BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 008794
(553 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ID5|A Chain A, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|E Chain E, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|A Chain A, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|B Chain B, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|K Chain K, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 388
Score = 192 bits (487), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 111/259 (42%), Positives = 168/259 (64%), Gaps = 6/259 (2%)
Query: 151 LGHSYSRAKVKFNVNRVDNMVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDN 210
L Y+R K++ + D + IQA+ +D +DK IN FS R+REWYS HFPEL K++ D+
Sbjct: 120 LSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDH 179
Query: 211 YLYARVVKLIEDKSKLTDDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNVQMF 270
YA +V D+ LT D +L ++ +E + I++A K S+G D+S DL ++M
Sbjct: 180 EEYATIVSRFGDRGFLTID---SLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMI 236
Query: 271 AQRVMDLSEYRKKLYEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQ 330
A ++DL R+ L YL M ++APN+ +L+G +GARL+S AGSL LAK P+ST+Q
Sbjct: 237 ANTILDLYNIRRNLNNYLEGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPASTIQ 296
Query: 331 ILGAEKALFRALKTRGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAE 390
+LGAEKALFRAL++ G PK+G+IF I + +G++AR LA K +IA+R+D F+
Sbjct: 297 VLGAEKALFRALRSGGRPPKHGIIFQYPAIHTSPRWQRGKIARALAAKLAIAARVDAFSG 356
Query: 391 KNTTIFGEKLREQVEERLD 409
+ G++L EQ+++R+D
Sbjct: 357 R---FIGDQLNEQLKKRID 372
>pdb|3NMU|A Chain A, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|B Chain B, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVI|A Chain A, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVI|C Chain C, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
Length = 379
Score = 186 bits (473), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/258 (39%), Positives = 160/258 (62%), Gaps = 6/258 (2%)
Query: 151 LGHSYSRAKVKFNVNRVDNMVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDN 210
+G + +R +++ D MVIQAI LD +DK IN R+REWYS HFPEL +++ +
Sbjct: 121 VGVALTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKH 180
Query: 211 YLYARVVKLIEDKSKLTDDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNVQMF 270
Y VK + + + +++ L ++ E+K K+I+EA + +MG + D+ V+
Sbjct: 181 PQYVAFVKTVGHRDNINEEV---LRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQL 237
Query: 271 AQRVMDLSEYRKKLYEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQ 330
A+ + L + RKKL +Y+ M+D+APNL +L+G + ARLIS AG L LA PSST+Q
Sbjct: 238 AEEIDRLYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQ 297
Query: 331 ILGAEKALFRALKTRGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAE 390
+LGAEKALFR L+T PK+G+I+ I R+ +G++AR LA K +IA+R+D F+
Sbjct: 298 VLGAEKALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS- 356
Query: 391 KNTTIFGEKLREQVEERL 408
E+L++++E R+
Sbjct: 357 --GEYIAEELKKELEARI 372
>pdb|2NNW|A Chain A, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|2NNW|C Chain C, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
Length = 376
Score = 186 bits (473), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/258 (39%), Positives = 160/258 (62%), Gaps = 6/258 (2%)
Query: 151 LGHSYSRAKVKFNVNRVDNMVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDN 210
+G + +R +++ D MVIQAI LD +DK IN R+REWYS HFPEL +++ +
Sbjct: 121 VGVALTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKH 180
Query: 211 YLYARVVKLIEDKSKLTDDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNVQMF 270
Y VK + + + +++ L ++ E+K K+I+EA + +MG + D+ V+
Sbjct: 181 PQYVAFVKTVGHRDNINEEV---LRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQL 237
Query: 271 AQRVMDLSEYRKKLYEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQ 330
A+ + L + RKKL +Y+ M+D+APNL +L+G + ARLIS AG L LA PSST+Q
Sbjct: 238 AEEIDRLYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQ 297
Query: 331 ILGAEKALFRALKTRGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAE 390
+LGAEKALFR L+T PK+G+I+ I R+ +G++AR LA K +IA+R+D F+
