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= psy12632
(395 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PT3|A Chain A, Crystal Structure Of The C-Terminal Lobe Of The Human Ubr5
Hect Domain
pdb|3PT3|B Chain B, Crystal Structure Of The C-Terminal Lobe Of The Human Ubr5
Hect Domain
Length = 118
Score = 192 bits (489), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 87/114 (76%), Positives = 101/114 (88%)
Query: 282 NVTVLISYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDLVYFWTGSPALPASEDG 341
+V +LIS+TSF DESGE +E+L++FKRW WSIVEKM+ ER DLVYFWT SP+LPASE+G
Sbjct: 5 SVQMLISFTSFNDESGENAEKLLQFKRWFWSIVEKMSMTERQDLVYFWTSSPSLPASEEG 64
Query: 342 FQPMPSVTIRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIKTKNFGFV 395
FQPMPS+TIRP DD HLPTANTCISRLY+PLYSS+ L+ KLLLAIKTKNFGFV
Sbjct: 65 FQPMPSITIRPPDDQHLPTANTCISRLYVPLYSSKQILKQKLLLAIKTKNFGFV 118
Score = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 57/69 (82%), Positives = 63/69 (91%)
Query: 180 VYFWTGSPALPASEDGFQPMPSVTIRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLL 239
VYFWT SP+LPASE+GFQPMPS+TIRP DD HLPTANTCISRLY+PLYSS+ L+ KLLL
Sbjct: 49 VYFWTSSPSLPASEEGFQPMPSITIRPPDDQHLPTANTCISRLYVPLYSSKQILKQKLLL 108
Query: 240 AIKTKNFGF 248
AIKTKNFGF
Sbjct: 109 AIKTKNFGF 117
>pdb|3H1D|A Chain A, Structure Of The Huwe1 Hect Domain
Length = 405
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 67/300 (22%), Positives = 117/300 (39%), Gaps = 73/300 (24%)
Query: 7 YSASLCSPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFD 66
Y+ + S A+ ++ F+ GRI+ + N L + R K+ILG+ +R+ D+ D
Sbjct: 122 YTINPSSHANPNHLSYFKFVGRIVAKAVYDNRLLECYFTRSFYKHILGKSVRYTDMESED 181
Query: 67 PVMYESL------------------------------------RQLVVDSENKN------ 84
Y+ L ++V ENK
Sbjct: 182 YHFYQGLVYLLENDVSTLGYDLTFSTEVQEFGVAEVRDLKPNGANILVTEENKKEYVHLV 241
Query: 85 --------LTSLFSAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISIDMCTE 136
+ +A G ++++P + T ++ LL++G+ I++ L S +
Sbjct: 242 CQMRMTGAIRKQLAAFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNTEYHK 301
Query: 137 EGGGSIELVPGGRDLEVTSSNVYDYVRKYAETRMFKSQVKAIEVYFWTGSPALP----AS 192
SI++ R L R F +A + F TG+ +P A+
Sbjct: 302 YQSNSIQIQWFWRAL-----------------RSFDQADRAKFLQFVTGTSKVPLQGFAA 344
Query: 193 EDGFQPMPSVTIRPADDA--HLPTANTCISRLYIPLYSSRATLRHKLLLAIKTKNFGFAI 250
+G + I D + LP+A+TC ++L +P Y S LRH LLLAI+ + GF +
Sbjct: 345 LEGMNGIQKFQIHRDDRSTDRLPSAHTCFNQLDLPAYESFEKLRHMLLLAIQEASEGFGL 404
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 41/152 (26%), Positives = 72/152 (47%), Gaps = 11/152 (7%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 308
A G ++++P + T ++ LL++G+ I++ L S T + + +
Sbjct: 256 AFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNTEYHKYQSNSIQ-----IQ 310
Query: 309 WLWSIVEKMTHLERMDLVYFWTGSPALP----ASEDGFQPMPSVTIRPADDA--HLPTAN 362
W W + +R + F TG+ +P A+ +G + I D + LP+A+
Sbjct: 311 WFWRALRSFDQADRAKFLQFVTGTSKVPLQGFAALEGMNGIQKFQIHRDDRSTDRLPSAH 370
Query: 363 TCISRLYIPLYSSRATLRHKLLLAIKTKNFGF 394
TC ++L +P Y S LRH LLLAI+ + GF
Sbjct: 371 TCFNQLDLPAYESFEKLRHMLLLAIQEASEGF 402
>pdb|3G1N|A Chain A, Catalytic Domain Of The Human E3 Ubiquitin-Protein Ligase
Huwe1
pdb|3G1N|B Chain B, Catalytic Domain Of The Human E3 Ubiquitin-Protein Ligase
Huwe1
Length = 388
Score = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 67/298 (22%), Positives = 116/298 (38%), Gaps = 76/298 (25%)
Query: 9 ASLCSPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDPV 68
+S C+P ++ F+ GRI+ + N L + R K+ILG+ +R+ D+ D
Sbjct: 110 SSHCNP---NHLSYFKFVGRIVAKAVYDNRLLECYFTRSFYKHILGKSVRYTDMESEDYH 166
Query: 69 MYESL------------------------------------RQLVVDSENKN-------- 84
Y+ L ++V ENK
Sbjct: 167 FYQGLVYLLENDVSTLGYDLTFSTEVQEFGVCEVRDLKPNGANILVTEENKKEYVHLVCQ 226
Query: 85 ------LTSLFSAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISIDMCTEEG 138
+ +A G ++++P + T ++ LL++G+ I++ L S +
