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= 0001.2443.p
         (196 letters)

Database: BlastDatabases/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152980473|ref|YP_001353052.1| RNA polymerase sigma factor Rpo...    77   5e-16
gi|152980264|ref|YP_001355194.1| ECF subfamily RNA polymerase si...    77   1e-15
gi|152981836|ref|YP_001354783.1| ECF subfamily RNA polymerase si...    69   2e-13
gi|152981847|ref|YP_001353607.1| RNA polymerase sigma factor [Ja...    66   2e-12

>gi|152980473|ref|YP_001353052.1| RNA polymerase sigma factor RpoE
           [Janthinobacterium sp. Marseille]
          Length = 200

 Score = 77.4 bits (189), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 51/185 (27%), Positives = 87/185 (47%), Gaps = 15/185 (8%)

Query: 23  DAEVMEAIAGGNRAVFEKLYKQYFPRLTSFLRRLTAHPHLIDEIINDTMLVVWQKAHTYN 82
           D +++E +  G++  FE L  +Y  +L   + RL       ++++ +  +  ++    + 
Sbjct: 8   DQQLVERVQRGDKKAFELLVIKYQRKLMRLVSRLVRDQAEAEDVVQEAFIKAYRALPQFR 67

Query: 83  QTCKVSTWIFAIAYR--------QGLKALRNLR---QEIEIVSDEDDPCDTPGPEQQMSR 131
                 TW++ I           QG +A  +     +E E   D D   D   PE  ++ 
Sbjct: 68  GDSAFYTWLYRIGINTAKNYLVTQGRRAPTSTEADVEEAETFDDGDHLRDINTPESLLAT 127

Query: 132 LQMRKVLESALSELSTEQRSVIALSYYHGMAYDEIARAMKCPINTIKTRMFHAR----RK 187
            Q+ + L  A+ EL  E R  I L    G++YDEIA +M CPI T+++R+F AR     K
Sbjct: 128 KQIAQTLNLAMEELPEELRMAITLREIEGLSYDEIAESMGCPIGTVRSRIFRAREAISEK 187

Query: 188 LKSLL 192
           L+ LL
Sbjct: 188 LRPLL 192


>gi|152980264|ref|YP_001355194.1| ECF subfamily RNA polymerase sigma
           factor [Janthinobacterium sp. Marseille]
          Length = 168

 Score = 76.6 bits (187), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 75/148 (50%), Gaps = 9/148 (6%)

Query: 46  FPRLTSFLRRLTAHPHLIDEIINDTMLVVWQKAHTYNQTCKVSTWIFAIAYRQGLKALRN 105
            PRL  + R L       D+++ DTM   W+K  ++ +   +  W+F I +   +  +R 
Sbjct: 12  IPRLRRYARALLGDRTGADDLVQDTMERGWKKLSSWQRGSDMRAWLFGIMHNLHVDQVRK 71

Query: 106 LRQEIEIVSDEDDPCDTPGPEQQMS---RLQMRKVLESALSELSTEQRSVIALSYYHGMA 162
                E + D     DTP P    S    L+MR  LESAL  L TEQR ++ L     M+
Sbjct: 72  PSLPTEELDD-----DTPIPAAHTSVSDGLEMRD-LESALHSLPTEQREILLLVALEEMS 125

Query: 163 YDEIARAMKCPINTIKTRMFHARRKLKS 190
           Y+E+A  +  P+ T+ +R+  AR+KL++
Sbjct: 126 YEEVAATLGLPLGTVMSRLSRARQKLRT 153


>gi|152981836|ref|YP_001354783.1| ECF subfamily RNA polymerase sigma
           factor [Janthinobacterium sp. Marseille]
          Length = 191

 Score = 68.6 bits (166), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 76/174 (43%), Gaps = 8/174 (4%)

Query: 27  MEAIAGGNRAVFEKLYKQYFPRLTSFLRRLTAHPHLIDEIINDTMLVVWQKAHTYNQTCK 86
           + A A  +   F +LY     +L  F  R+     L +E+I ++ + +W  A  Y     
Sbjct: 12  LAATARKDGEAFRQLYDATSSKLFGFALRILIKRELAEEVIQESFVSIWNNASGYQAGLA 71

Query: 87  VS-TWIFAIAYRQGLKALRNLRQEIEIVSDEDDP-------CDTPGPEQQMSRLQMRKVL 138
              TW+  I   +    LR +   +E+ +D  D           P P + +      K L
Sbjct: 72  APMTWMTTIVRNKAFDTLRRMDGAVEVDADSFDKEVMDALESVDPTPIEALQISDESKAL 131

Query: 139 ESALSELSTEQRSVIALSYYHGMAYDEIARAMKCPINTIKTRMFHARRKLKSLL 192
               ++L + QR  IAL++YH +++ E+A  +  PI T+KT +     KL+  L
Sbjct: 132 ARCFAKLESMQRQAIALAFYHELSHSEVAAQLALPIGTVKTWVRRGLEKLRLCL 185


>gi|152981847|ref|YP_001353607.1| RNA polymerase sigma factor
           [Janthinobacterium sp. Marseille]
          Length = 216

 Score = 65.9 bits (159), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/158 (26%), Positives = 79/158 (50%), Gaps = 6/158 (3%)

Query: 27  MEAIAGGNRAVFEKLYKQYFPRLTSFLRRLTAHPHLIDEIINDTMLVVWQKAHTYNQT-C 85
           + A A G RA  +++Y+Q   RL     R+     L +++++D  + +W+KA +++    
Sbjct: 46  LRACARGERAALQQIYQQDGKRLLGVALRIVRQRALAEDVLHDAFVNIWRKAGSFDAARG 105

Query: 86  KVSTWIFAIAYRQGLKALRNLRQEIEIVSDEDDPCDT-PGPEQQ---MSRLQMRKVLESA 141
               WI ++   Q L  +R+ +QE+    D  +  D   G E Q    + + + K L+  
Sbjct: 106 SGRGWIHSVVRHQALNLVRDRQQEVYTDEDTVEALDAQQGIEAQDPFETHVNLGK-LDDC 164

Query: 142 LSELSTEQRSVIALSYYHGMAYDEIARAMKCPINTIKT 179
           LS L   +R+ +  +Y  G ++ EIA  MK P+ ++K 
Sbjct: 165 LSHLDHAKRNSLLYAYVDGCSHREIAERMKSPVGSVKA 202


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
Lambda     K      H
   0.322    0.133    0.388 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3697
Number of Hits to DB: 402,834
Number of extensions: 13548
Number of successful extensions: 62
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 59
Number of HSP's successfully gapped: 4
Length of query: 196
Length of database: 1,221,021
Length adjustment: 78
Effective length of query: 118
Effective length of database: 932,655
Effective search space: 110053290
Effective search space used: 110053290
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: 127 (53.5 bits)