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= 0086.0028.p
         (182 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311469|ref|YP_003775561.1| oxidative stress resistance two...   105   2e-24
gi|300310849|ref|YP_003774941.1| two component transcription reg...    70   7e-14
gi|300313665|ref|YP_003777757.1| two component transcription reg...    69   2e-13
gi|300313896|ref|YP_003777988.1| two component transcription res...    57   8e-10
gi|300311799|ref|YP_003775891.1| two component heavy metal respo...    56   2e-09

>gi|300311469|ref|YP_003775561.1| oxidative stress resistance two
           component response regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 253

 Score =  105 bits (262), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 67/70 (95%), Positives = 69/70 (98%)

Query: 106 AHQSKILVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGE 165
           A+Q K+LVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGE
Sbjct: 15  ANQFKVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGE 74

Query: 166 DGLAICRRLR 175
           DGLAICRRLR
Sbjct: 75  DGLAICRRLR 84


>gi|300310849|ref|YP_003774941.1| two component transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 248

 Score = 70.5 bits (171), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 35/67 (52%), Positives = 42/67 (62%)

Query: 109 SKILVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGEDGL 168
           + ILVVDDD  +R LL  YL   G   +TA N   M ++    R DL+VLDL LPGEDGL
Sbjct: 8   THILVVDDDRDIRTLLAEYLDSNGLRTLTATNGSEMRRVLEESRVDLIVLDLTLPGEDGL 67

Query: 169 AICRRLR 175
            +CR LR
Sbjct: 68  TLCRNLR 74


>gi|300313665|ref|YP_003777757.1| two component transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 240

 Score = 68.9 bits (167), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 45/75 (60%)

Query: 106 AHQSKILVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGE 165
             Q  +L+VDDD  +R LL  YL    +   TA   Q M ++   ER D+++LDLM+PGE
Sbjct: 2   GKQDHVLIVDDDPDIRHLLADYLEAASYRPFTAAGGQEMWRILGSERIDIIILDLMMPGE 61

Query: 166 DGLAICRRLRXPVNS 180
           DGL +CR LR   N+
Sbjct: 62  DGLELCRELRKKRNT 76


>gi|300313896|ref|YP_003777988.1| two component transcription
           response regulator protein [Herbaspirillum seropedicae
           SmR1]
          Length = 244

 Score = 57.0 bits (136), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 30/82 (36%), Positives = 46/82 (56%)

Query: 94  MNTTNTSTTATPAHQSKILVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERY 153
           M+   T     P   + IL+V+D+ +L +LL++YL   G++        A       +R 
Sbjct: 1   MSDPTTEFQFAPPASADILIVEDEPKLAELLQKYLALAGYSARHVARGDAALDAVRAQRP 60

Query: 154 DLLVLDLMLPGEDGLAICRRLR 175
           DL++LD+MLPG DG  ICR+LR
Sbjct: 61  DLILLDIMLPGMDGWEICRQLR 82


>gi|300311799|ref|YP_003775891.1| two component heavy metal response
           transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 230

 Score = 55.8 bits (133), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 42/66 (63%)

Query: 110 KILVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGEDGLA 169
           KIL+V+D+ ++ + L + LTEQG  V  A N      L I   YD++VLD+MLPG DG +
Sbjct: 2   KILIVEDEQKMSEYLCKGLTEQGCAVDLAANGVDGQHLAIEHDYDVIVLDVMLPGLDGFS 61

Query: 170 ICRRLR 175
           + R LR
Sbjct: 62  VLRALR 67


  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
   0.325    0.135    0.419 

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: 434,753
Number of extensions: 12547
Number of successful extensions: 125
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 140
Number of HSP's successfully gapped: 5
Length of query: 182
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 102
Effective length of database: 1,241,070
Effective search space: 126589140
Effective search space used: 126589140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 127 (53.5 bits)