVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASA-----DGTY 65
Query: 214 LASCAQDGSVKLWSLDKDTPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRL----- 268
LAS + D +++LW L+ + L GH VS + F P GR L + D + ++
Sbjct: 66 LASGSSDKTIRLWDLETGECVRTLTGHT-SYVSSVAFSPDGRILSSSSRDKTIKVWDVET 124
Query: 269 DTPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRLWDLNQGQEVLHQEGHGKPVYCM 328
L L GH + V+ + F P G F+ + D + +LWDL G+ V GH V +
Sbjct: 125 GKCLTTLRGHTDW-VNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSV 183
Query: 329 SFQGDGSVVATGGLDAFGRVWDLRTGRCIMFLEGHLKSVFSVDFSPDGYHLATGSEDNAV 388
+F DG + + D ++WDL TG+C+ L GH V SV FSPDGY LA+GSED +
Sbjct: 184 AFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243
Query: 389 KIWDLRKRRLLK---------WCTQLLPNSIGVTSLLTD 418
++WDLR ++ P+ + S D
Sbjct: 244 RVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSAD 282
Score = 178 bits (453), Expect = 2e-52
Identities = 74/223 (33%), Positives = 110/223 (49%), Gaps = 12/223 (5%)
Query: 186 LVQTFRGHDCNVGAIEFHPLPSEGAVCSLASCAQDGSVKLWSLDKDTPLANLEGHEPFRV 245
L +T +GH V + F P LA+ + DG++K+W L+ L L+GH V
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGK-----LLATGSGDGTIKVWDLETGELLRTLKGHTGP-V 54
Query: 246 SRIKFHPSGRFLGTCCWDHS---WRLDTP--LANLEGHEPFRVSRIKFHPSGRFLGTCCW 300
+ G +L + D + W L+T + L GH VS + F P GR L +
Sbjct: 55 RDVAASADGTYLASGSSDKTIRLWDLETGECVRTLTGHT-SYVSSVAFSPDGRILSSSSR 113
Query: 301 DHSWRLWDLNQGQEVLHQEGHGKPVYCMSFQGDGSVVATGGLDAFGRVWDLRTGRCIMFL 360
D + ++WD+ G+ + GH V ++F DG+ VA+ D ++WDLRTG+C+ L
Sbjct: 114 DKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATL 173
Query: 361 EGHLKSVFSVDFSPDGYHLATGSEDNAVKIWDLRKRRLLKWCT 403
GH V SV FSPDG L + S D +K+WDL + L
Sbjct: 174 TGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLR 216
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 137 bits (344), Expect = 2e-35
Identities = 94/262 (35%), Positives = 134/262 (51%), Gaps = 19/262 (7%)
Query: 150 GDTRPISYCSFSPDSQHVATAS-WSGLCKLWTVPECELVQTFRGHDCNVGAIEFHPLPSE 208
G + ++ +FSPD + +A+ S G KLW + + + T GH V ++ F P
Sbjct: 153 GHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGG- 211
Query: 209 GAVCSLASCAQDGSVKLWSLDKDTPLAN-LEGHEPFRVSRIKFHPSGRFLGTCCWDHSWR 267
+AS + DG+++LW L L + L GH VS F P G L + D + R
Sbjct: 212 ---LLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVS--SFSPDGSLLASGSSDGTIR 266
Query: 268 L------DTPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRLWDLNQG--QEVLHQE 319
L + L L GH V + F P G+ L + D + RLWDL G L +
Sbjct: 267 LWDLRSSSSLLRTLSGHS-SSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLK 325
Query: 320 GHGKPVYCMSFQGDGSVVATGG-LDAFGRVWDLRTGRCIMFLEGHLKSVFSVDFSPDGYH 378
GH PV +SF DGS++ +GG D R+WDLRTG+ + LEGH +V SV FSPDG
Sbjct: 326 GHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGH-SNVLSVSFSPDGRV 384
Query: 379 LATGSEDNAVKIWDLRKRRLLK 400
+++GS D V++WDL LL+
Sbjct: 385 VSSGSTDGTVRLWDLSTGSLLR 406
Score = 128 bits (321), Expect = 2e-32
Identities = 103/333 (30%), Positives = 155/333 (46%), Gaps = 18/333 (5%)
Query: 146 CSQVGDTRPISYCSFSPDSQHVATASWSGLCKLWTV-PECELVQTFRG-HDCNVGAIEFH 203
G I+ +FSPD + + + S G KLW + +L+++ G HD +V +
Sbjct: 59 LLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALS 118
Query: 204 PLPSEGAVCSLASCAQDGSVKLWSLDKDT-PLANLEGHEPFRVSRIKFHPSGRFL-GTCC 261
+G LAS + DG+VKLW L + LEGH V+ + F P G+ L
Sbjct: 119 S--PDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSE-SVTSLAFSPDGKLLASGSS 175
Query: 262 WDHS---WRLDT--PLANLEGHEPFRVSRIKFHPSGRF-LGTCCWDHSWRLWDLNQGQEV 315
D + W L T PL+ L GH VS + F P G + + D + RLWDL+ G+ +
Sbjct: 176 LDGTIKLWDLRTGKPLSTLAGHTDP-VSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLL 234
Query: 316 -LHQEGHGKPVYCMSFQGDGSVVATGGLDAFGRVWDLRTGR-CIMFLEGHLKSVFSVDFS 373
GH V SF DGS++A+G D R+WDLR+ + L GH SV SV FS
Sbjct: 235 RSTLSGHSDSV-VSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFS 293
Query: 374 PDGYHLATGSEDNAVKIWDLRKRRLLKWCTQLLP-NSIGVTSLLTDLYIDVLESLNPGIG 432
PDG LA+GS D V++WDL +LL T + S D + V + G
Sbjct: 294 PDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTI 353
