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= 003085
(849 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 43.5 bits (101), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 58/273 (21%), Positives = 115/273 (42%), Gaps = 38/273 (13%)
Query: 187 IGVVGMGGLGKTTIAQKVFNDREI-ENWFERRM-WVSVSQTFTEEQIMRSMLRNLGDASA 244
+ + GM G GK+ +A + D + E F + WVSV + +M+ L+NL
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK--LQNLCTRLD 207
Query: 245 GDDR---------GELLRKINQYLLGK--RYLIVMDDVWGEDLAWWRRIYEGLPKGKGSS 293
D+ E ++ +L K R L+++DDVW +W + ++
Sbjct: 208 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWD---SWVLKAFDS-----QCQ 259
Query: 294 IIITTRNGKVSQK-MGVKKARMHFPKFLSEDDSWLLFRK-IAFAATEGECQHPSLEGVGK 351
I++TTR+ V+ MG PK++ +S L K + + + L
Sbjct: 260 ILLTTRDKSVTDSVMG--------PKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAH 311
Query: 352 EIVEKCKGLPLAIKAVGGMMLYKPPTYNEWRRTADN-----FRDELAENDDSVMASLQLS 406
I+++CKG PL + +G ++ P + + + N R + + +++ ++ +S
Sbjct: 312 SIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 371
Query: 407 YDELPPYLKSCFLSFSVYPEDCVIRKEQLVYWW 439
+ L +K + S+ +D + + L W
Sbjct: 372 VEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 404
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 58/273 (21%), Positives = 115/273 (42%), Gaps = 38/273 (13%)
Query: 187 IGVVGMGGLGKTTIAQKVFNDREI-ENWFERRM-WVSVSQTFTEEQIMRSMLRNLGDASA 244
+ + GM G GK+ +A + D + E F + WVSV + +M+ L+NL
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK--LQNLCTRLD 213
Query: 245 GDDR---------GELLRKINQYLLGK--RYLIVMDDVWGEDLAWWRRIYEGLPKGKGSS 293
D+ E ++ +L K R L+++DDVW +W + ++
Sbjct: 214 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWD---SWVLKAFDS-----QCQ 265
Query: 294 IIITTRNGKVSQK-MGVKKARMHFPKFLSEDDSWLLFRK-IAFAATEGECQHPSLEGVGK 351
I++TTR+ V+ MG PK++ +S L K + + + L
Sbjct: 266 ILLTTRDKSVTDSVMG--------PKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAH 317
Query: 352 EIVEKCKGLPLAIKAVGGMMLYKPPTYNEWRRTADN-----FRDELAENDDSVMASLQLS 406
I+++CKG PL + +G ++ P + + + N R + + +++ ++ +S
Sbjct: 318 SIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 377
Query: 407 YDELPPYLKSCFLSFSVYPEDCVIRKEQLVYWW 439
+ L +K + S+ +D + + L W
Sbjct: 378 VEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 410
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 61/284 (21%), Positives = 116/284 (40%), Gaps = 36/284 (12%)
Query: 174 KDWLFEAEEGILAIGVVGMGGLGKTTIAQKVFNDREI-ENWFERRM-WVSVSQTFTEEQI 231
K W E G + I GM G GK+ +A + D + E F + WVS+ + +
Sbjct: 139 KLWKLNGEPGWVTI--YGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLL 196
Query: 232 MR--SMLRNLGDASAGDDR-----GELLRKINQYLLGK--RYLIVMDDVWGEDLAWWRRI 282
M+ ++ L + R E ++ +L K R L+++DDVW W +
Sbjct: 197 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD---PWVLKA 253
Query: 283 YEGLPKGKGSSIIITTRNGKVSQK-MGVKKARMHFPKFLSEDDSWLLFRK-IAFAATEGE 340
++ I++TTR+ V+ MG PK + +S L K + +
Sbjct: 254 FDN-----QCQILLTTRDKSVTDSVMG--------PKHVVPVESGLGREKGLEILSLFVN 300
Query: 341 CQHPSLEGVGKEIVEKCKGLPLAIKAVGGMMLYKPPTYNEWRRTADN-----FRDELAEN 395
+ L I+++CKG PL + +G ++ P + + R N R + +
Sbjct: 301 MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYD 360
Query: 396 DDSVMASLQLSYDELPPYLKSCFLSFSVYPEDCVIRKEQLVYWW 439
+++ ++ +S + L +K + S+ +D + + L W
Sbjct: 361 YEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW 404
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 60/284 (21%), Positives = 115/284 (40%), Gaps = 36/284 (12%)
Query: 174 KDWLFEAEEGILAIGVVGMGGLGKTTIAQKVFNDREI-ENWFERRM-WVSVSQTFTEEQI 231
K W E G + I GM G GK+ +A + D + E F + WVS+ + +
Sbjct: 146 KLWKLNGEPGWVTI--YGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLL 203
Query: 232 MR--SMLRNLGDASAGDDR-----GELLRKINQYLLGK--RYLIVMDDVWGEDLAWWRRI 282
M+ ++ L + R E ++ +L K R L+++DDVW W +
Sbjct: 204 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD---PWVLKA 260
Query: 283 YEGLPKGKGSSIIITTRNGKVSQK-MGVKKARMHFPKFLSEDDSWLLFRK-IAFAATEGE 340
++ I++TT + V+ MG PK + +S L K + +
Sbjct: 261 FDN-----QCQILLTTSDKSVTDSVMG--------PKHVVPVESGLGREKGLEILSLFVN 307
Query: 341 CQHPSLEGVGKEIVEKCKGLPLAIKAVGGMMLYKPPTYNEWRRTADN-----FRDELAEN 395
+ L I+++CKG PL + +G ++ P + + R N R + +
Sbjct: 308 MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYD 367
Query: 396 DDSVMASLQLSYDELPPYLKSCFLSFSVYPEDCVIRKEQLVYWW 439
+++ ++ +S + L +K + S+ +D + + L W
Sbjct: 368 YEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW 411
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 2/89 (2%)
Query: 554 FSECRYLRVLDISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQI 613
