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= 0001.2000.p
         (334 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311462|ref|YP_003775554.1| uracil-DNA glycosylase [Herbasp...   515   e-147

>gi|300311462|ref|YP_003775554.1| uracil-DNA glycosylase
           [Herbaspirillum seropedicae SmR1]
          Length = 340

 Score =  515 bits (1327), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 267/347 (76%), Positives = 288/347 (82%), Gaps = 20/347 (5%)

Query: 1   MSEELKQDPGFGSSLALLDALGIGPVWVRRELAVEEAQALAPQASPPAAPAPDVEVVQAK 60
           MSE++ Q+ GFGSSLALLDALGIGPVWVRRELAVEE Q    QA  PA+  P    V+A 
Sbjct: 1   MSEQMNQENGFGSSLALLDALGIGPVWVRRELAVEEVQE---QAQQPASATPIAAPVEA- 56

Query: 61  VVDPVALAEDVPVKPAVNAQPAAKPSAVPARP-------------RAPIDEAHAGGPPSW 107
            V  V      PV+PA    P A+  AV A P              AP+ E   GGPP+W
Sbjct: 57  -VGAVEQPSRAPVEPAREPTPVAERPAVQAPPAGAPKAPAAPVPRSAPVQEE--GGPPAW 113

Query: 108 LDEMDFAASMEPMLIPDGEDDEDAPAIDPLIARIKTMDWPQLKQQVADCRRCGLCQGRKN 167
           LDEMDFAAS+EP+LIP+GEDDE  PA+DP+IARIK MDWPQLK+QVADCRRCGLCQGRK 
Sbjct: 114 LDEMDFAASLEPVLIPEGEDDEPMPAVDPVIARIKQMDWPQLKEQVADCRRCGLCQGRKK 173

Query: 168 TVFGVGDEKAKWLFIGEGPGRNEDQQGEPFVGPAGKLLDNMLLSMGVKRGENAYIANIVK 227
           TVFGVGDEKAKWLFIGEGPGRNED QGEPFVGPAGKLLDNML+SMGVKRG+NAYIANIVK
Sbjct: 174 TVFGVGDEKAKWLFIGEGPGRNEDIQGEPFVGPAGKLLDNMLVSMGVKRGDNAYIANIVK 233

Query: 228 CRPTDDNGRDRPPSPQEVASCLPYLQRQIELIQPTVLVALGKTAAISLLGMDPTTPVSRL 287
           CRPTD+NGRDRPPSPQEVASCLPYLQRQIELIQPTVLVALGKTAAISLLG+DPTTPV+RL
Sbjct: 234 CRPTDENGRDRPPSPQEVASCLPYLQRQIELIQPTVLVALGKTAAISLLGLDPTTPVARL 293

Query: 288 RGTVHRYQELPLVVTYHPAYLLRTLNDKSKAWADLCLAMSTYQAQAR 334
           RGTVHRYQELPLVVTYHPAYLLR+L DKSK WADLCLAMSTYQAQAR
Sbjct: 294 RGTVHRYQELPLVVTYHPAYLLRSLQDKSKTWADLCLAMSTYQAQAR 340


  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
   0.316    0.134    0.408 

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: 1,109,240
Number of extensions: 47632
Number of successful extensions: 307
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 1
Length of query: 334
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 248
Effective length of database: 1,212,660
Effective search space: 300739680
Effective search space used: 300739680
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 (21.6 bits)
S2: 131 (55.1 bits)