RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13076
(423 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 = 186 bits (474), Expect = 5e-56
Identities = 86/300 (28%), Positives = 144/300 (48%), Gaps = 15/300 (5%)
Query: 124 SDIYTEHSCAVNVAKYSPSGFYIASGDISGKVRIWDTVNKEHILKNEFHPIGGPIKDIAW 183
H+ V +SP G +A+G G +++WD E + + H GP++D+A
Sbjct: 2 RRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHT--GPVRDVAA 59
Query: 184 SPDNQRMVVVGEGRERFGHVFMSETGTSVGEISGQSKPINSCDFKPSRPFRIITGSEDNT 243
S D + ++ ++ ETG V ++G + ++S F P + + S D T
Sbjct: 60 SADGTYLASGSS--DKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRI-LSSSSRDKT 116
Query: 244 IAVFEGPPFKFKMTKQEHSRFVQAVRYSPSGSHFASAGFDGKVFLYDGASADLVSELGNP 303
I V++ K T + H+ +V +V +SP G+ AS+ DG + L+D + V+ L
Sbjct: 117 IKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATL--T 174
Query: 304 AHKGGVYAVAWKPDGTQLLTASGDKTCKLWDIETKSAVSEFLMGNQVEDQQVSCLW---Q 360
H G V +VA+ PDG +LL++S D T KLWD+ T + + + V+ +
Sbjct: 175 GHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTL----RGHENGVNSVAFSPD 230
Query: 361 GDYLLTVSLSGFISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWN 420
G L + S G I D+ ++ + GH +T+LA SPD + +GS DG I W+
Sbjct: 231 GYLLASGSEDGTIRVWDLRTGE-CVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 149 bits (379), Expect = 4e-42
Identities = 76/320 (23%), Positives = 126/320 (39%), Gaps = 50/320 (15%)
Query: 15 QGDYLLTVSLSGFISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRW 74
G L T S G I D+ +R +KGH P+ +A S D + +GS D I W
Sbjct: 20 DGKLLATGSGDGTIKVWDLETG-ELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLW 78
Query: 75 NAKTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNGNSVIIRNIENPAISDIYTEHSCAV 134
+ +T T T H+ V
Sbjct: 79 DLETGECVRT------------------------------------------LTGHTSYV 96
Query: 135 NVAKYSPSGFYIASGDISGKVRIWDTVNKEHILKNEFHPIGGPIKDIAWSPDNQRMVVVG 194
+ +SP G ++S +++WD + + +A+SPD V
Sbjct: 97 SSVAFSPDGRILSSSSRDKTIKVWDVETGK--CLTTLRGHTDWVNSVAFSPDGT--FVAS 152
Query: 195 EGRERFGHVFMSETGTSVGEISGQSKPINSCDFKPSRPFRIITGSEDNTIAVFEGPPFKF 254
++ ++ TG V ++G + +NS F P ++++ S D TI +++ K
Sbjct: 153 SSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDG-EKLLSSSSDGTIKLWDLSTGKC 211
Query: 255 KMTKQEHSRFVQAVRYSPSGSHFASAGFDGKVFLYDGASADLVSELGNPAHKGGVYAVAW 314
T + H V +V +SP G AS DG + ++D + + V L H V ++AW
Sbjct: 212 LGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTL--SGHTNSVTSLAW 269
Query: 315 KPDGTQLLTASGDKTCKLWD 334
PDG +L + S D T ++WD
Sbjct: 270 SPDGKRLASGSADGTIRIWD 289
Score = 136 bits (344), Expect = 5e-37
Identities = 59/215 (27%), Positives = 96/215 (44%), Gaps = 9/215 (4%)
Query: 211 SVGEISGQSKPINSCDFKPSRPFRIITGSEDNTIAVFEGPPFKFKMTKQEHSRFVQAVRY 270
+ G + + F P + TGS D TI V++ + T + H+ V+ V
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKL-LATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAA 59
Query: 271 SPSGSHFASAGFDGKVFLYDGASADLVSELGNPAHKGGVYAVAWKPDGTQLLTASGDKTC 330
S G++ AS D + L+D + + V L H V +VA+ PDG L ++S DKT
Sbjct: 60 SADGTYLASGSSDKTIRLWDLETGECVRTLT--GHTSYVSSVAFSPDGRILSSSSRDKTI 117
Query: 331 KLWDIETKSAVSEFLMGNQVEDQQVSCLWQGD--YLLTVSLSGFISYLDVNNPSTPIRVI 388
K+WD+ET ++ D S + D ++ + S G I D+ + +
Sbjct: 118 KVWDVETGKCLTTL---RGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGK-CVATL 173
Query: 389 KGHNKPITALALSPDRGTVFTGSHDGFITRWNAKT 423
GH + ++A SPD + + S DG I W+ T
