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= 0002.0678.p
         (325 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313569|ref|YP_003777661.1| NADH-ubiquinone oxidoreductase ...   403   e-113

>gi|300313569|ref|YP_003777661.1| NADH-ubiquinone oxidoreductase
           [Herbaspirillum seropedicae SmR1]
          Length = 322

 Score =  403 bits (1035), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 201/322 (62%), Positives = 241/322 (74%)

Query: 4   MAYRNILIIGGSGFIGSQLVAQLARSTAAGITVPTRRYERSKHLLVMPTVRTTIADVHDE 63
           MA++ IL+IGGSGFIG++LV  L  ST   + VPTRRYER+KHLLV P V    A++HD+
Sbjct: 1   MAFKKILVIGGSGFIGTRLVELLGSSTDYRVMVPTRRYERAKHLLVSPVVTVVQANIHDD 60

Query: 64  AVLDRLVPQADVVINLVGTLHSRSGPRGSAWGPDFERAHVELPRKIVAACARHGVRRYLH 123
           A L RLV +ADVVINLVG L SR    G+A+GPDFER HV LPR+IVAAC + GV+RYLH
Sbjct: 61  AALARLVAEADVVINLVGILQSRPARGGAAYGPDFERQHVLLPRRIVAACVQQGVKRYLH 120

Query: 124 MSALGASAQAPSMYLRSKAAGEVAAFSDATVAATVFRPSVVFGEHDNFLNLFAALQKRFP 183
           MSAL A A+ PSMYLRSKAAGE  A S  ++   +FRPSVVFGE DNFLN+FA L + FP
Sbjct: 121 MSALCADAKGPSMYLRSKAAGEQEALSAPSLDVAIFRPSVVFGEGDNFLNMFAGLNRMFP 180

Query: 184 VMPLGGAEARFQPVYVGDVAQAFVSALQNESTQGRSYELAGPQVYTLRQLVQLAGACSGH 243
           V+PLG  +ARFQPVYVGDVAQAFV+AL      G+ +EL GP+ YTLR+LV+L+G  SGH
Sbjct: 181 VIPLGSPDARFQPVYVGDVAQAFVNALALPRLGGKVFELGGPKQYTLRELVRLSGWYSGH 240

Query: 244 PRPVFGLPPALASLQAFLLEHLPGRMMSRDNLASMQVDNVASGPMAPELDIAPTALEAIA 303
           PRP+ GLP AL  LQAF LEHLPG++MSRDN+ASMQVDNV   P+A EL + P ++E + 
Sbjct: 241 PRPIVGLPDALGWLQAFALEHLPGKLMSRDNVASMQVDNVLHAPLAAELRLTPKSVEEVV 300

Query: 304 PRYLAGVHMQQQMDAHRRGARR 325
           P YL     QQQ D  R  ARR
Sbjct: 301 PGYLCPRSPQQQFDLFRSTARR 322


  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
   0.322    0.134    0.391 

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: 982,239
Number of extensions: 41002
Number of successful extensions: 119
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 1
Length of query: 325
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 240
Effective length of database: 1,217,395
Effective search space: 292174800
Effective search space used: 292174800
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 (22.0 bits)
S2: 131 (55.1 bits)