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= 046764
         (1113 letters)

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

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



>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
           Bound To Adp
 pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
           Bound To Adp
 pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
           Bound To Adp
 pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
           Bound To Adp
          Length = 591

 Score = 35.8 bits (81), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 52/108 (48%), Gaps = 16/108 (14%)

Query: 382 LLVLGDVWNENYSDWDSLSLPFEAGAPGSQIIVTTRNRDVA-AIMGSVRDYPLKEST-KD 439
           LL+L DVW+         S   +A     QI++TTR++ V  ++MG     P++ S  K+
Sbjct: 239 LLILDDVWD---------SWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 289

Query: 440 DCLQVFTQHCLGMRDFSMQQSLKDISKKIVIRCNGLPLAAKTLAGLLR 487
             L++ +   + M+    +  L + +  I+  C G PL    +  LLR
Sbjct: 290 KGLEILSLF-VNMK----KADLPEQAHSIIKECKGSPLVVSLIGALLR 332


>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
 pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
          Length = 1263

 Score = 35.8 bits (81), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 52/108 (48%), Gaps = 16/108 (14%)

Query: 382 LLVLGDVWNENYSDWDSLSLPFEAGAPGSQIIVTTRNRDVA-AIMGSVRDYPLKES-TKD 439
           LL+L DVW+         S   +A     QI++TTR++ V  ++MG     P++ S  K+
Sbjct: 245 LLILDDVWD---------SWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 295

Query: 440 DCLQVFTQHCLGMRDFSMQQSLKDISKKIVIRCNGLPLAAKTLAGLLR 487
             L++ +   + M+    +  L + +  I+  C G PL    +  LLR
Sbjct: 296 KGLEILSLF-VNMK----KADLPEQAHSIIKECKGSPLVVSLIGALLR 338


>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii
            Effector Xcv3220 (Xopl)
          Length = 328

 Score = 32.0 bits (71), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 59/152 (38%), Gaps = 23/152 (15%)

Query: 921  LKDLSIAFCDNLRTLVEEEGIPKGSRKY-------SSHLECLHILSCPSPTSIFSENELP 973
            L++LSI  C  L  L E       S ++       S  LE   I S P+  SI       
Sbjct: 152  LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPA--SI------- 202

Query: 974  ATLQRLEVNSCSKLALLTLSGNLPQGPKYLEL-----TSCSKWESIADNNTSLQVITVFR 1028
            A LQ L+        L  L   +   PK  EL     T+   +  I      L+ + +  
Sbjct: 203  ANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKD 262

Query: 1029 CKNLKTLPDGLHKLNNLQAFTI--CKNLVSFP 1058
            C NL TLP  +H+L  L+   +  C NL   P
Sbjct: 263  CSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294


>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
          Length = 1249

 Score = 30.4 bits (67), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 28/108 (25%), Positives = 51/108 (47%), Gaps = 16/108 (14%)

Query: 382 LLVLGDVWNENYSDWDSLSLPFEAGAPGSQIIVTTRNRDVA-AIMGSVRDYPLKES-TKD 439
           LL+L DVW+     W       +A     QI++TTR++ V  ++MG     P++    ++
Sbjct: 239 LLILDDVWDP----W-----VLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289

Query: 440 DCLQVFTQHCLGMRDFSMQQSLKDISKKIVIRCNGLPLAAKTLAGLLR 487
             L++ +   + M+    ++ L   +  I+  C G PL    +  LLR
Sbjct: 290 KGLEILSLF-VNMK----KEDLPAEAHSIIKECKGSPLVVSLIGALLR 332


  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
   0.319    0.136    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,880,295
Number of Sequences: 62578
Number of extensions: 1295089
Number of successful extensions: 3050
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 3047
Number of HSP's gapped (non-prelim): 12
length of query: 1113
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1004
effective length of database: 8,152,335
effective search space: 8184944340
effective search space used: 8184944340
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)