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= 032859
         (132 letters)

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

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



>pdb|3P24|A Chain A, Structure Of Profragilysin-3 From Bacteroides Fragilis
 pdb|3P24|B Chain B, Structure Of Profragilysin-3 From Bacteroides Fragilis
 pdb|3P24|C Chain C, Structure Of Profragilysin-3 From Bacteroides Fragilis
 pdb|3P24|D Chain D, Structure Of Profragilysin-3 From Bacteroides Fragilis
          Length = 397

 Score = 27.3 bits (59), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 3/31 (9%)

Query: 60  VVGANILKEGSDPKVLPDSEYPDWLWHLLEK 90
           ++GAN      DPK L  S+Y  +L+HL EK
Sbjct: 353 ILGAN---HADDPKDLMYSKYTGYLFHLSEK 380


>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
 pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
 pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
 pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
          Length = 727

 Score = 26.6 bits (57), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 7/42 (16%)

Query: 74  VLP-DSEYPDWLWHLLEKRPALSELKMKNIET--LPYEDLKR 112
           V+P DS+Y D LWH L+    LS L++ NI      Y+ L R
Sbjct: 214 VMPKDSKYDDQLWHALD----LSNLQIFNISANIFKYDFLTR 251


>pdb|1JFG|A Chain A, Trichodiene Synthase From Fusarium Sporotrichioides
           Complexed With Diphosphate
 pdb|1JFG|B Chain B, Trichodiene Synthase From Fusarium Sporotrichioides
           Complexed With Diphosphate
 pdb|1JFA|A Chain A, Trichodiene Synthase From Fusarium Sporotrichioides
 pdb|1JFA|B Chain B, Trichodiene Synthase From Fusarium Sporotrichioides
 pdb|2Q9Z|A Chain A, Trichodiene Synthase: Complex With Inorganic Pyrophosphate
           Resulting From The Reaction With 2-Fluorofarnesyl
           Diphosphate
 pdb|2Q9Z|B Chain B, Trichodiene Synthase: Complex With Inorganic Pyrophosphate
           Resulting From The Reaction With 2-Fluorofarnesyl
           Diphosphate
 pdb|2Q9Y|A Chain A, Trichodiene Synthase: Complex With Mg, Inorganic
           Pyrophosphate, And Benzyl Triethyl Ammonium Cation
 pdb|2Q9Y|B Chain B, Trichodiene Synthase: Complex With Mg, Inorganic
           Pyrophosphate, And Benzyl Triethyl Ammonium Cation
          Length = 374

 Score = 25.4 bits (54), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 5/38 (13%)

Query: 85  WHLLEKRPALSEL--KMKNIETLPYEDLKRFLKLDNRA 120
           WHL ++R  LSE+  K+K  +T   ED ++F K   +A
Sbjct: 298 WHLCDRRYRLSEIYEKVKEEKT---EDAQKFCKFYEQA 332


>pdb|2PS4|A Chain A, N225d Trichodiene Synthase
 pdb|2PS4|B Chain B, N225d Trichodiene Synthase
 pdb|2PS5|A Chain A, N225d Trichodiene Synthase: Complex With Mg And
           Pyrophosphate
 pdb|2PS5|B Chain B, N225d Trichodiene Synthase: Complex With Mg And
           Pyrophosphate
          Length = 374

 Score = 25.4 bits (54), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 5/38 (13%)

Query: 85  WHLLEKRPALSEL--KMKNIETLPYEDLKRFLKLDNRA 120
           WHL ++R  LSE+  K+K  +T   ED ++F K   +A
Sbjct: 298 WHLCDRRYRLSEIYEKVKEEKT---EDAQKFCKFYEQA 332


  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
   0.314    0.131    0.365 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,914,939
Number of Sequences: 62578
Number of extensions: 93895
Number of successful extensions: 169
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 168
Number of HSP's gapped (non-prelim): 9
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 46 (22.3 bits)