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= 003946
         (784 letters)

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

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



>pdb|3HBF|A Chain A, Structure Of Ugt78g1 Complexed With Myricetin And Udp
 pdb|3HBJ|A Chain A, Structure Of Ugt78g1 Complexed With Udp
          Length = 454

 Score = 33.1 bits (74), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 65/148 (43%), Gaps = 13/148 (8%)

Query: 453 IYIKLVKAFLEAGKTKELTHFLIKAEKENLQVSHDDAA--LGHVITLCISLGWLDQAHDL 510
           ++  L K ++ +G  +E     IKA +EN +   D+A    G  IT  ++  +     DL
Sbjct: 74  VHDGLPKGYVSSGNPREPIFLFIKAMQENFKHVIDEAVAETGKNITCLVTDAFFWFGADL 133

Query: 511 LDEMHLAGVRASSSVYASLLK-AYIEANRPREVTALLRDARSAGI-----QLDASCYEAL 564
            +EMH   V   ++   SLL   Y +  R +  +  + D +S  +     +L AS    L
Sbjct: 134 AEEMHAKWVPLWTAGPHSLLTHVYTDLIREKTGSKEVHDVKSIDVLPGFPELKAS---DL 190

Query: 565 LQSKIVQKDTPGALHLFKEMKESKIPRS 592
            +  I   D P A  L K   E  +PR+
Sbjct: 191 PEGVIKDIDVPFATMLHKMGLE--LPRA 216


>pdb|3BBN|D Chain D, Homology Model For The Spinach Chloroplast 30s Subunit
           Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
          Length = 201

 Score = 30.0 bits (66), Expect = 5.6,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 11/60 (18%)

Query: 85  VQARDPAKLSAEIENAINEHRYGDAWKLYEQHMQMDGFPRKTLVNKILTSFVESLDSKWL 144
           + ARD  K  A I+N+++     +  K    H+ ++ FP K LVN+I       +DSKW+
Sbjct: 136 IMARDEQKSIALIQNSLDLSPREELPK----HLTLNPFPYKGLVNQI-------IDSKWV 184


  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
   0.320    0.134    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,105,384
Number of Sequences: 62578
Number of extensions: 876292
Number of successful extensions: 2053
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2053
Number of HSP's gapped (non-prelim): 3
length of query: 784
length of database: 14,973,337
effective HSP length: 107
effective length of query: 677
effective length of database: 8,277,491
effective search space: 5603861407
effective search space used: 5603861407
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: 55 (25.8 bits)