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= 039224
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1G0U|G Chain G, A Gated Channel Into The Proteasome Core Particle
pdb|1G0U|U Chain U, A Gated Channel Into The Proteasome Core Particle
pdb|1FNT|A Chain A, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1FNT|O Chain O, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|A Chain A, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|O Chain O, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|2ZCY|G Chain G, Yeast 20s Proteasome:syringolin A-Complex
pdb|2ZCY|U Chain U, Yeast 20s Proteasome:syringolin A-Complex
pdb|3BDM|G Chain G, Yeast 20s Proteasome:glidobactin A-Complex
pdb|3BDM|U Chain U, Yeast 20s Proteasome:glidobactin A-Complex
pdb|3NZJ|G Chain G, Crystal Structure Of Yeast 20s Proteasome In Complex With
Ligand 2a
pdb|3NZJ|U Chain U, Crystal Structure Of Yeast 20s Proteasome In Complex With
Ligand 2a
pdb|3NZW|G Chain G, Crystal Structure Of The Yeast 20s Proteasome In Complex
With 2b
pdb|3NZW|U Chain U, Crystal Structure Of The Yeast 20s Proteasome In Complex
With 2b
pdb|3NZX|G Chain G, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Ligand 2c
pdb|3NZX|U Chain U, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Ligand 2c
pdb|3MG6|G Chain G, Structure Of Yeast 20s Open-Gate Proteasome With Compound
6
pdb|3MG6|U Chain U, Structure Of Yeast 20s Open-Gate Proteasome With Compound
6
pdb|3MG7|G Chain G, Structure Of Yeast 20s Open-Gate Proteasome With Compound
8
pdb|3MG7|U Chain U, Structure Of Yeast 20s Open-Gate Proteasome With Compound
8
pdb|3MG8|G Chain G, Structure Of Yeast 20s Open-Gate Proteasome With Compound
16
pdb|3MG8|U Chain U, Structure Of Yeast 20s Open-Gate Proteasome With Compound
16
pdb|3UN4|G Chain G, Yeast 20s Proteasome In Complex With Pr-957 (Morpholine)
pdb|3UN4|U Chain U, Yeast 20s Proteasome In Complex With Pr-957 (Morpholine)
pdb|3UN8|G Chain G, Yeast 20s Proteasome In Complex With Pr-957 (Epoxide)
pdb|3UN8|U Chain U, Yeast 20s Proteasome In Complex With Pr-957 (Epoxide)
pdb|4B4T|A Chain A, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
pdb|4G4S|A Chain A, Structure Of Proteasome-Pba1-Pba2 Complex
pdb|4INR|G Chain G, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu102
pdb|4INR|U Chain U, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu102
pdb|4INT|G Chain G, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu122
pdb|4INT|U Chain U, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu122
pdb|4INU|G Chain G, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu112
pdb|4INU|U Chain U, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu112
Length = 252
Score = 30.4 bits (67), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 43/93 (46%), Gaps = 14/93 (15%)
Query: 49 GYNVCGYWPK-------LENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGL 101
GY PK LENHF K ++D ++ E++VEF++ + DAL +
Sbjct: 165 GYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITH------MIDALGTEF 218
Query: 102 PTHKEEFIGVDIVFPGETCADAWIEKEIVALRE 134
+ E +GV T + IE+ +VA+ E
Sbjct: 219 SKNDLE-VGVATKDKFFTLSAENIEERLVAIAE 250
>pdb|1RYP|A Chain A, Crystal Structure Of The 20s Proteasome From Yeast At 2.4
Angstroms Resolution
pdb|1RYP|O Chain O, Crystal Structure Of The 20s Proteasome From Yeast At 2.4
Angstroms Resolution
