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= psy4780
         (156 letters)

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

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



>pdb|2PTF|A Chain A, Crystal Structure Of Protein Mth_863 From Methanobacterium
           Thermoautotrophicum Bound To Fmn
 pdb|2PTF|B Chain B, Crystal Structure Of Protein Mth_863 From Methanobacterium
           Thermoautotrophicum Bound To Fmn
          Length = 233

 Score = 28.9 bits (63), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 6/32 (18%)

Query: 64  FTIATVGELHEDLLGKYPDFL------AFFVC 89
           FT +T+G+L ED+   Y DFL      AFF  
Sbjct: 95  FTDSTLGDLEEDMFSHYRDFLHLRGADAFFTA 126



 Score = 28.9 bits (63), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 6/32 (18%)

Query: 120 FTIATVGELHEDLLGKYPDFL------AFFVC 145
           FT +T+G+L ED+   Y DFL      AFF  
Sbjct: 95  FTDSTLGDLEEDMFSHYRDFLHLRGADAFFTA 126


>pdb|1UE1|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE1|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE5|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE5|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE6|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE6|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE6|C Chain C, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE6|D Chain D, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE7|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE7|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE7|C Chain C, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
 pdb|1UE7|D Chain D, Crystal Structure Of The Single-Stranded Dna-Binding
          Protein From Mycobacterium Tuberculosis
          Length = 164

 Score = 27.3 bits (59), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 10/34 (29%), Positives = 21/34 (61%)

Query: 55 SLCGGAISNFTIATVGELHEDLLGKYPDFLAFFV 88
          +  G A++NFT+A+   +++   G++ D  A F+
Sbjct: 22 TPSGAAVANFTVASTPRIYDRQTGEWKDGEALFL 55



 Score = 27.3 bits (59), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 10/34 (29%), Positives = 21/34 (61%)

Query: 111 SLCGGAISNFTIATVGELHEDLLGKYPDFLAFFV 144
           +  G A++NFT+A+   +++   G++ D  A F+
Sbjct: 22  TPSGAAVANFTVASTPRIYDRQTGEWKDGEALFL 55


>pdb|2BW2|A Chain A, Bofc From Bacillus Subtilis
          Length = 140

 Score = 26.2 bits (56), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 11 SVGEFWAFVIGWNIILEHMIGKHMVCKHMIGAASVARAWSGYVDSLCGGAISNF 64
          S+ +FWA   GW ++ E   G  +  K M   + +++  +GY+     G IS F
Sbjct: 35 SMDDFWAAYAGWTLV-EQKKGYVLFRKQMDDISPLSKV-NGYIGVSDNGVISTF 86


  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
   0.327    0.143    0.464 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,091,713
Number of Sequences: 62578
Number of extensions: 192465
Number of successful extensions: 551
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 547
Number of HSP's gapped (non-prelim): 7
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)