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= 000516
         (1449 letters)

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

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



>pdb|1SG1|X Chain X, Crystal Structure Of The Receptor-Ligand Complex Between
           Nerve Growth Factor And The Common Neurotrophin Receptor
           P75
          Length = 161

 Score = 32.7 bits (73), Expect = 1.7,   Method: Composition-based stats.
 Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 813 TFCKECPIGTYKDMEGSDESLCTPCSL 839
           T C+ECP GTY D E +    C PC++
Sbjct: 116 TVCEECPEGTYSD-EANHVDPCLPCTV 141


>pdb|3IJ2|X Chain X, Ligand-Receptor Structure
 pdb|3IJ2|Y Chain Y, Ligand-Receptor Structure
          Length = 171

 Score = 32.7 bits (73), Expect = 1.7,   Method: Composition-based stats.
 Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 813 TFCKECPIGTYKDMEGSDESLCTPCSL 839
           T C+ECP GTY D E +    C PC++
Sbjct: 119 TVCEECPEGTYSD-EANHVDPCLPCTV 144


>pdb|3BUK|C Chain C, Crystal Structure Of The Neurotrophin-3 And P75ntr
           Symmetrical Complex
 pdb|3BUK|D Chain D, Crystal Structure Of The Neurotrophin-3 And P75ntr
           Symmetrical Complex
          Length = 167

 Score = 32.7 bits (73), Expect = 1.7,   Method: Composition-based stats.
 Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 813 TFCKECPIGTYKDMEGSDESLCTPCSL 839
           T C+ECP GTY D E +    C PC++
Sbjct: 116 TVCEECPEGTYSD-EANHVDPCLPCTV 141


>pdb|3U3P|A Chain A, The S-Sad Phased Crystal Structure Of The Ecto-Domain Of
           Death Receptor 6 (Dr6)
 pdb|3U3Q|A Chain A, The S-Sad Phased Crystal Structure Of The Ecto-Domain Of
           Death Receptor 6 (Dr6)
 pdb|3U3S|A Chain A, The S-Sad Phased Crystal Structure Of The Ecto-Domain Of
           Death Receptor 6 (Dr6)
 pdb|3U3T|A Chain A, The S-Sad Phased Crystal Structure Of The Ecto-Domain Of
           Death Receptor 6 (Dr6)
 pdb|3U3V|A Chain A, The S-Sad Phased Crystal Structure Of The Ecto-Domain Of
           Death Receptor 6 (Dr6)
          Length = 313

 Score = 31.2 bits (69), Expect = 4.7,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 27/65 (41%), Gaps = 15/65 (23%)

Query: 788 AADNTGLFGEVGTVTGK-----KCPKGLYGT---------FCKECPIGTYKDMEGSDESL 833
           A++  G +  V   TG+     KCP G Y +          C  CP+GT+   E   E  
Sbjct: 6   ASNLIGTYRHVDRATGQVLTCDKCPAGTYVSEHCTNTSLRVCSSCPVGTFTRHENGIEK- 64

Query: 834 CTPCS 838
           C  CS
Sbjct: 65  CHDCS 69


>pdb|3QO4|A Chain A, The Crystal Structure Of Death Receptor 6
          Length = 181

 Score = 30.8 bits (68), Expect = 5.2,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 27/65 (41%), Gaps = 15/65 (23%)

Query: 788 AADNTGLFGEVGTVTGK-----KCPKGLYGT---------FCKECPIGTYKDMEGSDESL 833
           A++  G +  V   TG+     KCP G Y +          C  CP+GT+   E   E  
Sbjct: 10  ASNLIGTYRHVDRATGQVLTCDKCPAGTYVSEHCTNTSLRVCSSCPVGTFTRHENGIEK- 68

Query: 834 CTPCS 838
           C  CS
Sbjct: 69  CHDCS 73


  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    0.138    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,443,380
Number of Sequences: 62578
Number of extensions: 1458237
Number of successful extensions: 2676
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2675
Number of HSP's gapped (non-prelim): 10
length of query: 1449
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1338
effective length of database: 8,027,179
effective search space: 10740365502
effective search space used: 10740365502
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: 58 (26.9 bits)