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= 040371
         (410 letters)

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

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



>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 38.9 bits (89), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 35/138 (25%), Positives = 63/138 (45%), Gaps = 20/138 (14%)

Query: 83  IDMYSKCGKIQMAKEVFDTVQRNDVSV----WNAMISGVAIHGLAADASA---------I 129
           +DM SK G +  A  ++D  +RN V +    +N ++   ++   A ++S          I
Sbjct: 33  LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92

Query: 130 FTKMEMFNVLPDSITFL-GLLTACSHCGLVEEGRKYFDHMRS--RYSIQPQLEHYGAMVD 186
           F +M +  V+P+  TF  G   A +     ++    FD ++    + IQP+L  YG  + 
Sbjct: 93  FKQMIVDKVVPNEATFTNGARLAVAK----DDPEMAFDMVKQMKAFGIQPRLRSYGPALF 148

Query: 187 LLGRAGHIEEAYGLITSM 204
              R G  ++AY +   M
Sbjct: 149 GFCRKGDADKAYEVDAHM 166


>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana, Semet Substituted Form With Sr
          Length = 501

 Score = 35.4 bits (80), Expect = 0.060,   Method: Compositional matrix adjust.
 Identities = 32/132 (24%), Positives = 59/132 (44%), Gaps = 20/132 (15%)

Query: 83  IDMYSKCGKIQMAKEVFDTVQRNDVSV----WNAMISGVAIHGLAADASA---------I 129
           +D  SK G +  A  ++D  +RN V +    +N ++   ++   A ++S          I
Sbjct: 33  LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92

Query: 130 FTKMEMFNVLPDSITFL-GLLTACSHCGLVEEGRKYFDHMRSR--YSIQPQLEHYGAMVD 186
           F +  +  V+P+  TF  G   A +     ++    FD ++    + IQP+L  YG  + 
Sbjct: 93  FKQXIVDKVVPNEATFTNGARLAVAK----DDPEXAFDXVKQXKAFGIQPRLRSYGPALF 148

Query: 187 LLGRAGHIEEAY 198
              R G  ++AY
Sbjct: 149 GFCRKGDADKAY 160


>pdb|3OAA|D Chain D, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|E Chain E, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|F Chain F, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|L Chain L, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|M Chain M, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|N Chain N, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|T Chain T, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|U Chain U, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|V Chain V, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|BB Chain b, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|CC Chain c, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
 pdb|3OAA|DD Chain d, Structure Of The E.Coli F1-Atp Synthase Inhibited By
           Subunit Epsilon
          Length = 459

 Score = 30.8 bits (68), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 7/46 (15%)

Query: 326 VLMDVSEEEKEGNLYHHS-------EKLALAYGILKTSPGTEIRIS 364
           V   V E  +EGN ++H        +K++L YG +   PG  +R++
Sbjct: 175 VFAGVGERTREGNDFYHEMTDSNVIDKVSLVYGQMNEPPGNRLRVA 220


>pdb|3BG9|A Chain A, Crystal Structure Of Human Pyruvate Carboxylase (Missing
           The Biotin Carboxylase Domain At The N-Terminus) F1077a
           Mutant
 pdb|3BG9|B Chain B, Crystal Structure Of Human Pyruvate Carboxylase (Missing
           The Biotin Carboxylase Domain At The N-Terminus) F1077a
           Mutant
 pdb|3BG9|C Chain C, Crystal Structure Of Human Pyruvate Carboxylase (Missing
           The Biotin Carboxylase Domain At The N-Terminus) F1077a
           Mutant
 pdb|3BG9|D Chain D, Crystal Structure Of Human Pyruvate Carboxylase (Missing
           The Biotin Carboxylase Domain At The N-Terminus) F1077a
           Mutant
          Length = 718

 Score = 29.3 bits (64), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 28/88 (31%), Positives = 44/88 (50%), Gaps = 16/88 (18%)

Query: 129 IFTKMEMFNVLPDSITFLGLLTACSHCGLVEEGRKYF----DHMRSRYSIQPQLEHYGAM 184
           +F   +  N LP+ +  LG+  A S  G+VE    Y     D  R++YS+Q    +Y  +
Sbjct: 213 VFRVFDSLNYLPNML--LGMEAAGSAGGVVEAAISYTGDVADPSRTKYSLQ----YYMGL 266