pdb|1G65|G Chain G, Crystal Structure Of Epoxomicin:20s Proteasome Reveals A
Molecular Basis For Selectivity Of
Alpha,Beta-Epoxyketone Proteasome Inhibitors
pdb|1G65|U Chain U, Crystal Structure Of Epoxomicin:20s Proteasome Reveals A
Molecular Basis For Selectivity Of
Alpha,Beta-Epoxyketone Proteasome Inhibitors
pdb|1JD2|G Chain G, Crystal Structure Of The Yeast 20s Proteasome:tmc-95a
Complex: A Non- Covalent Proteasome Inhibitor
pdb|1JD2|2 Chain 2, Crystal Structure Of The Yeast 20s Proteasome:tmc-95a
Complex: A Non- Covalent Proteasome Inhibitor
pdb|2F16|G Chain G, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Bortezomib
pdb|2F16|U Chain U, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Bortezomib
pdb|2FAK|G Chain G, Crystal Structure Of Salinosporamide A In Complex With The
Yeast 20s Proteasome
pdb|2FAK|U Chain U, Crystal Structure Of Salinosporamide A In Complex With The
Yeast 20s Proteasome
pdb|2GPL|G Chain G, Tmc-95 Based Biphenyl-Ether Macrocycles: Specific
Proteasome Inhibitors
pdb|2GPL|U Chain U, Tmc-95 Based Biphenyl-Ether Macrocycles: Specific
Proteasome Inhibitors
pdb|3D29|G Chain G, Proteasome Inhibition By Fellutamide B
pdb|3D29|U Chain U, Proteasome Inhibition By Fellutamide B
pdb|3E47|G Chain G, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Homobelactosin C
pdb|3E47|U Chain U, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Homobelactosin C
pdb|3DY3|G Chain G, Crystal Structure Of Yeast 20s Proteasome In Complex With
The Epimer Form Of Spirolactacystin
pdb|3DY3|U Chain U, Crystal Structure Of Yeast 20s Proteasome In Complex With
The Epimer Form Of Spirolactacystin
pdb|3DY4|G Chain G, Crystal Structure Of Yeast 20s Proteasome In Complex With
Spirolactacystin
pdb|3DY4|U Chain U, Crystal Structure Of Yeast 20s Proteasome In Complex With
Spirolactacystin
pdb|3GPJ|G Chain G, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Syringolin B
pdb|3GPJ|U Chain U, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Syringolin B
pdb|3GPT|G Chain G, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Salinosporamide Derivatives: Slow Substrate Ligand
pdb|3GPT|U Chain U, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Salinosporamide Derivatives: Slow Substrate Ligand
pdb|3GPW|G Chain G, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Salinosporamide Derivatives: Irreversible Inhibitor
Ligand
pdb|3GPW|U Chain U, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Salinosporamide Derivatives: Irreversible Inhibitor
Ligand
pdb|3HYE|G Chain G, Crystal Structure Of 20s Proteasome In Complex With
Hydroxylated Salinosporamide
pdb|3HYE|U Chain U, Crystal Structure Of 20s Proteasome In Complex With
Hydroxylated Salinosporamide
pdb|1VSY|A Chain A, Proteasome Activator Complex
pdb|1VSY|O Chain O, Proteasome Activator Complex
pdb|3L5Q|A Chain A, Proteasome Activator Complex
pdb|3L5Q|C Chain C, Proteasome Activator Complex
pdb|3MG4|G Chain G, Structure Of Yeast 20s Proteasome With Compound 1
pdb|3MG4|U Chain U, Structure Of Yeast 20s Proteasome With Compound 1
pdb|3MG0|G Chain G, Structure Of Yeast 20s Proteasome With Bortezomib
pdb|3MG0|U Chain U, Structure Of Yeast 20s Proteasome With Bortezomib
pdb|3OKJ|G Chain G, Alpha-Keto-Aldehyde Binding Mechanism Reveals A Novel Lead
Structure Motif For Proteasome Inhibition
