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= psy15697
         (332 letters)

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

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



>pdb|3AK0|A Chain A, Crystal Structure Of Ancestral Congerin Con-Anc'-N28k
 pdb|3AK0|B Chain B, Crystal Structure Of Ancestral Congerin Con-Anc'-N28k
          Length = 135

 Score = 28.9 bits (63), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 7/52 (13%)

Query: 107 RKGGFPNVAG-------CVDGTMVLIDAPNEHEDQFVNRNGDHALNVMAICG 151
           R   FP  AG         D     I  P+ H+ +F NR+GD A N + + G
Sbjct: 74  RSKNFPFTAGEHFQITITFDIDTFYIQLPDGHKVEFPNRHGDEAFNFIYLAG 125


>pdb|3AJZ|A Chain A, Crystal Structure Of Ancestral Congerin Con-Anc
          Length = 135

 Score = 28.5 bits (62), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 7/52 (13%)

Query: 107 RKGGFPNVAG-------CVDGTMVLIDAPNEHEDQFVNRNGDHALNVMAICG 151
           R   FP  AG         D     I  P+ H+ +F NR+GD A N + + G
Sbjct: 74  RSKNFPFTAGEHFQITITFDIDTFYIQLPDGHKVEFPNRHGDEAFNFIYLAG 125


>pdb|2BJV|A Chain A, Crystal Structure Of Pspf(1-275) R168a Mutant
          Length = 265

 Score = 28.1 bits (61), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 17/63 (26%)

Query: 159 VNANWPGSVHDARVMRNSMVYRKFDEEGWRPFPDAVILGDSAYPLKEWLIPPRTRNP--D 216
           +N  WPG++ + + +    VYR                G S YPL + +I P  R P  D
Sbjct: 218 LNYRWPGNIRELKNVVERSVYRH---------------GTSDYPLDDIIIDPFKRRPPED 262

Query: 217 AAA 219
           A A
Sbjct: 263 AIA 265


>pdb|2BJW|A Chain A, Pspf Aaa Domain
 pdb|2C96|A Chain A, Structural Basis Of The Nucleotide Driven Conformational
           Changes In The Aaa Domain Of Transcription Activator
           Pspf
 pdb|2C98|A Chain A, Structural Basis Of The Nucleotide Driven Conformational
           Changes In The Aaa Domain Of Transcription Activator
           Pspf
 pdb|2C99|A Chain A, Structural Basis Of The Nucleotide Driven Conformational
           Changes In The Aaa Domain Of Transcription Activator
           Pspf
          Length = 265

 Score = 28.1 bits (61), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 17/63 (26%)

Query: 159 VNANWPGSVHDARVMRNSMVYRKFDEEGWRPFPDAVILGDSAYPLKEWLIPPRTRNP--D 216
           +N  WPG++ + + +    VYR                G S YPL + +I P  R P  D
Sbjct: 218 LNYRWPGNIRELKNVVERSVYRH---------------GTSDYPLDDIIIDPFKRRPPED 262

Query: 217 AAA 219
           A A
Sbjct: 263 AIA 265


>pdb|2VII|A Chain A, Pspf1-275-mg-amp
          Length = 259

 Score = 28.1 bits (61), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 15/57 (26%)

Query: 159 VNANWPGSVHDARVMRNSMVYRKFDEEGWRPFPDAVILGDSAYPLKEWLIPPRTRNP 215
           +N  WPG++ + + +    VYR                G S YPL + +I P  R P
Sbjct: 218 LNYRWPGNIRELKNVVERSVYRH---------------GTSDYPLDDIIIDPFKRRP 259


  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    0.137    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,518,922
Number of Sequences: 62578
Number of extensions: 382593
Number of successful extensions: 681
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 674
Number of HSP's gapped (non-prelim): 7
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)