Query: 433 NIISSALKEQVEPIPLLLDIQKLTFKFDSDLHA 465
+ + ++ + ++ ++F D + +
Sbjct: 354 RLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVS 386
Score = 126 bits (317), Expect = 7e-32
Identities = 96/268 (35%), Positives = 136/268 (50%), Gaps = 20/268 (7%)
Query: 139 LTSLSIYCSQVGDTRPISYCSFSPDSQ-HVATASWSGLCKLWTVPECELVQ-TFRGHDCN 196
L + + G T P+S +FSPD +A+ S G +LW + +L++ T GH +
Sbjct: 185 LRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHS-D 243
Query: 197 VGAIEFHPLPSEGAVCSLASCAQDGSVKLWSLDKD-TPLANLEGHEPFRVSRIKFHPSGR 255
F P S LAS + DG+++LW L + L L GH V + F P G+
Sbjct: 244 SVVSSFSPDGS-----LLASGSSDGTIRLWDLRSSSSLLRTLSGHS-SSVLSVAFSPDGK 297
Query: 256 FLGTCCWDHS---WRLDTP----LANLEGHEPFRVSRIKFHPSG-RFLGTCCWDHSWRLW 307
L + D + W L+T L+GHE VS + F P G + D + RLW
Sbjct: 298 LLASGSSDGTVRLWDLETGKLLSSLTLKGHE-GPVSSLSFSPDGSLLVSGGSDDGTIRLW 356
Query: 308 DLNQGQEVLHQEGHGKPVYCMSFQGDGSVVATGGLDAFGRVWDLRTGRCIMFLEGHLKSV 367
DL G+ + EGH V +SF DG VV++G D R+WDL TG + L+GH V
Sbjct: 357 DLRTGKPLKTLEGHS-NVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRV 415
Query: 368 FSVDFSPDGYHLATGSEDNAVKIWDLRK 395
S+DFSPDG LA+GS DN +++WDL+
Sbjct: 416 TSLDFSPDGKSLASGSSDNTIRLWDLKT 443
Score = 104 bits (259), Expect = 4e-24
Identities = 80/237 (33%), Positives = 112/237 (47%), Gaps = 25/237 (10%)
Query: 159 SFSPDSQHVATASWSGLCKLWTVPEC-ELVQTFRGHDCNVGAIEFHPLPSEGAVCSLASC 217
SFSPD +A+ S G +LW + L++T GH +V ++ F P LAS
Sbjct: 248 SFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGK-----LLASG 302
Query: 218 AQDGSVKLWSLD--KDTPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHS----WRLDTP 271
+ DG+V+LW L+ K L+GHE VS + F P G L + D W L T
Sbjct: 303 SSDGTVRLWDLETGKLLSSLTLKGHE-GPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTG 361
Query: 272 LANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRLWDLNQGQEVLHQEGHGKPVYCMSFQ 331
V + F P GR + + D + RLWDL+ G + + +GH V + F
Sbjct: 362 KPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFS 421
Query: 332 GDGSVVATGGLDAFGRVWDLRTGRCIMFLEGHLKSVFSVDFSPDGYHLATGSEDNAV 388
DG +A+G D R+WDL+T S+ SV FSPDG LA+ S D +V
Sbjct: 422 PDGKSLASGSSDNTIRLWDLKT------------SLKSVSFSPDGKVLASKSSDLSV 466
Score = 53.9 bits (128), Expect = 9e-08
Identities = 37/169 (21%), Positives = 60/169 (35%), Gaps = 9/169 (5%)
Query: 283 VSRIKFHPSGRFLGTCCWDHSWRLWDLNQGQEVLHQEGHGKPVYCMSFQGDGSVVATGGL 342
+ + SG L D L DL+ GH + ++F DG ++ +G
Sbjct: 30 LLSLGSSESGILLLALLSDSLVSLPDLSSLL----LRGHEDSITSIAFSPDGELLLSGSS 85
Query: 343 DAFGRVWDLRTGRCI--MFLEGHLKSVFSVDF-SPDGYHLAT--GSEDNAVKIWDLRKRR 397
D ++WDL G + H SV + SPDG + S D VK+WDL
Sbjct: 86 DGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPG 145
Query: 398 LLKWCTQLLPNSIGVTSLLTDLYIDVLESLNPGIGNIISSALKEQVEPI 446
L + S+ + D + S G + + + +
Sbjct: 146 KLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTL 194
Score = 32.8 bits (73), Expect = 0.39
Identities = 13/65 (20%), Positives = 28/65 (43%)
Query: 126 ATRTARNQELQKHLTSLSIYCSQVGDTRPISYCSFSPDSQHVATASWSGLCKLWTVPECE 185
++ + L++ S+ + G T ++ FSPD + +A+ S +LW +
Sbjct: 386 SSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSL 445
Query: 186 LVQTF 190
+F
Sbjct: 446 KSVSF 450
>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 = 56.2 bits (136), Expect = 9e-11
Identities = 20/40 (50%), Positives = 28/40 (70%)
Query: 353 TGRCIMFLEGHLKSVFSVDFSPDGYHLATGSEDNAVKIWD 392
+G + L+GH V SV FSPDG +LA+GS+D +K+WD
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 41.1 bits (97), Expect = 2e-05
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 270 TPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRLWD 308
L L+GH V+ + F P G++L + D + +LWD
Sbjct: 3 ELLKTLKGHT-GPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 38.4 bits (90), Expect = 2e-04
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 311 QGQEVLHQEGHGKPVYCMSFQGDGSVVATGGLDAFGRVWD 350
G+ + +GH PV ++F DG +A+G D ++WD
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 36.9 bits (86), Expect = 8e-04
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 150 GDTRPISYCSFSPDSQHVATASWSGLCKLW 179