Sbjct: 298 VLGAEKALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS- 356
Query: 391 KNTTIFGEKLREQVEERL 408
E+L++++E R+
Sbjct: 357 --GEYIAEELKKELEARI 372
>pdb|3NVK|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|F Chain F, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 376
Score = 186 bits (472), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 102/258 (39%), Positives = 160/258 (62%), Gaps = 6/258 (2%)
Query: 151 LGHSYSRAKVKFNVNRVDNMVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDN 210
+G + +R +++ D MVIQAI LD +DK IN R+REWYS HFPEL +++ +
Sbjct: 121 VGVALTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKH 180
Query: 211 YLYARVVKLIEDKSKLTDDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNVQMF 270
Y VK + + + +++ L ++ E+K K+I+EA + +MG + D+ V+
Sbjct: 181 PQYVAFVKTVGHRDNINEEV---LRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQL 237
Query: 271 AQRVMDLSEYRKKLYEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQ 330
A+ + L + RKKL +Y+ M+D+APNL +L+G + ARLIS AG L LA PSST+Q
Sbjct: 238 AEEIDRLYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQ 297
Query: 331 ILGAEKALFRALKTRGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAE 390
+LGAEKALFR L+T PK+G+I+ I R+ +G++AR LA K +IA+R+D F+
Sbjct: 298 VLGAEKALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS- 356
Query: 391 KNTTIFGEKLREQVEERL 408
E+L++++E R+
Sbjct: 357 --GEYIAEELKKELEARI 372
>pdb|3ICX|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|C Chain C, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
Length = 255
Score = 185 bits (470), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 107/242 (44%), Positives = 160/242 (66%), Gaps = 6/242 (2%)
Query: 168 DNMVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDNYLYARVVKLIEDKSKLT 227
D + IQA+ +D +DK IN FS R+REWYS HFPEL K++ D+ YA +V D+ LT
Sbjct: 4 DLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGFLT 63
Query: 228 DDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNVQMFAQRVMDLSEYRKKLYEY 287
D +L ++ +E + I++A K S+G D+S DL ++M A ++DL R+ L Y
Sbjct: 64 ID---SLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANTILDLYNIRRNLNNY 120
Query: 288 LVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQILGAEKALFRALKTRGN 347
L M ++APN+ +L+G +GARL+S AGSL LAK P+ST+Q+LGAEKALFRAL++ G
Sbjct: 121 LEGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPASTIQVLGAEKALFRALRSGGR 180
Query: 348 TPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAEKNTTIFGEKLREQVEER 407
PK+G+IF I + +G++AR LA K +IA+R+D F+ + G++L EQ+++R
Sbjct: 181 PPKHGIIFQYPAIHTSPRWQRGKIARALAAKLAIAARVDAFSGR---FIGDQLNEQLKKR 237
Query: 408 LD 409
+D
Sbjct: 238 ID 239
>pdb|3NVM|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 371
Score = 176 bits (446), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 100/258 (38%), Positives = 157/258 (60%), Gaps = 14/258 (5%)
Query: 151 LGHSYSRAKVKFNVNRVDNMVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDN 210
+G + +R +++ D MVIQAI LD DIN R+REWYS HFPEL +++ +
Sbjct: 121 VGVALTRMRIQEQSGARDKMVIQAIEALD----DINLLVARLREWYSLHFPELDELLPKH 176
Query: 211 YLYARVVKLIEDKSKLTDDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNVQMF 270
Y VK + + + +++ L ++ E+K K+I+EA + +MG + D+ V+
Sbjct: 177 PQYVAFVKTVGHRDNINEEV---LRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQL 233
Query: 271 AQRVMDLSEYRKKLYEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQ 330
A+ + + RKKL +Y+ M+D+APNL +L+G + ARLIS AG L LA PSST+Q
Sbjct: 234 AEEI----QLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQ 289
Query: 331 ILGAEKALFRALKTRGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAE 390
+LGAEKALFR L+T PK+G+I+ I R+ +G++AR LA K +IA+R+D F+
Sbjct: 290 VLGAEKALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS- 348
Query: 391 KNTTIFGEKLREQVEERL 408
E+L++++E R+
Sbjct: 349 --GEYIAEELKKELEARI 364
>pdb|3GQU|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain
pdb|3GQX|B Chain B, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A
Twinned Crystal Form
pdb|3GQX|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A
Twinned Crystal Form
Length = 169
Score = 112 bits (281), Expect = 4e-25, Method: Composition-based stats.
