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= psy7731
         (139 letters)

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

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



>pdb|2BOV|B Chain B, Molecular Recognition Of An Adp-Ribosylating Clostridium
           Botulinum C3 Exoenzyme By Rala Gtpase
          Length = 251

 Score = 30.4 bits (67), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 21/44 (47%)

Query: 80  FILIMGVFPPLTSGIISSAMIAMVYSCAEMSMAPVYAMFWGVGQ 123
            +L  GV  P+TSG+I S      YS  + + +  Y  F  + Q
Sbjct: 11  LVLSAGVIAPVTSGMIQSPQKCYAYSINQKAYSNTYQEFTNIDQ 54


>pdb|3CSW|A Chain A, Crystal Structure Of A Putative Branched-Chain Amino Acid
           Aminotransferase (Tm0831) From Thermotoga Maritima At
           2.15 A Resolution
 pdb|3CSW|B Chain B, Crystal Structure Of A Putative Branched-Chain Amino Acid
           Aminotransferase (Tm0831) From Thermotoga Maritima At
           2.15 A Resolution
 pdb|3CSW|C Chain C, Crystal Structure Of A Putative Branched-Chain Amino Acid
           Aminotransferase (Tm0831) From Thermotoga Maritima At
           2.15 A Resolution
 pdb|3CSW|D Chain D, Crystal Structure Of A Putative Branched-Chain Amino Acid
           Aminotransferase (Tm0831) From Thermotoga Maritima At
           2.15 A Resolution
          Length = 285

 Score = 28.9 bits (63), Expect = 0.86,   Method: Compositional matrix adjust.
 Identities = 20/88 (22%), Positives = 39/88 (44%), Gaps = 10/88 (11%)

Query: 1   MICNGGS----VIKSKPVTTATILSSIADVLSFANYCTLTTFAEMWWQ---IFLWALFSS 53
            +C G      ++K   + T ++ S I D ++  N   L    E+  +   +++W LF +
Sbjct: 173 QVCEGSFSNVFLVKEGKLITPSLDSGILDGITRENVIKLAKSLEIPVEERVVWVWELFEA 232

Query: 54  ---IFVHTTAAIIAFGTLRKHHFGKYCP 78
                 HT+A ++    L +H F +  P
Sbjct: 233 DEXFLTHTSAGVVPVRRLNEHSFFEEEP 260


>pdb|3KYA|A Chain A, Crystal Structure Of Putative Phosphatase (Np_812416.1)
           From Bacteroides Thetaiotaomicron Vpi-5482 At 1.77 A
           Resolution
          Length = 496

 Score = 26.2 bits (56), Expect = 6.0,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 30/77 (38%), Gaps = 26/77 (33%)

Query: 2   ICNGGS---VIKSKPVTTATILSSIADVLSFANYCTLTTFAEMWWQIFLWALFSSIFVHT 58
           I NGGS   ++K+ P T                +  L T A+  W+         IF+H 
Sbjct: 283 IKNGGSWDPIVKNNPNT----------------FKQLFTIADPSWEF-------QIFIHP 319

Query: 59  TAAIIAFGTLRKHHFGK 75
           T     FG +  H+F +
Sbjct: 320 TGKYAYFGVINNHYFXR 336


  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
   0.331    0.137    0.439 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,599,021
Number of Sequences: 62578
Number of extensions: 116583
Number of successful extensions: 236
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 234
Number of HSP's gapped (non-prelim): 4
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 46 (22.3 bits)