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= 032491
         (139 letters)

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

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



>pdb|4DL0|J Chain J, Crystal Structure Of The Heterotrimeric Egchead Peripheral
           Stalk Complex Of The Yeast Vacuolar Atpase
 pdb|4DL0|E Chain E, Crystal Structure Of The Heterotrimeric Egchead Peripheral
           Stalk Complex Of The Yeast Vacuolar Atpase
 pdb|4EFA|E Chain E, Crystal Structure Of The Heterotrimeric Egchead Peripheral
           Stalk Complex Of The Yeast Vacuolar Atpase - Second
           Conformation
          Length = 233

 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 44/133 (33%), Positives = 73/133 (54%), Gaps = 9/133 (6%)

Query: 1   MMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKE 60
           + E   +++  ++ + + YK +L+ LIV++LL+L EP  +++  + D  L+ES+ +    
Sbjct: 99  IFEETKEKLSGIANNRDEYKPILQSLIVEALLKLLEPKAIVKALERDVDLIESMKDDIMR 158

Query: 61  EYAQKLQVHPPEIIVDHHIYLXXXXXXXXXXXXSCSGGVVVASRDGKIVCENTLDARLDV 120
           EY +K Q  P E IV  + YL              SGGVVV++   KI   NTL+ RL +
Sbjct: 159 EYGEKAQRAPLEEIVISNDYLNKDL---------VSGGVVVSNASDKIEINNTLEERLKL 209

Query: 121 VFRKKLPEIRKQL 133
           +  + LP IR +L
Sbjct: 210 LSEEALPAIRLEL 222


>pdb|2DM9|A Chain A, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
 pdb|2DM9|B Chain B, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
          Length = 198

 Score = 33.1 bits (74), Expect = 0.054,   Method: Compositional matrix adjust.
 Identities = 11/23 (47%), Positives = 18/23 (78%)

Query: 97  GGVVVASRDGKIVCENTLDARLD 119
           GGV+V + DG+I  +NT +AR++
Sbjct: 160 GGVIVETEDGRIRIDNTFEARME 182


>pdb|4DT0|A Chain A, The Structure Of The Peripheral Stalk Subunit E From
           Pyrococcus Horikoshii
          Length = 208

 Score = 33.1 bits (74), Expect = 0.054,   Method: Compositional matrix adjust.
 Identities = 11/23 (47%), Positives = 18/23 (78%)

Query: 97  GGVVVASRDGKIVCENTLDARLD 119
           GGV+V + DG+I  +NT +AR++
Sbjct: 170 GGVIVETEDGRIRIDNTFEARME 192


>pdb|2DMA|A Chain A, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
           (Form Ii)
          Length = 198

 Score = 32.0 bits (71), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 95  CSGGVVVASRDGKIVCENTLDARLD 119
             GGV+V + DG+I  +NT +AR +
Sbjct: 158 TXGGVIVETEDGRIRIDNTFEARXE 182


>pdb|2JOV|A Chain A, Nmr Structure Of Clostridium Perfringens Protein Cpe0013.
           Northeast Structural Genomics Target Cpr31
          Length = 85

 Score = 29.6 bits (65), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 20/30 (66%)

Query: 99  VVVASRDGKIVCENTLDARLDVVFRKKLPE 128
           V V ++ G +VC+N ++  +D++  K LP+
Sbjct: 46  VGVPTKSGNVVCKNIMNTGVDIICTKNLPK 75


  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
   0.319    0.134    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,468,385
Number of Sequences: 62578
Number of extensions: 103635
Number of successful extensions: 305
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: 297
Number of HSP's gapped (non-prelim): 7
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
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: 46 (22.3 bits)