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= 012374
         (465 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 = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 36/141 (25%), Positives = 65/141 (46%), Gaps = 5/141 (3%)

Query: 271 EWWRLVTPMFLHSGLFHVALSCWALLTFGPQVCKSYGPFTFFLIYTLG-GISGNLTSFLH 329
           E WR ++   +H    H+  +      FG  + +++G     ++Y +   I+G + +++ 
Sbjct: 49  EVWRYISHTLVHLSNLHILFNLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYVS 108

Query: 330 TPEPTVGGTGPVFAIIGAWLIYQFQNKDLIAKDVSERMFQKAILSTALSFIISNFG-PVD 388
            P    G +G V+A++G   I    N  L   D+ E  F   ++  AL FI   FG  + 
Sbjct: 109 GP-AFFGLSGVVYAVLGYVFIRDKLNHHLF--DLPEGFFTMLLVGIALGFISPLFGVEMG 165

Query: 389 TWAHLGAAFTGIIYGFLTCPL 409
             AH+     G+I+GF+   L
Sbjct: 166 NAAHISGLIVGLIWGFIDSKL 186


>pdb|1NG6|A Chain A, Structure Of Cytosolic Protein Of Unknown Function Yqey
           From Bacillus Subtilis
          Length = 148

 Score = 29.6 bits (65), Expect = 4.0,   Method: Composition-based stats.
 Identities = 31/118 (26%), Positives = 50/118 (42%), Gaps = 15/118 (12%)

Query: 85  KASTKEKLRMVRCAAKSSDSECQIRILESYLAKLKDDSIQNSSESSGEIEELHSRSG--- 141
           K   K+KL +VR    S         L++   KLK DS+    E +    EL  R     
Sbjct: 16  KNREKDKLTVVRMVKAS---------LQNEAIKLKKDSLTEDEELTVLSRELKQRKDSLQ 66

Query: 142 EINAKTELDSLDAYLGKLNTDAKFSTDQTTE---RNLVAAQLSISKSSKRGYMGKLKG 196
           E +    LD +D    +L+    +  +Q +E   R +V   ++   +S +  MGK+ G
Sbjct: 67  EFSNANRLDLVDKVQKELDILEVYLPEQLSEEELRTIVNETIAEVGASSKADMGKVMG 124


  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
   0.322    0.136    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,739,005
Number of Sequences: 62578
Number of extensions: 508610
Number of successful extensions: 1080
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1079
Number of HSP's gapped (non-prelim): 8
length of query: 465
length of database: 14,973,337
effective HSP length: 102
effective length of query: 363
effective length of database: 8,590,381
effective search space: 3118308303
effective search space used: 3118308303
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: 53 (25.0 bits)