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= 043303
         (1639 letters)

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

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



>pdb|3R0O|A Chain A, Crystal Structure Of Carnitinyl-Coa Hydratase From
           Mycobacterium Avium
 pdb|3R0O|B Chain B, Crystal Structure Of Carnitinyl-Coa Hydratase From
           Mycobacterium Avium
 pdb|3R0O|C Chain C, Crystal Structure Of Carnitinyl-Coa Hydratase From
           Mycobacterium Avium
          Length = 273

 Score = 31.6 bits (70), Expect = 3.4,   Method: Composition-based stats.
 Identities = 29/95 (30%), Positives = 45/95 (47%), Gaps = 9/95 (9%)

Query: 804 YTH--VDQPDVTKVYGSASAKMTDLPISDCLMVSHESVSASFPFKKFSLILEYGGSHGSS 861
           Y H  +D+P +  V G+A    ++L ++  L+++ ES S   P  K  LI    G+ G  
Sbjct: 101 YVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLI---AGAGGVF 157

Query: 862 RISALSPKVAGLPHLHFLKVELDDSSASRALCEGL 896
           RI    P+   L     L +  +  +AS AL  GL
Sbjct: 158 RIVEQLPRKVALE----LVLTGEPMTASDALRWGL 188


>pdb|4F6V|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Bph-1034, Mg2+ And Fmp.
 pdb|4F6X|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Bph-1112
          Length = 292

 Score = 30.8 bits (68), Expect = 6.8,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 31/49 (63%), Gaps = 4/49 (8%)

Query: 165 EKEEIWIVSEV-PEIDNNLDMLTPGLAIQYLNEVRESVYSFDVVAFDYH 212
           +++ +W +  V  +ID+++D+      IQ+LN+++E + S +   ++YH
Sbjct: 38  QRKAVWAIYAVCRKIDDSIDVYGD---IQFLNQIKEDIQSIEKYPYEYH 83


>pdb|3AE0|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Geranylgeranyl Thiopyrophosphate
 pdb|3AE0|B Chain B, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Geranylgeranyl Thiopyrophosphate
          Length = 293

 Score = 30.8 bits (68), Expect = 7.1,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 31/49 (63%), Gaps = 4/49 (8%)

Query: 165 EKEEIWIVSEV-PEIDNNLDMLTPGLAIQYLNEVRESVYSFDVVAFDYH 212
           +++ +W +  V  +ID+++D+      IQ+LN+++E + S +   ++YH
Sbjct: 39  QRKAVWAIYAVCRKIDDSIDVYGD---IQFLNQIKEDIQSIEKYPYEYH 84


>pdb|2ZCO|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus
 pdb|2ZCP|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Farnesyl Thiopyrophosphate
 pdb|2ZCP|B Chain B, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Farnesyl Thiopyrophosphate
 pdb|2ZCQ|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Bisphosphonate Bph-652
 pdb|2ZCR|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Bisphosphonate Bph-698
 pdb|2ZCS|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Bisphosphonate Bph-700
 pdb|2ZY1|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Bisphosphonate Bph-830
 pdb|3ACW|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Bph-651
 pdb|3ACX|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Bph-673
 pdb|3ACY|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Bph-702
 pdb|3NPR|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From S. Aureus Complexed With Presqualene
           Diphosphate (Pspp)
 pdb|3NRI|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From S. Aureus Complexed With Dehydrosqualene
           (Dhs)
 pdb|3TFN|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Bph-1183
 pdb|3TFP|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Bph-1162
 pdb|3TFV|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Bph-1154
          Length = 293

 Score = 30.8 bits (68), Expect = 7.4,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 31/49 (63%), Gaps = 4/49 (8%)

Query: 165 EKEEIWIVSEV-PEIDNNLDMLTPGLAIQYLNEVRESVYSFDVVAFDYH 212
           +++ +W +  V  +ID+++D+      IQ+LN+++E + S +   ++YH
Sbjct: 39  QRKAVWAIYAVCRKIDDSIDVYGD---IQFLNQIKEDIQSIEKYPYEYH 84