Sbjct: 174 TGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLST 208
Score = 85.5 bits (212), Expect = 1e-18
Identities = 49/188 (26%), Positives = 78/188 (41%), Gaps = 7/188 (3%)
Query: 10 VSCLWQGDYLLTVSLSGFISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFTGSHDG 69
V+ G L + S I DV + ++GH + ++A SPD V + S DG
Sbjct: 99 VAFSPDGRILSSSSRDKTIKVWDVETG-KCLTTLRGHTDWVNSVAFSPDGTFVASSSQDG 157
Query: 70 FITRWNAKTEYIFATLP-RTQRGQPIVLGGDPKGKNFLYTNGNSVI-IRNIENPAISDIY 127
I W+ +T ATL T + P G+ L ++ + I + ++
Sbjct: 158 TIKLWDLRTGKCVATLTGHTGEVNSVAF--SPDGEKLLSSSSDGTIKLWDLSTGKCLGTL 215
Query: 128 TEHSCAVNVAKYSPSGFYIASGDISGKVRIWDTVNKEHILKNEFHPIGGPIKDIAWSPDN 187
H VN +SP G+ +ASG G +R+WD E + H + +AWSPD
Sbjct: 216 RGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHT--NSVTSLAWSPDG 273
Query: 188 QRMVVVGE 195
+R+
Sbjct: 274 KRLASGSA 281
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 138 bits (347), Expect = 2e-36
Identities = 108/418 (25%), Positives = 184/418 (44%), Gaps = 18/418 (4%)
Query: 16 GDYLLTVSLSGFISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWN 75
G + L +S V+ P +++GH IT++A SPD + +GS DG I W+
Sbjct: 34 GSSESGILLLALLSDSLVSLPDLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWD 93
Query: 76 AKTEYIFATLPRTQRGQPI--VLGGDPKGKNFLYTNG---NSVIIRNIENPA-ISDIYTE 129
+ + P G + L + +V + ++ P +
Sbjct: 94 LDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEG 153
Query: 130 HSCAVNVAKYSPSGFYIASG-DISGKVRIWDTVNKEHILKNEFHPIGGPIKDIAWSPDNQ 188
HS +V +SP G +ASG + G +++WD + + H P+ +A+SPD
Sbjct: 154 HSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHT--DPVSSLAFSPDGG 211
Query: 189 RMVVVGEGRERFGHVFMSETGTSV-GEISGQSKPINSCDFKPSRPFRIITGSEDNTIAVF 247
++ + ++ TG + +SG S + S F P + +GS D TI ++
Sbjct: 212 LLIA-SGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSS-FSPDGSL-LASGSSDGTIRLW 268
Query: 248 E-GPPFKFKMTKQEHSRFVQAVRYSPSGSHFASAGFDGKVFLYDGASADLVSELGNPAHK 306
+ T HS V +V +SP G AS DG V L+D + L+S L H+
Sbjct: 269 DLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHE 328
Query: 307 GGVYAVAWKPDGTQLLTA-SGDKTCKLWDIETKSAVSEFLMGNQVEDQQVSCLWQGDYLL 365
G V ++++ PDG+ L++ S D T +LWD+ T + + V S G +
Sbjct: 329 GPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFS--PDGRVVS 386
Query: 366 TVSLSGFISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWNAKT 423
+ S G + D++ + +R + GH +T+L SPD ++ +GS D I W+ KT
Sbjct: 387 SGSTDGTVRLWDLST-GSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKT 443
Score = 109 bits (271), Expect = 6e-26
Identities = 70/334 (20%), Positives = 132/334 (39%), Gaps = 50/334 (14%)
Query: 93 PIVLGGDPKGKNFLYTNGNSVIIRNIENPAISDIYTEHSCAVNVAKYSPSGFYIASGDIS 152
++ G + L + ++ + S + H ++ +SP G + SG
Sbjct: 29 SLLSLGSSESGILLLALLSDSLVSLPD--LSSLLLRGHEDSITSIAFSPDGELLLSGSSD 86
Query: 153 GKVRIWDTVNKEHILKNEFHPIGGPIKDIAW-SPDNQRMVVVGEGRERFGHVFMSET-GT 210
G +++WD N E ++K+ + +A SPD +++ + ++ T G
Sbjct: 87 GTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGK 146
Query: 211 SVGEISGQSKPINSCDFKPSRPFRIITGSEDNTIAVFEGPPFKFKMTKQEHSRFVQAVRY 270
+ + G S+ + S F P S D TI +++ K T H+ V ++ +
Sbjct: 147 LIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAF 206
Query: 271 SPSGS-HFASAGFDGKVFLYDGASADLVSELGNPAHKGGVYAVAWKPDGTQLLTASGDKT 329
SP G AS DG + L+D ++ L+ H V + ++ PDG+ L + S D T
Sbjct: 207 SPDGGLLIASGSSDGTIRLWDLSTGKLLRST-LSGHSDSVVS-SFSPDGSLLASGSSDGT 264
