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= 0025.0165.p
         (355 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311255|ref|YP_003775347.1| sigma-E factor regulatory (nega...   423   e-119

>gi|300311255|ref|YP_003775347.1| sigma-E factor regulatory
           (negative regulator) transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 338

 Score =  423 bits (1087), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 210/355 (59%), Positives = 267/355 (75%), Gaps = 17/355 (4%)

Query: 1   MRQTQGLLRVVLFLSAVVAFSAKADVRYSSXPPPPAKAENALPTKVNNNQDAQVLLKKIQ 60
           MRQT  LL V+  L A++  SA A           A+ E A  + +   Q     L+K+Q
Sbjct: 1   MRQTGRLLGVLCLLPALLLPSAHA-----------AEGEQASASSLLMAQ-----LQKMQ 44

Query: 61  SAAQRLNYSGTFVYQQSNQMRTSRITHILSGKNEIEKLEVLDGKPREYIRNNDDVACYVP 120
           S+AQ LNYSG FVYQQ+  +R+SR+TH++ GKNE+EKLE+LDGKP E+IR+ND+VA Y+P
Sbjct: 45  SSAQHLNYSGRFVYQQAALIRSSRVTHVVVGKNELEKLELLDGKPAEFIRSNDEVASYLP 104

Query: 121 EAKTVLIEKRVTRDVFPAILAANPTDLVDYYSVKMGETGRVAGHDCQAVILEPKDKLRYG 180
           +++T+ +EKRVTRDVFPAI+   P DL   Y ++ G   RVAG DC+ V+LEP+DKLRYG
Sbjct: 105 QSRTIRMEKRVTRDVFPAIVDVRPQDLGAQYHLRAGSDERVAGRDCRVVMLEPRDKLRYG 164

Query: 181 YKLWADKATGLLLRAQTFDAKNEVVEQISFTQIEIGNIDHNRVKPSITNTNGWHIENSVM 240
           Y+ W DKATGLLLRAQT D + EV+EQI+FTQIEIG ID  RV P+  +T+GWHIE +VM
Sbjct: 165 YRFWTDKATGLLLRAQTLDGQGEVIEQIAFTQIEIGGIDRARVNPTYKDTHGWHIEKAVM 224

Query: 241 SQVNLAGWSVTPPPGFKKIQEVKRLISDTQNTGASATQHGVTTQREVSQIVFSDGLAAIS 300
           + ++L  W VTPPPGF+KIQ+V+RL++ +   GA+  Q+    +REVSQIVFSDGLAAIS
Sbjct: 225 TPIDLPQWQVTPPPGFRKIQQVRRLMAGSAADGAAPAQN-RAAEREVSQIVFSDGLAAIS 283

Query: 301 VFIEPGSQSRTEGSMQQGAMNIVGRRQGDYWLTVVGEVPGSAIRQVSNSIEFKSK 355
           VFIEPGS  R EGS QQGAM+I+GR QGDYWLTVVGEVP +AIRQV++SIE KSK
Sbjct: 284 VFIEPGSPGREEGSAQQGAMHILGRPQGDYWLTVVGEVPAAAIRQVADSIELKSK 338


  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
   0.315    0.130    0.369 

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: 1,034,811
Number of extensions: 39540
Number of successful extensions: 94
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 93
Number of HSP's successfully gapped: 1
Length of query: 355
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 269
Effective length of database: 1,212,660
Effective search space: 326205540
Effective search space used: 326205540
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 (21.6 bits)
S2: 131 (55.1 bits)