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= 0011.0066.p
         (282 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309881|ref|YP_003773973.1| transcription regulator protein...   543   e-156
gi|300309880|ref|YP_003773972.1| IclR family transcription regul...   132   2e-32
gi|300311600|ref|YP_003775692.1| transcription regulator protein...    59   3e-10

>gi|300309881|ref|YP_003773973.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 282

 Score =  543 bits (1399), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 282/282 (100%), Positives = 282/282 (100%)

Query: 1   MKHLPPDDAPADSDARGQRGIQSLDNTGQLLDALLAAGRPLALGDLARLAGMPAAKAFPH 60
           MKHLPPDDAPADSDARGQRGIQSLDNTGQLLDALLAAGRPLALGDLARLAGMPAAKAFPH
Sbjct: 1   MKHLPPDDAPADSDARGQRGIQSLDNTGQLLDALLAAGRPLALGDLARLAGMPAAKAFPH 60

Query: 61  LVSLQKIGLLMRDAQGNFLPGALGLELGLAALQRLSPLREAEAEVAALAQETGLSVALAV 120
           LVSLQKIGLLMRDAQGNFLPGALGLELGLAALQRLSPLREAEAEVAALAQETGLSVALAV
Sbjct: 61  LVSLQKIGLLMRDAQGNFLPGALGLELGLAALQRLSPLREAEAEVAALAQETGLSVALAV 120

Query: 121 AGPLGPTVVRLEESSRPQHVSLRIGTVLSMVHTAIGRVCAACAPADGLPGALALDGIRME 180
           AGPLGPTVVRLEESSRPQHVSLRIGTVLSMVHTAIGRVCAACAPADGLPGALALDGIRME
Sbjct: 121 AGPLGPTVVRLEESSRPQHVSLRIGTVLSMVHTAIGRVCAACAPADGLPGALALDGIRME 180

Query: 181 GAALESVCHADGSLHAAYAAQLAKIRAQGMDQALGHPVPGINTLAAPVFNHAGQLALVMA 240
           GAALESVCHADGSLHAAYAAQLAKIRAQGMDQALGHPVPGINTLAAPVFNHAGQLALVMA
Sbjct: 181 GAALESVCHADGSLHAAYAAQLAKIRAQGMDQALGHPVPGINTLAAPVFNHAGQLALVMA 240

Query: 241 VMGSSGSYDTALQGAVAQRLRSAAQAVSWRLGAALDAQAPLA 282
           VMGSSGSYDTALQGAVAQRLRSAAQAVSWRLGAALDAQAPLA
Sbjct: 241 VMGSSGSYDTALQGAVAQRLRSAAQAVSWRLGAALDAQAPLA 282


>gi|300309880|ref|YP_003773972.1| IclR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 257

 Score =  132 bits (333), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 93/259 (35%), Positives = 149/259 (57%), Gaps = 12/259 (4%)

Query: 15  ARGQRGIQSLDNTGQLLDALLAAGRPLALGDLARLAGMPAAKAFPHLVSLQKIGLLMRD- 73
           A+ QRGIQS++  G+LL AL AA +P+ L  LA  AG+ +A+A  +LVSL ++GL+ R  
Sbjct: 6   AKTQRGIQSVEVAGRLLQALAAARQPMPLVALAAAAGLTSAQAHTYLVSLLRLGLIKRTP 65

Query: 74  AQGNFLPGALGLELGLAALQRLSPLREAEAEVAALAQETGLSVALAVAGPLGPTVVRLEE 133
           A+G++  G L L LG+A L +    R A A+   L+  TG SVA+++  P GPT+V    
Sbjct: 66  AEGHYEAGPLALRLGVARLSQQPAYRLAIAQAQHLSAATGCSVAVSLPTPEGPTIVHYAH 125

Query: 134 SSRPQHVSLRIGTVLSMVHTAIGRVCAACAPADGLPGALALDGIRMEGAALESVCHADGS 193
           + +  H++L +G+V+++  TA GR C A  P      A          A +         
Sbjct: 126 AGKSLHLNLHVGSVMALADTATGRTCCAFQPPQQWLPAWERQHPEASRARIRQ------- 178

Query: 194 LHAAYAAQLAKIRAQGMDQALGHPVPGINTLAAPVFNHAGQLALVMAVMGSSGSYDTALQ 253
               + A+L  IR +G+++A+  P PG+++L  P+ +    L+L++ V+G SGS DT  +
Sbjct: 179 ----FQAELEAIRQRGLERAIDAPSPGVSSLCMPLLDQDQVLSLLLTVIGPSGSIDTGWR 234

Query: 254 GAVAQRLRSAAQAVSWRLG 272
           GAVA+ LR+   ++S +L 
Sbjct: 235 GAVARELRACIASISSQLN 253


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

 Score = 59.3 bits (142), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 57/220 (25%), Positives = 96/220 (43%), Gaps = 13/220 (5%)

Query: 24  LDNTGQLLDALLAAGRPLALGDLARLAGMPAAKAFPHLVSLQKIGLLMRDAQ-GNFLPGA 82
           +D    +L  +  AG+P++   +A +   P +  + HL SL+K GLL      G F PG 
Sbjct: 57  VDRVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGP 116

Query: 83  LGLELGLAALQRLSPLREAEAEVAALAQETGLSVALAVAGPLGPTVVRLEESSRPQHVSL 142
            G++L     Q  + + ++  E+++L Q +G SV L VA       + +EES +P   S 
Sbjct: 117 TGVQLAWGFDQNSNLVSQSREEISSLVQRSGESVGLLVAINGQMVCIAMEESDQPLRCSF 176

Query: 143 RIGTVLSMVHTAIGRVCAACAPADGLPGALALDGIRMEGAALESVCHADGSLHAAYAAQL 202
             G    ++  A  +   A  P   L   L  D +   G   E +        AA   QL
Sbjct: 177 TKGRAHPLLKGASAKSLLAFMPRK-LQQKLLTDQL---GDKPEEL--------AALETQL 224

Query: 203 AKIRAQGMDQALGHPVPGINTLAAPVFNHAGQLALVMAVM 242
            +IR +G   +      G+  ++ P+    G+L   + +M
Sbjct: 225 EEIRRRGYCISESEVDLGVWGVSVPIMTSNGRLEGTITLM 264


  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    0.133    0.379 

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: 627,164
Number of extensions: 19448
Number of successful extensions: 132
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 3
Length of query: 282
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 198
Effective length of database: 1,222,130
Effective search space: 241981740
Effective search space used: 241981740
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)