Sbjct: 227 MRMTGAIRKQLAAFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNTEYHKYQ 286
Query: 139 GGSIELVPGGRDLEVTSSNVYDYVRKYAETRMFKSQVKAIEVYFWTGSPALP----ASED 194
SI++ R L R F +A + F TG+ +P A+ +
Sbjct: 287 SNSIQIQWFWRAL-----------------RSFDQADRAKFLQFVTGTSKVPLQGFAALE 329
Query: 195 GFQPMPSVTIRPADDA--HLPTANTCISRLYIPLYSSRATLRHKLLLAIKTKNFGFAI 250
G + I D + LP+A+TC ++L +P Y S LRH LLLAI+ + GF +
Sbjct: 330 GMNGIQKFQIHRDDRSTDRLPSAHTCFNQLDLPAYESFEKLRHMLLLAIQECSEGFGL 387
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 41/152 (26%), Positives = 72/152 (47%), Gaps = 11/152 (7%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 308
A G ++++P + T ++ LL++G+ I++ L S T + + +
Sbjct: 239 AFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNTEYHKYQSNSIQ-----IQ 293
Query: 309 WLWSIVEKMTHLERMDLVYFWTGSPALP----ASEDGFQPMPSVTIRPADDA--HLPTAN 362
W W + +R + F TG+ +P A+ +G + I D + LP+A+
Sbjct: 294 WFWRALRSFDQADRAKFLQFVTGTSKVPLQGFAALEGMNGIQKFQIHRDDRSTDRLPSAH 353
Query: 363 TCISRLYIPLYSSRATLRHKLLLAIKTKNFGF 394
TC ++L +P Y S LRH LLLAI+ + GF
Sbjct: 354 TCFNQLDLPAYESFEKLRHMLLLAIQECSEGF 385
>pdb|1ZVD|A Chain A, Regulation Of Smurf2 Ubiquitin Ligase Activity By
Anchoring The E2 To The Hect Domain
Length = 380
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 45/148 (30%), Positives = 68/148 (45%), Gaps = 15/148 (10%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 308
A++ G +V+P L+ ++ L++ G+G I+V T + P ++K
Sbjct: 232 ALQKGFNEVIPQHLLKTFDEKELELIICGLGKIDVNDWKVNTRL--KHCTPDSNIVK--- 286
Query: 309 WLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQPMPSV------TIRPADDA--HLPT 360
W W VE R L+ F TGS +P GF+ + TI D +LP
Sbjct: 287 WFWKAVEFFDEERRARLLQFVTGSSRVPLQ--GFKALQGAAGPRLFTIHQIDACTNNLPK 344
Query: 361 ANTCISRLYIPLYSSRATLRHKLLLAIK 388
A+TC +R+ IP Y S L KLL AI+
Sbjct: 345 AHTCFNRIDIPPYESYEKLYEKLLTAIE 372
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 69/298 (23%), Positives = 109/298 (36%), Gaps = 83/298 (27%)
Query: 13 SPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDPVMYES 72
S + E ++ F GRI G + K +LG+ I D DP ++ S
Sbjct: 105 SAVNPEHLSYFHFVGRIXGXAVFHGHYIDGGFTLPFYKQLLGKSITLDDXELVDPDLHNS 164
Query: 73 L-----------------------------------RQLVVDSENKN------------- 84
L + + V+ ENK
Sbjct: 165 LVWILENDITGVLDHTFCVEHNAYGEIIQHELKPNGKSIPVNEENKKEYVRLYVNWRFLR 224
Query: 85 -LTSLFSAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVT---VLISIDMCTEEGGG 140
+ + F A++ G +V+P L+ ++ L++ G+G I+V V + CT
Sbjct: 225 GIEAQFLALQKGFNEVIPQHLLKTFDEKELELIICGLGKIDVNDWKVNTRLKHCT----- 279
Query: 141 SIELVPGGRDLEVTSSNVYDYVRKYAETRMFKSQVKAIEVYFWTGSPALPASEDGFQPMP 200
SN+ + K E F + +A + F TGS +P GF+ +
Sbjct: 280 -------------PDSNIVKWFWKAVE--FFDEERRARLLQFVTGSSRVPLQ--GFKALQ 322
Query: 201 SV------TIRPADDA--HLPTANTCISRLYIPLYSSRATLRHKLLLAIKTKNFGFAI 250
TI D +LP A+TC +R+ IP Y S L KLL AI+ + GFA+
Sbjct: 323 GAAGPRLFTIHQIDACTNNLPKAHTCFNRIDIPPYESYEKLYEKLLTAIE-ETCGFAV 379
>pdb|2XBB|A Chain A, Nedd4 Hect:ub Complex
pdb|2XBB|B Chain B, Nedd4 Hect:ub Complex
pdb|2XBF|A Chain A, Nedd4 Hect Structure
Length = 386
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 41/148 (27%), Positives = 72/148 (48%), Gaps = 13/148 (8%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 308
A + G F+++P ++ + LL+ G+GD++V +T + ++G + + +
Sbjct: 237 AFKEGFFELIPQDLIKIFDENELELLMCGLGDVDVNDWREHTKY--KNGYSANHQVI--Q 292
Query: 309 WLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQPM------PSVTIRP-ADDAHLPTA 361
W W V M +R+ L+ F TG+ +P +GF + S T+ LP A
Sbjct: 293 WFWKAVLMMDSEKRIRLLQFVTGTSRVPM--NGFAELYGSNGPQSFTVEQWGTPEKLPRA 350
Query: 362 NTCISRLYIPLYSSRATLRHKLLLAIKT 389
+TC +RL +P Y S L KL +AI+
Sbjct: 351 HTCFNRLDLPPYESFEELWDKLQMAIEN 378
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 63/291 (21%), Positives = 111/291 (38%), Gaps = 76/291 (26%)
Query: 8 SASLCSPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDP 67