F R L LDIS + + G+ + SL+ L N+ LP +L+NL
Sbjct: 441 FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA--GNSFQENFLPDIFTELRNLTF 498
Query: 614 LDVSYCQNLKMLPSYVQSFIQLRALDVTH 642
LD+S CQ ++ P+ S L+ L+++H
Sbjct: 499 LDLSQCQLEQLSPTAFNSLSSLQVLNMSH 527
Score = 33.1 bits (74), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 583 SLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDV---SYCQNLKMLPSYVQSFIQLRALD 639
SL++L YL +S+TH + L +L++L + S+ +N LP L LD
Sbjct: 443 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF--LPDIFTELRNLTFLD 500
Query: 640 VTHCGSLQYLPKGFGKLLNLEVL 662
++ C Q P F L +L+VL
Sbjct: 501 LSQCQLEQLSPTAFNSLSSLQVL 523
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 37.0 bits (84), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 2/89 (2%)
Query: 554 FSECRYLRVLDISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQI 613
F R L LDIS + + G+ + SL+ L N+ LP +L+NL
Sbjct: 417 FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA--GNSFQENFLPDIFTELRNLTF 474
Query: 614 LDVSYCQNLKMLPSYVQSFIQLRALDVTH 642
LD+S CQ ++ P+ S L+ L+++H
Sbjct: 475 LDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503
Score = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 583 SLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDV---SYCQNLKMLPSYVQSFIQLRALD 639
SL++L YL +S+TH + L +L++L + S+ +N LP L LD
Sbjct: 419 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF--LPDIFTELRNLTFLD 476
Query: 640 VTHCGSLQYLPKGFGKLLNLEVL 662
++ C Q P F L +L+VL
Sbjct: 477 LSQCQLEQLSPTAFNSLSSLQVL 499
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 36.6 bits (83), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 32/108 (29%), Positives = 52/108 (48%), Gaps = 4/108 (3%)
Query: 554 FSECRYLRVLDISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQI 613
F R L LDIS + + G+ + SL+ L N+ LP +L+NL
Sbjct: 417 FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA--GNSFQENFLPDIFTELRNLTF 474
Query: 614 LDVSYCQNLKMLPSYVQSFIQLRALDVTHCGSLQYLPKG-FGKLLNLE 660
LD+S CQ ++ P+ S L+ L++ L+ +P G F +L +L+
Sbjct: 475 LDLSQCQLEQLSPTAFNSLSSLQVLNMAS-NQLKSVPDGIFDRLTSLQ 521
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 583 SLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDV---SYCQNLKMLPSYVQSFIQLRALD 639
SL++L YL +S+TH + L +L++L + S+ +N LP L LD
Sbjct: 419 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF--LPDIFTELRNLTFLD 476
Query: 640 VTHCGSLQYLPKGFGKLLNLEVLLGFRPARSSQPEGCRISELKNLTRLRKLGLQ 693
++ C Q P F L +L+VL S P+G LT L+K+ L
Sbjct: 477 LSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGI----FDRLTSLQKIWLH 526
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 36.6 bits (83), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 36/106 (33%), Positives = 55/106 (51%), Gaps = 5/106 (4%)
Query: 560 LRVLDISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDVSYC 619
L+ LD+S S E L Q +L+HL YL LS PL + K+ L++LDV++
Sbjct: 351 LQKLDLSHSDIEASDCCNL-QLKNLRHLQYLNLSYNEPLGLEDQAFKECPQLELLDVAFT 409
Query: 620 Q-NLKMLPSYVQSFIQLRALDVTHC---GSLQYLPKGFGKLLNLEV 661
++K S Q+ LR L+++HC S Q+L G L +L +
Sbjct: 410 HLHVKAPHSPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNL 455
Score = 29.3 bits (64), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 57/120 (47%), Gaps = 17/120 (14%)
Query: 605 LKKLKNLQILDVSY-------CQNLKMLPSYVQSFIQLRALDVTHCGSLQYLPKGFGKLL 657
L+KL+NLQ LD+S+ C NL++ ++ L+ L++++ L + F +
Sbjct: 345 LEKLENLQKLDLSHSDIEASDCCNLQL-----KNLRHLQYLNLSYNEPLGLEDQAFKECP 399
Query: 658 NLEVL-LGFRPARSSQPEGCRISELKNLTRLRKLGLQLTCGDEIEEDALVNLRELQFLSI 716
LE+L + F P S +NL LR L L D + L L++L+ L++
Sbjct: 400 QLELLDVAFTHLHVKAPH----SPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNL 455
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 36.6 bits (83), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 2/89 (2%)
Query: 554 FSECRYLRVLDISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQI 613
F R L LDIS + + G+ + SL+ L N+ LP +L+NL
Sbjct: 122 FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA--GNSFQENFLPDIFTELRNLTF 179
Query: 614 LDVSYCQNLKMLPSYVQSFIQLRALDVTH 642
LD+S CQ ++ P+ S L+ L+++H
Sbjct: 180 LDLSQCQLEQLSPTAFNSLSSLQVLNMSH 208
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 583 SLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDV---SYCQNLKMLPSYVQSFIQLRALD 639
SL++L YL +S+TH + L +L++L + S+ +N LP L LD
Sbjct: 124 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF--LPDIFTELRNLTFLD 181
Query: 640 VTHCGSLQYLPKGFGKLLNLEVL 662
++ C Q P F L +L+VL
Sbjct: 182 LSQCQLEQLSPTAFNSLSSLQVL 204
