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= 0042.0018.p
         (168 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312373|ref|YP_003776465.1| LysR family transcription regul...    70   1e-13
gi|300312785|ref|YP_003776877.1| transcription regulator protein...    62   3e-11
gi|300310322|ref|YP_003774414.1| LysR family transcription regul...    60   8e-11
gi|300312300|ref|YP_003776392.1| LysR family transcription regul...    54   6e-09

>gi|300312373|ref|YP_003776465.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 305

 Score = 69.7 bits (169), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/124 (33%), Positives = 70/124 (56%)

Query: 13  ISQPDLEIILALVRAQTLAVAGERLGVDASTVFRAVQRMEKGLGIRLFERSRSGYQPSEL 72
           +   +L I L L R+Q L  A ++LG+D STV R ++R E+ +G +LF+R+  GY+ +  
Sbjct: 2   LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61

Query: 73  AQELAVHAEQMEAQLEAARSAVQLQPDQVSGVVRISTTDTVLHGLVAPALKLLRTSHPLL 132
              L  +AEQ+E+ L AA   +     ++SG VR+  T+     ++AP +      +P +
Sbjct: 62  GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 121

Query: 133 TYDI 136
           T D+
Sbjct: 122 TVDM 125


>gi|300312785|ref|YP_003776877.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score = 61.6 bits (148), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 40/131 (30%), Positives = 70/131 (53%), Gaps = 3/131 (2%)

Query: 15  QPDLEI---ILALVRAQTLAVAGERLGVDASTVFRAVQRMEKGLGIRLFERSRSGYQPSE 71
           +P+ E     L ++   +L+ AG  +G+   TV R ++ +E  LG++LF RS  G+ P++
Sbjct: 5   EPNWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTD 64

Query: 72  LAQELAVHAEQMEAQLEAARSAVQLQPDQVSGVVRISTTDTVLHGLVAPALKLLRTSHPL 131
            A EL  +A  + A   A R A   Q  +V G VR++ ++ +   ++ P L  LR  HP 
Sbjct: 65  AALELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPE 124

Query: 132 LTYDIHAGNES 142
           L  ++   N++
Sbjct: 125 LRVELVLSNKA 135


>gi|300310322|ref|YP_003774414.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 288

 Score = 60.1 bits (144), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 43/111 (38%), Positives = 62/111 (55%)

Query: 20  IILALVRAQTLAVAGERLGVDASTVFRAVQRMEKGLGIRLFERSRSGYQPSELAQELAVH 79
           I LA+ R  TL  A E L +D +TV R +  +E+ LG RLF R+ +GY P+   +  A  
Sbjct: 8   IFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPAGEMAAAA 67

Query: 80  AEQMEAQLEAARSAVQLQPDQVSGVVRISTTDTVLHGLVAPALKLLRTSHP 130
           A+QME   E  +  +Q   +++ GVVR++ TD      + PAL  LR  HP
Sbjct: 68  AQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHP 118


>gi|300312300|ref|YP_003776392.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 305

 Score = 53.9 bits (128), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 60/122 (49%), Gaps = 1/122 (0%)

Query: 9   PGYRISQPDLEIILALVRAQTLAVAGERLGVDASTVFRAVQRMEKGLGIRLFERSRSGYQ 68
           P   +   D+   L L R  +L+ +   L V+ STV R V  +EK L ++LF+R   G+ 
Sbjct: 19  PMNTLQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWV 78

Query: 69  PSELAQELAVHAEQMEAQLEAARSAVQLQPDQVSGVVRISTTDTVLHGLVAPALKLLRTS 128
            +    EL+  AEQ+E ++ +   A  L    +SG VR+S    ++   + P L   +  
Sbjct: 79  LTTEGAELSKQAEQLEVEMHSLWRAA-LANTTLSGKVRVSAPPILMSDFLVPRLPAFQEK 137

Query: 129 HP 130
           +P
Sbjct: 138 YP 139


  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    0.367 

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: 485,145
Number of extensions: 17733
Number of successful extensions: 161
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 168
Number of HSP's successfully gapped: 5
Length of query: 168
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 89
Effective length of database: 1,245,805
Effective search space: 110876645
Effective search space used: 110876645
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: 127 (53.5 bits)