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= 016410
         (390 letters)

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

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



>pdb|1Z1B|A Chain A, Crystal Structure Of A Lambda Integrase Dimer Bound To A
           Coc' Core Site
 pdb|1Z1B|B Chain B, Crystal Structure Of A Lambda Integrase Dimer Bound To A
           Coc' Core Site
          Length = 356

 Score = 32.7 bits (73), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 2/67 (2%)

Query: 282 GDKTSSELKKWVPHLYVNNSDYICCYYTDPAGTVENNANKENSGPINGQVAAKLFVMSKG 341
           G + S E +   P+LY+ N+ Y C  Y DP    E    ++    I   + A + + S  
Sbjct: 2   GRRRSHERRDLPPNLYIRNNGYYC--YRDPRTGKEFGLGRDRRIAITEAIQANIELFSGH 59

Query: 342 KQKFLEA 348
           K K L A
Sbjct: 60  KHKPLTA 66


>pdb|1Z1G|A Chain A, Crystal Structure Of A Lambda Integrase Tetramer Bound To
           A Holliday Junction
 pdb|1Z1G|C Chain C, Crystal Structure Of A Lambda Integrase Tetramer Bound To
           A Holliday Junction
 pdb|1Z1G|B Chain B, Crystal Structure Of A Lambda Integrase Tetramer Bound To
           A Holliday Junction
 pdb|1Z1G|D Chain D, Crystal Structure Of A Lambda Integrase Tetramer Bound To
           A Holliday Junction
          Length = 356

 Score = 32.7 bits (73), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 2/67 (2%)

Query: 282 GDKTSSELKKWVPHLYVNNSDYICCYYTDPAGTVENNANKENSGPINGQVAAKLFVMSKG 341
           G + S E +   P+LY+ N+ Y C  Y DP    E    ++    I   + A + + S  
Sbjct: 2   GRRRSHERRDLPPNLYIRNNGYYC--YRDPRTGKEFGLGRDRRIAITEAIQANIELFSGH 59

Query: 342 KQKFLEA 348
           K K L A
Sbjct: 60  KHKPLTA 66


>pdb|1KJK|A Chain A, Solution Structure Of The Lambda Integrase Amino-Terminal
           Domain
 pdb|2WCC|3 Chain 3, Phage Lambda Intdbd1-64 Complex With P Prime 2 Dna
          Length = 64

 Score = 30.0 bits (66), Expect = 2.3,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 2/65 (3%)

Query: 282 GDKTSSELKKWVPHLYVNNSDYICCYYTDPAGTVENNANKENSGPINGQVAAKLFVMSKG 341
           G + S E +   P+LY+ N+ Y C  Y DP    E    ++    I   + A + + S  
Sbjct: 2   GRRRSHERRDLPPNLYIRNNGYYC--YRDPRTGKEFGLGRDRRIAITEAIQANIELFSGH 59

Query: 342 KQKFL 346
           K K L
Sbjct: 60  KHKPL 64


>pdb|1GPL|A Chain A, Rp2 Lipase
          Length = 432

 Score = 28.5 bits (62), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 4/46 (8%)

Query: 170 SVRFKGA----LEALRSVAGSYGSSNVCIAGHSLGAGFALQVGKAL 211
           ++R  GA    L  + S + +Y   NV I GHSLGA  A + GK L
Sbjct: 122 NIRVVGAEVAYLVQVLSTSLNYAPENVHIIGHSLGAHTAGEAGKRL 167


  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
   0.316    0.131    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,582,325
Number of Sequences: 62578
Number of extensions: 471512
Number of successful extensions: 920
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 918
Number of HSP's gapped (non-prelim): 13
length of query: 390
length of database: 14,973,337
effective HSP length: 101
effective length of query: 289
effective length of database: 8,652,959
effective search space: 2500705151
effective search space used: 2500705151
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)