++ LC+ + ++ F+ GR+ G+ + +L F R K +L +PI HD+ D
Sbjct: 109 NSGLCNE---DHLSYFKFIGRVAGMAVYHGKLLDGFFIRPFYKMMLHKPITLHDMESVDS 165
Query: 68 VMYESLR------------QLVVDSE--------------------NKN----------- 84
Y SLR + ++D E NKN
Sbjct: 166 EYYNSLRWILENDPTELDLRFIIDEELFGQTHQHELKNGGSEIVVTNKNKKEYIYLVIQW 225
Query: 85 -----LTSLFSAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISIDMCTEEGG 139
+ +A + G F+++P ++ + LL+ G+GD++V + + G
Sbjct: 226 RFVNRIQKQMAAFKEGFFELIPQDLIKIFDENELELLMCGLGDVDVNDW--REHTKYKNG 283
Query: 140 GSIELVPGGRDLEVTSSNVYDYVRKYAETRMFKSQVKAIEVYFWTGSPALPASEDGFQPM 199
S + V + + M S+ + + F TG+ +P +GF +
Sbjct: 284 YS------------ANHQVIQWF--WKAVLMMDSEKRIRLLQFVTGTSRVPM--NGFAEL 327
Query: 200 ------PSVTIRP-ADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIKT 243
S T+ LP A+TC +RL +P Y S L KL +AI+
Sbjct: 328 YGSNGPQSFTVEQWGTPEKLPRAHTCFNRLDLPPYESFEELWDKLQMAIEN 378
>pdb|3TUG|A Chain A, Crystal Structure Of The Hect Domain Of Itch E3 Ubiquitin
Ligase
Length = 398
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 41/153 (26%), Positives = 74/153 (48%), Gaps = 15/153 (9%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 308
A G +++P L+ ++ +LL G+ +I++ + + S++++
Sbjct: 251 AFFEGFNEILPQQYLQYFDAKELEVLLCGMQEIDLNDWQRHAIY-RRYARTSKQIM---- 305
Query: 309 WLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQ-------PMPSVTIRPADDAHLPTA 361
W W V+++ + +RM L+ F TG+ LP GF P + + LP +
Sbjct: 306 WFWQFVKEIDNEKRMRLLQFVTGTCRLPVG--GFADLMGSNGPQKFCIEKVGKENWLPRS 363
Query: 362 NTCISRLYIPLYSSRATLRHKLLLAI-KTKNFG 393
+TC +RL +P Y S L+ KLL AI +T+ FG
Sbjct: 364 HTCFNRLDLPPYKSYEQLKEKLLFAIEETEGFG 396
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 66/282 (23%), Positives = 111/282 (39%), Gaps = 52/282 (18%)
Query: 13 SPASY---ERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDPVM 69
+PASY + + FR GR + + L + + K IL +P+ DL DP
Sbjct: 120 NPASYINPDHLKYFRFIGRFIAMALFHGKFIDTGFSLPFYKRILNKPVGLKDLESIDPEF 179
Query: 70 YESLRQLVVDSENKNLTSLFSAIRAGIFDVVPASCLENLTPEDFRLLL---NGVGDINVT 126
Y SL + ++ + ++ ++ I + + +L P +L+ N I +
Sbjct: 180 YNSLIWVKENNIEECDLEMYFSVDKEILGEIKSH---DLKPNGGNILVTEENKEEYIRMV 236
Query: 127 VLISIDMCTEEG-----GGSIELVP-----------------GGRDLEVTSSNVYDYVRK 164
+ EE G E++P G +++++ + R+
Sbjct: 237 AEWRLSRGVEEQTQAFFEGFNEILPQQYLQYFDAKELEVLLCGMQEIDLNDWQRHAIYRR 296
Query: 165 YAETR----MFKSQVKAIE-------VYFWTGSPALPASEDGFQ-------PMPSVTIRP 206
YA T F VK I+ + F TG+ LP GF P +
Sbjct: 297 YARTSKQIMWFWQFVKEIDNEKRMRLLQFVTGTCRLPVG--GFADLMGSNGPQKFCIEKV 354
Query: 207 ADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAI-KTKNFG 247
+ LP ++TC +RL +P Y S L+ KLL AI +T+ FG
Sbjct: 355 GKENWLPRSHTCFNRLDLPPYKSYEQLKEKLLFAIEETEGFG 396
>pdb|3OLM|A Chain A, Structure And Function Of A Ubiquitin Binding Site Within
The Catalytic Domain Of A Hect Ubiquitin Ligase
Length = 429
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 46/214 (21%), Positives = 95/214 (44%), Gaps = 24/214 (11%)
Query: 188 ALPASEDGFQPMPSVTIRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIKTKNFG 247
A ++ F + +V ++P D + Y+ LY+ + + + +
Sbjct: 230 TFSADDERFGEVVTVDLKP--DGRNIEVTDGNKKEYVELYT-------QWRIVDRVQEQF 280
Query: 248 FAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFK 307
A G +++P + + LL+ G+ +I++ +T + + S+ +I+
Sbjct: 281 KAFMDGFNELIPEDLVTVFDERELELLIGGIAEIDIEDWKKHTDY--RGYQESDEVIQ-- 336
Query: 308 RWLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQPMPS------VTIRPADD-AHLPT 360
W W V + + +R L+ F TG+ +P + GF+ + TI A + LP
Sbjct: 337 -WFWKCVSEWDNEQRARLLQFTTGTSRIPVN--GFKDLQGSDGPRRFTIEKAGEVQQLPK 393
Query: 361 ANTCISRLYIPLYSSRATLRHKLLLAI-KTKNFG 393
++TC +R+ +P Y +++ KL LA+ +T FG
Sbjct: 394 SHTCFNRVDLPQYVDYDSMKQKLTLAVEETIGFG 427
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 61/281 (21%), Positives = 114/281 (40%), Gaps = 64/281 (22%)
Query: 18 ERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDPVMYESLRQLV 77
