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= 026687
         (235 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1RYP|J Chain J, Crystal Structure Of The 20s Proteasome From Yeast At 2.4
           Angstroms Resolution
 pdb|1RYP|X Chain X, Crystal Structure Of The 20s Proteasome From Yeast At 2.4
           Angstroms Resolution
 pdb|1G65|I Chain I, Crystal Structure Of Epoxomicin:20s Proteasome Reveals A
           Molecular Basis For Selectivity Of
           Alpha,Beta-Epoxyketone Proteasome Inhibitors
 pdb|1G65|W Chain W, Crystal Structure Of Epoxomicin:20s Proteasome Reveals A
           Molecular Basis For Selectivity Of
           Alpha,Beta-Epoxyketone Proteasome Inhibitors
 pdb|1JD2|I Chain I, Crystal Structure Of The Yeast 20s Proteasome:tmc-95a
           Complex: A Non- Covalent Proteasome Inhibitor
 pdb|1JD2|P Chain P, Crystal Structure Of The Yeast 20s Proteasome:tmc-95a
           Complex: A Non- Covalent Proteasome Inhibitor
 pdb|2F16|I Chain I, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Bortezomib
 pdb|2F16|W Chain W, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Bortezomib
 pdb|2FAK|I Chain I, Crystal Structure Of Salinosporamide A In Complex With The
           Yeast 20s Proteasome
 pdb|2FAK|W Chain W, Crystal Structure Of Salinosporamide A In Complex With The
           Yeast 20s Proteasome
 pdb|2GPL|I Chain I, Tmc-95 Based Biphenyl-Ether Macrocycles: Specific
           Proteasome Inhibitors
 pdb|2GPL|W Chain W, Tmc-95 Based Biphenyl-Ether Macrocycles: Specific
           Proteasome Inhibitors
 pdb|3D29|I Chain I, Proteasome Inhibition By Fellutamide B
 pdb|3D29|W Chain W, Proteasome Inhibition By Fellutamide B
 pdb|3E47|I Chain I, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Homobelactosin C
 pdb|3E47|W Chain W, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Homobelactosin C
 pdb|3DY3|I Chain I, Crystal Structure Of Yeast 20s Proteasome In Complex With
           The Epimer Form Of Spirolactacystin
 pdb|3DY3|W Chain W, Crystal Structure Of Yeast 20s Proteasome In Complex With
           The Epimer Form Of Spirolactacystin
 pdb|3DY4|I Chain I, Crystal Structure Of Yeast 20s Proteasome In Complex With
           Spirolactacystin
 pdb|3DY4|W Chain W, Crystal Structure Of Yeast 20s Proteasome In Complex With
           Spirolactacystin
 pdb|3GPJ|I Chain I, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Syringolin B
 pdb|3GPJ|W Chain W, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Syringolin B
 pdb|3GPT|I Chain I, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Salinosporamide Derivatives: Slow Substrate Ligand
 pdb|3GPT|W Chain W, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Salinosporamide Derivatives: Slow Substrate Ligand
 pdb|3GPW|I Chain I, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Salinosporamide Derivatives: Irreversible Inhibitor
           Ligand
 pdb|3GPW|W Chain W, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Salinosporamide Derivatives: Irreversible Inhibitor
           Ligand
 pdb|3HYE|I Chain I, Crystal Structure Of 20s Proteasome In Complex With
           Hydroxylated Salinosporamide
 pdb|3HYE|W Chain W, Crystal Structure Of 20s Proteasome In Complex With
           Hydroxylated Salinosporamide
 pdb|1VSY|J Chain J, Proteasome Activator Complex
 pdb|1VSY|X Chain X, Proteasome Activator Complex
 pdb|3L5Q|N Chain N, Proteasome Activator Complex
 pdb|3L5Q|Z Chain Z, Proteasome Activator Complex
 pdb|3MG4|I Chain I, Structure Of Yeast 20s Proteasome With Compound 1
 pdb|3MG4|W Chain W, Structure Of Yeast 20s Proteasome With Compound 1
 pdb|3MG0|I Chain I, Structure Of Yeast 20s Proteasome With Bortezomib
 pdb|3MG0|W Chain W, Structure Of Yeast 20s Proteasome With Bortezomib
 pdb|3OKJ|I Chain I, Alpha-Keto-Aldehyde Binding Mechanism Reveals A Novel Lead
           Structure Motif For Proteasome Inhibition
 pdb|3OKJ|W Chain W, Alpha-Keto-Aldehyde Binding Mechanism Reveals A Novel Lead
           Structure Motif For Proteasome Inhibition
 pdb|3OEU|I Chain I, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           24
 pdb|3OEU|W Chain W, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           24
 pdb|3OEV|I Chain I, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           25
 pdb|3OEV|W Chain W, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           25
 pdb|3TDD|I Chain I, Crystal Structure Of Yeast Cp In Complex With Belactosin C
 pdb|3TDD|W Chain W, Crystal Structure Of Yeast Cp In Complex With Belactosin C
 pdb|3SHJ|I Chain I, Proteasome In Complex With Hydroxyurea Derivative Hu10
 pdb|3SHJ|W Chain W, Proteasome In Complex With Hydroxyurea Derivative Hu10
 pdb|3SDI|I Chain I, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           20
 pdb|3SDI|W Chain W, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           20
 pdb|3SDK|I Chain I, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           34
 pdb|3SDK|W Chain W, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           34
 pdb|4GK7|I Chain I, Yeast 20s Proteasome In Complex With The
           Syringolin-Glidobactin Chimera
 pdb|4GK7|W Chain W, Yeast 20s Proteasome In Complex With The
           Syringolin-Glidobactin Chimera
 pdb|4FZC|I Chain I, 20s Yeast Proteasome In Complex With Cepafungin I
 pdb|4FZC|W Chain W, 20s Yeast Proteasome In Complex With Cepafungin I
 pdb|4FZG|I Chain I, 20s Yeast Proteasome In Complex With Glidobactin
 pdb|4FZG|W Chain W, 20s Yeast Proteasome In Complex With Glidobactin
          Length = 204

