GapMind for Amino acid biosynthesis

 

Alignments for a candidate for trpD_2 in Pedobacter sp. GW460-11-11-14-LB5

Align Anthranilate phosphoribosyltransferase; EC 2.4.2.18 (uncharacterized)
to candidate CA265_RS05010 CA265_RS05010 anthranilate phosphoribosyltransferase

Query= curated2:A6GWZ4
         (330 letters)



>FitnessBrowser__Pedo557:CA265_RS05010
          Length = 329

 Score =  389 bits (998), Expect = e-113
 Identities = 193/326 (59%), Positives = 253/326 (77%), Gaps = 1/326 (0%)

Query: 1   MKNILNRLINHETLSKQEAKNMLVNISNGSYNPSQIASFLTVYMMRNITINELAGFREAL 60
           MK ILN L  +++ S++EAKN+L++IS G++N SQIA+F+T Y MRNIT+ EL GFR+A+
Sbjct: 1   MKKILNHLFENKSFSREEAKNILISISEGAFNSSQIAAFITAYAMRNITVQELQGFRDAM 60

Query: 61  LELCIPIDLSAYNTIDLCGTGGDGKDTFNISTLASFVTAGAGIKVAKHGNYGVSSISGSS 120
           L++C+ ++LS Y+ IDLCGTGGDGKDTFNISTL+SFV AGAG  VAKHGNYGVSS  GSS
Sbjct: 61  LDMCVKVNLSGYDLIDLCGTGGDGKDTFNISTLSSFVVAGAGHHVAKHGNYGVSSGCGSS 120

Query: 121 NVMENLGIKFSNDPIFLEKCIDQAGICVLHAPLFHPAMKNVAPIRKELAVKTFFNMLGPM 180
           NVME LG  F+N+   L++ +D AGIC LHAPLF+PAMK VAPIRKEL VKTFFNMLGPM
Sbjct: 121 NVMEYLGYTFTNNEDTLKRNLDAAGICFLHAPLFNPAMKIVAPIRKELGVKTFFNMLGPM 180

Query: 181 VNPSFPKNQLVGVFNLELARMYSYLYQNTKTNYTILHSLDGYDEISLTGNTKTITNKMEG 240
           VNP  PK Q+VGVF+LELAR+Y+YLYQ+T  +YTI+H+L+GYDE+SLT + KT +NK E 
Sbjct: 181 VNPGQPKYQMVGVFSLELARLYAYLYQDTDKSYTIVHALEGYDEVSLTCDVKTFSNKGEQ 240

Query: 241 MLKPEDFGVNLLSQTDIQGGTTIQESAQMFVTILSGKGTEAQNNVVCANAGMAIATVNNL 300
           +L  +D G + +    I+GG T++ SA++F+ +L+GK T+ QNNVV  N+ +AI T+   
Sbjct: 241 ILTLQDMGFDKVEVNAIKGGDTVESSAKIFMDVLNGKATDVQNNVVLCNSALAIKTIKPQ 300

Query: 301 NPIQG-FELAKESLLSGKGLETLKKL 325
                 F  A+ESL+S K L + K+L
Sbjct: 301 QSFADCFYEAEESLMSKKALNSFKQL 326


Lambda     K      H
   0.317    0.133    0.375 

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: 370
Number of extensions: 16
Number of successful extensions: 1
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: 330
Length of database: 329
Length adjustment: 28
Effective length of query: 302
Effective length of database: 301
Effective search space:    90902
Effective search space used:    90902
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)

Align candidate CA265_RS05010 CA265_RS05010 (anthranilate phosphoribosyltransferase)
to HMM TIGR01245 (trpD: anthranilate phosphoribosyltransferase (EC 2.4.2.18))

Software error:

../bin/blast/fastacmd -i /tmp/list.5468.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.5468.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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