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= 023789
         (277 letters)

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

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



>pdb|3N7K|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype C1
           Binding Domain
 pdb|3N7K|B Chain B, Crystal Structure Of Botulinum Neurotoxin Serotype C1
           Binding Domain
          Length = 426

 Score = 30.0 bits (66), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 26/100 (26%), Positives = 47/100 (47%), Gaps = 6/100 (6%)

Query: 157 VGASGALFGLLGTMLSELIANWTIYANKCTSLSVLGSVIALNLAFGFIPGVDGVDNLAHI 216
           +G+SG   G +    +E I    +Y +   S S+    I +N     +PG   +D++ + 
Sbjct: 46  LGSSGEDRGKVIVTQNENI----VYNSMYESFSI-SFWIRINKWVSNLPGYTIIDSVKNN 100

Query: 217 GGFASGVLLGFILFLRPQYGYVSEKYIAAGYDAKHRQPKY 256
            G++ G++  F++F   Q    SE+ I   YD  +  P Y
Sbjct: 101 SGWSIGIISNFLVFTLKQ-NEDSEQSINFSYDISNNAPGY 139


>pdb|3R4S|A Chain A, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
           Upon Interaction With Two Ganglioside Molecules
 pdb|3R4S|B Chain B, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
           Upon Interaction With Two Ganglioside Molecules
 pdb|3R4U|A Chain A, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
           Upon Interaction With Two Ganglioside Molecules
 pdb|3R4U|B Chain B, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
           Upon Interaction With Two Ganglioside Molecules
          Length = 443

 Score = 30.0 bits (66), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 26/100 (26%), Positives = 47/100 (47%), Gaps = 6/100 (6%)

Query: 157 VGASGALFGLLGTMLSELIANWTIYANKCTSLSVLGSVIALNLAFGFIPGVDGVDNLAHI 216
           +G+SG   G +    +E I    +Y +   S S+    I +N     +PG   +D++ + 
Sbjct: 51  LGSSGEDRGKVIVTQNENI----VYNSMYESFSI-SFWIRINKWVSNLPGYTIIDSVKNN 105

Query: 217 GGFASGVLLGFILFLRPQYGYVSEKYIAAGYDAKHRQPKY 256
            G++ G++  F++F   Q    SE+ I   YD  +  P Y
Sbjct: 106 SGWSIGIISNFLVFTLKQ-NEDSEQSINFSYDISNNAPGY 144


>pdb|4HDK|A Chain A, Crystal Structure Of Arsab In Complex With Phloroglucinol
 pdb|4HDM|A Chain A, Crystal Structure Of Arsab In Complex With P-cresol
 pdb|4HDN|A Chain A, Crystal Structure Of Arsab In The Substrate-free State.
 pdb|4HDR|A Chain A, Crystal Structure Of Arsab In Complex With
           5,6-dimethylbenzimidazole
 pdb|4HDR|C Chain C, Crystal Structure Of Arsab In Complex With
           5,6-dimethylbenzimidazole
 pdb|4HDS|A Chain A, Crystal Structure Of Arsab In Complex With Phenol
          Length = 348

 Score = 28.9 bits (63), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 6/45 (13%)

Query: 186 TSLSVLGSVIALNLAFGFIPG-VDGVDNLAHIGGFASGVLLGFIL 229
           T + ++G  +A+N      P   DG+D LA +GGF  G L G IL
Sbjct: 216 TKMEIVGRALAVNK-----PNPQDGLDVLAKVGGFELGALAGVIL 255


>pdb|2NR9|A Chain A, Crystal Structure Of Glpg, Rhomboid Peptidase From
           Haemophilus Influenzae
 pdb|3ODJ|A Chain A, Crystal Structure Of H. Influenzae Rhomboid Glpg With
           Disordered Loop 4, Helix 5 And Loop 5
          Length = 196

 Score = 27.7 bits (60), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 31/145 (21%), Positives = 62/145 (42%), Gaps = 10/145 (6%)

Query: 86  RKNQKYRLLSSMWLHAGIIHLVVNMTSLMLVSYRLEQEFGFARIAPXXXXXXXXXXXXXX 145
           + ++ +R +S   +H   +H++ N++   +    +E+ FG  ++                
Sbjct: 46  QDSEVWRYISHTLVHLSNLHILFNLSWFFIFGGMIERTFGSVKLL-MLYVVASAITGYVQ 104

Query: 146 XHHKGKKEIVSVGASGALFGLLGTMLSELIANWTIYANKCTSLSVLGSVIALNLAFGFIP 205
            +  G       G SG ++ +LG +      N  ++       ++L     + +A GFI 
Sbjct: 105 NYVSGPA---FFGLSGVVYAVLGYVFIRDKLNHHLFDLPEGFFTML----LVGIALGFIS 157

Query: 206 GVDGVD--NLAHIGGFASGVLLGFI 228
            + GV+  N AHI G   G++ GFI
Sbjct: 158 PLFGVEMGNAAHISGLIVGLIWGFI 182


  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
   0.327    0.142    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,872,077
Number of Sequences: 62578
Number of extensions: 293211
Number of successful extensions: 721
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: 720
Number of HSP's gapped (non-prelim): 6
length of query: 277
length of database: 14,973,337
effective HSP length: 98
effective length of query: 179
effective length of database: 8,840,693
effective search space: 1582484047
effective search space used: 1582484047
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.3 bits)