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= 022823
         (291 letters)

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

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



>pdb|3FWY|A Chain A, Crystal Structure Of The L Protein Of Rhodobacter
           Sphaeroides Light- Independent Protochlorophyllide
           Reductase (Bchl) With Mgadp Bound: A Homologue Of The
           Nitrogenase Fe Protein
 pdb|3FWY|B Chain B, Crystal Structure Of The L Protein Of Rhodobacter
           Sphaeroides Light- Independent Protochlorophyllide
           Reductase (Bchl) With Mgadp Bound: A Homologue Of The
           Nitrogenase Fe Protein
          Length = 314

 Score = 31.6 bits (70), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 15/57 (26%), Positives = 28/57 (49%)

Query: 54  VYALLNCLITMWYGTPLVSADNILVTTVNSIGAAFQLVYIILFITYTEKDKKVRMLG 110
           ++ +L  ++   +  PL  AD  +V T N   + + +  II  +    K+ KVR+ G
Sbjct: 168 IFDVLGDVVCGGFAAPLQHADQAVVVTANDFDSIYAMNRIIAAVQAKSKNYKVRLAG 224


>pdb|2YNM|A Chain A, Structure Of The Adpxalf3-stabilized Transition State Of
           The Nitrogenase-like Dark-operative Protochlorophyllide
           Oxidoreductase Complex From Prochlorococcus Marinus With
           Its Substrate Protochlorophyllide A
 pdb|2YNM|B Chain B, Structure Of The Adpxalf3-stabilized Transition State Of
           The Nitrogenase-like Dark-operative Protochlorophyllide
           Oxidoreductase Complex From Prochlorococcus Marinus With
           Its Substrate Protochlorophyllide A
          Length = 301

 Score = 28.9 bits (63), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 15/59 (25%), Positives = 30/59 (50%)

Query: 54  VYALLNCLITMWYGTPLVSADNILVTTVNSIGAAFQLVYIILFITYTEKDKKVRMLGLL 112
           ++ +L  ++   +  PL  A+  L+ T N   + F +  I+  I    K+ KVR+ G++
Sbjct: 154 IFDVLGDVVCGGFAAPLQHANYCLIVTANDFDSIFAMNRIVAAINAKAKNYKVRLGGVI 212


>pdb|2B2F|A Chain A, Ammonium Transporter Amt-1 From A.Fulgidus (Native)
 pdb|2B2H|A Chain A, Ammonium Transporter Amt-1 From A. Fulgidus (as)
 pdb|2B2I|A Chain A, Ammonium Transporter Amt-1 From A. Fulgidus (Ma)
 pdb|2B2J|A Chain A, Ammonium Transporter Amt-1 From A. Fulgidus (xe)
          Length = 399

 Score = 28.5 bits (62), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 6/91 (6%)

Query: 200 WFLLPSHFSLLILFGVCFFFCFMLYNIQTVSLQSLLLQKKVICPLVTITFLLKFQVPNGI 259
           W L  +   +L++ GV FF+  M+     V++ +L     +I  L+ I +       N I
Sbjct: 8   WILASTALVMLMVPGVGFFYAGMVRRKNAVNMIALSFISLIITVLLWIFYGYSVSFGNDI 67

Query: 260 GTILGIVQLALYFNYKETSGEESRDPLIVSY 290
             I+G        NY   SG +  D L + Y
Sbjct: 68  SGIIG------GLNYALLSGVKGEDLLFMMY 92


>pdb|2ACT|A Chain A, Crystallographic Refinement Of The Structure Of Actinidin
           At 1.7 Angstroms Resolution By Fast Fourier
           Least-Squares Methods
          Length = 220

 Score = 28.5 bits (62), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 6/64 (9%)

Query: 5   ITYQALTVLKDAVGIAGNIFAFGLFVSPVPTFRR---IIRNHSTEEFSGLPYVYALLNCL 61
           +TYQ ++V  DA G A   +A G+F  P  T      +I  + TE   G+ Y + + N  
Sbjct: 128 VTYQPVSVALDAAGDAFKQYASGIFTGPCGTAVDHAIVIVGYGTE--GGVDY-WIVKNSW 184

Query: 62  ITMW 65
            T W
Sbjct: 185 DTTW 188


  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
   0.332    0.146    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,998,701
Number of Sequences: 62578
Number of extensions: 239353
Number of successful extensions: 431
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 425
Number of HSP's gapped (non-prelim): 9
length of query: 291
length of database: 14,973,337
effective HSP length: 98
effective length of query: 193
effective length of database: 8,840,693
effective search space: 1706253749
effective search space used: 1706253749
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 51 (24.3 bits)