BacMap

Definition	Geobacter metallireducens GS-15 chromosome, complete genome.
Accession	NC_007517
Length	3,997,420

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The map label for this gene is lgrD [H]

Identifier: 78223227

GI number: 78223227

Start: 2260126

End: 2261697

Strand: Reverse

Name: lgrD [H]

Synonym: Gmet_2020

Alternate gene names: 78223227

Gene position: 2261697-2260126 (Counterclockwise)

Preceding gene: 78223228

Following gene: 78223226

Centisome position: 56.58

GC content: 61.51

Gene sequence:

>1572_bases
ATGAGTCTGAGACCGTATCTGCTAGGCCATCTGCTGGAAGACACCGCCGCGCGGTTGCCCGATAAGGTTGCTGTCAAGCA
CCACGACCGGACCATCACCTATGCCCAACTGCACGAGGAAGCGCTCAAGATGAAGGGGCTTATCCGCGGGCTCGGCATCA
AGCGGGGCGAGCGGGTCGGCATCTACCTCGACAAGTCCATCGAGCAGCTCACCGCCATGTTCGGCGCCACCCTGGCCGGG
GCGGTCTTTGTCTTCATCAACCCCATCCTCAAGAAAGAGCAGATCGAATACATCGTCAACGATTGCCAGATCCAGCTCAT
GATCACCACCAGCGAGCTGTTCCGCAAGAACCACCTGGCCGCGCCCGGAAAGCTCATCCATGTGGACGAGCCGGAGCACG
ACCGGGAAGGGCACCCCTGCTGGCCCAAGCTCAAGGCAACGCTCCCGGCTGATTACACCCCCGTTCCCGGCTTCTCCCCG
GACATCGCCTGCCTCATCTACACCTCCGGTTCCACCGGCATGCCCAAGGGGGTGGTGGTGCCCCACAGCACCGTGGTGGA
CGGGGCCGAGATCGTCAGCACCTACCTGGAGATCACCGAGAAGGACCGGATTATCAGCGTCCTTCCCTTCAACTTCGACT
ACGGCCTCAACCAGGCCACCACCGCCGTCCTCCACGGCGCGACCCTGGTGCTGCACCAGTTCGTCATGGTCAAGGATCTC
CTGGACCTCCTCGTCAAGGAAGAGATCACCGGCTTTGCCGGCATGCCCCCTATCTGGGCCAAGCTCTTCAACGACAAGAT
CAAGCTCACCTACAACTCCGACTTCCCCCACCTGCGCTACCTCACCAACAGCGGCGGCAAGGTGCCCCGGATCATGGTCT
CCCGCATCCGCGAGTTTTTCTCCAACTCCCGGCTCTTCCTCATGTACGGGCTCACCGAAGCATTCCGCTCCACCTTCCTT
CCCCCCGAGGAGCTTGACCGCCGGCCCGACTCCATTGGCAAGGGGATTCCCAACGTGGAGATCCTGGTGGTGAACGCCAA
GGGCGAAGAGTGTGCCCCGGGCGAAGAGGGGGAGCTGGTCCACCGTGGCGCCCTCATCACCCACGGCTACTGGAACGACC
CGGAAAAGACCAAGGTGATCTTCCGGAAGAATCCCCGTTTCCACGATCAGCCCCACCTGCACGAGACCGTGGTCTACTCC
GGCGACATCGTGAAGAAGGACGAGGACGGCTTCCTCTACTACGTCTCCCGCCGCGACGAGATGATCAAGACCTCCGGCTA
CCGGGTGAGCCCCACCGAGGTTGAAGAGGTGCTCATCGGCTTGCCTGGCGTGAGCAACGTGGTTGTCTTCGGCAAGGAAG
TGGAGTCGGGCGACCAGATCATCGTGGCGGTCATGGAGACTGACCACGAGGAGGAACACAAGAAGGAGCTGCTCAAGGAG
TGCCGCAAGCGGCTCCCCACCTACATGGTCCCCCAGGAGATTCACTTCGAGAAGGCGTTCAGGAAAACCGCCAACGGCAA
GATTGACCGCTCGGGGATCAAGAAAGAGTGGCTGGCGGCAGGGAAGAATTGA