Query: 330 CKLWDIETKSAVSEFLMGNQVEDQQVSCLWQGDYLLTVSLSGFISYLDVNNPSTPIRVIK 389
+LWD+ + S + +R +
Sbjct: 265 IRLWDLRSSS-------------------------------------------SLLRTLS 281
Query: 390 GHNKPITALALSPDRGTVFTGSHDGFITRWNAKT 423
GH+ + ++A SPD + +GS DG + W+ +T
Sbjct: 282 GHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLET 315
Score = 108 bits (269), Expect = 1e-25
Identities = 90/334 (26%), Positives = 154/334 (46%), Gaps = 16/334 (4%)
Query: 18 YLLTVSLSGFISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFTGSH-DGFITRWNA 76
L + SL G + D++ P IR ++GH++ +T+LA SPD + +GS DG I W+
Sbjct: 126 LLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDL 185
Query: 77 KTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNG--NSVIIRNIENPA-ISDIYTEHSCA 133
+T +TL L P G + + ++ + ++ + + HS
Sbjct: 186 RTGKPLSTLA-GHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHS-D 243
Query: 134 VNVAKYSPSGFYIASGDISGKVRIWDTVN-KEHILKNEFHPIGGPIKDIAWSPDNQRMVV 192
V+ +SP G +ASG G +R+WD + + H + +A+SPD + +
Sbjct: 244 SVVSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGH--SSSVLSVAFSPDGKLLAS 301
Query: 193 VGEGRERFGHVFMSETGTSVGEIS--GQSKPINSCDFKPSRPFRIITGSEDNTIAVFEGP 250
+ ++ ETG + ++ G P++S F P + GS+D TI +++
Sbjct: 302 GSS--DGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLR 359
Query: 251 PFKFKMTKQEHSRFVQAVRYSPSGSHFASAGFDGKVFLYDGASADLVSELGNPAHKGGVY 310
K T + HS V +V +SP G +S DG V L+D ++ L+ L H V
Sbjct: 360 TGKPLKTLEGHSN-VLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDG--HTSRVT 416
Query: 311 AVAWKPDGTQLLTASGDKTCKLWDIETKSAVSEF 344
++ + PDG L + S D T +LWD++T F
Sbjct: 417 SLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSF 450
Score = 75.9 bits (185), Expect = 7e-15
Identities = 53/241 (21%), Positives = 94/241 (39%), Gaps = 48/241 (19%)
Query: 6 EDQQVSCL-WQGDYLLTVSLSGFISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFT 64
D VS G L + S G I D+ + S+ +R + GH+ + ++A SPD + +
Sbjct: 242 SDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLAS 301
Query: 65 GSHDGFITRWNAKTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNGNSVIIRNIENPAIS 124
GS DG + W+ +T + ++L
Sbjct: 302 GSSDGTVRLWDLETGKLLSSLT-------------------------------------- 323
Query: 125 DIYTEHSCAVNVAKYSPSGFYIASGD-ISGKVRIWDTVNKEHILKNEFHPIGGPIKDIAW 183
H V+ +SP G + SG G +R+WD + + E H + +++
Sbjct: 324 --LKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGH---SNVLSVSF 378
Query: 184 SPDNQRMVVVGEGRERFGHVFMSETGTSVGEISGQSKPINSCDFKPSRPFRIITGSEDNT 243
SPD + + + ++ TG+ + + G + + S DF P + +GS DNT
Sbjct: 379 SPDGRVVSSGST--DGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDGKS-LASGSSDNT 435
Query: 244 I 244
I
Sbjct: 436 I 436
Score = 56.3 bits (134), Expect = 1e-08
Identities = 38/164 (23%), Positives = 66/164 (40%), Gaps = 9/164 (5%)
Query: 10 VSCLWQGDYLLTVSLSGFISYLDVNNPSTP-IRVIKGHNKPITALALSPDRGTVFTG-SH 67
V+ G L + S G + D+ +KGH P+++L+ SPD + +G S
Sbjct: 290 VAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSD 349
Query: 68 DGFITRWNAKTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNG---NSVIIRNIENPAIS 124
DG I W+ +T TL VL + ++G +V + ++ ++
Sbjct: 350 DGTIRLWDLRTGKPLKTLEGHSN----VLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLL 405
Query: 125 DIYTEHSCAVNVAKYSPSGFYIASGDISGKVRIWDTVNKEHILK 168
H+ V +SP G +ASG +R+WD +
Sbjct: 406 RNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVS 449