E +N F+ GR++GL + F + K +L + + D+ D +Y SL ++
Sbjct: 160 EHLNYFKFIGRVVGLGVFHRRFLDAFFVGALYKMMLRKKVVLQDMEGVDAEVYNSLNWML 219
Query: 78 VDSENKNLTSLFSAIRAGIFDVVPASC-------------------------LENLTPED 112
+S + L FSA +VV + + E
Sbjct: 220 ENSIDGVLDLTFSADDERFGEVVTVDLKPDGRNIEVTDGNKKEYVELYTQWRIVDRVQEQ 279
Query: 113 FRLLLNGVGDINVTVLISIDMCTEEGGGSIELVPGGRDLEVTSSNVYDYVRKYAETRMFK 172
F+ ++G + LI D+ T +EL+ GG + ++ D+ +K+ + R ++
Sbjct: 280 FKAFMDGFNE-----LIPEDLVTVFDERELELLIGG----IAEIDIEDW-KKHTDYRGYQ 329
Query: 173 SQVKAIEVYFW------------------TGSPALPASEDGFQPMPS------VTIRPAD 208
+ I+ +FW TG+ +P + GF+ + TI A
Sbjct: 330 ESDEVIQ-WFWKCVSEWDNEQRARLLQFTTGTSRIPVN--GFKDLQGSDGPRRFTIEKAG 386
Query: 209 D-AHLPTANTCISRLYIPLYSSRATLRHKLLLAI-KTKNFG 247
+ LP ++TC +R+ +P Y +++ KL LA+ +T FG
Sbjct: 387 EVQQLPKSHTCFNRVDLPQYVDYDSMKQKLTLAVEETIGFG 427
>pdb|1ND7|A Chain A, Conformational Flexibility Underlies Ubiquitin Ligation
Mediated By The Wwp1 Hect Domain E3 Ligase
Length = 374
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 44/153 (28%), Positives = 70/153 (45%), Gaps = 26/153 (16%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINV------TVLISYTSFIDESGEPSER 302
A G +VVP L+ ++ ++L G+ ++++ TV YT S++
Sbjct: 232 AFLDGFNEVVPLQWLQYFDEKELEVMLCGMQEVDLADWQRNTVYRHYT-------RNSKQ 284
Query: 303 LIKFKRWLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQ-------PMPSVTIRPADD 355
+I W W V++ + RM L+ F TG+ LP GF P + D
Sbjct: 285 II----WFWQFVKETDNEVRMRLLQFVTGTCRLPLG--GFAELMGSNGPQKFCIEKVGKD 338
Query: 356 AHLPTANTCISRLYIPLYSSRATLRHKLLLAIK 388
LP ++TC +RL +P Y S L+ KLL AI+
Sbjct: 339 TWLPRSHTCFNRLDLPPYKSYEQLKEKLLFAIE 371
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 37/160 (23%), Positives = 64/160 (40%), Gaps = 26/160 (16%)
Query: 90 SAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISIDMCTEEGGGSIELVPGGR 149
A G +VVP L+ ++ ++L G+ ++++ + R
Sbjct: 231 KAFLDGFNEVVPLQWLQYFDEKELEVMLCGMQEVDL--------------ADWQRNTVYR 276
Query: 150 DLEVTSSNVYDYVRKYAETRMFKSQVKAIEVYFWTGSPALPASEDGFQ-------PMPSV 202
S + + + ET ++V+ + F TG+ LP GF P
Sbjct: 277 HYTRNSKQIIWFWQFVKET---DNEVRMRLLQFVTGTCRLPLG--GFAELMGSNGPQKFC 331
Query: 203 TIRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIK 242
+ D LP ++TC +RL +P Y S L+ KLL AI+
Sbjct: 332 IEKVGKDTWLPRSHTCFNRLDLPPYKSYEQLKEKLLFAIE 371
>pdb|1C4Z|A Chain A, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|B Chain B, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|C Chain C, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1D5F|A Chain A, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|B Chain B, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|C Chain C, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
Length = 358
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 46/149 (30%), Positives = 69/149 (46%), Gaps = 7/149 (4%)
Query: 249 AIRAGIFDVVPASCLENL-TPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFK 307
A R G V S L+ L PE+ LL+ G +++ L T + + G + ++
Sbjct: 215 AFRRGFHMVTNESPLKYLFRPEEIELLICGSRNLDFQALEETTEY--DGGYTRDSVLI-- 270
Query: 308 RWLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQPMPSVTIRPADDAHLPTANTCISR 367
R W IV T ++ + F TG+ P G M P D LPT++TC +
Sbjct: 271 REFWEIVHSFTDEQKRLFLQFTTGTDRAPVGGLGKLKMIIAKNGP-DTERLPTSHTCFNV 329
Query: 368 LYIPLYSSRATLRHKLLLAIK-TKNFGFV 395
L +P YSS+ L+ +LL AI K FG +
Sbjct: 330 LLLPEYSSKEKLKERLLKAITYAKGFGML 358
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 72/290 (24%), Positives = 114/290 (39%), Gaps = 73/290 (25%)
Query: 13 SPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLA--------- 63
+P+S+E F G +LGL + N + + V + ++G+ F DL
Sbjct: 85 NPSSFETEGQFTLIGIVLGLAIYNNCILDVHFPMVVYRKLMGKKGTFRDLGDSHPVLYQS 144
Query: 64 --------------------------FFDPVMY---ESLRQLVVDSEN------------ 82
F +P+MY E+ ++ + +EN
Sbjct: 145 LKDLLEYEGNVEDDMMITFQISQTDLFGNPMMYDLKENGDKIPITNENRKEFVNLYSDYI 204
