RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16881
(222 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 = 123 bits (310), Expect = 3e-34
Identities = 70/207 (33%), Positives = 97/207 (46%), Gaps = 40/207 (19%)
Query: 31 RCVRFSPDTRLLATGGDDETVTVWRSDDLSLIMETNDRGHTQGRIEGWGRVPACPLCRTR 90
CV FSPD +LLATG D T+ VW + L +GHT V A T
Sbjct: 13 TCVAFSPDGKLLATGSGDGTIKVWDLETGEL--LRTLKGHTGP----VRDVAASA-DGTY 65
Query: 91 VFST-FVKQIIPTRVGVY----GQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLW 145
+ S K I ++ G+ T+ HTS V+SV F+ +L S S DKT+K+W
Sbjct: 66 LASGSSDKTIR-----LWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVW 120
Query: 146 DVPSLTCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWDM-----LATL------- 193
DV + C+ TL HT +V FS D + +AS S D T+ +WD+ +ATL
Sbjct: 121 DVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEV 180
Query: 194 -----------LASGSNDKTVTIWDMR 209
L S S+D T+ +WD+
Sbjct: 181 NSVAFSPDGEKLLSSSSDGTIKLWDLS 207
Score = 97.8 bits (244), Expect = 1e-24
Identities = 55/205 (26%), Positives = 77/205 (37%), Gaps = 72/205 (35%)
Query: 28 SNMRCVRFSPDTRLLATGGDDETVTVWRSDDLSLIMETNDRGHTQGRIEGWGRVPACPLC 87
S + V FSPD R+L++ D+T+ VW + + RGH
Sbjct: 94 SYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTL--RGH----------------- 134
Query: 88 RTRVFSTFVKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDV 147
T V SV F+ + + S S D T+KLWD+
Sbjct: 135 ------------------------------TDWVNSVAFSPDGTFVASSSQDGTIKLWDL 164
Query: 148 PSLTCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWDMLAT--------------- 192
+ C+ TL HT V FS D L S S+D T+ +WD+
Sbjct: 165 RTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNS 224
Query: 193 --------LLASGSNDKTVTIWDMR 209
LLASGS D T+ +WD+R
Sbjct: 225 VAFSPDGYLLASGSEDGTIRVWDLR 249
Score = 88.2 bits (219), Expect = 5e-21
Identities = 40/116 (34%), Positives = 59/116 (50%), Gaps = 23/116 (19%)
Query: 117 HTSAVTSVRFNHKSSLLVSGSVDKTVKLWDVPSLTCIKTLESHTRYVTCCTFSCDDSLLA 176
HT VT V F+ LL +GS D T+K+WD+ + ++TL+ HT V S D + LA
Sbjct: 8 HTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLA 67
Query: 177 SGSNDKTVTIWDM-----------------------LATLLASGSNDKTVTIWDMR 209
SGS+DKT+ +WD+ +L+S S DKT+ +WD+
Sbjct: 68 SGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVE 123
Score = 87.4 bits (217), Expect = 9e-21
Identities = 51/165 (30%), Positives = 74/165 (44%), Gaps = 21/165 (12%)
Query: 31 RCVRFSPDTRLLATGGDDETVTVWRSDDLSLIMETNDRGHTQGRIEGWGRVPACPLCRTR 90
V FSPD +A+ D T+ +W + GHT G V +
Sbjct: 139 NSVAFSPDGTFVASSSQDGTIKLWDLRTGKCV--ATLTGHT-------GEVNSVAFSPDG 189
Query: 91 ---VFSTFVKQIIPTRVGVY----GQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVK 143
+ S+ I ++ G+ T+ H + V SV F+ LL SGS D T++
Sbjct: 190 EKLLSSSSDGTIK-----LWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIR 244
Query: 144 LWDVPSLTCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWD 188
+WD+ + C++TL HT VT +S D LASGS D T+ IWD
Sbjct: 245 VWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 55.0 bits (133), Expect = 4e-09
Identities = 32/83 (38%), Positives = 42/83 (50%), Gaps = 23/83 (27%)
Query: 152 CIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWDM-----LATL------------- 193
+TL+ HT VTC FS D LLA+GS D T+ +WD+ L TL
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS 60
Query: 194 -----LASGSNDKTVTIWDMRGN 211
LASGS+DKT+ +WD+