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 33/103 (32%), Positives = 51/103 (49%), Gaps = 15/103 (14%)
Query: 560 LRVLDISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDVSYC 619
L++ +IS +IF+ L+ L L N + L LP +K L NL++LD+S+
Sbjct: 234 LQIFNISANIFKYDF------------LTRLYL-NGNSLTELPAEIKNLSNLRVLDLSHN 280
Query: 620 QNLKMLPSYVQSFIQLRALDVTHCGSLQYLPKGFGKLLNLEVL 662
+ L LP+ + S QL+ + LP FG L NL+ L
Sbjct: 281 R-LTSLPAELGSCFQLKYF-YFFDNMVTTLPWEFGNLCNLQFL 321
>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From
Encephalitozoon Cuniculi Bound To Gdp-Mg2+
pdb|4DJT|B Chain B, Crystal Structure Of A Nuclear Gtp-Binding Protein From
Encephalitozoon Cuniculi Bound To Gdp-Mg2+
Length = 218
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 65/137 (47%), Gaps = 9/137 (6%)
Query: 179 EAEEGILAIGVVGMGGLGKTTIAQKVFNDREIENWFERRMWVSVSQTFTEEQIMRSMLRN 238
E E I ++G GG+GKTT +V + R +N+ V+ TF ++Q + N
Sbjct: 6 ERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQ-GNVIKFN 64
Query: 239 LGDASAGDDRGELLRKINQYLLGKRYLIVMDDVWG----EDLAWWRRIYEGLPKGKGSSI 294
+ D +AG ++ +L+ + Y +G I+ DV ++LA W + ++ + G + I
Sbjct: 65 VWD-TAGQEKKAVLKDV--YYIGASGAILFFDVTSRITCQNLARWVKEFQAVV-GNEAPI 120
Query: 295 IITTRNGKVSQKMGVKK 311
++ + + + K
Sbjct: 121 VVCANKIDIKNRQKISK 137
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 53/97 (54%), Gaps = 7/97 (7%)
Query: 550 LATKFSECRYLRVLDISRSIFELP-LKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKL 608
LA FS R ++ +D+S S+ E+ L G+LSQ LQ+LS L + P+++ +L K
Sbjct: 86 LAEHFSPFR-VQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVN---TLAKN 141
Query: 609 KNLQILDVSYCQNLK--MLPSYVQSFIQLRALDVTHC 643
NL L++S C L + + S +L L+++ C
Sbjct: 142 SNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWC 178
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 33.1 bits (74), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 42/108 (38%), Gaps = 4/108 (3%)
Query: 549 NLATKFSECRYLRVLDISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKL 608
+L + + L+ L I S PL L L L L L L + PP
Sbjct: 197 SLPASIANLQNLKSLKIRNS----PLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGR 252
Query: 609 KNLQILDVSYCQNLKMLPSYVQSFIQLRALDVTHCGSLQYLPKGFGKL 656
L+ L + C NL LP + QL LD+ C +L LP +L
Sbjct: 253 APLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 2/90 (2%)
Query: 565 ISRSIFELPLKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDVSYCQNLKM 624
++ + +PL Q L HL + + L LP + ++ L+ L ++ L+
Sbjct: 84 VALELRSVPLPQFPDQAFRLSHLQHXTIDAAG-LXELPDTXQQFAGLETLTLAR-NPLRA 141
Query: 625 LPSYVQSFIQLRALDVTHCGSLQYLPKGFG 654
LP+ + S +LR L + C L LP+
Sbjct: 142 LPASIASLNRLRELSIRACPELTELPEPLA 171
>pdb|2Y7T|A Chain A, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|B Chain B, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|C Chain C, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|D Chain D, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|E Chain E, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|F Chain F, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|G Chain G, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|H Chain H, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|I Chain I, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|J Chain J, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|K Chain K, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|L Chain L, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|M Chain M, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|N Chain N, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|O Chain O, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|P Chain P, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|Q Chain Q, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|R Chain R, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|S Chain S, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7T|T Chain T, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|A Chain A, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|B Chain B, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|C Chain C, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|D Chain D, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|E Chain E, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|F Chain F, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|G Chain G, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|H Chain H, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|I Chain I, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|J