Query: 83 --KNLTSLFSAIRAGIFDVVPASCLENL-TPEDFRLLLNGVGDINVTVLISIDMCTEEGG 139
K++ F A R G V S L+ L PE+ LL+ G +++ L + TE G
Sbjct: 205 LNKSVEKQFKAFRRGFHMVTNESPLKYLFRPEEIELLICGSRNLDFQAL---EETTEYDG 261
Query: 140 GSIELVPGGRDLEVTSSNVYDYVRKYAE-TRMFKSQVKAIEVYFWTGSPALPASEDGFQP 198
G T +V +R++ E F + K + + F TG+ P G
Sbjct: 262 G------------YTRDSVL--IREFWEIVHSFTDEQKRLFLQFTTGTDRAPVGGLGKLK 307
Query: 199 MPSVTIRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIK-TKNFG 247
M P D LPT++TC + L +P YSS+ L+ +LL AI K FG
Sbjct: 308 MIIAKNGP-DTERLPTSHTCFNVLLLPEYSSKEKLKERLLKAITYAKGFG 356
>pdb|3JVZ|C Chain C, E2~ubiquitin-Hect
pdb|3JVZ|D Chain D, E2~ubiquitin-Hect
Length = 385
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 71/149 (47%), Gaps = 15/149 (10%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGE-PSERLIKFK 307
A G +++P ++ + LL+ G+GD++V ++ I ++G P+ +I+
Sbjct: 236 AFLEGFTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHS--IYKNGYCPNHPVIQ-- 291
Query: 308 RWLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQ-------PMPSVTIRPADDAHLPT 360
W W V M +R+ L+ F TG+ +P +GF P + LP
Sbjct: 292 -WFWKAVLLMDAEKRIRLLQFVTGTSRVPM--NGFAELYGSNGPQLFTIEQWGSPEKLPR 348
Query: 361 ANTCISRLYIPLYSSRATLRHKLLLAIKT 389
A+T +RL +P Y + LR KLL+A++
Sbjct: 349 AHTAFNRLDLPPYETFEDLREKLLMAVEN 377
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 63/280 (22%), Positives = 106/280 (37%), Gaps = 54/280 (19%)
Query: 8 SASLCSPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDP 67
++ LC+ + ++ F GR+ GL + +L F R K +LG+ I +D+ D
Sbjct: 108 NSGLCNE---DHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDS 164
Query: 68 VMYESLRQLV------------VDSENKNLTSLFSAIRAG------------IFDVVPAS 103
Y SL+ ++ +D EN T G D+V
Sbjct: 165 EYYNSLKWILENDPTELDLMFCIDEENFGQTYQVDLKPNGSEIMVTNENKREYIDLVIQW 224
Query: 104 CLENLTPEDFRLLLNGVGDINVTVLISIDMCTEEGGGSIELVPGG-RDLEVT---SSNVY 159
N + L G T L+ ID+ +EL+ G D++V ++Y
Sbjct: 225 RFVNRVQKQMNAFLEG-----FTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHSIY 279
Query: 160 D--YVRKYAETRMFKSQVKAIE-------VYFWTGSPALPASEDGFQ-------PMPSVT 203
Y + + F V ++ + F TG+ +P +GF P
Sbjct: 280 KNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPM--NGFAELYGSNGPQLFTI 337
Query: 204 IRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIKT 243
+ LP A+T +RL +P Y + LR KLL+A++
Sbjct: 338 EQWGSPEKLPRAHTAFNRLDLPPYETFEDLREKLLMAVEN 377
>pdb|3JW0|C Chain C, E2~ubiquitin-Hect
pdb|3JW0|D Chain D, E2~ubiquitin-Hect
Length = 385
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 71/149 (47%), Gaps = 15/149 (10%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGE-PSERLIKFK 307
A G +++P ++ + LL+ G+GD++V ++ I ++G P+ +I+
Sbjct: 236 AFLEGFTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHS--IYKNGYCPNHPVIQ-- 291
Query: 308 RWLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQ-------PMPSVTIRPADDAHLPT 360
W W V M +R+ L+ F TG+ +P +GF P + LP
Sbjct: 292 -WFWKAVLLMDAEKRIRLLQFVTGTSRVPM--NGFAELYGSNGPQLFTIEQWGSPEKLPR 348
Query: 361 ANTCISRLYIPLYSSRATLRHKLLLAIKT 389
A+T +RL +P Y + LR KLL+A++
Sbjct: 349 AHTSFNRLDLPPYETFEDLREKLLMAVEN 377
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 63/280 (22%), Positives = 106/280 (37%), Gaps = 54/280 (19%)
Query: 8 SASLCSPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDP 67
++ LC+ + ++ F GR+ GL + +L F R K +LG+ I +D+ D
Sbjct: 108 NSGLCNE---DHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDS 164
Query: 68 VMYESLRQLV------------VDSENKNLTSLFSAIRAG------------IFDVVPAS 103
Y SL+ ++ +D EN T G D+V
Sbjct: 165 EYYNSLKWILENDPTELDLMFCIDEENFGQTYQVDLKPNGSEIMVTNENKREYIDLVIQW 224
Query: 104 CLENLTPEDFRLLLNGVGDINVTVLISIDMCTEEGGGSIELVPGG-RDLEVT---SSNVY 159
N + L G T L+ ID+ +EL+ G D++V ++Y
Sbjct: 225 RFVNRVQKQMNAFLEG-----FTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHSIY 279
Query: 160 D--YVRKYAETRMFKSQVKAIE-------VYFWTGSPALPASEDGFQ-------PMPSVT 203
