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= 0012.0087.p
         (188 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312793|ref|YP_003776885.1| TetR family transcription regul...   359   e-101
gi|300312791|ref|YP_003776883.1| transcription regulator protein...    94   8e-21

>gi|300312793|ref|YP_003776885.1| TetR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 188

 Score =  359 bits (921), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 182/188 (96%), Positives = 184/188 (97%)

Query: 1   MRADAKKNYDHLLNVARTVFMEQGSDASLRDIARRAEVGLGTLYRHFPTREALLEALLRS 60
           MRADAKKNYDHLLNVARTVFMEQGSDASLRDIARRAEVGLGTLYRHFPTREALLEALLRS
Sbjct: 1   MRADAKKNYDHLLNVARTVFMEQGSDASLRDIARRAEVGLGTLYRHFPTREALLEALLRS 60

Query: 61  SFEALAKRADALQAADDSAAALMEWLQEIIAFTHEHRGVIAPMVSAIEDHESALHASCVS 120
           SFEALA+RAD LQAADDSAAALMEWLQEIIAFTHEHRGVIAPMVS IEDHESALHASCVS
Sbjct: 61  SFEALAERADELQAADDSAAALMEWLQEIIAFTHEHRGVIAPMVSVIEDHESALHASCVS 120

Query: 121 LRAAGAALLSRAQADGKARADLDGAELFDLIAALAWLREQPSHASRADRIFSIISGAVLN 180
           LRAAGAALLSRAQADGKARADLDGAELFDLIAALAWLREQPSHASRADRIF IISGAVLN
Sbjct: 121 LRAAGAALLSRAQADGKARADLDGAELFDLIAALAWLREQPSHASRADRIFGIISGAVLN 180

Query: 181 PGKAIARR 188
            GK+IARR
Sbjct: 181 TGKSIARR 188


>gi|300312791|ref|YP_003776883.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 190

 Score = 93.6 bits (231), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 64/166 (38%), Positives = 96/166 (57%), Gaps = 12/166 (7%)

Query: 1   MRADAKKNYDHLLNVARTVFMEQGSDASLRDIARRAEVGLGTLYRHFPTREALLEAL--- 57
           +RADA +N + +L  A  VF+E+G+DASL DIA+RA+VG+GTLYR FPTREALL A    
Sbjct: 13  LRADAARNRERILAAAEEVFLERGADASLDDIAKRAKVGIGTLYRRFPTREALLAATNDE 72

Query: 58  -LRSSFEALAKRADALQAADDSAAALMEWLQEIIAFTHEHRGVIAPMVSAIEDHESALHA 116
            L +  EA  +R D L    D  A++  ++++++A    +RG+ A + + ++       A
Sbjct: 73  RLMALTEASRRRDDKL----DPDASVRAFIKDLVAHACHYRGLAAALGTVLKSGTPGCRA 128

Query: 117 SCVSLRAAGAALLSRAQADGKARADLDGAELFDLIAALAWLREQPS 162
           S    R     LL RAQ  G  R D+   +L  ++ A++   EQ S
Sbjct: 129 SGEEAR----RLLLRAQKAGAIRKDVSVDDLVCMVTAISLSIEQGS 170


  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
   0.321    0.131    0.367 

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: 474,588
Number of extensions: 13953
Number of successful extensions: 70
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 73
Number of HSP's successfully gapped: 2
Length of query: 188
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 108
Effective length of database: 1,241,070
Effective search space: 134035560
Effective search space used: 134035560
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: 128 (53.9 bits)