G T P++ +FSPD +++A+ S G KLW
Sbjct: 10 GHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 36.5 bits (85), Expect = 8e-04
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 185 ELVQTFRGHDCNVGAIEFHPLPSEGAVCSLASCAQDGSVKLWS 227
EL++T +GH V ++ F P LAS + DG++KLW
Sbjct: 3 ELLKTLKGHTGPVTSVAFSPDGKY-----LASGSDDGTIKLWD 40
Score = 34.2 bits (79), Expect = 0.006
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 232 TPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRL 268
L L+GH V+ + F P G++L + D + +L
Sbjct: 3 ELLKTLKGHT-GPVTSVAFSPDGKYLASGSDDGTIKL 38
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 56.2 bits (136), Expect = 1e-10
Identities = 20/39 (51%), Positives = 27/39 (69%)
Query: 354 GRCIMFLEGHLKSVFSVDFSPDGYHLATGSEDNAVKIWD 392
G+ + L+GH V SV FSPDG LA+GS+D V++WD
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 40.8 bits (96), Expect = 3e-05
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 270 TPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRLWD 308
L L+GH V+ + F P G L + D + R+WD
Sbjct: 2 KLLRTLKGHT-GPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 39.6 bits (93), Expect = 7e-05
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 312 GQEVLHQEGHGKPVYCMSFQGDGSVVATGGLDAFGRVWD 350
G+ + +GH PV ++F DG+++A+G D RVWD
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 37.7 bits (88), Expect = 3e-04
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 150 GDTRPISYCSFSPDSQHVATASWSGLCKLW 179
G T P++ +FSPD +A+ S G ++W
Sbjct: 9 GHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 36.6 bits (85), Expect = 0.001
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 184 CELVQTFRGHDCNVGAIEFHPLPSEGAVCSLASCAQDGSVKLWS 227
+L++T +GH V ++ F P + LAS + DG+V++W
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNL-----LASGSDDGTVRVWD 39
Score = 33.9 bits (78), Expect = 0.009
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 232 TPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRL 268
L L+GH V+ + F P G L + D + R+
Sbjct: 2 KLLRTLKGHT-GPVTSVAFSPDGNLLASGSDDGTVRV 37
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 48.2 bits (114), Expect = 9e-06
Identities = 45/168 (26%), Positives = 80/168 (47%), Gaps = 15/168 (8%)
Query: 150 GDTRPISYCSFSPDSQHVATASWSGLCKLWTVPECELVQTFRGHDCNVGAIEFHPLPSEG 209
++ C S VA++++ G+ ++W V +LV + H+ V +I++ S
Sbjct: 531 SRSKLSGICWNSYIKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDY----SSA 586
Query: 210 AVCSLASCAQDGSVKLWSLDKDTPLANLEGHEPFRVSRIKF-HPSGRFLGTCCWDHS-WR 267
LAS + DGSVKLWS+++ + ++ + ++F SGR L DH +
Sbjct: 587 DPTLLASGSDDGSVKLWSINQGVSIGTIKTKA--NICCVQFPSESGRSLAFGSADHKVYY 644
Query: 268 LD-----TPLANLEGHEPFRVSRIKFHPSGRFLGTCCWDHSWRLWDLN 310
D PL + GH VS ++F S + + D++ +LWDL+
Sbjct: 645 YDLRNPKLPLCTMIGHSK-TVSYVRFVDSSTLVSSST-DNTLKLWDLS 690
Score = 40.5 bits (94), Expect = 0.002
Identities = 33/97 (34%), Positives = 47/97 (48%), Gaps = 8/97 (8%)
Query: 301 DHSWRLWDLNQGQEVLHQEGHGKPVYCMSFQGD-GSVVATGGLDAFGRVWDLRTGR---C 356
D S +LW +NQG + + + C+ F + G +A G D +DLR + C
Sbjct: 597 DGSVKLWSINQGVSIGTIKTKAN-ICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLC 655
Query: 357 IMFLEGHLKSVFSVDFSPDGYHLATGSEDNAVKIWDL 393
M GH K+V V F D L + S DN +K+WDL
Sbjct: 656 TMI--GHSKTVSYVRFV-DSSTLVSSSTDNTLKLWDL 689
Score = 40.5 bits (94), Expect = 0.002
Identities = 21/62 (33%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 335 SVVATGGLDAFGRVWDLRTGRCIMFLEGHLKSVFSVDF-SPDGYHLATGSEDNAVKIWDL 393
S VA+ + +VWD+ + + ++ H K V+S+D+ S D LA+GS+D +VK+W +
Sbjct: 546 SQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSI 605
Query: 394 RK 395
+
Sbjct: 606 NQ 607
Score = 39.7 bits (92), Expect = 0.003
Identities = 31/106 (29%), Positives = 54/106 (50%), Gaps = 10/106 (9%)
Query: 305 RLWDLNQGQEVLHQEGHGKPVYCMSF-QGDGSVVATGGLDAFGRVWDLRTGRCIMFLEGH 363
++WD+ + Q V + H K V+ + + D +++A+G D ++W + G I G
Sbjct: 558 QVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSI----GT 613
Query: 364 LKS---VFSVDFSPD-GYHLATGSEDNAVKIWDLRKRRLLKWCTQL 405
