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= 017535
         (370 letters)

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

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



>pdb|2KUA|A Chain A, Solution Structure Of A Divergent Bcl-2 Protein
          Length = 170

 Score = 31.2 bits (69), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 13/24 (54%), Positives = 16/24 (66%)

Query: 277 CCFIYSFLYSTYPRDRERARMEAL 300
           CC I +FLY+     R RAR+EAL
Sbjct: 130 CCLIVNFLYNLLMGRRHRARLEAL 153


>pdb|3LT3|A Chain A, Crystal Structure Of Rv3671c From M. Tuberculosis H37rv,
           Ser343ala Mutant, Inactive Form
 pdb|3LT3|B Chain B, Crystal Structure Of Rv3671c From M. Tuberculosis H37rv,
           Ser343ala Mutant, Inactive Form
          Length = 217

 Score = 30.0 bits (66), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 5/57 (8%)

Query: 178 VLVVTGLFISWNAPATNNPIFAEIVPEKSRTSVYAMDRSFESILSSFAPPV-VGILA 233
           VL  TG  IS +   TN    A +V   +  +VYA D+ FE+ + S+ P V V ILA
Sbjct: 37  VLEGTGFVISPDRVMTN----AHVVAGSNNVTVYAGDKPFEATVVSYDPSVDVAILA 89


>pdb|3K6Z|A Chain A, Crystal Structure Of Rv3671c Protease, Inactive Form
 pdb|3K6Z|B Chain B, Crystal Structure Of Rv3671c Protease, Inactive Form
          Length = 219

 Score = 29.6 bits (65), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 5/57 (8%)

Query: 178 VLVVTGLFISWNAPATNNPIFAEIVPEKSRTSVYAMDRSFESILSSFAPPV-VGILA 233
           VL  TG  IS +   TN    A +V   +  +VYA D+ FE+ + S+ P V V ILA
Sbjct: 39  VLEGTGFVISPDRVMTN----AHVVAGSNNVTVYAGDKPFEATVVSYDPSVDVAILA 91


>pdb|3K6Y|A Chain A, Crystal Structure Of Rv3671c Protease From M.
           Tuberculosis, Active Form
          Length = 237

 Score = 29.6 bits (65), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 5/57 (8%)

Query: 178 VLVVTGLFISWNAPATNNPIFAEIVPEKSRTSVYAMDRSFESILSSFAPPV-VGILA 233
           VL  TG  IS +   TN    A +V   +  +VYA D+ FE+ + S+ P V V ILA
Sbjct: 57  VLEGTGFVISPDRVMTN----AHVVAGSNNVTVYAGDKPFEATVVSYDPSVDVAILA 109


>pdb|1UM0|A Chain A, Crystal Structure Of Chorismate Synthase Complexed With
           Fmn
 pdb|1UM0|B Chain B, Crystal Structure Of Chorismate Synthase Complexed With
           Fmn
 pdb|1UM0|C Chain C, Crystal Structure Of Chorismate Synthase Complexed With
           Fmn
 pdb|1UM0|D Chain D, Crystal Structure Of Chorismate Synthase Complexed With
           Fmn
 pdb|1UMF|A Chain A, Crystal Structure Of Chorismate Synthase
 pdb|1UMF|B Chain B, Crystal Structure Of Chorismate Synthase
 pdb|1UMF|C Chain C, Crystal Structure Of Chorismate Synthase
 pdb|1UMF|D Chain D, Crystal Structure Of Chorismate Synthase
          Length = 365

 Score = 29.6 bits (65), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 23/95 (24%), Positives = 42/95 (44%), Gaps = 9/95 (9%)

Query: 178 VLVVTGLFISWNAPATNNPIFAEIVPEKSRTSVYAMDRSFESILSSFAPPVVGILAQHVY 237
           V + +G+F  +   +T  PI   I  +++R+      + +++I + F P        H Y
Sbjct: 63  VEITSGVFEDF---STGTPIGFLIHNQRARS------KDYDNIKNLFRPSHADFTYFHKY 113

Query: 238 GFKPIPKGSSATEEIATDRANAASLAKALYTAIGI 272
           G +    G  ++   +  R  A + AK L   IGI
Sbjct: 114 GIRDFRGGGRSSARESAIRVAAGAFAKMLLREIGI 148


  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
   0.322    0.135    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,526,764
Number of Sequences: 62578
Number of extensions: 289019
Number of successful extensions: 623
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 621
Number of HSP's gapped (non-prelim): 6
length of query: 370
length of database: 14,973,337
effective HSP length: 100
effective length of query: 270
effective length of database: 8,715,537
effective search space: 2353194990
effective search space used: 2353194990
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)