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= psy2839
         (196 letters)

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

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



>pdb|3V5S|A Chain A, Structure Of SodiumCALCIUM EXCHANGER FROM METHANOCOCCUS
           JANNASCHII
 pdb|3V5U|A Chain A, Structure Of SodiumCALCIUM EXCHANGER FROM
           METHANOCALDOCOCCUS Jannaschii Dsm 2661
          Length = 320

 Score = 28.1 bits (61), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 20/39 (51%)

Query: 118 DEFFVPSLDVIIDRLQVQEDVAGATFMAAGGSAPELFTS 156
            ++FV   + I     V   V GAT MA G S PE+ TS
Sbjct: 20  SDWFVLGSERIARHFNVSNFVIGATVMAIGTSLPEILTS 58



 Score = 26.9 bits (58), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 5/60 (8%)

Query: 98  AVILHILGVLYMFVALAVVCDEFFVPSLDVIIDRLQVQEDVAGATFMAAGGSAPELFTSV 157
           +++L I+G++ + V       E FV     I   L + + V G T +A G S PEL  S+
Sbjct: 164 SLVLLIIGLIGVLVG-----AELFVDGAKKIALALDISDKVIGFTLVAFGTSLPELMVSL 218


>pdb|1RQ5|A Chain A, Structural Basis For The Exocellulase Activity Of The
           Cellobiohydrolase Cbha From C. Thermocellum
          Length = 610

 Score = 27.3 bits (59), Expect = 5.4,   Method: Composition-based stats.
 Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)

Query: 43  GGEDSNR--SHVGEDSNRSWTSVPVWP 67
           GGE   R   H+G + N+  T+VP WP
Sbjct: 127 GGEQWTRPAGHIGIEPNKGDTNVPTWP 153


>pdb|1UT9|A Chain A, Structural Basis For The Exocellulase Activity Of The
           Cellobiohydrolase Cbha From C. Thermocellum
          Length = 609

 Score = 27.3 bits (59), Expect = 5.4,   Method: Composition-based stats.
 Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)

Query: 43  GGEDSNR--SHVGEDSNRSWTSVPVWP 67
           GGE   R   H+G + N+  T+VP WP
Sbjct: 127 GGEQWTRPAGHIGIEPNKGDTNVPTWP 153


>pdb|1BG6|A Chain A, Crystal Structure Of The N-(1-D-Carboxylethyl)-L-Norvaline
           Dehydrogenase From Arthrobacter Sp. Strain 1c
          Length = 359

 Score = 26.9 bits (58), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 14/29 (48%), Positives = 20/29 (68%)

Query: 168 GIAGGSAPELFTSVIGVFVSFDDVGIVVV 196
           G+AG + P+L TS IG+ V   DV ++VV
Sbjct: 55  GLAGTAHPDLLTSDIGLAVKDADVILIVV 83


  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    0.139    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,583,650
Number of Sequences: 62578
Number of extensions: 288708
Number of successful extensions: 571
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 567
Number of HSP's gapped (non-prelim): 9
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
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)