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= 0215.0003.p
         (314 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313534|ref|YP_003777626.1| GntR family transcription regul...   184   7e-48
gi|300313540|ref|YP_003777632.1| transcription regulator protein...    68   8e-13
gi|300313824|ref|YP_003777916.1| GntR family transcription regul...    61   1e-10
gi|300311999|ref|YP_003776091.1| GntR family transcription regul...    60   2e-10

>gi|300313534|ref|YP_003777626.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 249

 Score =  184 bits (467), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 100/129 (77%), Positives = 111/129 (86%), Gaps = 3/129 (2%)

Query: 64  MSTD-AIKSSIQIANRIMEAILAKQLAPGTRLGEQQLSELFGVSRTLVREALTRLVTRGI 122
           MST+ ++KSS QIA RI EAILAKQLAPGTRLGEQQL++LF VSRT VREALT L+ RGI
Sbjct: 1   MSTNPSLKSSSQIAVRITEAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHLMARGI 60

Query: 123 VTVSARRGWFVIEPSPSDAREAFEARRVIELGLLRHA--RPITKTAIEQLRDHINREQAA 180
           VTVSARRGWFVIEP+P+ AREAFEARRVIELGLLR A  RP+  TAI QLR+HI RE+AA
Sbjct: 61  VTVSARRGWFVIEPTPAQAREAFEARRVIELGLLRQARLRPVGDTAIGQLREHIAREEAA 120

Query: 181 IEGDDVGAR 189
           I G DVGAR
Sbjct: 121 IAGADVGAR 129


>gi|300313540|ref|YP_003777632.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 245

 Score = 68.2 bits (165), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 32/90 (35%), Positives = 54/90 (60%)

Query: 67  DAIKSSIQIANRIMEAILAKQLAPGTRLGEQQLSELFGVSRTLVREALTRLVTRGIVTVS 126
           +A+    ++   I +AI+  +L P T+L EQ L +++  +R  VR+ L RL   G+V + 
Sbjct: 23  NAVAVEERMYQDIYDAIMEHRLPPRTKLTEQTLCQIYDTARHTVRKVLARLAAEGMVDLE 82

Query: 127 ARRGWFVIEPSPSDAREAFEARRVIELGLL 156
           A RG F+  PSP++ R+ FE R ++E  +L
Sbjct: 83  ANRGAFIASPSPAEVRDMFELRNILEHAVL 112


>gi|300313824|ref|YP_003777916.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 228

 Score = 60.8 bits (146), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 44/138 (31%), Positives = 69/138 (50%), Gaps = 3/138 (2%)

Query: 71  SSIQIANRIMEAILAKQLAPGTRLGEQQLSELFGVSRTLVREALTRLVTRGIVTVSARRG 130
           SS  IA+ I   I A++L PG +L E+ L+ ++ VSRT +R AL  L    +V +   +G
Sbjct: 10  SSDAIASDIAANIAAQRLPPGAKLPEEALARVYQVSRTKIRAALVMLAKDKLVDLIPDKG 69

Query: 131 WFVIEPSPSDAREAFEARRVIELGLLRH--ARPITKTAIEQLRDHINREQAAIEGDDVGA 188
            FV +P+  + R  F  RR +E  ++R   AR  T     +L  H+  E+ A+  D++  
Sbjct: 70  AFVSKPTVEETRNIFFVRRTLESAMVREFVARA-TPEDYARLEAHLELERQAVSDDNMQV 128

Query: 189 RXLPARRFPCGAVRMPGQ 206
           R      F     R+ G 
Sbjct: 129 RSTLLSDFHILLARIVGN 146


>gi|300311999|ref|YP_003776091.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 222

 Score = 60.1 bits (144), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/68 (48%), Positives = 40/68 (58%)

Query: 79  IMEAILAKQLAPGTRLGEQQLSELFGVSRTLVREALTRLVTRGIVTVSARRGWFVIEPSP 138
           I E I   +L+PG  L E  L+E FGVSRT +REAL +L + GIV +  RRG  V E  P
Sbjct: 15  IEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPRRGAIVAEIGP 74

Query: 139 SDAREAFE 146
               E FE
Sbjct: 75  QQLIEMFE 82


  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
   0.324    0.135    0.404 

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: 776,552
Number of extensions: 27842
Number of successful extensions: 118
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 120
Number of HSP's successfully gapped: 4
Length of query: 314
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 229
Effective length of database: 1,217,395
Effective search space: 278783455
Effective search space used: 278783455
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: 130 (54.7 bits)