Identities = 58/125 (46%), Positives = 86/125 (68%), Gaps = 3/125 (2%)
Query: 284 LYEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQILGAEKALFRALK 343
L +Y+ M+D+APNL +L+G +GARLIS AG L LA PSST+Q+LGAEKALFR L+
Sbjct: 22 LEDYIDKAMDDVAPNLKALVGAKLGARLISLAGGLKELAMLPSSTIQVLGAEKALFRHLR 81
Query: 344 TRGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAEKNTTIFGEKLREQ 403
T PK+G+I+ I R+ +G++AR LA K +IA+R+D F+ + E+L+++
Sbjct: 82 TGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFSGE---YIAEELKKE 138
Query: 404 VEERL 408
+E R+
Sbjct: 139 LEARI 143
>pdb|2OZB|B Chain B, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|2OZB|E Chain E, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
Length = 260
Score = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 72/249 (28%), Positives = 132/249 (53%), Gaps = 12/249 (4%)
Query: 170 MVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDNYLYARVVKLIE---DKSKL 226
+++ A L ++ ++N +R+ YS FPEL +V + Y R VK + DK K
Sbjct: 19 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELGNSLDKCKN 78
Query: 227 TDDMVPALTDILGDEDKAKEIVEAGKAS--MGQDLSAVDLVNVQMFAQRVMDLSEYRKKL 284
+++ LT+ A +V + AS GQ LS +L ++ ++L+ + ++
Sbjct: 79 NENLQQILTN-------ATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRI 131
Query: 285 YEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQILGAEKALFRALKT 344
YEY+ ++M+ IAPNL+ +IG A+++ AG LTNL+K P+ + +LGA++ +
Sbjct: 132 YEYVESRMSFIAPNLSIIIGASTAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGFSS 191
Query: 345 RGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAEKNTTIFGEKLREQV 404
P G I+HS + + + AR +A KC++A+R+D F E G +L++++
Sbjct: 192 TSVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCTLAARVDSFHESTEGKVGYELKDEI 251
Query: 405 EERLDFYDK 413
E + D + +
Sbjct: 252 ERKFDKWQE 260
>pdb|3SIU|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIU|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIV|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|H Chain H, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|K Chain K, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
Length = 254
Score = 110 bits (274), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 72/249 (28%), Positives = 132/249 (53%), Gaps = 12/249 (4%)
Query: 170 MVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDNYLYARVVKLIE---DKSKL 226
+++ A L ++ ++N +R+ YS FPEL +V + Y R VK + DK K
Sbjct: 13 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELGNSLDKCKN 72
Query: 227 TDDMVPALTDILGDEDKAKEIVEAGKAS--MGQDLSAVDLVNVQMFAQRVMDLSEYRKKL 284
+++ LT+ A +V + AS GQ LS +L ++ ++L+ + ++
Sbjct: 73 NENLQQILTN-------ATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRI 125
Query: 285 YEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQILGAEKALFRALKT 344
YEY+ ++M+ IAPNL+ +IG A+++ AG LTNL+K P+ + +LGA++ +
