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= psy17066
         (192 letters)

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

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



>pdb|1YGP|A Chain A, Phosphorylated Form Of Yeast Glycogen Phosphorylase With
           Phosphate Bound In The Active Site.
 pdb|1YGP|B Chain B, Phosphorylated Form Of Yeast Glycogen Phosphorylase With
           Phosphate Bound In The Active Site
          Length = 879

 Score = 32.3 bits (72), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 21/80 (26%)

Query: 61  FKDFFHFYVMIGGLPCLAIIFVSNVFIGPATLTEIPEGYTPQHWEYHKHP-ITRFIAKTC 119
           FKDF  FY                   GP+    +  G TP+ W    +P + + I++T 
Sbjct: 497 FKDFIKFY-------------------GPSKFVNVTNGITPRRWLKQANPSLAKLISETL 537

Query: 120 HTSPQEIYEKKMDRLYELDE 139
           +  P E Y   M +L +L++
Sbjct: 538 N-DPTEEYLLDMAKLTQLEK 556


>pdb|3RRK|A Chain A, Crystal Structure Of The Cytoplasmic N-Terminal Domain Of
           Subunit I, Homolog Of Subunit A, Of V-Atpase
          Length = 357

 Score = 30.0 bits (66), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 144 QKVTNKIDKLMGERNDQQVYYYKPVHTNH 172
           QK   K+++ +G   DQ VY ++PV  +H
Sbjct: 295 QKAKGKVEEALGRLRDQIVYTFEPVDEHH 323


>pdb|1ZB1|A Chain A, Structure Basis For Endosomal Targeting By The Bro1 Domain
 pdb|1ZB1|B Chain B, Structure Basis For Endosomal Targeting By The Bro1 Domain
          Length = 392

 Score = 27.7 bits (60), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 12/66 (18%)

Query: 112 TRFIAKTCHTSPQEIYEKKM------DRLYELDEIRKIQKVT----NKIDKLMGERNDQQ 161
           TRF+A  CH   QE++  K+       + Y L  I K+ + T     K    M E +D  
Sbjct: 179 TRFLANICHAEAQELFVLKLLNDQISSKQYTL--ISKLSRATCNLFQKCHDFMKEIDDDV 236

Query: 162 VYYYKP 167
             Y +P
Sbjct: 237 AIYGEP 242


>pdb|2X40|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
           Neapolitana In Complex With Glycerol
 pdb|2X41|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
           Neapolitana In Complex With Glucose
          Length = 721

 Score = 26.9 bits (58), Expect = 6.6,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 2/92 (2%)

Query: 97  EGYTPQHWEYHKHPITRFIAKTCHTSPQEIYEKKMDRLYELDEIRKIQKVTNKIDKLMGE 156
           EG+    W    +P+ +  A      P + Y+   +R  E++EI +  K     ++++ E
Sbjct: 236 EGFVMSDWYAGDNPVEQLKAGNDLIMPGKAYQVNTERRDEIEEIMEALKEGKLSEEVLDE 295

Query: 157 --RNDQQVYYYKPVHTNHFTSREKEAEEFRDV 186
             RN  +V    P   N+  S + + E+   V
Sbjct: 296 CVRNILKVLVNAPSFKNYRYSNKPDLEKHAKV 327


>pdb|2X42|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
           Neapolitana In Complex With Alpha-D-Glucose
          Length = 721

 Score = 26.9 bits (58), Expect = 7.5,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 2/92 (2%)

Query: 97  EGYTPQHWEYHKHPITRFIAKTCHTSPQEIYEKKMDRLYELDEIRKIQKVTNKIDKLMGE 156
           EG+    W    +P+ +  A      P + Y+   +R  E++EI +  K     ++++ E
Sbjct: 236 EGFVMSAWYAGDNPVEQLKAGNDLIMPGKAYQVNTERRDEIEEIMEALKEGKLSEEVLDE 295

Query: 157 --RNDQQVYYYKPVHTNHFTSREKEAEEFRDV 186
             RN  +V    P   N+  S + + E+   V
Sbjct: 296 CVRNILKVLVNAPSFKNYRYSNKPDLEKHAKV 327


  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    0.135    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,071,306
Number of Sequences: 62578
Number of extensions: 248063
Number of successful extensions: 563
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 559
Number of HSP's gapped (non-prelim): 8
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
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: 49 (23.5 bits)