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= 0009.0291.p
         (319 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311078|ref|YP_003775170.1| transcription regulator protein...   491   e-140
gi|300310430|ref|YP_003774522.1| transcription regulator protein...    97   1e-21

>gi|300311078|ref|YP_003775170.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score =  491 bits (1263), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 243/294 (82%), Positives = 264/294 (89%), Gaps = 1/294 (0%)

Query: 27  MAQAFDIVSRITERSGQLRLAEQKVAEAILSDLSFAASASIGELALKAGVSLASVTRFAK 86
           MAQ  DI+SRITERS  LRLAEQKVAEAIL DL  AASASIGELA KAGVS+ASVTRFAK
Sbjct: 1   MAQTLDIISRITERSSTLRLAEQKVAEAILGDLHAAASASIGELADKAGVSVASVTRFAK 60

Query: 87  AMGCRDVREFKFMLAQAVAVGQRFFDGVKTIPSGQPPELIDVVYNDIHAVLEVNRALINS 146
           AMGCRDVREFKF+LAQAVAVGQRFFDG KT+PS QPPEL DVVY DIHAVLE+NRA++N+
Sbjct: 61  AMGCRDVREFKFLLAQAVAVGQRFFDGAKTVPSEQPPELADVVYRDIHAVLELNRAMLNA 120

Query: 147 DALARAAELLRDARMIYSFGMGGGSTMMSDEARYRLVRLGRPVATYHDALLQRMVAATLD 206
           D L +AA LL  ARMIY FGMGGGSTMMSDEARYRLVRLGRPVA+YHDA+LQ+MVAATLD
Sbjct: 121 DMLMQAAHLLLGARMIYCFGMGGGSTMMSDEARYRLVRLGRPVASYHDAVLQKMVAATLD 180

Query: 207 KNDMLLVFSTTGNVPELLTNCEVAKEYGVKMIGITALGSPLAGMVDVLLPIKTLETDFIF 266
           K+D+LLVFSTTG+VPELL +CEVA+EYGVK+I ITALGSPLA + DVLLPIKTLETD IF
Sbjct: 181 KDDVLLVFSTTGSVPELLASCEVAREYGVKLIAITALGSPLAKLADVLLPIKTLETDLIF 240

Query: 267 KPSSSRYAMMMVLDMLVLELALLQKDRSQEQLRRLKYVLDMHRGGGD-RQPLGD 319
           KPSSSRYAMM  LDMLVLELALL K+ SQE+LRRLKYVLD HRGGGD  QPLGD
Sbjct: 241 KPSSSRYAMMATLDMLVLELALLHKESSQERLRRLKYVLDAHRGGGDLHQPLGD 294


>gi|300310430|ref|YP_003774522.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 286

 Score = 97.4 bits (241), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 75/258 (29%), Positives = 136/258 (52%), Gaps = 6/258 (2%)

Query: 33  IVSRITERSGQLRLAEQKVAEAILSDLSFAASASIGELALKAGVSLASVTRFAKAMGCRD 92
           ++  I      L  +E+KVA  IL++   A + ++  LA  A VS  +V RF +A+G   
Sbjct: 4   LLDSIRTHINSLSKSEKKVAATILANPQLALAENLTALAKNAEVSEPTVIRFCRAIGYEG 63

Query: 93  VREFKFMLAQAVAVGQRFFDGVKTIPSGQ-PPELID-VVYNDIHAVLEVNRALINSDALA 150
             +FK  LAQ++A+     D  +T+       +L++ +    I+ +L++ R  +N DA+ 
Sbjct: 64  WHDFKLKLAQSLALALPGAD--ETLAQDDLAADLVNKICSRSINTLLDL-RNHLNPDAIQ 120

Query: 151 RAAELLRDARMIYSFGMGGGSTMMSDEARYRLVRLGRPVATYHDALLQRMVAATLDKNDM 210
            A ++L  A  I  +G G  S +++++A+++  R G P   Y D  +  + A+ L   D 
Sbjct: 121 LALDVLARANKIEFYGQGT-SGIVANDAQHKFFRSGVPTVAYSDPHIHSIAASLLKAGDC 179

Query: 211 LLVFSTTGNVPELLTNCEVAKEYGVKMIGITALGSPLAGMVDVLLPIKTLETDFIFKPSS 270
           ++  S  G    LL + ++A++ G  +I +   G+PLA +  VL+PI        + P S
Sbjct: 180 VVAISQRGGNAALLRSIQLARKGGADIIVLGPSGTPLAELATVLVPIDLSFNIDPYTPIS 239

Query: 271 SRYAMMMVLDMLVLELAL 288
           +R A ++V+D+L + LAL
Sbjct: 240 ARLAHLVVIDILAVGLAL 257


  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    0.373 

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: 793,483
Number of extensions: 26834
Number of successful extensions: 103
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 3
Length of query: 319
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 234
Effective length of database: 1,217,395
Effective search space: 284870430
Effective search space used: 284870430
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: 130 (54.7 bits)