Query: 185 VDLLGRAGH----IEEAYGLI--TSMTM 206
            + L RAG     I++  GL+  T+ TM
Sbjct: 267 AEELVRAGTHILCIKDMAGLLKPTACTM 294


>pdb|3QY8|A Chain A, Crystal Structures Of Ywqe From Bacillus Subtilis And Cpsb
           From Streptococcus Pneumoniae, Unique Metal-Dependent
           Tyrosine Phosphatases
          Length = 251

 Score = 28.1 bits (61), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 161 GRKY-FDHMRSRYSIQPQLEHYGA--MVDLLGRAGHIEEAYGLITS 203
           G +Y F   R++Y ++  L H  A  M +L GR  H+ EAY L+T 
Sbjct: 174 GERYKFMKKRAQYFLEQDLVHVIASDMHNLDGRPPHMAEAYDLVTQ 219


>pdb|1J2P|A Chain A, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
 pdb|1J2P|B Chain B, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
 pdb|1J2P|C Chain C, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
 pdb|1J2P|D Chain D, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
 pdb|1J2P|E Chain E, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
 pdb|1J2P|F Chain F, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
 pdb|1J2P|G Chain G, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
          Length = 246

 Score = 28.1 bits (61), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 27/49 (55%)

Query: 97  EVFDTVQRNDVSVWNAMISGVAIHGLAADASAIFTKMEMFNVLPDSITF 145
           E F+   R+D+S  +AM+ G+   GL+ ++  +   +E+  V  D  TF
Sbjct: 173 EFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTF 221


>pdb|1J2Q|A Chain A, 20s Proteasome In Complex With Calpain-inhibitor I From
           Archaeoglobus Fulgidus
 pdb|1J2Q|B Chain B, 20s Proteasome In Complex With Calpain-inhibitor I From
           Archaeoglobus Fulgidus
 pdb|1J2Q|C Chain C, 20s Proteasome In Complex With Calpain-inhibitor I From
           Archaeoglobus Fulgidus
 pdb|1J2Q|D Chain D, 20s Proteasome In Complex With Calpain-inhibitor I From
           Archaeoglobus Fulgidus
 pdb|1J2Q|E Chain E, 20s Proteasome In Complex With Calpain-inhibitor I From
           Archaeoglobus Fulgidus
 pdb|1J2Q|F Chain F, 20s Proteasome In Complex With Calpain-inhibitor I From
           Archaeoglobus Fulgidus
 pdb|1J2Q|G Chain G, 20s Proteasome In Complex With Calpain-inhibitor I From
           Archaeoglobus Fulgidus
          Length = 237

 Score = 28.1 bits (61), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 27/49 (55%)

Query: 97  EVFDTVQRNDVSVWNAMISGVAIHGLAADASAIFTKMEMFNVLPDSITF 145
           E F+   R+D+S  +AM+ G+   GL+ ++  +   +E+  V  D  TF
Sbjct: 164 EFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTF 212


>pdb|2WJD|A Chain A, Crystal Structure Of The Tyrosine Phosphatase Cps4b From
           Steptococcus Pneumoniae Tigr4.
 pdb|2WJE|A Chain A, Crystal Structure Of The Tyrosine Phosphatase Cps4b From
           Steptococcus Pneumoniae Tigr4.
 pdb|2WJF|A Chain A, Crystal Structure Of The Tyrosine Phosphatase Cps4b From
           Steptococcus Pneumoniae Tigr4 In Complex With Phosphate
          Length = 247

 Score = 28.1 bits (61), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 161 GRKY-FDHMRSRYSIQPQLEHYGA--MVDLLGRAGHIEEAYGLITS 203
           G +Y F   R++Y ++  L H  A  M +L GR  H+ EAY L+T 
Sbjct: 178 GERYKFMKKRAQYFLEQDLVHVIASDMHNLDGRPPHMAEAYDLVTQ 223


  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    0.137    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,636,287
Number of Sequences: 62578
Number of extensions: 437463
Number of successful extensions: 957
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 952
Number of HSP's gapped (non-prelim): 10
length of query: 410
length of database: 14,973,337
effective HSP length: 101
effective length of query: 309
effective length of database: 8,652,959
effective search space: 2673764331
effective search space used: 2673764331
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: 53 (25.0 bits)