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= 0138.0006.p
         (289 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 ...   412   e-116
gi|300313560|ref|YP_003777652.1| peptide chain release factor 1 ...   119   3e-28

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

 Score =  412 bits (1060), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 197/221 (89%), Positives = 206/221 (93%)

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

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

Query: 133 LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD 192
           LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD
Sbjct: 121 LRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGVHRLVRKSPFD 180

Query: 193 SANGRHTSFSSLFVYPEVDESFEIDINPADVRVDTYRASGA 233
           S+NGRHTSFSSLFVYPEVDESFEI+INPADVRVDTYRASGA
Sbjct: 181 SSNGRHTSFSSLFVYPEVDESFEIEINPADVRVDTYRASGA 221


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

 Score =  119 bits (299), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 81/232 (34%), Positives = 126/232 (54%), Gaps = 17/232 (7%)

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

Query: 68  FAMAREEKDEETLEAIEADAETIKGLVEGMEF--RRMFSNPMDPN---NCFIDIQAGAGG 122
            A    + D +     E D    K  +EG+E   ++M   P DPN   N F++I+AG GG
Sbjct: 69  LA----DPDMKAFAQEEIDG--AKARMEGLELDLQKMLL-PKDPNDERNIFLEIRAGTGG 121

Query: 123 TEAQDWASMLLRQYLRYCERKGFKAEILEQSDGEVAGIKTATIKVEGEYAYGFLRTETGV 182
            E+  +A  LLR Y RY ER+ ++ EI+  S+ E+ G K    ++ G  AY  L+ E+G 
Sbjct: 122 DESALFAGDLLRMYTRYAERQRWQVEIVSASESELGGYKEVIARIVGLGAYSRLKFESGG 181

Query: 183 HRLVRKSPFDSANGR-HTSFSSLFVYPEVDESFEIDINPADVRVDTYRASGA 233
           HR V++ P     GR HTS  ++ V PE DE  +++INPAD+R+DTYRASGA
Sbjct: 182 HR-VQRVPATETQGRIHTSACTVAVMPEADEVGDVEINPADIRIDTYRASGA 232


  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    0.384 

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: 816,207
Number of extensions: 31496
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 2
Length of query: 289
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 205
Effective length of database: 1,222,130
Effective search space: 250536650
Effective search space used: 250536650
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: 130 (54.7 bits)