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= 017401
         (372 letters)

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

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



>pdb|2WW5|A Chain A, 3d-Structure Of The Modular Autolysin Lytc From
           Streptococcus Pneumoniae At 1.6 A Resolution
 pdb|2WWD|A Chain A, 3d-Structure Of The Modular Autolysin Lytc From
           Streptococcus Pneumoniae In Complex With Pneummococcal
           Peptidoglycan Fragment
          Length = 468

 Score = 29.6 bits (65), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 25/111 (22%), Positives = 42/111 (37%), Gaps = 18/111 (16%)

Query: 182 IVSVPADSHQEWIIYLNKGSQINI-SYSVKSPGSSVFLIIAQGNEGLRQWLFDPTFPN-- 238
           + S  A +HQEW +  NK        Y  KS     + +  QG     +WL+DP +    
Sbjct: 111 LKSDGAYAHQEWQLIGNKWYYFKKWGYMAKSQWQGSYFLNGQGAMIQNEWLYDPAYSAYF 170

Query: 239 --------TTLSWNVIQGS-------GVIHQHIFTSSSYYVGLGNLNSEEV 274
                       W  + G        G + ++ +  + Y  G G + ++EV
Sbjct: 171 YLKSDGTYANQEWQKVGGKWYYFKKWGYMARNEWQGNYYLTGSGAMATDEV 221


>pdb|2WWC|A Chain A, 3d-Structure Of The Modular Autolysin Lytc From
           Streptococcus Pneumoniae In Complex With Synthetic
           Peptidoglycan Ligand
          Length = 468

 Score = 29.6 bits (65), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 25/111 (22%), Positives = 42/111 (37%), Gaps = 18/111 (16%)

Query: 182 IVSVPADSHQEWIIYLNKGSQINI-SYSVKSPGSSVFLIIAQGNEGLRQWLFDPTFPN-- 238
           + S  A +HQEW +  NK        Y  KS     + +  QG     +WL+DP +    
Sbjct: 111 LKSDGAYAHQEWQLIGNKWYYFKKWGYMAKSQWQGSYFLNGQGAMIQNEWLYDPAYSAYF 170

Query: 239 --------TTLSWNVIQGS-------GVIHQHIFTSSSYYVGLGNLNSEEV 274
                       W  + G        G + ++ +  + Y  G G + ++EV
Sbjct: 171 YLKSDGTYANQEWQKVGGKWYYFKKWGYMARNEWQGNYYLTGSGAMATDEV 221


>pdb|1WG7|A Chain A, Solution Structure Of Pleckstrin Homology Domain From
           Human Kiaa1058 Protein
          Length = 150

 Score = 28.5 bits (62), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 25/94 (26%), Positives = 37/94 (39%), Gaps = 17/94 (18%)

Query: 120 LGVYGPENLTLGPKSSILLQPSPFFVQKVKVQEI-YELKPGPKLYAFYNSPPLDTVSTWS 178
           L  Y  E ++  PK SI L      VQ  KV+   +ELK   K                S
Sbjct: 57  LNFYKDEKISKEPKGSIFLDSCMGVVQNNKVRRFAFELKMQDK----------------S 100

Query: 179 EKIIVSVPADSHQEWIIYLNKGSQINISYSVKSP 212
             ++ +      +EWI  LNK  Q+N   +++  
Sbjct: 101 SYLLAADSEVEMEEWITILNKILQLNFEAAMQEK 134


>pdb|1UF3|A Chain A, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
 pdb|1UF3|B Chain B, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
 pdb|1UF3|C Chain C, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
 pdb|1UF3|D Chain D, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
 pdb|1UF3|E Chain E, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
 pdb|1UF3|F Chain F, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
 pdb|1UF3|G Chain G, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
 pdb|1UF3|H Chain H, Crystal Structure Of Tt1561 Of Thermus Thermophilus Hb8
          Length = 228

 Score = 27.7 bits (60), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 109 TFWFFVSMTLILGVYGPENLTLGPKSSILLQPSPFFVQKVKVQEIYELKPGPKLYAFYNS 168
           TF F+    L+ GV G       P+    L+  P +V + +++ ++ELK  PK++ F+  
Sbjct: 100 TFTFWRGPYLVAGVGGEIADEGEPEEHEALR-YPAWVAEYRLKALWELKDYPKIFLFHTX 158

Query: 169 P 169
           P
Sbjct: 159 P 159


  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    0.137    0.434 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,729,944
Number of Sequences: 62578
Number of extensions: 478227
Number of successful extensions: 1094
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1094
Number of HSP's gapped (non-prelim): 4
length of query: 372
length of database: 14,973,337
effective HSP length: 100
effective length of query: 272
effective length of database: 8,715,537
effective search space: 2370626064
effective search space used: 2370626064
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: 52 (24.6 bits)