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= 037633
         (138 letters)

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

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



>pdb|2WSC|1 Chain 1, Improved Model Of Plant Photosystem I
 pdb|2WSE|1 Chain 1, Improved Model Of Plant Photosystem I
 pdb|2WSF|1 Chain 1, Improved Model Of Plant Photosystem I
          Length = 241

 Score = 33.9 bits (76), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 23/59 (38%)

Query: 68  DHGHADRNLIAKCKKPGYESLCCLRCMQPRDHNFQSTCVCRVPKNLREEKVIEFVHCCW 126
           + G+  R  +A    PG      L    P D  F    +  VP NL   K  E +HC W
Sbjct: 35  NAGNVGRIRMAAHWMPGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRW 93


>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4
           Angstrom Resolution
          Length = 187

 Score = 32.3 bits (72), Expect = 0.088,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 17/44 (38%)

Query: 83  PGYESLCCLRCMQPRDHNFQSTCVCRVPKNLREEKVIEFVHCCW 126
           PG      L    P D  F    +  VP NL   K  E +HC W
Sbjct: 2   PGEPRPAYLDGSAPGDFGFDPLGLGEVPANLERYKESELIHCRW 45


>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I
          Length = 170

 Score = 30.0 bits (66), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 12/31 (38%), Positives = 14/31 (45%)

Query: 96  PRDHNFQSTCVCRVPKNLREEKVIEFVHCCW 126
           P D  F    +  VP NL   K  E +HC W
Sbjct: 3   PGDFGFDPLGLGEVPANLERYKESELIHCRW 33


>pdb|3VOT|A Chain A, Crystal Structure Of L-Amino Acid Ligase From Bacillus
           Licheniformis
 pdb|3VOT|B Chain B, Crystal Structure Of L-Amino Acid Ligase From Bacillus
           Licheniformis
          Length = 425

 Score = 28.5 bits (62), Expect = 1.3,   Method: Composition-based stats.
 Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 1/38 (2%)

Query: 1   MPKVKTNTVQYPPEGCWDLIEPTLRKFQAKMTEAENDP 38
           M  V+   V++P +G   L EP L  F AK  EA N P
Sbjct: 64  MDVVRQTFVEFPFDGVMTLFEPAL-PFTAKAAEALNLP 100


  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
   0.324    0.138    0.462 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,320,607
Number of Sequences: 62578
Number of extensions: 161103
Number of successful extensions: 369
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 366
Number of HSP's gapped (non-prelim): 8
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 46 (22.3 bits)