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= 0002.0031.p
         (339 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309757|ref|YP_003773849.1| hypothetical protein Hsero_0416...   603   e-174
gi|300310694|ref|YP_003774786.1| MerR-family transcription regul...   141   8e-35

>gi|300309757|ref|YP_003773849.1| hypothetical protein Hsero_0416
           [Herbaspirillum seropedicae SmR1]
          Length = 347

 Score =  603 bits (1556), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 305/334 (91%), Positives = 313/334 (93%), Gaps = 4/334 (1%)

Query: 6   STSSPALAADKPAGEALRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYSEAD 65
           STSSP      P    LRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYSEAD
Sbjct: 12  STSSPEEKGPAP----LRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYSEAD 67

Query: 66  VRRLALIRQLTELGHAIGSLAGLDMDQLQQVAATHAELHAARPTPPEAVQGQWRLAVIGS 125
           VRRLALIRQLTELGHAIGSLAGLDM+QLQQVAATHAELHA RPTPPEAVQG+WRLAVIGS
Sbjct: 68  VRRLALIRQLTELGHAIGSLAGLDMEQLQQVAATHAELHAGRPTPPEAVQGRWRLAVIGS 127

Query: 126 TLAQRLDKPGLLQRLGRPLQLLGPFESIEQAAMALKREEVDALLLHEPQLHAGWLGALES 185
           TLAQRLDKPGLLQRLGRPLQLLGPFE+IEQAAMALKREEVDALLLHEPQLHAGWLGALES
Sbjct: 128 TLAQRLDKPGLLQRLGRPLQLLGPFENIEQAAMALKREEVDALLLHEPQLHAGWLGALES 187

Query: 186 SAPALSGLPMAVLYGFASEAVCETLAAVGISLLRAPQPDVVILQWLRGLAALSSPARDEE 245
           SAPALSGLPMAVLYGFASEAVCETLAAVGISLLRAPQPDVVILQWLRGL ALSSPAR+E 
Sbjct: 188 SAPALSGLPMAVLYGFASEAVCETLAAVGISLLRAPQPDVVILQWLRGLVALSSPAREEM 247

Query: 246 AGDKALPPRRWDDNELIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCANRNVADAQ 305
           A    LPPRRW DN+LIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCANRNVADAQ
Sbjct: 248 AAGTVLPPRRWSDNQLIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCANRNVADAQ 307

Query: 306 LHQYLQQLTSESRQRFEAALTRIAIHEGMISENS 339
           LHQYLQQLTSESRQRFE ALTRIA HEG+I+E +
Sbjct: 308 LHQYLQQLTSESRQRFEMALTRIAEHEGLIAEGA 341


>gi|300310694|ref|YP_003774786.1| MerR-family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 330

 Score =  141 bits (355), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 110/314 (35%), Positives = 155/314 (49%), Gaps = 7/314 (2%)

Query: 22  LRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYSEADVRRLALIRQLTELGHA 81
           L R GAVAR L M V TLR WE RY LT    S  GQRLYS+ DV+RLA I++L + GH 
Sbjct: 17  LLRPGAVARQLGMSVETLRAWENRYGLTSSHHSGGGQRLYSQEDVQRLAHIKRLVDEGHR 76

Query: 82  IGSLAGLDMDQLQQVAATHAELHAARPTPPEAVQGQWRLAVIGSTLAQRLDKPGLLQRLG 141
           IG LA L ++ L+ +  +     AA P     + G  RL + G  ++       L Q+  
Sbjct: 77  IGQLAALPLEALKSLDPSP---EAAGPAGQTTLAG-LRLVLAGPWISSTGCIEALRQQQA 132

Query: 142 RPLQLLGPFESIEQAAMALKREEVDALLLHEPQLHAGWLGALESSAPALSGLPMAVLYGF 201
                +   E + Q+++ L    V  LL+    L  G  G +ES   + +   + +LY F
Sbjct: 133 SVSAAVQDLEELRQSSLGLD-TGVALLLVESAVLDPGLGGRMESVRRSFASARVVILYRF 191

Query: 202 ASEAVCETLAAVGISLLRAPQPDVVILQWLRGLA-ALSSPARDEEAGDKALPPRRWDDNE 260
            S  +   L   G  L+R P  D +   WL  L   L  P  + +     +P  R+ + E
Sbjct: 192 GSPEMVARLTQAGHQLVRKPM-DGIDPAWLCELVRRLDLPPGEVQMDSPDVPAPRFSEAE 250

Query: 261 LIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCANRNVADAQLHQYLQQLTSESRQR 320
           L   +  ST + CECPRH+AELL  L  FERYS QC + +  +A LH+ L      +R  
Sbjct: 251 LAQVSQASTRMQCECPRHLAELLTALVGFERYSRQCEDESEEEAALHRELCLAAGRARLP 310

Query: 321 FEAALTRIAIHEGM 334
            E  L R+A  +G+
Sbjct: 311 LEETLQRLAQVKGI 324


  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
   0.318    0.130    0.376 

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: 1,023,550
Number of extensions: 41330
Number of successful extensions: 230
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 229
Number of HSP's successfully gapped: 2
Length of query: 339
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 253
Effective length of database: 1,212,660
Effective search space: 306802980
Effective search space used: 306802980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 131 (55.1 bits)