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= 047865
         (389 letters)

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

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



>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp
 pdb|3RWO|B Chain B, Crystal Structure Of Ypt32 In Complex With Gdp
 pdb|3RWO|A Chain A, Crystal Structure Of Ypt32 In Complex With Gdp
          Length = 185

 Score = 31.2 bits (69), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 5/80 (6%)

Query: 290 TTPIFNRTTRLEVGTNQQLFAIAANVTQSMEVPVHFLNITSLSEYRKDAHTSVYGTAAGK 349
           TT  FN  ++  +G     FA      ++ ++     +   L  YR  A TS Y   A  
Sbjct: 31  TTDEFNIESKSTIGVE---FATRTIEVENKKIKAQIWDTAGLERYR--AITSAYYRGAVG 85

Query: 350 MLLPEQISEPTTYADCLHWC 369
            L+   IS+ ++Y +C HW 
Sbjct: 86  ALIVYDISKSSSYENCNHWL 105


>pdb|2GD9|A Chain A, Crystal Structure Of A Putative Dihydrofolate Reductase
           (Bsu40760, Yyap) From Bacillus Subtilis At 2.30 A
           Resolution
 pdb|2GD9|B Chain B, Crystal Structure Of A Putative Dihydrofolate Reductase
           (Bsu40760, Yyap) From Bacillus Subtilis At 2.30 A
           Resolution
          Length = 189

 Score = 29.3 bits (64), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 27/126 (21%), Positives = 56/126 (44%), Gaps = 13/126 (10%)

Query: 226 DEGATEY-DEIDMYTVYEKTLRAWGKWVEENVNPNLTSVFFS--SAAPKHVRSSDRNNVN 282
           D G T++ ++ID      K+   WG+++ +N +P+     +    +  K+V S  +N ++
Sbjct: 38  DXGFTDFLNQIDTILYGRKSFDLWGQYIPKNEDPDTEKELWKLVHSKKKYVFSRTQNEID 97

Query: 283 GVKCVEETTPIFNRTTRLEV--GTNQQLFAIAANVTQSMEVPVHFLNITSLSEYRKDAHT 340
             + +     I     +L+   G +  L+  A+ +T        F+N+  + E+R   H 
Sbjct: 98  N-QAIFINDNILEEVNKLKKNPGKDIWLYGGASLITT-------FINLGLVDEFRLSIHP 149

Query: 341 SVYGTA 346
            V G  
Sbjct: 150 VVLGEG 155


>pdb|2ARH|A Chain A, Crystal Structure Of A Protein Of Unknown Function Aq1966
           From Aquifex Aeolicus Vf5
 pdb|2ARH|B Chain B, Crystal Structure Of A Protein Of Unknown Function Aq1966
           From Aquifex Aeolicus Vf5
 pdb|2ARH|C Chain C, Crystal Structure Of A Protein Of Unknown Function Aq1966
           From Aquifex Aeolicus Vf5
          Length = 203

 Score = 28.9 bits (63), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 248 WGKWVEE-NVNPNLTSVFFSSAAPKHV 273
           W  WVE   VNPNL +VFF S A + +
Sbjct: 62  WQPWVEVFGVNPNLRNVFFGSEAERKL 88


  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
   0.318    0.133    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,239,377
Number of Sequences: 62578
Number of extensions: 504704
Number of successful extensions: 943
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 939
Number of HSP's gapped (non-prelim): 7
length of query: 389
length of database: 14,973,337
effective HSP length: 101
effective length of query: 288
effective length of database: 8,652,959
effective search space: 2492052192
effective search space used: 2492052192
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)