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= psy6097
         (167 letters)

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

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



>pdb|3B8C|A Chain A, Crystal Structure Of A Plasma Membrane Proton Pump
 pdb|3B8C|B Chain B, Crystal Structure Of A Plasma Membrane Proton Pump
          Length = 885

 Score = 30.8 bits (68), Expect = 0.42,   Method: Composition-based stats.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 2/46 (4%)

Query: 85  GLYEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCI-VNESMLT 129
           G + E     LVPGDI+ I K G  +  DA LL+G+ + V++S LT
Sbjct: 138 GKWSEQEAAILVPGDIVSI-KLGDIIPADARLLEGDPLKVDQSALT 182


>pdb|3HRD|B Chain B, Crystal Structure Of Nicotinate Dehydrogenase
 pdb|3HRD|F Chain F, Crystal Structure Of Nicotinate Dehydrogenase
          Length = 330

 Score = 30.0 bits (66), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 3/37 (8%)

Query: 87  YEEVPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIV 123
           YE++   H+  GD +V P  G T A   TL+ GN ++
Sbjct: 65  YEKI---HVTWGDTMVTPDGGATSASRQTLITGNAVI 98


>pdb|2HC8|A Chain A, Structure Of The A. Fulgidus Copa A-Domain
 pdb|2VOY|F Chain F, Cryoem Model Of Copa, The Copper Transporting Atpase From
           Archaeoglobus Fulgidus
          Length = 113

 Score = 29.3 bits (64), Expect = 0.99,   Method: Compositional matrix adjust.
 Identities = 12/40 (30%), Positives = 24/40 (60%), Gaps = 1/40 (2%)

Query: 90  VPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
           VP   +  GDI+++ + G  +  D  +++G   V+ESM++
Sbjct: 25  VPVEEVAVGDIVIV-RPGEKIPVDGVVVEGESYVDESMIS 63


>pdb|3J09|A Chain A, High Resolution Helical Reconstruction Of The Bacterial
           P-Type Atpase Copper Transporter Copa
 pdb|3J09|B Chain B, High Resolution Helical Reconstruction Of The Bacterial
           P-Type Atpase Copper Transporter Copa
          Length = 723

 Score = 28.1 bits (61), Expect = 2.3,   Method: Composition-based stats.
 Identities = 12/40 (30%), Positives = 24/40 (60%), Gaps = 1/40 (2%)

Query: 90  VPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
           VP   +  GDI+++ + G  +  D  +++G   V+ESM++
Sbjct: 224 VPVEEVAVGDIVIV-RPGEKIPVDGVVVEGESYVDESMIS 262


>pdb|3J08|A Chain A, High Resolution Helical Reconstruction Of The Bacterial
           P-Type Atpase Copper Transporter Copa
 pdb|3J08|B Chain B, High Resolution Helical Reconstruction Of The Bacterial
           P-Type Atpase Copper Transporter Copa
          Length = 645

 Score = 28.1 bits (61), Expect = 2.3,   Method: Composition-based stats.
 Identities = 12/40 (30%), Positives = 24/40 (60%), Gaps = 1/40 (2%)

Query: 90  VPTTHLVPGDIIVIPKHGCTLACDATLLQGNCIVNESMLT 129
           VP   +  GDI+++ + G  +  D  +++G   V+ESM++
Sbjct: 146 VPVEEVAVGDIVIV-RPGEKIPVDGVVVEGESYVDESMIS 184


>pdb|3MEZ|A Chain A, X-Ray Structural Analysis Of A Mannose Specific Lectin
           From Dutch Crocus (Crocus Vernus)
 pdb|3MEZ|C Chain C, X-Ray Structural Analysis Of A Mannose Specific Lectin
           From Dutch Crocus (Crocus Vernus)
          Length = 111

 Score = 27.7 bits (60), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 21/43 (48%)

Query: 116 LLQGNCIVNESMLTVHGALFIMWEDVNHTLYCGTVILQARYHG 158
           LL G+ I  ++ L+   A F+M  D N  LY      Q+  HG
Sbjct: 5   LLTGDVIHTDNQLSYESAAFVMQGDCNLVLYNEAGGFQSNTHG 47


  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
   0.326    0.141    0.454 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,748,490
Number of Sequences: 62578
Number of extensions: 156814
Number of successful extensions: 341
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 339
Number of HSP's gapped (non-prelim): 6
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)