 Score = 29.6 bits (65), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 9/97 (9%)

Query: 137 APSFSG---YGFSSKAVKTNLLGVDNL----QIGDFVLEEPSNSQMFGMHEALRTPGVTS 189
            P F G    G +SK+ K  + G D +    +  DF++   ++ Q+FGM E+L  P +  
Sbjct: 100 GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEP 159

Query: 190 QRLSVGVTPKTLRQPKRGEMLLSVHGSPLGVYEEDNM 226
           + L   ++   L    R    LS  G+ + + ++D +
Sbjct: 160 EDLFETISQALLNAADRDA--LSGWGAVVYIIKKDEV 194


>pdb|1G0U|I Chain I, A Gated Channel Into The Proteasome Core Particle
 pdb|1G0U|W Chain W, A Gated Channel Into The Proteasome Core Particle
 pdb|1FNT|J Chain J, 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|X Chain X, 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|J Chain J, 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|X Chain X, 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|I Chain I, Yeast 20s Proteasome:syringolin A-Complex
 pdb|2ZCY|W Chain W, Yeast 20s Proteasome:syringolin A-Complex
 pdb|3BDM|I Chain I, Yeast 20s Proteasome:glidobactin A-Complex
 pdb|3BDM|W Chain W, Yeast 20s Proteasome:glidobactin A-Complex
 pdb|3NZJ|I Chain I, Crystal Structure Of Yeast 20s Proteasome In Complex With
           Ligand 2a
 pdb|3NZJ|W Chain W, Crystal Structure Of Yeast 20s Proteasome In Complex With
           Ligand 2a
 pdb|3NZW|I Chain I, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With 2b
 pdb|3NZW|W Chain W, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With 2b
 pdb|3NZX|I Chain I, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Ligand 2c
 pdb|3NZX|W Chain W, Crystal Structure Of The Yeast 20s Proteasome In Complex
           With Ligand 2c
 pdb|3MG6|I Chain I, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           6
 pdb|3MG6|W Chain W, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           6
 pdb|3MG7|I Chain I, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           8
 pdb|3MG7|W Chain W, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           8
 pdb|3MG8|I Chain I, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           16
 pdb|3MG8|W Chain W, Structure Of Yeast 20s Open-Gate Proteasome With Compound
           16
 pdb|3UN4|I Chain I, Yeast 20s Proteasome In Complex With Pr-957 (Morpholine)
 pdb|3UN4|W Chain W, Yeast 20s Proteasome In Complex With Pr-957 (Morpholine)
 pdb|3UN8|I Chain I, Yeast 20s Proteasome In Complex With Pr-957 (Epoxide)
 pdb|3UN8|W Chain W, Yeast 20s Proteasome In Complex With Pr-957 (Epoxide)
 pdb|4B4T|3 Chain 3, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
 pdb|4G4S|J Chain J, Structure Of Proteasome-Pba1-Pba2 Complex
 pdb|4INR|I Chain I, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
           Lu102
 pdb|4INR|W Chain W, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
           Lu102
 pdb|4INT|I Chain I, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
           Lu122
 pdb|4INT|W Chain W, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
           Lu122
 pdb|4INU|I Chain I, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
           Lu112
 pdb|4INU|W Chain W, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
           Lu112
          Length = 205

