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= 048569
         (394 letters)

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

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



>pdb|2NR9|A Chain A, Crystal Structure Of Glpg, Rhomboid Peptidase From
           Haemophilus Influenzae
 pdb|3ODJ|A Chain A, Crystal Structure Of H. Influenzae Rhomboid Glpg With
           Disordered Loop 4, Helix 5 And Loop 5
          Length = 196

 Score = 33.1 bits (74), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 10/92 (10%)

Query: 132 TWRLFTCPWLHAGFIHLILNLGCIVLVGIHLEKEFGPVRIGIIYIFSAFVGSLAAALFVQ 191
            WR  +   +H   +H++ NL    + G  +E+ FG V++ ++Y+ ++     A   +VQ
Sbjct: 50  VWRYISHTLVHLSNLHILFNLSWFFIFGGMIERTFGSVKLLMLYVVAS-----AITGYVQ 104

Query: 192 NSPVVCASGSLFGLLGAMLSGLIRNWNFYTDK 223
           N     +  + FGL G + +  +  + F  DK
Sbjct: 105 NY---VSGPAFFGLSGVVYA--VLGYVFIRDK 131


>pdb|1SFK|A Chain A, Core (c) Protein From West Nile Virus, Subtype Kunjin
 pdb|1SFK|B Chain B, Core (c) Protein From West Nile Virus, Subtype Kunjin
 pdb|1SFK|C Chain C, Core (c) Protein From West Nile Virus, Subtype Kunjin
 pdb|1SFK|D Chain D, Core (c) Protein From West Nile Virus, Subtype Kunjin
 pdb|1SFK|E Chain E, Core (c) Protein From West Nile Virus, Subtype Kunjin
 pdb|1SFK|F Chain F, Core (c) Protein From West Nile Virus, Subtype Kunjin
 pdb|1SFK|G Chain G, Core (c) Protein From West Nile Virus, Subtype Kunjin
 pdb|1SFK|H Chain H, Core (c) Protein From West Nile Virus, Subtype Kunjin
          Length = 76

 Score = 30.0 bits (66), Expect = 2.6,   Method: Composition-based stats.
 Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)

Query: 54  RGTDTWVISVFVILHVVAFAATMAVNDCWRNSHGNCALKMLGRLSFQ 100
           RG   +V+++       A A T AV D WR+ +   A+K L  LSF+
Sbjct: 19  RGPTRFVLALLAFFRFTAIAPTRAVLDRWRSVNKQTAMKHL--LSFK 63


  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    0.138    0.439 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,964,864
Number of Sequences: 62578
Number of extensions: 355569
Number of successful extensions: 780
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 770
Number of HSP's gapped (non-prelim): 11
length of query: 394
length of database: 14,973,337
effective HSP length: 101
effective length of query: 293
effective length of database: 8,652,959
effective search space: 2535316987
effective search space used: 2535316987
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)