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= 038926
         (153 letters)

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

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



>pdb|3DHV|A Chain A, Crystal Structure Of Dlta Protein In Complex With
           D-Alanine Adenylate
          Length = 512

 Score = 28.1 bits (61), Expect = 2.0,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 9/67 (13%)

Query: 22  IQKIFPSATTFLCRWHISRNVLANCKNLFETNEIWQTFISSWNLLVLSASEEEFAQRLKG 81
           +  I+PS  T    W I ++++A  K+LF + E  Q+ I  W       S   FA+ +  
Sbjct: 200 VMDIYPSLVTGGTLWAIDKDMIARPKDLFASLE--QSDIQVW------TSTPSFAE-MCL 250

Query: 82  METDFSK 88
           ME  FS+
Sbjct: 251 MEASFSE 257


>pdb|3FCC|A Chain A, Crystal Structure Of Dlta Protein In Complex With Atp And
           Magnesium
 pdb|3FCE|A Chain A, Crystal Structure Of Bacillus Cereus D-Alanyl Carrier
           Protein Ligase Dlta In Complex With Atp: Implications
           For Adenylation Mechanism
          Length = 512

 Score = 28.1 bits (61), Expect = 2.1,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 9/67 (13%)

Query: 22  IQKIFPSATTFLCRWHISRNVLANCKNLFETNEIWQTFISSWNLLVLSASEEEFAQRLKG 81
           +  I+PS  T    W I ++++A  K+LF + E  Q+ I  W       S   FA+ +  
Sbjct: 200 VMDIYPSLVTGGTLWAIDKDMIARPKDLFASLE--QSDIQVW------TSTPSFAE-MCL 250

Query: 82  METDFSK 88
           ME  FS+
Sbjct: 251 MEASFSE 257


  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
   0.322    0.130    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,159,946
Number of Sequences: 62578
Number of extensions: 143599
Number of successful extensions: 378
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 378
Number of HSP's gapped (non-prelim): 2
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)