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= 013003
         (451 letters)

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

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



>pdb|2EK8|A Chain A, Aminopeptidase From Aneurinibacillus Sp. Strain Am-1
 pdb|2EK9|A Chain A, Aminopeptidase From Aneurinibacillus Sp. Strain Am-1 With
           Bestatin
          Length = 421

 Score = 30.4 bits (67), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 18/33 (54%)

Query: 105 GDVIMVDRGNCKFTTKANIAEAAGASALLIINN 137
           G + ++ RGN  F  K   A   GA A++I NN
Sbjct: 115 GKIALIQRGNISFADKVRNAAKQGAKAVIIYNN 147


>pdb|3LKK|A Chain A, Crystal Structure Of The Isopentenyl Phosphate Kinase
           Substr Complex
 pdb|3LKK|B Chain B, Crystal Structure Of The Isopentenyl Phosphate Kinase
           Substr Complex
          Length = 249

 Score = 30.0 bits (66), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 4/79 (5%)

Query: 34  DDLAPKKPGCENDFVLVK-VQTWI--DGIENEEFVGVGARFGTTIVSKEKNANQIHL-TL 89
           D +  K P    D VL++ + T I  D ++N+   G+G +F + +  K    N ++L   
Sbjct: 170 DGIYSKDPKRNPDAVLLRDIDTNITFDRVQNDVTGGIGKKFESMVKMKSSVKNGVYLING 229

Query: 90  SHPRDCCSMPKHKYAGDVI 108
           +HP     + K  + G VI
Sbjct: 230 NHPERIGDIGKESFIGTVI 248


>pdb|3EIF|A Chain A, 1.9 Angstrom Crystal Structure Of The Active Form Of The
           C5a Peptidase From Streptococcus Pyogenes (Scpa)
          Length = 936

 Score = 29.6 bits (65), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 21/34 (61%)

Query: 105 GDVIMVDRGNCKFTTKANIAEAAGASALLIINNQ 138
           G + +++RG+  F  K   A+ AGA  +LI +NQ
Sbjct: 290 GKIALIERGDIDFKDKIANAKKAGAVGVLIYDNQ 323


>pdb|1JRH|L Chain L, Complex (AntibodyANTIGEN)
          Length = 213

 Score = 29.3 bits (64), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 151 TDLDIHIPAVMMPQDAGA--SLEKMLLNTSSVGTILCASYWSAWS 193
           T L+  +P+      +G   +L    L T  V T  C  YWS W+
Sbjct: 52  TSLETEVPSRFSGSGSGKDYTLSITSLQTEDVATYYCQQYWSTWT 96


  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    0.140    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,034,162
Number of Sequences: 62578
Number of extensions: 514993
Number of successful extensions: 1237
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1234
Number of HSP's gapped (non-prelim): 8
length of query: 451
length of database: 14,973,337
effective HSP length: 102
effective length of query: 349
effective length of database: 8,590,381
effective search space: 2998042969
effective search space used: 2998042969
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)