pdb|3OKJ|U Chain U, Alpha-Keto-Aldehyde Binding Mechanism Reveals A Novel Lead
Structure Motif For Proteasome Inhibition
pdb|3OEU|G Chain G, Structure Of Yeast 20s Open-Gate Proteasome With Compound
24
pdb|3OEU|U Chain U, Structure Of Yeast 20s Open-Gate Proteasome With Compound
24
pdb|3OEV|G Chain G, Structure Of Yeast 20s Open-Gate Proteasome With Compound
25
pdb|3OEV|U Chain U, Structure Of Yeast 20s Open-Gate Proteasome With Compound
25
pdb|3TDD|G Chain G, Crystal Structure Of Yeast Cp In Complex With Belactosin C
pdb|3TDD|U Chain U, Crystal Structure Of Yeast Cp In Complex With Belactosin C
pdb|3SHJ|G Chain G, Proteasome In Complex With Hydroxyurea Derivative Hu10
pdb|3SHJ|U Chain U, Proteasome In Complex With Hydroxyurea Derivative Hu10
pdb|3SDI|G Chain G, Structure Of Yeast 20s Open-Gate Proteasome With Compound
20
pdb|3SDI|U Chain U, Structure Of Yeast 20s Open-Gate Proteasome With Compound
20
pdb|3SDK|G Chain G, Structure Of Yeast 20s Open-Gate Proteasome With Compound
34
pdb|3SDK|U Chain U, Structure Of Yeast 20s Open-Gate Proteasome With Compound
34
pdb|4GK7|G Chain G, Yeast 20s Proteasome In Complex With The
Syringolin-Glidobactin Chimera
pdb|4GK7|U Chain U, Yeast 20s Proteasome In Complex With The
Syringolin-Glidobactin Chimera
pdb|4FZC|G Chain G, 20s Yeast Proteasome In Complex With Cepafungin I
pdb|4FZC|U Chain U, 20s Yeast Proteasome In Complex With Cepafungin I
pdb|4FZG|G Chain G, 20s Yeast Proteasome In Complex With Glidobactin
pdb|4FZG|U Chain U, 20s Yeast Proteasome In Complex With Glidobactin
Length = 243
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 43/93 (46%), Gaps = 14/93 (15%)
Query: 49 GYNVCGYWPK-------LENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGL 101
GY PK LENHF K ++D ++ E++VEF++ + DAL +
Sbjct: 156 GYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITH------MIDALGTEF 209
Query: 102 PTHKEEFIGVDIVFPGETCADAWIEKEIVALRE 134
+ E +GV T + IE+ +VA+ E
Sbjct: 210 SKNDLE-VGVATKDKFFTLSAENIEERLVAIAE 241
>pdb|3CQY|A Chain A, Crystal Structure Of A Functionally Unknown Protein
(So_1313) From Shewanella Oneidensis Mr-1
pdb|3CQY|B Chain B, Crystal Structure Of A Functionally Unknown Protein
(So_1313) From Shewanella Oneidensis Mr-1
Length = 370
Score = 30.0 bits (66), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 82 FSMIREVKVVVVFDAL--MSGLPTHKEEFIGVDIVFPGETCADAWIEK 127
F+ + + +V++ + ++ LP + EE +G D PG T DAW+++
Sbjct: 157 FAQVGKKRVILNIGGIANITYLPGNSEEVLGFD-TGPGNTLIDAWVQQ 203
>pdb|2IW1|A Chain A, Crystal Structure Of Waag, A Glycosyltransferase Involved
In Lipopolysaccharide Biosynthesis
Length = 374
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 62 HFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGLP 102
HF GR DV+ +L+ +E +V+ +A+ +GLP
Sbjct: 256 HFFSGRNDVSELMAAADLLLHPAYQEAAGIVLLEAITAGLP 296
>pdb|2IN3|A Chain A, Crystal Structure Of A Putative Protein Disulfide
Isomerase From Nitrosomonas Europaea
Length = 216
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 33/68 (48%)
Query: 29 SYIYNTNQGIDNAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREV 88
+IY+T V V L++ V ++ ++ F G+ DVA+ ++++L I E
Sbjct: 88 GFIYDTEPACRGVVSVSLIEPEKVFPFFAAIQRAFYVGQEDVAQLAILKKLAVDLGIPES 147
Query: 89 KVVVVFDA 96
+ VF +
Sbjct: 148 RFTPVFQS 155
>pdb|2IV7|A Chain A, Crystal Structure Of Waag, A Glycosyltransferase Involved
In Lipopolysaccharide Biosynthesis
