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= 024184
         (271 letters)

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

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



>pdb|3DUP|A Chain A, Crystal Structure Of MuttNUDIX FAMILY HYDROLASE FROM
           RHODOSPIRILLUM Rubrum Atcc 11170
 pdb|3DUP|B Chain B, Crystal Structure Of MuttNUDIX FAMILY HYDROLASE FROM
           RHODOSPIRILLUM Rubrum Atcc 11170
          Length = 300

 Score =  108 bits (271), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 61/170 (35%), Positives = 89/170 (52%), Gaps = 9/170 (5%)

Query: 95  YFEKIKICNRGSEMQSEFFPFIIEDQVAGYTHNRFASHLRKYDDVFIYSGNNGGRFGSHV 154
           + + ++ CN  +   S F  F+IE +  G+     A  L+ +  VF  + +        V
Sbjct: 5   FLKHVQDCN--THDLSNFVRFVIEGRRVGWVRKALAQRLKAHGRVFDVTRDA-------V 55

Query: 155 KLNSKLKTADERTRVVGEVIKCLAEEELIPDIQNELYPVASTFGSPIFFSLDRAAAPYFG 214
            L++ L+T   RTR V +V+  LA+E ++P  + ELY V  ++G P    LDRA  P FG
Sbjct: 56  LLSASLRTPQSRTRAVADVVDRLADEGVVPAPRGELYRVNQSWGEPTLXLLDRAVVPTFG 115

Query: 215 IKAYAVPLNGYVEKDGQKFLWIGKRSQVKSTYPGMLDILAGGGLVCNSNL 264
           ++AY V LNGYV       LWIG+RS  KS  PG LD    GG   + +L
Sbjct: 116 VRAYGVHLNGYVGAGADLHLWIGRRSPDKSVAPGKLDNXVAGGQPADLSL 165


>pdb|1Q27|A Chain A, Nmr Solution Structure Of Dr0079: An Hypothetical Nudix
           Protein From D. Radiodurans
 pdb|2O5F|A Chain A, Crystal Structure Of Dr0079 From Deinococcus Radiodurans
           At 1.9 Angstrom Resolution
 pdb|2O5F|B Chain B, Crystal Structure Of Dr0079 From Deinococcus Radiodurans
           At 1.9 Angstrom Resolution
          Length = 171

 Score = 32.3 bits (72), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 19/31 (61%)

Query: 228 KDGQKFLWIGKRSQVKSTYPGMLDILAGGGL 258
           ++ Q  LWI +RS  KS +P  LD+  GG +
Sbjct: 42  RNSQGQLWIPRRSPSKSLFPNALDVSVGGAV 72


>pdb|3LTV|A Chain A, Mouse-Human Sod1 Chimera
 pdb|3LTV|B Chain B, Mouse-Human Sod1 Chimera
 pdb|3LTV|C Chain C, Mouse-Human Sod1 Chimera
 pdb|3LTV|D Chain D, Mouse-Human Sod1 Chimera
 pdb|3LTV|E Chain E, Mouse-Human Sod1 Chimera
 pdb|3LTV|F Chain F, Mouse-Human Sod1 Chimera
          Length = 153

 Score = 30.4 bits (67), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 3/83 (3%)

Query: 107 EMQSEFFPFIIEDQVAGYTHNRFASHLRKYDDVFIYSGNNGGRFGSHVKLNSKLKTADER 166
           E ++   P ++  Q+ G T  +   H+ +Y D      + G  F  H K +     ADE 
Sbjct: 21  EQKASGEPVVLSGQITGLTEGQHGFHVHQYGDNTQGCTSAGPHFNPHSKKHG--GPADEE 78

Query: 167 TRVVGEVIKCLAEEELIPDIQNE 189
            R VG++    A+++ + D+  E
Sbjct: 79  -RHVGDLGNVTADKDGVADVSIE 100


  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    0.137    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,206,821
Number of Sequences: 62578
Number of extensions: 326458
Number of successful extensions: 768
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 764
Number of HSP's gapped (non-prelim): 8
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
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)