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= 044014
         (127 letters)

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

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



>pdb|3ZUQ|A Chain A, Crystal Structure Of An Engineered Botulinum Neurotoxin
           Type B-Derivative, Lc-B-Gs-Hn-B
          Length = 906

 Score = 26.6 bits (57), Expect = 3.8,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 3/89 (3%)

Query: 2   NILRHCIINIIPSNETLLDLEPFNRMWHLSENGESCGQFDVIIIARNGKCANRLLRMQLS 61
           N   + I N  P NE +LD +  +++   SEN ES   F+V +     + A + +    +
Sbjct: 511 NTQSNYIENDFPINELILDTDLISKIELPSENTESLTDFNVDVPVYEKQPAIKKIFTDEN 570

Query: 62  SIWTLLAASEDP---RLLGSAASFKAPLL 87
           +I+  L +   P   R +   +SF   LL
Sbjct: 571 TIFQYLYSQTFPLDIRDISLTSSFDDALL 599


>pdb|2XHL|B Chain B, Structure Of A Functional Derivative Of Clostridium
           Botulinum Neurotoxin Type B
          Length = 433

 Score = 26.6 bits (57), Expect = 3.8,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 3/89 (3%)

Query: 2   NILRHCIINIIPSNETLLDLEPFNRMWHLSENGESCGQFDVIIIARNGKCANRLLRMQLS 61
           N   + I N  P NE +LD +  +++   SEN ES   F+V +     + A + +    +
Sbjct: 38  NTQSNYIENDFPINELILDTDLISKIELPSENTESLTDFNVDVPVYEKQPAIKKIFTDEN 97

Query: 62  SIWTLLAASEDP---RLLGSAASFKAPLL 87
           +I+  L +   P   R +   +SF   LL
Sbjct: 98  TIFQYLYSQTFPLDIRDISLTSSFDDALL 126


>pdb|1EPW|A Chain A, Crystal Structure Of Clostridium Neurotoxin Type B
 pdb|1F31|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With A Trisaccharide
 pdb|1I1E|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With Doxorubicin
 pdb|1G9A|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With An Inhibitor (Experiment 3)
 pdb|1G9B|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With An Inhibitor (Experiment 1)
 pdb|1G9C|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With An Inhibitor (Experiment 4)
 pdb|1G9D|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With An Inhibitor (Experiment 2)
 pdb|1S0B|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 4.0
 pdb|1S0C|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 5.0
 pdb|1S0D|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 5.5
 pdb|1S0E|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 6.0
 pdb|1S0F|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 7.0
 pdb|1S0G|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B Apo Form
 pdb|2NP0|A Chain A, Crystal Structure Of The Botulinum Neurotoxin Type B
           Complexed With Synaptotagamin-Ii Ectodomain
          Length = 1290

 Score = 26.6 bits (57), Expect = 3.8,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 3/89 (3%)

Query: 2   NILRHCIINIIPSNETLLDLEPFNRMWHLSENGESCGQFDVIIIARNGKCANRLLRMQLS 61
           N   + I N  P NE +LD +  +++   SEN ES   F+V +     + A + +    +
Sbjct: 475 NTQSNYIENDFPINELILDTDLISKIELPSENTESLTDFNVDVPVYEKQPAIKKIFTDEN 534

Query: 62  SIWTLLAASEDP---RLLGSAASFKAPLL 87
           +I+  L +   P   R +   +SF   LL
Sbjct: 535 TIFQYLYSQTFPLDIRDISLTSSFDDALL 563


>pdb|3H41|A Chain A, Crystal Structure Of A NlpcP60 FAMILY PROTEIN (BCE_2878)
           FROM Bacillus Cereus Atcc 10987 At 1.79 A Resolution
          Length = 311

 Score = 25.8 bits (55), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 8/18 (44%), Positives = 13/18 (72%)

Query: 91  SWMADNPGKLFRSQSDVP 108
           +W+  N G  +RSQ+D+P
Sbjct: 168 AWLRKNDGTFYRSQNDIP 185


  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
   0.323    0.135    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,768,854
Number of Sequences: 62578
Number of extensions: 134400
Number of successful extensions: 240
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 236
Number of HSP's gapped (non-prelim): 10
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)