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= 0249.0008.p
         (214 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase ...   229   1e-61
gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge...    83   2e-17
gi|300311101|ref|YP_003775193.1| NADH dehydrogenase I subunit G ...    55   4e-09

>gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase
           large subunit [Herbaspirillum seropedicae SmR1]
          Length = 922

 Score =  229 bits (585), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 116/170 (68%), Positives = 129/170 (75%), Gaps = 12/170 (7%)

Query: 1   VNLSQAPLS--TVGTKTTCPYCGVGCGVRPAATVAGXVRAAMQADGVIAVTGDELHPANK 58
           +NLSQ PL+     T TTCPYCGVGCGV           A+M+ DG I + GD  HPAN 
Sbjct: 1   MNLSQTPLALAVATTSTTCPYCGVGCGVS----------ASMKDDGRIGIQGDAQHPANF 50

Query: 59  GRLCVKGSALGETVDLDGRLLHPKVRDADGALQRVSWDAALDKVAGGLRDIIDRHGPDSV 118
           GRLCVKGSALGETVDLDGRLLHP++RDA G LQ+++WD ALD VA     II  HGPD+V
Sbjct: 51  GRLCVKGSALGETVDLDGRLLHPQLRDAQGQLQQLAWDQALDHVASKFSAIIAEHGPDAV 110

Query: 119 ALYVSGQLLTEDYYIANKLMKGYVGSANIDTNSRLCMSSAVAGQTXASAK 168
           ALYVSGQLLTEDYYIANKLMKGY+GSANIDTNSRLCMSSAVAG   A  +
Sbjct: 111 ALYVSGQLLTEDYYIANKLMKGYIGSANIDTNSRLCMSSAVAGHKRAFGE 160


>gi|300310808|ref|YP_003774900.1| NAD-dependent formate
           dehydrogenase subunit alpha [Herbaspirillum seropedicae
           SmR1]
          Length = 957

 Score = 83.2 bits (204), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 55/158 (34%), Positives = 81/158 (51%), Gaps = 16/158 (10%)

Query: 1   VNLSQAPLSTVGTKTTCPYCGVGCGVRPAATVAGXVRAAMQADGVIAVTGDELHPANKGR 60
           + L QA  S V   TTC YCGVGC            +A M+ + V+ +   +   AN+G 
Sbjct: 235 IMLGQAEHSKV---TTCAYCGVGC----------SFKAEMKGNEVVRMVPYKDGKANQGH 281

Query: 61  LCVKGS-ALGETVDLDGRLLHPKVRDA-DGALQRVSWDAALDKVAGGLRDIIDRHGPDSV 118
            CVKG  A G     D R+L+P +R + +   + VSW+ AL   A   R I  +HG DS+
Sbjct: 282 SCVKGRFAWGYATHKD-RILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGKDSI 340

Query: 119 ALYVSGQLLTEDYYIANKLMKGYVGSANIDTNSRLCMS 156
               S +   E+ Y+  KL++   G+ N+DT +R+C S
Sbjct: 341 GGITSSRCTNEETYLVQKLVRAAFGNNNVDTCARVCHS 378


>gi|300311101|ref|YP_003775193.1| NADH dehydrogenase I subunit G
           [Herbaspirillum seropedicae SmR1]
          Length = 772

 Score = 55.1 bits (131), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 40/127 (31%), Positives = 61/127 (48%), Gaps = 2/127 (1%)

Query: 26  VRPAATVAGXVRAAMQADGVIAVTGDELHPANKGRLCVKGSALGETVDLDGRLLHPKVRD 85
           V P  +V   +   ++   V+ V   E    N+  +  K     E +D + RL  P ++ 
Sbjct: 222 VSPHDSVGANLIVQVKNGKVMRVLPFENEEVNECWISDKDRFAYEALDSEQRLTKPMLKQ 281

Query: 86  ADGALQRVSWDAALDKVAGGLRDIIDRHGPDSVALYVSGQLLTEDYYIANKLMKGYVGSA 145
            DG  Q V W  AL+ VA GLR+I   HG D++A   +     E+  +  K+++G VGS 
Sbjct: 282 -DGKWQEVDWQTALEYVAHGLRNIRHEHGADAIAALGTPYSTLEELSLLQKIVRG-VGSE 339

Query: 146 NIDTNSR 152
           NID   R
Sbjct: 340 NIDFRLR 346


  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
   0.317    0.131    0.400 

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: 616,240
Number of extensions: 24186
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 93
Number of HSP's successfully gapped: 3
Length of query: 214
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 133
Effective length of database: 1,236,335
Effective search space: 164432555
Effective search space used: 164432555
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: 128 (53.9 bits)