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= 041172
         (141 letters)

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

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



>pdb|2FZ5|A Chain A, Solution Structure Of Two-electron Reduced Megasphaera
           Elsdenii Flavodoxin
          Length = 137

 Score = 33.1 bits (74), Expect = 0.058,   Method: Compositional matrix adjust.
 Identities = 32/102 (31%), Positives = 47/102 (46%), Gaps = 15/102 (14%)

Query: 25  VKVVYISSPVKFETCASKFRALVQELTGKDSDADAAAHRFSDTNSADDQNSPKVVVDQGL 84
           V++VY S     E  A++  A V     K + AD  + RF DTN  DD  S  V++   L
Sbjct: 2   VEIVYWSGTGNTEAMANEIEAAV-----KAAGADVESVRFEDTN-VDDVASKDVIL---L 52

Query: 85  ACAVSGDDHQQGDLRSSPSMEDQFDDLFMPHGEGSFLGMFTS 126
            C   G +  +  +     +E  F DL  P  +G  +G+F S
Sbjct: 53  GCPAMGSEELEDSV-----VEPFFTDL-APKLKGKKVGLFGS 88


>pdb|3VOF|A Chain A, Cellobiohydrolase Mutant, Cccel6c D102a, In The Closed
           Form
          Length = 395

 Score = 27.3 bits (59), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 16/109 (14%)

Query: 40  ASKFRALVQELTGKDSDADAAAHRFSDT-------NSADDQNSPKVVVDQGLACAVSGDD 92
           A+K+RA V  +  + S ADA    FS         N   + + PK    QG A A     
Sbjct: 119 ANKYRAYVDRIVAELSTADADKLHFSIVLEPDSLGNMVTNMHVPKC---QGAATA----- 170

Query: 93  HQQGDLRSSPSMEDQFDDLFMPHGEGSFLGMFTSNLFHHDFNFQQDLAL 141
           +++G   +  S++    DL++    G +LG +  NL      F++ L L
Sbjct: 171 YKEGIAYTIASLQKPNIDLYIDAAHGGWLG-WNDNLRPSAEIFKETLDL 218


>pdb|3A64|A Chain A, Crystal Structure Of Cccel6c, A Glycoside Hydrolase Family
           6 Enzyme, From Coprinopsis Cinerea
 pdb|3A9B|A Chain A, Cccel6c, A Glycoside Hydrolase Family 6 Enzyme, Complexed
           With Cellobiose
 pdb|3ABX|A Chain A, Cccel6c, A Glycoside Hydrolase Family 6 Enzyme, Complexed
           With P-Nitrophenyl Beta-D-Cellotrioside
          Length = 395

 Score = 27.3 bits (59), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 16/109 (14%)

Query: 40  ASKFRALVQELTGKDSDADAAAHRFSDT-------NSADDQNSPKVVVDQGLACAVSGDD 92
           A+K+RA V  +  + S ADA    FS         N   + + PK    QG A A     
Sbjct: 119 ANKYRAYVDRIVAELSTADADKLHFSIVLEPDSLGNMVTNMHVPKC---QGAATA----- 170

Query: 93  HQQGDLRSSPSMEDQFDDLFMPHGEGSFLGMFTSNLFHHDFNFQQDLAL 141
           +++G   +  S++    DL++    G +LG +  NL      F++ L L
Sbjct: 171 YKEGIAYTIASLQKPNIDLYIDAAHGGWLG-WNDNLRPSAEIFKETLDL 218


>pdb|1QU2|A Chain A, Insights Into Editing From An Ile-Trna Synthetase
           Structure With Trna(Ile) And Mupirocin
 pdb|1QU3|A Chain A, Insights Into Editing From An Ile-Trna Synthetase
           Structure With Trna(Ile) And Mupirocin
 pdb|1FFY|A Chain A, Insights Into Editing From An Ile-Trna Synthetase
           Structure With Trna(Ile) And Mupirocin
          Length = 917

 Score = 26.9 bits (58), Expect = 4.2,   Method: Composition-based stats.
 Identities = 27/85 (31%), Positives = 33/85 (38%), Gaps = 8/85 (9%)

Query: 46  LVQELTGKDSDADAAAHRFSDTNSADDQNSPKVVVDQGLACAVSGDDHQQGDLRSSPSME 105
           L +E TGK+ +   A H F D  S    N   V  D G  C  +   H + D       E
Sbjct: 284 LEKEYTGKELEWVVAQHPFLDRESL-VINGDHVTTDAGTGCVHTAPGHGEDDYIVGQQYE 342

Query: 106 ----DQFDD--LFMPHGEGSFLGMF 124
                  DD  +F   G G F GMF
Sbjct: 343 LPVISPIDDKGVFTEEG-GQFEGMF 366


  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    0.133    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,392,356
Number of Sequences: 62578
Number of extensions: 167513
Number of successful extensions: 263
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 263
Number of HSP's gapped (non-prelim): 6
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
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)