+K+ + V F + G LA GS D+ V +DLR + L CT +
Sbjct: 614 IKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPK-LPLCTMI 658
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 45.7 bits (108), Expect = 4e-05
Identities = 27/87 (31%), Positives = 46/87 (52%), Gaps = 1/87 (1%)
Query: 310 NQGQEVLHQEGHGKPVYCMSFQGDG-SVVATGGLDAFGRVWDLRTGRCIMFLEGHLKSVF 368
N ++H +GH K V +SF +V+A+ G D VWD+ G+ + ++ H +
Sbjct: 113 NISDPIVHLQGHTKKVGIVSFHPSAMNVLASAGADMVVNVWDVERGKAVEVIKCHSDQIT 172
Query: 369 SVDFSPDGYHLATGSEDNAVKIWDLRK 395
S++++ DG L T S+D + I D R
Sbjct: 173 SLEWNLDGSLLCTTSKDKKLNIIDPRD 199
Score = 42.2 bits (99), Expect = 5e-04
Identities = 39/150 (26%), Positives = 66/150 (44%), Gaps = 18/150 (12%)
Query: 149 VGDTRPISYCSFSP-DSQHVATASWSGLCKLWTVPECELVQT-------FRGHDCNVGAI 200
+G PI +F+P D Q + TAS G W +PE L Q +GH VG +
Sbjct: 72 LGQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIV 131
Query: 201 EFHPLPSEGAVCSLASCAQDGSVKLWSLDKDTPLANLEGHEPFRVSRIKFHPSGRFLGTC 260
FHP A+ LAS D V +W +++ + ++ H ++ ++++ G L T
Sbjct: 132 SFHP----SAMNVLASAGADMVVNVWDVERGKAVEVIKCHSDQ-ITSLEWNLDGSLLCTT 186
Query: 261 CWDHSWRLDTP-----LANLEGHEPFRVSR 285
D + P ++++E H + R
Sbjct: 187 SKDKKLNIIDPRDGTIVSSVEAHASAKSQR 216
Score = 35.3 bits (81), Expect = 0.061
Identities = 32/139 (23%), Positives = 58/139 (41%), Gaps = 23/139 (16%)
Query: 271 PLANLEGHEPFRVSRIKFHPSGR-FLGTCCWDHSWRLWDLNQGQEVLHQEGHGKPVYCMS 329
P+ +L+GH +V + FHPS L + D +WD+ +G+ V + H + +
Sbjct: 117 PIVHLQGHTK-KVGIVSFHPSAMNVLASAGADMVVNVWDVERGKAVEVIKCHSDQITSLE 175
Query: 330 FQGDGSVVATGGLDAFGRVWDLRTGRCIMFLEGHLKS-------------VFSVDFSPDG 376
+ DGS++ T D + D R G + +E H + + ++ S
Sbjct: 176 WNLDGSLLCTTSKDKKLNIIDPRDGTIVSSVEAHASAKSQRCLWAKRKDLIITLGCSK-- 233
Query: 377 YHLATGSEDNAVKIWDLRK 395
S+ + +WD RK
Sbjct: 234 ------SQQRQIMLWDTRK 246
>gnl|CDD|128776 smart00500, SFM, Splicing Factor Motif, present in Prp18 and Pr04.
Length = 44
Score = 40.4 bits (95), Expect = 4e-05
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 82 TDDNQVKLNLRQLGEPICLFGEEYSLAKAKERLAK 116
D++V LR+LGEPI LFGE + ++RL +
Sbjct: 1 LPDSEVIRRLRELGEPITLFGE--DDQERRQRLRQ 33
>gnl|CDD|204069 pfam08799, PRP4, pre-mRNA processing factor 4 (PRP4) like. This
small domain is found on PRP4 ribonuleoproteins. PRP4 is
a U4/U6 small nuclear ribonucleoprotein that is involved
in pre-mRNA processing.
Length = 30
Score = 39.3 bits (93), Expect = 9e-05
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 87 VKLNLRQLGEPICLFGE 103
V LR+LGEPI LFGE
Sbjct: 1 VIRRLRELGEPITLFGE 17
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 38.4 bits (89), Expect = 0.008
Identities = 25/95 (26%), Positives = 46/95 (48%), Gaps = 14/95 (14%)
Query: 315 VLHQEGHGKPVYCMSFQGDGS-VVATGGLDAFGRVWDLRTG----------RCIMFLEGH 363
V+ +GH + + F S ++A+G D RVW++ +CI L+GH
Sbjct: 67 VIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHNDESVKEIKDPQCI--LKGH 124
Query: 364 LKSVFSVDFSPDGYH-LATGSEDNAVKIWDLRKRR 397
K + +D++P Y+ + + D+ V IWD+ +
Sbjct: 125 KKKISIIDWNPMNYYIMCSSGFDSFVNIWDIENEK 159
Score = 37.6 bits (87), Expect = 0.014
Identities = 41/189 (21%), Positives = 83/189 (43%), Gaps = 30/189 (15%)
Query: 187 VQTFRGHDCNVGAIEFHPLPSEGAVCSLASCAQDGSVKLWSLD---------KDTPLANL 237
V +GH ++ ++F+P SE LAS ++D ++++W + KD P L
Sbjct: 67 VIKLKGHTSSILDLQFNPCFSE----ILASGSEDLTIRVWEIPHNDESVKEIKD-PQCIL 121
Query: 238 EGHEPFRVSRIKFHPSGRF-LGTCCWDHS---WRLDTPLANLEGHEPFRVSRIKFHPSGR 293
+GH+ ++S I ++P + + + +D W ++ + + P ++S +K++ G
Sbjct: 122 KGHKK-KISIIDWNPMNYYIMCSSGFDSFVNIWDIENEKRAFQINMPKKLSSLKWNIKGN 180
Query: 294 FLGTCCWDHSWRLWDLNQGQEV---LHQEGHGKPVYCM---SFQGDGSVVATGGLDAFG- 346
L C + D + QE+ H GK + GD + + + G
Sbjct: 181 LLSGTCVGKHMHIIDPRK-QEIASSFHIHDGGKNTKNIWIDGLGGDDNYILSTGFSKNNM 239
Query: 347 ---RVWDLR 352
++WDL+
Sbjct: 240 REMKLWDLK 248
>gnl|CDD|220625 pfam10191, COG7, Golgi complex component 7 (COG7). COG7 is a
component of the conserved oligomeric Golgi complex
which is required for normal Golgi morphology and
localisation. Mutation in COG7 causes a congenital
disorder of glycosylation.
