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= 0001.1812.p
         (324 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 ...   623   e-180
gi|300313025|ref|YP_003777117.1| chemotaxis signal transduction ...   397   e-112

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

 Score =  623 bits (1606), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 303/324 (93%), Positives = 314/324 (96%)

Query: 1   MDSFQKEIDERTNLTASNKFELLLFRLGADPHGERSELFGINVFKIREIVPMPPVTKAAG 60
           MD+FQKEIDERTNLTASNKFELLLFRLG DPHGERSELFGINVFKIREIVPMPPVTKAAG
Sbjct: 1   MDNFQKEIDERTNLTASNKFELLLFRLGTDPHGERSELFGINVFKIREIVPMPPVTKAAG 60

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

Query: 121 WSQVLSAETSSGGAFVTSIARLDHDKDTSRLAQVLDVEQILHEIMPSDRNMKMENLEKSA 180
           WSQVLSAETSSGGAFVTSIARLD DKDTSRLAQVLDVEQILHEIMP+DR++KME+LEKSA
Sbjct: 121 WSQVLSAETSSGGAFVTSIARLDADKDTSRLAQVLDVEQILHEIMPTDRDLKMESLEKSA 180

Query: 181 GHGMRPGAVAIAADDSKVARSLIEQGLRAMEIPFEMHVTGKEAWEKIQKLAAEARAEGKP 240
            HG+RPG VAIAADDSKVARSLIEQGLRAMEIP+EMHVTGKEAWEKIQKLA EARAEG+P
Sbjct: 181 SHGIRPGTVAIAADDSKVARSLIEQGLRAMEIPYEMHVTGKEAWEKIQKLAREARAEGRP 240

Query: 241 ISEKISFVLTDLEMPEMDGFTLTRNIKREDFLKNIPVIIHSSLSGSANEDHVRGVGGDAY 300
           IS+KISFVLTDLEMPEMDGFTLTRNIKRED+LK+IPVIIHSSLSGSANEDHVR VGGDAY
Sbjct: 241 ISDKISFVLTDLEMPEMDGFTLTRNIKREDYLKSIPVIIHSSLSGSANEDHVRSVGGDAY 300

Query: 301 VAKFEANELAATIYGVLDKNMAKA 324
           VAKFEANELAATIYGVLDK   KA
Sbjct: 301 VAKFEANELAATIYGVLDKAGVKA 324


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

 Score =  397 bits (1021), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 201/320 (62%), Positives = 246/320 (76%), Gaps = 5/320 (1%)

Query: 1   MDSFQKEIDERTNLTASNKFELLLFRLGADPHG---ERSELFGINVFKIREIVPMPPVTK 57
           MDSFQKEIDERTNLT++NKFELLLFRLG  P G   +  EL+GINVFKIREIVPM  +T 
Sbjct: 1   MDSFQKEIDERTNLTSTNKFELLLFRLGT-PDGSTDKPGELYGINVFKIREIVPMMDITA 59

Query: 58  AAGTHSPMLGMVNIRGQIISVIDLPAVVGCVPKTGLNILLVTEYARSTQAFAVESVDEIV 117
           AAG  SPM+GMVNIRGQ++SV+DLPAV GC    G NILL+TE+AR TQAFAVESV+EIV
Sbjct: 60  AAGMRSPMMGMVNIRGQVMSVVDLPAVAGCKAGHGNNILLITEFARHTQAFAVESVEEIV 119

Query: 118 RLEWSQVLSAETSSGGAFVTSIARLDHDKDTSRLAQVLDVEQILHEIMPSDRNMKMENLE 177
           RL+WSQVL A++ S G+ VTSIARLD + D  RL QVLDVE IL+ + P    M+     
Sbjct: 120 RLDWSQVLPADSHSPGSLVTSIARLDSEVDGGRLVQVLDVEHILNLVSPVKEQMQ-PAPP 178

Query: 178 KSAGHGMRPGAVAIAADDSKVARSLIEQGLRAMEIPFEMHVTGKEAWEKIQKLAAEARAE 237
            +A   ++PGAV +AADDS++AR+LIEQ L+ + +PF M   G +AW+K+Q+L+  A  E
Sbjct: 179 GAAELKLKPGAVVLAADDSRMARALIEQCLKDLNLPFIMETDGLQAWKKLQQLSQAAAQE 238

Query: 238 GKPISEKISFVLTDLEMPEMDGFTLTRNIKREDFLKNIPVIIHSSLSGSANEDHVRGVGG 297
           GKP+++K++ VLTDLEMPEMDGFTLTR IK  D  K +PV+IHSSL+GSANEDHVR VG 
Sbjct: 239 GKPLTDKVAMVLTDLEMPEMDGFTLTRKIKASDQYKQLPVVIHSSLTGSANEDHVRSVGA 298

Query: 298 DAYVAKFEANELAATIYGVL 317
           + YVAKF   ELAA +  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: 923,025
Number of extensions: 35395
Number of successful extensions: 165
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 168
Number of HSP's successfully gapped: 2
Length of query: 324
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 239
Effective length of database: 1,217,395
Effective search space: 290957405
Effective search space used: 290957405
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: 131 (55.1 bits)