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= psy5990
         (119 letters)

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

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



>pdb|4B4T|N Chain N, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 945

 Score = 85.1 bits (209), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 68/102 (66%)

Query: 1   MNTVAGVISLLDDPMIELKEFSLKKLNDIVDDFWPEVSEAIQKIEILHEDKGFPQYKLAA 60
           + T A +++LL +    +K ++L+ +N++VD  W E+S  +  IE L++D  F   ++AA
Sbjct: 3   LTTAAPLLALLRENQDSVKTYALESINNVVDQLWSEISNELPDIEALYDDDTFSDREMAA 62

Query: 61  LVASKVYFHLGSFSDSLQYALGAGDLFDVRNDTVYVKTIICK 102
           L+ASKVY++LG +  +++YAL A D FD+   + +V+TI+ K
Sbjct: 63  LIASKVYYNLGEYESAVKYALAAKDRFDIDEKSQFVETIVSK 104


>pdb|4ADY|A Chain A, Crystal Structure Of 26s Proteasome Subunit Rpn2
 pdb|4ADY|B Chain B, Crystal Structure Of 26s Proteasome Subunit Rpn2
          Length = 963

 Score = 84.0 bits (206), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 67/102 (65%)

Query: 1   MNTVAGVISLLDDPMIELKEFSLKKLNDIVDDFWPEVSEAIQKIEILHEDKGFPQYKLAA 60
           + T A +++LL +    +K ++L+ +N++VD  W E+S  +  IE L++D  F   + AA
Sbjct: 14  LTTAAPLLALLRENQDSVKTYALESINNVVDQLWSEISNELPDIEALYDDDTFSDREXAA 73

Query: 61  LVASKVYFHLGSFSDSLQYALGAGDLFDVRNDTVYVKTIICK 102
           L+ASKVY++LG +  +++YAL A D FD+   + +V+TI+ K
Sbjct: 74  LIASKVYYNLGEYESAVKYALAAKDRFDIDEKSQFVETIVSK 115


>pdb|1SI8|A Chain A, Crystal Structure Of E. Faecalis Catalase
 pdb|1SI8|B Chain B, Crystal Structure Of E. Faecalis Catalase
 pdb|1SI8|C Chain C, Crystal Structure Of E. Faecalis Catalase
 pdb|1SI8|D Chain D, Crystal Structure Of E. Faecalis Catalase
          Length = 484

 Score = 30.0 bits (66), Expect = 0.30,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 11/60 (18%)

Query: 32  DFWPEVSEAIQKIEILHEDKGFPQYKLAALVASKVYFHLGSF-SDSLQYALGAGDLFDVR 90
           DFW    E++ ++ IL  D+G P            + H+  F S + ++   AG++F V+
Sbjct: 163 DFWSHSPESLHQVTILMSDRGIPL----------SFRHMHGFGSHTFKWVNAAGEVFFVK 212


>pdb|2ISA|A Chain A, Crystal Structure Of Vibrio Salmonicida Catalase
 pdb|2ISA|B Chain B, Crystal Structure Of Vibrio Salmonicida Catalase
 pdb|2ISA|C Chain C, Crystal Structure Of Vibrio Salmonicida Catalase
 pdb|2ISA|D Chain D, Crystal Structure Of Vibrio Salmonicida Catalase
 pdb|2ISA|E Chain E, Crystal Structure Of Vibrio Salmonicida Catalase
 pdb|2ISA|F Chain F, Crystal Structure Of Vibrio Salmonicida Catalase
 pdb|2ISA|G Chain G, Crystal Structure Of Vibrio Salmonicida Catalase
 pdb|2ISA|H Chain H, Crystal Structure Of Vibrio Salmonicida Catalase
          Length = 483

 Score = 29.3 bits (64), Expect = 0.59,   Method: Composition-based stats.
 Identities = 9/23 (39%), Positives = 15/23 (65%)

Query: 32  DFWPEVSEAIQKIEILHEDKGFP 54
           DFW  + EA+ ++ I+  D+G P
Sbjct: 162 DFWTSLPEALHQVTIVMSDRGIP 184


>pdb|1QWL|A Chain A, Structure Of Helicobacter Pylori Catalase
 pdb|1QWL|B Chain B, Structure Of Helicobacter Pylori Catalase
 pdb|1QWM|A Chain A, Structure Of Helicobacter Pylori Catalase With Formic Acid
           Bound
 pdb|1QWM|B Chain B, Structure Of Helicobacter Pylori Catalase With Formic Acid
           Bound
          Length = 505

 Score = 29.3 bits (64), Expect = 0.66,   Method: Composition-based stats.
 Identities = 10/29 (34%), Positives = 19/29 (65%)

Query: 27  NDIVDDFWPEVSEAIQKIEILHEDKGFPQ 55
           +D+V DFW  V E++ ++  +  D+G P+
Sbjct: 160 HDMVWDFWSNVPESLYQVTWVMSDRGIPK 188