Chain J, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|K Chain K, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|L Chain L, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|M Chain M, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|N Chain N, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|O Chain O, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|P Chain P, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|Q Chain Q, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|R Chain R, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|S Chain S, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7U|T Chain T, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|A Chain A, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|B Chain B, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|C Chain C, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|D Chain D, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|E Chain E, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|F Chain F, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|G Chain G, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|H Chain H, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|I Chain I, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|J Chain J, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|K Chain K, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|L Chain L, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|M Chain M, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|N Chain N, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|O Chain O, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|P Chain P, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|Q Chain Q, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|R Chain R, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|S Chain S, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2Y7V|T Chain T, X-Ray Structure Of The Grapevine Fanleaf Virus
pdb|2YI2|A Chain A, Grapevine Fanleaf Virus
pdb|2YI2|B Chain B, Grapevine Fanleaf Virus
pdb|2YI2|C Chain C, Grapevine Fanleaf Virus
pdb|2YI2|D Chain D, Grapevine Fanleaf Virus
pdb|2YI2|E Chain E, Grapevine Fanleaf Virus
pdb|2YI2|F Chain F, Grapevine Fanleaf Virus
pdb|2YI2|G Chain G, Grapevine Fanleaf Virus
pdb|2YI2|H Chain H, Grapevine Fanleaf Virus
pdb|2YI2|I Chain I, Grapevine Fanleaf Virus
pdb|2YI2|J Chain J, Grapevine Fanleaf Virus
pdb|2YI2|K Chain K, Grapevine Fanleaf Virus
pdb|2YI2|L Chain L, Grapevine Fanleaf Virus
pdb|2YI2|M Chain M, Grapevine Fanleaf Virus
pdb|2YI2|N Chain N, Grapevine Fanleaf Virus
pdb|2YI2|O Chain O, Grapevine Fanleaf Virus
pdb|2YI2|P Chain P, Grapevine Fanleaf Virus
pdb|2YI2|Q Chain Q, Grapevine Fanleaf Virus
pdb|2YI2|R Chain R, Grapevine Fanleaf Virus
pdb|2YI2|S Chain S, Grapevine Fanleaf Virus
pdb|2YI2|T Chain T, Grapevine Fanleaf Virus
pdb|2YI3|A Chain A, Grapevine Fanleaf Virus
pdb|2YI3|B Chain B, Grapevine Fanleaf Virus
pdb|2YI3|C Chain C, Grapevine Fanleaf Virus
pdb|2YI3|D Chain D, Grapevine Fanleaf Virus
pdb|2YI3|E Chain E, Grapevine Fanleaf Virus
pdb|2YI3|F Chain F, Grapevine Fanleaf Virus
pdb|2YI3|G Chain G, Grapevine Fanleaf Virus
pdb|2YI3|H Chain H, Grapevine Fanleaf Virus
pdb|2YI3|I Chain I, Grapevine Fanleaf Virus
pdb|2YI3|J Chain J, Grapevine Fanleaf Virus
pdb|2YI3|K Chain K, Grapevine Fanleaf Virus
pdb|2YI3|L Chain L, Grapevine Fanleaf Virus
pdb|2YI3|M Chain M, Grapevine Fanleaf Virus
pdb|2YI3|N Chain N, Grapevine Fanleaf Virus
pdb|2YI3|O Chain O, Grapevine Fanleaf Virus
pdb|2YI3|P Chain P, Grapevine Fanleaf Virus
pdb|2YI3|Q Chain Q, Grapevine Fanleaf Virus
pdb|2YI3|R Chain R, Grapevine Fanleaf Virus
pdb|2YI3|S Chain S, Grapevine Fanleaf Virus
pdb|2YI3|T Chain T, Grapevine Fanleaf Virus
pdb|2YI4|A Chain A, Grapevine Fanleaf Virus
pdb|2YI4|B Chain B, Grapevine Fanleaf Virus
pdb|2YI4|C Chain C, Grapevine Fanleaf Virus
pdb|2YI4|D Chain D, Grapevine Fanleaf Virus
pdb|2YI4|E Chain E, Grapevine Fanleaf Virus
pdb|2YI4|F Chain F, Grapevine Fanleaf Virus
pdb|2YI4|G Chain G, Grapevine Fanleaf Virus
pdb|2YI4|H Chain H, Grapevine Fanleaf Virus
pdb|2YI4|I Chain I, Grapevine Fanleaf Virus
pdb|2YI4|J Chain J, Grapevine Fanleaf Virus
pdb|2YI4|K Chain K, Grapevine Fanleaf Virus
pdb|2YI4|L Chain L, Grapevine Fanleaf Virus
pdb|2YI4|M Chain M, Grapevine Fanleaf Virus
pdb|2YI4|N Chain N, Grapevine Fanleaf Virus
pdb|2YI4|O Chain O, Grapevine Fanleaf Virus
pdb|2YI4|P Chain P, Grapevine Fanleaf Virus
