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= 0005.0271.p
         (471 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310006|ref|YP_003774098.1| pyruvate kinase II protein [Her...   289   4e-79

>gi|300310006|ref|YP_003774098.1| pyruvate kinase II protein
           [Herbaspirillum seropedicae SmR1]
          Length = 477

 Score =  289 bits (739), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 175/453 (38%), Positives = 246/453 (54%), Gaps = 15/453 (3%)

Query: 28  AGVDVFRLNFSHGSHEDHRQRLQLIRDIESEKQRPIGVLLDLQGPKLRIATFLAGPVLLE 87
           AGVDV RLNFSHG  +DH  R  L+R++  E  + + ++ DLQGPK+R+  F  G ++L 
Sbjct: 27  AGVDVVRLNFSHGKPQDHIDRATLVREVADECGKKVAIMADLQGPKIRVGKFENGKIMLA 86

Query: 88  TGAAFHLDLDVATPGTVSRVALPHPEIFAALKVGTRLLLDDGRIRLKVLRCGLDFAETLV 147
            G  F LD D    G   RV L +  +   LK    LLL+DG I LKV R   +   T+V
Sbjct: 87  NGDKFILDADCQM-GNQERVGLDYKALPRDLKGNDVLLLNDGLIVLKVERVMGNEIHTVV 145

Query: 148 EVGGLLSERKGVNVPDVVLPVSAMTAKDRRDLEFGLELGVDWVALSFVQRPEDIQEVRAI 207
           ++GG LS  KG+N     L   A+TAKD  D++  +    D+VA+SF +   D++  R +
Sbjct: 146 KIGGELSNNKGINRQGGGLSAPALTAKDMDDIKTAMSFQADYVAVSFPKNATDMEMARQL 205

Query: 208 A-------GERAAIVAKLEKPAAITFLDEIVSEADAVMVARGDLGVELPAEQVPALQKRI 260
           +       G +  ++AK+E+  AI  L EI+  +D +MVARGDL VE+    VP LQKR+
Sbjct: 206 SNVAGEPFGHKPMMIAKIERAEAIPLLQEILDASDGIMVARGDLAVEVGNAAVPGLQKRM 265

Query: 261 VRACRRAGKPVIVATQMLESMVSAPVPTRAEASDVATAIYDGADAVMLSAESASGAWPVE 320
           ++  R + K  I ATQM+ESM+   VPTRAE SDVA A+ DG DAVM SAE+ASG +PVE
Sbjct: 266 IKMARASNKLTITATQMMESMIVNAVPTRAEVSDVANAVLDGTDAVMTSAETASGKYPVE 325

Query: 321 AVRTMDLIIGRTEQDPYYREAIAASHSAPKAEFS---DAIGYAMRHVAGLLDAAATVAYT 377
            V  M  I    E+     E +          F+    +I Y     A  L   A  A T
Sbjct: 326 TVEAMHAICLEAERS----ENVQLDADFLNLRFTRVDQSIAYGALFTAHHLRVKAIAALT 381

Query: 378 TSGYSALRMARERPSTPILGMTPNRTTARRLALVWGIHPVLCHEVVDAGEVSELACRTVS 437
            SG +AL M+R     PI  +TPN  T R+ AL   +H +   +  D   + + A   + 
Sbjct: 382 ESGSTALWMSRHNIDIPIFAITPNVATRRKAALFRNVHTLELAQCPDTEAMLKGAQDLLL 441

Query: 438 AEGFGGPGQTVVISAGMPFGTTGTTNLLRLAQI 470
           A+G    G  +V++ G P G  G TN L++ ++
Sbjct: 442 AQGVVQKGDLIVVTWGEPIGQVGGTNALKILRV 474


  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
   0.320    0.135    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: 1,478,740
Number of extensions: 63677
Number of successful extensions: 244
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 241
Number of HSP's successfully gapped: 1
Length of query: 471
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 382
Effective length of database: 1,198,455
Effective search space: 457809810
Effective search space used: 457809810
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 (21.8 bits)
S2: 132 (55.5 bits)