Sbjct: 61 ADGTYLASGSSDKTIRLWDLETG 83
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 80.9 bits (198), Expect = 8e-18
Identities = 61/208 (29%), Positives = 98/208 (47%), Gaps = 26/208 (12%)
Query: 31 RCVRFSPDTRLLATGGDDETVTVWRSDDLSLIMETNDRGHTQGRIEGWGRVPACPLCRTR 90
+ FSPD LL +G D T+ +W D+ ++++ + H + P
Sbjct: 69 TSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLA 128
Query: 91 VFSTFVKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGS-VDKTVKLWDVPS 149
S+ + + G+ T+ H+ +VTS+ F+ LL SGS +D T+KLWD+ +
Sbjct: 129 S-SSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRT 187
Query: 150 LTCIKTLESHTRYVTCCTFSCDDS-LLASGSNDKTVTIWDMLA----------------- 191
+ TL HT V+ FS D L+ASGS+D T+ +WD+
Sbjct: 188 GKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVS 247
Query: 192 ------TLLASGSNDKTVTIWDMRGNLS 213
+LLASGS+D T+ +WD+R + S
Sbjct: 248 SFSPDGSLLASGSSDGTIRLWDLRSSSS 275
Score = 75.1 bits (183), Expect = 8e-16
Identities = 55/187 (29%), Positives = 86/187 (45%), Gaps = 5/187 (2%)
Query: 28 SNMRCVRFSPDTRLLATGGDDETVTVWRSDDLSLIMETNDRGHTQGRIEGWGRVPACPLC 87
S++ V FSPD +LLA+G D TV +W + L+ +GH EG +
Sbjct: 285 SSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGH-----EGPVSSLSFSPD 339
Query: 88 RTRVFSTFVKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDV 147
+ + S + S V SV F+ ++ SGS D TV+LWD+
Sbjct: 340 GSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDL 399
Query: 148 PSLTCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWDMLATLLASGSNDKTVTIWD 207
+ + ++ L+ HT VT FS D LASGS+D T+ +WD+ +L + + +
Sbjct: 400 STGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGKVLAS 459
Query: 208 MRGNLSV 214
+LSV
Sbjct: 460 KSSDLSV 466
Score = 68.6 bits (166), Expect = 2e-13
Identities = 59/203 (29%), Positives = 89/203 (43%), Gaps = 32/203 (15%)
Query: 31 RCVRFSPD-TRLLATGGDDETVTVWRSDDLSLIMETNDRGHTQGRIEGWGRVPACPLCRT 89
+ FSPD L+A+G D T+ +W L+ T GH+ + + P
Sbjct: 202 SSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTL-SGHSDSVVSSF-----SPDGSL 255
Query: 90 RVFSTFVKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDVPS 149
+ I + T+ H+S+V SV F+ LL SGS D TV+LWD+ +
Sbjct: 256 LASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLET 315
Query: 150 LTCI--KTLESHTRYVTCCTFSCDDSLLASG-SNDKTVTIWDMLA--------------- 191
+ TL+ H V+ +FS D SLL SG S+D T+ +WD+
Sbjct: 316 GKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLS 375
Query: 192 -------TLLASGSNDKTVTIWD 207
+++SGS D TV +WD
Sbjct: 376 VSFSPDGRVVSSGSTDGTVRLWD 398
Score = 59.3 bits (142), Expect = 2e-10
Identities = 43/126 (34%), Positives = 64/126 (50%), Gaps = 27/126 (21%)
Query: 117 HTSAVTSVRFNHKSS-LLVSGSVDKTVKLWDVPSLTCIK-TLESHTRYVTCCTFSCDDSL 174
HT V+S+ F+ L+ SGS D T++LWD+ + ++ TL H+ V FS D SL
Sbjct: 197 HTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSS-FSPDGSL 255
Query: 175 LASGSNDKTVTIWDMLAT------------------------LLASGSNDKTVTIWDMRG 210
LASGS+D T+ +WD+ ++ LLASGS+D TV +WD+
Sbjct: 256 LASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLET 315
Query: 211 NLSVDV 216
+
Sbjct: 316 GKLLSS 321
Score = 46.2 bits (108), Expect = 5e-06
Identities = 35/92 (38%), Positives = 48/92 (52%), Gaps = 5/92 (5%)
Query: 102 TRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDV-PSLTCIKTLES-H 159
+ V + S + H ++TS+ F+ LL+SGS D T+KLWD+ IK+LE H
Sbjct: 49 SLVSLPDLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLH 108