Sbjct: 126 YEYVESRMSFIAPNLSIIIGASTAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGFSS 185
Query: 345 RGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAEKNTTIFGEKLREQV 404
P G I+HS + + + AR +A KC++A+R+D F E G +L++++
Sbjct: 186 TSVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCTLAARVDSFHESTEGKVGYELKDEI 245
Query: 405 EERLDFYDK 413
E + D + +
Sbjct: 246 ERKFDKWQE 254
>pdb|3ID6|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5 (1-262)
And Fibrillarin Complex
Length = 268
Score = 99.0 bits (245), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 56/146 (38%), Positives = 86/146 (58%), Gaps = 3/146 (2%)
Query: 151 LGHSYSRAKVKFNVNRVDNMVIQAIFLLDTLDKDINSFSMRVREWYSWHFPELVKIVNDN 210
L Y+R K++ + D + IQA+ +D +DK IN FS R+REWYS HFPEL K++ D+
Sbjct: 120 LSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDH 179
Query: 211 YLYARVVKLIEDKSKLTDDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNVQMF 270
YA +V D+ LT D +L ++ +E + I++A K S+G D+S DL ++M
Sbjct: 180 EEYATIVSRFGDRGFLTID---SLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMI 236
Query: 271 AQRVMDLSEYRKKLYEYLVTKMNDIA 296
A ++DL R+ L YL M ++A
Sbjct: 237 ANTILDLYNIRRNLNNYLEGVMKEVA 262
>pdb|1NT2|B Chain B, Crystal Structure Of FibrillarinNOP5P COMPLEX
Length = 258
Score = 79.0 bits (193), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 61/195 (31%), Positives = 106/195 (54%), Gaps = 10/195 (5%)
Query: 218 KLIEDKSKLTDDMVPALTDILGDEDKAKEIVEAGKASMGQDLSAVDLVNV-QMFAQRVMD 276
K++E + + D V AL L + D++ ++ +D+ AV + + F +++ +
Sbjct: 64 KMVEKELRREDRYVVALVKALEEIDESINMLN----EKLEDIRAVKESEITEKFEKKIRE 119
Query: 277 LSEYRKKLYEYLVTKMNDIAPNLASLIGEVVGARLISHAGSLTNLAKCPSSTLQILGAEK 336
L E R+ + + M IAPN+ L+G V A+L+ AGS+ L + P+S +Q++GAEK
Sbjct: 120 LRELRRDVEREIEEVMEKIAPNMTELVGAKVAAKLLERAGSMERLVRLPASKIQVIGAEK 179
Query: 337 ALFRAL-----KTRGNTPKYGLIFHSSFIGRASARNKGRMARYLANKCSIASRIDCFAEK 391
+L++A + PK+G+IF FI +G+MAR+LA K +IA++ID F +
Sbjct: 180 SLYKAFARMKKGKKAKIPKHGIIFLHPFIRTLPKAKRGKMARFLAAKLAIAAKIDYFRGE 239
Query: 392 NTTIFGEKLREQVEE 406
E +R + EE
Sbjct: 240 IDESLYESIRRRYEE 254
>pdb|2OT8|A Chain A, Karyopherin Beta2TRANSPORTIN-Hnrnpm Nls Complex
pdb|2OT8|B Chain B, Karyopherin Beta2TRANSPORTIN-Hnrnpm Nls Complex
pdb|4FDD|A Chain A, Crystal Structure Of Kap Beta2-Py-Nls
pdb|4H1K|A Chain A, Crystal Structure Of Human Kap-Beta2 Bound To The Nls Of
Saccharomyces Cerevisiae Nab2
Length = 852
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 13/87 (14%)
Query: 54 ESALDALNQ-CNSVSEGLMTNELRNFLELNLPKVKEGKKAKFSLGVSEPKIGSHIFEETK 112
E A AL + C +E L ++ L L + +PK + K S PKI SH
Sbjct: 146 EGAFGALQKICEDSAEILDSDVLDRPLNIMIPKFLQFFKH------SSPKIRSH-----A 194
Query: 113 IPCQSNEFVLELLRGVRLHFDRFIKDL 139
+ C N+F++ + + LH D FI++L
Sbjct: 195 VAC-VNQFIISRTQALMLHIDSFIENL 220
