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= 0009.0243.p
         (257 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311053|ref|YP_003775145.1| tRNA/rRNA methyltransferase [He...   393   e-111

>gi|300311053|ref|YP_003775145.1| tRNA/rRNA methyltransferase
           [Herbaspirillum seropedicae SmR1]
          Length = 275

 Score =  393 bits (1009), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 194/263 (73%), Positives = 220/263 (83%), Gaps = 10/263 (3%)

Query: 1   MNTPKIDNSVFKRLRFVLVETSSPGNIGAAARAIKTMGFGELVLVNPRFPNAVQEDAAIA 60
           MN      S+F RLRFVLV TSSPGNIG+AARAIKTMGF ELVLVNPRFP+AV+ED A+A
Sbjct: 1   MNKQVSGQSLFSRLRFVLVNTSSPGNIGSAARAIKTMGFSELVLVNPRFPDAVKEDEAVA 60

Query: 61  FASGAQDVLSGARIVTSIEEALQDCNFAAAISARLREFSPPVVSPRTIAEQIAGDVGLNA 120
           FASGA DVL  ARIV S+EEALQ CNFAAA+SARLREFSPPVVSPR +A Q++ D GLNA
Sbjct: 61  FASGALDVLQNARIVGSVEEALQGCNFAAAVSARLREFSPPVVSPRELAGQLSRDTGLNA 120

Query: 121 ALIFGNERFGLPNELVQQCNVLINIPANPDYSSLNLAQAVQVLAYECRMAEL-------- 172
           AL+FGNERFGLPNE+VQ+CN L+NIPANP+YSSLNL+QAVQVLAYECRM EL        
Sbjct: 121 ALLFGNERFGLPNEVVQKCNALLNIPANPEYSSLNLSQAVQVLAYECRMTELEVQGGPMQ 180

Query: 173 --GDRKQATDIGFQGEMAGVAEIEGMFRHLEEALVAIEFLKPDSPKKLMPRLKRLFARTQ 230
             GD +   ++GF G+ A VAEIEGMF HLE+ALVAI+FL PD+PKKLMPRLKR+F+R Q
Sbjct: 181 TSGDARSPGEVGFHGQSASVAEIEGMFAHLEQALVAIDFLNPDNPKKLMPRLKRMFSRAQ 240

Query: 231 LETEEVNILRGIARQILTPKQDR 253
           LETEEVNILRGIARQIL PKQ +
Sbjct: 241 LETEEVNILRGIARQILEPKQAK 263


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.319    0.135    0.377 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 759,140
Number of extensions: 30311
Number of successful extensions: 92
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 91
Number of HSP's successfully gapped: 1
Length of query: 257
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 174
Effective length of database: 1,226,865
Effective search space: 213474510
Effective search space used: 213474510
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 (21.8 bits)
S2: 129 (54.3 bits)