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= 0028.0056.p
         (323 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311277|ref|YP_003775369.1| chemotaxis signal transduction ...   619   e-179
gi|300313025|ref|YP_003777117.1| chemotaxis signal transduction ...   388   e-109

>gi|300311277|ref|YP_003775369.1| chemotaxis signal transduction
           protein [Herbaspirillum seropedicae SmR1]
          Length = 324

 Score =  619 bits (1597), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 299/324 (92%), Positives = 316/324 (97%), Gaps = 1/324 (0%)

Query: 1   MDNFQKEIDERTNLTASNKFELLLFRLGADPHGERSELFGINVFKIR-LVPMPPVTKAAG 59
           MDNFQKEIDERTNLTASNKFELLLFRLG DPHGERSELFGINVFKIR +VPMPPVTKAAG
Sbjct: 1   MDNFQKEIDERTNLTASNKFELLLFRLGTDPHGERSELFGINVFKIREIVPMPPVTKAAG 60

Query: 60  THSPMLGMVNIRGQIISVIDLPAVVGCVPKTGLNILLVTEYARSTQAFAVESVDEIVRLE 119
           T SPMLGMVNIRGQIISVIDLPAVVGCVPKTGLNILLVTEYARSTQAFAVESVDEIVRLE
Sbjct: 61  TQSPMLGMVNIRGQIISVIDLPAVVGCVPKTGLNILLVTEYARSTQAFAVESVDEIVRLE 120

Query: 120 WSQVLSAETSSGGAFVTSIARLDQDKDTSRLAQVLDVEQILHEIMPSDRNMKMENLEKSA 179
           WSQVLSAETSSGGAFVTSIARLD DKDTSRLAQVLDVEQILHEIMP+DR++KME+LEKSA
Sbjct: 121 WSQVLSAETSSGGAFVTSIARLDADKDTSRLAQVLDVEQILHEIMPTDRDLKMESLEKSA 180

Query: 180 GHGMRPGAVAIAADDSKVARSLIEQGLRAMEIPFEMHVTGKDAWDKIQKLAKEARAEGKP 239
            HG+RPG VAIAADDSKVARSLIEQGLRAMEIP+EMHVTGK+AW+KIQKLA+EARAEG+P
Sbjct: 181 SHGIRPGTVAIAADDSKVARSLIEQGLRAMEIPYEMHVTGKEAWEKIQKLAREARAEGRP 240

Query: 240 ISDKISFVLTDLEMPEMDGFTLTRNIKREDFLKNIPVIIHSSLSGSANEDHVKSVGGDAY 299
           ISDKISFVLTDLEMPEMDGFTLTRNIKRED+LK+IPVIIHSSLSGSANEDHV+SVGGDAY
Sbjct: 241 ISDKISFVLTDLEMPEMDGFTLTRNIKREDYLKSIPVIIHSSLSGSANEDHVRSVGGDAY 300

Query: 300 VAKFEANELASTIFGVLDRAAAKA 323
           VAKFEANELA+TI+GVLD+A  KA
Sbjct: 301 VAKFEANELAATIYGVLDKAGVKA 324


>gi|300313025|ref|YP_003777117.1| chemotaxis signal transduction
           protein [Herbaspirillum seropedicae SmR1]
          Length = 320

 Score =  388 bits (997), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 198/320 (61%), Positives = 245/320 (76%), Gaps = 6/320 (1%)

Query: 1   MDNFQKEIDERTNLTASNKFELLLFRLGADPHG---ERSELFGINVFKIR-LVPMPPVTK 56
           MD+FQKEIDERTNLT++NKFELLLFRLG  P G   +  EL+GINVFKIR +VPM  +T 
Sbjct: 1   MDSFQKEIDERTNLTSTNKFELLLFRLGT-PDGSTDKPGELYGINVFKIREIVPMMDITA 59

Query: 57  AAGTHSPMLGMVNIRGQIISVIDLPAVVGCVPKTGLNILLVTEYARSTQAFAVESVDEIV 116
           AAG  SPM+GMVNIRGQ++SV+DLPAV GC    G NILL+TE+AR TQAFAVESV+EIV
Sbjct: 60  AAGMRSPMMGMVNIRGQVMSVVDLPAVAGCKAGHGNNILLITEFARHTQAFAVESVEEIV 119

Query: 117 RLEWSQVLSAETSSGGAFVTSIARLDQDKDTSRLAQVLDVEQILHEIMPSDRNMKMENLE 176
           RL+WSQVL A++ S G+ VTSIARLD + D  RL QVLDVE IL+ + P    M+     
Sbjct: 120 RLDWSQVLPADSHSPGSLVTSIARLDSEVDGGRLVQVLDVEHILNLVSPVKEQMQPAP-P 178

Query: 177 KSAGHGMRPGAVAIAADDSKVARSLIEQGLRAMEIPFEMHVTGKDAWDKIQKLAKEARAE 236
            +A   ++PGAV +AADDS++AR+LIEQ L+ + +PF M   G  AW K+Q+L++ A  E
Sbjct: 179 GAAELKLKPGAVVLAADDSRMARALIEQCLKDLNLPFIMETDGLQAWKKLQQLSQAAAQE 238

Query: 237 GKPISDKISFVLTDLEMPEMDGFTLTRNIKREDFLKNIPVIIHSSLSGSANEDHVKSVGG 296
           GKP++DK++ VLTDLEMPEMDGFTLTR IK  D  K +PV+IHSSL+GSANEDHV+SVG 
Sbjct: 239 GKPLTDKVAMVLTDLEMPEMDGFTLTRKIKASDQYKQLPVVIHSSLTGSANEDHVRSVGA 298

Query: 297 DAYVAKFEANELASTIFGVL 316
           + YVAKF   ELA+ +  VL
Sbjct: 299 NGYVAKFSPPELAAMLRQVL 318


  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    0.133    0.369 

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: 908,222
Number of extensions: 34742
Number of successful extensions: 161
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 2
Length of query: 323
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 238
Effective length of database: 1,217,395
Effective search space: 289740010
Effective search space used: 289740010
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: 131 (55.1 bits)