>pdb|3NWL|A Chain A, The Crystal Structure Of The P212121 Form Of Bovine Liver
           Catalase Previously Characterized By Electron Microscopy
 pdb|3NWL|B Chain B, The Crystal Structure Of The P212121 Form Of Bovine Liver
           Catalase Previously Characterized By Electron Microscopy
 pdb|3NWL|C Chain C, The Crystal Structure Of The P212121 Form Of Bovine Liver
           Catalase Previously Characterized By Electron Microscopy
 pdb|3NWL|D Chain D, The Crystal Structure Of The P212121 Form Of Bovine Liver
           Catalase Previously Characterized By Electron Microscopy
          Length = 527

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 28  DIVDDFWPEVSEAIQKIEILHEDKGFP 54
           D+V DFW    E++ ++  L  D+G P
Sbjct: 180 DMVWDFWSLRPESLHQVSFLFSDRGIP 206


>pdb|3RGP|A Chain A, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Complexed With Nitric Oxide
 pdb|3RGP|B Chain B, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Complexed With Nitric Oxide
 pdb|3RGP|C Chain C, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Complexed With Nitric Oxide
 pdb|3RGP|D Chain D, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Complexed With Nitric Oxide
 pdb|3RGS|A Chain A, Structural And Kinetic Analysis Of The Beef Liver Catalase
           With The Ammonia As A Ligand
 pdb|3RGS|B Chain B, Structural And Kinetic Analysis Of The Beef Liver Catalase
           With The Ammonia As A Ligand
 pdb|3RGS|C Chain C, Structural And Kinetic Analysis Of The Beef Liver Catalase
           With The Ammonia As A Ligand
 pdb|3RGS|D Chain D, Structural And Kinetic Analysis Of The Beef Liver Catalase
           With The Ammonia As A Ligand
 pdb|3RE8|A Chain A, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Interacting With Nitric Oxide
 pdb|3RE8|B Chain B, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Interacting With Nitric Oxide
 pdb|3RE8|C Chain C, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Interacting With Nitric Oxide
 pdb|3RE8|D Chain D, Structural And Kinetic Analysis Of The Beef Liver Catalase
           Interacting With Nitric Oxide
          Length = 499

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 28  DIVDDFWPEVSEAIQKIEILHEDKGFP 54
           D+V DFW    E++ ++  L  D+G P
Sbjct: 177 DMVWDFWSLRPESLHQVSFLFSDRGIP 203


>pdb|7CAT|A Chain A, The Nadph Binding Site On Beef Liver Catalase
 pdb|8CAT|A Chain A, The Nadph Binding Site On Beef Liver Catalase
 pdb|8CAT|B Chain B, The Nadph Binding Site On Beef Liver Catalase
 pdb|4BLC|A Chain A, The Structure Of Orthorhombic Crystals Of Beef Liver
           Catalase
 pdb|4BLC|B Chain B, The Structure Of Orthorhombic Crystals Of Beef Liver
           Catalase
 pdb|4BLC|C Chain C, The Structure Of Orthorhombic Crystals Of Beef Liver
           Catalase
 pdb|4BLC|D Chain D, The Structure Of Orthorhombic Crystals Of Beef Liver
           Catalase
 pdb|1TGU|A Chain A, The Crystal Structure Of Bovine Liver Catalase Without
           Nadph
 pdb|1TGU|B Chain B, The Crystal Structure Of Bovine Liver Catalase Without
           Nadph
 pdb|1TGU|C Chain C, The Crystal Structure Of Bovine Liver Catalase Without
           Nadph
 pdb|1TGU|D Chain D, The Crystal Structure Of Bovine Liver Catalase Without
           Nadph
 pdb|1TH2|A Chain A, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With Azide
 pdb|1TH2|B Chain B, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With Azide
 pdb|1TH2|C Chain C, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With Azide
 pdb|1TH2|D Chain D, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With Azide
 pdb|1TH3|A Chain A, Crystal Structure Of Nadph Depleted Bovine Live Catalase
           Complexed With Cyanide
 pdb|1TH3|B Chain B, Crystal Structure Of Nadph Depleted Bovine Live Catalase
           Complexed With Cyanide
 pdb|1TH3|C Chain C, Crystal Structure Of Nadph Depleted Bovine Live Catalase
           Complexed With Cyanide
 pdb|1TH3|D Chain D, Crystal Structure Of Nadph Depleted Bovine Live Catalase
           Complexed With Cyanide
 pdb|1TH4|A Chain A, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With 3-Amino-1,2,4-Triazole
 pdb|1TH4|B Chain B, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With 3-Amino-1,2,4-Triazole
 pdb|1TH4|C Chain C, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With 3-Amino-1,2,4-Triazole
 pdb|1TH4|D Chain D, Crystal Structure Of Nadph Depleted Bovine Liver Catalase
           Complexed With 3-Amino-1,2,4-Triazole
 pdb|7CAT|B Chain B, The Nadph Binding Site On Beef Liver Catalase
          Length = 506

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 28  DIVDDFWPEVSEAIQKIEILHEDKGFP 54
           D+V DFW    E++ ++  L  D+G P
Sbjct: 179 DMVWDFWSLRPESLHQVSFLFSDRGIP 205


