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= psy2995
         (429 letters)

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

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



>pdb|3PGX|A Chain A, Crystal Structure Of A Putative Carveol Dehydrogenase From
           Mycobacterium Paratuberculosis Bound To Nicotinamide
           Adenine Dinucleotide
 pdb|3PGX|B Chain B, Crystal Structure Of A Putative Carveol Dehydrogenase From
           Mycobacterium Paratuberculosis Bound To Nicotinamide
           Adenine Dinucleotide
 pdb|3PGX|C Chain C, Crystal Structure Of A Putative Carveol Dehydrogenase From
           Mycobacterium Paratuberculosis Bound To Nicotinamide
           Adenine Dinucleotide
 pdb|3PGX|D Chain D, Crystal Structure Of A Putative Carveol Dehydrogenase From
           Mycobacterium Paratuberculosis Bound To Nicotinamide
           Adenine Dinucleotide
          Length = 280

 Score = 32.3 bits (72), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 24/94 (25%), Positives = 40/94 (42%), Gaps = 19/94 (20%)

Query: 37  ASPSQLDEAKRLVDDYKKGKELPGKTLDEVWRAKDLVDSAFHPQTGEKMIIFGRMSAQVP 96
           ASP  LDE  RLV+D  +      K L  V   +D  D+A      + M  FGR+     
Sbjct: 60  ASPEDLDETARLVEDQGR------KALTRVLDVRD--DAALRELVADGMEQFGRLDV--- 108

Query: 97  MNVFITGAMLTFYKSTPAVVFWQWFNQSFNAVVN 130
             V     +L++ +       W+  ++ ++ V+ 
Sbjct: 109 --VVANAGVLSWGR------VWELTDEQWDTVIG 134


>pdb|4ACO|A Chain A, Structure Of The Budding Yeast Ndc10 N-Terminal Domain
          Length = 956

 Score = 28.9 bits (63), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 6   QVNLDKPRWDQNTYWGRARYFFNTTNPINLLASPSQLDEAKRLVDDYKK 54
           + NL  P WD++T+    R FFN  N  N L  P       ++  D+KK
Sbjct: 361 KCNLVYPTWDEDTF----RTFFNEENHGNWLEQPEAFAFPDKIPFDFKK 405


  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
   0.319    0.133    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,447,628
Number of Sequences: 62578
Number of extensions: 482716
Number of successful extensions: 1164
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1153
Number of HSP's gapped (non-prelim): 24
length of query: 429
length of database: 14,973,337
effective HSP length: 102
effective length of query: 327
effective length of database: 8,590,381
effective search space: 2809054587
effective search space used: 2809054587
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)