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 48.5 bits (116), Expect = 5e-08
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 304 AHKGGVYAVAWKPDGTQLLTASGDKTCKLWD 334
H G V +VA+ PDG L + S D T ++WD
Sbjct: 9 GHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 43.1 bits (102), Expect = 4e-06
Identities = 15/38 (39%), Positives = 24/38 (63%)
Query: 38 TPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWN 75
+R +KGH P+T++A SPD + +GS DG + W+
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 43.1 bits (102), Expect = 4e-06
Identities = 15/38 (39%), Positives = 24/38 (63%)
Query: 383 TPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWN 420
+R +KGH P+T++A SPD + +GS DG + W+
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 39.6 bits (93), Expect = 6e-05
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 252 FKFKMTKQEHSRFVQAVRYSPSGSHFASAGFDGKVFLYD 290
K T + H+ V +V +SP G+ AS DG V ++D
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 38.1 bits (89), Expect = 3e-04
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 126 IYTEHSCAVNVAKYSPSGFYIASGDISGKVRIWD 159
H+ V +SP G +ASG G VR+WD
Sbjct: 6 TLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 33.5 bits (77), Expect = 0.011
Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 209 GTSVGEISGQSKPINSCDFKPSRPFRIITGSEDNTIAVF 247
G + + G + P+ S F P + +GS+D T+ V+
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNL-LASGSDDGTVRVW 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 = 46.2 bits (110), Expect = 3e-07
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 303 PAHKGGVYAVAWKPDGTQLLTASGDKTCKLWD 334
H G V +VA+ PDG L + S D T KLWD
Sbjct: 9 KGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 44.2 bits (105), Expect = 1e-06
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 36 PSTPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWN 75
++ +KGH P+T++A SPD + +GS DG I W+
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 44.2 bits (105), Expect = 1e-06
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 381 PSTPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWN 420
++ +KGH P+T++A SPD + +GS DG I W+
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 40.8 bits (96), Expect = 3e-05
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 251 PFKFKMTKQEHSRFVQAVRYSPSGSHFASAGFDGKVFLYD 290
+ T + H+ V +V +SP G + AS DG + L+D
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 39.6 bits (93), Expect = 8e-05
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 126 IYTEHSCAVNVAKYSPSGFYIASGDISGKVRIWD 159
H+ V +SP G Y+ASG G +++WD
Sbjct: 7 TLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 34.2 bits (79), Expect = 0.006
Identities = 11/41 (26%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 208 TGTSVGEISGQSKPINSCDFKPSRPFRIITGSEDNTIAVFE 248
+G + + G + P+ S F P + + +GS+D TI +++
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKY-LASGSDDGTIKLWD 40
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 50.5 bits (120), Expect = 1e-06
Identities = 40/151 (26%), Positives = 70/151 (46%), Gaps = 13/151 (8%)
Query: 275 SHFASAGFDGKVFLYDGASADLVSELGNPAHKGGVYAVAW-KPDGTQLLTASGDKTCKLW 333
S AS+ F+G V ++D A + LV+E+ H+ V+++ + D T L + S D + KLW
Sbjct: 546 SQVASSNFEGVVQVWDVARSQLVTEMKE--HEKRVWSIDYSSADPTLLASGSDDGSVKLW 603
Query: 334 DIETKSAVSEFLMGNQVEDQQVSCLW----QGDYLLTVSLSGFISYLDVNNPSTPIRVIK 389