>pdb|1QQW|A Chain A, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1QQW|B Chain B, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1QQW|C Chain C, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1QQW|D Chain D, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1F4J|A Chain A, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
 pdb|1F4J|B Chain B, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
 pdb|1F4J|C Chain C, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
 pdb|1F4J|D Chain D, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
          Length = 527

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 28  DIVDDFWPEVSEAIQKIEILHEDKGFP 54
           D+V DFW    E++ ++  L  D+G P
Sbjct: 180 DMVWDFWSLRPESLHQVSFLFSDRGIP 206


>pdb|1DGG|A Chain A, Human Erythrocyte Catalse Cyanide Complex
 pdb|1DGG|B Chain B, Human Erythrocyte Catalse Cyanide Complex
 pdb|1DGG|C Chain C, Human Erythrocyte Catalse Cyanide Complex
 pdb|1DGG|D Chain D, Human Erythrocyte Catalse Cyanide Complex
 pdb|1DGF|A Chain A, Human Erythrocyte Catalase
 pdb|1DGF|B Chain B, Human Erythrocyte Catalase
 pdb|1DGF|C Chain C, Human Erythrocyte Catalase
 pdb|1DGF|D Chain D, Human Erythrocyte Catalase
          Length = 497

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 28  DIVDDFWPEVSEAIQKIEILHEDKGFP 54
           D+V DFW    E++ ++  L  D+G P
Sbjct: 176 DMVWDFWSLRPESLHQVSFLFSDRGIP 202


>pdb|1DGH|A Chain A, Human Erythrocyte Catalase 3-Amino-1,2,4-Triazole Complex
 pdb|1DGH|C Chain C, Human Erythrocyte Catalase 3-Amino-1,2,4-Triazole Complex
 pdb|1DGB|A Chain A, Human Erythrocyte Catalase
 pdb|1DGB|B Chain B, Human Erythrocyte Catalase
 pdb|1DGB|C Chain C, Human Erythrocyte Catalase
 pdb|1DGB|D Chain D, Human Erythrocyte Catalase
          Length = 498

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 28  DIVDDFWPEVSEAIQKIEILHEDKGFP 54
           D+V DFW    E++ ++  L  D+G P
Sbjct: 177 DMVWDFWSLRPESLHQVSFLFSDRGIP 203


>pdb|1DGH|B Chain B, Human Erythrocyte Catalase 3-Amino-1,2,4-Triazole Complex
 pdb|1DGH|D Chain D, Human Erythrocyte Catalase 3-Amino-1,2,4-Triazole Complex
          Length = 498

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 28  DIVDDFWPEVSEAIQKIEILHEDKGFP 54
           D+V DFW    E++ ++  L  D+G P
Sbjct: 177 DMVWDFWSLRPESLHQVSFLFSDRGIP 203


>pdb|2A9E|A Chain A, Helicobacter Pylori Catalase Compound I
 pdb|2A9E|B Chain B, Helicobacter Pylori Catalase Compound I
 pdb|2IQF|A Chain A, Crystal Structure Of Helicobacter Pylori Catalase Compound
           I
 pdb|2IQF|B Chain B, Crystal Structure Of Helicobacter Pylori Catalase Compound
           I
          Length = 505

 Score = 28.1 bits (61), Expect = 1.2,   Method: Composition-based stats.
 Identities = 10/29 (34%), Positives = 18/29 (62%)

Query: 27  NDIVDDFWPEVSEAIQKIEILHEDKGFPQ 55
           +D V DFW  V E++ ++  +  D+G P+
Sbjct: 160 HDXVWDFWSNVPESLYQVTWVXSDRGIPK 188


>pdb|3U02|A Chain A, Crystal Structure Of The Trna Modifier Tias From
           Pyrococcus Furiosus, Northeast Structural Genomics
           Consortium Target Pfr225
 pdb|3U02|B Chain B, Crystal Structure Of The Trna Modifier Tias From
           Pyrococcus Furiosus, Northeast Structural Genomics
           Consortium Target Pfr225
 pdb|3U02|C Chain C, Crystal Structure Of The Trna Modifier Tias From
           Pyrococcus Furiosus, Northeast Structural Genomics
           Consortium Target Pfr225
 pdb|3U02|D Chain D, Crystal Structure Of The Trna Modifier Tias From
           Pyrococcus Furiosus, Northeast Structural Genomics
           Consortium Target Pfr225
          Length = 252

 Score = 25.4 bits (54), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 19/29 (65%)

Query: 2   NTVAGVISLLDDPMIELKEFSLKKLNDIV 30
           NT  G++ L+ +   EL+EFSL+ L + V
Sbjct: 90  NTNPGIVFLIGEVPKELEEFSLRALREHV 118


  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
   0.323    0.140    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,342,917
Number of Sequences: 62578
Number of extensions: 124142
Number of successful extensions: 280
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 266
Number of HSP's gapped (non-prelim): 15
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)