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= 043555
         (363 letters)

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

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



>pdb|1NPE|A Chain A, Crystal Structure Of Nidogen/laminin Complex
          Length = 267

 Score = 32.7 bits (73), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 4/86 (4%)

Query: 6   CSTDGNLNEEKFSEPASPCHRLVYAAAASLTCAVVMASLVPIKYFSLNATSPTIIAVAIK 65
           C  D   +  +   PA P  R V      L     + S     Y++   T+ ++IA+ + 
Sbjct: 182 CWVDAGTHRAECLNPAQPGRRKVLEG---LQYPFAVTSYGKNLYYTDWKTN-SVIAMDLA 237

Query: 66  YSLDLNTVMPHKQDRLTKLSSAVFMC 91
            S +++T  PHKQ RL  ++ A+  C
Sbjct: 238 ISKEMDTFHPHKQTRLYGITIALSQC 263


>pdb|3GD5|A Chain A, Crystal Structure Of Ornithine Carbamoyltransferase From
           Gloeobacter Violaceus
 pdb|3GD5|B Chain B, Crystal Structure Of Ornithine Carbamoyltransferase From
           Gloeobacter Violaceus
 pdb|3GD5|C Chain C, Crystal Structure Of Ornithine Carbamoyltransferase From
           Gloeobacter Violaceus
 pdb|3GD5|D Chain D, Crystal Structure Of Ornithine Carbamoyltransferase From
           Gloeobacter Violaceus
 pdb|3GD5|E Chain E, Crystal Structure Of Ornithine Carbamoyltransferase From
           Gloeobacter Violaceus
 pdb|3GD5|F Chain F, Crystal Structure Of Ornithine Carbamoyltransferase From
           Gloeobacter Violaceus
          Length = 323

 Score = 30.4 bits (67), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 15/22 (68%)

Query: 226 TDKWMQMGQKKQPEHLLQLLKQ 247
           TD W  MGQ+ + +H LQL +Q
Sbjct: 231 TDVWTSMGQEAETQHRLQLFEQ 252


  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
   0.323    0.134    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,191,231
Number of Sequences: 62578
Number of extensions: 268964
Number of successful extensions: 610
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 608
Number of HSP's gapped (non-prelim): 4
length of query: 363
length of database: 14,973,337
effective HSP length: 100
effective length of query: 263
effective length of database: 8,715,537
effective search space: 2292186231
effective search space used: 2292186231
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)