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= 0225.0043.p
         (341 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309348|ref|YP_003773440.1| DNA polymerase III subunit beta...   658   0.0  

>gi|300309348|ref|YP_003773440.1| DNA polymerase III subunit beta
           [Herbaspirillum seropedicae SmR1]
          Length = 368

 Score =  658 bits (1697), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/341 (92%), Positives = 335/341 (98%)

Query: 1   LPILANILIRKDGEKVSFLSTDIEVQITTHAEVGSGSDVTATTVAARKLLDILRALPDSG 60
           LPILANILIRKDGEKVSFLSTDIEVQITTHA+VGSGS+ TATTVAARKLLDILRALPDSG
Sbjct: 28  LPILANILIRKDGEKVSFLSTDIEVQITTHADVGSGSEATATTVAARKLLDILRALPDSG 87

Query: 61  EVTVTLSNKRLTVQSGKSRFALQTLAAEEFPTVAQAEHYNAQVTLPQKTLKHLFNMVHFS 120
           EV+++LSNKRLTVQSGKSRFALQTLAAEEFPTVAQAEHYNAQV LPQKTLKHLFNMVHF+
Sbjct: 88  EVSISLSNKRLTVQSGKSRFALQTLAAEEFPTVAQAEHYNAQVNLPQKTLKHLFNMVHFA 147

Query: 121 MAQQDIRYYLNGLLLVVEGKNVIAVATDGHRLAFCQVATEQEFPRQEVIIPRKTIIELQR 180
           MAQQDIRYYLNGLLLVVEGKNVIAVATDGHRLAFCQV TE++FPRQEVIIPRKTIIELQR
Sbjct: 148 MAQQDIRYYLNGLLLVVEGKNVIAVATDGHRLAFCQVETEEDFPRQEVIIPRKTIIELQR 207

Query: 181 LLEENDDPVQLEIANNQVKLTFADIELISKLVEGKFPDYTRVVPKGYKNNFTIGREQLLR 240
           LL+++D+ VQL+IANNQVKLTFADIELISKLVEGKFPDYTRVVPKGYKN+FTI R+QLLR
Sbjct: 208 LLDDSDEEVQLQIANNQVKLTFADIELISKLVEGKFPDYTRVVPKGYKNSFTISRDQLLR 267

Query: 241 SLQRAAIMTSDKFKGVRWVIAPGSLKISSTNADQEEAVEELEIDYGGDSVDIGFNVTYLL 300
           SLQRAAIMTSDKFKGVRWVIAPGSLKISSTNADQEEAVEELEIDYGGD+VDIGFNV+YLL
Sbjct: 268 SLQRAAIMTSDKFKGVRWVIAPGSLKISSTNADQEEAVEELEIDYGGDTVDIGFNVSYLL 327

Query: 301 DVLNNLKGDFVNIALGDANSSALITIPDNADFKYVVMPMRI 341
           DVLNNLK D+VNIALGDANSSALITIPDNADFKYVVMPMRI
Sbjct: 328 DVLNNLKNDYVNIALGDANSSALITIPDNADFKYVVMPMRI 368


  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
   0.318    0.135    0.370 

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: 955,655
Number of extensions: 37041
Number of successful extensions: 112
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 1
Length of query: 341
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 255
Effective length of database: 1,212,660
Effective search space: 309228300
Effective search space used: 309228300
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 (21.7 bits)
S2: 131 (55.1 bits)