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= 0029.0023.p
         (303 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311107|ref|YP_003775199.1| transmembrane NADH dehydrogenas...   513   e-146
gi|300311106|ref|YP_003775198.1| transmembrane NADH dehydrogenas...    73   3e-14
gi|300311108|ref|YP_003775200.1| NADH-ubiquinone oxidoreductase ...    68   1e-12

>gi|300311107|ref|YP_003775199.1| transmembrane NADH dehydrogenase I
           subunit M [Herbaspirillum seropedicae SmR1]
          Length = 496

 Score =  513 bits (1320), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 262/287 (91%), Positives = 275/287 (95%)

Query: 16  EQKLLFFAFLMAFAVKVPMWPVHTWLPDAHVEAPTGGSIVLAAIMLKLGAYGFLRFSLPI 75
           EQK+LFFAFL AFAVKVPMWPVHTWLPDAHV+APTGGSIVLAAIMLKLGAYGFLRFSLPI
Sbjct: 210 EQKILFFAFLAAFAVKVPMWPVHTWLPDAHVQAPTGGSIVLAAIMLKLGAYGFLRFSLPI 269

Query: 76  APDASHALSGFMITLSLVAVIYIGLVALVQQDMKKLVAYSSIAHMGFVTLGFFMFNDMAV 135
            PDASHALSGFMI LSLVAVIYIGLVALVQQDMKKLVAYSSIAHMGFVTLGFFMFNDMAV
Sbjct: 270 LPDASHALSGFMIFLSLVAVIYIGLVALVQQDMKKLVAYSSIAHMGFVTLGFFMFNDMAV 329

Query: 136 QGGIAQMISHGFVSGAMFMCIGVLYDRMHTREIAQYGGVVNKMPRFAAFFILFSLANCGL 195
           QGGI QMISHGFVSGAMFMCIGVLYD+MHTREI+QYGGVVNKMPRFA FFILFSLANCGL
Sbjct: 330 QGGIVQMISHGFVSGAMFMCIGVLYDQMHTREISQYGGVVNKMPRFAFFFILFSLANCGL 389

Query: 196 PATSGFVGEFMVILGAVKFNFWIGLLSATALILGAAYSLWLTKRVIFGAVTNHHVAELTD 255
           PATSGFVGEFMVILGAVKFNFWIGLL+ATALILGAAYSLWL KRVIFGAVTNHHVAEL D
Sbjct: 390 PATSGFVGEFMVILGAVKFNFWIGLLAATALILGAAYSLWLAKRVIFGAVTNHHVAELVD 449

Query: 256 VNKREFFILGLLAIAVLVMGLYPAPVTDTMQTSVSDLLKHVSVSKIS 302
           +N REF ILGLLAIA LVMG+YP  +TD++QTSV+DLLKHV+VSKI+
Sbjct: 450 LNGREFLILGLLAIATLVMGVYPGIITDSIQTSVTDLLKHVAVSKIN 496


>gi|300311106|ref|YP_003775198.1| transmembrane NADH dehydrogenase I
           subunit L [Herbaspirillum seropedicae SmR1]
          Length = 696

 Score = 72.8 bits (177), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 53/185 (28%), Positives = 98/185 (52%), Gaps = 8/185 (4%)

Query: 31  KVPMWPVHTWLPDAHVEAPTG-GSIVLAAIMLKLGAYGFLRFSLPIAPDASHALSGFMIT 89
           K   +P+H WLPD+ +E PT   +++ AA M+  G +   R S P+   +  ALS F++ 
Sbjct: 243 KSAQFPLHVWLPDS-MEGPTPISALIHAATMVTAGIFMVTRMS-PLFELSDTALS-FILV 299

Query: 90  LSLVAVIYIGLVALVQQDMKKLVAYSSIAHMGFVTLGFFMFNDMAVQGGIAQMISHGFVS 149
           +  +  +++G +  +Q D+K++VAYS+++ +G++T+        A    +  +++H F  
Sbjct: 300 IGAITALFMGFLGTMQNDIKRVVAYSTLSQLGYMTVA---LGASAYSVAVFHLMTHAFFK 356

Query: 150 GAMFMCIG-VLYDRMHTREIAQYGGVVNKMPRFAAFFILFSLANCGLPATSGFVGEFMVI 208
             +F+  G V+    H +++   GG+   MP      +L SLA  G P  SGF  +  +I
Sbjct: 357 ALLFLGAGSVIIGMHHDQDMRNMGGLRKYMPITWITSLLGSLALIGTPFFSGFYSKDSII 416

Query: 209 LGAVK 213
             A +
Sbjct: 417 EAAAE 421


>gi|300311108|ref|YP_003775200.1| NADH-ubiquinone oxidoreductase
           subunit N [Herbaspirillum seropedicae SmR1]
          Length = 502

 Score = 67.8 bits (164), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 68/285 (23%), Positives = 128/285 (44%), Gaps = 39/285 (13%)

Query: 28  FAVKVPMWPVHTWLPDAHVEAPTGGSIVLAA--------IMLKLGAYGFLRFSLPIAPDA 79
            A K+   P H W+PD +  +PT  +++L A        I  +L   G L    P+A D 
Sbjct: 221 LAFKLGAVPFHMWVPDVYQGSPTPVTLLLGAAPKLATFAITFRLLVEGML----PLAVDW 276

Query: 80  SHALSGFMITLSLVAVIYIGLVALVQQDMKKLVAYSSIAHMGFVTLGFFMFNDMAVQGGI 139
              L    + L+++++I   + A+ Q ++K+++AYS+I+HMGF+ LG        V G +
Sbjct: 277 QQML----MVLAVLSIILGNVTAIAQTNIKRMLAYSTISHMGFMLLGMM---SGVVDGNL 329

Query: 140 AQMISHGFVSGAMFMCIG------------VLYDR--MHTREIAQYGGVVNKMPRFAAFF 185
              ++    S ++F  +             +L  R       +  + G+  + P FAA  
Sbjct: 330 FSAVNA--YSSSLFYAVTYVITTLGSFGVIILLSRSGFEADTLDDFKGLNQRSPWFAAVM 387

Query: 186 ILFSLANCGLPATSGFVGEFMVILGAVKF-NFWIGLLSATALILGAAYSLWLTKRVIFGA 244
           ++   +  G+P   GF  +  V+  A+     W+ +L+    ++GA Y + + K + F  
Sbjct: 388 MIMMFSLAGIPPLVGFYAKLSVLQAAMATGQIWLPVLAVIFSLIGAFYYIRVVKVMYFDE 447

Query: 245 VTNHHVAELTDVNKREFFILGLLAIAVLVMGLYPAPVTDTMQTSV 289
             ++     T   +    +L L  IA L +GL+P  + D    ++
Sbjct: 448 PADNSKIVATPEMR---VVLSLNGIAALAIGLWPGHLMDACTNAI 489


  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
   0.329    0.141    0.426 

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: 905,547
Number of extensions: 36668
Number of successful extensions: 158
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 155
Number of HSP's successfully gapped: 3
Length of query: 303
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 218
Effective length of database: 1,217,395
Effective search space: 265392110
Effective search space used: 265392110
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 130 (54.7 bits)