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= 026731
         (234 letters)

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

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



>pdb|3QK6|A Chain A, Crystal Structure Of Escherichia Coli Phnd
 pdb|3QK6|B Chain B, Crystal Structure Of Escherichia Coli Phnd
 pdb|3QUJ|A Chain A, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
 pdb|3QUJ|B Chain B, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
 pdb|3QUJ|C Chain C, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
 pdb|3QUJ|D Chain D, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
          Length = 321

 Score = 27.7 bits (60), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 32/139 (23%), Positives = 52/139 (37%), Gaps = 17/139 (12%)

Query: 71  SSGRLKSLPRGIVQARSDLELRPLWST--SSSRKKFGVYSNRNLLAIPAGIKQKDNVDAI 128
           S  + K+L  GI+   S   L+P W+       KK GV  N       AGI Q       
Sbjct: 9   SEEQEKALNFGIISTESQQNLKPQWTPFLQDXEKKLGVKVNAFFAPDYAGIIQG------ 62

Query: 129 VRKFLPENFTVILFHYDGDVNAWRGLDWSNKAI---HIAAQNQTKWWFAKRFLHPDVVSN 185
                   F  +   + G+++A   +D +N  +    +AA     +W          ++N
Sbjct: 63  ------XRFNKVDIAWYGNLSAXEAVDRANGQVFAQTVAADGSPGYWSVLIVNKDSPINN 116

Query: 186 YDYIFLWDEDLGVENFDPR 204
            + +    +DL   N DP 
Sbjct: 117 LNDLLAKRKDLTFGNGDPN 135


>pdb|3P7I|A Chain A, Crystal Structure Of Escherichia Coli Phnd In Complex With
           2- Aminoethyl Phosphonate
          Length = 321

 Score = 27.3 bits (59), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 33/139 (23%), Positives = 54/139 (38%), Gaps = 17/139 (12%)

Query: 71  SSGRLKSLPRGIVQARSDLELRPLWST--SSSRKKFGVYSNRNLLAIPAGIKQKDNVDAI 128
           S  + K+L  GI+   S   L+P W+       KK GV  N       AGI Q       
Sbjct: 9   SEEQEKALNFGIISTESQQNLKPQWTPFLQDMEKKLGVKVNAFFAPDYAGIIQG------ 62

Query: 129 VRKFLPENFTVILFHYDGDVNAWRGLDWSNKAI---HIAAQNQTKWWFAKRFLHPDVVSN 185
           +R      F  +   + G+++A   +D +N  +    +AA     +W          ++N
Sbjct: 63  MR------FNKVDIAWYGNLSAMEAVDRANGQVFAQTVAADGSPGYWSVLIVNKDSPINN 116

Query: 186 YDYIFLWDEDLGVENFDPR 204
            + +    +DL   N DP 
Sbjct: 117 LNDLLAKRKDLTFGNGDPN 135


>pdb|3S4U|A Chain A, Crystal Structure Of Open, Unliganded E. Coli Phnd H157a
          Length = 321

 Score = 27.3 bits (59), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 33/139 (23%), Positives = 54/139 (38%), Gaps = 17/139 (12%)

Query: 71  SSGRLKSLPRGIVQARSDLELRPLWST--SSSRKKFGVYSNRNLLAIPAGIKQKDNVDAI 128
           S  + K+L  GI+   S   L+P W+       KK GV  N       AGI Q       
Sbjct: 9   SEEQEKALNFGIISTESQQNLKPQWTPFLQDMEKKLGVKVNAFFAPDYAGIIQG------ 62

Query: 129 VRKFLPENFTVILFHYDGDVNAWRGLDWSNKAI---HIAAQNQTKWWFAKRFLHPDVVSN 185
           +R      F  +   + G+++A   +D +N  +    +AA     +W          ++N
Sbjct: 63  MR------FNKVDIAWYGNLSAMEAVDRANGQVFAQTVAADGSPGYWSVLIVNKDSPINN 116

Query: 186 YDYIFLWDEDLGVENFDPR 204
            + +    +DL   N DP 
Sbjct: 117 LNDLLAKRKDLTFGNGDPN 135


>pdb|1T5R|A Chain A, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
 pdb|1T5R|B Chain B, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
 pdb|1T5R|C Chain C, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
 pdb|1T5R|D Chain D, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
 pdb|1T5R|E Chain E, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
 pdb|1T5R|F Chain F, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
 pdb|1T5R|G Chain G, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
 pdb|1T5R|H Chain H, Structure Of The Panton-Valentine Leucocidin S Component
          From Staphylococcus Aureus
          Length = 284

 Score = 27.3 bits (59), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 23 VKMKQLQFMAIMCTVMLFVVYRTTYYQYKQTE 54
          VK K+    A++  +  F+  +TTYY YK T+
Sbjct: 36 VKDKKYNKDALILKMQGFINSKTTYYNYKNTD 67


  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
   0.328    0.140    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,017,429
Number of Sequences: 62578
Number of extensions: 288786
Number of successful extensions: 615
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 615
Number of HSP's gapped (non-prelim): 4
length of query: 234
length of database: 14,973,337
effective HSP length: 96
effective length of query: 138
effective length of database: 8,965,849
effective search space: 1237287162
effective search space used: 1237287162
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 50 (23.9 bits)