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= 0015.0023.p
         (342 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311912|ref|YP_003776004.1| DNA polymerase III subunit delt...   506   e-144

>gi|300311912|ref|YP_003776004.1| DNA polymerase III subunit delta
           [Herbaspirillum seropedicae SmR1]
          Length = 345

 Score =  506 bits (1303), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 251/340 (73%), Positives = 285/340 (83%), Gaps = 1/340 (0%)

Query: 2   SNTVFPWLEDSWLQLQQLRARLPHAILFYGPEGIGKTDFVESFAQSLLCEDVQPDGHACG 61
           S+ + PW  +SW QLQQLR RLPHA+LFYG  G GKT FVE+FA+SLLCE   P+ HACG
Sbjct: 6   SDVLLPWQGESWRQLQQLRERLPHALLFYGAAGTGKTQFVEAFAKSLLCESPTPEAHACG 65

Query: 62  ACASCGWFSQYNHPDYRRVRPEILDGEDGGDDGDGEEKKTAKASKTPSKEIKIDQIRALA 121
            CASC WFSQ NHPDYRRVRPE+LD E   DD  GEEKKTAKASK PSK+IKIDQIRALA
Sbjct: 66  VCASCNWFSQSNHPDYRRVRPEVLDDETA-DDEAGEEKKTAKASKAPSKDIKIDQIRALA 124

Query: 122 DFMNVSTHRSGMRVVVLYPAEALNTPAANSLLKTLEEPPPNTMFLLVSNRLDRLLPTILS 181
           DFMNVSTHRSG+RVV+LYPAEALNT AAN+LLKTLEEPPP TMFLL+SNRLDRLLPTILS
Sbjct: 125 DFMNVSTHRSGLRVVMLYPAEALNTAAANALLKTLEEPPPGTMFLLLSNRLDRLLPTILS 184

Query: 182 RCRKFALALPSHDDGLAWLKQQNVKDADVWLSEQGGAPLAALNASQGDGREVMDEFLRSL 241
           RCRKFAL+ P H + LAWLKQQ VKDAD WL+EQGGAPLAAL A+QG+GRE +DE LR L
Sbjct: 185 RCRKFALSAPGHGEALAWLKQQGVKDADAWLAEQGGAPLAALEAAQGEGREALDELLRHL 244

Query: 242 CHPGIDVALKTAERLQKTPVADLVGWQQRWLYDLFALKSGGPIRYYPRYSKELGALSGRI 301
             PG+D AL+ A++LQKTP ADLVGW QRWLYDL +LKS G +RYYPRY KELG L+ R+
Sbjct: 245 AQPGVDGALRAADKLQKTPAADLVGWVQRWLYDLLSLKSAGVVRYYPRYGKELGRLAERV 304

Query: 302 DTVTIATALKAANDRRAIADHPLSARLFIEEMLIEYSSLF 341
           D + ++ AL+   DRRAIADHPLSA+LFIEEMLI+Y+ LF
Sbjct: 305 DALALSRALRGMGDRRAIADHPLSAKLFIEEMLIDYAGLF 344


  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    0.414 

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: 1,060,907
Number of extensions: 41681
Number of successful extensions: 162
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 161
Number of HSP's successfully gapped: 1
Length of query: 342
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 256
Effective length of database: 1,212,660
Effective search space: 310440960
Effective search space used: 310440960
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: 131 (55.1 bits)