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= 033955
         (107 letters)

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

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



>pdb|4DIV|A Chain A, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|B Chain B, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|C Chain C, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|D Chain D, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|E Chain E, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|F Chain F, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|G Chain G, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|H Chain H, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|I Chain I, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|J Chain J, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|K Chain K, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|L Chain L, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|M Chain M, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|N Chain N, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|O Chain O, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|P Chain P, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|Q Chain Q, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
 pdb|4DIV|R Chain R, The Structure Of A 1.8 Mda Viral Genome Injection Device
           Suggests Alternative Infection Mechanisms
          Length = 299

 Score = 26.2 bits (56), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 11/50 (22%)

Query: 33  SLSYDRSKYFV-----------LLIITDGVLTDLQETKDALVRASDLPLS 71
           SLSYDR K +V           +++I DG L  ++ET+    + SD  ++
Sbjct: 243 SLSYDRQKVYVEMPKSYTLAGDIILIDDGTLLVIKETQVLCFKMSDAKIT 292


>pdb|3U6X|S Chain S, Phage Tp901-1 Baseplate Tripod
 pdb|3U6X|T Chain T, Phage Tp901-1 Baseplate Tripod
 pdb|3U6X|U Chain U, Phage Tp901-1 Baseplate Tripod
 pdb|3U6X|X Chain X, Phage Tp901-1 Baseplate Tripod
 pdb|3U6X|Y Chain Y, Phage Tp901-1 Baseplate Tripod
 pdb|3U6X|Z Chain Z, Phage Tp901-1 Baseplate Tripod
          Length = 105

 Score = 26.2 bits (56), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 15/69 (21%)

Query: 14 AGPTLFGQVINTAARIAGQSLSYDRSKYFV-----------LLIITDGVLTDLQETKDAL 62
          +GP   G  I         SLSYDR K +V           +++I DG L  ++ET+   
Sbjct: 34 SGPVFGGGTIYNVPV----SLSYDRQKVYVEMPKSYTLAGDIILIDDGTLLVIKETQVLC 89

Query: 63 VRASDLPLS 71
           + SD  ++
Sbjct: 90 FKMSDAKIT 98


  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
   0.323    0.138    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,520,012
Number of Sequences: 62578
Number of extensions: 79673
Number of successful extensions: 209
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 198
Number of HSP's gapped (non-prelim): 11
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)