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= 0030.0188.p
         (186 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311734|ref|YP_003775826.1| RNA polymerase sigma-E factor p...   385   e-108
gi|300311253|ref|YP_003775345.1| RNA polymerase sigma-E factor (...    95   4e-21

>gi|300311734|ref|YP_003775826.1| RNA polymerase sigma-E factor
           protein [Herbaspirillum seropedicae SmR1]
          Length = 186

 Score =  385 bits (988), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 184/186 (98%), Positives = 184/186 (98%)

Query: 1   MRGPSANSIEQEDIDLIERIAHGDRGAFERLYRSYFPRLAQFLRRLVWDGPLSEEIINDT 60
           M GPSANSIEQEDIDLIERIA GDRGAFERLYRSYFPRLAQFLRRLVWDGPLSEEIINDT
Sbjct: 1   MHGPSANSIEQEDIDLIERIAQGDRGAFERLYRSYFPRLAQFLRRLVWDGPLSEEIINDT 60

Query: 61  MFVVWTKAQTYNGQSKVSTWIFAIAYKQGLKALSRVDTPVEMDMETMVSDELVEPEHQLS 120
           MFVVWTKAQTYNGQSKVSTWIFAIAYKQGLKALSRVDTPVEMDMETMVSDELVEPEHQLS
Sbjct: 61  MFVVWTKAQTYNGQSKVSTWIFAIAYKQGLKALSRVDTPVEMDMETMVSDELVEPEHQLS 120

Query: 121 ETQLRRHIGGALERLSFEHRTVMTLTYFHGMSYEEIADTMGCSINTVKTRMFYARQKLKV 180
           ETQLRRHIGGALERLSFEHRTVMTLTYFHGMSYEEIADTMGCSINTVKTRMFYARQKLKV
Sbjct: 121 ETQLRRHIGGALERLSFEHRTVMTLTYFHGMSYEEIADTMGCSINTVKTRMFYARQKLKV 180

Query: 181 FLSAYA 186
           FLSAYA
Sbjct: 181 FLSAYA 186


>gi|300311253|ref|YP_003775345.1| RNA polymerase sigma-E factor
           (sigma-24) transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 200

 Score = 94.7 bits (234), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 62/189 (32%), Positives = 92/189 (48%), Gaps = 15/189 (7%)

Query: 13  DIDLIERIAHGDRGAFERLYRSYFPRLAQFLRRLVWDGPLSEEIINDTMFVVWTKAQTYN 72
           D  L+ER+  GD+ AFE L   Y  +L + + RLV D   +E+++ +     +     + 
Sbjct: 8   DQQLVERVQRGDKKAFELLVVKYQRKLMRLVSRLVRDQAEAEDVVQEAFIKAYRALPQFR 67

Query: 73  GQSKVSTWIFAIAYKQGLKAL----SRVDTPVEMDMETMVS----DELVE---PEHQLSE 121
           G S   TW++ I        L     R  T  E D E   +    D L +   PE  L+ 
Sbjct: 68  GDSAFYTWLYRIGINTAKNYLVTMGRRAPTSTEADAEEAETFDDADHLRDINTPESMLAT 127

Query: 122 TQLRRHIGGALERLSFEHRTVMTLTYFHGMSYEEIADTMGCSINTVKTRMFYAR----QK 177
            Q+ + +  A+E L  E RT +TL    G+SY+EIAD M C I TV++R+F AR    +K
Sbjct: 128 KQIAQTVNVAMEALPEELRTAITLREIEGLSYDEIADAMNCPIGTVRSRIFRAREAIAEK 187

Query: 178 LKVFLSAYA 186
           L+  L   A
Sbjct: 188 LRPLLDTAA 196


  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
   0.322    0.134    0.394 

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: 537,936
Number of extensions: 19528
Number of successful extensions: 55
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 3
Length of query: 186
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 106
Effective length of database: 1,241,070
Effective search space: 131553420
Effective search space used: 131553420
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)