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= 020015
         (332 letters)

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

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



>pdb|4HV4|A Chain A, 2.25 Angstrom Resolution Crystal Structure Of
           Udp-N-Acetylmuramate--L- Alanine Ligase (Murc) From
           Yersinia Pestis Co92 In Complex With Amp
 pdb|4HV4|B Chain B, 2.25 Angstrom Resolution Crystal Structure Of
           Udp-N-Acetylmuramate--L- Alanine Ligase (Murc) From
           Yersinia Pestis Co92 In Complex With Amp
          Length = 494

 Score = 30.8 bits (68), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 32/79 (40%), Gaps = 6/79 (7%)

Query: 208 EIVKSEGFEISQPALDPNSTEIHHKFTIRARTKKFHRR---VYDLRGSVKCTNIS-EGPP 263
           E++ +EG++IS   L PNS   H   T       FH R   V D    V  T IS + P 
Sbjct: 40  EVLANEGYQISGSDLAPNSVTQH--LTALGAQIYFHHRPENVLDASVVVVSTAISADNPE 97

Query: 264 CTGFVEGMAPVFSRSAWYC 282
                E   PV  R+    
Sbjct: 98  IVAAREARIPVIRRAEMLA 116


>pdb|2B0C|A Chain A, The Crystal Structure Of The Putative Phosphatase From
           Escherichia Coli
          Length = 206

 Score = 28.5 bits (62), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 179 HPDVVSNYDYIFLWDEDLGVENFDPRRYLEIVKSEGFEISQPA-LDPNSTEI 229
           +P++    D+I+L  +DLG+   + R Y  ++++EGF  S     D N+  I
Sbjct: 128 YPEIRDAADHIYL-SQDLGMRKPEARIYQHVLQAEGFSPSDTVFFDDNADNI 178


>pdb|3QK6|A Chain A, Crystal Structure Of Escherichia Coli Phnd
 pdb|3QK6|B Chain B, Crystal Structure Of Escherichia Coli Phnd
 pdb|3QUJ|A Chain A, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
 pdb|3QUJ|B Chain B, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
 pdb|3QUJ|C Chain C, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
 pdb|3QUJ|D Chain D, Crystal Structure Of The Phosphonate Binding Protein,
           Phnd, From Escherichia Coli
          Length = 321

 Score = 28.1 bits (61), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 32/139 (23%), Positives = 52/139 (37%), Gaps = 17/139 (12%)

Query: 71  SSGRLKSLPRGIVQARSDLELRPLWST--SSSRKKFGVYSNRNLLAIPAGIKQKDNVDAI 128
           S  + K+L  GI+   S   L+P W+       KK GV  N       AGI Q       
Sbjct: 9   SEEQEKALNFGIISTESQQNLKPQWTPFLQDXEKKLGVKVNAFFAPDYAGIIQG------ 62

Query: 129 VRKFLPENFTVILFHYDGDVNAWRGLDWSNKAI---HIAAQNQTKWWFAKRFLHPDVVSN 185
                   F  +   + G+++A   +D +N  +    +AA     +W          ++N
Sbjct: 63  ------XRFNKVDIAWYGNLSAXEAVDRANGQVFAQTVAADGSPGYWSVLIVNKDSPINN 116

Query: 186 YDYIFLWDEDLGVENFDPR 204
            + +    +DL   N DP 
Sbjct: 117 LNDLLAKRKDLTFGNGDPN 135


  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
   0.324    0.138    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,933,645
Number of Sequences: 62578
Number of extensions: 413033
Number of successful extensions: 1018
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1018
Number of HSP's gapped (non-prelim): 5
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)