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= 0251.0007.p
         (242 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311935|ref|YP_003776027.1| LysR family transcription regul...   351   3e-98
gi|300313602|ref|YP_003777694.1| LysR family transcription regul...    56   3e-09

>gi|300311935|ref|YP_003776027.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 286

 Score =  351 bits (900), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 166/226 (73%), Positives = 198/226 (87%), Gaps = 2/226 (0%)

Query: 12  TDTGQRLLPIAQKIAELELDAYNLLYNSGVLNIGHLKLGAVGPFHVIEMVDAYRRKFPNV 71
           ++T QRLLPIAQ IAELELDA NLL NSG L++GHL++GAVGPFHVIEMVDAYR ++P V
Sbjct: 58  SETAQRLLPIAQNIAELELDALNLLVNSGALHVGHLRIGAVGPFHVIEMVDAYRARYPRV 117

Query: 72  ELSIRMGNSAETMADLENYVTDVAVLGFXSFNDDPRFVAVPYADHAIVVFAHVDHPFAKR 131
           ELSIR+GNSA+T+ADLENYVTDVAVL   SF DD RF A+PYADHA+V+FAH  HPF +R
Sbjct: 118 ELSIRLGNSAQTLADLENYVTDVAVLA--SFTDDARFHALPYADHAVVLFAHRSHPFYQR 175

Query: 132 DSIALQDLHGQPMVMREQGSTTRLALEKVLKEADVMPRVVMEIGSREALREAVARGIGLG 191
           DS+ L +L  QPM+MREQGSTTRLALEK L++A V  +VVMEIGSREALREAVARG+GLG
Sbjct: 176 DSVTLAELDQQPMLMREQGSTTRLALEKALQQAGVKVQVVMEIGSREALREAVARGLGLG 235

Query: 192 AVSEAEFVPDPRLKLLRIEGNPVSTHTYIYCLADRKDSRLVASFLE 237
           AVSEAEFVPD R +++RIEG+PVSTHTY+YCLA+R++ RLV SF++
Sbjct: 236 AVSEAEFVPDERFRMVRIEGDPVSTHTYVYCLAERREGRLVGSFMK 281


>gi|300313602|ref|YP_003777694.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 300

 Score = 56.2 bits (134), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 54/192 (28%), Positives = 88/192 (45%), Gaps = 14/192 (7%)

Query: 12  TDTGQRLLPIAQKIAELELDAYNLLYN--SGVLNIGHLKLGA---VGPFHVIEMVDAYRR 66
            D+G++LLP A+ +    LDA   +    S       L +GA   +G + +  M+ AYR+
Sbjct: 60  NDSGRQLLPQARHM----LDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRK 115

Query: 67  KFPNVELSIRMGNSAETMADLENYVTDVAVLGFXSFNDDPRFVAV-PYADHAIVVFAHVD 125
                 +   + N+A+ +  + N+  D  ++      DD   V V P+    ++V A   
Sbjct: 116 DHAGARVRALVANTADIVDAVVNFEVDAGLIEGPCHADD---VEVEPWMMDELIVVAAPR 172

Query: 126 HPFAKRD-SIALQDLHGQPMVMREQGSTTRLALEKVLKEADVMPRVVMEIGSREALREAV 184
           HP  K    I L+ L     ++RE GS TR A+E  L           E G+ EA++ A 
Sbjct: 173 HPLVKSGRKITLKRLREAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRAT 232

Query: 185 ARGIGLGAVSEA 196
           A G+G+  +S A
Sbjct: 233 AEGLGISCLSRA 244


  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    0.138    0.390 

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: 723,049
Number of extensions: 29431
Number of successful extensions: 116
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 3
Length of query: 242
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 159
Effective length of database: 1,226,865
Effective search space: 195071535
Effective search space used: 195071535
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: 129 (54.3 bits)