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= 006690
         (635 letters)

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

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



>pdb|1CQ3|A Chain A, Structure Of A Soluble Secreted Chemokine Inhibitor, Vcci,
           From Cowpox Virus
 pdb|1CQ3|B Chain B, Structure Of A Soluble Secreted Chemokine Inhibitor, Vcci,
           From Cowpox Virus
          Length = 233

 Score = 30.4 bits (67), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 3/46 (6%)

Query: 439 KNQPLIILNLMHEKVPLLMAEDLSGTSNMEQKCLQALSIRPFPGDL 484
           K  P++  N+ H+KV     ED+ G++ ++ KC++ L I    GD+
Sbjct: 151 KTHPVLGSNISHKKVSY---EDIIGSTIVDTKCVKNLEISVRIGDM 193


>pdb|1NFI|E Chain E, I-Kappa-B-AlphaNF-Kappa-B Complex
 pdb|1NFI|F Chain F, I-Kappa-B-AlphaNF-Kappa-B Complex
          Length = 213

 Score = 29.6 bits (65), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 5/75 (6%)

Query: 461 LSGTSNMEQKCLQALSIRPFPGDLHVEITVDIMDDENEKD-CLSNGKGSTTLISESDLPA 519
           L  T+     CL   SI  + G   VE+ V +  D N ++ C  NG+ +  L  +   P 
Sbjct: 107 LKATNYNGHTCLHLASIHGYLGI--VELLVSLGADVNAQEPC--NGRTALHLAVDLQNPD 162

Query: 520 IVSVIQSCSTNMNKI 534
           +VS++  C  ++N++
Sbjct: 163 LVSLLLKCGADVNRV 177


>pdb|1IKN|D Chain D, IkappabalphaNF-Kappab Complex
          Length = 236

 Score = 29.6 bits (65), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 5/75 (6%)

Query: 461 LSGTSNMEQKCLQALSIRPFPGDLHVEITVDIMDDENEKD-CLSNGKGSTTLISESDLPA 519
           L  T+     CL   SI  + G   VE+ V +  D N ++ C  NG+ +  L  +   P 
Sbjct: 110 LKATNYNGHTCLHLASIHGYLGI--VELLVSLGADVNAQEPC--NGRTALHLAVDLQNPD 165

Query: 520 IVSVIQSCSTNMNKI 534
           +VS++  C  ++N++
Sbjct: 166 LVSLLLKCGADVNRV 180


  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
   0.313    0.130    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,679,651
Number of Sequences: 62578
Number of extensions: 563484
Number of successful extensions: 1092
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1091
Number of HSP's gapped (non-prelim): 8
length of query: 635
length of database: 14,973,337
effective HSP length: 105
effective length of query: 530
effective length of database: 8,402,647
effective search space: 4453402910
effective search space used: 4453402910
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)