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= 0028.0069.p
         (336 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...   504   e-144

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

 Score =  504 bits (1298), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 248/324 (76%), Positives = 277/324 (85%), Gaps = 6/324 (1%)

Query: 13  SAHAADGVSTTAASEATTSSTLLAQLQKMQSAAQHLNYSGSFVYQQAAQMRSSRVTHVVA 72
           SAHAA+G       +A+ SS L+AQLQKMQS+AQHLNYSG FVYQQAA +RSSRVTHVV 
Sbjct: 21  SAHAAEG------EQASASSLLMAQLQKMQSSAQHLNYSGRFVYQQAALIRSSRVTHVVV 74

Query: 73  GKSELEKLELLDGKPREFVRDNEDVASYDPDQRIVRREKRVTRDTFPAIVDARPEDLARF 132
           GK+ELEKLELLDGKP EF+R N++VASY P  R +R EKRVTRD FPAIVD RP+DL   
Sbjct: 75  GKNELEKLELLDGKPAEFIRSNDEVASYLPQSRTIRMEKRVTRDVFPAIVDVRPQDLGAQ 134

Query: 133 YRLQSDGDERVAGRNCQVIVLVPRDKLRYGYRFCADQATGLLLRGQTLDGRGEVIEQIAF 192
           Y L++  DERVAGR+C+V++L PRDKLRYGYRF  D+ATGLLLR QTLDG+GEVIEQIAF
Sbjct: 135 YHLRAGSDERVAGRDCRVVMLEPRDKLRYGYRFWTDKATGLLLRAQTLDGQGEVIEQIAF 194

Query: 193 TQIDIGGIDRARVSPTYKDTRGWRIEKAAMVPADLSAWQITPPPGFRKIQQVRRVISDSG 252
           TQI+IGGIDRARV+PTYKDT GW IEKA M P DL  WQ+TPPPGFRKIQQVRR+++ S 
Sbjct: 195 TQIEIGGIDRARVNPTYKDTHGWHIEKAVMTPIDLPQWQVTPPPGFRKIQQVRRLMAGSA 254

Query: 253 EAGAAPAQNRPAEREVLQIVFSDGLAAISVFIEPGSQGREEGTIQQGAMNILGRRQGDYW 312
             GAAPAQNR AEREV QIVFSDGLAAISVFIEPGS GREEG+ QQGAM+ILGR QGDYW
Sbjct: 255 ADGAAPAQNRAAEREVSQIVFSDGLAAISVFIEPGSPGREEGSAQQGAMHILGRPQGDYW 314

Query: 313 LTVVGEVPAAAIRQVANSIELKSK 336
           LTVVGEVPAAAIRQVA+SIELKSK
Sbjct: 315 LTVVGEVPAAAIRQVADSIELKSK 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
   0.318    0.133    0.376 

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: 1,058,123
Number of extensions: 45240
Number of successful extensions: 130
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 1
Length of query: 336
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 250
Effective length of database: 1,212,660
Effective search space: 303165000
Effective search space used: 303165000
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)