Upstream 100 bases:

>100_bases
AGACCTTTGACGTCGAATTCGACGTTGATGACATGACCGTCGAAAAGCTTGGCACCGTAACGGCCATTTCGAGCCTGATC
ACATCCAAGAGGGGGGAAGC

Downstream 100 bases:

>100_bases
TGATCCTGACGGAACAAAACGGCAAAACCTGCCTGCGGAATATCTGCTTCGAGGAGCTTGCCGCGCGCTATGGCACCCCC
TTCTACCTCTACGACCTGGA

Product: AMP-dependent synthetase and ligase

Products: AMP; diphosphate +an acyl-CoA [C]

Alternate protein names: ATP-dependent tryptophan adenylase; TrpA; Tryptophan activase; ATP-dependent D-leucine adenylase; D-LeuA; D-Leucine activase; Leucine racemase [ATP-hydrolyzing]; ATP-dependent tryptophan adenylase; TrpA; Tryptophan activase; ATP-dependent glycine adenylase; GlyA; Glycine activase; Linear gramicidin--PCP reductase [H]

Number of amino acids: Translated: 523; Mature: 522

Protein sequence:

>523_residues
MSLRPYLLGHLLEDTAARLPDKVAVKHHDRTITYAQLHEEALKMKGLIRGLGIKRGERVGIYLDKSIEQLTAMFGATLAG
AVFVFINPILKKEQIEYIVNDCQIQLMITTSELFRKNHLAAPGKLIHVDEPEHDREGHPCWPKLKATLPADYTPVPGFSP
DIACLIYTSGSTGMPKGVVVPHSTVVDGAEIVSTYLEITEKDRIISVLPFNFDYGLNQATTAVLHGATLVLHQFVMVKDL
LDLLVKEEITGFAGMPPIWAKLFNDKIKLTYNSDFPHLRYLTNSGGKVPRIMVSRIREFFSNSRLFLMYGLTEAFRSTFL
PPEELDRRPDSIGKGIPNVEILVVNAKGEECAPGEEGELVHRGALITHGYWNDPEKTKVIFRKNPRFHDQPHLHETVVYS
GDIVKKDEDGFLYYVSRRDEMIKTSGYRVSPTEVEEVLIGLPGVSNVVVFGKEVESGDQIIVAVMETDHEEEHKKELLKE
CRKRLPTYMVPQEIHFEKAFRKTANGKIDRSGIKKEWLAAGKN

Sequences:

>Translated_523_residues
MSLRPYLLGHLLEDTAARLPDKVAVKHHDRTITYAQLHEEALKMKGLIRGLGIKRGERVGIYLDKSIEQLTAMFGATLAG
AVFVFINPILKKEQIEYIVNDCQIQLMITTSELFRKNHLAAPGKLIHVDEPEHDREGHPCWPKLKATLPADYTPVPGFSP
DIACLIYTSGSTGMPKGVVVPHSTVVDGAEIVSTYLEITEKDRIISVLPFNFDYGLNQATTAVLHGATLVLHQFVMVKDL
LDLLVKEEITGFAGMPPIWAKLFNDKIKLTYNSDFPHLRYLTNSGGKVPRIMVSRIREFFSNSRLFLMYGLTEAFRSTFL
PPEELDRRPDSIGKGIPNVEILVVNAKGEECAPGEEGELVHRGALITHGYWNDPEKTKVIFRKNPRFHDQPHLHETVVYS
GDIVKKDEDGFLYYVSRRDEMIKTSGYRVSPTEVEEVLIGLPGVSNVVVFGKEVESGDQIIVAVMETDHEEEHKKELLKE
CRKRLPTYMVPQEIHFEKAFRKTANGKIDRSGIKKEWLAAGKN
>Mature_522_residues
SLRPYLLGHLLEDTAARLPDKVAVKHHDRTITYAQLHEEALKMKGLIRGLGIKRGERVGIYLDKSIEQLTAMFGATLAGA
VFVFINPILKKEQIEYIVNDCQIQLMITTSELFRKNHLAAPGKLIHVDEPEHDREGHPCWPKLKATLPADYTPVPGFSPD
IACLIYTSGSTGMPKGVVVPHSTVVDGAEIVSTYLEITEKDRIISVLPFNFDYGLNQATTAVLHGATLVLHQFVMVKDLL
DLLVKEEITGFAGMPPIWAKLFNDKIKLTYNSDFPHLRYLTNSGGKVPRIMVSRIREFFSNSRLFLMYGLTEAFRSTFLP
PEELDRRPDSIGKGIPNVEILVVNAKGEECAPGEEGELVHRGALITHGYWNDPEKTKVIFRKNPRFHDQPHLHETVVYSG
DIVKKDEDGFLYYVSRRDEMIKTSGYRVSPTEVEEVLIGLPGVSNVVVFGKEVESGDQIIVAVMETDHEEEHKKELLKEC
RKRLPTYMVPQEIHFEKAFRKTANGKIDRSGIKKEWLAAGKN

