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= 0052.0005.p
         (148 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312320|ref|YP_003776412.1| response regulator protein [Her...   176   1e-45
gi|300310698|ref|YP_003774790.1| AraC family two-component hybri...    56   1e-09
gi|300310565|ref|YP_003774657.1| response regulator containing a...    55   3e-09

>gi|300312320|ref|YP_003776412.1| response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 341

 Score =  176 bits (445), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 83/111 (74%), Positives = 101/111 (90%)

Query: 18  EDAVDIAEKTQPTVILQDLVMPGVDGLTLVKQYRSNPLTMDIPIIVLSSKEDALVKRDAF 77
           E+A+ +AE+T+PTVILQDLVMPGVDG+TLV+QYR++ + +++PIIVLSS++DA+VKRDAF
Sbjct: 56  EEALTVAERTRPTVILQDLVMPGVDGMTLVRQYRASAVLVNVPIIVLSSRDDAVVKRDAF 115

Query: 78  ATGVNDYMVKLPDTIELIARIRYHSRSYNNQVQRDAAYRALRESQQQLXKS 128
           A G NDYMVKLPD IEL+ARIRYHSRSY N +QRDAAY ALRESQQQL KS
Sbjct: 116 AGGANDYMVKLPDVIELVARIRYHSRSYINLLQRDAAYSALRESQQQLQKS 166


>gi|300310698|ref|YP_003774790.1| AraC family two-component hybrid
           sensor/regulator transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 262

 Score = 55.8 bits (133), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 49/95 (51%)

Query: 10  RLRRWMPPEDAVDIAEKTQPTVILQDLVMPGVDGLTLVKQYRSNPLTMDIPIIVLSSKED 69
           RL      +D    A+  +P +IL D+ MPG DGLT  +  ++N  T +IP+I LS+   
Sbjct: 42  RLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTSCRLLKANTSTRNIPVIFLSAATT 101

Query: 70  ALVKRDAFATGVNDYMVKLPDTIELIARIRYHSRS 104
              K    +TG  DY+ K  D  E+  R+  H RS
Sbjct: 102 TEEKVTGLSTGAVDYITKPFDFEEVRLRLCIHLRS 136


>gi|300310565|ref|YP_003774657.1| response regulator containing a
           CheY-like receiver domain and an HD-GYP domain
           [Herbaspirillum seropedicae SmR1]
          Length = 348

 Score = 54.7 bits (130), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 48/80 (60%)

Query: 20  AVDIAEKTQPTVILQDLVMPGVDGLTLVKQYRSNPLTMDIPIIVLSSKEDALVKRDAFAT 79
           A+D  ++  P +IL D +MPG+DGL  + ++R+ P     P+I++++     V+  A   
Sbjct: 40  ALDWCQEHAPDLILLDYMMPGMDGLDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQM 99

Query: 80  GVNDYMVKLPDTIELIARIR 99
             ND++ K  + +EL+AR++
Sbjct: 100 SANDFLSKPVNRVELLARVK 119


  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
   0.322    0.134    0.411 

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: 366,071
Number of extensions: 12320
Number of successful extensions: 115
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 138
Number of HSP's successfully gapped: 3
Length of query: 148
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 71
Effective length of database: 1,255,275
Effective search space: 89124525
Effective search space used: 89124525
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: 126 (53.1 bits)