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= 008597
         (560 letters)

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

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



>pdb|1PJB|A Chain A, L-alanine Dehydrogenase
 pdb|1SAY|A Chain A, L-Alanine Dehydrogenase Complexed With Pyruvate
 pdb|1PJC|A Chain A, L-Alanine Dehydrogenase Complexed With Nad
          Length = 361

 Score = 32.0 bits (71), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 7/50 (14%)

Query: 432 IVVASGFPGNLYVGSIIVGVCY---GCQWSLMPT----ITYEIFGVGHMG 474
           I+V +     +  GS+IV V     GC  +L PT     TYE+FGV H G
Sbjct: 247 ILVPASLVEQMRTGSVIVDVAVDQGGCVETLHPTSHTQPTYEVFGVVHYG 296


>pdb|2HYP|A Chain A, Crystal Structure Of Rv0805 D66a Mutant
          Length = 280

 Score = 29.6 bits (65), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 2/58 (3%)

Query: 166 GLGGAALIQAYDTIWKGRPSTYLLILALLPTFASLLFMSLVRIHGTNSADDKKHLNAF 223
           GL   A++   D   KG P+ Y  +  L+  FA+ L   LV + G +  DD+  L  F
Sbjct: 54  GLRPDAIVFTGDLAAKGEPAAYRKLRGLVEPFAAQLGAELVWVMGNH--DDRAELRKF 109


>pdb|3IB7|A Chain A, Crystal Structure Of Full Length Rv0805
 pdb|3IB8|A Chain A, Crystal Structure Of Full Length Rv0805 In Complex With
           5'-amp
          Length = 330

 Score = 29.6 bits (65), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 2/58 (3%)

Query: 166 GLGGAALIQAYDTIWKGRPSTYLLILALLPTFASLLFMSLVRIHGTNSADDKKHLNAF 223
           GL   A++   D   KG P+ Y  +  L+  FA+ L   LV + G +  DD+  L  F
Sbjct: 64  GLRPDAIVFTGDLADKGEPAAYRKLRGLVEPFAAQLGAELVWVMGNH--DDRAELRKF 119


>pdb|2HY1|A Chain A, Crystal Structure Of Rv0805
          Length = 280

 Score = 29.6 bits (65), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 2/58 (3%)

Query: 166 GLGGAALIQAYDTIWKGRPSTYLLILALLPTFASLLFMSLVRIHGTNSADDKKHLNAF 223
           GL   A++   D   KG P+ Y  +  L+  FA+ L   LV + G +  DD+  L  F
Sbjct: 54  GLRPDAIVFTGDLADKGEPAAYRKLRGLVEPFAAQLGAELVWVMGNH--DDRAELRKF 109


>pdb|2HYO|A Chain A, Crystal Structure Of Rv0805 N97a Mutant
          Length = 280

 Score = 29.6 bits (65), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 2/58 (3%)

Query: 166 GLGGAALIQAYDTIWKGRPSTYLLILALLPTFASLLFMSLVRIHGTNSADDKKHLNAF 223
           GL   A++   D   KG P+ Y  +  L+  FA+ L   LV + G +  DD+  L  F
Sbjct: 54  GLRPDAIVFTGDLADKGEPAAYRKLRGLVEPFAAQLGAELVWVMGAH--DDRAELRKF 109


  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
   0.326    0.139    0.433 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,487,998
Number of Sequences: 62578
Number of extensions: 610712
Number of successful extensions: 1600
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1599
Number of HSP's gapped (non-prelim): 10
length of query: 560
length of database: 14,973,337
effective HSP length: 104
effective length of query: 456
effective length of database: 8,465,225
effective search space: 3860142600
effective search space used: 3860142600
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: 54 (25.4 bits)