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Literature summary for 6.2.2.1 extracted from
- Enzymatic reconstitution of ribosomal peptide backbone thioamidation (2018), Proc. Natl. Acad. Sci. USA, 115, 3030-3035 .
Activating Compound
| Activating Compound | Comment | Organism | Structure |
|---|---|---|---|
| additional information | TfuA may allosterically activate the enzyme or assist in the delivery of sulfide to the substrate | Methanocaldococcus jannaschii | |
| additional information | TfuA may allosterically activate the enzyme or assist in the delivery of sulfide to the substrate | Methanosarcina acetivorans | |
| additional information | TfuA may allosterically activate the enzyme or assist in the delivery of sulfide to the substrate | Methanopyrus kandleri |
Cloned(Commentary)
| Cloned (Comment) | Organism |
|---|---|
| expressed in Escherichia coli BL21-RIPL (DE3) cells | Methanocaldococcus jannaschii |
| expressed in Escherichia coli BL21-RIPL (DE3) cells | Methanosarcina acetivorans |
| expressed in Escherichia coli BL21-RIPL (DE3) cells | Methanopyrus kandleri |
Crystallization (Commentary)
| Crystallization (Comment) | Organism |
|---|---|
| enzyme in complex with ACP-Mg2+, hanging drop vapor diffusion method, using 0.02 M sodium formate, 0.02 M ammonium acetate, 0.02 M sodium citrate (tribasic), 0.02 M sodium potassium tartrate, 0.02 M sodium oxamate, 0.05 M HEPES pH 7.5, 0.05 M MOPS pH 7.5, 20% (v/v) glycerol, and 10% (w/v) PEG 4000 | Methanopyrus kandleri |
Protein Variants
| Protein Variants | Comment | Organism |
|---|---|---|
| D40A | the mutant shows reduced activity compared to the wild type enzyme | Methanopyrus kandleri |
| D48A | the mutant shows no activity | Methanosarcina acetivorans |
| E156A | the mutant shows wild type activity | Methanopyrus kandleri |
| E164A | the mutant shows no activity | Methanopyrus kandleri |
| E167A | the mutant shows no activity | Methanopyrus kandleri |
| E201A | the mutant shows no activity | Methanosarcina acetivorans |
| E251A | the mutant shows no activity | Methanopyrus kandleri |
| E78A | the mutant shows no activity | Methanopyrus kandleri |
| E81A | the mutant shows no activity | Methanopyrus kandleri |
| E87A | the mutant shows no activity | Methanosarcina acetivorans |
| E90A | the mutant shows no activity | Methanosarcina acetivorans |
| K408* | the mutant shows wild type activity | Methanosarcina acetivorans |
| K419* | the mutant shows wild type activity | Methanosarcina acetivorans |
| K64A | the mutant shows reduced activity compared to the wild type enzyme | Methanopyrus kandleri |
| M367* | the mutant shows reduced activity compared to the wild type enzyme | Methanopyrus kandleri |
| P16A | the mutant shows wild type activity | Methanopyrus kandleri |
| P372* | the mutant shows wild type activity | Methanopyrus kandleri |
| Q160A | the mutant shows wild type activity | Methanopyrus kandleri |
| Q254A | the mutant shows no activity | Methanopyrus kandleri |
| Q70A | the mutant shows wild type activity | Methanopyrus kandleri |
| R12A | the mutant shows wild type activity | Methanopyrus kandleri |
| R247A | the mutant shows reduced activity compared to the wild type enzyme | Methanopyrus kandleri |
| R40A | the mutant shows wild type activity | Methanosarcina acetivorans |
| R414* | the mutant shows wild type activity | Methanosarcina acetivorans |
| S74A | the mutant shows reduced activity compared to the wild type enzyme | Methanopyrus kandleri |
| W421* | the mutant shows wild type activity | Methanosarcina acetivorans |
Inhibitors
| Inhibitors | Comment | Organism | Structure |
|---|---|---|---|
| ALGFFGFDLQD | - |
Methanocaldococcus jannaschii |  |
| ALGFFGFDLQD | - |
Methanopyrus kandleri | |
| ALGFFGFDLQD | - |
Methanosarcina acetivorans | |
| RAGFFGFDLQD | - |
Methanocaldococcus jannaschii | |
| RAGFFGFDLQD | - |
Methanopyrus kandleri | |
| RAGFFGFDLQD | - |
Methanosarcina acetivorans | |
| RLAFFGFDLQD | - |
Methanocaldococcus jannaschii | |
| RLAFFGFDLQD | - |
Methanopyrus kandleri | |
| RLAFFGFDLQD | - |
Methanosarcina acetivorans | |
| RLGAFGFDLQD | - |
Methanocaldococcus jannaschii | |
| RLGAFGFDLQD | - |
Methanopyrus kandleri | |
| RLGAFGFDLQD | - |
Methanosarcina acetivorans | |
| RLGFAGFDLQD | - |
Methanocaldococcus jannaschii | |
| RLGFAGFDLQD | - |
Methanopyrus kandleri | |
| RLGFAGFDLQD | - |
Methanosarcina acetivorans | |
| RLGFFAFDLQD | - |
Methanocaldococcus jannaschii | |
| RLGFFAFDLQD | - |
Methanopyrus kandleri | |
| RLGFFAFDLQD | - |
Methanosarcina acetivorans | |
| RLGFFGADLQD | - |
Methanocaldococcus jannaschii | |
| RLGFFGADLQD | - |
Methanopyrus kandleri | |
| RLGFFGADLQD | - |
Methanosarcina acetivorans | |
| RLGFFGFALQD | - |
Methanocaldococcus jannaschii | |
| RLGFFGFALQD | - |
Methanopyrus kandleri | |
| RLGFFGFALQD | - |
Methanosarcina acetivorans | |
| RLGFFGFDAQD | - |