Query: 160 TRYVTCCTFSCDDS---LLASGSNDKTVTIWD 188
V+ S D LLAS S D TV +WD
Sbjct: 109 DSSVSKLALSSPDGNSILLASSSLDGTVKLWD 140
Score = 35.1 bits (79), Expect = 0.025
Identities = 35/132 (26%), Positives = 53/132 (40%), Gaps = 32/132 (24%)
Query: 116 RHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDVPSLTCIKTLESHTRYVTCCTFSCDDSLL 175
++ ++ S+ + LL++ D V L D+ SL L H +T FS D LL
Sbjct: 25 LNSLSLLSLGSSESGILLLALLSDSLVSLPDLSSLL----LRGHEDSITSIAFSPDGELL 80
Query: 176 ASGSNDKTVTIWDML----------------------------ATLLASGSNDKTVTIWD 207
SGS+D T+ +WD+ + LLAS S D TV +WD
Sbjct: 81 LSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWD 140
Query: 208 MRGNLSVDVPLN 219
+ + L
Sbjct: 141 LSTPGKLIRTLE 152
>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 = 50.4 bits (121), Expect = 3e-09
Identities = 20/40 (50%), Positives = 25/40 (62%)
Query: 149 SLTCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWD 188
S +KTL+ HT VT FS D LASGS+D T+ +WD
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 43.5 bits (103), Expect = 1e-06
Identities = 18/34 (52%), Positives = 21/34 (61%)
Query: 113 TVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWD 146
T+ HT VTSV F+ L SGS D T+KLWD
Sbjct: 7 TLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 34.2 bits (79), Expect = 0.003
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 31 RCVRFSPDTRLLATGGDDETVTVW 54
V FSPD + LA+G DD T+ +W
Sbjct: 16 TSVAFSPDGKYLASGSDDGTIKLW 39
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 49.7 bits (119), Expect = 7e-09
Identities = 20/38 (52%), Positives = 26/38 (68%)
Query: 151 TCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWD 188
++TL+ HT VT FS D +LLASGS+D TV +WD
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 44.3 bits (105), Expect = 7e-07
Identities = 17/30 (56%), Positives = 21/30 (70%)
Query: 117 HTSAVTSVRFNHKSSLLVSGSVDKTVKLWD 146
HT VTSV F+ +LL SGS D TV++WD
Sbjct: 10 HTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 35.0 bits (81), Expect = 0.002
Identities = 15/24 (62%), Positives = 16/24 (66%)
Query: 31 RCVRFSPDTRLLATGGDDETVTVW 54
V FSPD LLA+G DD TV VW
Sbjct: 15 TSVAFSPDGNLLASGSDDGTVRVW 38
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 50.3 bits (120), Expect = 2e-07
Identities = 30/110 (27%), Positives = 53/110 (48%), Gaps = 8/110 (7%)
Query: 117 HTSAVTSVRFNHKSS--LLVSGSVDKTVKLWDVPSLTCIKTLESHTRYVTCCTFSCDDSL 174
HT V V F H S+ +L S D V +WDV ++ ++ H+ +T ++ D SL
Sbjct: 124 HTKKVGIVSF-HPSAMNVLASAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSL 182
Query: 175 LASGSNDKTVTIWD-----MLATLLASGSNDKTVTIWDMRGNLSVDVPLN 219
L + S DK + I D +++++ A S +W R +L + + +
Sbjct: 183 LCTTSKDKKLNIIDPRDGTIVSSVEAHASAKSQRCLWAKRKDLIITLGCS 232
Score = 38.7 bits (90), Expect = 0.002
Identities = 45/183 (24%), Positives = 76/183 (41%), Gaps = 24/183 (13%)
Query: 33 VRFSP-DTRLLATGGDDETVTVWRSDDLSLIMETNDR-GHTQGRIEGWGRVPACPLCRTR 90
V F+P D + L T +D T+ W + L +D H QG + G V P
Sbjct: 81 VAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVSFHPSAMNV 140
Query: 91 VFSTFVKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDVPSL 150
+ S ++ G+ E + H+ +TS+ +N SLL + S DK + + D
Sbjct: 141 LASAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSLLCTTSKDKKLNIIDPRDG 200
Query: 151 TCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIW----DMLATLLASGSNDKTVTIW 206
