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= psy4622
         (84 letters)

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

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



>pdb|1TJL|A Chain A, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|B Chain B, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|C Chain C, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|D Chain D, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|E Chain E, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|F Chain F, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|G Chain G, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|H Chain H, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|I Chain I, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|J Chain J, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
          Length = 151

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 17/31 (54%)

Query: 31 VYRHYLHRINANLNFDNPVYRKTTEDQFSLE 61
          V R   H  +   NF +PV R   E++FSLE
Sbjct: 55 VDRTVTHMQDEAANFPDPVDRAAQEEEFSLE 85


>pdb|3SO6|Q Chain Q, Crystal Structure Of The Ldl Receptor Tail In Complex
          With Autosomal Recessive Hypercholesterolemia Ptb
          Domain
          Length = 14

 Score = 26.6 bits (57), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 10/12 (83%), Positives = 12/12 (100%)

Query: 43 LNFDNPVYRKTT 54
          +NFDNPVY+KTT
Sbjct: 3  INFDNPVYQKTT 14


>pdb|1M53|A Chain A, Crystal Structure Of Isomaltulose Synthase (Pali) From
           Klebsiella Sp. Lx3
          Length = 570

 Score = 25.4 bits (54), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)

Query: 32  YRHYLHRINANLNFDNPVYRKTTEDQFSL 60
           Y HY  R   +LN+DNP   K  ED +++
Sbjct: 173 YLHYFARQQPDLNWDNP---KVREDLYAM 198


>pdb|1NTV|B Chain B, Crystal Structure Of The Disabled-1 (Dab1) Ptb Domain-
          Apoer2 Peptide Complex
 pdb|1NU2|B Chain B, Crystal Structure Of The Murine Disabled-1 (Dab1) Ptb
          Domain-Apoer2 Peptide-Pi-4,5p2 Ternary Complex
          Length = 10

 Score = 25.4 bits (54), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 10/10 (100%), Positives = 10/10 (100%)

Query: 44 NFDNPVYRKT 53
          NFDNPVYRKT
Sbjct: 1  NFDNPVYRKT 10


  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
   0.322    0.134    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,859,278
Number of Sequences: 62578
Number of extensions: 53506
Number of successful extensions: 84
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 81
Number of HSP's gapped (non-prelim): 4
length of query: 84
length of database: 14,973,337
effective HSP length: 52
effective length of query: 32
effective length of database: 11,719,281
effective search space: 375016992
effective search space used: 375016992
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)