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= 0001.3047.p
         (327 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312385|ref|YP_003776477.1| SorC family transcription regul...   624   e-180
gi|300309780|ref|YP_003773872.1| transcription regulator [Herbas...    99   6e-22

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

 Score =  624 bits (1609), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 302/326 (92%), Positives = 319/326 (97%)

Query: 1   MAQGDRQETAYMAVRVARLYYFQNMTTAAIADEIGTSRATVSRLLSYALDRGLVEIRVHD 60
           MAQGDRQETAYMAVRVARLYYFQNMTTAAIADEIGTSRATVSRLLS+AL+RGLVEIRVHD
Sbjct: 1   MAQGDRQETAYMAVRVARLYYFQNMTTAAIADEIGTSRATVSRLLSFALERGLVEIRVHD 60

Query: 61  PQQVSGSLEAAISHHYRLRSIQVVPVAAAASEKENLQRVTGHAAAYVNSLVSPGTVMGLA 120
           PQQVSGSLEAAI++HYRL SIQVVPVAAAA++KE LQRVT HAAAYVNSLV+PGT++GLA
Sbjct: 61  PQQVSGSLEAAIANHYRLHSIQVVPVAAAATDKETLQRVTCHAAAYVNSLVTPGTIIGLA 120

Query: 121 WGTTVAHIADQLLPRHVHDVDVVALNGSGSGASFINSFSESIVSRFAQNYGARAHHLPVP 180
           WGTTVA IADQLLPRHVHDVDVVALNGSGSGASFINSFSESIVSRFAQNYGARAHHLPVP
Sbjct: 121 WGTTVAQIADQLLPRHVHDVDVVALNGSGSGASFINSFSESIVSRFAQNYGARAHHLPVP 180

Query: 181 AFFDYPETRSALWREKSIKAIRDLQDRASILLFSIGAEATGSYIHTAGYLGEEERRILRE 240
           AFFDYPETR+ALWREKSIKAIRDLQ+RASILLFSIGAEATGSYIHTAGYLGEEER+ILR+
Sbjct: 181 AFFDYPETRTALWREKSIKAIRDLQERASILLFSIGAEATGSYIHTAGYLGEEERQILRD 240

Query: 241 DGLVGDIATVFFRADGSWRDVAINARNSGPDMDCFARAAHSLCVVSGTGKLPGLKAALRG 300
           +GLVGDIATVFFRADGSWRDVA NARNSGPDMDCF RAAH+LCVVSG GKLPGLKAALRG
Sbjct: 241 EGLVGDIATVFFRADGSWRDVAFNARNSGPDMDCFTRAAHALCVVSGAGKLPGLKAALRG 300

Query: 301 GFINELIIDEPSARLLVEQIRSGAAS 326
           GFINELIIDEPSARLLVEQIR+GAA+
Sbjct: 301 GFINELIIDEPSARLLVEQIRNGAAA 326


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

 Score = 98.6 bits (244), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 89/316 (28%), Positives = 148/316 (46%), Gaps = 23/316 (7%)

Query: 12  MAVRVARLYYFQNMTTAAIADEIGTSRATVSRLLSYALDRGLVEIRVHDPQQVSGSLEAA 71
           +A R A +YY    T   IA+ +G SR    R+++YA D  LV++++  P  VS  LE A
Sbjct: 10  LAARAAWMYYVAGNTQNEIAERLGISRQMAQRMVAYAADANLVKVQITHP--VSSCLELA 67

Query: 72  --ISHHYRLRSIQVVPVAAAA---SEKENLQRVTGHAAA-----YVNSLVSPGTVMGLAW 121
             +   Y L   +VVP A  A   +E + +Q++   A A     Y+ S      V+ +  
Sbjct: 68  QGLQERYGLDVCRVVPGAGGAGNPNESQEVQQMLAVAGAELMEQYLGS--EAPLVVNVGS 125

Query: 122 GTTVAHIADQL--LPRHVHDVDVVALNGSGSGASFINSFSESIVSRFAQNYGARAHHLPV 179
           G T+    ++L  L R  H   +V++ G+ +     N +   +  + A+  GAR + LP 
Sbjct: 126 GRTLKAAIERLSELERPQH--QIVSMIGAFASDGSANRY--DVALQAAEKLGARFYLLPA 181

Query: 180 PAFFDYPETRSALWREKSIKAIRDLQDRASILLFSIGAEATGSYIHTAGYLGEEERRILR 239
           P   +    R      ++ K +  L +RA +    IG  A    +H  G++ + E   L+
Sbjct: 182 PRVAESESDRQQWCNHRAYKIVTGLAERADVTFLGIGTIALQGAMHEDGFIDDGEVAELQ 241

Query: 240 EDGLVGDIATVFFRADGSWRDVAINARNSGPDMDCFA-RAAHSLCVVSGTGKLPGLKAAL 298
             G VG++    F  DG     +++AR + P +     R   + C   G+ K   ++AAL
Sbjct: 242 RQGAVGEMICHAFDIDGVMLPSSLSARVTTPPLTQRPQRPVIAFC--GGSKKAEAVRAAL 299

Query: 299 RGGFINELIIDEPSAR 314
           RGG++  L+ DE  AR
Sbjct: 300 RGGWLTGLVTDEVCAR 315


  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    0.133    0.383 

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: 1,036,209
Number of extensions: 44489
Number of successful extensions: 161
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 2
Length of query: 327
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 242
Effective length of database: 1,217,395
Effective search space: 294609590
Effective search space used: 294609590
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: 131 (55.1 bits)