Specific function: Activates the 13th to the 16th (Trp, D-Leu, Trp and Gly) amino acids in linear gramicidin and catalyzes the formation of the peptide bond between them. This enzyme is also responsible for the epimerization of the 14th (D-Leu) amino acid. It also catalyzes

COG id: COG0318

COG function: function code IQ; Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II

Gene ontology:

Cell location: Partially Membrane-Associated [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 4 acyl carrier domains [H]

Homologues:

Organism=Homo sapiens, GI156151445, Length=570, Percent_Identity=24.3859649122807, Blast_Score=161, Evalue=1e-39,
Organism=Homo sapiens, GI187761345, Length=549, Percent_Identity=26.9581056466302, Blast_Score=135, Evalue=8e-32,
Organism=Homo sapiens, GI187761343, Length=549, Percent_Identity=26.9581056466302, Blast_Score=135, Evalue=8e-32,
Organism=Homo sapiens, GI157311624, Length=538, Percent_Identity=24.1635687732342, Blast_Score=117, Evalue=3e-26,
Organism=Homo sapiens, GI157311622, Length=538, Percent_Identity=24.1635687732342, Blast_Score=117, Evalue=3e-26,
Organism=Homo sapiens, GI42544132, Length=500, Percent_Identity=25.2, Blast_Score=115, Evalue=8e-26,
Organism=Homo sapiens, GI58082049, Length=538, Percent_Identity=23.0483271375465, Blast_Score=112, Evalue=6e-25,
Organism=Homo sapiens, GI38505220, Length=507, Percent_Identity=23.8658777120316, Blast_Score=108, Evalue=2e-23,
Organism=Homo sapiens, GI115511026, Length=494, Percent_Identity=23.6842105263158, Blast_Score=105, Evalue=1e-22,
Organism=Homo sapiens, GI122937307, Length=495, Percent_Identity=22.8282828282828, Blast_Score=97, Evalue=4e-20,
Organism=Escherichia coli, GI1788107, Length=552, Percent_Identity=27.1739130434783, Blast_Score=166, Evalue=5e-42,
Organism=Escherichia coli, GI145693145, Length=529, Percent_Identity=25.7088846880907, Blast_Score=140, Evalue=2e-34,
Organism=Escherichia coli, GI221142682, Length=498, Percent_Identity=25.1004016064257, Blast_Score=130, Evalue=2e-31,
Organism=Escherichia coli, GI1786801, Length=524, Percent_Identity=24.236641221374, Blast_Score=126, Evalue=3e-30,
Organism=Escherichia coli, GI1790505, Length=537, Percent_Identity=24.5810055865922, Blast_Score=103, Evalue=2e-23,
Organism=Escherichia coli, GI1786810, Length=526, Percent_Identity=21.2927756653992, Blast_Score=97, Evalue=2e-21,
Organism=Escherichia coli, GI1789201, Length=478, Percent_Identity=24.0585774058577, Blast_Score=91, Evalue=2e-19,
Organism=Caenorhabditis elegans, GI71994694, Length=557, Percent_Identity=25.8527827648115, Blast_Score=145, Evalue=7e-35,
Organism=Caenorhabditis elegans, GI71994703, Length=557, Percent_Identity=25.8527827648115, Blast_Score=144, Evalue=8e-35,
Organism=Caenorhabditis elegans, GI71994690, Length=557, Percent_Identity=25.8527827648115, Blast_Score=144, Evalue=8e-35,
Organism=Caenorhabditis elegans, GI17560308, Length=561, Percent_Identity=25.1336898395722, Blast_Score=134, Evalue=1e-31,
Organism=Caenorhabditis elegans, GI115534440, Length=550, Percent_Identity=25.4545454545455, Blast_Score=129, Evalue=3e-30,
Organism=Caenorhabditis elegans, GI17531443, Length=530, Percent_Identity=23.3962264150943, Blast_Score=124, Evalue=2e-28,
Organism=Caenorhabditis elegans, GI17557194, Length=380, Percent_Identity=27.3684210526316, Blast_Score=117, Evalue=2e-26,
Organism=Caenorhabditis elegans, GI32563687, Length=487, Percent_Identity=24.0246406570842, Blast_Score=116, Evalue=3e-26,
Organism=Caenorhabditis elegans, GI17559526, Length=559, Percent_Identity=24.3291592128801, Blast_Score=112, Evalue=4e-25,
Organism=Caenorhabditis elegans, GI17558820, Length=492, Percent_Identity=25, Blast_Score=110, Evalue=2e-24,
