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= 027406
         (223 letters)

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

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



>pdb|1OXW|A Chain A, The Crystal Structure Of Semet Patatin
 pdb|1OXW|B Chain B, The Crystal Structure Of Semet Patatin
 pdb|1OXW|C Chain C, The Crystal Structure Of Semet Patatin
          Length = 373

 Score =  168 bits (425), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 98/216 (45%), Positives = 139/216 (64%), Gaps = 17/216 (7%)

Query: 9   GKKITVLSIDGGGVKGIIPGTILAFLESRLQDLDG-PNARIADYFDIVAGTSTGGLIGTM 67
           G+ +TVLSIDGGG++GIIP TIL FLE +LQ+ D   +AR+ADYFD++ GTSTGGL+   
Sbjct: 13  GEXVTVLSIDGGGIRGIIPATILEFLEGQLQEXDNNADARLADYFDVIGGTSTGGLLTAX 72

Query: 68  LTAPNKDGRPMYAAKDINNFYFEHCPKIFPQLSRGGNFLRSIISSLSKWVRPMYDGKYIR 127
           ++ PN++ RP  AAK+I  FYFEH P+IF   +  G  L            P YDGKY+ 
Sbjct: 73  ISTPNENNRPFAAAKEIVPFYFEHGPQIF---NPSGQILG-----------PKYDGKYLX 118

Query: 128 SLTKEILEDITIKDTLTNLIIPTFDIKRLQPVIFSSNDVKKGALKNARLADICVGTSAAP 187
            + +E L +  +   LT ++I +FDIK  +PVIF+ +++      +A+  DI   T+AAP
Sbjct: 119 QVLQEKLGETRVHQALTEVVISSFDIKTNKPVIFTKSNLANSPELDAKXYDISYSTAAAP 178

Query: 188 TYLPAHHFVTKDSTTGDTCSFDLIDGGVAA-NDPVI 222
           TY P H+FVT +++ GD   F+L+DG VA   DP +
Sbjct: 179 TYFPPHYFVT-NTSNGDEYEFNLVDGAVATVADPAL 213


  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
   0.320    0.139    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,923,061
Number of Sequences: 62578
Number of extensions: 285456
Number of successful extensions: 749
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: 745
Number of HSP's gapped (non-prelim): 5
length of query: 223
length of database: 14,973,337
effective HSP length: 95
effective length of query: 128
effective length of database: 9,028,427
effective search space: 1155638656
effective search space used: 1155638656
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: 49 (23.5 bits)