Length = 768
Score = 36.7 bits (85), Expect = 0.029
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 399 LKWCTQLLPNSIGVTSLLTDLYIDVLESLNPGIGNIISSALKEQVEPIPL--LLDIQKLT 456
LKWC+Q+ P ++T L ++ L +L P + ++ ALK V L LL++ +T
Sbjct: 270 LKWCSQVFPEP---YEVVTVLLVETLGALVPSRPSCVNLALKRAVPETRLEALLELHNVT 326
Query: 457 FKFDSDLHAMVLNQ 470
F +L ++L
Sbjct: 327 GSFARNLEHLLLEG 340
>gnl|CDD|216589 pfam01588, tRNA_bind, Putative tRNA binding domain. This domain is
found in prokaryotic methionyl-tRNA synthetases,
prokaryotic phenylalanyl tRNA synthetases the yeast GU4
nucleic-binding protein (G4p1 or p42, ARC1), human
tyrosyl-tRNA synthetase, and endothelial-monocyte
activating polypeptide II. G4p1 binds specifically to
tRNA form a complex with methionyl-tRNA synthetases. In
human tyrosyl-tRNA synthetase this domain may direct
tRNA to the active site of the enzyme. This domain may
perform a common function in tRNA aminoacylation.
Length = 95
Score = 31.8 bits (73), Expect = 0.16
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 195 CNVGAIEFHPLPSEGAVCSLASCAQDGSVKLWSLDKDTPL 234
N+ + + SEG + S A GSV L D P
Sbjct: 54 ANLKPAKLRGVESEGMILS-AEELDGGSVGLLEPPGDVPP 92
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 34.3 bits (79), Expect = 0.17
Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 2/93 (2%)
Query: 36 DDDQEKYTNVHTSNVYMEIDDEMAKDKQALLQEFERRKKARHVNVSTDDNQVKLNLRQLG 95
DDD++K++ + ++ + + + + K+A E K N+ ++ KL L L
Sbjct: 12 DDDEDKHSKLLSAISSLGGEKKKDEKKKADR--SEESGKESEFNLPSEGAGGKLTLSDLL 69
Query: 96 EPICLFGEEYSLAKAKERLAKAKEHLHIPEATR 128
I K ++++K K+ L P A R
Sbjct: 70 GSIQDSSSLKKSLKQLDKISKKKKTLEAPLAKR 102
>gnl|CDD|217835 pfam03999, MAP65_ASE1, Microtubule associated protein (MAP65/ASE1
family).
Length = 619
Score = 34.1 bits (78), Expect = 0.19
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 12/119 (10%)
Query: 42 YTNVHTSNVYMEIDDEMAKDKQALLQEFER-RKKARHVNVSTDDNQVKLNLRQLGEPICL 100
+H S+ ++ +E + KQA+L++ R + + ++ Q N EP+ L
Sbjct: 8 DIKIHYSSFEKDLKEESSTKKQAILKDIAVLRAEIKRLSAENGIEQDISNSLLHKEPLQL 67
Query: 101 FGEEYSLAKAK--------ERLAKAKEHLHIPEATRTARNQELQKHLTSLSIYCSQVGD 151
E+ L + K +L E L +A R A +EL L L C+++G+
Sbjct: 68 LSEKDILQRPKSFPLGVWLLKLRDQLESLRKQKAERRAEIKELLHQLLQL---CNELGE 123
>gnl|CDD|239849 cd04384, RhoGAP_CdGAP, RhoGAP_CdGAP: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
CdGAP-like proteins; CdGAP contains an N-terminal RhoGAP
domain and a C-terminal proline-rich region, and it is
active on both Cdc42 and Rac1 but not RhoA. CdGAP is
recruited to focal adhesions via the interaction with
the scaffold protein actopaxin (alpha-parvin). Small
GTPases cluster into distinct families, and all act as
molecular switches, active in their GTP-bound form but
inactive when GDP-bound. The Rho family of GTPases
activates effectors involved in a wide variety of
developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 195
Score = 32.9 bits (75), Expect = 0.24
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 10/71 (14%)
Query: 88 KLNLRQLGEPICL------FGEEYSLAKAKERLAKAKEHL-HIPEA-TRTARNQELQKHL 139
KL R+L P+ F E S A +ERL K + + +P RT + L +HL
Sbjct: 80 KLYFRELPNPLLTYQLYEKFSEAVSAASDEERLEKIHDVIQQLPPPHYRTL--EFLMRHL 137
Query: 140 TSLSIYCSQVG 150
+ L+ YCS
Sbjct: 138 SRLAKYCSITN 148
>gnl|CDD|234019 TIGR02800, propeller_TolB, tol-pal system beta propeller repeat
protein TolB. Members of this protein family are the
TolB periplasmic protein of Gram-negative bacteria. TolB
is part of the Tol-Pal (peptidoglycan-associated
lipoprotein) multiprotein complex, comprising five
envelope proteins, TolQ, TolR, TolA, TolB and Pal, which
form two complexes. The TolQ, TolR and TolA
inner-membrane proteins interact via their transmembrane
domains. The {beta}-propeller domain of the periplasmic
protein TolB is responsible for its interaction with
Pal. TolB also interacts with the outer-membrane
peptidoglycan-associated proteins Lpp and OmpA. TolA
undergoes a conformational change in response to changes
in the proton-motive force, and interacts with Pal in an
energy-dependent manner. The C-terminal periplasmic
domain of TolA also interacts with the N-terminal domain
of TolB. The Tol-PAL system is required for bacterial
outer membrane integrity. E. coli TolB is involved in
the tonB-independent uptake of group A colicins
(colicins A, E1, E2, E3 and K), and is necessary for the
colicins to reach their respective targets after initial
binding to the bacteria. It is also involved in uptake
of filamentous DNA. Study of its structure suggest that
the TolB protein might be involved in the recycling of
peptidoglycan or in its covalent linking with
lipoproteins. The Tol-Pal system is also implicated in
pathogenesis of E. coli, Haemophilus ducreyi ,
Salmonella enterica and Vibrio cholerae, but the
mechanism(s) is unclear [Transport and binding proteins,
Other, Cellular processes, Pathogenesis].
