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PDB: 104 results

5WT4
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BU of 5wt4 by Molmil
L-Cysteine-PLP intermediate of NifS from Helicobacter pylori
Descriptor: Cysteine desulfurase IscS, ISOPROPYL ALCOHOL, N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-L-CYSTEINE
Authors:Fujishiro, T, Nakamura, R, Takahashi, T.
Deposit date:2016-12-09
Release date:2017-12-13
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.92 Å)
Cite:Snapshots of PLP-substrate and PLP-product external aldimines as intermediates in two types of cysteine desulfurase enzymes.
Febs J., 2019
5WT2
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BU of 5wt2 by Molmil
NifS from Helicobacter pylori
Descriptor: CHLORIDE ION, Cysteine desulfurase IscS, ISOPROPYL ALCOHOL, ...
Authors:Fujishiro, T, Takahashi, Y.
Deposit date:2016-12-09
Release date:2017-12-13
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.301 Å)
Cite:Snapshots of PLP-substrate and PLP-product external aldimines as intermediates in two types of cysteine desulfurase enzymes.
Febs J., 2019
5WT6
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BU of 5wt6 by Molmil
Cysteine persulfide intermediate of NifS from Helicobacter pylori
Descriptor: 2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-PROPIONIC ACID, CHLORIDE ION, Cysteine desulfurase IscS, ...
Authors:Fujishiro, T, Nakamura, R, Takahashi, Y.
Deposit date:2016-12-09
Release date:2017-12-13
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Structural snapshot of cysteine desulfurase NifS with L-cysteine in initiation of catalysis
To be published
5WT5
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BU of 5wt5 by Molmil
L-homocysteine-bound NifS from Helicobacter pylori
Descriptor: 2-AMINO-4-MERCAPTO-BUTYRIC ACID, Cysteine desulfurase IscS, ISOPROPYL ALCOHOL
Authors:Fujishiro, T, Takahashi, Y.
Deposit date:2016-12-09
Release date:2017-12-13
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural snapshot of cysteine desulfurase NifS with L-cysteine in initiation of catalysis
to be published
7WSX
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BU of 7wsx by Molmil
Class III hybrid cluster protein (HCP) C67Y variant from Methanothermobacter marburgensis
Descriptor: FE-S-O HYBRID CLUSTER, Hydroxylamine reductase
Authors:Fujishiro, T.
Deposit date:2022-02-02
Release date:2023-02-08
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3 Å)
Cite:Class III hybrid cluster protein homodimeric architecture shows evolutionary relationship with Ni, Fe-carbon monoxide dehydrogenases.
Nat Commun, 14, 2023
6M28
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BU of 6m28 by Molmil
Sirohydrochlorin nickelochelatase CfbA in complex with Co2+
Descriptor: COBALT (II) ION, Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-26
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M2H
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BU of 6m2h by Molmil
A reaction intermediate of sirohydrochlorin nickelochelatase CfbA in complex with Ni2+ and sirohydrochlorin
Descriptor: 3,3',3'',3'''-[(7S,8S,12S,13S)-3,8,13,17-tetrakis(carboxymethyl)-8,13-dimethyl-7,8,12,13-tetrahydroporphyrin-2,7,12,18-tetrayl]tetrapropanoic acid, NICKEL (II) ION, Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-27
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M2G
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BU of 6m2g by Molmil
Sirohydrochlorin nickelochelatase CfbA in complex with cobalt-sirohydrochlorin
Descriptor: Sirohydrochlorin cobaltochelatase, cobalt-sirohydrochlorin
Authors:Fujishiro, T.
Deposit date:2020-02-27
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M26
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BU of 6m26 by Molmil
Sirohydrochlorin nickelochelatase CfbA in P212121 space group
Descriptor: Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-26
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.61 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M29
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BU of 6m29 by Molmil
Sirohydrochlorin nickelochelatase CfbA in complex with Co2+ and formate
Descriptor: COBALT (II) ION, FORMIC ACID, Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-26
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M25
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BU of 6m25 by Molmil
Sirohydrochlorin nickelochelatase CfbA in P41 space group
Descriptor: Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-26
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M27
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BU of 6m27 by Molmil
Sirohydrochlorin nickelochelatase CfbA in complex with Ni2+
Descriptor: NICKEL (II) ION, Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-26
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M2E
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BU of 6m2e by Molmil
Sirohydrochlorin nickelochelatase CfbA in complex with sirohydrochlorin
Descriptor: 3,3',3'',3'''-[(7S,8S,12S,13S)-3,8,13,17-tetrakis(carboxymethyl)-8,13-dimethyl-7,8,12,13-tetrahydroporphyrin-2,7,12,18-tetrayl]tetrapropanoic acid, Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-27
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M2A
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BU of 6m2a by Molmil
A non-His-rich type of chimeric sirohydrochlorin nickelochelatase CfbA from M. jannaschii and M. barkeri
Descriptor: SULFATE ION, Sirohydrochlorin cobaltochelatase,Sirohydrochlorin cobaltochelatase,Sirohydrochlorin cobaltochelatase
Authors:Fujishiro, T.
Deposit date:2020-02-26
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.23 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
6M2F
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BU of 6m2f by Molmil
Sirohydrochlorin nickelochelatase CfbA in complex with nickel-sirohydrochlorin
Descriptor: Sirohydrochlorin cobaltochelatase, nickel-sirohydrochlorin
Authors:Fujishiro, T.
