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= 0002.0669.p
         (287 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313562|ref|YP_003777654.1| polypeptide chain release facto...   369   e-103
gi|300311474|ref|YP_003775566.1| adenine-specific methylase/meth...    92   4e-20

>gi|300313562|ref|YP_003777654.1| polypeptide chain release factors
           methylase [Herbaspirillum seropedicae SmR1]
          Length = 277

 Score =  369 bits (947), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/273 (72%), Positives = 226/273 (82%), Gaps = 5/273 (1%)

Query: 10  GISLAEALRSAPLDPLENRILIGHALQLTRIQLITQSERQLTADEAAQLSALFRRRLQGE 69
           G +LA  L++APLDPLENRIL+ HAL+LTR+QLITQSERQL+A EA  L+AL  RRL+GE
Sbjct: 9   GCTLATVLKTAPLDPLENRILLCHALRLTRVQLITQSERQLSAAEAETLAALLARRLRGE 68

Query: 70  PIAYIVGEREFFGLAMQVTPDVLIPRPDTELLVELALERLPQHGKALDMGTGSGAIAVAI 129
           PIAYIVG+REF+GL ++V+PDVLIPRPDTELLVELALERLPQ G ALDMGTGSGAIAVAI
Sbjct: 69  PIAYIVGQREFYGLDLRVSPDVLIPRPDTELLVELALERLPQGGSALDMGTGSGAIAVAI 128

Query: 130 AHTRPDVAMTALDVSEGALKVAAGNAQRHGAKVEFLRSDWYAALNDMGNANQPYLDLIVS 189
           AHTRPD  +TALD S  AL +A  NA  H  +V  L SDWY AL    +A+Q + DLIVS
Sbjct: 129 AHTRPDAQVTALDASPAALAIARENASTHQVRVRLLESDWYGAL----DADQAF-DLIVS 183

Query: 190 NPPYIVAGDMHLSQGDLRFEPIGALTDHADGLSALRIIVDGAATYLKPGGWLLMEHGYDQ 249
           NPPYIVAGD+HLSQGDLRFEP+ ALTDHADGLS LR I++GA  +LK GGWLLMEHGYDQ
Sbjct: 184 NPPYIVAGDIHLSQGDLRFEPVDALTDHADGLSDLRTIIEGAPAHLKAGGWLLMEHGYDQ 243

Query: 250 SGAVRKLLEQRGFAEVQSWRDLAGIERVSGGKL 282
           + AVR LL   G+ EVQSWRDLAGIERVSG +L
Sbjct: 244 AAAVRALLTGGGWREVQSWRDLAGIERVSGARL 276


>gi|300311474|ref|YP_003775566.1| adenine-specific
           methylase/methyltransferase [Herbaspirillum seropedicae
           SmR1]
          Length = 296

 Score = 92.0 bits (227), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 82/242 (33%), Positives = 114/242 (47%), Gaps = 29/242 (11%)

Query: 26  ENRILIGHALQLTRIQLITQSERQLTADEAAQLSALFRRRLQGE-PIAYIVGEREFFGLA 84
           E   LI H L+L   QL    + +L  DE A +  +  RR +   P AYI  E       
Sbjct: 37  EAAYLILHTLKLPLDQLDPFLDARLLPDEIAAVMRVIERRSKDRVPAAYITHEAWLGAYR 96

Query: 85  MQVTPDVLIPRPDTELLVELALERLPQH-----------GKALDMGTGSGAIAVAIAHTR 133
             V   V++PR           E +PQH             ALD+ TGSG + + +A   
Sbjct: 97  FYVDERVIVPR-------SFIAELIPQHFSPWIQDPEAIENALDLCTGSGCLPILLADAF 149

Query: 134 PDVAMTALDVSEGALKVAAGNAQRHG--AKVEFLRSDWYAALNDMGNANQPYLDLIVSNP 191
           P+  + A+D+S  AL VA  N   +    ++  + SD Y  L       + Y DLI+SNP
Sbjct: 150 PNAQIDAVDISADALAVARKNVDEYQLQERINLVESDLYTQL-----PLRKY-DLIISNP 203

Query: 192 PYIVAGDM-HLSQGDLRFEPIGALTDHADGLSALRIIVDGAATYLKPGGWLLMEHGYDQS 250
           PY+ +G M  L Q  LR EP  AL    DG+  +R IV GAA  L P G L++E G +++
Sbjct: 204 PYVNSGSMAKLPQEYLR-EPQLALAGGEDGMDLVRKIVAGAAERLTPEGVLVVEIGNERA 262

Query: 251 GA 252
            A
Sbjct: 263 FA 264


  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
   0.319    0.136    0.391 

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: 971,095
Number of extensions: 42234
Number of successful extensions: 179
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 2
Length of query: 287
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 203
Effective length of database: 1,222,130
Effective search space: 248092390
Effective search space used: 248092390
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 (21.7 bits)
S2: 130 (54.7 bits)