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= 0001.0026.p
         (204 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311774|ref|YP_003775866.1| two component sensor histidine ...   230   8e-62
gi|300311272|ref|YP_003775364.1| two component sensor histidine ...    57   1e-09
gi|300313027|ref|YP_003777119.1| two component transmembrane sen...    55   3e-09

>gi|300311774|ref|YP_003775866.1| two component sensor histidine
           kinase [Herbaspirillum seropedicae SmR1]
          Length = 460

 Score =  230 bits (586), Expect = 8e-62,   Method: Compositional matrix adjust.
 Identities = 116/178 (65%), Positives = 135/178 (75%), Gaps = 4/178 (2%)

Query: 16  RLVACKTIVSGILLSAGEARGESSVKTTLNTFLGDIAEEFRTTRPIVAFDYRNLIEHDMP 75
           +L  CK+IVSG+LLSAG+ARGESS+KTTLNTFL  +AE++R +RP+  FDY+NLI  D+P
Sbjct: 272 QLQRCKSIVSGVLLSAGQARGESSIKTTLNTFLDSVAEDWRKSRPVAVFDYQNLIGQDLP 331

Query: 76  VAFDSALKQMICNVLDNALEASPRWLSFTAAREENQLKLTVDDTGPGFVPSMLDQIGKPY 135
           VAFDSA+KQM+ NVLDNA E SP WLS    RE   L + V D GPGF   M++QIGKPY
Sbjct: 332 VAFDSAIKQMLGNVLDNAFEVSPHWLSLEVRREGGLLLMEVSDQGPGFPEWMINQIGKPY 391

Query: 136 QSTKAKTGGGLGLFFVVNVARKLGGAVTAHNRSENGHVAGATVCLTLPLSAISLEAES 193
           QSTK K G GLGLFFVVNVARKLGG V A N       AGA V L LPLSAISLEA++
Sbjct: 392 QSTKGKPGRGLGLFFVVNVARKLGGRVWASNLPG----AGARVTLELPLSAISLEADA 445


>gi|300311272|ref|YP_003775364.1| two component sensor histidine
           kinase [Herbaspirillum seropedicae SmR1]
          Length = 401

 Score = 56.6 bits (135), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 57/179 (31%), Positives = 84/179 (46%), Gaps = 21/179 (11%)

Query: 16  RLVACKTIVSGILLSAGE---ARGESSVKTTLNTFLGDIAEEFRTTRPIVAFDYRNLIEH 72
           RL++   ++S  L+SAG+    R +  ++  L   L   A   R   P+    Y    EH
Sbjct: 224 RLISDLYLLS--LVSAGQLALVRSQFQLRPLLEERLAWAAPSLRLL-PMSTALY--CCEH 278

Query: 73  DMPVAFD-SALKQMICNVLDNALE--ASPRWLSFTAAREENQLKLTVDDTGPGFVPSML- 128
            +P+  D   L Q I  ++DNAL   AS + L+ +A   + Q+ + V+D GPGF P  L 
Sbjct: 279 -LPLNADRDRLGQAISILIDNALRYAASGKLLTISAGLHDGQIHIDVEDDGPGFAPEHLE 337

Query: 129 ---DQIGKPYQSTKAKTGG-GLGLFFVVNVARKLGGAVTAHNRSENGHVAGATVCLTLP 183
              D+  +   S     GG GLGL   V +    GG ++ HNR       GA + L LP
Sbjct: 338 LACDRFWRAEHSRSRHAGGSGLGLAVAVAICEAHGGKLSVHNRP----AGGARMHLELP 392


>gi|300313027|ref|YP_003777119.1| two component transmembrane sensor
           histidine kinase [Herbaspirillum seropedicae SmR1]
          Length = 454

 Score = 55.5 bits (132), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 40/120 (33%), Positives = 66/120 (55%), Gaps = 7/120 (5%)

Query: 80  SALKQMICNVLDNALEA-SPR-WLSFTAAREENQLKLTVDDTGPGFVPSMLDQIGKPYQS 137
           S L Q+  N+L NA +A S R  ++   AR  +++ +++ DTG G  P  L++I +P+ +
Sbjct: 332 SELNQVFMNLLVNAAQAISERGTVTICTARAGDKVSVSISDTGHGIAPENLNRIFEPFFT 391

Query: 138 TK-AKTGGGLGLFFVVNVARKLGGAVTAHNRSENGHVAGATVCLTLPLSAISLEAESAAT 196
           TK   +G GLGL     + +K GG +    R  +    G T  + LP+   S+ A+S+AT
Sbjct: 392 TKPVGSGTGLGLSLSYGIVKKHGGDI----RVSSAPGCGTTFTIELPIDPASVLAQSSAT 447


  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
   0.318    0.133    0.385 

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: 528,488
Number of extensions: 17575
Number of successful extensions: 101
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 3
Length of query: 204
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 123
Effective length of database: 1,236,335
Effective search space: 152069205
Effective search space used: 152069205
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: 128 (53.9 bits)