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precorrin-2 + Co2+
cobalt-precorrin-2 + 2 H+
sirohydrochlorin + Co2+
Co-sirohydrochlorin + 2 H+
sirohydrochlorin + Co2+
cobalt-sirohydrochlorin + 2 H+
sirohydrochlorin + Co2+
cobalt-sirohydrochlorin + H+
-
Substrates: pH 8.0
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
sirohydrochlorin + Fe2+
siroheme + H+
sirohydrochlorin + Ni2+
Ni-sirohydrochlorin + 2 H+
Substrates: reaction of EC 4.99.1.11
Products: -
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uroporphyrin I + Co2+
?
Substrates: -
Products: -
?
additional information
?
-
precorrin-2 + Co2+

cobalt-precorrin-2 + 2 H+
-
Substrates: SirB, much lower specific activity than with sirohydrochlorin
Products: -
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precorrin-2 + Co2+
cobalt-precorrin-2 + 2 H+
-
Substrates: SirB, much lower specific activity than with sirohydrochlorin
Products: -
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sirohydrochlorin + Co2+

Co-sirohydrochlorin + 2 H+
Substrates: reaction of EC 4.99.1.3
Products: -
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sirohydrochlorin + Co2+
Co-sirohydrochlorin + 2 H+
Substrates: -
Products: -
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sirohydrochlorin + Co2+

cobalt-sirohydrochlorin + 2 H+
-
Substrates: SirB, lower specificity for cobalt than for iron
Products: -
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sirohydrochlorin + Co2+
cobalt-sirohydrochlorin + 2 H+
-
Substrates: SirB, lower specificity for cobalt than for iron
Products: -
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sirohydrochlorin + Co2+
cobalt-sirohydrochlorin + 2 H+
Substrates: -
Products: -
?
sirohydrochlorin + Co2+
cobalt-sirohydrochlorin + 2 H+
-
Substrates: -
Products: -
?
sirohydrochlorin + Fe2+

siroheme + 2 H+
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: SirB, monofunctional ferrochelatase, higher specificity for iron over cobalt
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: SirB is responsible for the final step in siroheme synthesis
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: SirB, monofunctional ferrochelatase, higher specificity for iron over cobalt
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: SirB is responsible for the final step in siroheme synthesis
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: Met8p catalyzes ferrochelation during the synthesis of siroheme, both ferrochelation and NAD+-dependent dehydrogenation of preccorin-2 to produce sirohydrochlorin take place in a single bifunctional active site, Asp-141 participates in both catalytic reactions, which are not linked mechanistically, mechanism
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
Substrates: Met8p structure, bifunctional Met8p catalyzes the final two steps in the biosynthesis of siroheme involving a beta-NAD+-dependent dehydrogenation of precorrin-2 to generate sirohydrochlorin followed by ferrochelation to yield siroheme, both catalytic activities share a single active site, Asp-141 functions as a general base and plays an essential role in both dehydrogenase and chelatase processes
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: Met8p catalyzes ferrochelation during the biosynthesis of siroheme
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
Substrates: Met8p catalyzes the final two steps in the biosynthesis of siroheme involving a beta-NAD+-dependent dehydrogenation of precorrin-2 to generate sirohydrochlorin followed by ferrochelation to yield siroheme
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: CysG structure, the multifunctional siroheme synthase CysG synthesizes siroheme from uroporphyrinogen III, CysG contains two structurally independent modules: a bismethyltransferase and a dual-function dehydrogenase-chelatase
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: CysG, siroheme biosynthesis
Products: sulfur metabolism depends on siroheme
?
sirohydrochlorin + Fe2+
siroheme + 2 H+
Substrates: -
Products: -
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sirohydrochlorin + Fe2+

siroheme + H+
-
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + H+
-
Substrates: pH 8.0
Products: -
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sirohydrochlorin + Fe2+
siroheme + H+
-
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + H+
-
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + H+
-
Substrates: -
Products: -
?
sirohydrochlorin + Fe2+
siroheme + H+
Substrates: -
Products: -
?
additional information