pdb|2YI4|Q Chain Q, Grapevine Fanleaf Virus
pdb|2YI4|R Chain R, Grapevine Fanleaf Virus
pdb|2YI4|S Chain S, Grapevine Fanleaf Virus
pdb|2YI4|T Chain T, Grapevine Fanleaf Virus
Length = 504
Score = 32.7 bits (73), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 57/126 (45%), Gaps = 11/126 (8%)
Query: 451 RSSIEAGEDCFSGLTNRCLVEVVDKAYNKMISTCKIHDMVRDLVIRVAEEDAFSKPNGLN 510
+ IE G F +N C V + + + MI+ +H V DL ++ + F K +G
Sbjct: 360 KEEIEIGSRFFDFTSNTCRVSMGENPFAAMIACHGLHSGVLDLKLQWSLNTEFGKSSG-- 417
Query: 511 CRHLGVTSDVESKQLISN-----LKLRALMSTTKTAEVNNIASNLATKFS-ECRYLRV-L 563
+ +T V K + + ++ L TT+ N +N T+FS R++ + L
Sbjct: 418 --SVTITKLVGDKAMGLDGPSHVFAIQKLEGTTELLVGNFAGANPNTRFSLYSRWMAIKL 475
Query: 564 DISRSI 569
D ++SI
Sbjct: 476 DQAKSI 481
>pdb|2Y26|A Chain A, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|B Chain B, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|C Chain C, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|D Chain D, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|E Chain E, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|F Chain F, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|G Chain G, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|H Chain H, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|I Chain I, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|J Chain J, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|K Chain K, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|L Chain L, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|M Chain M, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|N Chain N, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|O Chain O, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|P Chain P, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|Q Chain Q, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|R Chain R, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|S Chain S, Transmission Defective Mutant Of Grapevine Fanleaf Virus
pdb|2Y26|T Chain T, Transmission Defective Mutant Of Grapevine Fanleaf Virus
Length = 504
Score = 32.7 bits (73), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 57/126 (45%), Gaps = 11/126 (8%)
Query: 451 RSSIEAGEDCFSGLTNRCLVEVVDKAYNKMISTCKIHDMVRDLVIRVAEEDAFSKPNGLN 510
+ IE G F +N C V + + + MI+ +H V DL ++ + F K +G
Sbjct: 360 KEEIEIGSRFFDFTSNTCRVSMGENPFAAMIACHGLHSGVLDLKLQWSLNTEFGKSSG-- 417
Query: 511 CRHLGVTSDVESKQLISN-----LKLRALMSTTKTAEVNNIASNLATKFS-ECRYLRV-L 563
+ +T V K + + ++ L TT+ N +N T+FS R++ + L
Sbjct: 418 --SVTITKLVGDKAMGLDGPSHVFAIQKLEGTTELLVGNFAGANPNTRFSLYSRWMAIKL 475
Query: 564 DISRSI 569
D ++SI
Sbjct: 476 DQAKSI 481
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 34/117 (29%), Positives = 56/117 (47%), Gaps = 10/117 (8%)
Query: 604 SLKKLKNLQILDVSYCQNLKMLPSYVQSFIQLRALDVTHCG--SLQYLPKGFGKLLNLEV 661
S K+L L++L++S+ L + + L +L +THC ++ YL L+ L
Sbjct: 195 SFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYL--AVRHLVYLRF 252
Query: 662 L-LGFRPARSSQPEGCRISELKNLTRLRKLGLQLTCGDEIEEDALVNLRELQFLSIS 717
L L + P S EG + EL L ++ +G QL +E A L L+ L++S
Sbjct: 253 LNLSYNPI--STIEGSMLHELLRLQEIQLVGGQLAV---VEPYAFRGLNYLRVLNVS 304
>pdb|1OBB|A Chain A, Alpha-Glucosidase A, Agla, From Thermotoga Maritima In
Complex With Maltose And Nad+
pdb|1OBB|B Chain B, Alpha-Glucosidase A, Agla, From Thermotoga Maritima In
Complex With Maltose And Nad+
Length = 480
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 32/76 (42%), Gaps = 9/76 (11%)
Query: 749 GKTSPVWLNPASLPMLRYLSVCSGNLSKMHDSFWGENNTVWKIEALLFESLSDLGIEWTR 808
G +WLN RY GN + D + E + WK E + LS I+ R
Sbjct: 200 GVNHGIWLN-----RFRY---NGGNAYPLLDKWIEEKSKDWKPENPFNDQLSPAAIDMYR 251
Query: 809 LQGVMPSLHIV-NASW 823
GVMP V N+SW
Sbjct: 252 FYGVMPIGDTVRNSSW 267
>pdb|2BK4|A Chain A, Human Monoamine Oxidase B: I199f Mutant In Complex With
Rasagiline
pdb|2BK4|B Chain B, Human Monoamine Oxidase B: I199f Mutant In Complex With
Rasagiline
pdb|2BK5|A Chain A, Human Monoamine Oxidase B: I199f Mutant In Complex With
Isatin
pdb|2BK5|B Chain B, Human Monoamine Oxidase B: I199f Mutant In Complex With
Isatin
Length = 520
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 349 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 407
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 408 TQY--GRVLRQPVDRIYFAGTETAT 430
>pdb|2C73|A Chain A, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
pdb|2C73|B Chain B, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
Length = 520
