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= 0005.0144.p
         (349 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312096|ref|YP_003776188.1| peptide chain release factor 2 ...   638   0.0  
gi|300313560|ref|YP_003777652.1| peptide chain release factor 1 ...   222   4e-59

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

 Score =  638 bits (1646), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 307/337 (91%), Positives = 319/337 (94%)

Query: 13  VKSEKLDQVNGELEDPEVWNDPKRAQDLGKEKKSLENIVHTLIKIDGDLNDTRDLFAMAR 72
           +KSEKL+QVN ELEDP VWND KRAQDLGKEKKSLE IVHTLIKID +L D RDLF MAR
Sbjct: 1   MKSEKLEQVNAELEDPNVWNDQKRAQDLGKEKKSLEAIVHTLIKIDSELTDARDLFEMAR 60

Query: 73  EEKDDETLEAIEPDAEAIKALVEGMEFRRMFSNPMDPNNCFIDIQAGAGGTEAQDWASML 132
           EEKD++T+ AIE DAE +K +VE MEFRRMFS PMD NNCFIDIQAGAGGTEAQDWASML
Sbjct: 61  EEKDEDTIIAIEGDAENLKKMVEEMEFRRMFSGPMDANNCFIDIQAGAGGTEAQDWASML 120

Query: 133 LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD 192
           LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD
Sbjct: 121 LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD 180

Query: 193 SANGRHTSFSSLFVYPEVDESFEIDINPADVRVDTYRASGAGGQHINKTDSAVRLTHGPS 252
           S+NGRHTSFSSLFVYPEVDESFEI+INPADVRVDTYRASGAGGQHINKTDSAVRLTH PS
Sbjct: 181 SSNGRHTSFSSLFVYPEVDESFEIEINPADVRVDTYRASGAGGQHINKTDSAVRLTHAPS 240

Query: 253 GIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVGWGHQIRSYVL 312
           GIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVGWGHQIRSYVL
Sbjct: 241 GIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTDVGWGHQIRSYVL 300

Query: 313 DQSRIKDLRTNFEMGNTKAVLDGELDGFIAASLKQGV 349
           DQSRIKDLRTNFE GNTKAVLDG++D FIAASLKQGV
Sbjct: 301 DQSRIKDLRTNFETGNTKAVLDGDIDDFIAASLKQGV 337


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

 Score =  222 bits (565), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 133/350 (38%), Positives = 208/350 (59%), Gaps = 24/350 (6%)

Query: 11  FDVKSEKLDQVNGELEDPEVWNDPKRAQDLGKEKKSLENIV---HTLIKIDGDLNDTRDL 67
            D  +E+L+++N  L   +        + + +E   L  +V   H  ++   D+   ++L
Sbjct: 9   LDQLAERLEELNSLLAQEDATASMDNFRKMTREHAELGPLVALYHEYVQAAEDIRTAQEL 68

Query: 68  FAMAREEKDDETLEAI-EPDAEAIKALVEGMEF--RRMFSNPMDPN---NCFIDIQAGAG 121
            A       D  ++A  + + +  KA +EG+E   ++M   P DPN   N F++I+AG G
Sbjct: 69  LA-------DPDMKAFAQEEIDGAKARMEGLELDLQKMLL-PKDPNDERNIFLEIRAGTG 120

Query: 122 GTEAQDWASMLLRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETG 181
           G E+  +A  LLR Y RY ER+ ++ EI+  S+ E+ G K    ++ G  AY  L+ E+G
Sbjct: 121 GDESALFAGDLLRMYTRYAERQRWQVEIVSASESELGGYKEVIARIVGLGAYSRLKFESG 180

Query: 182 VHRLVRKSPFDSANGR-HTSFSSLFVYPEVDESFEIDINPADVRVDTYRASGAGGQHINK 240
            HR V++ P     GR HTS  ++ V PE DE  +++INPAD+R+DTYRASGAGGQHINK
Sbjct: 181 GHR-VQRVPATETQGRIHTSACTVAVMPEADEVGDVEINPADIRIDTYRASGAGGQHINK 239

Query: 241 TDSAVRLTHGPSGIVVQCQNDRSQHRNRAEAWDMLRAKLFELELRKRMSEQQKLEDSKTD 300
           TDSAVR+TH P+GIVV+CQ+DRSQH+N+A+A  +L A++ +++LR++ SE+      K+ 
Sbjct: 240 TDSAVRITHLPTGIVVECQDDRSQHKNKAQAMKVLAARIKDVQLRQQQSEEAATR--KSL 297

Query: 301 VGWG---HQIRSYVLDQSRIKDLRTNFEMGNTKAVLDGELDGFIAASLKQ 347
           +G G    +IR+Y   Q R+ D R N  +     ++DG+LD    A + +
Sbjct: 298 IGSGDRSERIRTYNFPQGRMTDHRINLTLYKLDFIMDGDLDELTNALITE 347


  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
   0.316    0.134    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: 1,085,474
Number of extensions: 44065
Number of successful extensions: 116
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 115
Number of HSP's successfully gapped: 2
Length of query: 349
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 263
Effective length of database: 1,212,660
Effective search space: 318929580
Effective search space used: 318929580
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)