I ++ G + C+ G L S + Y D+ NP P+ +
Sbjct: 604 SINQGVSI-----GTIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMI 658
Query: 390 GHNKPITALALSPDRGTVFTGSHDGFITRWN 420
GH+K ++ + D T+ + S D + W+
Sbjct: 659 GHSKTVSYVRFV-DSSTLVSSSTDNTLKLWD 688
Score = 35.8 bits (82), Expect = 0.045
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 15/139 (10%)
Query: 212 VGEISGQSKPINSCDFKPSRPFRIITGSEDNTI---AVFEGPPFKFKMTKQEHSRFVQAV 268
V E+ K + S D+ + P + +GS+D ++ ++ +G TK + V
Sbjct: 568 VTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKAN----ICCV 623
Query: 269 RY-SPSGSHFASAGFDGKVFLYD--GASADLVSELGNPAHKGGVYAVAWKPDGTQLLTAS 325
++ S SG A D KV+ YD L + +G H V V + D + L+++S
Sbjct: 624 QFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIG---HSKTVSYVRFV-DSSTLVSSS 679
Query: 326 GDKTCKLWDIE-TKSAVSE 343
D T KLWD+ + S ++E
Sbjct: 680 TDNTLKLWDLSMSISGINE 698
Score = 28.9 bits (64), Expect = 6.5
Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 28 ISYLDVNNPSTPIRVIKGHNKPITALALSPDRGTVFTGSHDGFITRWN 75
+ Y D+ NP P+ + GH+K ++ + D T+ + S D + W+
Sbjct: 642 VYYYDLRNPKLPLCTMIGHSKTVSYVRFV-DSSTLVSSSTDNTLKLWD 688
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 44.5 bits (105), Expect = 7e-05
Identities = 47/167 (28%), Positives = 72/167 (43%), Gaps = 20/167 (11%)
Query: 217 GQSKPINSCDFKPSRPFRIITGSEDNTIAVFEGPPFKFKMTK-------QEHSRFVQAVR 269
GQ PI F P P ++ T SED TI + P Q H++ V V
Sbjct: 73 GQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVS 132
Query: 270 YSPSGSH-FASAGFDGKVFLYD---GASADLVSELGNPAHKGGVYAVAWKPDGTQLLTAS 325
+ PS + ASAG D V ++D G + +++ H + ++ W DG+ L T S
Sbjct: 133 FHPSAMNVLASAGADMVVNVWDVERGKAVEVIK-----CHSDQITSLEWNLDGSLLCTTS 187
Query: 326 GDKTCKLWDIETKSAVSEFLMGNQVEDQQVSCLW--QGDYLLTVSLS 370
DK + D + VS + Q+ CLW + D ++T+ S
Sbjct: 188 KDKKLNIIDPRDGTIVSSVEAHASAKSQR--CLWAKRKDLIITLGCS 232
Score = 29.5 bits (66), Expect = 4.0
Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 36 PSTPIRVIKGHNKPITALALSP-DRGTVFTGSHDGFITRWNAKTE 79
+ PI + G PI +A +P D +FT S DG I W E
Sbjct: 66 SNPPI--LLGQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGIPEE 108
>gnl|CDD|149648 pfam08662, eIF2A, Eukaryotic translation initiation factor eIF2A.
This is a family of eukaryotic translation initiation
factors.
Length = 194
Score = 39.9 bits (94), Expect = 9e-04
Identities = 23/92 (25%), Positives = 36/92 (39%), Gaps = 7/92 (7%)
Query: 100 PKGKNFLYTNGNSVIIRNIENPAISDIYTEHSCAVNVAKYSPSGFYIAS---GDISGKVR 156
P GK F G + + I++ N +SP G + G+++G++
Sbjct: 69 PNGKEFAVIYGYMPAKITFFDLKGNVIHSLGEQPRNTIFWSPFGRLVLLAGFGNLAGQIE 128
Query: 157 IWDTVNKEHILKNEFHPIGGPIKDIAWSPDNQ 188
WD NK+ I E D WSPD +
Sbjct: 129 FWDVKNKKKIATAE-ASNA---TDCEWSPDGR 156
Score = 37.2 bits (87), Expect = 0.008
Identities = 31/144 (21%), Positives = 48/144 (33%), Gaps = 24/144 (16%)
Query: 204 FMSETGTSVGEISGQSK-PINSCDFKP-SRPFRIITGSEDNTIAVFEG---PPFKFKMTK 258
+ ETG + + PI+ + P + F +I G I F+
Sbjct: 43 LIGETGGPDEVVELDKEGPIHDFAWSPNGKEFAVIYGYMPAKITFFDLKGNVIHSLG--- 99
Query: 259 QEHSRFVQAVRYSPSGSHFASAGF---DGKVFLYDGASADLVSELGNPAHKGGVYAVAWK 315
E R + +SP G AGF G++ +D ++ W
Sbjct: 100 -EQPR--NTIFWSPFGRLVLLAGFGNLAGQIEFWD---VKNKKKIATAEASNATD-CEWS 152
Query: 316 PDGTQLLTASG------DKTCKLW 333
PDG LTA+ D K+W
Sbjct: 153 PDGRYFLTATTSPRLRVDNGFKIW 176
>gnl|CDD|225926 COG3391, COG3391, Uncharacterized conserved protein [Function
unknown].