Y + + F V ++ + F TG+ +P +GF P
Sbjct: 280 KNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPM--NGFAELYGSNGPQLFTI 337
Query: 204 IRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIKT 243
+ LP A+T +RL +P Y + LR KLL+A++
Sbjct: 338 EQWGSPEKLPRAHTSFNRLDLPPYETFEDLREKLLMAVEN 377
>pdb|2ONI|A Chain A, Catalytic Domain Of The Human Nedd4-Like E3 Ligase
Length = 392
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 69/149 (46%), Gaps = 15/149 (10%)
Query: 249 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGE-PSERLIKFK 307
A G +++P ++ + LL G+GD++V ++ I ++G P+ +I+
Sbjct: 251 AFLEGFTELLPIDLIKIFDENELELLXCGLGDVDVNDWRQHS--IYKNGYCPNHPVIQ-- 306
Query: 308 RWLWSIVEKMTHLERMDLVYFWTGSPALPASEDGFQ-------PMPSVTIRPADDAHLPT 360
W W V +R+ L+ F TG+ +P +GF P + LP
Sbjct: 307 -WFWKAVLLXDAEKRIRLLQFVTGTSRVPX--NGFAELYGSNGPQLFTIEQWGSPEKLPR 363
Query: 361 ANTCISRLYIPLYSSRATLRHKLLLAIKT 389
A+TC +RL +P Y + LR KLL A++
Sbjct: 364 AHTCFNRLDLPPYETFEDLREKLLXAVEN 392
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 62/280 (22%), Positives = 106/280 (37%), Gaps = 54/280 (19%)
Query: 8 SASLCSPASYERINAFRNTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDP 67
++ LC+ + ++ F GR+ GL + +L F R K LG+ I +D D
Sbjct: 123 NSGLCNE---DHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYKXXLGKQITLNDXESVDS 179
Query: 68 VMYESLRQLV------------VDSENKNLT------------SLFSAIRAGIFDVVPAS 103
Y SL+ ++ +D EN T + + + D+V
Sbjct: 180 EYYNSLKWILENDPTELDLXFCIDEENFGQTYQVDLKPNGSEIXVTNENKREYIDLVIQW 239
Query: 104 CLENLTPEDFRLLLNGVGDINVTVLISIDMCTEEGGGSIELVPGG-RDLEVT---SSNVY 159
N + L G T L+ ID+ +EL+ G D++V ++Y
Sbjct: 240 RFVNRVQKQXNAFLEGF-----TELLPIDLIKIFDENELELLXCGLGDVDVNDWRQHSIY 294
Query: 160 D--------YVRKYAETRMFKSQVKAIEV-YFWTGSPALPASEDGFQ-------PMPSVT 203
++ + + + K I + F TG+ +P +GF P
Sbjct: 295 KNGYCPNHPVIQWFWKAVLLXDAEKRIRLLQFVTGTSRVPX--NGFAELYGSNGPQLFTI 352
Query: 204 IRPADDAHLPTANTCISRLYIPLYSSRATLRHKLLLAIKT 243
+ LP A+TC +RL +P Y + LR KLL A++
Sbjct: 353 EQWGSPEKLPRAHTCFNRLDLPPYETFEDLREKLLXAVEN 392
>pdb|1JVM|A Chain A, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Rubidium
pdb|1JVM|B Chain B, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Rubidium
pdb|1JVM|C Chain C, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Rubidium
pdb|1JVM|D Chain D, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Rubidium
Length = 125
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 37 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 87
>pdb|3STZ|C Chain C, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 102
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 15 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLCPVTLW 65
>pdb|2NLJ|C Chain C, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
Length = 124
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 37 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 87
>pdb|2HJF|C Chain C, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2DWD|C Chain C, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|C Chain C, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
Length = 103
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 16 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 66
>pdb|1K4D|C Chain C, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|C Chain C, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|C Chain C, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|C Chain C, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|C Chain C, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|C Chain C, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|2BOB|C Chain C, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|C Chain C, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|2HVJ|C Chain C, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|C Chain C, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|C Chain C, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|C Chain C, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|3GB7|C Chain C, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|C Chain C, Potassium Channel Kcsa-Fab Complex In Li+ And K+
