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= 029265
         (196 letters)

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

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



>pdb|2YGS|A Chain A, Card Domain From Apaf-1
          Length = 92

 Score = 28.5 bits (62), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 128 QQEKFYNAPTQNMTRTAVVKEIVKFAAEGIGNSYSSALESGFSD 171
           ++EK  N PTQ      ++K I+K   +   + Y++ L  G+ D
Sbjct: 39  EEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 82


>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 = 28.5 bits (62), Expect = 2.4,   Method: Composition-based stats.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 128 QQEKFYNAPTQNMTRTAVVKEIVKFAAEGIGNSYSSALESGFSD 171
           ++EK  N PTQ      ++K I+K   +   + Y++ L  G+ D
Sbjct: 39  EEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 82


>pdb|3YGS|C Chain C, Apaf-1 Card In Complex With Prodomain Of Procaspase-9
          Length = 95

 Score = 28.5 bits (62), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 128 QQEKFYNAPTQNMTRTAVVKEIVKFAAEGIGNSYSSALESGFSD 171
           ++EK  N PTQ      ++K I+K   +   + Y++ L  G+ D
Sbjct: 39  EEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 82


>pdb|1CY5|A Chain A, Crystal Structure Of The Apaf-1 Card
 pdb|1C15|A Chain A, Solution Structure Of Apaf-1 Card
          Length = 97

 Score = 28.5 bits (62), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 128 QQEKFYNAPTQNMTRTAVVKEIVKFAAEGIGNSYSSALESGFSD 171
           ++EK  N PTQ      ++K I+K   +   + Y++ L  G+ D
Sbjct: 39  EEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 82


>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 = 28.5 bits (62), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 128 QQEKFYNAPTQNMTRTAVVKEIVKFAAEGIGNSYSSALESGFSD 171
           ++EK  N PTQ      ++K I+K   +   + Y++ L  G+ D
Sbjct: 45  EEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 88


>pdb|2P1H|A Chain A, Rapid Folding And Unfolding Of Apaf-1 Card
          Length = 94

 Score = 28.5 bits (62), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 128 QQEKFYNAPTQNMTRTAVVKEIVKFAAEGIGNSYSSALESGFSD 171
           ++EK  N PTQ      ++K I+K   +   + Y++ L  G+ D
Sbjct: 41  EEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 84


>pdb|1CWW|A Chain A, Solution Structure Of The Caspase Recruitment Domain
           (Card) From Apaf-1
          Length = 102

 Score = 28.1 bits (61), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 128 QQEKFYNAPTQNMTRTAVVKEIVKFAAEGIGNSYSSALESGFSD 171
           ++EK  N PTQ      ++K I+K   +   + Y++ L  G+ D
Sbjct: 44  EEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 87


  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
   0.321    0.131    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,941,793
Number of Sequences: 62578
Number of extensions: 162577
Number of successful extensions: 290
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 283
Number of HSP's gapped (non-prelim): 11
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)