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= 040444
         (409 letters)

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

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



>pdb|3SAE|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
           Prospective Target For Advanced Biofuels Production
 pdb|3SDQ|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
           Prospective Target For Advanced Biofuels Production
 pdb|3SDR|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
           Prospective Target For Advanced Biofuels Production
 pdb|3SDT|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
           Prospective Target For Advanced Biofuels Production
 pdb|3SDU|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
           Prospective Target For Advanced Biofuels Production
 pdb|3SDV|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
           Prospective Target For Advanced Biofuels Production
          Length = 817

 Score = 29.6 bits (65), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 11/37 (29%), Positives = 23/37 (62%), Gaps = 2/37 (5%)

Query: 174 EVKVFSLKNRSW--TRVKKLPNYLRFMFQFYFHLLHR 208
           E+K+F+   R W  +  + LP+Y++  +Q Y+ ++H 
Sbjct: 577 ELKLFTEAVRRWDLSFTENLPDYMKLCYQIYYDIVHE 613


>pdb|3A4T|A Chain A, Crystal Structure Of Atrm4 From M.Jannaschii With
           Sinefungin
 pdb|3A4T|B Chain B, Crystal Structure Of Atrm4 From M.Jannaschii With
           Sinefungin
 pdb|3AJD|A Chain A, Crystal Structure Of Atrm4
          Length = 274

 Score = 29.3 bits (64), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 25/92 (27%), Positives = 44/92 (47%), Gaps = 6/92 (6%)

Query: 247 LLPQPNYGAREKDFVLDVGALEG----HMC-LMCNY-DLVKVDVWMMKEYGLKESWSKMF 300
           ++P      RE DF+LD+ A  G    H+  LM N   +V V++   +   LK + ++M 
Sbjct: 73  MIPPIVLNPREDDFILDMCAAPGGKTTHLAQLMKNKGTIVAVEISKTRTKALKSNINRMG 132

Query: 301 SIDRCRSISSFRFLRPLICSNEDGGDKVLLEV 332
            ++     +  R  +  +  NE   DK+LL+ 
Sbjct: 133 VLNTIIINADMRKYKDYLLKNEIFFDKILLDA 164


  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
   0.325    0.143    0.453 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,565,969
Number of Sequences: 62578
Number of extensions: 525207
Number of successful extensions: 1235
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1234
Number of HSP's gapped (non-prelim): 4
length of query: 409
length of database: 14,973,337
effective HSP length: 101
effective length of query: 308
effective length of database: 8,652,959
effective search space: 2665111372
effective search space used: 2665111372
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: 53 (25.0 bits)