Organism=Caenorhabditis elegans, GI17538037, Length=375, Percent_Identity=24.2666666666667, Blast_Score=102, Evalue=6e-22,
Organism=Caenorhabditis elegans, GI71996755, Length=528, Percent_Identity=24.4318181818182, Blast_Score=98, Evalue=9e-21,
Organism=Caenorhabditis elegans, GI17560140, Length=485, Percent_Identity=22.4742268041237, Blast_Score=96, Evalue=6e-20,
Organism=Caenorhabditis elegans, GI71985884, Length=359, Percent_Identity=23.1197771587744, Blast_Score=95, Evalue=9e-20,
Organism=Saccharomyces cerevisiae, GI6319699, Length=502, Percent_Identity=25.0996015936255, Blast_Score=139, Evalue=2e-33,
Organism=Saccharomyces cerevisiae, GI6319264, Length=533, Percent_Identity=23.0769230769231, Blast_Score=96, Evalue=1e-20,
Organism=Saccharomyces cerevisiae, GI6324893, Length=347, Percent_Identity=25.0720461095101, Blast_Score=74, Evalue=7e-14,
Organism=Drosophila melanogaster, GI24581924, Length=541, Percent_Identity=25.8780036968577, Blast_Score=127, Evalue=1e-29,
Organism=Drosophila melanogaster, GI18859661, Length=510, Percent_Identity=25.6862745098039, Blast_Score=122, Evalue=6e-28,
Organism=Drosophila melanogaster, GI21356441, Length=471, Percent_Identity=25.2653927813163, Blast_Score=122, Evalue=6e-28,
Organism=Drosophila melanogaster, GI21356947, Length=499, Percent_Identity=23.2464929859719, Blast_Score=122, Evalue=7e-28,
Organism=Drosophila melanogaster, GI19922652, Length=497, Percent_Identity=23.5412474849095, Blast_Score=118, Evalue=1e-26,
Organism=Drosophila melanogaster, GI24648260, Length=490, Percent_Identity=23.0612244897959, Blast_Score=117, Evalue=2e-26,
Organism=Drosophila melanogaster, GI21358303, Length=484, Percent_Identity=22.9338842975207, Blast_Score=116, Evalue=4e-26,
Organism=Drosophila melanogaster, GI24648257, Length=541, Percent_Identity=23.4750462107209, Blast_Score=109, Evalue=4e-24,
Organism=Drosophila melanogaster, GI281365686, Length=509, Percent_Identity=20.0392927308448, Blast_Score=105, Evalue=8e-23,
Organism=Drosophila melanogaster, GI24656500, Length=508, Percent_Identity=22.6377952755905, Blast_Score=105, Evalue=1e-22,
Organism=Drosophila melanogaster, GI24653035, Length=503, Percent_Identity=22.6640159045726, Blast_Score=100, Evalue=3e-21,
Organism=Drosophila melanogaster, GI28573631, Length=556, Percent_Identity=21.7625899280576, Blast_Score=99, Evalue=5e-21,
Organism=Drosophila melanogaster, GI20130353, Length=556, Percent_Identity=21.7625899280576, Blast_Score=99, Evalue=6e-21,
Organism=Drosophila melanogaster, GI21355181, Length=538, Percent_Identity=22.4907063197026, Blast_Score=98, Evalue=1e-20,
Organism=Drosophila melanogaster, GI24648676, Length=575, Percent_Identity=23.1304347826087, Blast_Score=96, Evalue=4e-20,
Organism=Drosophila melanogaster, GI161076582, Length=503, Percent_Identity=22.0675944333996, Blast_Score=95, Evalue=1e-19,
Organism=Drosophila melanogaster, GI24648253, Length=498, Percent_Identity=22.0883534136546, Blast_Score=93, Evalue=4e-19,
Organism=Drosophila melanogaster, GI24648255, Length=498, Percent_Identity=21.8875502008032, Blast_Score=91, Evalue=2e-18,
Organism=Drosophila melanogaster, GI20130357, Length=533, Percent_Identity=21.5759849906191, Blast_Score=87, Evalue=2e-17,
Organism=Drosophila melanogaster, GI19921316, Length=495, Percent_Identity=24.4444444444444, Blast_Score=77, Evalue=3e-14,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR010071
- InterPro:   IPR009081
- InterPro:   IPR020845
- InterPro:   IPR000873
- InterPro:   IPR001242
- InterPro:   IPR013120
- InterPro:   IPR016040
- InterPro:   IPR010060
- InterPro:   IPR006163
- InterPro:   IPR020806
- InterPro:   IPR006162
- InterPro:   IPR010080 [H]

