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= 038747
         (401 letters)

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

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



>pdb|2AVW|A Chain A, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|B Chain B, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|C Chain C, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|D Chain D, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|E Chain E, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
 pdb|2AVW|F Chain F, Crystal Structure Of Monoclinic Form Of Streptococcus
           Mac-1
          Length = 311

 Score = 30.4 bits (67), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 6/88 (6%)

Query: 106 GPYDGIFCLCDDSLIFLWNPATKECRTLPNYSNFLPTCATFLYENAIFGLDHTSGDYKVV 165
           G +D +F   D S +       KE + L   S+ +      L E    GL HT  + ++ 
Sbjct: 178 GIFDAVFTRGDQSKLLTSRHDFKE-KNLKEISDLIKKE---LTEGKALGLSHTYANVRIN 233

Query: 166 FICELWNEQIEAPYEHSLVAIYTSTTDS 193
            +  LW    ++    +L AIY + +DS
Sbjct: 234 HVINLWGADFDS--NGNLKAIYVTDSDS 259


>pdb|1Y08|A Chain A, Structure Of The Streptococcal Endopeptidase Ides, A Novel
           Cysteine Proteinase With Strict Specificity For Igg
          Length = 323

 Score = 30.0 bits (66), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 6/88 (6%)

Query: 106 GPYDGIFCLCDDSLIFLWNPATKECRTLPNYSNFLPTCATFLYENAIFGLDHTSGDYKVV 165
           G +D +F   D S +       KE + L   S+ +      L E    GL HT  + ++ 
Sbjct: 190 GIFDAVFTRGDQSKLLTSRHDFKE-KNLKEISDLIKKE---LTEGKALGLSHTYANVRIN 245

Query: 166 FICELWNEQIEAPYEHSLVAIYTSTTDS 193
            +  LW    ++    +L AIY + +DS
Sbjct: 246 HVINLWGADFDS--NGNLKAIYVTDSDS 271


>pdb|2AU1|A Chain A, Crystal Structure Of Group A Streptococcus Mac-1
           Orthorhombic Form
          Length = 292

 Score = 30.0 bits (66), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 6/88 (6%)

Query: 106 GPYDGIFCLCDDSLIFLWNPATKECRTLPNYSNFLPTCATFLYENAIFGLDHTSGDYKVV 165
           G +D +F   D S +       KE + L   S+ +      L E    GL HT  + ++ 
Sbjct: 159 GIFDAVFTRGDQSKLLTSRHDFKE-KNLKEISDLIKKE---LTEGKALGLSHTYANVRIN 214

Query: 166 FICELWNEQIEAPYEHSLVAIYTSTTDS 193
            +  LW    ++    +L AIY + +DS
Sbjct: 215 HVINLWGADFDS--NGNLKAIYVTDSDS 240


>pdb|2X24|A Chain A, Bovine Acc2 Ct Domain In Complex With Inhibitor
 pdb|2X24|B Chain B, Bovine Acc2 Ct Domain In Complex With Inhibitor
          Length = 793

 Score = 28.5 bits (62), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 6/81 (7%)

Query: 16  DVRLEILSRLPVKSLMRLRCVCKSWYALIENPKFISKHLENFNDDNAYLIISYQVYDDAG 75
            V+ E+L   P  S M ++ + + W+  +E    +  +L + N      + ++    D  
Sbjct: 673 QVKQEVLRACPELSHMHVQSMLRRWF--VETEGAVKAYLWDNNQTVVQWLEAHGQASDVL 730

Query: 76  H----DNLTCLFKDKTLADIS 92
           H    +N+TCL +D  L  I 
Sbjct: 731 HSTIRENITCLRRDSALKTIQ 751


>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
          Length = 272

 Score = 28.1 bits (61), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 13 MPEDVRLEILSRLPVKSLMRLRCVCKSWYAL 43
          +P+++ L I S L +  L+++  VCK WY L
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRL 42


  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    0.139    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,335,564
Number of Sequences: 62578
Number of extensions: 519922
Number of successful extensions: 1242
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1232
Number of HSP's gapped (non-prelim): 15
length of query: 401
length of database: 14,973,337
effective HSP length: 101
effective length of query: 300
effective length of database: 8,652,959
effective search space: 2595887700
effective search space used: 2595887700
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)