Entry | Database: PDB / ID: 6g94 |
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Title | Structure of E. coli hydrogenase-1 C19G variant in complex with cytochrome b |
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Components | - (Hydrogenase-1 ...) x 2
- Probable Ni/Fe-hydrogenase 1 B-type cytochrome subunit
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Keywords | OXIDOREDUCTASE / new [4Fe-4S] cluster |
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Function / homology | Function and homology information
hydrogen metabolic process / fermentation / hydrogenase (acceptor) / anaerobic electron transport chain / [Ni-Fe] hydrogenase complex / ferredoxin hydrogenase complex / hydrogenase (acceptor) activity / periplasmic side of plasma membrane / ferredoxin hydrogenase activity / anaerobic respiration ...hydrogen metabolic process / fermentation / hydrogenase (acceptor) / anaerobic electron transport chain / [Ni-Fe] hydrogenase complex / ferredoxin hydrogenase complex / hydrogenase (acceptor) activity / periplasmic side of plasma membrane / ferredoxin hydrogenase activity / anaerobic respiration / 3 iron, 4 sulfur cluster binding / nickel cation binding / cellular response to starvation / respiratory electron transport chain / 4 iron, 4 sulfur cluster binding / outer membrane-bounded periplasmic space / membrane => GO:0016020 / electron transfer activity / iron ion binding / heme binding / membrane / metal ion binding / plasma membraneSimilarity search - Function Nickel-dependent hydrogenase b-type cytochrome subunit / Nickel-dependent hydrogenases b-type cytochrome subunit signature 1. / Nickel-dependent hydrogenases b-type cytochrome subunit signature 2. / Cytochrome b561, bacterial/Ni-hydrogenase / Prokaryotic cytochrome b561 / Fumarate Reductase Cytochrome B subunit / Transmembrane di-heme cytochromes, Chain C / Cytochrome-c3 Hydrogenase; Chain A, domain 2 / Cytochrome-c3 hydrogenase, C-terminal domain / NADH:ubiquinone oxidoreductase-like, 20kDa subunit ...Nickel-dependent hydrogenase b-type cytochrome subunit / Nickel-dependent hydrogenases b-type cytochrome subunit signature 1. / Nickel-dependent hydrogenases b-type cytochrome subunit signature 2. / Cytochrome b561, bacterial/Ni-hydrogenase / Prokaryotic cytochrome b561 / Fumarate Reductase Cytochrome B subunit / Transmembrane di-heme cytochromes, Chain C / Cytochrome-c3 Hydrogenase; Chain A, domain 2 / Cytochrome-c3 hydrogenase, C-terminal domain / NADH:ubiquinone oxidoreductase-like, 20kDa subunit / Cytochrome-c3 Hydrogenase; chain B / Cytochrome-c3 Hydrogenase, chain B / [NiFe]-hydrogenase, small subunit / Cytochrome-c3 hydrogenase, C-terminal / [NiFe]-hydrogenase, small subunit, C-terminal domain superfamily / NiFe/NiFeSe hydrogenase small subunit C-terminal / Nickel-dependent hydrogenases large subunit signature 2. / Nickel-dependent hydrogenases large subunit signature 1. / [NiFe]-hydrogenase, small subunit, N-terminal domain superfamily / Nickel-dependent hydrogenase, large subunit, nickel binding site / Nickel-dependent hydrogenase, large subunit / Nickel-dependent hydrogenase / Twin-arginine translocation pathway, signal sequence, bacterial/archaeal / Di-haem cytochrome, transmembrane / NADH:ubiquinone oxidoreductase-like, 20kDa subunit / NADH ubiquinone oxidoreductase, 20 Kd subunit / [NiFe]-hydrogenase, large subunit / Twin arginine translocation (Tat) signal profile. / Twin-arginine translocation pathway, signal sequence / Few Secondary Structures / Irregular / Up-down Bundle / Rossmann fold / Orthogonal Bundle / 3-Layer(aba) Sandwich / Mainly Alpha / Alpha BetaSimilarity search - Domain/homology Fe4S4 / FE3-S4 CLUSTER / CARBONMONOXIDE-(DICYANO) IRON / PROTOPORPHYRIN IX CONTAINING FE / NICKEL (II) ION / IRON/SULFUR CLUSTER / Probable Ni/Fe-hydrogenase 1 B-type cytochrome subunit / Probable Ni/Fe-hydrogenase 1 B-type cytochrome subunit / Hydrogenase-1 large chain / Hydrogenase-1 small chain / Hydrogenase-1 small chainSimilarity search - Component |
