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= 0001.0396.p
         (340 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...   574   e-165
gi|300310694|ref|YP_003774786.1| MerR-family transcription regul...   146   2e-36

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

 Score =  574 bits (1480), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 295/340 (86%), Positives = 310/340 (91%), Gaps = 10/340 (2%)

Query: 3   PSEPTSSTPSPLDKPASPALRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYS 62
           P+ PTSST SP +K  +P LRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYS
Sbjct: 6   PTAPTSSTSSPEEKGPAP-LRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYS 64

Query: 63  EADVRRLALIRQLTELGHAIGSLAGLDMEQLHQVAATHAELHAARPAAPQAAPGQWRLAV 122
           EADVRRLALIRQLTELGHAIGSLAGLDMEQL QVAATHAELHA RP  P+A  G+WRLAV
Sbjct: 65  EADVRRLALIRQLTELGHAIGSLAGLDMEQLQQVAATHAELHAGRPTPPEAVQGRWRLAV 124

Query: 123 IGTSLAQRLDKPGLVQRLGRPLQLLGPFDSIEQAAMALKREEVDALLLHEPQLHAGWLGA 182
           IG++LAQRLDKPGL+QRLGRPLQLLGPF++IEQAAMALKREEVDALLLHEPQLHAGWLGA
Sbjct: 125 IGSTLAQRLDKPGLLQRLGRPLQLLGPFENIEQAAMALKREEVDALLLHEPQLHAGWLGA 184

Query: 183 LESSAPALSGLPMAVLYGFASEAVCETLAAVGISLLRAPQPDVVILQWLRGLAALSSPAR 242
           LESSAPALSGLPMAVLYGFASEAVCETLAAVGISLLRAPQPDVVILQWLRGL ALSSPAR
Sbjct: 185 LESSAPALSGLPMAVLYGFASEAVCETLAAVGISLLRAPQPDVVILQWLRGLVALSSPAR 244

Query: 243 EL----DTLPPSAAAKRRWSDHELIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCA 298
           E       LPP     RRWSD++LIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCA
Sbjct: 245 EEMAAGTVLPP-----RRWSDNQLIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCA 299

Query: 299 NRNPADAQLHQYLRQMTSESRQRFEAAMTRIALHEGFITE 338
           NRN ADAQLHQYL+Q+TSESRQRFE A+TRIA HEG I E
Sbjct: 300 NRNVADAQLHQYLQQLTSESRQRFEMALTRIAEHEGLIAE 339


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

 Score =  146 bits (369), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 117/330 (35%), Positives = 162/330 (49%), Gaps = 8/330 (2%)

Query: 7   TSSTPSPLDKPASPALRRTGAVARMLRMPVATLRVWERRYALTQGQLSPSGQRLYSEADV 66
           TS++P+  D+     L R GAVAR L M V TLR WE RY LT    S  GQRLYS+ DV
Sbjct: 2   TSNSPTDPDELNELPLLRPGAVARQLGMSVETLRAWENRYGLTSSHHSGGGQRLYSQEDV 61

Query: 67  RRLALIRQLTELGHAIGSLAGLDMEQLHQVAATHAELHAARPAAPQAAPGQWRLAVIGTS 126
           +RLA I++L + GH IG LA L +E L  +  +     AA PA      G  RL + G  
Sbjct: 62  QRLAHIKRLVDEGHRIGQLAALPLEALKSLDPSP---EAAGPAGQTTLAG-LRLVLAGPW 117

Query: 127 LAQRLDKPGLVQRLGRPLQLLGPFDSIEQAAMALKREEVDALLLHEPQLHAGWLGALESS 186
           ++       L Q+       +   + + Q+++ L    V  LL+    L  G  G +ES 
Sbjct: 118 ISSTGCIEALRQQQASVSAAVQDLEELRQSSLGLD-TGVALLLVESAVLDPGLGGRMESV 176

Query: 187 APALSGLPMAVLYGFASEAVCETLAAVGISLLRAPQPDVVILQWLRGLA-ALSSPARELD 245
             + +   + +LY F S  +   L   G  L+R P  D +   WL  L   L  P  E+ 
Sbjct: 177 RRSFASARVVILYRFGSPEMVARLTQAGHQLVRKPM-DGIDPAWLCELVRRLDLPPGEVQ 235

Query: 246 TLPPSAAAKRRWSDHELIAFANQSTTVACECPRHVAELLMQLSQFERYSAQCANRNPADA 305
              P   A  R+S+ EL   +  ST + CECPRH+AELL  L  FERYS QC + +  +A
Sbjct: 236 MDSPDVPAP-RFSEAELAQVSQASTRMQCECPRHLAELLTALVGFERYSRQCEDESEEEA 294

Query: 306 QLHQYLRQMTSESRQRFEAAMTRIALHEGF 335
            LH+ L      +R   E  + R+A  +G 
Sbjct: 295 ALHRELCLAAGRARLPLEETLQRLAQVKGI 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
   0.319    0.130    0.383 

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: 998,921
Number of extensions: 39745
Number of successful extensions: 213
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 210
Number of HSP's successfully gapped: 2
Length of query: 340
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 254
Effective length of database: 1,212,660
Effective search space: 308015640
Effective search space used: 308015640
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: 131 (55.1 bits)