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= 0015.0093.p
         (252 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...   133   2e-32
gi|300311600|ref|YP_003775692.1| transcription regulator protein...    82   3e-17
gi|300310493|ref|YP_003774585.1| transcription regulator protein...    59   4e-10

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

 Score =  133 bits (334), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 81/216 (37%), Positives = 125/216 (57%), Gaps = 5/216 (2%)

Query: 1   MGATDRSLSLLRLFTLEQPSWTAEQVSSKLQVSISTAYRYLLALEEIGLIAAVTTGRYVL 60
           M +  R L +L LF   QP    E + ++L  + ++AYRY+  L   GL+  +  G Y +
Sbjct: 1   MNSLSRMLEVLTLFKPSQPVIDIELICAQLGYTPASAYRYVRELGNAGLLVKMPRG-YAV 59

Query: 61  GPAIIQLDRQIQLTDPLLTAARPIMNDLVAYAPKGSVVLLCRSFSDKVLCIHQVVGDSSP 120
           GP +I+LDR +   DPLL+A+R I+ DLVA    G  +L+   +   V+ I Q  G S+ 
Sbjct: 60  GPKVIELDRHMTQFDPLLSASRDIVGDLVAQT--GLELLISELYGSTVITILQESG-SND 116

Query: 121 PEVSYDRGRPMPLFRGATSKVILAGLPARKLKSLYADNTPAISQAGLGESWDAFKSKMSS 180
             +++ RG PM LF  AT++VILA L  R+L+  + D   A     +G +W  F   M  
Sbjct: 117 ARLNFGRGTPMDLFHSATARVILAYLLPRQLRKHF-DGASAEELRLVGSNWRDFSKVMLK 175

Query: 181 LRKMGHDVTHGELDAGRIGISVPVLNEERQATGSIS 216
           +RK G+ V+ GELDAG+ GI+ P+ +E+++  GSI+
Sbjct: 176 IRKDGYCVSEGELDAGKTGIAAPIFDEKQRILGSIT 211


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

 Score = 82.4 bits (202), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 55/201 (27%), Positives = 108/201 (53%), Gaps = 15/201 (7%)

Query: 22  TAEQVSSKLQVSISTAYRYLLALEEIGLIAA-VTTGRYVLGPAIIQLDRQIQLTDPLLTA 80
           +A+Q+++ +Q  +ST YR+L +L++ GL+   + +G +  GP  +QL         L++ 
Sbjct: 75  SAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGPTGVQLAWGFDQNSNLVSQ 134

Query: 81  ARPIMNDLVAYAPKGSVVLLCRSFSDKVLCIHQVVGDSSPPEVSYDRGRPMPLFRGATSK 140
           +R  ++ LV  +  G  V L  + + +++CI     D  P   S+ +GR  PL +GA++K
Sbjct: 135 SREEISSLVQRS--GESVGLLVAINGQMVCIAMEESDQ-PLRCSFTKGRAHPLLKGASAK 191

Query: 141 VILAGLPARKLKSLYADNTPAISQAGLG---ESWDAFKSKMSSLRKMGHDVTHGELDAGR 197
            +LA +P +  + L  D         LG   E   A ++++  +R+ G+ ++  E+D G 
Sbjct: 192 SLLAFMPRKLQQKLLTDQ--------LGDKPEELAALETQLEEIRRRGYCISESEVDLGV 243

Query: 198 IGISVPVLNEERQATGSISYV 218
            G+SVP++    +  G+I+ +
Sbjct: 244 WGVSVPIMTSNGRLEGTITLM 264


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

 Score = 58.5 bits (140), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 48/215 (22%), Positives = 95/215 (44%), Gaps = 4/215 (1%)

Query: 5   DRSLSLLRLFTLEQPSWTAEQVSSKLQVSISTAYRYLLALEEIGLIAAV-TTGRYVLGPA 63
           ++ L++LR F  +  + T   V+S   +S S+A R +  LE +G I     T RY L P 
Sbjct: 18  EKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLTPK 77

Query: 64  IIQLDRQIQLTDPLLTAARPIMNDLVAYAPKGSVVLLCRSFSDKVLCIHQVVGDSSPPEV 123
           ++++       D L+  A P +++L      G  V L   +  +++ + + V     P +
Sbjct: 78  VMEVGYNYLAADILVDVANPFLSELANIT--GETVNLTEPYDGEMVYVARFVASKFIP-I 134

Query: 124 SYDRGRPMPLFRGATSKVILAGLPARKLKSLYADNTPAISQAGLGESWDAFKSKMSSLRK 183
               G  +P++  A+ +  L+ L   + +++   +   +         +     +++ R+
Sbjct: 135 HMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAASRE 194

Query: 184 MGHDVTHGELDAGRIGISVPVLNEERQATGSISYV 218
            G      EL  G + I+ PV N ER+   S+  V
Sbjct: 195 RGFASNREELFLGDMSIASPVFNSERKPVASVHVV 229


  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
   0.317    0.134    0.375 

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: 712,261
Number of extensions: 28237
Number of successful extensions: 106
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 4
Length of query: 252
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 169
Effective length of database: 1,226,865
Effective search space: 207340185
Effective search space used: 207340185
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: 129 (54.3 bits)