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= 0007.0088.p
         (255 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312843|ref|YP_003776935.1| response regulator containing a...    68   7e-13
gi|300310865|ref|YP_003774957.1| response regulator containing a...    62   5e-11

>gi|300312843|ref|YP_003776935.1| response regulator containing a
           CheY-like receiver and a GGDEF domains protein
           [Herbaspirillum seropedicae SmR1]
          Length = 525

 Score = 68.2 bits (165), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 58/184 (31%), Positives = 93/184 (50%), Gaps = 15/184 (8%)

Query: 33  SLSSREAAIKSGETATLNLATGLATQVNLSFRAADLLIQEIAGLEGSRSLSPAELQGLVQ 92
           S+++R   +++  + + N+A  LA       +A D L+ +++    S  ++ A L  L+ 
Sbjct: 39  SMTARGVQLENNRSYSGNVAKALARHAYDVLQATDGLLLDMSDRIDSVGIAHARLVDLMP 98

Query: 93  DLLTRQSQLFPELDSLLVIDEQGHTRQRWPAHAEPAGLSGMEPAMAMARGE---RRAEDK 149
            +L R S   P+LD L V DE G  ++   + A P     + PA    R      R  D 
Sbjct: 99  -MLRRLSSEMPQLDGLYVFDEHG--KRLLTSSAPP-----LAPANNSDRDYFIWHRDHDD 150

Query: 150 SGGLQIGTPVISSVTGRWIIPVTRQRLRQ--GKPAGVIRVGVSLDHFMRLFNELNIGKQG 207
            G   +G  ++S  TGRWIIP++R RL    G  AGV+   + ++HF +L+  + IGK G
Sbjct: 151 VGP-HVGKALLSRSTGRWIIPMSR-RLNHPDGSFAGVLLATLDINHFNQLYRTVEIGKGG 208

Query: 208 SIWL 211
           SI L
Sbjct: 209 SIAL 212


>gi|300310865|ref|YP_003774957.1| response regulator containing a
           CheY-like receiver domain and a GGDEF domain
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 554

 Score = 62.0 bits (149), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 53/187 (28%), Positives = 83/187 (44%), Gaps = 19/187 (10%)

Query: 36  SREAAIKSGETATLNLATGLATQVNLSFRAADLLIQEI-AGLEGSRSLSPAELQGLVQDL 94
           +RE A+    T   N+A  L      S + AD++++ +   L+     + A ++    D 
Sbjct: 48  AREVALSESTTDASNVALALIQHAEQSIKEADIVLETVQEHLDHEDRSASARIR--THDF 105

Query: 95  LTRQSQLFPELDSLLVIDEQGHT----RQRWPAHAEPAGLSGMEPAMAMARGERRAEDKS 150
           + R     P+L  L V+DEQG T    +QR      P     ++         RR++   
Sbjct: 106 MIRSVASLPQLAQLTVVDEQGRTVASSQQRMVQTGSP-----VQDDYFQYHQHRRSDRPF 160

Query: 151 GGLQIGTPVISSVTGRWIIPVTRQRLRQ--GKPAGVIRVGVSLDHFMRLFNELNIGKQGS 208
               IG P+ S VTG+  + V+R R+    G  AGVI   + L +F R + + NIG  G 
Sbjct: 161 ----IGQPMRSHVTGQRTLTVSR-RINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGV 215

Query: 209 IWLGGGG 215
           I  G  G
Sbjct: 216 ILFGLTG 222


  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    0.389 

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: 661,901
Number of extensions: 23545
Number of successful extensions: 94
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 2
Length of query: 255
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 172
Effective length of database: 1,226,865
Effective search space: 211020780
Effective search space used: 211020780
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: 129 (54.3 bits)