Length = 417
Score = 32.6 bits (75), Expect = 0.47
Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 14/55 (25%)
Query: 328 MSFQGDGSVVATGGLDAFGRVWDLRTGR--CIMFLEGHLKSVFSVDFSPDGYHLA 380
+SF+ + V DL TG+ + G + FSPDG LA
Sbjct: 207 VSFESGKPEI---------YVQDLATGQREKVASFPGM---NGAPAFSPDGSKLA 249
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1); Provisional.
Length = 1466
Score = 32.7 bits (74), Expect = 0.48
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 26 RKRLAANKDVDDDQEKYTNVHTSNVYMEIDDEMAKDKQALLQE 68
R RL ANKDV ++K N + DDE+ KD L+QE
Sbjct: 988 RARLTANKDV---EKKEINQPGTVFAYNSDDEIFKDPSFLIQE 1027
>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin. Trichoplein
or mitostatin, was first defined as a meiosis-specific
nuclear structural protein. It has since been linked
with mitochondrial movement. It is associated with the
mitochondrial outer membrane, and over-expression leads
to reduction in mitochondrial motility whereas lack of
it enhances mitochondrial movement. The activity appears
to be mediated through binding the mitochondria to the
actin intermediate filaments (IFs).
Length = 349
Score = 31.8 bits (73), Expect = 0.81
Identities = 16/88 (18%), Positives = 33/88 (37%), Gaps = 11/88 (12%)
Query: 52 MEIDDEMAKDKQALLQEFERRKKARHVNVSTDDNQVKLNLRQLGEPICLFGEEYSLAKAK 111
ID+ M +++ L E E R++ R + + L E I EE + +
Sbjct: 41 RRIDEMMEEERLKALAEEEERERKRKE-------ERREGRAVLQEQI----EEREKRRQE 89
Query: 112 ERLAKAKEHLHIPEATRTARNQELQKHL 139
E + +E + E + ++ +
Sbjct: 90 EYEERLQEREQMDEIIERIQEEDEAEAQ 117
>gnl|CDD|227731 COG5444, COG5444, Uncharacterized conserved protein [Function
unknown].
Length = 565
Score = 31.7 bits (72), Expect = 0.89
Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 8/83 (9%)
Query: 17 HYGS-LEEQERKRLAANKDVDD--DQEKYTNVHTSNVYMEIDD--EMAKDKQALLQEFER 71
Y +EEQ++ DV D K T + E+D + AKD L + ++
Sbjct: 111 RYEEIMEEQKKAIKDILSDVSHILDLGKLD---TEDFKDEVDSARKHAKDTLEKLYKLDQ 167
Query: 72 RKKARHVNVSTDDNQVKLNLRQL 94
V + ++K +RQL
Sbjct: 168 EGMTLMAAVESKMQELKAIIRQL 190
>gnl|CDD|237721 PRK14466, PRK14466, ribosomal RNA large subunit methyltransferase
N; Provisional.
Length = 345
Score = 31.3 bits (71), Expect = 1.0
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 185 ELVQTFRGHDCNVGAIEFHPLP 206
ELV+ RG DC V I FH +P
Sbjct: 270 ELVKLLRGIDCRVNLIRFHAIP 291
>gnl|CDD|149648 pfam08662, eIF2A, Eukaryotic translation initiation factor eIF2A.
This is a family of eukaryotic translation initiation
factors.
Length = 194
Score = 30.7 bits (70), Expect = 1.1
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 334 GSVVATGGLDAFG------RVWDLRTGRCIMFLEGHLKSVFSVDFSPDGYHLATGSE--- 384
G +V G FG WD++ + I E + ++SPDG + T +
Sbjct: 112 GRLVLLAG---FGNLAGQIEFWDVKNKKKIATAE-ASNAT-DCEWSPDGRYFLTATTSPR 166
Query: 385 ---DNAVKIW 391
DN KIW
Sbjct: 167 LRVDNGFKIW 176
Score = 28.4 bits (64), Expect = 7.3
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 156 SYCSFSPDSQHVATAS 171
+ C +SPD ++ TA+
Sbjct: 147 TDCEWSPDGRYFLTAT 162
>gnl|CDD|220366 pfam09728, Taxilin, Myosin-like coiled-coil protein. Taxilin
contains an extraordinarily long coiled-coil domain in
its C-terminal half and is ubiquitously expressed. It is
a novel binding partner of several syntaxin family
members and is possibly involved in Ca2+-dependent
exocytosis in neuroendocrine cells. Gamma-taxilin,
described as leucine zipper protein Factor Inhibiting
ATF4-mediated Transcription (FIAT), localises to the
nucleus in osteoblasts and dimerises with ATF4 to form
inactive dimers, thus inhibiting ATF4-mediated
transcription.
Length = 309
Score = 29.7 bits (67), Expect = 3.0
Identities = 24/105 (22%), Positives = 53/105 (50%), Gaps = 13/105 (12%)
Query: 22 EEQERKRLAAN-----KDVDDDQEKYTNVHTSNVYMEIDDEMAKDKQALLQEFERRKKAR 76
EE++RK L KD+ D E+++N ++ E ++E+ + + L++++E R++
Sbjct: 101 EEEKRKELTEKFQSTLKDIQDQMEEHSN--PNHKLCEENEELREKLKELIEQYELREQHF 158
Query: 77 HVNVSTDDNQVKLNLRQLGEPICLFGEEYSLAKAKERLAKAKEHL 121
+ T D + +LN +L + + + +E+ + KE L
Sbjct: 159 EKLLKTKDLEQQLNDAKLEQ------AQEQAEQEQEKHKREKEIL 197
>gnl|CDD|215849 pfam00307, CH, Calponin homology (CH) domain. The CH domain is
found in both cytoskeletal proteins and signal
transduction proteins. The CH domain is involved in
actin binding in some members of the family. However in
calponins there is evidence that the CH domain is not
involved in its actin binding activity. Most member
proteins have from two to four copies of the CH domain,
however some proteins such as calponin have only a
single copy.
