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= 047859
         (214 letters)

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

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



>pdb|2IJQ|A Chain A, Crystal Structure Of Protein Rrnac1037 From Haloarcula
           Marismortui, Pfam Duf309
 pdb|2IJQ|B Chain B, Crystal Structure Of Protein Rrnac1037 From Haloarcula
           Marismortui, Pfam Duf309
          Length = 161

 Score = 36.2 bits (82), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 2/59 (3%)

Query: 44  AVALFNERAYYKCHDCLESLWYT--AEEPTRTLIHGVLQCAVGFYHLFNQNHKGAMMEL 100
            V L+N   +++ HDC E  WY           +HG++Q A G Y  F+      M  L
Sbjct: 39  GVRLYNSGEFHESHDCFEDEWYNYGRGNTESKFLHGMVQVAAGAYKHFDFEDDDGMRSL 97


>pdb|2CWY|A Chain A, Crystal Structure Of Conserved Hypothetical Protein,
          Ttha0068 From Thermus Thermophilus Hb8
 pdb|2CXD|A Chain A, Crystal Structure Of Conserved Hypothetical Protein,
          Ttha0068 From Thermus Thermophilus Hb8
 pdb|2CXD|B Chain B, Crystal Structure Of Conserved Hypothetical Protein,
          Ttha0068 From Thermus Thermophilus Hb8
          Length = 94

 Score = 34.3 bits (77), Expect = 0.056,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 23/47 (48%)

Query: 41 FDEAVALFNERAYYKCHDCLESLWYTAEEPTRTLIHGVLQCAVGFYH 87
          ++E + L+    YY+ H+ LE  W  A    R L+ GV+  A   + 
Sbjct: 5  WEEVLGLWRAGRYYEVHEVLEPYWLKATGEERRLLQGVILLAAALHQ 51


>pdb|3F40|A Chain A, Crystal Structure Of Ntf2-Like Protein Of Unknown Function
           (Yp_677363.1) From Cytophaga Hutchinsonii Atcc 33406 At
           1.27 A Resolution
          Length = 114

 Score = 28.1 bits (61), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)

Query: 142 ADDICLAMDQSERSYQLLGDYAAGQQLYHLESDHNQIMYIVFDPQ 186
            +D+CL  D +       G   A   LYHLE      +++ FDP+
Sbjct: 70  GNDVCLIYDINXN-----GKTIAASGLYHLEKGEITSLHVYFDPR 109


  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
   0.319    0.134    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,380,703
Number of Sequences: 62578
Number of extensions: 246194
Number of successful extensions: 509
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 506
Number of HSP's gapped (non-prelim): 3
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)