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= 029779
         (188 letters)

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

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



>pdb|1MQR|A Chain A, The Crystal Structure Of Alpha-D-Glucuronidase (E386q)
           From Bacillus Stearothermophilus T-6
          Length = 679

 Score = 29.3 bits (64), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 16/74 (21%)

Query: 49  LVSPAGIPIRVSVKAKFTDSPAFIYFVAALSVACLYSIITML---------ASLSVVSKP 99
           LV P G  IR  V     D P  IY +       LY +   L         A LS++ +P
Sbjct: 85  LVHPEGYVIRSDVD----DGPFRIYIIGKTDAGVLYGVFHFLRLLQMGENIAQLSIIEQP 140

Query: 100 ASAKRLLLYFAFWD 113
            +  R++ +   WD
Sbjct: 141 KNRLRMINH---WD 151


>pdb|1K9E|A Chain A, Crystal Structure Of A Mutated Family-67
           Alpha-D-Glucuronidase (E285n) From Bacillus
           Stearothermophilus T-6, Complexed With 4-O-Methyl-
           Glucuronic Acid
 pdb|1K9F|A Chain A, Crystal Structure Of A Mutated Family-67
           Alpha-D-Glucuronidase (E285n) From Bacillus
           Stearothermophilus T-6, Complexed With Aldotetraouronic
           Acid
          Length = 679

 Score = 29.3 bits (64), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 16/74 (21%)

Query: 49  LVSPAGIPIRVSVKAKFTDSPAFIYFVAALSVACLYSIITML---------ASLSVVSKP 99
           LV P G  IR  V     D P  IY +       LY +   L         A LS++ +P
Sbjct: 85  LVHPEGYVIRSDVD----DGPFRIYIIGKTDAGVLYGVFHFLRLLQMGENIAQLSIIEQP 140

Query: 100 ASAKRLLLYFAFWD 113
            +  R++ +   WD
Sbjct: 141 KNRLRMINH---WD 151


>pdb|1K9D|A Chain A, The 1.7 A Crystal Structure Of Alpha-D-Glucuronidase, A
           Family-67 Glycoside Hydrolase From Bacillus
           Stearothermophilus T-1
 pdb|1L8N|A Chain A, The 1.5a Crystal Structure Of Alpha-d-glucuronidase From
           Bacillus Stearothermophilus T-1, Complexed With
           4-o-methyl-glucuronic Acid And Xylotriose
 pdb|1MQQ|A Chain A, The Crystal Structure Of Alpha-D-Glucuronidase From
           Bacillus Stearothermophilus T-1 Complexed With
           Glucuronic Acid
          Length = 679

 Score = 29.3 bits (64), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 16/74 (21%)

Query: 49  LVSPAGIPIRVSVKAKFTDSPAFIYFVAALSVACLYSIITML---------ASLSVVSKP 99
           LV P G  IR  V     D P  IY +       LY +   L         A LS++ +P
Sbjct: 85  LVHPEGYVIRSDVD----DGPFRIYIIGKTDAGVLYGVFHFLRLLQMGENIAQLSIIEQP 140

Query: 100 ASAKRLLLYFAFWD 113
            +  R++ +   WD
Sbjct: 141 KNRLRMINH---WD 151


>pdb|1MQP|A Chain A, The Crystal Structure Of Alpha-D-Glucuronidase From
           Bacillus Stearothermophilus T-6
          Length = 679

 Score = 29.3 bits (64), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 16/74 (21%)

Query: 49  LVSPAGIPIRVSVKAKFTDSPAFIYFVAALSVACLYSIITML---------ASLSVVSKP 99
           LV P G  IR  V     D P  IY +       LY +   L         A LS++ +P
Sbjct: 85  LVHPEGYVIRSDVD----DGPFRIYIIGKTDAGVLYGVFHFLRLLQMGENIAQLSIIEQP 140

Query: 100 ASAKRLLLYFAFWD 113
            +  R++ +   WD
Sbjct: 141 KNRLRMINH---WD 151


>pdb|3ZEN|D Chain D, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|3ZEN|E Chain E, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|3ZEN|F Chain F, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|4B3Y|A Chain A, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|4B3Y|B Chain B, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
 pdb|4B3Y|C Chain C, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
          Length = 3089

 Score = 27.7 bits (60), Expect = 3.6,   Method: Composition-based stats.
 Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 11   DQRAVRENYFGIDVGLRVLLFSATLVSVIVMATAKQTELVSPAGI 55
            DQ   R +  GIDVG  VL  SA + S +VMA   +  L +P  +
Sbjct: 1307 DQVDFRVDRVGIDVGAEVLEVSARIGSELVMAATAR--LAAPKTV 1349


  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
   0.325    0.136    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,719,756
Number of Sequences: 62578
Number of extensions: 100976
Number of successful extensions: 219
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 218
Number of HSP's gapped (non-prelim): 5
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)