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= 040777
         (380 letters)

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

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



>pdb|4FET|B Chain B, Catalytic Domain Of Germination-Specific Lytic
           Tansglycosylase Sleb From Bacillus Anthracis
 pdb|4FET|A Chain A, Catalytic Domain Of Germination-Specific Lytic
           Tansglycosylase Sleb From Bacillus Anthracis
          Length = 222

 Score = 39.3 bits (90), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 58/137 (42%), Gaps = 19/137 (13%)

Query: 164 LRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSE 223
           ++ G+ GEDV  +Q  L   GF++G+ D     F  GT  A++ +Q   G+  DG+  ++
Sbjct: 7   IQRGASGEDVIELQSRLKYNGFYTGKVD---GVFGWGTYWALRNFQEKFGLPVDGLAGAK 63

Query: 224 LLESLYMEHRVEDNDTNMNADQKGIIQTIPPKEGTNGAPIASITEISEIKQTVVKEGATE 283
             + L    +  D  T    +  G  Q   P               S+ K T V  G ++
Sbjct: 64  TKQXLVKATKY-DKSTANKGNSGGTAQENKP---------------SQNKGTNVPNGYSQ 107

Query: 284 VDLSERRVFLLGENRWE 300
            D+      + GE+R E
Sbjct: 108 NDIQXXANAVYGESRGE 124


>pdb|3PIH|A Chain A, T. Maritima Uvra In Complex With Fluorescein-Modified Dna
          Length = 916

 Score = 35.4 bits (80), Expect = 0.049,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 19/38 (50%), Gaps = 1/38 (2%)

Query: 333 LMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTI 370
           LMC  C G G P I P+   +      CP C GLG+T 
Sbjct: 250 LMCPVC-GIGFPEITPKLFSFNSPYGACPNCHGLGFTF 286


>pdb|1EXK|A Chain A, Solution Structure Of The Cysteine-Rich Domain Of The
           Escherichia Coli Chaperone Protein Dnaj
          Length = 79

 Score = 28.5 bits (62), Expect = 6.1,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 9/58 (15%)

Query: 323 QCLTCRGEGR------LMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVC 374
           +C  C G G         C  C G+G+  +   F         CP+C+G G  I D C
Sbjct: 13  ECDVCHGSGAKPGTQPQTCPTCHGSGQVQMRQGFFA---VQQTCPHCQGRGTLIKDPC 67


  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
   0.314    0.130    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,556,512
Number of Sequences: 62578
Number of extensions: 318140
Number of successful extensions: 442
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 439
Number of HSP's gapped (non-prelim): 7
length of query: 380
length of database: 14,973,337
effective HSP length: 101
effective length of query: 279
effective length of database: 8,652,959
effective search space: 2414175561
effective search space used: 2414175561
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)