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= 0001.4416.p
         (301 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134093821|ref|YP_001098896.1| putative LysR-type regulator [H...   110   1e-25
gi|134095322|ref|YP_001100397.1| methionine biosynthesis [Hermin...    57   2e-09
gi|134094924|ref|YP_001099999.1| transcriptional regulator [Herm...    56   2e-09

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

 Score =  110 bits (274), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 79/258 (30%), Positives = 131/258 (50%), Gaps = 8/258 (3%)

Query: 8   VKVFLAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPTELARALE 67
           ++VF+AV+D GSFS AAR+L R  S +S TI+ LEA+L++ LFDR+ R    TE  +AL 
Sbjct: 1   MRVFVAVIDYGSFSKAARELHRTQSVISYTIANLEAQLNVALFDRSKRKPTLTEAGKALL 60

Query: 68  PDARLLASTLRQLDAHALAMHQGLERKLTLAIAPELLSVPWARPLAVLAA---EFPSLEV 124
            DAR +   +  + A A  + QGLE ++++A+    +  P  R +A L A    FP++ +
Sbjct: 61  ADARTVGLKVDAMRARAKTLAQGLEAEVSIAVD---VMFPNCRLVAALQAFQQRFPTVAL 117

Query: 125 EVLSSPQADAMQMLYDNTAQLALVFERHAGDDSEAFQELSSEMMVAVIAPDHPARLRKKR 184
            +        M ++   T Q+ +        D+   Q   S  M+ V AP HP   + + 
Sbjct: 118 RLRIEALGAVMHLVGQRTCQIGIAGPMLDFADTFQSQPAGSITMLPVAAPSHPLA-QMEG 176

Query: 185 KLRYEDLYDIRQIAVASRDASISDPRF-FLARHIWRTDNHLATLSLVREGLGWAYLPHSL 243
            +  E   D  Q+ +  R    +   F  +A   WR  +  A   L+R GLGW  +P  +
Sbjct: 177 IIPTEIARDYTQLVLTDRSELTAGQNFGVVAVRDWRLGDLGAKHMLLRNGLGWGSMPEEM 236

Query: 244 VQAQIEAGTLVVIDFDNI 261
           ++  ++ G LV +  +++
Sbjct: 237 IREDLDTGRLVQLKLEHL 254


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

 Score = 56.6 bits (135), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 51/186 (27%), Positives = 92/186 (49%), Gaps = 5/186 (2%)

Query: 7   NVKVFLAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPTELARAL 66
           ++K  +A+ ++G+   AA  L    S++S  + QLE     QLF+R +   R T     L
Sbjct: 9   HLKTLIALREAGNLLRAASLLNVTQSALSHQLKQLEDHHGTQLFERKSVPVRFTPAGERL 68

Query: 67  EPDARLLASTLRQLDAHALAMHQGLERKLTLAIAPELLSVPWARP-LAVLAAEFPSLEVE 125
              A  +   + + +   + + QG+  +L +A+        W  P + V    +P +E++
Sbjct: 69  LKLADTVLPQVAETERDLVRLAQGVAGQLRIAVECH-TCFDWLMPAMDVFRGRWPEVELD 127

Query: 126 VLSSPQADAMQMLYDNTAQLALVFERHAGDDSEAFQELSSEMMVAVIAPDHPARLRKKRK 185
           ++S  QAD + +LY++ A +A+V E    D++  +  L    +VA++A DHP  L  K  
Sbjct: 128 IVSGFQADPVGLLYEHRADVAIVAEIDP-DETVDYHALFRFEIVALVAHDHP--LADKEF 184

Query: 186 LRYEDL 191
           L  ED 
Sbjct: 185 LVAEDF 190


>gi|134094924|ref|YP_001099999.1| transcriptional regulator
           [Herminiimonas arsenicoxydans]
          Length = 293

 Score = 56.2 bits (134), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/134 (32%), Positives = 71/134 (52%), Gaps = 6/134 (4%)

Query: 1   MAFSSDNVKVFLAVLDSGSFSAAARQLGRVPSSVSMTISQLEAELDLQLFDRTARDARPT 60
           M  +SD++K F+AV+DSG+  AAA+ LG+  S+VS  +S+LE +L   L  RT R    T
Sbjct: 1   MDINSDDLKTFVAVIDSGTLGAAAQHLGQTTSAVSRGLSRLEEKLATSLLTRTTRRMELT 60

Query: 61  ELARALEPDARLLASTLRQLDAHALAMHQGLERKLTL-AIAPELLS--VPWARPLAVLAA 117
           +  R     AR + + + + +       Q    +L + A AP +L   VP    +A   A
Sbjct: 61  DEGRLFLKKARAILAAMDEAEEAIRVRRQQPSGRLRIDAAAPFILHAIVPH---VAEFRA 117

Query: 118 EFPSLEVEVLSSPQ 131
            +P + +E+ S+ Q
Sbjct: 118 LYPQITLELTSNDQ 131


  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
   0.321    0.132    0.378 

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: 532,478
Number of extensions: 20342
Number of successful extensions: 91
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 91
Number of HSP's successfully gapped: 3
Length of query: 301
Length of database: 1,000,347
Length adjustment: 81
Effective length of query: 220
Effective length of database: 733,452
Effective search space: 161359440
Effective search space used: 161359440
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: 128 (53.9 bits)