>pdb|2H4M|A Chain A, Karyopherin Beta2TRANSPORTIN-M9nls
pdb|2H4M|B Chain B, Karyopherin Beta2TRANSPORTIN-M9nls
Length = 865
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 13/87 (14%)
Query: 54 ESALDALNQ-CNSVSEGLMTNELRNFLELNLPKVKEGKKAKFSLGVSEPKIGSHIFEETK 112
E A AL + C +E L ++ L L + +PK + K S PKI SH
Sbjct: 146 EGAFGALQKICEDSAEILDSDVLDRPLNIMIPKFLQFFKH------SSPKIRSH-----A 194
Query: 113 IPCQSNEFVLELLRGVRLHFDRFIKDL 139
+ C N+F++ + + LH D FI++L
Sbjct: 195 VAC-VNQFIISRTQALMLHIDSFIENL 220
>pdb|2QMR|A Chain A, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|B Chain B, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|C Chain C, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|D Chain D, Karyopherin Beta2TRANSPORTIN
pdb|2Z5J|A Chain A, Free Transportin 1
pdb|2Z5K|A Chain A, Complex Of Transportin 1 With Tap Nls
pdb|2Z5M|A Chain A, Complex Of Transportin 1 With Tap Nls, Crystal Form 2
pdb|2Z5N|A Chain A, Complex Of Transportin 1 With Hnrnp D Nls
pdb|2Z5O|A Chain A, Complex Of Transportin 1 With Jktbp Nls
Length = 890
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 13/87 (14%)
Query: 54 ESALDALNQ-CNSVSEGLMTNELRNFLELNLPKVKEGKKAKFSLGVSEPKIGSHIFEETK 112
E A AL + C +E L ++ L L + +PK + K S PKI SH
Sbjct: 146 EGAFGALQKICEDSAEILDSDVLDRPLNIMIPKFLQFFKH------SSPKIRSH-----A 194
Query: 113 IPCQSNEFVLELLRGVRLHFDRFIKDL 139
+ C N+F++ + + LH D FI++L
Sbjct: 195 VAC-VNQFIISRTQALMLHIDSFIENL 220
>pdb|1ROV|A Chain A, Lipoxygenase-3 Treated With Cumene Hydroperoxide
Length = 857
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 82/197 (41%), Gaps = 38/197 (19%)
Query: 3 LYLLYETASGY---SLFLAHGLDQIGQNTEAVRSSISDMNRFGKVVQLTAFHPFESALDA 59
+YL + A G+ S FL +GL + QN + S D+N F P E D+
Sbjct: 256 VYLPRDEAFGHLKSSDFLTYGLKSVSQNVLPLLQSAFDLN----------FTPRE--FDS 303
Query: 60 LNQCNSVSEG---LMTNELRNFLELNLPKVKE-----GKKAKFSLGVSEPKIGSHIFEET 111
++ + + G L T+ + L P +KE G++A L PK+ + +
Sbjct: 304 FDEVHGLYSGGIKLPTDIISKISPL--PVLKEIFRTDGEQA---LKFPPPKV----IQVS 354
Query: 112 KIPCQSNE-FVLELLRGVRLHFDRFIKDLKPGDLEKAQLGLGHSYSRAKVKFNVNRVDNM 170
K ++E F E+L GV + R +KD P +Q+ H+ K N
Sbjct: 355 KSAWMTDEEFAREMLAGVNPNLIRCLKDFPPRSKLDSQVYGDHTSQITKEHLEPNLEGLT 414
Query: 171 VIQAI-----FLLDTLD 182
V +AI FLLD D
Sbjct: 415 VDEAIQNKRLFLLDHHD 431
>pdb|1IK3|A Chain A, Lipoxygenase-3 (Soybean) Complex With 13(S)-Hydroperoxy-
9(Z),11(E)-Octadecadienoic Acid
pdb|1HU9|A Chain A, Lipoxygenase-3 (Soybean) Complex With 4-Hydroperoxy-2-
Methoxy-Phenol
pdb|1JNQ|A Chain A, Lipoxygenase-3 (Soybean) Complex With Epigallocathechin
(Egc)
pdb|1N8Q|A Chain A, Lipoxygenase In Complex With Protocatechuic Acid
pdb|1NO3|A Chain A, Refined Structure Of Soybean Lipoxygenase-3 With
4-nitrocatechol At 2.15 Angstrom Resolution
pdb|1RRH|A Chain A, Soybean Lipoxygenase (Lox-3) At Ambient Temperatures At
