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= 0341.0009.p
         (584 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

STM0735 [C] COG0479 Succinate dehydrogenase/fumarate reductase, ...    74   1e-12

>STM0735 [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe-S
           protein subunit
          Length = 346

 Score = 73.6 bits (179), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 14/281 (4%), Positives = 40/281 (14%), Gaps = 49/281 (17%)

Query: 71  EITVSDDKLQAFLTLNRVEQYKWNLVNSPASSHLAVRAEMDSSALLSTLGIEQIIADLEK 130
                     + L L                      A+  +    +       +     
Sbjct: 4   HRIPHSSLEVSTLGLGT-----------MTFGEQNSEADAHAQLDYAV-AQGINL----I 47

Query: 131 KTISQNLNIPAIYAELNHPTHLPICVAEGRPPAAGEDAKLDLF----FSGLAGNPFNPLE 186
                    P             +         A   ++  L      SG + N    + 
Sbjct: 48  DVAEMYPVPPRPE-------TQGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIR 100

Query: 187 EAADSPDPLRIPCARKGDVIARKHLPRDGVPGYDVYGSILPAAPPR------DIKVVAKE 240
                   L      +  +       +                                 
Sbjct: 101 ----PDQALDR-KNIREALHDSLKRLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAV 155

Query: 241 GTLLLPSHEITALTEGRPRVTGTKVKTFDITTAYTVPGCVNRHTGNIVFSGDVIVHQDVE 300
             L             R         + +                ++    D+     ++
Sbjct: 156 SLLDTLDALAEYQ---RAGKIRYIGVSNETAF-------GVMRYLHLADKHDLPRIVTIQ 205

Query: 301 DNSIIESLGNVYVCGNVQNST-ITATGSIYILGNVGNSQLY 340
           +   + +         V     +       +       +  
Sbjct: 206 NPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFGTLTGKYL 246


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.316    0.135    0.391 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 42,529,692
Number of extensions: 1878135
Number of successful extensions: 3105
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3104
Number of HSP's successfully gapped: 1
Length of query: 584
Length of database: 38,378,431
Length adjustment: 112
Effective length of query: 472
Effective length of database: 25,461,023
Effective search space: 12017602856
Effective search space used: 12017602856
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: 119 (50.4 bits)