Length = 124
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 37 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 87
>pdb|3STL|C Chain C, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
Length = 103
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 16 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLCPVTLW 66
>pdb|2JK5|C Chain C, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|C Chain C, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
Length = 124
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 37 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 87
>pdb|1J95|A Chain A, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Potassium
pdb|1J95|B Chain B, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Potassium
pdb|1J95|C Chain C, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Potassium
pdb|1J95|D Chain D, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And
Potassium
Length = 125
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 37 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 87
>pdb|1BL8|A Chain A, Potassium Channel (Kcsa) From Streptomyces Lividans
pdb|1BL8|B Chain B, Potassium Channel (Kcsa) From Streptomyces Lividans
pdb|1BL8|C Chain C, Potassium Channel (Kcsa) From Streptomyces Lividans
pdb|1BL8|D Chain D, Potassium Channel (Kcsa) From Streptomyces Lividans
pdb|2QTO|A Chain A, An Anisotropic Model For Potassium Channel Kcsa
pdb|2QTO|B Chain B, An Anisotropic Model For Potassium Channel Kcsa
pdb|2QTO|C Chain C, An Anisotropic Model For Potassium Channel Kcsa
pdb|2QTO|D Chain D, An Anisotropic Model For Potassium Channel Kcsa
Length = 97
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 15 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 65
>pdb|3F5W|C Chain C, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|C Chain C, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|C Chain C, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|C Chain C, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|C Chain C, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|C Chain C, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3FB7|C Chain C, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
Length = 104
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 283 VTVLI--SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL--VYFW 329
V VL+ SY + + E G P +LI + R LW VE T + DL V W
Sbjct: 17 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLW 67
>pdb|3PJS|K Chain K, Mechanism Of Activation Gating In The Full-Length Kcsa K+
Channel
pdb|3PJS|L Chain L, Mechanism Of Activation Gating In The Full-Length Kcsa K+
Channel
pdb|3PJS|M Chain M, Mechanism Of Activation Gating In The Full-Length Kcsa K+
Channel
pdb|3PJS|N Chain N, Mechanism Of Activation Gating In The Full-Length Kcsa K+
Channel
Length = 166
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 288 SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL 325
SY + + E G P +LI + R LW VE T + DL
Sbjct: 50 SYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDL 87
>pdb|3IE4|A Chain A, B-Glucan Binding Domain Of Drosophila Gnbp3 Defines A
Novel Family Of Pattern Recognition Receptor
pdb|3IE4|B Chain B, B-Glucan Binding Domain Of Drosophila Gnbp3 Defines A
Novel Family Of Pattern Recognition Receptor
Length = 107
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 295 ESGEPSERLIKFKRWLWSIVEKMTHLERMDLVYFWT 330
E+G + ++K K W+ +++T L+ D +Y+WT
Sbjct: 43 EAGTWARDIVKAKNGRWTFRDRITALKPGDTLYYWT 78
>pdb|3AQY|A Chain A, Crystal Structure Of Plodia Interpunctella Beta-GrpGNBP3
