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= 0022.0305.p
         (244 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313880|ref|YP_003777972.1| transcription regulator protein...   492   e-140
gi|300312279|ref|YP_003776371.1| GntR family transcription regul...   140   7e-35

>gi|300313880|ref|YP_003777972.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 244

 Score =  492 bits (1267), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 243/244 (99%), Positives = 243/244 (99%)

Query: 1   MLDQTGVDARLPLYLQLRDLLATQIRAQKWQPGQPIPSEAELSQTYQVAVGTVRRAIETL 60
           MLDQTGVDARLPLYLQLRDLLATQIRAQKWQPGQPIPSEAELSQTYQVAVGTVRRAIETL
Sbjct: 1   MLDQTGVDARLPLYLQLRDLLATQIRAQKWQPGQPIPSEAELSQTYQVAVGTVRRAIETL 60

Query: 61  MAEGLVERTHGRGTFVRKARFDNSLFRFFRFESADGRPLAPKSVIVSRKLVEAPAQAAEA 120
           MAEGLVERTHGRGTFVRKARFDNSLFRFFRFESADGRPLAPKSVIVSRKLVEAPAQAAEA
Sbjct: 61  MAEGLVERTHGRGTFVRKARFDNSLFRFFRFESADGRPLAPKSVIVSRKLVEAPAQAAEA 120

Query: 121 LQLKPHAKVIELHRLRMVDGQPVLAENIYLCAQRFKALADKAPEEFGDLLYPLYERECGL 180
           LQLKPHAKVIELHRLRMVDGQPVLAENIYLCAQRFKALADKAPEEFGDLLYPLYERECGL
Sbjct: 121 LQLKPHAKVIELHRLRMVDGQPVLAENIYLCAQRFKALADKAPEEFGDLLYPLYERECGL 180

Query: 181 IVASARETLTVETVTAAQAKLLGLKEKTPVVMIERIAFGSDGQPLEWRQSRGAASKFRYS 240
           IVASARETLTVETVTAAQAKLLGL EKTPVVMIERIAFGSDGQPLEWRQSRGAASKFRYS
Sbjct: 181 IVASARETLTVETVTAAQAKLLGLTEKTPVVMIERIAFGSDGQPLEWRQSRGAASKFRYS 240

Query: 241 AEIR 244
           AEIR
Sbjct: 241 AEIR 244


>gi|300312279|ref|YP_003776371.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 334

 Score =  140 bits (354), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 80/232 (34%), Positives = 127/232 (54%)

Query: 12  PLYLQLRDLLATQIRAQKWQPGQPIPSEAELSQTYQVAVGTVRRAIETLMAEGLVERTHG 71
           PLY Q++ L+  ++ A +W+PG+ IPSE EL   ++V+ GTVR+AI+ L AE LV R  G
Sbjct: 102 PLYQQIKALIMQRLEAGEWKPGELIPSEVELGSRFKVSQGTVRKAIDELAAENLVVRRQG 161

Query: 72  RGTFVRKARFDNSLFRFFRFESADGRPLAPKSVIVSRKLVEAPAQAAEALQLKPHAKVIE 131
           +GTFV       + FRF R  +    P  P++ I+  K V A A+ A  L +K    VI 
Sbjct: 162 KGTFVATHHETQAQFRFLRLMADSDEPQRPENKIIEVKRVRASAEVARQLDMKSGDSVIF 221

Query: 132 LHRLRMVDGQPVLAENIYLCAQRFKALADKAPEEFGDLLYPLYERECGLIVASARETLTV 191
           + R++  +G P++ E+I+L    FK L  +   E+   LY L+E E G  +  A E +  
Sbjct: 222 IRRVKSFNGVPIILEDIWLPGAIFKGLTAERLVEYRGPLYGLFESEFGTRMIRAEERIRA 281

Query: 192 ETVTAAQAKLLGLKEKTPVVMIERIAFGSDGQPLEWRQSRGAASKFRYSAEI 243
                  A+ LG+  +TP++ +ER +F    +P+E R+     +   Y +E+
Sbjct: 282 VGADPDAAEFLGVTPQTPLLSVERASFTYGDKPVEMRRGLYLTTNHHYQSEL 333


  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
   0.321    0.135    0.384 

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: 643,464
Number of extensions: 22590
Number of successful extensions: 112
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 2
Length of query: 244
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 161
Effective length of database: 1,226,865
Effective search space: 197525265
Effective search space used: 197525265
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)