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= 0001.2834.p
         (307 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310261|ref|YP_003774353.1| nitrilase regulator protein [He...   620   e-179
gi|300310271|ref|YP_003774363.1| AraC family transcription regul...   116   2e-27

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

 Score =  620 bits (1598), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 297/307 (96%), Positives = 301/307 (98%)

Query: 1   MKAQYTTAIVEAPRRFEYWNDVVCRHCLQADSKLSGEPIFDGAMSVNSIGMLDMAIMSSP 60
           MKAQYTT IVEAPRRFEYWNDVVCRHCLQADSKL GEP+FDGAMSVNSIGM+DMAIMSSP
Sbjct: 1   MKAQYTTEIVEAPRRFEYWNDVVCRHCLQADSKLLGEPVFDGAMSVNSIGMVDMAIMSSP 60

Query: 61  LHHWRRDAHHIRSNPDDDLWLAFMVSGQAYLAQDGRQTRLQSGDMALYDGARPFEFALGP 120
           LHHWRRDAHHIRSNPDDDLWLAFMVSG+AYLAQDGRQ RLQSGDMALYDGARPFEFALGP
Sbjct: 61  LHHWRRDAHHIRSNPDDDLWLAFMVSGEAYLAQDGRQARLQSGDMALYDGARPFEFALGP 120

Query: 121 EKIYLTRLPRKSLLSRCPEAEHMTAQLIDVRRPGVMALRSMLEEASTCEFNDAESAVRYS 180
           EKIYLTRLPRKSLLSRCPEAEH+TAQLID RRPGVMALRSMLEEA TCEFNDAESAVRYS
Sbjct: 121 EKIYLTRLPRKSLLSRCPEAEHLTAQLIDARRPGVMALRSMLEEAGTCEFNDAESAVRYS 180

Query: 181 AALLDVLALSLAAPGARTTAAEKNDLYKRVLAYLRENYTDPQLNLHVLAAAHHVSERTLT 240
           AALLDVLALSLAAPGARTTAAEKNDLYKRVLAYLRENYTDPQLNLHVLAAAHHVSERTLT
Sbjct: 181 AALLDVLALSLAAPGARTTAAEKNDLYKRVLAYLRENYTDPQLNLHVLAAAHHVSERTLT 240

Query: 241 RAFAQHNQTPMDVLRRVRLQASYRALTEGNAGNVTTAALDAGFSDLSHFSRVFRATFGCT 300
           RAFAQHNQTPMDVLRRVRLQASYRALTEGNAGNVTTAALDAGFSDLSHFSRVFRA FGCT
Sbjct: 241 RAFAQHNQTPMDVLRRVRLQASYRALTEGNAGNVTTAALDAGFSDLSHFSRVFRAAFGCT 300

Query: 301 PQSLLSH 307
           PQSLLSH
Sbjct: 301 PQSLLSH 307


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

 Score =  116 bits (291), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 93/305 (30%), Positives = 146/305 (47%), Gaps = 22/305 (7%)

Query: 15  RFEYWNDVVCRHCLQADSKLSGEPI---FDGAMSVNSIGMLDMAIMSSPLHHWRRDAHHI 71
           RF YW +V+C   +  +  L+ +     F G +S  S+       + S   H +R    I
Sbjct: 14  RFSYWREVLCEAFVSLNPILNEKHTVIDFAGEVSSRSLSTTAQTRVFSKAQHIQRRGEEI 73

Query: 72  RSNPDDDLWLAFMVSGQAYLAQDGRQTRLQSGDMALYDGARPFEFAL-GPEKIYLTRLPR 130
           R NP +  +  F + G   + QDG+++ +  GD ++ D  RP+     G   +   R+PR
Sbjct: 74  RRNPVEYCFANFQLEGSCVVRQDGQESMVLPGDFSIVDSTRPYFLDYQGDWHVLSFRIPR 133

Query: 131 KSLLSRCPEAEHMTAQLIDVRRP-GVMALR--SMLEEASTCEFNDAESAVR--YSAALLD 185
           + ++SR       TA+ +D +   G++A R    LE+       D  S V+   SAAL  
Sbjct: 134 EQVISRLASPYKATARRVDGKAGMGLVASRFARSLEQVDL----DMGSGVQDCLSAALNS 189

Query: 186 VLALSLAAPGARTTAAEKNDLYKR------VLAYLRENYTDPQLNLHVLAAAHHVSERTL 239
           ++A++L   GA   A E++ L  R      V  Y+R++  +P L   +LA+   VS RTL
Sbjct: 190 IIAIAL---GATLEAQERDRLPVREAIRLAVETYIRDHLEEPHLGPDMLASRFKVSRRTL 246

Query: 240 TRAFAQHNQTPMDVLRRVRLQASYRALTEGNAGNVTTAALDAGFSDLSHFSRVFRATFGC 299
              F +   +   ++R +RLQ S R L       V   AL  GFSD SHFSR+F+  FG 
Sbjct: 247 YSLFEEAPLSVSSLIRELRLQRSARDLLSPGHPGVLAVALRWGFSDASHFSRLFKRRFGV 306

Query: 300 TPQSL 304
            P+  
Sbjct: 307 CPREF 311


  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    0.132    0.392 

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: 883,586
Number of extensions: 33842
Number of successful extensions: 128
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 2
Length of query: 307
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 222
Effective length of database: 1,217,395
Effective search space: 270261690
Effective search space used: 270261690
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)