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= 0005.0094.p
         (368 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311187|ref|YP_003775279.1| exoribonuclease RNAse R protein...   573   e-165

>gi|300311187|ref|YP_003775279.1| exoribonuclease RNAse R protein
           [Herbaspirillum seropedicae SmR1]
          Length = 839

 Score =  573 bits (1477), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 273/321 (85%), Positives = 297/321 (92%), Gaps = 5/321 (1%)

Query: 1   MLAANVCAADLLQRHEHPGLYRVHAGPTKEKLTQLRTFLKQIGLNLNGGDKPSASDYAEL 60
           MLAANVCAADLL+RH+HP LYR+HAGPTKEKLT LRTFLKQ+GL L GGD PSASDYAEL
Sbjct: 455 MLAANVCAADLLKRHDHPALYRIHAGPTKEKLTTLRTFLKQVGLTLGGGDTPSASDYAEL 514

Query: 61  MPKIKARPDALLVQTMLLRSMQQAVYSPENIGHFGLSYESYAHFTSPIRRYPDLLTHRAI 120
           MPK+KARPDA+L+QTMLLRSMQQAVYSP+NIGHFGLSYESYAHFTSPIRRYPDLLTHRAI
Sbjct: 515 MPKVKARPDAVLIQTMLLRSMQQAVYSPDNIGHFGLSYESYAHFTSPIRRYPDLLTHRAI 574

Query: 121 KAILLGKRYEPKGLDTSVLNTMLSPAARKAQA----VDRANGKK-KSESSVAIWEALGIH 175
           KA+L GKRYEPKG+D+  LNT +SPAARKAQA     D+A GKK + ES++AIWEALG+H
Sbjct: 575 KAVLQGKRYEPKGIDSGALNTSISPAARKAQAQQRAADKAAGKKPRGESALAIWEALGLH 634

Query: 176 CSANERRADEASRDVEAWLKCYFIRDKLGEEFTGTISGVATFGIFVQLDALYIEGMVHVT 235
           CSANERRADEASRDVEAWLKCYFIRDKLGEEFTGTISGVATFGIFVQLDALYIEG+VHVT
Sbjct: 635 CSANERRADEASRDVEAWLKCYFIRDKLGEEFTGTISGVATFGIFVQLDALYIEGLVHVT 694

Query: 236 ELGADYFQYDEARHELRGERTGIRYQLTDRVTVQVSRVDLDARKIDLRLVTEPGIRTILK 295
           ELGADYFQYDEARHELRGERTGIRYQLTDRVTVQVSRVDLDARKIDL LV EPGIRT+LK
Sbjct: 695 ELGADYFQYDEARHELRGERTGIRYQLTDRVTVQVSRVDLDARKIDLSLVNEPGIRTLLK 754

Query: 296 NEARRAESAQQARGKGGANAK 316
           NEA+RAESA +++  GG  A+
Sbjct: 755 NEAKRAESAARSKSAGGRQAQ 775


  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
   0.317    0.132    0.375 

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: 956,146
Number of extensions: 36689
Number of successful extensions: 99
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 1
Length of query: 368
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 281
Effective length of database: 1,207,925
Effective search space: 339426925
Effective search space used: 339426925
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 131 (55.1 bits)