Deposit date:2020-02-27
Release date:2021-01-13
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis.
Chem Sci, 12, 2021
5D4U
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BU of 5d4u by Molmil
SAM-bound HcgC from Methanocaldococcus jannaschii
Descriptor: S-ADENOSYLMETHIONINE, SULFATE ION, Uncharacterized protein MJ0489
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-08-09
Release date:2016-07-20
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (2 Å)
Cite:Identification of HcgC as a SAM-Dependent Pyridinol Methyltransferase in [Fe]-Hydrogenase Cofactor Biosynthesis.
Angew.Chem.Int.Ed.Engl., 55, 2016
5D5Q
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BU of 5d5q by Molmil
HcgB from Methanocaldococcus jannaschii with the pyridinol derived from FeGP cofactor of [Fe]-hydrogenase
Descriptor: (4,6-dihydroxy-3,5-dimethylpyridin-2-yl)acetic acid, Uncharacterized protein MJ0488, Guanylyltransferase
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-08-11
Release date:2016-10-26
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Towards artificial methanogenesis: biosynthesis of the [Fe]-hydrogenase cofactor and characterization of the semi-synthetic hydrogenase.
Faraday Discuss., 198, 2017
5D5O
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BU of 5d5o by Molmil
HcgC from Methanocaldococcus jannaschii
Descriptor: SULFATE ION, Uncharacterized protein MJ0489
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-08-11
Release date:2016-07-20
Last modified:2024-05-08
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Identification of HcgC as a SAM-Dependent Pyridinol Methyltransferase in [Fe]-Hydrogenase Cofactor Biosynthesis.
Angew.Chem.Int.Ed.Engl., 55, 2016
5D4T
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BU of 5d4t by Molmil
SeMet-labelled HcgC from Methanocaldococcus jannaschii in space group P212121
Descriptor: Uncharacterized protein MJ0489
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-08-09
Release date:2016-07-20
Last modified:2016-08-10
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Identification of HcgC as a SAM-Dependent Pyridinol Methyltransferase in [Fe]-Hydrogenase Cofactor Biosynthesis.
Angew.Chem.Int.Ed.Engl., 55, 2016
5D5P
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BU of 5d5p by Molmil
HcgB from Methanococcus maripaludis
Descriptor: HcgB
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-08-11
Release date:2016-10-26
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Towards artificial methanogenesis: biosynthesis of the [Fe]-hydrogenase cofactor and characterization of the semi-synthetic hydrogenase.
Faraday Discuss., 198, 2017
5D4V
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BU of 5d4v by Molmil
HcgC with SAH and a guanylylpyridinol (GP) derivative
Descriptor: 5'-O-[(R)-[(3,6-dimethyl-2-oxo-1,2-dihydropyridin-4-yl)oxy](hydroxy)phosphoryl]guanosine, S-ADENOSYL-L-HOMOCYSTEINE, SULFATE ION, ...
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-08-09
Release date:2016-07-20
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Identification of HcgC as a SAM-Dependent Pyridinol Methyltransferase in [Fe]-Hydrogenase Cofactor Biosynthesis.
Angew.Chem.Int.Ed.Engl., 55, 2016
5D5T
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BU of 5d5t by Molmil
SeMet-labelled HcgC from Methanocaldococcus jannaschii in P1 space group
Descriptor: Uncharacterized protein MJ0489
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-08-11
Release date:2016-07-20
Last modified:2024-10-09
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Identification of HcgC as a SAM-Dependent Pyridinol Methyltransferase in [Fe]-Hydrogenase Cofactor Biosynthesis.
Angew.Chem.Int.Ed.Engl., 55, 2016
4YT8
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BU of 4yt8 by Molmil
SeMet-labelled HmdII from Methanocaldococcus jannaschii
Descriptor: H(2)-forming methylenetetrahydromethanopterin dehydrogenase-related protein MJ1338, TRIETHYLENE GLYCOL
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-03-17
Release date:2015-07-01
Last modified:2024-10-16
Method:X-RAY DIFFRACTION (1.902 Å)
Cite:Towards a functional identification of catalytically inactive [Fe]-hydrogenase paralogs.
Febs J., 282, 2015
4YT5
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BU of 4yt5 by Molmil
HmdII from Methanocaldococcus jannaschii with bound methylene-tetrahydromethanopterin
Descriptor: 5,10-DIMETHYLENE TETRAHYDROMETHANOPTERIN, H(2)-forming methylenetetrahydromethanopterin dehydrogenase-related protein MJ1338, TRIETHYLENE GLYCOL
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-03-17
Release date:2015-07-01
Last modified:2024-05-01
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Towards a functional identification of catalytically inactive [Fe]-hydrogenase paralogs.
Febs J., 282, 2015
4YT2
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BU of 4yt2 by Molmil
Hmd II from Methanocaldococcus jannaschii
Descriptor: DI(HYDROXYETHYL)ETHER, H(2)-forming methylenetetrahydromethanopterin dehydrogenase-related protein MJ1338, TRIETHYLENE GLYCOL
Authors:Fujishiro, T, Ermler, U, Shima, S.
Deposit date:2015-03-17
Release date:2015-07-01
Last modified:2024-05-01
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Towards a functional identification of catalytically inactive [Fe]-hydrogenase paralogs.
Febs J., 282, 2015

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