 Score = 29.6 bits (65), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 9/97 (9%)

Query: 137 APSFSG---YGFSSKAVKTNLLGVDNL----QIGDFVLEEPSNSQMFGMHEALRTPGVTS 189
            P F G    G +SK+ K  + G D +    +  DF++   ++ Q+FGM E+L  P +  
Sbjct: 101 GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEP 160

Query: 190 QRLSVGVTPKTLRQPKRGEMLLSVHGSPLGVYEEDNM 226
           + L   ++   L    R    LS  G+ + + ++D +
Sbjct: 161 EDLFETISQALLNAADRDA--LSGWGAVVYIIKKDEV 195


>pdb|3ZEN|D Chain D, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|3ZEN|E Chain E, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|3ZEN|F Chain F, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|4B3Y|A Chain A, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|4B3Y|B Chain B, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|4B3Y|C Chain C, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
          Length = 3089

 Score = 29.3 bits (64), Expect = 1.9,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)

Query: 102 WKDEDGNFYMDNADGKDIHASLLHRMSIGYPYCSGAPSFSGYG 144
           W DE G+    + +  D   +L+ R+S G PY   A +F G G
Sbjct: 13  WNDESGSDRTADGNAADTAHALVDRLSAGEPY---AVAFGGQG 52


>pdb|1K32|A Chain A, Crystal Structure Of The Tricorn Protease
 pdb|1K32|B Chain B, Crystal Structure Of The Tricorn Protease
 pdb|1K32|C Chain C, Crystal Structure Of The Tricorn Protease
 pdb|1K32|D Chain D, Crystal Structure Of The Tricorn Protease
 pdb|1K32|E Chain E, Crystal Structure Of The Tricorn Protease
 pdb|1K32|F Chain F, Crystal Structure Of The Tricorn Protease
          Length = 1045

 Score = 28.1 bits (61), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 30/74 (40%)

Query: 80  FEENLPNLTVLRDDKNGKFEVRWKDEDGNFYMDNADGKDIHASLLHRMSIGYPYCSGAPS 139
           FEENL N+  +  D+NGKF V   D      +D   GK           I     S    
Sbjct: 374 FEENLGNVFAMGVDRNGKFAVVANDRFEIMTVDLETGKPTVIERSREAMITDFTISDNSR 433

