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= 0001.0792.p
         (332 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310271|ref|YP_003774363.1| AraC family transcription regul...   590   e-170
gi|300310261|ref|YP_003774353.1| nitrilase regulator protein [He...   105   4e-24

>gi|300310271|ref|YP_003774363.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 350

 Score =  590 bits (1522), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 288/322 (89%), Positives = 300/322 (93%)

Query: 1   MKLWSTQSCAQNERFSYWREVLCEAFVSLNPVLEEKQRAIDFVGEVNSRPLSTTAQTRVF 60
           MKLWSTQS AQNERFSYWREVLCEAFVSLNP+L EK   IDF GEV+SR LSTTAQTRVF
Sbjct: 1   MKLWSTQSRAQNERFSYWREVLCEAFVSLNPILNEKHTVIDFAGEVSSRSLSTTAQTRVF 60

Query: 61  SRAQHIERRGEEIRRNPVEYCFANFQLEGSCVVRQDSQESLVLPGDFSIVDSTRPYFLDY 120
           S+AQHI+RRGEEIRRNPVEYCFANFQLEGSCVVRQD QES+VLPGDFSIVDSTRPYFLDY
Sbjct: 61  SKAQHIQRRGEEIRRNPVEYCFANFQLEGSCVVRQDGQESMVLPGDFSIVDSTRPYFLDY 120

Query: 121 QGDWQVLSFRIPREQVISRLASPYKATARRVDGNTGMGLVASRFARSLEQVEPDMGSGIS 180
           QGDW VLSFRIPREQVISRLASPYKATARRVDG  GMGLVASRFARSLEQV+ DMGSG+ 
Sbjct: 121 QGDWHVLSFRIPREQVISRLASPYKATARRVDGKAGMGLVASRFARSLEQVDLDMGSGVQ 180

Query: 181 DGLSAALNSIIAIALGATLEAQERDRLPVREAFRMAVETYIRDHLEEPHLGPDMLALRFK 240
           D LSAALNSIIAIALGATLEAQERDRLPVREA R+AVETYIRDHLEEPHLGPDMLA RFK
Sbjct: 181 DCLSAALNSIIAIALGATLEAQERDRLPVREAIRLAVETYIRDHLEEPHLGPDMLASRFK 240

Query: 241 VSRRTLYGLFEDAPLSVSGLIRELRLQRSARDLLSPGHAGVLAIALRWGFSDASHFSRLF 300
           VSRRTLY LFE+APLSVS LIRELRLQRSARDLLSPGH GVLA+ALRWGFSDASHFSRLF
Sbjct: 241 VSRRTLYSLFEEAPLSVSSLIRELRLQRSARDLLSPGHPGVLAVALRWGFSDASHFSRLF 300

Query: 301 KRRFGVCPREFSDYALKGDYDA 322
           KRRFGVCPREF+D+ LKG  DA
Sbjct: 301 KRRFGVCPREFADFTLKGGLDA 322


>gi|300310261|ref|YP_003774353.1| nitrilase regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 307

 Score =  105 bits (263), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 90/315 (28%), Positives = 143/315 (45%), Gaps = 22/315 (6%)

Query: 4   WSTQSCAQNERFSYWREVLCEAFVSLNPVLEEKQRAIDFVGEVNSRPLSTTAQTRVFSRA 63
           ++T+      RF YW +V+C   +  +  L  +     F G ++   +       + S  
Sbjct: 5   YTTEIVEAPRRFEYWNDVVCRHCLQADSKLLGEPV---FDGAMSVNSIGMVDMAIMSSPL 61

Query: 64  QHIERRGEEIRRNPVEYCFANFQLEGSCVVRQDSQESLVLPGDFSIVDSTRPYFLDYQGD 123
            H  R    IR NP +  +  F + G   + QD +++ +  GD ++ D  RP+     G 
Sbjct: 62  HHWRRDAHHIRSNPDDDLWLAFMVSGEAYLAQDGRQARLQSGDMALYDGARPFEFAL-GP 120

Query: 124 WQVLSFRIPREQVISRLASPYKATARRVDGNTGMGLVASRFARSLEQVEP----DMGSGI 179
            ++   R+PR+ ++SR       TA+ +D     G++A R    LE+       D  S +
Sbjct: 121 EKIYLTRLPRKSLLSRCPEAEHLTAQLIDARRP-GVMALR--SMLEEAGTCEFNDAESAV 177

Query: 180 SDGLSAALNSIIAIAL---GATLEAQERDRLPVREAFRMAVETYIRDHLEEPHLGPDMLA 236
               SAAL  ++A++L   GA   A E++ L  R      V  Y+R++  +P L   +LA
Sbjct: 178 R--YSAALLDVLALSLAAPGARTTAAEKNDLYKR------VLAYLRENYTDPQLNLHVLA 229

Query: 237 LRFKVSRRTLYGLFEDAPLSVSGLIRELRLQRSARDLLSPGHAGVLAIALRWGFSDASHF 296
               VS RTL   F     +   ++R +RLQ S R L       V   AL  GFSD SHF
Sbjct: 230 AAHHVSERTLTRAFAQHNQTPMDVLRRVRLQASYRALTEGNAGNVTTAALDAGFSDLSHF 289

Query: 297 SRLFKRRFGVCPREF 311
           SR+F+  FG  P+  
Sbjct: 290 SRVFRAAFGCTPQSL 304


  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    0.137    0.406 

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: 990,298
Number of extensions: 38186
Number of successful extensions: 118
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 2
Length of query: 332
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 246
Effective length of database: 1,212,660
Effective search space: 298314360
Effective search space used: 298314360
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: 131 (55.1 bits)