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Biological species | ![](img/tx_bacteria.gif) Escherichia coli K-12 (bacteria)
![](img/tx_bacteria.gif) Escherichia coli (E. coli) |
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Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / molecular replacement / Resolution: 2.5 Å |
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Authors | Volbeda, A. / Fontecilla-Camps, J.C. |
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Citation | #2: Journal: J. Am. Chem. Soc. / Year: 2013Title: Principles of sustained enzymatic hydrogen oxidation in the presence of oxygen--the crucial influence of high potential Fe-S clusters in the electron relay of [NiFe]-hydrogenases. Authors: Evans, R.M. / Parkin, A. / Roessler, M.M. / Murphy, B.J. / Adamson, H. / Lukey, M.J. / Sargent, F. / Volbeda, A. / Fontecilla-Camps, J.C. / Armstrong, F.A. |
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History | Deposition | Apr 10, 2018 | Deposition site: PDBE / Processing site: PDBE |
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Revision 1.0 | Jun 13, 2018 | Provider: repository / Type: Initial release |
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Revision 1.1 | Jun 20, 2018 | Group: Data collection / Database references / Category: citation Item: _citation.journal_abbrev / _citation.pdbx_database_id_DOI / _citation.pdbx_database_id_PubMed |
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Revision 1.2 | Jul 4, 2018 | Group: Data collection / Database references / Category: citation Item: _citation.journal_volume / _citation.page_first / _citation.page_last |
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Revision 1.3 | Aug 21, 2019 | Group: Data collection / Database references / Category: struct_ref_seq_dif / Item: _struct_ref_seq_dif.details |
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Revision 1.4 | Feb 5, 2020 | Group: Database references / Source and taxonomy Category: entity_src_gen / struct_ref ...entity_src_gen / struct_ref / struct_ref_seq / struct_ref_seq_dif Item: _entity_src_gen.gene_src_strain / _entity_src_gen.pdbx_gene_src_gene ..._entity_src_gen.gene_src_strain / _entity_src_gen.pdbx_gene_src_gene / _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id / _entity_src_gen.pdbx_gene_src_scientific_name / _struct_ref.db_code / _struct_ref.pdbx_db_accession / _struct_ref_seq.pdbx_db_accession / _struct_ref_seq_dif.details / _struct_ref_seq_dif.pdbx_seq_db_accession_code |
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Revision 1.5 | Jan 17, 2024 | Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Refinement description Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model / pdbx_struct_conn_angle / struct_conn Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_struct_conn_angle.ptnr1_auth_comp_id / _pdbx_struct_conn_angle.ptnr1_auth_seq_id / _pdbx_struct_conn_angle.ptnr1_label_asym_id / _pdbx_struct_conn_angle.ptnr1_label_atom_id / _pdbx_struct_conn_angle.ptnr1_label_comp_id / _pdbx_struct_conn_angle.ptnr1_label_seq_id / _pdbx_struct_conn_angle.ptnr3_auth_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_seq_id / _pdbx_struct_conn_angle.ptnr3_label_asym_id / _pdbx_struct_conn_angle.ptnr3_label_atom_id / _pdbx_struct_conn_angle.ptnr3_label_comp_id / _pdbx_struct_conn_angle.ptnr3_label_seq_id / _pdbx_struct_conn_angle.value / _struct_conn.pdbx_dist_value / _struct_conn.ptnr1_auth_asym_id / _struct_conn.ptnr1_auth_comp_id / _struct_conn.ptnr1_auth_seq_id / _struct_conn.ptnr1_label_asym_id / _struct_conn.ptnr1_label_atom_id / _struct_conn.ptnr1_label_comp_id / _struct_conn.ptnr1_label_seq_id / _struct_conn.ptnr2_auth_asym_id / _struct_conn.ptnr2_auth_comp_id / _struct_conn.ptnr2_auth_seq_id / _struct_conn.ptnr2_label_asym_id / _struct_conn.ptnr2_label_atom_id / _struct_conn.ptnr2_label_comp_id |
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