Length = 381
Score = 33.7 bits (77), Expect = 0.18
Identities = 52/249 (20%), Positives = 82/249 (32%), Gaps = 33/249 (13%)
Query: 94 IVLGGDPKGKNFLYTNGNSVIIRNIENPAISDIYTEH---SCAVNVAKYSPSGF------ 144
I LG P G + +G V + N + +S I + +++V P+G
Sbjct: 27 ISLGRGPGG-VAVNPDGTQVYVANSGSNDVSVIDATSNTVTQSLSVGGVYPAGVAVNPAG 85
Query: 145 ---YIASGDISGKVRIWDTVNKEHILKNEFHPIGGPIKDIAWSPDNQRMVVVGEG-RERF 200
Y+ +GD S V + DT + P+G +A PD + + V G
Sbjct: 86 NKVYVTTGD-SNTVSVIDTATNTVL---GSIPVGLGPVGLAVDPDGKYVYVANAGNGNNT 141
Query: 201 GHVFMSETGTSVGEISGQSKPINSCDFKPSRPFRIITGSEDNTIAVFEGPPFKFKMTKQE 260
V + T I + P P +T S+DNT++V + +
Sbjct: 142 VSVIDAATNKVTATIPVGNTPTGV-AVDPDGNKVYVTNSDDNTVSVID---TSGNSVVRG 197
Query: 261 HSRFVQAVRYSPSGSHFASAG----------FDGKVFLYDGASADLVSELGNPAHKGGVY 310
+ V P+G G V D A+ V+ P G
Sbjct: 198 SVGSLVGVGTGPAGIAVDPDGNRVYVANDGSGSNNVLKIDTAT-GNVTATDLPVGSGAPR 256
Query: 311 AVAWKPDGT 319
VA P G
Sbjct: 257 GVAVDPAGK 265
Score = 29.5 bits (66), Expect = 4.1
Identities = 23/106 (21%), Positives = 39/106 (36%), Gaps = 8/106 (7%)
Query: 21 TVSLSGFISYLDVNNPS----TPIRVIKGHNKPITALALSPDRGTVF---TGSHDGFITR 73
T S +S +D + S + ++ P +A+ PD V+ GS + +
Sbjct: 177 TNSDDNTVSVIDTSGNSVVRGSVGSLVGVGTGPAG-IAVDPDGNRVYVANDGSGSNNVLK 235
Query: 74 WNAKTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNGNSVIIRNIE 119
+ T + AT G P + DP GK N + I+
Sbjct: 236 IDTATGNVTATDLPVGSGAPRGVAVDPAGKAAYVANSQGGTVSVID 281
>gnl|CDD|224423 COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases
[Amino acid transport and metabolism].
Length = 620
Score = 32.1 bits (73), Expect = 0.65
Identities = 26/114 (22%), Positives = 42/114 (36%), Gaps = 9/114 (7%)
Query: 263 RFVQAVRYSPSGSH--FASAGFDGKVFLYD-GASADLVSELGNPAHKGGVYAVAWKPDGT 319
V R SP G + G D LY + GGV + W PDG+
Sbjct: 13 ARVSDPRVSPPGGRLAYILTGLDFLKPLYKSSLWVSDGKTVRLLTFGGGVSELRWSPDGS 72
Query: 320 QLLTAS--GDKTCKLWDIETKSAVSEFLMGNQVEDQQVSCLWQGDYLLTVSLSG 371
L S G + +L+ ++ +++ V D + S GD + ++ G
Sbjct: 73 VLAFVSTDGGRVAQLYLVDVGGLITKT--AFGVSDARWS--PDGDRIAFLTAEG 122
>gnl|CDD|227657 COG5354, COG5354, Uncharacterized protein, contains Trp-Asp (WD)
repeat [General function prediction only].
Length = 561
Score = 31.8 bits (72), Expect = 0.72
Identities = 36/181 (19%), Positives = 61/181 (33%), Gaps = 26/181 (14%)
Query: 241 DNTIAVFEGPPFKFKMTKQEHSRF-VQAVRYSPSGSHFASAGFDGKVFLYDGASADLVSE 299
I+VF + T+ E + V V SP G++ S G V + G S +
Sbjct: 10 SAVISVFWNSQSEVIHTRFESENWPVAYVSESPLGTYLFSEHAAG-VECWGGPSKAKLVR 68
Query: 300 LGNPAHKGGVYAVAWKPDGTQLLTAS---------------GDKTCKLWDIETKSAVSEF 344
+P V + + P+ L+T S +WDI + V F
Sbjct: 69 FRHP----DVKYLDFSPNEKYLVTWSREPIIEPEIEISPFTSKNNVFVWDIASGMIVFSF 124
Query: 345 LMGNQVEDQQVSCLWQGD--YLLTVSLSGFISYLDVNNPS-TPIRVIKGHNKPITALALS 401
+Q + D Y+ V S + +N P + ++ I ++S
Sbjct: 125 NGISQPYLGWPVLKFSIDDKYVARVVGSSLYIHEITDNIEEHPFKNLRPVG--ILDFSIS 182
Query: 402 P 402
P
Sbjct: 183 P 183
>gnl|CDD|234608 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 31.3 bits (72), Expect = 0.89
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 13/96 (13%)
Query: 18 YLLTVSLSGFISYLDVN-NPSTPIRVIKGHN---KPITAL--A---LSPDRGTVFTGSHD 68
YL +SL+ F +Y +++ S + V+ G N K T L A L+P R + D
Sbjct: 2 YLTRLSLTDFRNYEELDLELSPGVNVLVGENGQGK--TNLLEAIYLLAPGRS--HRTARD 57
Query: 69 GFITRWNAKTEYIFATLPRTQRGQPIVLGGDPKGKN 104
+ R+ A+ I + + R P+ L D KG
Sbjct: 58 KELIRFGAEAAVIHGRVEKGGRELPLGLEIDKKGGR 93
>gnl|CDD|219547 pfam07741, BRF1, Brf1-like TBP-binding domain. This region covers
both the Brf homology II and III regions. This region is
involved in binding TATA binding protein.