N-Terminal Domain
pdb|3AQY|B Chain B, Crystal Structure Of Plodia Interpunctella Beta-GrpGNBP3
N-Terminal Domain
pdb|3AQZ|A Chain A, Crystal Structure Of Plodia Interpunctella Beta-GrpGNBP3
N-Terminal Domain With Laminarihexaoses
pdb|3AQZ|B Chain B, Crystal Structure Of Plodia Interpunctella Beta-GrpGNBP3
N-Terminal Domain With Laminarihexaoses
Length = 106
Score = 29.3 bits (64), Expect = 4.5, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 37/79 (46%), Gaps = 8/79 (10%)
Query: 257 VVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDE-----SGEPSERLIKFKRWLW 311
VVP++ LE + P+ R+ + D ++ + +E +G + + K K W
Sbjct: 4 VVPSAKLEAIYPKGLRV---SIPDDGFSLFAFHGKLNEEMDGLEAGHWARDITKPKEGRW 60
Query: 312 SIVEKMTHLERMDLVYFWT 330
+ ++ L+ D +YFWT
Sbjct: 61 TFRDRNVKLKLGDKIYFWT 79
>pdb|1O4U|A Chain A, Crystal Structure Of A Nicotinate Nucleotide
Pyrophosphorylase (Tm1645) From Thermotoga Maritima At
2.50 A Resolution
pdb|1O4U|B Chain B, Crystal Structure Of A Nicotinate Nucleotide
Pyrophosphorylase (Tm1645) From Thermotoga Maritima At
2.50 A Resolution
Length = 285
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 78 VDSENKNLTSLFSAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISI 131
++ E +NL A+ AG D+V L+NL+PE+ + + + DIN V++ +
Sbjct: 196 IEVEVENLEDALRAVEAGA-DIV---MLDNLSPEEVKDISRRIKDINPNVIVEV 245
>pdb|2KHA|A Chain A, Solution Structure Of A Pathogen Recognition Domain From A
Lepidopteran Insect, Plodia Interpunctella
Length = 130
Score = 28.9 bits (63), Expect = 5.9, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 8/79 (10%)
Query: 257 VVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDE-----SGEPSERLIKFKRWLW 311
VVP++ LE + P R+ + D ++ + +E +G + + K K W
Sbjct: 13 VVPSAKLEAIYPRGLRV---SIPDDGFSLFAFHGKLNEEMDGLEAGHWARDITKPKEGRW 69
Query: 312 SIVEKMTHLERMDLVYFWT 330
+ ++ L+ D +YFWT
Sbjct: 70 TFRDRNAKLKLGDKIYFWT 88
>pdb|3EFF|K Chain K, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
pdb|3EFF|L Chain L, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
pdb|3EFF|M Chain M, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
pdb|3EFF|N Chain N, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
Length = 139
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 288 SYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL 325
SY + + E G P +LI + R LW VE T + DL
Sbjct: 23 SYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDL 60
>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
Length = 606
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 12/85 (14%)
Query: 25 NTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDPVMYESLRQLVVDSENKN 84
N+ I+ CL QN HV + ILG +L F+P + E L + +D
Sbjct: 216 NSSNIMKTCL-QN-----LAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLT 269
Query: 85 LTSLFSAIRAGIFDVVPASCLENLT 109
T+ FS D+V CL N++
Sbjct: 270 YTNDFSD------DIVKFHCLANVS 288
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 12/85 (14%)
Query: 25 NTGRILGLCLLQNELCPLFLNRHVIKYILGRPIRFHDLAFFDPVMYESLRQLVVDSENKN 84
N+ I+ CL QN HV + ILG +L F+P + E L + +D
Sbjct: 211 NSSNIMKTCL-QN-----LAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLT 264
Query: 85 LTSLFSAIRAGIFDVVPASCLENLT 109
T+ FS D+V CL N++
Sbjct: 265 YTNDFSD------DIVKFHCLANVS 283
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
0.324 0.139 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,789,535
Number of Sequences: 62578
Number of extensions: 503820
Number of successful extensions: 1000
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 928
Number of HSP's gapped (non-prelim): 64
length of query: 395
length of database: 14,973,337
effective HSP length: 101
effective length of query: 294
effective length of database: 8,652,959
effective search space: 2543969946
effective search space used: 2543969946
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)