GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvE in Acidovorax sp. GW101-3H11

Align Branched-chain amino acid aminotransferase (EC 2.6.1.42) (characterized)
to candidate Ac3H11_3369 Branched-chain amino acid aminotransferase (EC 2.6.1.42)

Query= reanno::BFirm:BPHYT_RS16285
         (307 letters)



>FitnessBrowser__acidovorax_3H11:Ac3H11_3369
          Length = 305

 Score =  458 bits (1178), Expect = e-134
 Identities = 217/306 (70%), Positives = 260/306 (84%), Gaps = 2/306 (0%)

Query: 3   MADRDGKIWMDGKLIDWRDAKIHVLTHTLHYGMGVFEGVRAYKTADGGTAIFRLQEHTKR 62
           MADRDGKIWMDG+++DWRDAKIHVLTHTLHYG G FEGVRAY TA+G TAIFRL+EHT R
Sbjct: 1   MADRDGKIWMDGQMVDWRDAKIHVLTHTLHYGCGAFEGVRAYNTANG-TAIFRLEEHTDR 59

Query: 63  LLNSAKIFQMDVPFDHETLAAAQCEVVRENKLESCYLRPIIWVGSEKLGVSAKGNTIHVA 122
           L NSAKI +M +PF  E +  AQ  VVRENKLESCYLRP+ W+GS+KLGVS KGN IH+ 
Sbjct: 60  LFNSAKILRMKIPFTKEEVNEAQKAVVRENKLESCYLRPLTWIGSQKLGVSPKGNQIHLM 119

Query: 123 IAAWPWGAYLGEDGIAKGIRVKTSSFTRHHVNVSMVRAKASGWYVNSILANQEAIADGYD 182
           +AAW WGAYLGE+G+ +GIRVKTSS+TRHHVN++M +AKA   Y NSILAN EA+ DGYD
Sbjct: 120 VAAWAWGAYLGEEGLKRGIRVKTSSYTRHHVNITMTQAKAVSNYTNSILANMEALDDGYD 179

Query: 183 EALLLDVDGYVSEGSGENFFLVNNGKLYTPDLSS-CLDGITRDTVITLARDAGIQVIEKR 241
           EALLLD  G+VSEG+GEN F++ NG +YTPDLS+  L+GITR+TV  +A+D G+++++KR
Sbjct: 180 EALLLDSSGFVSEGAGENIFVIKNGVIYTPDLSAGALNGITRNTVFHIAKDLGLEIVQKR 239

Query: 242 ITRDEVYTCDEAFFTGTAAEVTPIRELDNRTIGSGARGPITEKLQSGFFDIVNGKSDKYA 301
           ITRDEVY  DEAFFTGTAAEVTPIRELD   +GSG+RGPITEK+QS FFDIVNG++  YA
Sbjct: 240 ITRDEVYIADEAFFTGTAAEVTPIRELDRIELGSGSRGPITEKIQSAFFDIVNGRNSNYA 299

Query: 302 NWLTKI 307
           +WLTK+
Sbjct: 300 HWLTKV 305


Lambda     K      H
   0.319    0.136    0.411 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 384
Number of extensions: 4
Number of successful extensions: 3
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 307
Length of database: 305
Length adjustment: 27
Effective length of query: 280
Effective length of database: 278
Effective search space:    77840
Effective search space used:    77840
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: 48 (23.1 bits)

Align candidate Ac3H11_3369 (Branched-chain amino acid aminotransferase (EC 2.6.1.42))
to HMM TIGR01122 (ilvE: branched-chain amino acid aminotransferase (EC 2.6.1.42))

Software error:

../bin/blast/fastacmd -i /tmp/list.15997.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15997.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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