RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= 537021.9.peg.348_1
         (42 letters)



>1f1j_A Caspase-7 protease; caspase-7, cysteine protease, hydrolase,
           apoptosis; 2.35A {Homo sapiens} SCOP: c.17.1.1 PDB:
           1kmc_A 1i4o_A 1gqf_A 3h1p_A* 1shj_A* 1k86_A 1k88_A
           1shl_A*
          Length = 305

 Score = 26.6 bits (58), Expect = 1.5
 Identities = 7/26 (26%), Positives = 15/26 (57%)

Query: 3   SDKDVERIFAVFKKIFFEKSIGKNLN 28
           +DKD E +F  F+ + F+  +  + +
Sbjct: 92  TDKDAEALFKCFRSLGFDVIVYNDCS 117


>2fp3_A Caspase NC; apoptosis, initiator caspase activation, dimerization,
           active site conformation, hydrolysis/apoptosis complex;
           2.50A {Drosophila melanogaster}
          Length = 316

 Score = 25.9 bits (56), Expect = 2.5
 Identities = 6/26 (23%), Positives = 15/26 (57%)

Query: 3   SDKDVERIFAVFKKIFFEKSIGKNLN 28
           ++KD + +  +F+++ F      N+N
Sbjct: 82  AEKDSKSLIHLFQELNFTIFPYGNVN 107


>3od5_A Caspase-6; caspase domain, apoptotic protease, hydrolase; 1.60A
          {Homo sapiens} PDB: 3k7e_A 3nr2_A 2wdp_A
          Length = 278

 Score = 25.9 bits (56), Expect = 2.5
 Identities = 5/27 (18%), Positives = 10/27 (37%)

Query: 2  NSDKDVERIFAVFKKIFFEKSIGKNLN 28
           +  D + +   F  + FE     +L 
Sbjct: 43 GTCADRDNLTRRFSDLGFEVKCFNDLK 69


>2nn3_C Caspase-1; cysteine protease, hydrolase; 3.00A {Spodoptera
           frugiperda}
          Length = 310

 Score = 25.8 bits (56), Expect = 2.7
 Identities = 6/26 (23%), Positives = 14/26 (53%)

Query: 3   SDKDVERIFAVFKKIFFEKSIGKNLN 28
           ++ D + +  V K + F+ ++  NL 
Sbjct: 82  TNVDSDNLSKVLKTLGFKVTVFPNLK 107


>1nw9_B Caspase 9, apoptosis-related cysteine protease; XIAP, caspase
          inhibition, caspase activation, dimerization; 2.40A
          {Homo sapiens} SCOP: c.17.1.1 PDB: 1jxq_A* 2ar9_A
          Length = 277

 Score = 25.6 bits (55), Expect = 2.8
 Identities = 6/35 (17%), Positives = 15/35 (42%)

Query: 3  SDKDVERIFAVFKKIFFEKSIGKNLNGAILNVCCI 37
          S+ D E++   F  + F   +  +L    + +  +
Sbjct: 44 SNIDCEKLRRRFSSLHFMVEVKGDLTAKKMVLALL 78


>2wdp_A Caspase-6; alternative splicing, zymogen, protease, apoptosis,
          hydrolase, cytoplasm, polymorphism, thiol protease,
          phosphoprotein; 1.95A {Homo sapiens}
          Length = 293

 Score = 25.1 bits (54), Expect = 3.9
 Identities = 5/26 (19%), Positives = 10/26 (38%)

Query: 3  SDKDVERIFAVFKKIFFEKSIGKNLN 28
          +  D + +   F  + FE     +L 
Sbjct: 67 TCADRDNLTRRFSDLGFEVKCFNDLK 92


>1m72_A Caspase-1; caspase, cysteine protease, hydrolase; 2.30A
          {Spodoptera frugiperda} SCOP: c.17.1.1
          Length = 272

 Score = 25.1 bits (54), Expect = 4.2
 Identities = 6/27 (22%), Positives = 14/27 (51%)

Query: 2  NSDKDVERIFAVFKKIFFEKSIGKNLN 28
           ++ D + +  V K + F+ ++  NL 
Sbjct: 53 GTNVDSDNLSKVLKTLGFKVTVFPNLK 79


>3h11_A CAsp8 and FADD-like apoptosis regulator; cell death, apoptosis,
          caspase, alternative splicing, HOST- virus interaction,
          polymorphism, cytoplasm, disease mutation; 1.90A {Homo
          sapiens} PDB: 3h13_A
          Length = 272

 Score = 25.0 bits (54), Expect = 4.4
 Identities = 4/27 (14%), Positives = 10/27 (37%)

Query: 2  NSDKDVERIFAVFKKIFFEKSIGKNLN 28
              + E +   F  + +E     +L+
Sbjct: 51 CIGNETELLRDTFTSLGYEVQKFLHLS 77


>3e4c_A Caspase-1; zymogen, inflammasome, ICE, IL-1B, innate immunity,
           alternative splicing, apoptosis, cytoplasm, hydrolase,
           protease, thiol protease; 2.05A {Homo sapiens}
          Length = 302

 Score = 24.4 bits (52), Expect = 5.7
 Identities = 4/27 (14%), Positives = 13/27 (48%)

Query: 2   NSDKDVERIFAVFKKIFFEKSIGKNLN 28
            ++ D+  +  + + + +   + KNL 
Sbjct: 79  GAEVDITGMTMLLQNLGYSVDVKKNLT 105


>2j32_A Caspase-3; Pro-caspase3 mutant E173A, zymogen, protease,
          receptor, lipoprotein, polymorphism, thiol protease,
          hydrolase; 1.3A {Homo sapiens} PDB: 2j30_A 2j33_A
          2j31_A 1nms_A* 1nmq_A* 3deh_A* 3dei_A* 3dej_A* 3dek_A*
          1qx3_A
          Length = 250

 Score = 24.4 bits (52), Expect = 6.4
 Identities = 5/26 (19%), Positives = 11/26 (42%)

Query: 3  SDKDVERIFAVFKKIFFEKSIGKNLN 28
          +D D   +   F+ + +E     +L 
Sbjct: 39 TDVDAANLRETFRNLKYEVRNKNDLT 64


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.328    0.144    0.432 

Gapped
Lambda     K      H
   0.267   0.0500    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 351,723
Number of extensions: 9189
Number of successful extensions: 56
Number of sequences better than 10.0: 1
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 14
Length of query: 42
Length of database: 5,693,230
Length adjustment: 15
Effective length of query: 27
Effective length of database: 5,329,570
Effective search space: 143898390
Effective search space used: 143898390
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.6 bits)