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 349 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 407
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 408 TQY--GRVLRQPVDRIYFAGTETAT 430
>pdb|2XFO|A Chain A, Tranylcypromine-Inhibited Human Monoamine Oxidase B
Ile199ala Mutant In Complex With 2-(2-Benzofuranyl)-2-
Imidazoline
pdb|2XFO|B Chain B, Tranylcypromine-Inhibited Human Monoamine Oxidase B
Ile199ala Mutant In Complex With 2-(2-Benzofuranyl)-2-
Imidazoline
Length = 520
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 349 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 407
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 408 TQY--GRVLRQPVDRIYFAGTETAT 430
>pdb|2XFU|A Chain A, Human Monoamine Oxidase B With Tranylcypromine
pdb|2XFU|B Chain B, Human Monoamine Oxidase B With Tranylcypromine
Length = 519
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 348 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 406
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 407 TQY--GRVLRQPVDRIYFAGTETAT 429
>pdb|2C76|A Chain A, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
pdb|2C76|B Chain B, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
Length = 520
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 349 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 407
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 408 TQY--GRVLRQPVDRIYFAGTETAT 430
>pdb|2C72|A Chain A, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
pdb|2C72|B Chain B, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
Length = 520
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 349 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 407
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 408 TQY--GRVLRQPVDRIYFAGTETAT 430
>pdb|2C75|A Chain A, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
pdb|2C75|B Chain B, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
Length = 520
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 349 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 407
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 408 TQY--GRVLRQPVDRIYFAGTETAT 430
>pdb|1GOS|A Chain A, Human Monoamine Oxidase B
pdb|1GOS|B Chain B, Human Monoamine Oxidase B
pdb|1OJ9|A Chain A, Human Monoamine Oxidase B In Complex With
1,4-Diphenyl-2-Butene
pdb|1OJ9|B Chain B, Human Monoamine Oxidase B In Complex With
1,4-Diphenyl-2-Butene
pdb|1OJA|A Chain A, Human Monoamine Oxidase B In Complex With Isatin
pdb|1OJA|B Chain B, Human Monoamine Oxidase B In Complex With Isatin
pdb|1OJC|A Chain A, Human Monoamine Oxidase B In Complex With
N-(2-Aminoethyl)-P-Chlorobenzamide
pdb|1OJC|B Chain B, Human Monoamine Oxidase B In Complex With
N-(2-Aminoethyl)-P-Chlorobenzamide
pdb|1OJD|A Chain A, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|B Chain B, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|C Chain C, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|D Chain D, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|E Chain E, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|F Chain F, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|G Chain G, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|H Chain H, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|I Chain I, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1OJD|L Chain L, Human Monoamine Oxidase B In Complex With
Lauryldimethylamine-N-Oxide (Ldao)
pdb|1S2Q|A Chain A, Crystal Structure Of Maob In Complex With
N-Propargyl-1(R)-Aminoindan (Rasagiline)
pdb|1S2Q|B Chain B, Crystal Structure Of Maob In Complex With
N-Propargyl-1(R)-Aminoindan (Rasagiline)
pdb|1S2Y|A Chain A, Crystal Structure Of Maob In Complex With
N-propargyl-1(s)- Aminoindan
pdb|1S2Y|B Chain B, Crystal Structure Of Maob In Complex With
N-propargyl-1(s)- Aminoindan
pdb|1S3B|A Chain A, Crystal Structure Of Maob In Complex With N-Methyl-N-
Propargyl-1(R)-Aminoindan
pdb|1S3B|B Chain B, Crystal Structure Of Maob In Complex With N-Methyl-N-
Propargyl-1(R)-Aminoindan
pdb|1S3E|A Chain A, Crystal Structure Of Maob In Complex With 6-Hydroxy-N-
Propargyl-1(R)-Aminoindan
pdb|1S3E|B Chain B, Crystal Structure Of Maob In Complex With 6-Hydroxy-N-
Propargyl-1(R)-Aminoindan
pdb|2BK3|A Chain A, Human Monoamine Oxidase B In Complex With Farnesol
pdb|2BK3|B Chain B, Human Monoamine Oxidase B In Complex With Farnesol
pdb|2BYB|A Chain A, Human Monoamine Oxidase B In Complex With Deprenyl
pdb|2BYB|B Chain B, Human Monoamine Oxidase B In Complex With Deprenyl
