KEGG ENZYME: 6.3.2.59

ENZYME: 6.3.2.59

Entry

EC 6.3.2.59                 Enzyme

Name

3-methyl-D-ornithine---L-lysine ligase;
N6-[(2R,3R)-3-methylornithyl]-L-lysine synthase;
3-methylornithine---L-lysine ligase;
pylC (gene name)

Class

Ligases;
Forming carbon-nitrogen bonds;
Acid-D-amino-acid ligases (peptide synthases)

Sysname

(3R)-3-methyl-D-ornithine:L-lysine gamma-ligase (ADP-forming)

Reaction(IUBMB)

ATP + (3R)-3-methyl-D-ornithine + L-lysine = ADP + phosphate + N6-[(3R)-3-methyl-D-ornithinyl]-L-lysine [RN:R10011]

Reaction(KEGG)

R10011

Substrate

ATP [CPD:C00002];
(3R)-3-methyl-D-ornithine [CPD:C20277];
L-lysine [CPD:C00047]

Product

ADP [CPD:C00008];
phosphate [CPD:C00009];
N6-[(3R)-3-methyl-D-ornithinyl]-L-lysine [CPD:C20278]

Comment

The enzyme participates in the biosynthesis of L-pyrrolysine, a naturally occurring, genetically coded amino acid found in some methanogenic archaea and a few bacterial species. L-pyrrolysine is present in several methyltransferases that are involved in methyl transfer from methylated amine compounds to coenzyme M.

History

EC 6.3.2.59 created 2021

Pathway

ec00300

Lysine biosynthesis

ec01100

Metabolic pathways

ec01120

Microbial metabolism in diverse environments

Orthology

K16181

3-methylornithine--L-lysine ligase

Genes

BIE:	RFF05_08760(pylC)

DSY:

DSY4957

DHD:

Dhaf_4856

DDH:	Desde_0575

DOR:	Desor_1624 Desor_3053

DMI:	Desmer_1593

DAE:

Dtox_0029

FWA:	DCMF_28150 DCMF_28350

AACX:

DEACI_4243

TJR:	TherJR_0024

DGI:	Desgi_3924

ELIM:

B2M23_05180

WHJ:	H9Q79_07360(pylC)

AMIJ:

EQM06_09280(pylC)

AMIC:

Ami3637_11540(pylC)

ABUT:

Ami103574_12090(pylC)

ETM:	CE91St48_13130

EMJ:	V1225_13065(pylC)

AHAD:

FRZ06_02700

TPZ:	Tph_c24760

AAR:	Acear_0359

MANA:

MAMMFC1_01956

SSPH:

SPSPH_029830(pylC) SPSPH_029980(pylC)

SOVA:

SOV_01680(pylC)

SSID:

SPSIL_001500(purK)

SACV:

SPACI_001440 SPACI_039550(purK) SPACI_044130

MBA:	Mbar_A0837

MBY:	MSBRM_0157

MBW:	MSBRW_0164

MBAR:

MSBR2_2224

MBAK:

MSBR3_2275

MAC:

MA_0153

MMA:

MM_1443

MMAZ:

MmTuc01_1501

MMJ:	MSMAS_3221

MMAC:

MSMAC_3243

MVC:	MSVAZ_3359

MEK:	MSKOL_3318

MLS:	MSLAZ_3209

METM:

MSMTP_3121

MEF:	MSWH1_3070

MEQ:	MSWHS_3281

MSJ:	MSSAC_0135

MSZ:	MSSIH_0122

MSW:	MSSIT_0126

MTHR:

MSTHT_1932

MTHE:

MSTHC_1351

MHOR:

MSHOH_3967

MFZ:	AOB57_008960(pylC)

MHAB:

RSJ42_16640(pylC)

METW:

AAY43_03705

MBU:	Mbur_2084(pylC)

MMET:

MCMEM_0283

MELO:

J7W08_11510(pylC)

MMH:

Mmah_0281

MHAZ:

BHR79_02115

MPOT:

BKM01_06290

MEV:	Metev_0936

MZH:	Mzhil_1027

MPY:

Mpsy_1723

MZI:	HWN40_00975(pylC)

MMAV:

RE476_10050(pylC)

MSEB:

RE474_06595(pylC)

MHZ:	Metho_0020

MEHF:

MmiHf6_12400

MEES:

MmiEs2_14450

MEAM:

MU439_03275

MEAE:

QEN48_07095

TAR:	TALC_01090

MAX:	MMALV_11270

MER:	MMINT_08910

MEAR:

Mpt1_c05680(pylC)

MEUZ:

KRP56_05615(pylC)

MARC:

AR505_1323

» show all

Reference

1 [PMID:21455182]

Authors

Gaston MA, Zhang L, Green-Church KB, Krzycki JA

Title

The complete biosynthesis of the genetically encoded amino acid pyrrolysine from lysine.

Journal

Nature 471:647-50 (2011)
DOI:10.1038/nature09918

Reference

2 [PMID:21525873]

Authors

Cellitti SE, Ou W, Chiu HP, Grunewald J, Jones DH, Hao X, Fan Q, Quinn LL, Ng K, Anfora AT, Lesley SA, Uno T, Brock A, Geierstanger BH.

Title

D-Ornithine coopts pyrrolysine biosynthesis to make and insert pyrroline-carboxy-lysine.

Journal

Nat Chem Biol 7:528-30 (2011)
DOI:10.1038/nchembio.586

Reference

3 [PMID:22985965]

Authors

Quitterer F, List A, Beck P, Bacher A, Groll M.

Title

Biosynthesis of the 22nd genetically encoded amino acid pyrrolysine: structure and reaction mechanism of PylC at 1.5A resolution.

Journal

J Mol Biol 424:270-82 (2012)
DOI:10.1016/j.jmb.2012.09.007

Sequence

[mba:Mbar_A0837]

Other DBs

ExplorEnz - The Enzyme Database:

6.3.2.59

IUBMB Enzyme Nomenclature:

6.3.2.59

ExPASy - ENZYME nomenclature database:

6.3.2.59

BRENDA, the Enzyme Database:

6.3.2.59

LinkDB

DBGET integrated database retrieval system