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= 0005.0127.p
         (123 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311213|ref|YP_003775305.1| nitrite reductase ferredoxin su...   199   4e-53
gi|300310339|ref|YP_003774431.1| Rieske (2Fe-2S) domain-containi...    64   5e-12

>gi|300311213|ref|YP_003775305.1| nitrite reductase ferredoxin
           subunit [Herbaspirillum seropedicae SmR1]
          Length = 124

 Score =  199 bits (507), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 92/119 (77%), Positives = 103/119 (86%)

Query: 5   AIQVCASAEIEEGGKGRRFAVSVHGDDATGFVVRYGGAVYGYLNRCAHVPIELDWAEGEF 64
           AI +CASAE+ EGG G+RF V V GD+A+GFVVRYGG VYGYLNRCAH+P+ELDWAEGEF
Sbjct: 6   AILICASAELVEGGLGKRFPVQVRGDEASGFVVRYGGVVYGYLNRCAHLPVELDWAEGEF 65

Query: 65  FESSGLYLMCATHGAVYAPDTGKCEGGPCTGARLRKIMVFEKDGAIFWAPDDYVRPALA 123
           FESSGLYLMCATHGAVYAPDTGKC GGPCTGA LRKIM  E++G +FW PDD V+P  A
Sbjct: 66  FESSGLYLMCATHGAVYAPDTGKCAGGPCTGAHLRKIMTVEREGQVFWRPDDVVKPVEA 124


>gi|300310339|ref|YP_003774431.1| Rieske (2Fe-2S) domain-containing
           protein [Herbaspirillum seropedicae SmR1]
          Length = 112

 Score = 63.5 bits (153), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 36/104 (34%), Positives = 53/104 (50%), Gaps = 3/104 (2%)

Query: 8   VCASAEIEEGGKGRRFAVSVHGDDATGFVVRYGGAVYGYLNRCAHVPIELDWAEGEFFES 67
           +C   ++ E G  R F     G  AT FV+R G  V  + + C H    L W    +F+ 
Sbjct: 3   LCHITQLPENG-ARGFDTESAGQ-ATIFVLRRGDQVRAWRDSCPHHGTPLPWRRDAYFDG 60

Query: 68  SGLYLMCATHGAVYAPDTGKCEGGPCTGARLRKI-MVFEKDGAI 110
           +G +L+CA HGA++ P TG C  GPC G  L  + +  + DG +
Sbjct: 61  TGQHLVCAAHGALFDPLTGVCTLGPCQGDTLTAVPLRIDDDGGL 104


  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    0.140    0.451 

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: 461,542
Number of extensions: 19411
Number of successful extensions: 32
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 32
Number of HSP's successfully gapped: 2
Length of query: 123
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 49
Effective length of database: 1,269,480
Effective search space: 62204520
Effective search space used: 62204520
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 (21.9 bits)
S2: 125 (52.8 bits)