pdb|2C64|A Chain A, Mao Inhibition By Rasagiline Analogues
pdb|2C64|B Chain B, Mao Inhibition By Rasagiline Analogues
pdb|2C65|A Chain A, Mao Inhibition By Rasagiline Analogues
pdb|2C65|B Chain B, Mao Inhibition By Rasagiline Analogues
pdb|2C66|A Chain A, Mao Inhibition By Rasagiline Analogues
pdb|2C66|B Chain B, Mao Inhibition By Rasagiline Analogues
pdb|2C67|A Chain A, Mao Inhibition By Rasagiline Analogues
pdb|2C67|B Chain B, Mao Inhibition By Rasagiline Analogues
pdb|2C70|A Chain A, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
pdb|2C70|B Chain B, Functional Role Of The Aromatic Cage In Human Monoamine
Oxidase B: Structures And Catalytic Properties Of Tyr435
Mutant Proteins
pdb|2V5Z|A Chain A, Structure Of Human Mao B In Complex With The Selective
Inhibitor Safinamide
pdb|2V5Z|B Chain B, Structure Of Human Mao B In Complex With The Selective
Inhibitor Safinamide
pdb|2V60|A Chain A, Structure Of Human Mao B In Complex With The Selective
Inhibitor
7-(3-Chlorobenzyloxy)-4-Carboxaldehyde-Coumarin
pdb|2V60|B Chain B, Structure Of Human Mao B In Complex With The Selective
Inhibitor
7-(3-Chlorobenzyloxy)-4-Carboxaldehyde-Coumarin
pdb|2V61|A Chain A, Structure Of Human Mao B In Complex With The Selective
Inhibitor 7-(3-Chlorobenzyloxy)-4-(Methylamino)methyl-
Coumarin
pdb|2V61|B Chain B, Structure Of Human Mao B In Complex With The Selective
Inhibitor 7-(3-Chlorobenzyloxy)-4-(Methylamino)methyl-
Coumarin
pdb|2VRL|A Chain A, Structure Of Human Mao B In Complex With Benzylhydrazine
pdb|2VRL|B Chain B, Structure Of Human Mao B In Complex With Benzylhydrazine
pdb|2VRM|A Chain A, Structure Of Human Mao B In Complex With
Phenyethylhydrazine
pdb|2VRM|B Chain B, Structure Of Human Mao B In Complex With
Phenyethylhydrazine
pdb|2VZ2|A Chain A, Human Mao B In Complex With Mofegiline
pdb|2VZ2|B Chain B, Human Mao B In Complex With Mofegiline
pdb|2XCG|A Chain A, Tranylcypromine-Inhibited Human Monoamine Oxidase B In
Complex With 2-(2-Benzofuranyl)-2-Imidazoline
pdb|2XCG|B Chain B, Tranylcypromine-Inhibited Human Monoamine Oxidase B In
Complex With 2-(2-Benzofuranyl)-2-Imidazoline
pdb|2XFN|A Chain A, Human Monoamine Oxidase B In Complex With
2-(2-Benzofuranyl) -2-Imidazoline
pdb|2XFN|B Chain B, Human Monoamine Oxidase B In Complex With
2-(2-Benzofuranyl) -2-Imidazoline
pdb|2XFP|A Chain A, Isatin-Inhibited Human Monoamine Oxidase B In Complex With
2-(2-Benzofuranyl)-2-Imidazoline
pdb|2XFP|B Chain B, Isatin-Inhibited Human Monoamine Oxidase B In Complex With
2-(2-Benzofuranyl)-2-Imidazoline
pdb|2XFQ|A Chain A, Rasagiline-Inhibited Human Monoamine Oxidase B In Complex
With 2-(2-Benzofuranyl)-2-Imidazoline
pdb|2XFQ|B Chain B, Rasagiline-Inhibited Human Monoamine Oxidase B In Complex
With 2-(2-Benzofuranyl)-2-Imidazoline
pdb|3PO7|A Chain A, Human Monoamine Oxidase B In Complex With Zonisamide
pdb|3PO7|B Chain B, Human Monoamine Oxidase B In Complex With Zonisamide
pdb|4A79|A Chain A, Crystal Structure Of Human Monoamine Oxidase B (Mao B) In
Complex With Pioglitazone
pdb|4A79|B Chain B, Crystal Structure Of Human Monoamine Oxidase B (Mao B) In
Complex With Pioglitazone
pdb|4A7A|A Chain A, Crystal Structure Of Human Monoamine Oxidase B (Mao B) In
Complex With Rosiglitazone
pdb|4A7A|B Chain B, Crystal Structure Of Human Monoamine Oxidase B (Mao B) In
Complex With Rosiglitazone
Length = 520
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 349 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 407
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 408 TQY--GRVLRQPVDRIYFAGTETAT 430
>pdb|3ZYX|A Chain A, Crystal Structure Of Human Monoamine Oxidase B In Complex
With Methylene Blue And Bearing The Double Mutation
I199a- Y326a
pdb|3ZYX|B Chain B, Crystal Structure Of Human Monoamine Oxidase B In Complex
With Methylene Blue And Bearing The Double Mutation
I199a- Y326a
Length = 519
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 48 ADRLKRKRNSQTLRTFMAELRELIYEAEDILADCHLQSRD--EDQLSNGWLTFLYPPNIS 105
A +L R + L+ + EL + + + L H + ++ E+Q S G T +PP I
Sbjct: 348 ARKLARLTKEERLKK-LCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGIL 406
Query: 106 FRYQTGKRLREINDKITYIKQNVAS 130
+Y G+ LR+ D+I + A+
Sbjct: 407 TQY--GRVLRQPVDRIYFAGTETAT 429
>pdb|3PZT|A Chain A, Structure Of The Endo-1,4-Beta-Glucanase From Bacillus
Subtilis 168 With Manganese(Ii) Ion
pdb|3PZT|B Chain B, Structure Of The Endo-1,4-Beta-Glucanase From Bacillus
Subtilis 168 With Manganese(Ii) Ion
pdb|3PZU|A Chain A, P212121 Crystal Form Of The Endo-1,4-Beta-Glucanase From