>pdb|4E9U|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With A Thiocyanate Inhibitor
 pdb|4E9Z|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Quinuclidine Bph-651 In The S1
           Site
 pdb|4EA0|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Diphosphate And Quinuclidine
           Bph-651
 pdb|4EA0|B Chain B, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
           S. Aureus Complexed With Diphosphate And Quinuclidine
           Bph-651
 pdb|4EA1|A Chain A, Co-Crystal Structure Of Dehydrosqualene Synthase (Crtm)
           From S. Aureus With Sq-109
 pdb|4EA2|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm)
           Aureus Complexed With Sq-109
          Length = 287

 Score = 30.8 bits (68), Expect = 7.4,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 31/49 (63%), Gaps = 4/49 (8%)

Query: 165 EKEEIWIVSEV-PEIDNNLDMLTPGLAIQYLNEVRESVYSFDVVAFDYH 212
           +++ +W +  V  +ID+++D+      IQ+LN+++E + S +   ++YH
Sbjct: 33  QRKAVWAIYAVCRKIDDSIDVYGD---IQFLNQIKEDIQSIEKYPYEYH 78


>pdb|3VJD|A Chain A, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
           Dehydrosqualene Synthase From Staphylococcus Aureus
 pdb|3VJE|A Chain A, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
           Dehydrosqualene Synthase From Staphylococcus Aureus In
           Complex With Zaragozic Acid A
 pdb|3VJE|B Chain B, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
           Dehydrosqualene Synthase From Staphylococcus Aureus In
           Complex With Zaragozic Acid A
          Length = 293

 Score = 30.4 bits (67), Expect = 7.7,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 31/49 (63%), Gaps = 4/49 (8%)

Query: 165 EKEEIWIVSEV-PEIDNNLDMLTPGLAIQYLNEVRESVYSFDVVAFDYH 212
           +++ +W +  V  +ID+++D+      IQ+LN+++E + S +   ++YH
Sbjct: 39  QRKAVWAIYAVCRKIDDSIDVYGD---IQFLNQIKEDIQSIEKYPYEYH 84


>pdb|3ADZ|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
           Synthase From Staphylococcus Aureus Complexed With
           Intermediate Pspp
 pdb|3LGZ|B Chain B, Crystal Structure Of Dehydrosqualene Synthase Y129a From
           S. Aureus Complexed With Presqualene Pyrophosphate
          Length = 293

 Score = 30.4 bits (67), Expect = 7.7,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 31/49 (63%), Gaps = 4/49 (8%)

Query: 165 EKEEIWIVSEV-PEIDNNLDMLTPGLAIQYLNEVRESVYSFDVVAFDYH 212
           +++ +W +  V  +ID+++D+      IQ+LN+++E + S +   ++YH
Sbjct: 39  QRKAVWAIYAVCRKIDDSIDVYGD---IQFLNQIKEDIQSIEKYPYEYH 84


>pdb|4B6V|A Chain A, The Third Member Of The Eif4e Family Represses Gene
            Expression Via A Novel Mode Of Recognition Of The
            Methyl-7 Guanosine Cap Moiety
          Length = 207

 Score = 30.4 bits (67), Expect = 8.1,   Method: Composition-based stats.
 Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 19/58 (32%)

Query: 1494 LSKAIRSANPQPG-----SPWTVEFLNRIKEKSRLRQQSLPADTAAPCLGISGNLSKV 1546
            L KA+ +  P+PG     SPWT  +L+R          SLP  TAA C   + NL K+
Sbjct: 16   LDKALSALPPEPGGVPLHSPWTF-WLDR----------SLPGATAAEC---ASNLKKI 59


  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
   0.317    0.132    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 45,746,661
Number of Sequences: 62578
Number of extensions: 1858899
Number of successful extensions: 3821
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 3821
Number of HSP's gapped (non-prelim): 11
length of query: 1639
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1527
effective length of database: 7,964,601
effective search space: 12161945727
effective search space used: 12161945727
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.9 bits)