Pfam domain/function: PF00501 AMP-binding; PF00668 Condensation; PF07993 NAD_binding_4; PF00550 PP-binding [H]

EC number: 6.2.1.3 [C]

Molecular weight: Translated: 58964; Mature: 58833

Theoretical pI: Translated: 6.96; Mature: 6.96

Prosite motif: PS00455 AMP_BINDING

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.0 %Cys     (Translated Protein)
2.3 %Met     (Translated Protein)
3.3 %Cys+Met (Translated Protein)
1.0 %Cys     (Mature Protein)
2.1 %Met     (Mature Protein)
3.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSLRPYLLGHLLEDTAARLPDKVAVKHHDRTITYAQLHEEALKMKGLIRGLGIKRGERVG
CCCCHHHHHHHHHHHHHHCCCCEEEEECCCEEHHHHHHHHHHHHHHHHHHCCCCCCCEEE
IYLDKSIEQLTAMFGATLAGAVFVFINPILKKEQIEYIVNDCQIQLMITTSELFRKNHLA
EEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEECHHHHHHCCCC
APGKLIHVDEPEHDREGHPCWPKLKATLPADYTPVPGFSPDIACLIYTSGSTGMPKGVVV
CCCEEEECCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCEEC
PHSTVVDGAEIVSTYLEITEKDRIISVLPFNFDYGLNQATTAVLHGATLVLHQFVMVKDL
CCHHHCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
LDLLVKEEITGFAGMPPIWAKLFNDKIKLTYNSDFPHLRYLTNSGGKVPRIMVSRIREFF
HHHHHHHHHCCCCCCCHHHHHHCCCEEEEEECCCCCEEEEEECCCCCCHHHHHHHHHHHH
SNSRLFLMYGLTEAFRSTFLPPEELDRRPDSIGKGIPNVEILVVNAKGEECAPGEEGELV
CCCCEEEEECHHHHHHHHCCCHHHHCCCCHHHHCCCCCEEEEEEECCCCCCCCCCCCCEE
HRGALITHGYWNDPEKTKVIFRKNPRFHDQPHLHETVVYSGDIVKKDEDGFLYYVSRRDE
ECCEEEECCCCCCCCCEEEEEECCCCCCCCCCCHHEEEECCCEEEECCCCEEEEEECCCC
MIKTSGYRVSPTEVEEVLIGLPGVSNVVVFGKEVESGDQIIVAVMETDHEEEHKKELLKE
HHHCCCCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEEECCCCHHHHHHHHHHH
CRKRLPTYMVPQEIHFEKAFRKTANGKIDRSGIKKEWLAAGKN
HHHHCCCEECCHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCC
>Mature Secondary Structure 
SLRPYLLGHLLEDTAARLPDKVAVKHHDRTITYAQLHEEALKMKGLIRGLGIKRGERVG
