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= 033884
         (109 letters)

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

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



>pdb|3SDO|A Chain A, Structure Of A Nitrilotriacetate Monooxygenase From
           Burkholderia Pseudomallei
 pdb|3SDO|B Chain B, Structure Of A Nitrilotriacetate Monooxygenase From
           Burkholderia Pseudomallei
          Length = 453

 Score = 29.6 bits (65), Expect = 0.51,   Method: Composition-based stats.
 Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 52  LVHLSHFFVTYHFFHWKKGTPFADDQGIYNGLTWWEQIDNGKQLTRNRKF 101
           L +LSHFF  + F  +    PF  D G      +    DN K+L R RK 
Sbjct: 301 LAYLSHFFQQHDFSVYPLDGPFP-DIGTLGSDGFQSTTDNIKRLARERKL 349


>pdb|1D9U|A Chain A, Bacteriophage Lambda Lysozyme Complexed With A
           Chitohexasacharide
 pdb|1D9U|B Chain B, Bacteriophage Lambda Lysozyme Complexed With A
           Chitohexasacharide
 pdb|3D3D|A Chain A, Bacteriophage Lambda Lysozyme Complexed With A
           Chitohexasaccharide
 pdb|3D3D|B Chain B, Bacteriophage Lambda Lysozyme Complexed With A
           Chitohexasaccharide
          Length = 154

 Score = 27.3 bits (59), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 11/23 (47%), Positives = 14/23 (60%)

Query: 83  LTWWEQIDNGKQLTRNRKFLTVV 105
           L W E  DNG+Q TRN  +  +V
Sbjct: 15  LAWSEGTDNGRQKTRNHGYDVIV 37


>pdb|3C8G|A Chain A, Crystal Structure Of A Possible Transciptional Regulator
           Yggd From Shigella Flexneri 2a Str. 2457t
 pdb|3C8G|C Chain C, Crystal Structure Of A Possible Transciptional Regulator
           Yggd From Shigella Flexneri 2a Str. 2457t
          Length = 172

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 8/50 (16%)

Query: 50  WTLVHLSHFFVTYHFFHWKKGTP-FADDQGIYNGLTWWEQIDNGKQLTRN 98
           W    ++HF   +H+ + +  TP FADD         W+ I N   +TRN
Sbjct: 86  WLYADITHFSQYWHYLNEQDETPGFADD-------ITWDFISNVNSITRN 128


>pdb|3C8G|D Chain D, Crystal Structure Of A Possible Transciptional Regulator
           Yggd From Shigella Flexneri 2a Str. 2457t
          Length = 172

 Score = 25.8 bits (55), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 8/50 (16%)

Query: 50  WTLVHLSHFFVTYHFFHWKKGTP-FADDQGIYNGLTWWEQIDNGKQLTRN 98
           W    ++HF   +H+ + +  TP FADD         W+ I N   +TRN
Sbjct: 86  WLYADITHFSQYWHYLNEQDETPGFADD-------ITWDFISNVNSITRN 128


>pdb|3C8G|B Chain B, Crystal Structure Of A Possible Transciptional Regulator
           Yggd From Shigella Flexneri 2a Str. 2457t
          Length = 172

 Score = 25.8 bits (55), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 8/50 (16%)

Query: 50  WTLVHLSHFFVTYHFFHWKKGTP-FADDQGIYNGLTWWEQIDNGKQLTRN 98
           W    ++HF   +H+ + +  TP FADD         W+ I N   +TRN
Sbjct: 86  WLYADITHFSQYWHYLNEQDETPGFADD-------ITWDFISNVNSITRN 128


  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    0.140    0.499 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,926,370
Number of Sequences: 62578
Number of extensions: 157986
Number of successful extensions: 422
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 421
Number of HSP's gapped (non-prelim): 5
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
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: 45 (21.9 bits)