Methanocaldococcus jannaschii | |
| RLGFFGFDAQD | - |
Methanopyrus kandleri | |
| RLGFFGFDAQD | - |
Methanosarcina acetivorans | |
| RLGFFGFDLAD | - |
Methanocaldococcus jannaschii | |
| RLGFFGFDLAD | - |
Methanopyrus kandleri | |
| RLGFFGFDLAD | - |
Methanosarcina acetivorans | |
| RLGFFGFDLQA | - |
Methanocaldococcus jannaschii | |
| RLGFFGFDLQA | - |
Methanopyrus kandleri | |
| RLGFFGFDLQA | - |
Methanosarcina acetivorans | |
| RLGFFGFDLQD | - |
Methanocaldococcus jannaschii | |
| RLGFFGFDLQD | - |
Methanopyrus kandleri | |
| RLGFFGFDLQD | - |
Methanosarcina acetivorans | |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Mg2+ | 20 mM used in assay conditions | Methanocaldococcus jannaschii | |
| Mg2+ | 20 mM used in assay conditions | Methanosarcina acetivorans | |
| Mg2+ | 20 mM used in assay conditions | Methanopyrus kandleri | |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| ATP + sulfide + [methyl-coenzyme M reductase alpha-subunit McrA]-glycine465 | Methanocaldococcus jannaschii | - |
ADP + phosphate + [methyl-coenzyme M reductase alpha-subunit McrA]-thioglycine465 | - |
? | |
| ATP + sulfide + [methyl-coenzyme M reductase alpha-subunit McrA]-glycine465 | Methanosarcina acetivorans | - |
ADP + phosphate + [methyl-coenzyme M reductase alpha-subunit McrA]-thioglycine465 | - |
? | |
| ATP + sulfide + [methyl-coenzyme M reductase alpha-subunit McrA]-glycine465 | Methanopyrus kandleri | - |
ADP + phosphate + [methyl-coenzyme M reductase alpha-subunit McrA]-thioglycine465 | - |
? | |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Methanocaldococcus jannaschii | - |
- |
- |
| Methanopyrus kandleri | Q8TZ25 | - |
- |
| Methanosarcina acetivorans | - |
- |
- |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
| amylose resin column chromatography and Ni-NTA column chromatography | Methanocaldococcus jannaschii |
| amylose resin column chromatography and Ni-NTA column chromatography | Methanosarcina acetivorans |
| amylose resin column chromatography and Ni-NTA column chromatography | Methanopyrus kandleri |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| ATP + sulfide + RLGFFGFDLQD | - |
Methanocaldococcus jannaschii | ADP + phosphate + RLGFF(thioglycine)FDLQD | - |
? | |
| ATP + sulfide + RLGFFGFDLQD | - |
Methanosarcina acetivorans | ADP + phosphate + RLGFF(thioglycine)FDLQD | - |
? | |
| ATP + sulfide + RLGFFGFDLQD | - |
Methanopyrus kandleri | ADP + phosphate + RLGFF(thioglycine)FDLQD | - |
? | |
| ATP + sulfide + [methyl-coenzyme M reductase alpha-subunit McrA]-glycine465 | - |
Methanocaldococcus jannaschii | ADP + phosphate + [methyl-coenzyme M reductase alpha-subunit McrA]-thioglycine465 | - |
? | |
| ATP + sulfide + [methyl-coenzyme M reductase alpha-subunit McrA]-glycine465 | - |
Methanosarcina acetivorans | ADP + phosphate + [methyl-coenzyme M reductase alpha-subunit McrA]-thioglycine465 | - |
? | |
| ATP + sulfide + [methyl-coenzyme M reductase alpha-subunit McrA]-glycine465 | - |
Methanopyrus kandleri | ADP + phosphate + [methyl-coenzyme M reductase alpha-subunit McrA]-thioglycine465 | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| monomer | 1 * about 80000, SDS-PAGE | Methanocaldococcus jannaschii |
| monomer | 1 * about 80000, SDS-PAGE | Methanosarcina acetivorans |
| monomer | 1 * about 80000, SDS-PAGE | Methanopyrus kandleri |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| ycaO | - |
Methanocaldococcus jannaschii |
| ycaO | - |
Methanosarcina acetivorans |
| ycaO | - |
Methanopyrus kandleri |
Cofactor
| Cofactor | Comment | Organism | Structure |
|---|---|---|---|
| ATP | - |
Methanocaldococcus jannaschii | |
| ATP | - |
Methanosarcina acetivorans | |
| ATP | - |
Methanopyrus kandleri | |
Ki Value [mM]
| Ki Value [mM] | Ki Value maximum [mM] | Inhibitor | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.0007 | - |
RLGFFGFDLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.00077 | - |
ALGFFGFDLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0009 | - |
RLGFFGADLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0022 | - |
RLGFFGFDLQA | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.008 | - |
RLGFAGFDLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0083 | - |
RLGFFGFALQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0096 | - |
RLGFFAFDLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0102 | - |
RLGFFGFDAQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0103 | - |
RLAFFGFDLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0169 | - |
RLGFFGFDLAD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.02 | - |
RLGAFGFDLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
| 0.0201 | - |
RAGFFGFDLQD | at pH 7.5 and 25°C | Methanosarcina acetivorans | |
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Release 2023.1 (January 2023)
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