Length = 95
Score = 28.8 bits (65), Expect = 1.4
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 154 KVRIWDTVNKEHILKNE 170
K RIWD +NK+++ + E
Sbjct: 17 KERIWDELNKDYLEEQE 33
>gnl|CDD|220133 pfam09177, Syntaxin-6_N, Syntaxin 6, N-terminal. Members of this
family, which are found in the amino terminus of various
SNARE proteins, adopt a structure consisting of an
antiparallel three-helix bundle. Their exact function
has not been determined, though it is known that they
regulate the SNARE motif, as well as mediate various
protein-protein interactions involved in
membrane-transport.
Length = 96
Score = 28.4 bits (64), Expect = 1.9
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 241 DNTIAVFEGPPFKFKMTKQE---HSRFVQAVR 269
+ ++V E P KF + ++E RFV +R
Sbjct: 58 EEAVSVVEANPEKFGLDEEEISRRRRFVAEIR 89
>gnl|CDD|218251 pfam04762, IKI3, IKI3 family. Members of this family are
components of the elongator multi-subunit component of a
novel RNA polymerase II holoenzyme for transcriptional
elongation. This region contains WD40 like repeats.
Length = 903
Score = 30.0 bits (68), Expect = 2.6
Identities = 16/134 (11%), Positives = 35/134 (26%), Gaps = 25/134 (18%)
Query: 176 GPIKDIAWSPDNQRMVVVGEGRERFGHVFMSETGTS--------VGEISGQSKPINSCDF 227
I D+A+S N + V+ + ++ + S + +
Sbjct: 412 SNINDVAFSKSNSCVAVL--TSDGDISIYELSLKKRKPGSPPKLTSKFSLDKVENSDSEV 469
Query: 228 KPSRPFRIITGSEDNTIAVFEGPPFKFKMTKQEHSRFVQAVRYSPS------GSHFASAG 281
R + D+ + V ++ + + S +S
Sbjct: 470 ALGSL-RQLAFLNDSELLVLSDSDNITEIVLVDVDDTENPLSVSVITEIEGIVLILSSND 528
Query: 282 F--------DGKVF 287
+ DGKV
Sbjct: 529 YKHVYIETRDGKVL 542
>gnl|CDD|224116 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 29.9 bits (68), Expect = 2.8
Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 2/60 (3%)
Query: 55 LSPDRGTVFTGSHDGFITRWNAKTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNGNSVI 114
L+ R S D + R A I A + R R + L KG+ + NG
Sbjct: 46 LALGRS--HRTSRDKELIRTGADEAEISARVQRKGREGTLGLQISKKGRRRVRINGTKAR 103
>gnl|CDD|240745 cd12299, RRM4_Prp24, RNA recognition motif 4 in fungal
pre-messenger RNA splicing protein 24 (Prp24) and
similar proteins. This subfamily corresponds to the
RRM4 of Prp24, also termed U4/U6
snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an
RNA-binding protein with four well conserved RNA
recognition motifs (RRMs), also termed RBDs (RNA binding
domains) or RNPs (ribonucleoprotein domains). It
facilitates U6 RNA base-pairing with U4 RNA during
spliceosome assembly. Prp24 specifically binds free U6
RNA primarily with RRMs 1 and 2 and facilitates pairing
of U6 RNA bases with U4 RNA bases. Additionally, it may
also be involved in dissociation of the U4/U6 complex
during spliceosome activation. .
Length = 71
Score = 27.2 bits (61), Expect = 3.9
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 159 DTVNKEHILKNEFHPIGGPIKDIAWSPDNQRMVVVGEGRERFGHVFMSETGTSVG 213
DTVN+E I K F IG ++ I PD++ +V E G +S G+ G
Sbjct: 10 DTVNEEQI-KAFFEKIGPDVRKIELFPDHEGALVEFESPSDAGKASLSLNGSQFG 63
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 28.8 bits (64), Expect = 6.3
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 6/56 (10%)
Query: 297 VSELGNP-----AHKGGVYAVAWKPDGTQLLTASG-DKTCKLWDIETKSAVSEFLM 346
V E+ +P HK + + W P ++ +SG D +WDIE + + M
Sbjct: 111 VKEIKDPQCILKGHKKKISIIDWNPMNYYIMCSSGFDSFVNIWDIENEKRAFQINM 166
>gnl|CDD|161920 TIGR00545, lipoyltrans, lipoyltransferase and lipoate-protein
ligase. One member of this group of proteins is bovine
lipoyltransferase, which transfers the lipoyl group from
lipoyl-AMP to the specific Lys of lipoate-dependent
enzymes. However, it does not first activate lipoic acid
with ATP to create lipoyl-AMP and pyrophosphate. Another
member of this group, lipoate-protein ligase A from E.
