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= 0013.0082.p
         (291 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313290|ref|YP_003777382.1| IclR family transcription regul...    79   3e-16
gi|300313063|ref|YP_003777155.1| transcription regulator protein...    66   4e-12
gi|300310493|ref|YP_003774585.1| transcription regulator protein...    63   3e-11

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

 Score = 79.3 bits (194), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 64/242 (26%), Positives = 111/242 (45%), Gaps = 12/242 (4%)

Query: 40  IIAPIERGLAILSVFGPADQWLGNQEISAKTGIPKATVTRLTQTLTDQGFLNHSTRLRKY 99
            +  + RGLA++  F  + + L   +IS KTGIP+A V R   TL   G+ +  + +  +
Sbjct: 15  FMTSLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYAD--SDVNNF 72

Query: 100 GLAAAVLGLGYVTMDNSHTAALARSHMQKLADDCGVFVSLVGRDGLDVSLLENCHSTSSL 159
            L   +L LGY  + ++     A+ ++  ++   G   SL   D  +V L     + S +
Sbjct: 73  SLRPKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEV-LYVARSAASRV 131

Query: 160 ATLGVNVGARFPIAANPFGLALLSGLPLAERNYLLDHIRLRYQQEYRVNLRSRVADAVAQ 219
            ++ +N G+R P      G A+L+ LP  +     D ++LR   E  V  + R+ D +A 
Sbjct: 132 MSVALNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAG 191

Query: 220 VSQKGYCVSICELGSEITVAAAPLNIPDRPP-----MAIGCAGPARLITREKLREEIGPR 274
           V   GY V    +  E+ V    + +P R        A+     A  ++  ++ EEI P 
Sbjct: 192 VRANGYAV----IDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPV 247

Query: 275 LV 276
           L+
Sbjct: 248 LL 249


>gi|300313063|ref|YP_003777155.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 273

 Score = 65.9 bits (159), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 53/216 (24%), Positives = 97/216 (44%), Gaps = 3/216 (1%)

Query: 29  SPRDVPINANDIIAPIERGLAILSVFGPADQWLGNQEISAKTGIPKATVTRLTQTLTDQG 88
            P +  ++  D IA +E+GL IL  F   +Q + + +++A+TG+ +    R   TL   G
Sbjct: 18  EPTEGGLSRRDWIAGLEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYLLTLEHLG 77

Query: 89  FLNHSTRLRKYGLAAAVLGLGYVTMDNSHTAALARSHMQKLADDCGVFVSLVGRDGLDVS 148
           +L+     + + L   VL +G+   D++    + +  +Q++    G  V     DG D+ 
Sbjct: 78  YLHSEG--KTFALTPRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLV 135

Query: 149 LLENCHSTSSLATLGVNVGARFPIAANPFGLALLSGLPLAERNYLLDHIRLRYQQEYRVN 208
            +    +T  + T G  +GAR P      G+ +LS LP  +    L    +     + + 
Sbjct: 136 FIARNGATRVMTT-GFVLGARVPAQLASPGIVMLSALPEQQVRDWLATCAMTPFTPHTIT 194

Query: 209 LRSRVADAVAQVSQKGYCVSICELGSEITVAAAPLN 244
              ++   +AQ  Q GY V   +L + +   A PL 
Sbjct: 195 DPDQLYALIAQARQLGYAVVEQQLQTGVRGIAVPLK 230


>gi|300310493|ref|YP_003774585.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 263

 Score = 63.2 bits (152), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 54/237 (22%), Positives = 110/237 (46%), Gaps = 6/237 (2%)

Query: 44  IERGLAILSVFGPADQWLGNQEISAKTGIPKATVTRLTQTLTDQGFLNHSTRLRKYGLAA 103
           +E+GLA+L  F    + +   ++++ TGI K++  R+  TL   G++    + R+Y L  
Sbjct: 17  LEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLTP 76

Query: 104 AVLGLGYVTMDNSHTAALARSHMQKLADDCGVFVSLVG-RDGLDVSLLENCHSTSSLATL 162
            V+ +GY  +       +A   + +LA+  G  V+L    DG  V +       S    +
Sbjct: 77  KVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFV--ASKFIPI 134

Query: 163 GVNVGARFPIAANPFGLALLSGLPLAERNYLLDHI-RLRYQQEYRVNLRSRVADAVAQVS 221
            + +G+R P+     G A LS L   E   +L+   R  +    R ++   +   +A   
Sbjct: 135 HMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVED-IMQLLAASR 193

Query: 222 QKGYCVSICELG-SEITVAAAPLNIPDRPPMAIGCAGPARLITREKLREEIGPRLVE 277
           ++G+  +  EL   ++++A+   N   +P  ++    P    + E+  +++GP ++E
Sbjct: 194 ERGFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEAEKKLGPLVLE 250


  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
   0.319    0.136    0.400 

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: 928,218
Number of extensions: 38985
Number of successful extensions: 124
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 4
Length of query: 291
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 207
Effective length of database: 1,222,130
Effective search space: 252980910
Effective search space used: 252980910
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: 130 (54.7 bits)