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= 0011.0038.p
         (90 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance ...    79   9e-17
gi|300311799|ref|YP_003775891.1| two component heavy metal respo...    74   2e-15
gi|300310849|ref|YP_003774941.1| two component transcription reg...    72   1e-14
gi|300309361|ref|YP_003773453.1| response regulator for cobalt/z...    72   1e-14
gi|300312680|ref|YP_003776772.1| two component response regulato...    60   3e-11

>gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance two
           component response regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 223

 Score = 78.6 bits (192), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 36/90 (40%), Positives = 58/90 (64%)

Query: 1   MDIMKHKVYRDGKAIALQPREFHLLEYLMRHANKVVTRTMLLENVWDYDFDPQTNVVDVH 60
           +D ++HKV R G  IAL  +EF LL  L++   + ++R+++   +WD +FD  TNVVDV 
Sbjct: 133 LDHVRHKVTRQGVNIALTNKEFMLLHLLIKRQGEALSRSVIASQIWDMNFDSDTNVVDVA 192

Query: 61  ISKLRQKLDIESLSPMLKTIRNAGYMLTDE 90
           I +LR K+D      ++ T+R+ GYM ++E
Sbjct: 193 IKRLRAKIDAPFDKKLIHTVRSVGYMFSEE 222


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

 Score = 73.9 bits (180), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 34/87 (39%), Positives = 53/87 (60%)

Query: 1   MDIMKHKVYRDGKAIALQPREFHLLEYLMRHANKVVTRTMLLENVWDYDFDPQTNVVDVH 60
           +D++  K +R G  I L  +EF LL  + R   +++++T + E VWD +FD  TNVV+V 
Sbjct: 133 IDLLSRKAFRGGLRIDLTAKEFALLAVMARRQGEILSKTAIAELVWDMNFDSNTNVVEVA 192

Query: 61  ISKLRQKLDIESLSPMLKTIRNAGYML 87
           I +LR K+D      +L T+R  GY+L
Sbjct: 193 IKRLRAKIDAPFEQKLLHTVRGMGYVL 219


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

 Score = 71.6 bits (174), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/84 (44%), Positives = 53/84 (63%), Gaps = 1/84 (1%)

Query: 5   KHKVYRDGKAIALQPREFHLLEYLMRHANKVVTRTMLLENVWDYDFDPQTNVVDVHISKL 64
           +H V RDG  +AL   EF LL+  + H N+V+ R  LLE     + DP    VD+ IS+L
Sbjct: 152 RHLVNRDGVVVALSGAEFRLLKVFLDHPNRVLNRDQLLELTQGRESDPFDRSVDIQISRL 211

Query: 65  RQKLDIESLSP-MLKTIRNAGYML 87
           RQKL  ++ +P ++KT+RN GY+L
Sbjct: 212 RQKLGDDARTPTIIKTVRNEGYVL 235


>gi|300309361|ref|YP_003773453.1| response regulator for
           cobalt/zinc/cadmium resistance transcription regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 235

 Score = 71.6 bits (174), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 52/87 (59%)

Query: 1   MDIMKHKVYRDGKAIALQPREFHLLEYLMRHANKVVTRTMLLENVWDYDFDPQTNVVDVH 60
           +D+++ KV R G+ I L  +EF LL  L+R   +V++R  +   VWD +FD  TNVVDV 
Sbjct: 133 LDVLRRKVTRAGQRIDLTAKEFALLHMLIRRPGEVLSRPQIASQVWDMNFDSDTNVVDVA 192

Query: 61  ISKLRQKLDIESLSPMLKTIRNAGYML 87
           + +LR KLD      +L T+   GY+ 
Sbjct: 193 VRRLRAKLDEGFEKKLLHTVWGMGYVF 219


>gi|300312680|ref|YP_003776772.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 220

 Score = 60.5 bits (145), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 52/77 (67%), Gaps = 2/77 (2%)

Query: 11  DGKAIALQPREFHLLEYLMRHANKVVTRTMLLENVWDYDFDPQTNVVDVHISKLRQKLDI 70
           DG+ I L  RE+ +LEYLM+HA++VV++  +++ V  +  D   N V+V++S++R K+  
Sbjct: 141 DGRKIELSLREWTVLEYLMQHASRVVSKQQIIDAVLPWGEDFTINAVEVYVSRIRLKIAD 200

Query: 71  ESLSPMLKTIRNAGYML 87
             ++  ++TIR  GYML
Sbjct: 201 SGVA--IRTIRGFGYML 215


  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
   0.323    0.137    0.398 

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: 251,380
Number of extensions: 7901
Number of successful extensions: 49
Number of sequences better than 1.0e-08: 9
Number of HSP's gapped: 46
Number of HSP's successfully gapped: 9
Length of query: 90
Length of database: 1,619,870
Length adjustment: 60
Effective length of query: 30
Effective length of database: 1,335,770
Effective search space: 40073100
Effective search space used: 40073100
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 (22.0 bits)
S2: 123 (52.0 bits)