Bacillus Subtilis 168
pdb|3PZU|B Chain B, P212121 Crystal Form Of The Endo-1,4-Beta-Glucanase From
Bacillus Subtilis 168
pdb|3PZV|A Chain A, C2 Crystal Form Of The Endo-1,4-Beta-Glucanase From
Bacillus Subtilis 168
pdb|3PZV|B Chain B, C2 Crystal Form Of The Endo-1,4-Beta-Glucanase From
Bacillus Subtilis 168
pdb|3PZV|C Chain C, C2 Crystal Form Of The Endo-1,4-Beta-Glucanase From
Bacillus Subtilis 168
pdb|3PZV|D Chain D, C2 Crystal Form Of The Endo-1,4-Beta-Glucanase From
Bacillus Subtilis 168
Length = 327
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 41/84 (48%), Gaps = 11/84 (13%)
Query: 290 KGSSIIITTRNGKVSQKMGVKKARMH-FPKFLSED------DSW--LLFRKIAFAATEGE 340
KG+ ++ R+GK Q G+ + + +++++D D W +FR + A G
Sbjct: 40 KGTQLV--NRDGKAVQLKGISSHGLQWYGEYVNKDSLKWLRDDWGITVFRAAMYTADGGY 97
Query: 341 CQHPSLEGVGKEIVEKCKGLPLAI 364
+PS++ KE VE K L + +
Sbjct: 98 IDNPSVKNKVKEAVEAAKELGIYV 121
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 46/84 (54%), Gaps = 6/84 (7%)
Query: 563 LDISRSIFELP-LKGLLSQTGSLQHLSYLCLSNTHPLIHLPPSLKKLKNLQILDVSYCQN 621
+D+S S+ E+ L G+LSQ LQ+LS L + P+++ +L K NL L++S C
Sbjct: 60 MDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVN---TLAKNSNLVRLNLSGCSG 116
Query: 622 LK--MLPSYVQSFIQLRALDVTHC 643
L + + S +L L+++ C
Sbjct: 117 FSEFALQTLLSSCSRLDELNLSWC 140
>pdb|4AG5|A Chain A, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
pdb|4AG5|B Chain B, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
pdb|4AG5|C Chain C, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
pdb|4AG5|D Chain D, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
Length = 392
Score = 30.4 bits (67), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 101 PPNISFRYQTGKRLREINDKITYIKQNVASFL 132
P I+F T KR+R+ N + I QNV FL
Sbjct: 280 PQAIAFLRDTSKRIRKYNGSLIVISQNVIDFL 311
>pdb|4AG6|A Chain A, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
pdb|4AG6|B Chain B, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
pdb|4AG6|C Chain C, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
pdb|4AG6|D Chain D, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
Length = 392
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 101 PPNISFRYQTGKRLREINDKITYIKQNVASFL 132
P I+F T KR+R+ N + I QNV FL
Sbjct: 280 PQAIAFLRDTSKRIRKYNGSLIVISQNVIDFL 311
>pdb|2VZ8|A Chain A, Crystal Structure Of Mammalian Fatty Acid Synthase
pdb|2VZ8|B Chain B, Crystal Structure Of Mammalian Fatty Acid Synthase
pdb|2VZ9|A Chain A, Crystal Structure Of Mammalian Fatty Acid Synthase In
Complex With Nadp
pdb|2VZ9|B Chain B, Crystal Structure Of Mammalian Fatty Acid Synthase In
Complex With Nadp
Length = 2512
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 27/133 (20%), Positives = 51/133 (38%), Gaps = 18/133 (13%)
Query: 218 MWVSVSQTFTEEQIMRSMLRNLGDASAGDDRGELLRKINQYLLGKRYLIVMDDVWGEDLA 277
+WV VS + E + R +G + G R + +++ + K I +D L
Sbjct: 107 VWVGVSSSDASEALSRDPETLVGYSMIGCQRAMMANRLSFFFDFKGPSITIDTACSSSLL 166
Query: 278 WWRRIYEGLPKGKGSSIIITTRNGKVSQKMGVKKARMHFPKFLSEDDSWLLFRKIAFAAT 337
+ Y+ + G+ S+ ++ N L + +S L F K+ +
Sbjct: 167 ALQSAYQAIRGGECSAAVVGGLN------------------VLLKPNSSLQFMKLGMLSQ 208
Query: 338 EGECQHPSLEGVG 350
+G C+ EG G
Sbjct: 209 DGTCRSFDAEGTG 221
>pdb|3RFW|A Chain A, The Virulence Factor Peb4 And The Periplasmic Protein
Cj1289 Are Two Structurally-Related Sura-Like Chaperones
In The Human Pathogen Campylobacter Jejuni
Length = 252
Score = 29.6 bits (65), Expect = 7.7, Method: Composition-based stats.
Identities = 24/111 (21%), Positives = 55/111 (49%), Gaps = 6/111 (5%)
Query: 421 FSVYPEDCVIRKEQLVYWWIGEGFVPQRNGRSSIEAGEDCFSGLTNRCLVEVVDKAYN-K 479
F P++ +K+ L+ +I + + Q + ++E + ++ +R ++ Y K
Sbjct: 29 FKTLPDN---QKKALIQQYIMQDLILQDAKKQNLEK-DPLYTKELDRAKDAILVNVYQEK 84
Query: 480 MISTCKIHDMVRDLVIRVAEEDAFSKPNGLNCRHLGVTSDVESKQLISNLK 530
+++T KI D + +D + KP + +H+ V ++ E+K +I+ LK
Sbjct: 85 ILNTIKI-DAAKVKAFYDQNKDKYVKPARVQAKHILVATEKEAKDIINELK 134
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
0.321 0.137 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,190,588
Number of Sequences: 62578
Number of extensions: 1067285
Number of successful extensions: 2862
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 2809
Number of HSP's gapped (non-prelim): 63
length of query: 849
length of database: 14,973,337
effective HSP length: 107
effective length of query: 742
effective length of database: 8,277,491
effective search space: 6141898322
effective search space used: 6141898322
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)