Length = 374
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 62 HFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGLP 102
HF GR DV+ +L+ +E +V+ +A+ +GLP
Sbjct: 256 HFFSGRNDVSELXAAADLLLHPAYQEAAGIVLLEAITAGLP 296
>pdb|1OC4|A Chain A, Lactate Dehydrogenase From Plasmodium Berghei
pdb|1OC4|B Chain B, Lactate Dehydrogenase From Plasmodium Berghei
Length = 322
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 70 VARQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE 118
VA I E+ E S IR+++ V++ L+ G HK+ F G +V G
Sbjct: 237 VAPAAAIIEMAE-SYIRDLRKVLICSTLLEGQYGHKDIFAGTPLVIGGN 284
>pdb|1CZ1|A Chain A, Exo-B-(1,3)-Glucanase From Candida Albicans At 1.85 A
Resolution
pdb|1EQC|A Chain A, Exo-B-(1,3)-Glucanase From Candida Albicans In Complex
With Castanospermine At 1.85 A
Length = 394
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 23 ELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKL 59
+L +FF YN+ + + PV++ D + V GYW
Sbjct: 196 KLKQFFLDGYNSLRQTGSVTPVIIHDAFQVFGYWNNF 232
>pdb|1EQP|A Chain A, Exo-B-(1,3)-Glucanase From Candida Albicans
Length = 394
Score = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 23 ELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKL 59
+L +FF YN+ + + PV++ D + V GYW
Sbjct: 196 KLKQFFLDGYNSLRQTGSVTPVIIHDAFQVFGYWNNF 232
>pdb|2PF0|A Chain A, F258i Mutant Of Exo-B-(1,3)-Glucanase From Candida
Albicans At 1.9 A
Length = 400
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 23 ELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKL 59
+L +FF YN+ + + PV++ D + V GYW
Sbjct: 202 KLKQFFLDGYNSLRQTGSVTPVIIHDAFQVFGYWNNF 238
>pdb|2PB1|A Chain A, Exo-b-(1,3)-glucanase From Candida Albicans In Complex
With Unhydrolysed And Covalently Linked
2,4-dinitrophenyl-2-deoxy-2- Fluoro-b-d-glucopyranoside
At 1.9 A
Length = 400
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 23 ELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKL 59
+L +FF YN+ + + PV++ D + V GYW
Sbjct: 202 KLKQFFLDGYNSLRQTGSVTPVIIHDAFQVFGYWNNF 238
>pdb|2PC8|A Chain A, E292q Mutant Of Exo-B-(1,3)-Glucanase From Candida
Albicans In Complex With Two Separately Bound
Glucopyranoside Units At 1.8 A
Length = 400
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 23 ELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKL 59
+L +FF YN+ + + PV++ D + V GYW
Sbjct: 202 KLKQFFLDGYNSLRQTGSVTPVIIHDAFQVFGYWNNF 238
>pdb|2PBO|A Chain A, E27q Mutant Of Exo-B-(1,3)-Glucanase From Candida Albicans
At 1.85 A
Length = 400
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 23 ELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKL 59
+L +FF YN+ + + PV++ D + V GYW
Sbjct: 202 KLKQFFLDGYNSLRQTGSVTPVIIHDAFQVFGYWNNF 238
>pdb|3O6A|A Chain A, F144yF258Y DOUBLE MUTANT OF EXO-Beta-1,3-Glucanase From
Candida Albicans At 2 A
Length = 399
Score = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 23 ELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKL 59
+L +FF YN+ + + PV++ D + V GYW
Sbjct: 201 KLKQFFLDGYNSLRQTGSVTPVIIHDAFQVFGYWNNF 237
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
0.322 0.138 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,702,454
Number of Sequences: 62578
Number of extensions: 232217
Number of successful extensions: 413
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 16
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)