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= 004011
         (779 letters)

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

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



>pdb|3L0G|A Chain A, Crystal Structure Of Nicotinate-Nucleotide
           Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
           Resolution
 pdb|3L0G|B Chain B, Crystal Structure Of Nicotinate-Nucleotide
           Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
           Resolution
 pdb|3L0G|C Chain C, Crystal Structure Of Nicotinate-Nucleotide
           Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
           Resolution
 pdb|3L0G|D Chain D, Crystal Structure Of Nicotinate-Nucleotide
           Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
           Resolution
          Length = 300

 Score = 33.1 bits (74), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 45/88 (51%), Gaps = 3/88 (3%)

Query: 418 LKDSDRPTVLISARRQAFKDSLQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLK 477
           L+  D+ +V I    ++++D+L +G+L  +N   S  S    +  + KN  + + Y+ ++
Sbjct: 157 LRMLDKYSVCIGGG-ESYRDNLCDGVLIKDNHIASCGSITLAIQRLRKN--LKNEYIAIE 213

Query: 478 CNNFAKYASDLPTMCPRILLSGPAGSEI 505
           C+N ++    L      ILL   + SEI
Sbjct: 214 CDNISQVEESLSNNVDMILLDNMSISEI 241


>pdb|3PIE|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant
 pdb|3PIE|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant
 pdb|3PIE|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant
 pdb|3PIE|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant
 pdb|3PIF|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant In Complex With Manganese
 pdb|3PIF|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant In Complex With Manganese
 pdb|3PIF|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant In Complex With Manganese
 pdb|3PIF|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
            Mutant In Complex With Manganese
          Length = 1155

 Score = 32.3 bits (72), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 42/146 (28%), Positives = 58/146 (39%), Gaps = 33/146 (22%)

Query: 543  ESSRTEKASMFAKRAALLQHRK-PTSSVEADITGGTAVGSQALPKPEISTASSKNYTFKK 601
            ES    KASM A  + ++++   P SS +  +     V  +A+   E S    ++  F  
Sbjct: 1012 ESDSLTKASMAAVESEIIKYVSLPDSSEQKKLA---KVPREAILNAESSYVLLRSQRFHL 1068

Query: 602  GDRVKFV---GNV---TSGTTVQPTLRGPGIGFRGRVILPFEDNDFSKIGVRFDRSIPEG 655
            GDRV ++   G V   + GT V  T  G  +                 I V FD  I  G
Sbjct: 1069 GDRVMYIQDSGKVPLHSKGTVVGYTSIGKNVS----------------IQVLFDNEIIAG 1112

Query: 656  NNLGGFCEDDHGFFCTASSLRLDSSL 681
            NN GG  +   G       L LDSS 
Sbjct: 1113 NNFGGRLQTRRG-------LGLDSSF 1131


  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
   0.312    0.131    0.367 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,728,140
Number of Sequences: 62578
Number of extensions: 904954
Number of successful extensions: 1510
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1507
Number of HSP's gapped (non-prelim): 9
length of query: 779
length of database: 14,973,337
effective HSP length: 106
effective length of query: 673
effective length of database: 8,340,069
effective search space: 5612866437
effective search space used: 5612866437
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.8 bits)