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= 023334
         (283 letters)

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

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



>pdb|3MUN|A Chain A, Appep_pepclose Closed State
 pdb|3MUO|A Chain A, Appep_pepclose+pp Closed State
          Length = 693

 Score = 29.6 bits (65), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 179 SGTNAAVIRGALRAERPDLLTVILP 203
            G+N  ++ GA+  +RPDL+ V LP
Sbjct: 539 GGSNGGLLVGAVMTQRPDLMRVALP 563


>pdb|3IUN|A Chain A, Appep_d622n Opened State
 pdb|3IUQ|A Chain A, Appep_d622n+pp Closed State
 pdb|3IUR|A Chain A, Appep_d266nx+h2h3 Opened State
          Length = 693

 Score = 29.6 bits (65), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 179 SGTNAAVIRGALRAERPDLLTVILP 203
            G+N  ++ GA+  +RPDL+ V LP
Sbjct: 539 GGSNGGLLVGAVMTQRPDLMRVALP 563


>pdb|3IVM|A Chain A, Appep_wt+pp Closed State
          Length = 693

 Score = 28.9 bits (63), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 179 SGTNAAVIRGALRAERPDLLTVILP 203
            G+N  ++ GA+  +RPDL  V LP
Sbjct: 539 GGSNGGLLVGAVXTQRPDLXRVALP 563


>pdb|3IUJ|A Chain A, Appep_wt2 Opened State
 pdb|3IUL|A Chain A, Appep_wt1 Opened State
 pdb|3IUM|A Chain A, Appep_wtx Opened State
          Length = 693

 Score = 28.9 bits (63), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 179 SGTNAAVIRGALRAERPDLLTVILP 203
            G+N  ++ GA+  +RPDL  V LP
Sbjct: 539 GGSNGGLLVGAVXTQRPDLXRVALP 563


>pdb|2RJK|A Chain A, Crystal Structure Of Human Tl1a Extracellular Domain C95s
           Mutant
          Length = 184

 Score = 28.1 bits (61), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 181 TNAAVIRGALRAERPDLLTVILPQSLKKQPPESQELLAKVKTVIEKPHNDHLPL 234
           + ++ IR A R  +PD +TV++ + +    PE  +LL   K+V E   N   P+
Sbjct: 93  SESSEIRQAGRPNKPDSITVVITK-VTDSYPEPTQLLMGTKSVCEVGSNWFQPI 145


  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
   0.320    0.133    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,947,712
Number of Sequences: 62578
Number of extensions: 315441
Number of successful extensions: 613
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 609
Number of HSP's gapped (non-prelim): 6
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
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: 51 (24.3 bits)