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= 015599
         (404 letters)

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

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



>pdb|1AE9|A Chain A, Structure Of The Lambda Integrase Catalytic Core
 pdb|1AE9|B Chain B, Structure Of The Lambda Integrase Catalytic Core
          Length = 179

 Score = 30.0 bits (66), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 14/28 (50%), Positives = 20/28 (71%)

Query: 156 KIGIPSALIDRAFGLSLKEALKKGEEVV 183
           KI IP+AL   A G+S+KE L K +E++
Sbjct: 63  KIAIPTALHIDALGISMKETLDKCKEIL 90


>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 = 29.6 bits (65), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 14/28 (50%), Positives = 20/28 (71%)

Query: 156 KIGIPSALIDRAFGLSLKEALKKGEEVV 183
           KI IP+AL   A G+S+KE L K +E++
Sbjct: 239 KIAIPTALHIDALGISMKETLDKCKEIL 266


>pdb|1P7D|A Chain A, Crystal Structure Of The Lambda Integrase (Residues
           75-356) Bound To Dna
 pdb|1P7D|B Chain B, Crystal Structure Of The Lambda Integrase (Residues
           75-356) Bound To Dna
          Length = 283

 Score = 29.6 bits (65), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/28 (50%), Positives = 20/28 (71%)

Query: 156 KIGIPSALIDRAFGLSLKEALKKGEEVV 183
           KI IP+AL   A G+S+KE L K +E++
Sbjct: 166 KIAIPTALHIDALGISMKETLDKCKEIL 193


>pdb|3DOR|A Chain A, Crystal Structure Of Mature Cpaf
 pdb|3DOR|B Chain B, Crystal Structure Of Mature Cpaf
 pdb|3DPM|A Chain A, Structure Of Mature Cpaf Complexed With Lactacystin
 pdb|3DPM|B Chain B, Structure Of Mature Cpaf Complexed With Lactacystin
          Length = 583

 Score = 28.9 bits (63), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 28/86 (32%), Positives = 38/86 (44%), Gaps = 7/86 (8%)

Query: 161 SALIDRAFGLSLKEALKKGEEVVIKLDWTESMPHPDQRVEYELWTNSNDECGIRCDEQM- 219
           S L DR   L     +   +EVV  LDW   + + D  VE  L    N E G   D Q+ 
Sbjct: 354 SMLTDRPLELPKHRMILTQDEVVDALDWLTLLENVDTNVESRLALGDNME-GYTVDLQVA 412

Query: 220 NFVKNFKGHAQIL---ERGGYTLFTP 242
            ++K+F    Q+L    +G   L TP
Sbjct: 413 EYLKSFG--RQVLNCWSKGDIELSTP 436


>pdb|3DPN|A Chain A, Crystal Structure Of Cpaf S499a Mutant
 pdb|3DPN|B Chain B, Crystal Structure Of Cpaf S499a Mutant
          Length = 583

 Score = 28.9 bits (63), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 30/66 (45%), Gaps = 2/66 (3%)

Query: 161 SALIDRAFGLSLKEALKKGEEVVIKLDWTESMPHPDQRVEYELWTNSNDECGIRCDEQM- 219
           S L DR   L     +   +EVV  LDW   + + D  VE  L    N E G   D Q+ 
Sbjct: 354 SMLTDRPLELPKHRMILTQDEVVDALDWLTLLENVDTNVESRLALGDNME-GYTVDLQVA 412

Query: 220 NFVKNF 225
            ++K+F
Sbjct: 413 EYLKSF 418


>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 = 28.1 bits (61), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 14/28 (50%), Positives = 19/28 (67%)

Query: 156 KIGIPSALIDRAFGLSLKEALKKGEEVV 183
           KI IP+AL   A G+S KE L K +E++
Sbjct: 239 KIAIPTALHIDALGISXKETLDKCKEIL 266


>pdb|1Z19|A Chain A, Crystal Structure Of A Lambda Integrase(75-356) Dimer
           Bound To A Coc' Core Site
 pdb|1Z19|B Chain B, Crystal Structure Of A Lambda Integrase(75-356) Dimer
           Bound To A Coc' Core Site
          Length = 283

 Score = 28.1 bits (61), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 14/28 (50%), Positives = 19/28 (67%)

Query: 156 KIGIPSALIDRAFGLSLKEALKKGEEVV 183
           KI IP+AL   A G+S KE L K +E++
Sbjct: 166 KIAIPTALHIDALGISXKETLDKCKEIL 193


  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    0.138    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,773,206
Number of Sequences: 62578
Number of extensions: 505526
Number of successful extensions: 1014
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1007
Number of HSP's gapped (non-prelim): 12
length of query: 404
length of database: 14,973,337
effective HSP length: 101
effective length of query: 303
effective length of database: 8,652,959
effective search space: 2621846577
effective search space used: 2621846577
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: 53 (25.0 bits)