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= 0035.0006.p
         (281 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 ...   518   e-148
gi|300313617|ref|YP_003777709.1| translation elongation factor [...    63   2e-11

>gi|300312224|ref|YP_003776316.1| peptide chain release factor 3
           [Herbaspirillum seropedicae SmR1]
          Length = 530

 Score =  518 bits (1333), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 248/264 (93%), Positives = 255/264 (96%)

Query: 1   VYHLLRDEIMLFKAGEERADGNVEIIKGIDNPKLVEMFPLEIEQLKMEVELVHGASHPFN 60
           VYHLLRDEIMLFKAGEERA+GNVEIIKGIDNPKL EMFPLEIEQLKMEVELVHGASHPFN
Sbjct: 178 VYHLLRDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIEQLKMEVELVHGASHPFN 237

Query: 61  LDEFLAGIQTPVFFGSAINNFGVREILNALLDWAPAPGSRDATVRSVEPKEAPFSGFVFK 120
           LD+FLAG+QTPVFFGSAINNFGVREIL+ALLDWAP PG RDATVR V+P E PFSGFVFK
Sbjct: 238 LDDFLAGVQTPVFFGSAINNFGVREILDALLDWAPGPGGRDATVREVKPTEEPFSGFVFK 297

Query: 121 IQANMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNREIKVSSVVTFMASSREQVEEAYAG 180
           IQANMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNR+IKVSSVVTFMASSREQVEEAYAG
Sbjct: 298 IQANMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNRDIKVSSVVTFMASSREQVEEAYAG 357

Query: 181 DIIGLPNHGNMQIGDSFSEGELLQFTGIPYFAPDFFRVARIRNPLKIKQLHKGLQQLGEE 240
           DIIGLPNHGNMQIGDSFSEGE+LQFTGIPYFAPDFFRVARIRNPLKIKQLHKGLQQLGEE
Sbjct: 358 DIIGLPNHGNMQIGDSFSEGEMLQFTGIPYFAPDFFRVARIRNPLKIKQLHKGLQQLGEE 417

Query: 241 GAVQVFKPTNNSDLILGAVGVLQF 264
           GAVQVFKP   SDLILGAVGVLQF
Sbjct: 418 GAVQVFKPVTGSDLILGAVGVLQF 441


>gi|300313617|ref|YP_003777709.1| translation elongation factor
           [Herbaspirillum seropedicae SmR1]
          Length = 701

 Score = 63.2 bits (152), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/164 (26%), Positives = 78/164 (47%), Gaps = 20/164 (12%)

Query: 55  ASHPFNLDEFLAGIQ--------TPVFFGSAINNFGVREILNALLDWAPAP--------- 97
           + +P   D+   G++         P+  GSA  N GV+ +L+A++D+ P+P         
Sbjct: 239 SGNPLTEDDIKRGLRLRTVANEIVPMLAGSAFKNKGVQAMLDAVIDYLPSPVDVPAIAGH 298

Query: 98  GSRDATVRSVEPKEAPFSGFVFKIQANMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNRE 157
           G  D+ +      E PFS   FKI    DP    ++ F RV SG    G  + +    ++
Sbjct: 299 GEDDSEIERHPSDEEPFSALAFKIMT--DP-FVGQLTFFRVYSGIVNSGDTVYNPVKGKK 355

Query: 158 IKVSSVVTFMASSREQVEEAYAGDIIGLPNHGNMQIGDSFSEGE 201
            ++  ++   A+ R++++E +AGDI       ++  GD+ S+ E
Sbjct: 356 ERLGRILQMHANERKEIKEVFAGDIAAAVGLKDVTTGDTLSDPE 399


  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
   0.322    0.140    0.409 

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: 872,429
Number of extensions: 35479
Number of successful extensions: 101
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 2
Length of query: 281
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 197
Effective length of database: 1,222,130
Effective search space: 240759610
Effective search space used: 240759610
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 130 (54.7 bits)