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= 0034.0011.p
         (91 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313916|ref|YP_003778008.1| two component response regulato...    68   1e-13
gi|300314016|ref|YP_003778108.1| two component transcription reg...    64   2e-12
gi|300313101|ref|YP_003777193.1| sigma54-dependent transcription...    64   3e-12
gi|300312179|ref|YP_003776271.1| nif-specific regulatory protein...    64   3e-12
gi|300311822|ref|YP_003775914.1| sigma-54 dependent transcriptio...    60   4e-11

>gi|300313916|ref|YP_003778008.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 448

 Score = 68.2 bits (165), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 48/75 (64%)

Query: 10  LFLDEIGELGLDEQAMLFKAIEEKRFLPIGADVEAESSCQLIAGTHRDLAREVAAGRFRE 69
           LFLDEIG++ L  QA + + ++E+   P+G +       ++IA THRDL  E+  GRFRE
Sbjct: 232 LFLDEIGDMELATQAKILRVLQERELTPVGGNQSVRVDVRVIAATHRDLQHEITQGRFRE 291

Query: 70  DLFARIKLWSPFIAS 84
           DL+ R+++ +  + +
Sbjct: 292 DLWYRLQVLTIMVPA 306


>gi|300314016|ref|YP_003778108.1| two component transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 466

 Score = 64.3 bits (155), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 31/79 (39%), Positives = 49/79 (62%)

Query: 1   LLRSAHKRLLFLDEIGELGLDEQAMLFKAIEEKRFLPIGADVEAESSCQLIAGTHRDLAR 60
           L ++AH   LFLDEIG++ L  Q  L + ++EK    +GA+   E   ++I+ THRDL  
Sbjct: 231 LFQAAHGGTLFLDEIGDMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEA 290

Query: 61  EVAAGRFREDLFARIKLWS 79
            +  G+FREDL+ R+ + +
Sbjct: 291 AMREGQFREDLYYRLNVVT 309


>gi|300313101|ref|YP_003777193.1| sigma54-dependent transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 437

 Score = 63.5 bits (153), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 41/66 (62%)

Query: 10  LFLDEIGELGLDEQAMLFKAIEEKRFLPIGADVEAESSCQLIAGTHRDLAREVAAGRFRE 69
           LFLDEIG++ L  Q  L + + E+  +P+GA        QLI  TH+DL   +A GRFRE
Sbjct: 191 LFLDEIGDMPLALQTRLLRVLSEREVIPLGARHPVPVDVQLICATHQDLKTLIAEGRFRE 250

Query: 70  DLFARI 75
           DL+ R+
Sbjct: 251 DLYYRV 256


>gi|300312179|ref|YP_003776271.1| nif-specific regulatory protein
           [Herbaspirillum seropedicae SmR1]
          Length = 542

 Score = 63.5 bits (153), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 46/78 (58%)

Query: 5   AHKRLLFLDEIGELGLDEQAMLFKAIEEKRFLPIGADVEAESSCQLIAGTHRDLAREVAA 64
           AH   LFLDEIGE+    QA L + ++E+ F  +G     +   +L+  T+RDL + VA 
Sbjct: 294 AHGGTLFLDEIGEISPAFQAKLLRVLQEREFERVGGSRSIKVDVRLVTATNRDLEKAVAK 353

Query: 65  GRFREDLFARIKLWSPFI 82
           G FR DL+ RI + S FI
Sbjct: 354 GEFRADLYYRINVVSIFI 371


>gi|300311822|ref|YP_003775914.1| sigma-54 dependent transcription
           regulator [Herbaspirillum seropedicae SmR1]
          Length = 526

 Score = 59.7 bits (143), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%)

Query: 10  LFLDEIGELGLDEQAMLFKAIEEKRFLPIGADVEAESSCQLIAGTHRDLAREVAAGRFRE 69
           LFLDE+GEL L  QA L + ++  +   +G+D E     +LIA T+RDLA EV  G FR 
Sbjct: 296 LFLDEVGELPLAVQAKLLRVLQSGQLQRVGSDREHRVDVRLIAATNRDLADEVKRGHFRA 355

Query: 70  DLFARIKLW 78
           D + R+ ++
Sbjct: 356 DFYHRLSVF 364


  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    0.139    0.402 

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: 266,245
Number of extensions: 9070
Number of successful extensions: 47
Number of sequences better than 1.0e-08: 10
Number of HSP's gapped: 47
Number of HSP's successfully gapped: 10
Length of query: 91
Length of database: 1,619,870
Length adjustment: 61
Effective length of query: 30
Effective length of database: 1,331,035
Effective search space: 39931050
Effective search space used: 39931050
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: 123 (52.0 bits)