Query: 140 FSGYGFSSKAVKTN 153
           F  YGF  K  +T+
Sbjct: 434 FIAYGFPLKHGETD 447


>pdb|1N6D|A Chain A, Tricorn Protease In Complex With Tetrapeptide Chloromethyl
           Ketone Derivative
 pdb|1N6D|B Chain B, Tricorn Protease In Complex With Tetrapeptide Chloromethyl
           Ketone Derivative
 pdb|1N6D|C Chain C, Tricorn Protease In Complex With Tetrapeptide Chloromethyl
           Ketone Derivative
 pdb|1N6D|D Chain D, Tricorn Protease In Complex With Tetrapeptide Chloromethyl
           Ketone Derivative
 pdb|1N6D|E Chain E, Tricorn Protease In Complex With Tetrapeptide Chloromethyl
           Ketone Derivative
 pdb|1N6D|F Chain F, Tricorn Protease In Complex With Tetrapeptide Chloromethyl
           Ketone Derivative
 pdb|1N6E|A Chain A, Tricorn Protease In Complex With A Tridecapeptide
           Chloromethyl Ketone Derivative
 pdb|1N6E|C Chain C, Tricorn Protease In Complex With A Tridecapeptide
           Chloromethyl Ketone Derivative
 pdb|1N6E|E Chain E, Tricorn Protease In Complex With A Tridecapeptide
           Chloromethyl Ketone Derivative
 pdb|1N6E|G Chain G, Tricorn Protease In Complex With A Tridecapeptide
           Chloromethyl Ketone Derivative
 pdb|1N6E|I Chain I, Tricorn Protease In Complex With A Tridecapeptide
           Chloromethyl Ketone Derivative
 pdb|1N6E|K Chain K, Tricorn Protease In Complex With A Tridecapeptide
           Chloromethyl Ketone Derivative
 pdb|1N6F|A Chain A, Tricorn Protease In Complex With Z-Phe-Diketo-Arg-Glu-Phe
 pdb|1N6F|B Chain B, Tricorn Protease In Complex With Z-Phe-Diketo-Arg-Glu-Phe
 pdb|1N6F|C Chain C, Tricorn Protease In Complex With Z-Phe-Diketo-Arg-Glu-Phe
 pdb|1N6F|D Chain D, Tricorn Protease In Complex With Z-Phe-Diketo-Arg-Glu-Phe
 pdb|1N6F|E Chain E, Tricorn Protease In Complex With Z-Phe-Diketo-Arg-Glu-Phe
 pdb|1N6F|F Chain F, Tricorn Protease In Complex With Z-Phe-Diketo-Arg-Glu-Phe
          Length = 1071

 Score = 28.1 bits (61), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 30/74 (40%)

Query: 80  FEENLPNLTVLRDDKNGKFEVRWKDEDGNFYMDNADGKDIHASLLHRMSIGYPYCSGAPS 139
           FEENL N+  +  D+NGKF V   D      +D   GK           I     S    
Sbjct: 400 FEENLGNVFAMGVDRNGKFAVVANDRFEIMTVDLETGKPTVIERSREAMITDFTISDNSR 459

Query: 140 FSGYGFSSKAVKTN 153
           F  YGF  K  +T+
Sbjct: 460 FIAYGFPLKHGETD 473


>pdb|3OJL|A Chain A, Native Structure Of The Udp-N-Acetyl-Mannosamine
           Dehydrogenase Cap5o From Staphylococcus Aureus
 pdb|3OJL|B Chain B, Native Structure Of The Udp-N-Acetyl-Mannosamine
           Dehydrogenase Cap5o From Staphylococcus Aureus
 pdb|3OJO|A Chain A, Derivative Structure Of The Udp-N-Acetyl-Mannosamine
           Dehydrogenase Cap5o From S. Aureus
 pdb|3OJO|B Chain B, Derivative Structure Of The Udp-N-Acetyl-Mannosamine
           Dehydrogenase Cap5o From S. Aureus
          Length = 431

 Score = 27.7 bits (60), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 7/78 (8%)

Query: 122 SLLHRMSIGYPYCSGAPSFSGYGFSSKAVKTNLLGVDNLQIGDFVLEEPSNSQMFGMHEA 181
           S L  + +GY     +  F+ +G     V  N   +D LQ G   +EEP   +++   E 
Sbjct: 12  SKLTVVGLGYIGLPTSIMFAKHGVDVLGVDINQQTIDKLQNGQISIEEPGLQEVY--EEV 69

Query: 182 LRTPGVTSQRLSVGVTPK 199
           L     +S +L V  TP+
Sbjct: 70  L-----SSGKLKVSTTPE 82


  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
   0.314    0.133    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,316,200
Number of Sequences: 62578
Number of extensions: 315111
Number of successful extensions: 502
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 499
Number of HSP's gapped (non-prelim): 9
length of query: 235
length of database: 14,973,337
effective HSP length: 96
effective length of query: 139
effective length of database: 8,965,849
effective search space: 1246253011
effective search space used: 1246253011
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)