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= psy12689
         (72 letters)

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

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



>pdb|3KDP|B Chain B, Crystal Structure Of The Sodium-potassium Pump
 pdb|3KDP|D Chain D, Crystal Structure Of The Sodium-potassium Pump
          Length = 286

 Score = 46.2 bits (108), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 9/78 (11%)

Query: 1   MGTLSYYPWKGFPGY---FFPFQNT---EGYLAPVIAVHFESPAIGVLINIECKAWAHNI 54
           +GT+ Y+   G+PG+   ++P+        YL P++AV F +  +   I IECKA+  NI
Sbjct: 207 VGTMEYFGLGGYPGFPLQYYPYYGKLLQPKYLQPLMAVQFTNLTMDTEIRIECKAYGENI 266

Query: 55  HH---DRHERRGSVHFEL 69
            +   DR + R  V  E+
Sbjct: 267 GYSEKDRFQGRFDVKIEV 284


>pdb|3N23|B Chain B, Crystal Structure Of The High Affinity Complex Between
           Ouabain And The E2p Form Of The Sodium-Potassium Pump
 pdb|3N23|D Chain D, Crystal Structure Of The High Affinity Complex Between
           Ouabain And The E2p Form Of The Sodium-Potassium Pump
 pdb|3N2F|B Chain B, Crystal Structure Of The Sodium-Potassium Pump
 pdb|3N2F|D Chain D, Crystal Structure Of The Sodium-Potassium Pump
          Length = 277

 Score = 46.2 bits (108), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 9/78 (11%)

Query: 1   MGTLSYYPWKGFPGY---FFPFQNT---EGYLAPVIAVHFESPAIGVLINIECKAWAHNI 54
           +GT+ Y+   G+PG+   ++P+        YL P++AV F +  +   I IECKA+  NI
Sbjct: 198 VGTMEYFGLGGYPGFPLQYYPYYGKLLQPKYLQPLMAVQFTNLTMDTEIRIECKAYGENI 257

Query: 55  HH---DRHERRGSVHFEL 69
            +   DR + R  V  E+
Sbjct: 258 GYSEKDRFQGRFDVKIEV 275


>pdb|1EY2|A Chain A, Human Homogentisate Dioxygenase With Fe(ii)
 pdb|1EYB|A Chain A, Crystal Structure Of Apo Human Homogentisate Dioxygenase
          Length = 471

 Score = 26.6 bits (57), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 14/22 (63%)

Query: 19  FQNTEGYLAPVIAVHFESPAIG 40
           F+ T GY+  V  VHFE P +G
Sbjct: 219 FEETRGYILEVYGVHFELPDLG 240


>pdb|4CLA|A Chain A, Alternative Binding Modes For Chloramphenicol And
           1-substituted Chloramphenicol Analogues Revealed By
           Site-directed Mutagenesis And X-ray Crystallography Of
           Chloramphenicol Acetyltransferase
          Length = 213

 Score = 25.4 bits (54), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 10/29 (34%), Positives = 14/29 (48%)

Query: 4   LSYYPWKGFPGYFFPFQNTEGYLAPVIAV 32
           +S  PW  F  + F   N   Y AP+I +
Sbjct: 141 ISALPWVNFDSFNFNVANFTDYFAPIITM 169


  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
   0.327    0.144    0.494 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,657,429
Number of Sequences: 62578
Number of extensions: 93187
Number of successful extensions: 185
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 176
Number of HSP's gapped (non-prelim): 7
length of query: 72
length of database: 14,973,337
effective HSP length: 42
effective length of query: 30
effective length of database: 12,345,061
effective search space: 370351830
effective search space used: 370351830
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)