2.0 A Resolution
pdb|1RRL|A Chain A, Soybean Lipoxygenase (Lox-3) At 93k At 2.0 A Resolution
pdb|1RRL|B Chain B, Soybean Lipoxygenase (Lox-3) At 93k At 2.0 A Resolution
pdb|1LNH|A Chain A, Lipoxygenase-3(Soybean) Non-Heme Fe(Ii) Metalloprotein
Length = 857
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 82/197 (41%), Gaps = 38/197 (19%)
Query: 3 LYLLYETASGY---SLFLAHGLDQIGQNTEAVRSSISDMNRFGKVVQLTAFHPFESALDA 59
+YL + A G+ S FL +GL + QN + S D+N F P E D+
Sbjct: 256 VYLPRDEAFGHLKSSDFLTYGLKSVSQNVLPLLQSAFDLN----------FTPRE--FDS 303
Query: 60 LNQCNSVSEG---LMTNELRNFLELNLPKVKE-----GKKAKFSLGVSEPKIGSHIFEET 111
++ + + G L T+ + L P +KE G++A L PK+ + +
Sbjct: 304 FDEVHGLYSGGIKLPTDIISKISPL--PVLKEIFRTDGEQA---LKFPPPKV----IQVS 354
Query: 112 KIPCQSNE-FVLELLRGVRLHFDRFIKDLKPGDLEKAQLGLGHSYSRAKVKFNVNRVDNM 170
K ++E F E+L GV + R +KD P +Q+ H+ K N
Sbjct: 355 KSAWMTDEEFAREMLAGVNPNLIRCLKDFPPRSKLDSQVYGDHTSQITKEHLEPNLEGLT 414
Query: 171 VIQAI-----FLLDTLD 182
V +AI FLLD D
Sbjct: 415 VDEAIQNKRLFLLDHHD 431
>pdb|3AL0|B Chain B, Crystal Structure Of The Glutamine Transamidosome From
Thermotoga Maritima In The Glutamylation State
Length = 482
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 62/149 (41%), Gaps = 28/149 (18%)
Query: 53 FESALDALNQCNSVSEGLMTNELRNFLELNLPKVKEGK--------------KAKFSLGV 98
FE + +N+ +S +MT LR E N+ ++ E K + K S+ +
Sbjct: 334 FEECVKVVNRPKDLSNWIMTEVLRELNERNI-EITESKLTPQHFADLFKLMDEGKISIKI 392
Query: 99 SEPKIGSHIFEETKIPCQSNE-----------FVLELLRGVRLHFDRFIKDLKPGDLEKA 147
++ +I +FE K+P Q E + EL++ + ++D K G + A
Sbjct: 393 AK-EIFPEVFETGKMPSQIVEEKGLTQINDEKLIEELVKKAMEQNPKAVQDYKSGKKKAA 451
Query: 148 QLGLGHSYSRAKVKFNVNRVDNMVIQAIF 176
+G+ K K N + N +IQ +
Sbjct: 452 GFFVGYVMRETKGKAN-PELTNRIIQKLL 479
>pdb|1QBK|B Chain B, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear
Transport Complex
Length = 890
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 13/87 (14%)
Query: 54 ESALDALNQ-CNSVSEGLMTNELRNFLELNLPKVKEGKKAKFSLGVSEPKIGSHIFEETK 112
E A AL + C +E L ++ L L + +PK + K S PKI SH
Sbjct: 146 EGAFGALQKICEDSAEILDSDVLDRPLNIXIPKFLQFFKH------SSPKIRSH-----A 194
Query: 113 IPCQSNEFVLELLRGVRLHFDRFIKDL 139
+ C N+F++ + + LH D F ++L
Sbjct: 195 VAC-VNQFIISRTQALXLHIDSFTENL 220
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.133 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,709,905
Number of Sequences: 62578
Number of extensions: 515766
Number of successful extensions: 1300
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1274
Number of HSP's gapped (non-prelim): 23
length of query: 553
length of database: 14,973,337
effective HSP length: 104
effective length of query: 449
effective length of database: 8,465,225
effective search space: 3800886025
effective search space used: 3800886025
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)