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= 033458
         (119 letters)

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

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



>pdb|2RKN|A Chain A, X-Ray Structure Of The Self-Defense And Signaling Protein
           Dir1 From Arabidopsis Taliana
          Length = 77

 Score = 32.0 bits (71), Expect = 0.089,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 51  AQDEKASVSGSCCAQVKRMGQNPKCLCAVLLSDTAKASGVNPQVAITIPKRCNFANRPV 109
           +++   S S  CC  ++    +  CLC    S    + GV+P++A  +PK+C  AN P 
Sbjct: 20  SKENPTSPSQPCCTALQHA--DFACLCGYKNSPWLGSFGVDPELASALPKQCGLANAPT 76


>pdb|1FK0|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Capric Acid
           Revealed By High-Resolution X-Ray Crystallography
 pdb|1FK1|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Lauric Acid
           Revealed By High-Resolution X-Ray Crystallography
 pdb|1FK2|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Myristic Acid
           Revealed By High-Resolution X-Ray Crystallography
 pdb|1FK3|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Palmitoleic Acid
           Revealed By High-Resolution X-Ray Crystallography
 pdb|1FK4|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Stearic Acid
           Revealed By High-Resolution X-Ray Crystallography
 pdb|1FK5|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Oleic Acid
           Revealed By High-Resolution X-Ray Crystallography
 pdb|1FK6|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Alpha-Linolenic
           Acid Revealed By High-Resolution X-Ray Crystallography
 pdb|1FK7|A Chain A, Structural Basis Of Non-Specific Lipid Binding In Maize
           Lipid-Transfer Protein Complexes With Ricinoleic Acid
           Revealed By High-Resolution X-Ray Crystallography
 pdb|1AFH|A Chain A, Lipid Transfer Protein From Maize Seedlings, Nmr, 15
           Structures
 pdb|1MZL|A Chain A, Maize Nonspecific Lipid Transfer Protein
 pdb|1MZM|A Chain A, Maize Nonspecific Lipid Transfer Protein Complexed With
           Palmitate
          Length = 93

 Score = 28.9 bits (63), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 14/81 (17%)

Query: 44  LAPCATAAQDEKASVSGSCCAQVK------RMGQNPKCLCAVLLSDTAKASGVNPQVAIT 97
           +APC + A+ + +  S  CC+ V+      R   + +  C  L +  A  SG+N   A +
Sbjct: 11  IAPCISYARGQGSGPSAGCCSGVRSLNNAARTTADRRAACNCLKNAAAGVSGLNAGNAAS 70

Query: 98  IPKRCNFANRPVGYKCGPYTL 118
           IP +C  +         PYT+
Sbjct: 71  IPSKCGVSI--------PYTI 83


>pdb|3RB9|A Chain A, Crystal Structure Of The M. Tuberculosis Beta Clamp
 pdb|3RB9|B Chain B, Crystal Structure Of The M. Tuberculosis Beta Clamp
          Length = 395

 Score = 28.1 bits (61), Expect = 1.4,   Method: Composition-based stats.
 Identities = 14/27 (51%), Positives = 16/27 (59%)

Query: 35  SSPDNEAIKLAPCATAAQDEKASVSGS 61
           SSPD EA  L P  T A+  KA + GS
Sbjct: 189 SSPDIEAAVLVPAKTLAEAAKAGIGGS 215


>pdb|3P16|A Chain A, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|B Chain B, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|C Chain C, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|D Chain D, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|E Chain E, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
 pdb|3P16|F Chain F, Crystal Structure Of Dna Polymerase Iii Sliding Clamp
          Length = 408

 Score = 28.1 bits (61), Expect = 1.5,   Method: Composition-based stats.
 Identities = 14/27 (51%), Positives = 16/27 (59%)

Query: 35  SSPDNEAIKLAPCATAAQDEKASVSGS 61
           SSPD EA  L P  T A+  KA + GS
Sbjct: 202 SSPDIEAAVLVPAKTLAEAAKAGIGGS 228


  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
   0.317    0.128    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,834,821
Number of Sequences: 62578
Number of extensions: 85270
Number of successful extensions: 140
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 136
Number of HSP's gapped (non-prelim): 7
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)