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= psy10424
         (187 letters)

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

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



>pdb|1WDD|A Chain A, Crystal Structure Of Activated Rice Rubisco Complexed With
           2- Carboxyarabinitol-1,5-Bisphosphate
 pdb|1WDD|E Chain E, Crystal Structure Of Activated Rice Rubisco Complexed With
           2- Carboxyarabinitol-1,5-Bisphosphate
 pdb|3AXK|A Chain A, Structure Of Rice Rubisco In Complex With Nadp(H)
 pdb|3AXK|B Chain B, Structure Of Rice Rubisco In Complex With Nadp(H)
 pdb|3AXM|A Chain A, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|B Chain B, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|C Chain C, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|D Chain D, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|E Chain E, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|F Chain F, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|G Chain G, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|H Chain H, Structure Of Rice Rubisco In Complex With 6pg
          Length = 477

 Score = 27.7 bits (60), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 9/30 (30%), Positives = 17/30 (56%)

Query: 4   EMIMSRIEMLKNDIVEDEEVDSRFFMSSWV 33
           EM +  +++L++D +E +     FF   WV
Sbjct: 340 EMTLGFVDLLRDDFIEKDRARGIFFTQDWV 369


>pdb|1A1S|A Chain A, Ornithine Carbamoyltransferase From Pyrococcus Furiosus
          Length = 314

 Score = 27.7 bits (60), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 21/41 (51%)

Query: 96  TFLHVYHHAAMLLTSWAYLRFIKGEQVIFLGALNCLVHAIM 136
            F H     A  +T W     IKG +V+++G  N + H++M
Sbjct: 131 DFSHPCQALADYMTIWEKKGTIKGVKVVYVGDGNNVAHSLM 171


>pdb|1PVV|A Chain A, Refined Structure Of Pyrococcus Furiosus Ornithine
           Carbamoyltransferase At 1.87 A
          Length = 315

 Score = 27.3 bits (59), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 21/41 (51%)

Query: 96  TFLHVYHHAAMLLTSWAYLRFIKGEQVIFLGALNCLVHAIM 136
            F H     A  +T W     IKG +V+++G  N + H++M
Sbjct: 132 DFSHPCQALADYMTIWEKKGTIKGVKVVYVGDGNNVAHSLM 172


  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
   0.329    0.137    0.425 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,717,449
Number of Sequences: 62578
Number of extensions: 151870
Number of successful extensions: 328
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 324
Number of HSP's gapped (non-prelim): 4
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 48 (23.1 bits)