BLASTP 2.2.18 [Mar-02-2008]


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= 0599.0153.p
         (247 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

NMA2205 [K] COG0557 Exoribonuclease R                                 110   2e-24

>NMA2205 [K] COG0557 Exoribonuclease R
          Length = 288

 Score =  110 bits (275), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 73/229 (31%), Positives = 122/229 (53%), Gaps = 7/229 (3%)

Query: 3   IEVFNRYENKYLLDHAAYQKLYNDLLEYMEPDDYNKQHEFYSITNLYYDTAHDSLIRSSL 62
           I  FNR+E KYLL      +L   +  Y+ PD Y+     Y IT+LYYD+         +
Sbjct: 45  IRKFNRFELKYLLTIKQANELKEQVKHYLIPDPYSWASGDYVITSLYYDSPDLQCYWEKV 104

Query: 63  AKPKYKEKLRLRAYGVPD---QDTKVYLEIKKKVFGLVNKRRTSLKLQEAYDFVATGVEP 119
              K+++KLR+R Y   +   +D+ +++E+K++    + KRR  +K +++       + P
Sbjct: 105 NGIKFRKKLRIRFYETKEKLTEDSLIFVEVKQRYDKTIQKRRVEMKYKDSLTLCNERIIP 164

Query: 120 EYREYMNKQVIEEIKYFLSRYDLMPKVYLSYERKALFCKNNRD--LRITFDTNIRSRRYD 177
           E+ E  +  VIEEI   +   +L P +  SY R A F   + D  LRITFD+NIR R  D
Sbjct: 165 EHNE-EDTPVIEEILAMVEERNLQPTLITSYFRHA-FVGTDYDIGLRITFDSNIRYRIND 222

Query: 178 LKLEHGTHGEYLMPQGQWLMEVKAEKTIPVWLAKMLSEHRMYRTSFSKY 226
           L L     G +++   + ++E+KA + +P WL ++++++       SKY
Sbjct: 223 LDLNSKKPGRFIVSPDRVILEIKANERVPFWLTELIAQNNYRLVRISKY 271


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.319    0.135    0.389 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 17,969,350
Number of extensions: 659668
Number of successful extensions: 1301
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1300
Number of HSP's successfully gapped: 1
Length of query: 247
Length of database: 38,378,431
Length adjustment: 104
Effective length of query: 143
Effective length of database: 26,383,695
Effective search space: 3772868385
Effective search space used: 3772868385
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 114 (48.5 bits)