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= 0002.0110.p
         (386 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309780|ref|YP_003773872.1| transcription regulator [Herbas...   549   e-157
gi|300312385|ref|YP_003776477.1| SorC family transcription regul...    88   1e-18

>gi|300309780|ref|YP_003773872.1| transcription regulator
           [Herbaspirillum seropedicae SmR1]
          Length = 320

 Score =  549 bits (1414), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 262/320 (81%), Positives = 293/320 (91%)

Query: 67  MSSSSSKLDLAARAAWMYYVAGNTQNEIAERLGISRQMAQRMVAYAGASNLVKVQITHPI 126
           MSSS+SKLDLAARAAWMYYVAGNTQNEIAERLGISRQMAQRMVAYA  +NLVKVQITHP+
Sbjct: 1   MSSSTSKLDLAARAAWMYYVAGNTQNEIAERLGISRQMAQRMVAYAADANLVKVQITHPV 60

Query: 127 SSCLELAQGLQQRYGLEVCRVVPSNAGASGDDDAQGVQQMLAVAGAELMEQFLRQEAPLI 186
           SSCLELAQGLQ+RYGL+VCRVVP   GA   +++Q VQQMLAVAGAELMEQ+L  EAPL+
Sbjct: 61  SSCLELAQGLQERYGLDVCRVVPGAGGAGNPNESQEVQQMLAVAGAELMEQYLGSEAPLV 120

Query: 187 VNVGSGRTLKAAIEKITDMERPQHQIVSMIGAFASDGSANRYDVALLAAEKMQSRFYLLP 246
           VNVGSGRTLKAAIE+++++ERPQHQIVSMIGAFASDGSANRYDVAL AAEK+ +RFYLLP
Sbjct: 121 VNVGSGRTLKAAIERLSELERPQHQIVSMIGAFASDGSANRYDVALQAAEKLGARFYLLP 180

Query: 247 APRVAENEADRKQWCNHRAYQIVTGLAQRADVTFLGIGTIALQGAMHEDGFIDDEEVAQL 306
           APRVAE+E+DR+QWCNHRAY+IVTGLA+RADVTFLGIGTIALQGAMHEDGFIDD EVA+L
Sbjct: 181 APRVAESESDRQQWCNHRAYKIVTGLAERADVTFLGIGTIALQGAMHEDGFIDDGEVAEL 240

Query: 307 QKQGAVGELICHAFDVAGKMLRSPLAARITTPPLSSPPAKPVIALAGGRKKAEAVRGALR 366
           Q+QGAVGE+ICHAFD+ G ML S L+AR+TTPPL+  P +PVIA  GG KKAEAVR ALR
Sbjct: 241 QRQGAVGEMICHAFDIDGVMLPSSLSARVTTPPLTQRPQRPVIAFCGGSKKAEAVRAALR 300

Query: 367 GGWLTGLVTDEYCAQFALQD 386
           GGWLTGLVTDE CA+ ALQD
Sbjct: 301 GGWLTGLVTDEVCARHALQD 320


>gi|300312385|ref|YP_003776477.1| SorC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 326

 Score = 87.8 bits (216), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 78/321 (24%), Positives = 144/321 (44%), Gaps = 25/321 (7%)

Query: 76  LAARAAWMYYVAGNTQNEIAERLGISRQMAQRMVAYAGASNLVKVQITHP--ISSCLELA 133
           +A R A +YY    T   IA+ +G SR    R++++A    LV++++  P  +S  LE A
Sbjct: 12  MAVRVARLYYFQNMTTAAIADEIGTSRATVSRLLSFALERGLVEIRVHDPQQVSGSLEAA 71

Query: 134 QGLQQRYGLEVCRVVPSNAGASGDDDAQGVQQMLAVAGAELMEQFLRQEAPLIVNVGS-- 191
             +   Y L   +VVP  A A+   D + +Q++   A A +           +V  G+  
Sbjct: 72  --IANHYRLHSIQVVPVAAAAT---DKETLQRVTCHAAAYVNS---------LVTPGTII 117

Query: 192 GRTLKAAIEKITDMERPQH----QIVSMIGAFASDGSANRYDVALLA--AEKMQSRFYLL 245
           G      + +I D   P+H     +V++ G+ +     N +  ++++  A+   +R + L
Sbjct: 118 GLAWGTTVAQIADQLLPRHVHDVDVVALNGSGSGASFINSFSESIVSRFAQNYGARAHHL 177

Query: 246 PAPRVAENEADRKQWCNHRAYQIVTGLAQRADVTFLGIGTIALQGAMHEDGFIDDEEVAQ 305
           P P   +    R      ++ + +  L +RA +    IG  A    +H  G++ +EE   
Sbjct: 178 PVPAFFDYPETRTALWREKSIKAIRDLQERASILLFSIGAEATGSYIHTAGYLGEEERQI 237

Query: 306 LQKQGAVGELICHAFDVAGKMLRSPLAARITTPPLSS-PPAKPVIALAGGRKKAEAVRGA 364
           L+ +G VG++    F   G        AR + P +     A   + +  G  K   ++ A
Sbjct: 238 LRDEGLVGDIATVFFRADGSWRDVAFNARNSGPDMDCFTRAAHALCVVSGAGKLPGLKAA 297

Query: 365 LRGGWLTGLVTDEYCAQFALQ 385
           LRGG++  L+ DE  A+  ++
Sbjct: 298 LRGGFINELIIDEPSARLLVE 318


  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    0.131    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: 1,099,055
Number of extensions: 43319
Number of successful extensions: 168
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 167
Number of HSP's successfully gapped: 2
Length of query: 386
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 299
Effective length of database: 1,207,925
Effective search space: 361169575
Effective search space used: 361169575
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: 131 (55.1 bits)