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= 047256
         (383 letters)

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

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



>pdb|2VK9|A Chain A, Crystal Structure Of The Catalytic Domain Of Alpha-Toxin
           From Clostridium Novyi
          Length = 551

 Score = 34.7 bits (78), Expect = 0.084,   Method: Compositional matrix adjust.
 Identities = 13/22 (59%), Positives = 19/22 (86%)

Query: 201 SNLIRLAVLYKYGGVYLDTDFI 222
           S+++R+A+L KYGGVY D DF+
Sbjct: 267 SDILRIAILKKYGGVYCDLDFL 288


>pdb|1NFG|A Chain A, Structure Of D-Hydantoinase
 pdb|1NFG|B Chain B, Structure Of D-Hydantoinase
 pdb|1NFG|C Chain C, Structure Of D-Hydantoinase
 pdb|1NFG|D Chain D, Structure Of D-Hydantoinase
          Length = 457

 Score = 31.6 bits (70), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 36/149 (24%), Positives = 63/149 (42%), Gaps = 16/149 (10%)

Query: 3   IYRLLSR--RVKSAILALVIFIATF-----FIIYEDTVIISNDSLHSAAGA-SRAIKVLE 54
           IY  LSR  RV++   A  + +A       +I++    +   +SL     A SR ++ L 
Sbjct: 204 IYHALSRPPRVEAEATARALALAEIVNAPIYIVH----VTCEESLEEVMRAKSRGVRALA 259

Query: 55  KFQISNRPLLSIQEETDKAD-SGSWNSLKPPFNVTEDERTAWFRKKLPEFDILKSDNLTE 113
             +     L   +E+ ++ D  G+     PP    +D    W   +   F+ + SD+ + 
Sbjct: 260 --ETCTHYLYLTKEDLERPDFEGAKYVFTPPARAKKDHDVLWNALRNGVFETVSSDHCSW 317

Query: 114 QFHGREVLGLESFFKAHPNGCLMILSRTL 142
            F G +  G    F+A PNG   +  R +
Sbjct: 318 LFKGHKDRGRND-FRAIPNGAPGVEERLM 345


>pdb|4DMV|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
           Difficile Toxin A
 pdb|4DMW|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
           Difficile Toxin A (Tcda) In Complex With Udp And
           Manganese
          Length = 556

 Score = 29.6 bits (65), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 16/22 (72%)

Query: 201 SNLIRLAVLYKYGGVYLDTDFI 222
           S+++RL  L  +GGVYLD D +
Sbjct: 283 SDIVRLLALKNFGGVYLDVDML 304


>pdb|3SRZ|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
           Domain Bound To Udp-Glucose
 pdb|3SS1|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
           Domain
          Length = 555

 Score = 29.6 bits (65), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 16/22 (72%)

Query: 201 SNLIRLAVLYKYGGVYLDTDFI 222
           S+++RL  L  +GGVYLD D +
Sbjct: 268 SDIVRLLALKNFGGVYLDVDML 289


  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
   0.322    0.138    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,489,623
Number of Sequences: 62578
Number of extensions: 490831
Number of successful extensions: 942
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 935
Number of HSP's gapped (non-prelim): 10
length of query: 383
length of database: 14,973,337
effective HSP length: 101
effective length of query: 282
effective length of database: 8,652,959
effective search space: 2440134438
effective search space used: 2440134438
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)