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= 0024.0157.p
         (244 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313239|ref|YP_003777331.1| transcription regulator protein...   483   e-138
gi|300311600|ref|YP_003775692.1| transcription regulator protein...    78   7e-16
gi|300313290|ref|YP_003777382.1| IclR family transcription regul...    58   7e-10

>gi|300313239|ref|YP_003777331.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 244

 Score =  483 bits (1242), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 234/244 (95%), Positives = 242/244 (99%)

Query: 1   MNSLSRMLEVLTLFKPSQPVIDIDIICAQLGYTPASAYRYVRELGHAGLLVKMPRGYAVG 60
           MNSLSRMLEVLTLFKPSQPVIDI++ICAQLGYTPASAYRYVRELG+AGLLVKMPRGYAVG
Sbjct: 1   MNSLSRMLEVLTLFKPSQPVIDIELICAQLGYTPASAYRYVRELGNAGLLVKMPRGYAVG 60

Query: 61  PKVIELDRHMTQFDPLLAASRDIVGDLVAQTGLELLISELYGSTVINILQESGNNDARLN 120
           PKVIELDRHMTQFDPLL+ASRDIVGDLVAQTGLELLISELYGSTVI ILQESG+NDARLN
Sbjct: 61  PKVIELDRHMTQFDPLLSASRDIVGDLVAQTGLELLISELYGSTVITILQESGSNDARLN 120

Query: 121 YGRGTPMDLFHSATARVILAYLLPRQLRKHFDGATAEELRLVGSNWKDFSKVMLKIRKDG 180
           +GRGTPMDLFHSATARVILAYLLPRQLRKHFDGA+AEELRLVGSNW+DFSKVMLKIRKDG
Sbjct: 121 FGRGTPMDLFHSATARVILAYLLPRQLRKHFDGASAEELRLVGSNWRDFSKVMLKIRKDG 180

Query: 181 YCVSEGELDPGKTGIAAPIFDEKQRILGSITLAGNTERVNAFNREFLSGLITDAARKITA 240
           YCVSEGELD GKTGIAAPIFDEKQRILGSITLAGNTERVNAFNREFLSGLITDAARKITA
Sbjct: 181 YCVSEGELDAGKTGIAAPIFDEKQRILGSITLAGNTERVNAFNREFLSGLITDAARKITA 240

Query: 241 RIAG 244
           RIAG
Sbjct: 241 RIAG 244


>gi|300311600|ref|YP_003775692.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 292

 Score = 77.8 bits (190), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 64/243 (26%), Positives = 116/243 (47%), Gaps = 15/243 (6%)

Query: 6   RMLEVLTLFKPSQPVIDIDIICAQLGYTPASAYRYVRELGHAGLLVK-MPRG-YAVGPKV 63
           R+L VL     +   +    I A +    ++ YR++  L   GLL + M  G +  GP  
Sbjct: 59  RVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGPTG 118

Query: 64  IELDRHMTQFDPLLAASRDIVGDLVAQTGLELLISELYGSTVINILQESGNNDARLNYGR 123
           ++L     Q   L++ SR+ +  LV ++G  + +       ++ I  E  +   R ++ +
Sbjct: 119 VQLAWGFDQNSNLVSQSREEISSLVQRSGESVGLLVAINGQMVCIAMEESDQPLRCSFTK 178

Query: 124 GTPMDLFHSATARVILAYLLPRQLRKHFD----GATAEELRLVGSNWKDFSKVMLKIRKD 179
           G    L   A+A+ +LA++ PR+L++       G   EEL  + +  ++       IR+ 
Sbjct: 179 GRAHPLLKGASAKSLLAFM-PRKLQQKLLTDQLGDKPEELAALETQLEE-------IRRR 230

Query: 180 GYCVSEGELDPGKTGIAAPIFDEKQRILGSITLAGNTERVNAFNREFLSGLITDAARKIT 239
           GYC+SE E+D G  G++ PI     R+ G+ITL     RV    +E +  +  ++A++I 
Sbjct: 231 GYCISESEVDLGVWGVSVPIMTSNGRLEGTITLMAPALRVGNREQELVR-MTLESAQRIC 289

Query: 240 ARI 242
            R 
Sbjct: 290 NRF 292


>gi|300313290|ref|YP_003777382.1| IclR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 260

 Score = 58.2 bits (139), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 50/227 (22%), Positives = 98/227 (43%), Gaps = 3/227 (1%)

Query: 1   MNSLSRMLEVLTLFKPSQPVIDIDIICAQLGYTPASAYRYVRELGHAGLLVKMPRGYAVG 60
           M SL+R L V+  F  S+  + I  I  + G   A+  R +  L   G        +++ 
Sbjct: 16  MTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYADSDVNNFSLR 75

Query: 61  PKVIELDRHMTQFDPLLAASRDIVGDLVAQTGLELLISELYGSTVINILQESGNNDARLN 120
           PK++ L        PL  +++  + ++    G    ++ L    V+ + + + +    + 
Sbjct: 76  PKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMSVA 135

Query: 121 YGRGTPMDLFHSATARVILAYLLPRQLRKHFDGATAEEL--RLVGSNWKDFSKVMLKIRK 178
              G+ +  + ++  R +LA+L   QL+ +FD      L  + V S  K    ++  +R 
Sbjct: 136 LNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQ-KRLRDILAGVRA 194

Query: 179 DGYCVSEGELDPGKTGIAAPIFDEKQRILGSITLAGNTERVNAFNRE 225
           +GY V + EL+ G   IA P+      +L ++ +     RV+    E
Sbjct: 195 NGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQME 241


  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
   0.321    0.139    0.397 

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: 779,009
Number of extensions: 33731
Number of successful extensions: 98
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 4
Length of query: 244
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 161
Effective length of database: 1,226,865
Effective search space: 197525265
Effective search space used: 197525265
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 (21.8 bits)
S2: 129 (54.3 bits)