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= 0001.1726.p
         (829 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...  1563   0.0  

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

 Score = 1563 bits (4046), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 784/839 (93%), Positives = 797/839 (94%), Gaps = 11/839 (1%)

Query: 1   LSQFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPEEMDGLTRRLNAMERDGQIKPD 60
           +SQFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPEEMDGLTRRLNAMERDGQIKPD
Sbjct: 1   MSQFPYSIPSREEILGILRTSSGAQNAAALAAALGVKPEEMDGLTRRLNAMERDGQIKPD 60

Query: 61  RAGHYKLTHSPDFILGRVSSHRDGFGFLLPDDGTDDLFLPEKEMQKVMHGDRVQARIVGT 120
           RAGHYKLTHSPDFILGRVSSHRDGFGFLLPDDG+DDLFLPEKEMQKVMHGDRVQARIVGT
Sbjct: 61  RAGHYKLTHSPDFILGRVSSHRDGFGFLLPDDGSDDLFLPEKEMQKVMHGDRVQARIVGT 120

Query: 121 DRRGRPEGTIVEVVERANTHVIGRLLNENGVWVVAPEDKRIGHDVLLAGPPGKAKAGQVV 180
           DRRGRPEGTIVEVVERANTHVIGRLLNENGVW+VAPEDKRIGHDVLLAGPPGKAKAGQVV
Sbjct: 121 DRRGRPEGTIVEVVERANTHVIGRLLNENGVWIVAPEDKRIGHDVLLAGPPGKAKAGQVV 180

Query: 181 SVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGVPHEFSDAAKKLSAKLPSEV 240
           SVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGVPHEFS+AAKKLSAKLPSEV
Sbjct: 181 SVELTEHPSRYTQPVGKIVEILGDIDDPGMEIEIAVRKYGVPHEFSEAAKKLSAKLPSEV 240

Query: 241 KAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRAKGYRLIVAIADVSHYVKPN 300
           KAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGR KGYRLIVAIADVSHYVKPN
Sbjct: 241 KAADLKDRVDLRDVPLVTIDGEDARDFDDAVYCEPVKIGRTKGYRLIVAIADVSHYVKPN 300

Query: 301 DALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDRLTLVCDAVITAKGEIKAYQ 360
           DALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDRLTLVCDAVITAKGEIKAYQ
Sbjct: 301 DALDVDALERSTSVYFPRRVIPMLPEKLSNGLCSLNPDVDRLTLVCDAVITAKGEIKAYQ 360

Query: 361 FYPAVIHSAARLTYTEVASILANTKGPEAARRIGLVPHLTHLYEVFQALLTARQARGAID 420
           FYPAVIHSAARLTYTEVASILANTKGPEAARRIGLVPHLTHLYEVFQALLTARQARGAID
Sbjct: 361 FYPAVIHSAARLTYTEVASILANTKGPEAARRIGLVPHLTHLYEVFQALLTARQARGAID 420

Query: 421 FETTETYIVCNAAGKIEKILPRTRNDAHRLIEECMLAANVCAADLLKRHDHPALYRIHAG 480
           FETTETYIVCNAAGKIEKILPRTRNDAHRLIEECMLAANVCAADLLKRHDHPALYRIHAG
Sbjct: 421 FETTETYIVCNAAGKIEKILPRTRNDAHRLIEECMLAANVCAADLLKRHDHPALYRIHAG 480

Query: 481 PTKEKLTQLRTFLKQVGLHLGGGDTPSASDYAELMPKVKARPDAVLIQTMLLRSMQQAVY 540
           PTKEKLT LRTFLKQVGL LGGGDTPSASDYAELMPKVKARPDAVLIQTMLLRSMQQAVY
Sbjct: 481 PTKEKLTTLRTFLKQVGLTLGGGDTPSASDYAELMPKVKARPDAVLIQTMLLRSMQQAVY 540

Query: 541 SPDNIGHFGLSYESYAHFTSPIRRYPDLLTHRAIKAVLQGKRYEPKGIDSGALNTSISPA 600
           SPDNIGHFGLSYESYAHFTSPIRRYPDLLTHRAIKAVLQGKRYEPKGIDSGALNTSISPA
Sbjct: 541 SPDNIGHFGLSYESYAHFTSPIRRYPDLLTHRAIKAVLQGKRYEPKGIDSGALNTSISPA 600

Query: 601 ARKAQALQRATDKAAGKKPRGESALAIWEALGLHCSANERRADEASRDVEAWLKCYFIRD 660
           ARKAQA QRA DKAAGKKPRGESALAIWEALGLHCSANERRADEASRDVEAWLKCYFIRD
Sbjct: 601 ARKAQAQQRAADKAAGKKPRGESALAIWEALGLHCSANERRADEASRDVEAWLKCYFIRD 660

Query: 661 KLGEEFTGTISGVATFGIFVQLDALYIEGLVHVTELGADYFQYDEARHELRGERTGIRYQ 720
           KLGEEFTGTISGVATFGIFVQLDALYIEGLVHVTELGADYFQYDEARHELRGERTGIRYQ
Sbjct: 661 KLGEEFTGTISGVATFGIFVQLDALYIEGLVHVTELGADYFQYDEARHELRGERTGIRYQ 720

Query: 721 LTDRVTVQVSRVDLDARKIDLSLVNEPGIRTLIKNEAKRAETAARGKSAGSKPAARGKK- 779
           LTDRVTVQVSRVDLDARKIDLSLVNEPGIRTL+KNEAKRAE+AAR KSAG + A    + 
Sbjct: 721 LTDRVTVQVSRVDLDARKIDLSLVNEPGIRTLLKNEAKRAESAARSKSAGGRQAQEASQP 780

Query: 780 ----------AAASKPATAAAKPKGGAKAKAGSTTHARTGEADRKRAAAKGFNKGGKKK 828
                       A+  A + AK    AKA    T+  R GEADRKRAA+KGF KG KK+
Sbjct: 781 AARGKKGAAAKPAASAAGSKAKGGAKAKAGGARTSTTRPGEADRKRAASKGFAKGKKKR 839


  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    0.135    0.387 

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: 2,503,916
Number of extensions: 109403
Number of successful extensions: 299
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 298
Number of HSP's successfully gapped: 1
Length of query: 829
Length of database: 1,619,870
Length adjustment: 93
Effective length of query: 736
Effective length of database: 1,179,515
Effective search space: 868123040
Effective search space used: 868123040
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 (21.7 bits)
S2: 135 (56.6 bits)