Length = 104
Score = 28.0 bits (63), Expect = 3.6
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 7/44 (15%)
Query: 395 KRRLLKWCTQLL--PNSIGVTSLLTDL-----YIDVLESLNPGI 431
++ LL+W ++L + VT+ DL +L L PG+
Sbjct: 1 EKALLRWINEVLGEYGGLPVTNFFEDLRDGLALCALLNKLRPGL 44
>gnl|CDD|163133 TIGR03090, SASP_tlp, small, acid-soluble spore protein tlp. This
protein family is restricted to a subset of
endospore-forming bacteria such as Bacillus subtilis,
all of which are in the Firmicutes (low-GC
Gram-positive) lineage. Although previously designated
tlp (thioredoxin-like protein), the B. subtilis protein
was shown to be a minor small acid-soluble spore
protein SASP, unique to spores. The motif E[VIL]XDE
near the C-terminus probably represents at a
germination protease cleavage site [Cellular processes,
Sporulation and germination].
Length = 70
Score = 27.5 bits (61), Expect = 3.6
Identities = 10/33 (30%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 44 NVHTSNVYMEIDDEM-AKDKQALLQEFERRKKA 75
N+ +N Y+E E+ ++KQ + ++ ERR+++
Sbjct: 23 NMEEANEYIEAHAELSEEEKQRIEEKNERREQS 55
>gnl|CDD|239874 cd04409, RhoGAP_PARG1, RhoGAP_PARG1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
PARG1 (PTPL1-associated RhoGAP1). PARG1 was originally
cloned as an interaction partner of PTPL1, an
intracellular protein-tyrosine phosphatase. PARG1
interacts with Rap2, also a member of the Ras small
GTPase superfamily whose exact function is unknown, and
shows strong preference for Rho. Small GTPases cluster
into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 211
Score = 29.0 bits (65), Expect = 4.4
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 85 NQVKLNLRQLGEPICLFGEEYSLAKAKERLAKAKEHLHIPEATRTARNQE 134
N +KL LRQL EP+ LF Y E + AKE H+ E +N +
Sbjct: 73 NVLKLYLRQLPEPLILF-RLY-----NEFIGLAKESQHVNETQEAKKNSD 116
>gnl|CDD|227615 COG5296, COG5296, Transcription factor involved in TATA site
selection and in elongation by RNA polymerase II
[Transcription].
Length = 521
Score = 29.2 bits (65), Expect = 5.0
Identities = 20/97 (20%), Positives = 39/97 (40%), Gaps = 1/97 (1%)
Query: 24 QERKRLAANKDVDDDQEKYTNVHTSNVYMEIDDEMAKDKQALLQEFERR-KKARHVNVST 82
ER+ LA + T+ S Y + + K+ LL+ + R ++ R +
Sbjct: 107 MERRELAIRMEQQHRSSGCTDTRRSTRYEPLTSAAEEKKKKLLELKKTREREERLYSERH 166
Query: 83 DDNQVKLNLRQLGEPICLFGEEYSLAKAKERLAKAKE 119
+ Q + ++L E EEY+ + A+E +
Sbjct: 167 IELQRFKDYKELEESEQGLQEEYTPSYAEEAVEDISR 203
>gnl|CDD|213395 cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta,
and epsilon subunits with a stoichiometry of 3:3:1:1:1.
Alpha and beta subunit form the globular catalytic
moiety, a hexameric ring of alternating subunits. Gamma,
delta and epsilon subunits form a stalk, connecting F1
to F0, the integral membrane proton translocating
domain. In bacteria, which is lacking a eukaryotic
epsilon subunit homolog, this subunit is called the
epsilon subunit.
Length = 123
Score = 27.9 bits (63), Expect = 6.2
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 99 CLFGEEYSLAKAKERLAKAKEHLHIPEATRTAR--NQELQKHL 139
E+ + +A+E L +A+E L + R L++ L
Sbjct: 80 AERPEDIDVERAEEALERAEERLAQAKDEREKARAEAALERAL 122
>gnl|CDD|185063 PRK15108, PRK15108, biotin synthase; Provisional.
Length = 345
Score = 28.6 bits (64), Expect = 7.2
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 19 GSLEEQERKRLAA------NKDVDDDQEKYTNVHTSNVYMEIDDEMAKDKQA 64
G+L E + +RLA N ++D E Y N+ T+ Y E D + K + A
Sbjct: 132 GTLSESQAQRLANAGLDYYNHNLDTSPEFYGNIITTRTYQERLDTLEKVRDA 183
>gnl|CDD|232843 TIGR00133, gatB, aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase,
B subunit. The heterotrimer GatABC is responsible for
transferring the NH2 group that converts Glu to Gln, or
Asp to Asn after the Glu or Asp has been ligated to the
tRNA for Gln or Asn, respectively. In Lactobacillus,
GatABC is responsible only for tRNA(Gln). In the
Archaea, GatABC is responsible only for tRNA(Asn), while
GatDE is responsible for tRNA(Gln). In lineages that
include Thermus, Chlamydia, or Acidithiobacillus, the
GatABC complex catalyzes both [Protein synthesis, tRNA
aminoacylation].
Length = 478
Score = 28.5 bits (64), Expect = 7.6
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 50 VYMEIDDEMAKDKQALLQEFERRKKARHV---NVSTDDNQV 87
+ ID+ + K+ L E K+ R +S D +V
Sbjct: 281 PPINIDELLVKEVAGKLPELPSAKRIRLKKEYGLSEQDAKV 321
>gnl|CDD|215558 PLN03073, PLN03073, ABC transporter F family; Provisional.
