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= 0025.0089.p
         (472 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...   320   2e-88

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

 Score =  320 bits (819), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 192/464 (41%), Positives = 260/464 (56%), Gaps = 20/464 (4%)

Query: 5   RQAKIVATLGPASATKDMIKALFEAGADVFRFNFSHGTHADHHARFEIVRAVEREVGRPI 64
           R  KIVAT+GPAS+ ++ +  +  AG DV R NFSHG   DH  R  +VR V  E G+ +
Sbjct: 3   RATKIVATIGPASSDRETLTRMIRAGVDVVRLNFSHGKPQDHIDRATLVREVADECGKKV 62

Query: 65  AILADLQGPKLRVGQFAEGKVQLEAGQEFVLDRDTTPGDNTRVCLPHAELFEVIAAGQSL 124
           AI+ADLQGPK+RVG+F  GK+ L  G +F+LD D   G+  RV L +  L   +     L
Sbjct: 63  AIMADLQGPKIRVGKFENGKIMLANGDKFILDADCQMGNQERVGLDYKALPRDLKGNDVL 122

Query: 125 LLDDGKLRLKVLDSDGQRIRTRVINGGALSDRKGVNVPDAVLPIPALTEKDKRDLAFALE 184
           LL+DG + LKV    G  I T V  GG LS+ KG+N     L  PALT KD  D+  A+ 
Sbjct: 123 LLNDGLIVLKVERVMGNEIHTVVKIGGELSNNKGINRQGGGLSAPALTAKDMDDIKTAMS 182

Query: 185 LGVDWIALSFVQRPEDVHEARALIN-------GRAAVLSKLEKPAALDRLDEIVQASDAI 237
              D++A+SF +   D+  AR L N        +  +++K+E+  A+  L EI+ ASD I
Sbjct: 183 FQADYVAVSFPKNATDMEMARQLSNVAGEPFGHKPMMIAKIERAEAIPLLQEILDASDGI 242

Query: 238 MVARGDLGVELPPERVPGTQKRILRVCRQHGRPIVIATQMLESMITSPVPTRAEVSDVAA 297
           MVARGDL VE+    VPG QKR++++ R   +  + ATQM+ESMI + VPTRAEVSDVA 
Sbjct: 243 MVARGDLAVEVGNAAVPGLQKRMIKMARASNKLTITATQMMESMIVNAVPTRAEVSDVAN 302

Query: 298 AIYDGSDAVMLSAESANGSYPLQAVAMMDRVISEVER------DPLYRNMLDAQQETPQA 351
           A+ DG+DAVM SAE+A+G YP++ V  M  +  E ER      D  + N+   + +   A
Sbjct: 303 AVLDGTDAVMTSAETASGKYPVETVEAMHAICLEAERSENVQLDADFLNLRFTRVDQSIA 362

Query: 352 NSSDAICSALRDVTRIVGATATVTYTSSGHTSLRAARERPMAPILSITPKIATARKLALV 411
             +      LR         A    T SG T+L  +R     PI +ITP +AT RK AL 
Sbjct: 363 YGALFTAHHLR-------VKAIAALTESGSTALWMSRHNIDIPIFAITPNVATRRKAALF 415

Query: 412 WGVHSTISDQIHNESEMVSAACQTALKEGFAKKGDQIAITAGMP 455
             VH+    Q  +   M+  A    L +G  +KGD I +T G P
Sbjct: 416 RNVHTLELAQCPDTEAMLKGAQDLLLAQGVVQKGDLIVVTWGEP 459


  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    0.133    0.378 

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: 1,439,276
Number of extensions: 60116
Number of successful extensions: 218
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 1
Length of query: 472
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 383
Effective length of database: 1,198,455
Effective search space: 459008265
Effective search space used: 459008265
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)