T + ++E+H AS + + + W D++ TL S S + + +W
Sbjct: 201 TIVSSVEAH----------------ASAKSQRCL--WAKRKDLIITLGCSKSQQRQIMLW 242
Query: 207 DMR 209
D R
Sbjct: 243 DTR 245
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 42.0 bits (98), Expect = 1e-04
Identities = 47/177 (26%), Positives = 66/177 (37%), Gaps = 51/177 (28%)
Query: 36 SPDTRLLATGGDDETVTVWRSDDLSLIMETNDRGHT--------QGRIEGWG-------- 79
S D LLA+G DD +V +W + I + + GR +G
Sbjct: 585 SADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSESGRSLAFGSADHKVYY 644
Query: 80 ---RVPACPLCRTRVFSTFVKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSG 136
R P PLC T +G H+ V+ VRF SS LVS
Sbjct: 645 YDLRNPKLPLC--------------TMIG-----------HSKTVSYVRFV-DSSTLVSS 678
Query: 137 SVDKTVKLWDVP------SLTCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIW 187
S D T+KLWD+ + T + + HT S D +A+GS V ++
Sbjct: 679 STDNTLKLWDLSMSISGINETPLHSFMGHTNVKNFVGLSVSDGYIATGSETNEVFVY 735
Score = 40.8 bits (95), Expect = 3e-04
Identities = 52/224 (23%), Positives = 94/224 (41%), Gaps = 36/224 (16%)
Query: 21 RGSVHIGSNMRC-VRFSPDTRLLATGGDDETVTVWRSDDLSLIMETNDRGHTQGRIEGWG 79
+G + SN+ C + F D AT G ++ + ++ + S+I + D + +E
Sbjct: 476 QGDLLNSSNLVCAIGFDRDGEFFATAGVNKKIKIFECE--SIIKDGRDIHYPV--VELAS 531
Query: 80 RVPACPLC-----RTRVFSTFVKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKS-SLL 133
R +C +++V S+ + ++ Q + H V S+ ++ +LL
Sbjct: 532 RSKLSGICWNSYIKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLL 591
Query: 134 VSGSVDKTVKLWDVPSLTCIKTLESHTRYVTCCTFSCDDSL-LASGSNDKTVTIWDM--- 189
SGS D +VKLW + I T+++ + C F + LA GS D V +D+
Sbjct: 592 ASGSDDGSVKLWSINQGVSIGTIKTKAN-ICCVQFPSESGRSLAFGSADHKVYYYDLRNP 650
Query: 190 ---LATL-----------------LASGSNDKTVTIWDMRGNLS 213
L T+ L S S D T+ +WD+ ++S
Sbjct: 651 KLPLCTMIGHSKTVSYVRFVDSSTLVSSSTDNTLKLWDLSMSIS 694
Score = 37.8 bits (87), Expect = 0.003
Identities = 30/140 (21%), Positives = 56/140 (40%), Gaps = 35/140 (25%)
Query: 118 TSAVTSVRFNHKSSLLVSGSVDKTVKLWDVPSLT--------CIKTLESHTRYVTCCTFS 169
++ V ++ F+ + V+K +K+++ S+ + L S ++ C S
Sbjct: 483 SNLVCAIGFDRDGEFFATAGVNKKIKIFECESIIKDGRDIHYPVVELASRSKLSGICWNS 542
Query: 170 CDDSLLASGSNDKTVTIWDML------------------------ATLLASGSNDKTVTI 205
S +AS + + V +WD+ TLLASGS+D +V +
Sbjct: 543 YIKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKL 602
Query: 206 WDMRGNLS---VDVPLNYCC 222
W + +S + N CC
Sbjct: 603 WSINQGVSIGTIKTKANICC 622
Score = 32.8 bits (74), Expect = 0.14
Identities = 24/70 (34%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 133 LVSGSVDKTVKLWDV--PSLTCIKTLESHTRYVTCCTFSCDDSLLASGSNDKTVTIWDML 190
L GS D V +D+ P L + T+ H++ V+ F D S L S S D T+ +WD+
Sbjct: 633 LAFGSADHKVYYYDLRNPKLP-LCTMIGHSKTVSYVRF-VDSSTLVSSSTDNTLKLWDL- 689
Query: 191 ATLLASGSND 200
++ SG N+
Sbjct: 690 -SMSISGINE 698
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 39.2 bits (91), Expect = 0.001
Identities = 32/109 (29%), Positives = 58/109 (53%), Gaps = 13/109 (11%)
Query: 117 HTSAVTSVRFNH-KSSLLVSGSVDKTVKLWDVP----SLTCIK----TLESHTRYVTCCT 167
HTS++ ++FN S +L SGS D T+++W++P S+ IK L+ H + ++
Sbjct: 73 HTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHKKKISIID 132
Query: 168 FS-CDDSLLASGSNDKTVTIWDMLATLLASGSN--DKTVTI-WDMRGNL 212
++ + ++ S D V IWD+ A N K ++ W+++GNL
Sbjct: 133 WNPMNYYIMCSSGFDSFVNIWDIENEKRAFQINMPKKLSSLKWNIKGNL 181
>gnl|CDD|223036 PHA03295, PHA03295, envelope glycoprotein H; Provisional.
