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= 0001.3481.p
         (312 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134093722|ref|YP_001098797.1| transcriptional regulator [Herm...   394   e-111
gi|134093821|ref|YP_001098896.1| putative LysR-type regulator [H...    90   1e-19
gi|134095322|ref|YP_001100397.1| methionine biosynthesis [Hermin...    60   2e-10

>gi|134093722|ref|YP_001098797.1| transcriptional regulator
           [Herminiimonas arsenicoxydans]
          Length = 305

 Score =  394 bits (1011), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 197/303 (65%), Positives = 241/303 (79%)

Query: 1   VNLTLESLLILDMIDRKGSFAAAAVALDRVPSALTYSVRKLEDDLDVLLFDRRGHRAQLT 60
           +NLTLE++ ILD IDRKGSF AAAVALDRVPSALTYSVRKLE+DLDVLLFDRRGHRA+LT
Sbjct: 1   MNLTLEAIRILDTIDRKGSFGAAAVALDRVPSALTYSVRKLEEDLDVLLFDRRGHRAKLT 60

Query: 61  PAGLQLLQEGRHLLLAASDLEQRVKRTATGRETELHIVLNSLIPFDKMLPVIAAFDREQS 120
           PAG +LL EGRHLL AA++LEQRVKRTATG E EL IVL+++IPF+KMLP+I  FD + S
Sbjct: 61  PAGQELLTEGRHLLRAAAELEQRVKRTATGWEVELRIVLDAIIPFEKMLPLIREFDLQDS 120

Query: 121 GTRLRFTPGVLTGAWEKLIEGRANLVIGVTLDGPEVVRTSGRFQMQELGAVDWVFAVAPQ 180
           GTRLRF+  VL+G WE+LI G A+L IGV  +GP+++R SG F+++ LG ++WVFAVA  
Sbjct: 121 GTRLRFSTEVLSGTWERLISGDADLAIGVAYEGPDLIRGSGGFRVKPLGNLEWVFAVALH 180

Query: 181 HPLASVIEPLSAELVRSHRAIAVGDNSQSLPTLTMGLLSGQETLTVATVADKLQAQLAGL 240
           HPLA++ EPLS   ++ +RA+  GD+ + LP++T GLL+GQ TLTV TV DKL AQLAGL
Sbjct: 181 HPLATMEEPLSVTDIQRYRAVVTGDSGRMLPSITAGLLTGQATLTVPTVHDKLAAQLAGL 240

Query: 241 GCGHLPRIWAAPYLASGALVEKQTLAAKPNDNFMVAWPKAEQGKSLKWFIQYLAQPHVRQ 300
           GCG+LPR WAAPYLASGAL+EKQT   KP      AW    +GK LKWF+  LA P V+ 
Sbjct: 241 GCGYLPRKWAAPYLASGALIEKQTSENKPAGIPQYAWRTDGRGKCLKWFLAKLADPAVQD 300

Query: 301 SLM 303
            L+
Sbjct: 301 MLL 303


>gi|134093821|ref|YP_001098896.1| putative LysR-type regulator
           [Herminiimonas arsenicoxydans]
          Length = 289

 Score = 89.7 bits (221), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 78/278 (28%), Positives = 130/278 (46%), Gaps = 8/278 (2%)

Query: 18  GSFAAAAVALDRVPSALTYSVRKLEDDLDVLLFDRRGHRAQLTPAGLQLLQEGRHLLLAA 77
           GSF+ AA  L R  S ++Y++  LE  L+V LFDR   +  LT AG  LL + R + L  
Sbjct: 11  GSFSKAARELHRTQSVISYTIANLEAQLNVALFDRSKRKPTLTEAGKALLADARTVGLKV 70

Query: 78  SDLEQRVKRTATGRETELHIVLNSLIPFDKMLPVIAAFDREQSGTRLRFTPGVLTGAWEK 137
             +  R K  A G E E+ I ++ + P  +++  + AF +      LR     L GA   
Sbjct: 71  DAMRARAKTLAQGLEAEVSIAVDVMFPNCRLVAALQAFQQRFPTVALRLRIEAL-GAVMH 129

Query: 138 LIEGRANLVIGVTLDGPEVVRTSGRFQMQELGAVDWVFAVAPQHPLASVIEPLSAELVRS 197
           L+ G+    IG+   GP ++  +  FQ Q  G++  +   AP HPLA +   +  E+ R 
Sbjct: 130 LV-GQRTCQIGIA--GP-MLDFADTFQSQPAGSITMLPVAAPSHPLAQMEGIIPTEIARD 185

Query: 198 HRAIAVGDNSQSLPTLTMGLLSGQETLTVATVADKLQAQLAGLGCGHLPRIWAAPYLASG 257
           +  + + D S+       G+++ ++   +  +  K      GLG G +P       L +G
Sbjct: 186 YTQLVLTDRSELTAGQNFGVVAVRD-WRLGDLGAKHMLLRNGLGWGSMPEEMIREDLDTG 244

Query: 258 ALVE--KQTLAAKPNDNFMVAWPKAEQGKSLKWFIQYL 293
            LV+   + L +      M+       G++ +W +QYL
Sbjct: 245 RLVQLKLEHLISGEYTLHMINRLDEAPGQAGRWLMQYL 282


>gi|134095322|ref|YP_001100397.1| methionine biosynthesis
           [Herminiimonas arsenicoxydans]
          Length = 306

 Score = 59.7 bits (143), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 52/183 (28%), Positives = 80/183 (43%), Gaps = 6/183 (3%)

Query: 3   LTLESLLILDMIDRKGSFAAAAVALDRVPSALTYSVRKLEDDLDVLLFDRRGHRAQLTPA 62
           L L  L  L  +   G+   AA  L+   SAL++ +++LED     LF+R+    + TPA
Sbjct: 5   LELRHLKTLIALREAGNLLRAASLLNVTQSALSHQLKQLEDHHGTQLFERKSVPVRFTPA 64

Query: 63  GLQLLQEGRHLLLAASDLEQRVKRTATGRETELHIVLNSLIPFDKMLPVIAAFDREQSGT 122
           G +LL+    +L   ++ E+ + R A G   +L I +     FD ++P +  F       
Sbjct: 65  GERLLKLADTVLPQVAETERDLVRLAQGVAGQLRIAVECHTCFDWLMPAMDVFRGRWPEV 124

Query: 123 RLRFTPGVLTGAWEKLIEGRANLVIGVTLDGPEVVRTSGRFQMQELGAVDWVFAVAPQHP 182
            L    G        L E RA++ I   +D  E V     F+ +       V  VA  HP
Sbjct: 125 ELDIVSGFQADPVGLLYEHRADVAIVAEIDPDETVDYHALFRFE------IVALVAHDHP 178

Query: 183 LAS 185
           LA 
Sbjct: 179 LAD 181


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.320    0.135    0.392 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 567,889
Number of extensions: 22231
Number of successful extensions: 78
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 77
Number of HSP's successfully gapped: 5
Length of query: 312
Length of database: 1,000,347
Length adjustment: 82
Effective length of query: 230
Effective length of database: 730,157
Effective search space: 167936110
Effective search space used: 167936110
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: 128 (53.9 bits)