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= 0235.0010.p
         (271 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei...    69   4e-13
gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protei...    67   1e-12
gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei...    63   3e-11

>gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein
           [Herbaspirillum seropedicae SmR1]
          Length = 406

 Score = 68.9 bits (167), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 58/214 (27%), Positives = 96/214 (44%), Gaps = 6/214 (2%)

Query: 31  YGITHSIHVACVCSILAKRLGWSKKNRETVINAALTMNLSIIGLQGELARSESAPTRQQR 90
           Y   HS+ V  +   LA +LG S + R+    A L  ++  + +   +    S  T ++ 
Sbjct: 164 YTYMHSVAVCAMMISLADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEF 223

Query: 91  QLIHVHPAESVRMLQDAGVTDEDWLQAVEQHHESPNGGGYPYG-TKHKLSELSQMIRFAD 149
             +  HP    R+LQ+     +  L     HHE  +G GYPY  +   +S  ++M    D
Sbjct: 224 VSVQSHPLAGHRLLQELPGIGDAPLDVSLHHHEKMDGTGYPYKLSGRDISMTARMGAICD 283

Query: 150 IFTAKYSARKNRAAMPSRQAAQSVYLASDGH---PIASALLKEFGIYPPGCFVLLKSGET 206
           ++ A  S R  ++     ++ Q +   S GH    +  A +K  GIYP G  VL+++G  
Sbjct: 284 VYDAITSDRPYKSGWDPSRSIQHMA-QSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHL 342

Query: 207 AVTI-RRGHTPTAPLVAVVRDKNGLPIKEPLLRD 239
           A+ + +R  +  APLV +    N      P L D
Sbjct: 343 AMVLEQRPDSLLAPLVRIFYSTNKKIAVTPTLID 376


>gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protein
           [Herbaspirillum seropedicae SmR1]
          Length = 408

 Score = 67.4 bits (163), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 61/212 (28%), Positives = 95/212 (44%), Gaps = 12/212 (5%)

Query: 17  IYSVIRHDQERFAAYGITHSIHVACVCSILAKRLGWSKKNRETVINAALTMNLSIIGLQG 76
           + S+IR   +R   Y   HSI V  +   LA+ LG      +    A    ++    +  
Sbjct: 140 LLSIIR--LKRVDEYTYLHSIAVCTLMVALARTLGMDDIACKEAGLAGYLHDVGKAFIPL 197

Query: 77  ELARSESAPTRQQRQLIHVHPAESVRMLQDAGVTDEDWLQAVEQHHESPNGGGYPYGTKH 136
           E+       + Q+ ++I  HPA     L+      +  L     HHE  +G GYP  ++H
Sbjct: 198 EILNKPDRLSEQEYKIIQRHPALGYDYLKGFSGVPDYVLDVCLHHHEKIDGSGYP--SRH 255

Query: 137 K---LSELSQMIRFADIFTAKYSARKNRAAMPSRQAAQSVYLASDGH---PIASALLKEF 190
           +   +S  S+M    D++ A  S R  ++     ++  S   +  GH   PI  A +K  
Sbjct: 256 QGNQISVYSRMAAVCDVYDAVTSERPYKSGWDPAESL-SRMASWQGHFDRPIFLAFVKAL 314

Query: 191 GIYPPGCFVLLKSGETAVTIRRGHTP-TAPLV 221
           GIYP G  V L+SG TA+ IR+ H   T P+V
Sbjct: 315 GIYPIGSIVKLQSGRTALVIRQNHVDLTKPVV 346


>gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein
           [Herbaspirillum seropedicae SmR1]
          Length = 401

 Score = 62.8 bits (151), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 81/183 (44%), Gaps = 3/183 (1%)

Query: 31  YGITHSIHVACVCSILAKRLGWSKKNRETVINAALTMNLSIIGLQGELARSESAPTRQQR 90
           Y   HS+ V  +   LA +LG + +  +    A L  ++  + +  ++    +  T ++ 
Sbjct: 161 YTYLHSVAVCAMMISLANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEF 220

Query: 91  QLIHVHPAESVRMLQDAGVTDEDWLQAVEQHHESPNGGGYPYGTK-HKLSELSQMIRFAD 149
             + +H  +   +LQ      E  L     HHE  +G GYP+  K   +S +++M    D
Sbjct: 221 ASVRMHTVQGHGILQQIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCD 280

Query: 150 IFTAKYSARKNRAAM-PSRQAAQSVYLASDGHPIA-SALLKEFGIYPPGCFVLLKSGETA 207
           ++ A  S R  +A   P+R        A    PI   A +K  GIYP G  V+L+SG   
Sbjct: 281 VYDAITSNRPYKAGWDPARSIRHMAASAGHFDPITMQAFVKAIGIYPTGSCVMLQSGRLG 340

Query: 208 VTI 210
           V +
Sbjct: 341 VVV 343


  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    0.131    0.381 

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: 840,286
Number of extensions: 33730
Number of successful extensions: 119
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 3
Length of query: 271
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 187
Effective length of database: 1,222,130
Effective search space: 228538310
Effective search space used: 228538310
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: 130 (54.7 bits)