coli, catalyzes both the activation and the transfer of
lipoate. Homology between the two is full-length, except
for the bovine mitochondrial targeting signal, but is
strongest toward the N-terminus [Protein fate, Protein
modification and repair].
Length = 324
Score = 28.6 bits (64), Expect = 6.8
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 68 DGFITRWN-AKTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNGNSVIIRNIENP 121
+N A EY+F P+TQRG+ + + N N+++I +N
Sbjct: 7 PSNDPYFNLALEEYLFKEFPKTQRGKVL----------LFWQNANTIVIGRNQNT 51
>gnl|CDD|179655 PRK03822, lplA, lipoate-protein ligase A; Provisional.
Length = 338
Score = 28.5 bits (64), Expect = 7.3
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 12/46 (26%)
Query: 76 AKTEYIFATLPRTQRGQPIVLGGDPKGKNFLYTNGNSVIIRNIENP 121
A E IF +P TQR VL FL+ N ++V+I +NP
Sbjct: 19 AVEECIFRQMPATQR----VL--------FLWRNADTVVIGRAQNP 52
>gnl|CDD|179892 PRK04922, tolB, translocation protein TolB; Provisional.
Length = 433
Score = 28.5 bits (64), Expect = 7.5
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 11/64 (17%)
Query: 270 YSPSGSHFASAGFDGK---VFLYDGASA--DLVSELGNPAHKGGVYAVAWKPDGTQL-LT 323
+SP G A F+ +++ D A+ +LV+ + +G A ++ PDG +L LT
Sbjct: 211 WSPDGKKLAYVSFERGRSAIYVQDLATGQRELVA-----SFRGINGAPSFSPDGRRLALT 265
Query: 324 ASGD 327
S D
Sbjct: 266 LSRD 269
>gnl|CDD|235083 PRK02889, tolB, translocation protein TolB; Provisional.
Length = 427
Score = 28.4 bits (64), Expect = 7.9
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 13/65 (20%)
Query: 270 YSPSGSHFASAGFDGK---VFLYDGASAD--LVSELGNPAHKGGVYAVAWKPDGTQL--- 321
+SP G+ A F+ K V+++D A+ +V+ KG A AW PDG L
Sbjct: 203 WSPDGTKLAYVSFESKKPVVYVHDLATGRRRVVA-----NFKGSNSAPAWSPDGRTLAVA 257
Query: 322 LTASG 326
L+ G
Sbjct: 258 LSRDG 262
>gnl|CDD|222337 pfam13714, PEP_mutase, Phosphoenolpyruvate phosphomutase. This
domain includes the enzyme Phosphoenolpyruvate
phosphomutase (EC:5.4.2.9). The PEP mutase from
Streptomyces viridochromogenes has been characterized as
catalyzing the formation of a carbon-phosphorus bond by
converting phosphoenolpyruvate (PEP) to
phosphonopyruvate (P-Pyr). This enzyme has a TIM barrel
fold.
Length = 238
Score = 28.3 bits (64), Expect = 7.9
Identities = 12/36 (33%), Positives = 14/36 (38%), Gaps = 3/36 (8%)
Query: 289 YDGASADLVSELGNPAHKGGVYAVAW---KPDGTQL 321
+D SA + G A AVA PDG L
Sbjct: 17 WDAGSARIAEAAGFKALATSSAAVAASLGYPDGELL 52
>gnl|CDD|227498 COG5170, CDC55, Serine/threonine protein phosphatase 2A, regulatory
subunit [Signal transduction mechanisms].
Length = 460
Score = 28.1 bits (62), Expect = 9.4
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 119 ENPAISDIYTEHSCAVNVAKYSPSGFYIASGDISGKVRIWDTVNKEHILK 168
+ D + E +++ K+S +G YI S D V+IWD ++ +K
Sbjct: 268 IDGVDVDFFEEIVSSISDFKFSDNGRYILSRDYL-TVKIWDVNMAKNPIK 316
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 0.135 0.415
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: 21,656,990
Number of extensions: 2087989
Number of successful extensions: 1795
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1699
Number of HSP's successfully gapped: 61
Length of query: 423
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 323
Effective length of database: 6,502,202
Effective search space: 2100211246
Effective search space used: 2100211246
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)