Length = 714
Score = 32.7 bits (75), Expect = 0.14
Identities = 11/60 (18%), Positives = 20/60 (33%), Gaps = 1/60 (1%)
Query: 151 TCIKTLESHTRYVTCCTF-SCDDSLLASGSNDKTVTIWDMLATLLASGSNDKTVTIWDMR 209
C Y T S L++ + D ++ LA LL + + + W +
Sbjct: 355 RCFDVSPPGNTYPKYPTALQLARSDLSTITRDLSIPSLARLAYLLRAQNQQVLIPKWALE 414
>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 = 1.2
Identities = 11/51 (21%), Positives = 23/51 (45%)
Query: 102 TRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDVPSLTC 152
YG+D S + S + + L + S+D T+++W++ + C
Sbjct: 204 LPFQRYGKDRLASSAAASTIVSSSEVNGQTFLFTLSLDGTLRVWNLDTGQC 254
>gnl|CDD|218455 pfam05133, Phage_prot_Gp6, Phage portal protein, SPP1 Gp6-like.
This protein forms a hole, or portal, that enables DNA
passage during packaging and ejection. It also forms the
junction between the phage head (capsid) and the tail
proteins. During SPP1 morphogenesis, Gp6 participates in
the procapsid assembly reaction. This family also
includes the old Pfam family Phage_min_cap (PF05126).
Length = 435
Score = 28.9 bits (65), Expect = 2.4
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 47 DDETVTVWRSDDLSLIMETNDRGHTQGRIEGWGRVP 82
D+ V + + ++E D + +GRVP
Sbjct: 165 TDDEVYTYVREGGGDLIEV-DVIGERIPPHEFGRVP 199
>gnl|CDD|240408 PTZ00413, PTZ00413, lipoate synthase; Provisional.
Length = 398
Score = 28.3 bits (63), Expect = 3.6
Identities = 14/55 (25%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 96 VKQIIPTRVGVYGQDSETVGRHTSAVTSVRFNHKSSLLVSGSVDKTVKLWDVPSL 150
V+++ + + VY + E V R T V R +++ SL V + VK + ++
Sbjct: 245 VEKLANSPLSVYAHNIECVERITPYVRDRRASYRQSLKVL----EHVKEFTNGAM 295
>gnl|CDD|226235 COG3712, FecR, Fe2+-dicitrate sensor, membrane component [Inorganic
ion transport and metabolism / Signal transduction
mechanisms].
Length = 322
Score = 27.3 bits (61), Expect = 6.5
Identities = 11/29 (37%), Positives = 11/29 (37%)
Query: 33 VRFSPDTRLLATGGDDETVTVWRSDDLSL 61
VRF RLLA D WR L
Sbjct: 225 VRFDAGGRLLAVVPDAAAALAWRQGRLVF 253
>gnl|CDD|218890 pfam06089, Asparaginase_II, L-asparaginase II. This family
consists of several bacterial L-asparaginase II
proteins. L-asparaginase (EC:3.5.1.1) catalyzes the
hydrolysis of L-asparagine to L-aspartate and ammonium.
Rhizobium etli possesses two asparaginases:
asparaginase I, which is thermostable and constitutive,
and asparaginase II, which is thermolabile, induced by
asparagine and repressed by the carbon source.
Length = 325
Score = 26.8 bits (60), Expect = 9.3
Identities = 17/42 (40%), Positives = 20/42 (47%), Gaps = 7/42 (16%)
Query: 19 ILRG----SVHIGSNMRCVRFSPDTRLLATGGDDETVTVWRS 56
+ RG SVH G V D R+LA+ GD E T RS
Sbjct: 4 VTRGGLVESVHRGH---AVVVDADGRVLASAGDPEAPTFPRS 42
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
0.320 0.134 0.424
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: 10,527,451
Number of extensions: 910965
Number of successful extensions: 698
Number of sequences better than 10.0: 1
Number of HSP's gapped: 650
Number of HSP's successfully gapped: 39
Length of query: 222
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 129
Effective length of database: 6,812,680
Effective search space: 878835720
Effective search space used: 878835720
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: 57 (25.7 bits)