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= 021807
         (307 letters)

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

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



>pdb|3DRA|A Chain A, Candida Albicans Protein Geranylgeranyltransferase-I
           Complexed With Ggpp
          Length = 306

 Score = 29.3 bits (64), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 76  GIFASLMPREEYFSKALYTFDIGQNDLGAGF 106
           G+  +LM  EEY  +AL+  ++G N+L + +
Sbjct: 37  GLLLALMKAEEYSERALHITELGINELASHY 67


>pdb|2Q8N|A Chain A, Crystal Structure Of Glucose-6-Phosphate Isomerase (Ec
           5.3.1.9) (Tm1385) From Thermotoga Maritima At 1.82 A
           Resolution
 pdb|2Q8N|B Chain B, Crystal Structure Of Glucose-6-Phosphate Isomerase (Ec
           5.3.1.9) (Tm1385) From Thermotoga Maritima At 1.82 A
           Resolution
 pdb|2Q8N|C Chain C, Crystal Structure Of Glucose-6-Phosphate Isomerase (Ec
           5.3.1.9) (Tm1385) From Thermotoga Maritima At 1.82 A
           Resolution
          Length = 460

 Score = 28.9 bits (63), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 9/70 (12%)

Query: 246 LATVNGTQFIVGSCDRPSVRVNWDGIH---------YTEAAAKFVFDRISTGAFSDPRIP 296
           LA   GT+  +   +RP++RV +DG+          Y EAA  F+   +    F  P + 
Sbjct: 372 LAEQTGTEEALRENNRPNMRVTFDGLTPYNVGQFFAYYEAATAFMGYLLEINPFDQPGVE 431

Query: 297 LKMACRRALI 306
           L      AL+
Sbjct: 432 LGKKITFALM 441


>pdb|1PF5|A Chain A, Structural Genomics, Protein Yjgh
          Length = 131

 Score = 27.7 bits (60), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 32/71 (45%), Gaps = 13/71 (18%)

Query: 234 EYNYSGTAECGQLATVNGTQFIVGSCD--------RPSVRVNWDGIHYTEAAAKFVFDRI 285
           E+ YS     G L  V+G    VGS +        +  VR+ +D +H T AAA   FD I
Sbjct: 18  EHRYSAAIRSGDLLFVSGQ---VGSREDGTPEPDFQQQVRLAFDNLHATLAAAGCTFDDI 74

Query: 286 --STGAFSDPR 294
              T   +DP 
Sbjct: 75  IDVTSFHTDPE 85


  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    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,278,178
Number of Sequences: 62578
Number of extensions: 396785
Number of successful extensions: 723
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 722
Number of HSP's gapped (non-prelim): 3
length of query: 307
length of database: 14,973,337
effective HSP length: 99
effective length of query: 208
effective length of database: 8,778,115
effective search space: 1825847920
effective search space used: 1825847920
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: 51 (24.3 bits)