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= psy3467
         (455 letters)

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

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



>pdb|3O7Q|A Chain A, Crystal Structure Of A Major Facilitator Superfamily
          (Mfs) Transporter, Fucp, In The Outward Conformation
          Length = 438

 Score = 32.0 bits (71), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 31 SFIWTTAEQGYVLSSFFYGYVLTQIPFGILAKK 63
          +F  T  + G + S+F++GY +  IP GIL KK
Sbjct: 55 AFTLTNFQAGLIQSAFYFGYFIIPIPAGILMKK 87


>pdb|3O7P|A Chain A, Crystal Structure Of The E.Coli Fucose:proton Symporter,
          Fucp (N162a)
          Length = 438

 Score = 32.0 bits (71), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 31 SFIWTTAEQGYVLSSFFYGYVLTQIPFGILAKK 63
          +F  T  + G + S+F++GY +  IP GIL KK
Sbjct: 55 AFTLTNFQAGLIQSAFYFGYFIIPIPAGILMKK 87


>pdb|3UNB|N Chain N, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNB|BB Chain b, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNB|PP Chain p, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNB|4 Chain 4, Mouse Constitutive 20s Proteasome In Complex With Pr-957
 pdb|3UNE|N Chain N, Mouse Constitutive 20s Proteasome
 pdb|3UNE|BB Chain b, Mouse Constitutive 20s Proteasome
 pdb|3UNE|PP Chain p, Mouse Constitutive 20s Proteasome
 pdb|3UNE|4 Chain 4, Mouse Constitutive 20s Proteasome
          Length = 205

 Score = 30.4 bits (67), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 3/74 (4%)

Query: 98  LGEGPIVPCTHALLAKWIPPTERSRLGAFVYAG---AQFGTVFSLPLSGLLSEYGFAGGW 154
           L E P+V    +L  +         +   + AG    + G V+S+P+ G++    FA G 
Sbjct: 70  LNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGG 129

Query: 155 PSIFYVFGLVGAVW 168
               Y++G V A +
Sbjct: 130 SGSSYIYGYVDATY 143


>pdb|1IRU|H Chain H, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
           A Resolution
 pdb|1IRU|V Chain V, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
           A Resolution
          Length = 205

 Score = 30.0 bits (66), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 3/74 (4%)

Query: 98  LGEGPIVPCTHALLAKWIPPTERSRLGAFVYAG---AQFGTVFSLPLSGLLSEYGFAGGW 154
           L E P+V    +L  +         +   + AG    + G V+S+P+ G++    FA G 
Sbjct: 70  LNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGG 129

Query: 155 PSIFYVFGLVGAVW 168
               Y++G V A +
Sbjct: 130 SGSSYIYGYVDATY 143


  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
   0.324    0.139    0.434 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,572,903
Number of Sequences: 62578
Number of extensions: 565493
Number of successful extensions: 1548
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1542
Number of HSP's gapped (non-prelim): 6
length of query: 455
length of database: 14,973,337
effective HSP length: 102
effective length of query: 353
effective length of database: 8,590,381
effective search space: 3032404493
effective search space used: 3032404493
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (25.0 bits)