Length = 718
Score = 28.7 bits (64), Expect = 7.8
Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 8/83 (9%)
Query: 100 LFGEEYSLAKAKERL--------AKAKEHLHIPEATRTARNQELQKHLTSLSIYCSQVGD 151
L EE L + L K + + + R +E+ K L + Y ++
Sbjct: 265 LLEEEAQLVAQQRELEFETETGKGKGANKDGVDKDAVSQRLEEIYKRLELIDAYTAEARA 324
Query: 152 TRPISYCSFSPDSQHVATASWSG 174
++ SF+P+ Q AT ++SG
Sbjct: 325 ASILAGLSFTPEMQVKATKTFSG 347
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 28.9 bits (65), Expect = 8.4
Identities = 21/98 (21%), Positives = 36/98 (36%), Gaps = 17/98 (17%)
Query: 21 LEEQERKRLAANKDVDDDQEKYTNVHTSNVYMEIDDEMAKDKQALLQEFERRKKA----- 75
+++QE K D+ +++ + Y ++ E+ Q L E E + +A
Sbjct: 450 IKKQEWKLEQLAADLSKYEQELYD--LKEEYDRVEKEL-SKLQRELAEAEAQARASEERV 506
Query: 76 ----RHVNVSTDDNQ-VKLNLRQLGEPICLFGEEYSLA 108
V Q V + QLG GE Y+ A
Sbjct: 507 RGGRAVEEVLKASIQGVHGTVAQLGS----VGERYATA 540
>gnl|CDD|153316 cd07632, BAR_APPL2, The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor
protein, Phosphotyrosine interaction, PH domain and
Leucine zipper containing 2. BAR domains are
dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions. Adaptor protein, Phosphotyrosine interaction,
PH domain and Leucine zipper containing (APPL) proteins
are effectors of the small GTPase Rab5 that function in
endosome-mediated signaling. They contain BAR,
pleckstrin homology (PH) and phosphotyrosine binding
(PTB) domains. They form homo- and hetero-oligomers that
are mediated by their BAR domains. Vertebrates contain
two APPL proteins, APPL1 and APPL2. Both APPL proteins
interact with the transcriptional repressor Reptin,
acting as activators of beta-catenin/TCF-mediated
trancription. APPL2 is essential for cell proliferation.
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 215
Score = 28.1 bits (62), Expect = 8.6
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 5/53 (9%)
Query: 100 LFG---EEYSLAKAK-ERLAKAKEH-LHIPEATRTARNQELQKHLTSLSIYCS 147
LFG E+ L+ AK RL K +E+ E + ++HL+SL YC+
Sbjct: 113 LFGIASNEHDLSMAKYSRLPKKRENEKVKAEVAKEVAYSRRKQHLSSLQYYCA 165
>gnl|CDD|235471 PRK05446, PRK05446, imidazole glycerol-phosphate
dehydratase/histidinol phosphatase; Provisional.
Length = 354
Score = 28.2 bits (64), Expect = 8.7
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 17/54 (31%)
Query: 417 TDLYIDVLESLNPGIGNIISSALKEQVEPIPLLLDIQKLTFKFDSDLHAMVLNQ 470
TD +D L+ L A + V IP LL +QK +K MV NQ
Sbjct: 19 TDFQVDSLDKL----------AFEPGV--IPALLKLQKAGYKL-----VMVTNQ 55
>gnl|CDD|132840 cd07201, cPLA2_Grp-IVB-IVD-IVE-IVF, Group IVB, IVD, IVE, and IVF
cytosolic phospholipase A2; catalytic domain;
Ca-dependent. Group IVB, IVD, IVE, and IVF cPLA2
consists of two domains: the regulatory C2 domain and
alpha/beta hydrolase PLA2 domain. Group IVB, IVD, IVE,
and IVF cPLA2 are also referred to as cPLA2-beta,
-delta, -epsilon, and -zeta respectively. cPLA2-beta is
approximately 30% identical to cPLA2-alpha and it shows
low enzymatic activity compared to cPLA2alpha.
cPLA2-beta hydrolyzes palmitic acid from
1-[14C]palmitoyl-2-arachidonoyl-PC and arachidonic acid
from 1-palmitoyl-2[14C]arachidonoyl-PC, but not from
1-O-alkyl-2[3H]arachidonoyl-PC. cPLA2-delta, -epsilon,
and -zeta are approximately 45-50% identical to
cPLA2-beta and 31-37% identical to cPLA2-alpha. It's
possible that cPLA2-beta, -delta, -epsilon, and -zeta
may have arisen by gene duplication from an ancestral
gene. The catalytic domain of cytosolic phospholipase A2
(PLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bond
of phospholipids to release arachidonic acid. At the
active site, cPLA2 contains a serine nucleophile through
which the catalytic mechanism is initiated. The active
site is partially covered by a solvent-accessible
flexible lid. cPLA2 displays interfacial activation as
it exists in both "closed lid" and "open lid" forms.
Movement of the cPLA2 lid possibly exposes a greater
hydrophobic surface and the active site. cPLA2 belongs
to the alpha-beta hydrolase family which is identified
by a characteristic nucleophile elbow with a consensus
sequence of Sm-X-Nu-Sm (Sm = small residue, X = any
residue and Nu = nucleophile). Calcium is required for
cPLA2 to bind with membranes or phospholipids. The
calcium-dependent phospholipid binding domain resides in
the N-terminal region of cPLA2; it is homologous to the
C2 domain superfamily which is not included in this
hierarchy. It includes PLA2G4B, PLA2G4D, PLA2G4E, and
PLA2G4F from humans.
Length = 541
Score = 28.5 bits (64), Expect = 9.0
Identities = 15/29 (51%), Positives = 21/29 (72%), Gaps = 1/29 (3%)
Query: 357 IMFLEGHLKSVFSVDFSPDGYHLATGSED 385
I FL+G S+FS++ D ++LATGSED
Sbjct: 251 ICFLQGMWSSIFSLNLL-DAWYLATGSED 278
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 0.135 0.425
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,849,405
Number of extensions: 2272456
Number of successful extensions: 2168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2088
Number of HSP's successfully gapped: 69
Length of query: 471
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 371
Effective length of database: 6,502,202
Effective search space: 2412316942
Effective search space used: 2412316942
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: 61 (27.3 bits)