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= 0045.0019.p
         (204 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312817|ref|YP_003776909.1| transcription regulator protein...    75   3e-15
gi|300311738|ref|YP_003775830.1| RpiR family transcription regul...    66   2e-12
gi|300312806|ref|YP_003776898.1| transcription regulator protein...    58   5e-10

>gi|300312817|ref|YP_003776909.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 293

 Score = 75.5 bits (184), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 86/168 (51%), Gaps = 4/168 (2%)

Query: 16  SADTLAAIVRAVKLLSSSRTIYCLGLRSSFPVAFQFSHVSEYFAKNITLIDGAGESGMMK 75
           SAD +    RA   L  +  ++  G R++F ++F   ++   F  +++L+ G+  S  ++
Sbjct: 127 SADRMLGAARA---LLKAHHVHIAGFRAAFSISFLLHYLYRLFRTSVSLVRGSEGSIELE 183

Query: 76  IMHQAGPKDALFVCCIAPYSRRAISIAGHLAKAGVKLIAITDSDSSPIARMATETILVGK 135
           +   A   DA+ V   APYS  A+ +A    +AG KLIA+TDS  +PIA  A   IL   
Sbjct: 184 LRAIAA-HDAVIVVSFAPYSTEAVRVAEAAKQAGAKLIALTDSAVAPIALKADHCILFSH 242

Query: 136 QNASFFDTLVPAFLVSEILVALMAATSKVDVKASVSETEKNLWSMGEW 183
           ++ SFF ++  A  ++E L+ L+ +         +   E +L S G +
Sbjct: 243 ESPSFFPSMAAATAIAESLIELVISIDDEHAVRRLELAESDLHSTGAY 290


>gi|300311738|ref|YP_003775830.1| RpiR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 281

 Score = 65.9 bits (159), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/146 (32%), Positives = 76/146 (52%), Gaps = 9/146 (6%)

Query: 26  AVKLLSSSRTIYCLGLRSSFPVAFQFSHVSEYFAKNITLIDGAGESGMMKIMHQAGPK-D 84
           AVKLL  +  IY +G+R SFP+A   ++  ++  K + LI GAG  GM +   ++  K D
Sbjct: 128 AVKLLLKAENIYVIGVRRSFPIANHLAYALQHTNKRVHLISGAG--GMFREEVRSIDKHD 185

Query: 85  ALFVCCIAPYSRRA---ISIAGHLAKAGVKLIAITDSDSSPIARMATETILVGKQNASFF 141
            L      PY +     + +A H      + + ITDS  SP+AR A+  + V + +A  F
Sbjct: 186 VLIAISFTPYGQETQACVRLAHH---RQARTLVITDSQLSPLARHASVLLKVKESSAFSF 242

Query: 142 DTLVPAFLVSEILVALMAATSKVDVK 167
            +L  A  +S+ L   +A   ++DV+
Sbjct: 243 RSLTNAMCLSQALFIALAYRMELDVE 268


>gi|300312806|ref|YP_003776898.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 319

 Score = 58.2 bits (139), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 41/135 (30%), Positives = 71/135 (52%), Gaps = 3/135 (2%)

Query: 26  AVKLLSSSRTIYCLGLRSSFPVAFQFSHVSEYFAKNITLIDGAGESGMMKIMHQAGPKDA 85
           AVKLL+ +R +   G+R    +A    +        ++L+D  G+ G+ + + Q    D 
Sbjct: 161 AVKLLARARHVRIYGVRQMHSLASFLCYGLGMIRSEVSLLDAPGQ-GIAEGLAQLQRGDV 219

Query: 86  LFVCCIAPYSRRAISIAGHLAKAGVKLIAITDSDSSPIARMATETILVGKQNASFFDTLV 145
           L V  ++PY+R    +A   + AG+ +IA+TD+ +SP+   A     V    +SFF   +
Sbjct: 220 LVVASVSPYTRIVAEVAQAASNAGLNVIALTDNRASPLVSSAKYAFFV-PHESSFFSNSI 278

Query: 146 PAFLV-SEILVALMA 159
            A++V SE L+ L+A
Sbjct: 279 GAYVVFSEGLMNLVA 293


  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
   0.320    0.130    0.373 

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: 539,087
Number of extensions: 18475
Number of successful extensions: 53
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 51
Number of HSP's successfully gapped: 3
Length of query: 204
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 123
Effective length of database: 1,236,335
Effective search space: 152069205
Effective search space used: 152069205
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 (21.9 bits)
S2: 128 (53.9 bits)