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= psy6521
         (83 letters)

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

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



>pdb|1KON|A Chain A, Crystal Structure Of E.Coli Yebc
          Length = 249

 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 18/37 (48%), Positives = 26/37 (70%)

Query: 38 AGHSKWQNIRHIKAAKDQEKATLFTNLSKKLKLAVKV 74
          AGHSKW N RH KAA+D ++  +FT + ++L  A K+
Sbjct: 5  AGHSKWANTRHRKAAQDAKRGKIFTKIIRELVTAAKL 41


>pdb|4F3Q|A Chain A, Structure Of A Yebc Family Protein (Cbu_1566) From
          Coxiella Burnetii
          Length = 247

 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 29/42 (69%)

Query: 38 AGHSKWQNIRHIKAAKDQEKATLFTNLSKKLKLAVKVTHQYV 79
          AGHSKW NI+H KA +D ++  +FT L +++ +A ++  + +
Sbjct: 5  AGHSKWANIKHAKARQDAKRGKVFTKLIREITVAARLGGEDI 46


>pdb|1LFP|A Chain A, Crystal Structure Of A Conserved Hypothetical Protein
          Aq1575 From Aquifex Aeolicus
          Length = 249

 Score = 34.3 bits (77), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 24/37 (64%)

Query: 38 AGHSKWQNIRHIKAAKDQEKATLFTNLSKKLKLAVKV 74
          AGHS W  I+H KA  D ++  LF+ L +++ +A ++
Sbjct: 2  AGHSHWAQIKHKKAKVDAQRGKLFSKLIREIIVATRL 38


>pdb|2DNU|A Chain A, Solution Structure Of Rsgi Ruh-061, A Sh3 Domain From
          Human
          Length = 71

 Score = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 14/46 (30%), Positives = 20/46 (43%)

Query: 9  QSKNPCKLAFSLNVAKINSNILSTIPVRYAGHSKWQNIRHIKAAKD 54
          QSK+       + V  I  N+     +RY G   W    ++K AKD
Sbjct: 20 QSKDEIGFEKGVTVEVIRKNLEGWWYIRYLGKEGWAPASYLKKAKD 65


  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    0.129    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,019,801
Number of Sequences: 62578
Number of extensions: 57274
Number of successful extensions: 115
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 109
Number of HSP's gapped (non-prelim): 6
length of query: 83
length of database: 14,973,337
effective HSP length: 51
effective length of query: 32
effective length of database: 11,781,859
effective search space: 377019488
effective search space used: 377019488
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)