CCCHHHHHHHHHHHHHHCCCCEEEEECCCEEHHHHHHHHHHHHHHHHHHCCCCCCCEEE
IYLDKSIEQLTAMFGATLAGAVFVFINPILKKEQIEYIVNDCQIQLMITTSELFRKNHLA
EEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEECHHHHHHCCCC
APGKLIHVDEPEHDREGHPCWPKLKATLPADYTPVPGFSPDIACLIYTSGSTGMPKGVVV
CCCEEEECCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCEEC
PHSTVVDGAEIVSTYLEITEKDRIISVLPFNFDYGLNQATTAVLHGATLVLHQFVMVKDL
CCHHHCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
LDLLVKEEITGFAGMPPIWAKLFNDKIKLTYNSDFPHLRYLTNSGGKVPRIMVSRIREFF
HHHHHHHHHCCCCCCCHHHHHHCCCEEEEEECCCCCEEEEEECCCCCCHHHHHHHHHHHH
SNSRLFLMYGLTEAFRSTFLPPEELDRRPDSIGKGIPNVEILVVNAKGEECAPGEEGELV
CCCCEEEEECHHHHHHHHCCCHHHHCCCCHHHHCCCCCEEEEEEECCCCCCCCCCCCCEE
HRGALITHGYWNDPEKTKVIFRKNPRFHDQPHLHETVVYSGDIVKKDEDGFLYYVSRRDE
ECCEEEECCCCCCCCCEEEEEECCCCCCCCCCCHHEEEECCCEEEECCCCEEEEEECCCC
MIKTSGYRVSPTEVEEVLIGLPGVSNVVVFGKEVESGDQIIVAVMETDHEEEHKKELLKE
HHHCCCCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEEECCCCHHHHHHHHHHH
CRKRLPTYMVPQEIHFEKAFRKTANGKIDRSGIKKEWLAAGKN
HHHHCCCEECCHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha Beta

Cofactors: NA

Metal ions: Salts [C]

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): 0.0024 {myristate}} 0.0021 {myristate}} 0.0012 {myristate}} 0.0002 {myristate}} 0.0408 {octanoate}} 0.0125 {octanoate}} 0.0059 {octanoate}} 0.00072 {octanoate}} 0.0112 {hexanoate}} 0.0083 {decanoate}} 0.0063 {decanoate}} 0.0043 {dec

Substrates: ATP; a long-chain carboxylic acid; CoA [C]

Specific reaction: ATP + a long-chain carboxylic acid + CoA = AMP + diphosphate +an acyl-CoA [C]

General reaction: Acid-thiol ligation; Phosphorylation [C]

Inhibitor: NA

Structure determination priority: 6.0

TargetDB status: NA

Availability: NA

References: NA