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= 0002.0667.p
         (355 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313560|ref|YP_003777652.1| peptide chain release factor 1 ...   672   0.0  
gi|300312096|ref|YP_003776188.1| peptide chain release factor 2 ...   226   2e-60

>gi|300313560|ref|YP_003777652.1| peptide chain release factor 1
           [Herbaspirillum seropedicae SmR1]
          Length = 359

 Score =  672 bits (1733), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 322/355 (90%), Positives = 341/355 (96%)

Query: 1   MLAKLDQLAERLEELNNLLMQQEATSDMDNYRKMTREHAELGPLVALYHTYVQAANDITT 60
           MLAKLDQLAERLEELN+LL Q++AT+ MDN+RKMTREHAELGPLVALYH YVQAA DI T
Sbjct: 5   MLAKLDQLAERLEELNSLLAQEDATASMDNFRKMTREHAELGPLVALYHEYVQAAEDIRT 64

Query: 61  AQELLSDPDMKEFAQEEINGAKARMETLEADLQKMLLPKDPNDERNIFLEIRAGTGGDES 120
           AQELL+DPDMK FAQEEI+GAKARME LE DLQKMLLPKDPNDERNIFLEIRAGTGGDES
Sbjct: 65  AQELLADPDMKAFAQEEIDGAKARMEGLELDLQKMLLPKDPNDERNIFLEIRAGTGGDES 124

Query: 121 ALFAGDLLRMYTRFAERNRWQVEMMSASDSEVGGYKEVIVRIAGFGAYSRLKFESGGHRV 180
           ALFAGDLLRMYTR+AER RWQVE++SAS+SE+GGYKEVI RI G GAYSRLKFESGGHRV
Sbjct: 125 ALFAGDLLRMYTRYAERQRWQVEIVSASESELGGYKEVIARIVGLGAYSRLKFESGGHRV 184

Query: 181 QRVPATETQGRIHTSACTVAVMPEADEVEDVDINPADIRIDTYRASGAGGQHINKTDSAV 240
           QRVPATETQGRIHTSACTVAVMPEADEV DV+INPADIRIDTYRASGAGGQHINKTDSAV
Sbjct: 185 QRVPATETQGRIHTSACTVAVMPEADEVGDVEINPADIRIDTYRASGAGGQHINKTDSAV 244

Query: 241 RITHMPTGIVVECQDDRSQHKNKASALKVLAARIKDVQLREQQSKEAATRKSLIGSGDRS 300
           RITH+PTGIVVECQDDRSQHKNKA A+KVLAARIKDVQLR+QQS+EAATRKSLIGSGDRS
Sbjct: 245 RITHLPTGIVVECQDDRSQHKNKAQAMKVLAARIKDVQLRQQQSEEAATRKSLIGSGDRS 304

Query: 301 ERIRTYNFPQGRMTDHRINLTLYKLDFIMDGDLEELTNALITEHQAELLAQLGDE 355
           ERIRTYNFPQGRMTDHRINLTLYKLDFIMDGDL+ELTNALITEHQAELLAQLGD+
Sbjct: 305 ERIRTYNFPQGRMTDHRINLTLYKLDFIMDGDLDELTNALITEHQAELLAQLGDD 359


>gi|300312096|ref|YP_003776188.1| peptide chain release factor 2
           [Herbaspirillum seropedicae SmR1]
          Length = 337

 Score =  226 bits (577), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 129/346 (37%), Positives = 206/346 (59%), Gaps = 24/346 (6%)

Query: 9   AERLEELNNLLMQQEATSDMDNYRKMTREHAELGPLVALYHTYVQAANDITTAQELLSDP 68
           +E+LE++N  L      +D    + + +E   L  +V   HT ++  +++T A++L    
Sbjct: 3   SEKLEQVNAELEDPNVWNDQKRAQDLGKEKKSLEAIV---HTLIKIDSELTDARDLF--- 56

Query: 69  DMKEFAQEE--------INGAKARMETLEADLQKMLLPKDPNDERNIFLEIRAGTGGDES 120
              E A+EE        I G    ++ +  +++   +   P D  N F++I+AG GG E+
Sbjct: 57  ---EMAREEKDEDTIIAIEGDAENLKKMVEEMEFRRMFSGPMDANNCFIDIQAGAGGTEA 113

Query: 121 ALFAGDLLRMYTRFAERNRWQVEMMSASDSEVGGYKEVIVRIAGFGAYSRLKFESGGHR- 179
             +A  LLR Y R+ ER  ++ E++  SD EV G K   +++ G  AY  L+ E+G HR 
Sbjct: 114 QDWASMLLRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRL 173

Query: 180 VQRVPATETQGRIHTSACTVAVMPEADEVEDVDINPADIRIDTYRASGAGGQHINKTDSA 239
           V++ P   + GR HTS  ++ V PE DE  +++INPAD+R+DTYRASGAGGQHINKTDSA
Sbjct: 174 VRKSPFDSSNGR-HTSFSSLFVYPEVDESFEIEINPADVRVDTYRASGAGGQHINKTDSA 232

Query: 240 VRITHMPTGIVVECQDDRSQHKNKASALKVLAARIKDVQLREQQSKEAATR--KSLIGSG 297
           VR+TH P+GIVV+CQ+DRSQH+N+A A  +L A++ +++LR++ S++      K+ +G G
Sbjct: 233 VRLTHAPSGIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVGWG 292

Query: 298 DRSERIRTYNFPQGRMTDHRINLTLYKLDFIMDGDLEELTNALITE 343
               +IR+Y   Q R+ D R N        ++DGD+++   A + +
Sbjct: 293 ---HQIRSYVLDQSRIKDLRTNFETGNTKAVLDGDIDDFIAASLKQ 335


  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
   0.315    0.131    0.362 

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: 998,964
Number of extensions: 40037
Number of successful extensions: 102
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 101
Number of HSP's successfully gapped: 2
Length of query: 355
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 269
Effective length of database: 1,212,660
Effective search space: 326205540
Effective search space used: 326205540
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)