?
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Substrates: no activity with protoporphyrin IX. Sirohydrochlorin and uroporphyrin I are suitably bound beside the Co2+ ion-binding site at the active site cavity, protoporphyrin IX is also docked to the active site but its orientation is different from those of the other two tetrapyrroles
Products: -
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additional information
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Substrates: enzyme CfbA also functions as a nickel-chelatase. The catalytic mechanism of Co2+ insertion by CfbA is likely similar to that of Ni2+ insertion. However, the rate of Co2+-insertion is much faster than that of Ni2+-insertion as observed via activity assays
Products: -
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sirohydrochlorin + Co2+
Co-sirohydrochlorin + 2 H+
Substrates: -
Products: -
?
sirohydrochlorin + Fe2+
siroheme + 2 H+
sirohydrochlorin + Fe2+
siroheme + H+
sirohydrochlorin + Ni2+
Ni-sirohydrochlorin + 2 H+
Substrates: reaction of EC 4.99.1.11
Products: -
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sirohydrochlorin + Fe2+

siroheme + 2 H+
Substrates: -
Products: -
?
sirohydrochlorin + Fe2+
siroheme + 2 H+
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: SirB is responsible for the final step in siroheme synthesis
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: SirB is responsible for the final step in siroheme synthesis
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: Met8p catalyzes ferrochelation during the biosynthesis of siroheme
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
Substrates: Met8p catalyzes the final two steps in the biosynthesis of siroheme involving a beta-NAD+-dependent dehydrogenation of precorrin-2 to generate sirohydrochlorin followed by ferrochelation to yield siroheme
Products: -
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sirohydrochlorin + Fe2+
siroheme + 2 H+
-
Substrates: CysG, siroheme biosynthesis
Products: sulfur metabolism depends on siroheme
?
sirohydrochlorin + Fe2+
siroheme + 2 H+
Substrates: -
Products: -
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sirohydrochlorin + Fe2+

siroheme + H+
-
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + H+
-
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + H+
-
Substrates: -
Products: -
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sirohydrochlorin + Fe2+
siroheme + H+
Substrates: -
Products: -
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0.0034
-
pH 8, cobaltochelation of precorrin-2
0.0054
-
isolated recombinant enzyme, with ferrous iron as substrate
0.0138
-
S128D mutant CysG, cobalt chelation of sirohydrochlorin
0.0485
-
isolated recombinant enzyme, with cobalt as substrate
0.0656
-
wild-type CysG, cobalt chelation of sirohydrochlorin
0.243
-
S128A mutant CysG, cobalt chelation of sirohydrochlorin
0.337
-
pH 8, cobaltochelation of sirohydrochlorin
33.25
-
mutant enzyme C199A, in 20 mM Tris/HCl (pH 8.0) and 10 mM NaCl, at 23°C
36.08
-
mutant enzyme C213A, in 20 mM Tris/HCl (pH 8.0) and 10 mM NaCl, at 23°C
38.5
-
wild type enzyme, in 20 mM Tris/HCl (pH 8.0) and 10 mM NaCl, at 23°C
43
-
mutant enzyme C219A, in 20 mM Tris/HCl (pH 8.0) and 10 mM NaCl, at 23°C
44.67
-
mutant enzyme C135A, in 20 mM Tris/HCl (pH 8.0) and 10 mM NaCl, at 23°C
55.17
-
mutant enzyme C210A, in 20 mM Tris/HCl (pH 8.0) and 10 mM NaCl, at 23°C
additional information

-
-
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metabolism
siroheme is synthesized in bacteria from uroporphyrinogen III in a three-step reaction that includes methylation of uroporphyrinogen III, NAD+-dependent oxidation of precorrin-2, and insertion of iron into sirohydrochlorin. Siroheme biosynthetic pathway of Staphylococcus aureus, overview. NirR is a sirohydrochlorin ferrochelatase, and therefore, it is renamed as ShfC. Sirohydrochlorin ferrochelatase (ShfC) is essential for nitrite reduction
evolution

the enzyme SirB belongs to the class II chelatase family
evolution
class II chelatases are a family of enzymes catalyzing insertion of a divalent metal ion into modified tetrapyrroles to yield cobalamin, heme, siroheme, and coenzyme F430. Five different class II chelatases, CbiX, CbiK, SirB, HemH, and CbiXS, have been identified. Enzyme CfbA is an important ancestor of all the class II chelatase family of enzymes, including SirB and CbiK/CbiX, functioning not only as a nickel-chelatase, but also as a cobalt-chelatase in vitro. Thus, CfbA is a key enzyme in terms of diversity and evolution of the chelatases catalyzing formation of metal-SHC-type of cofactors. Phlogenetic analysis, CfbA contains a non-His-rich region, designated as type II CfbA, is closely related to CbiXS from Archaeoglobus fulgidus, compared to His-rich CfbA (designated as type I CfbA). A chimeric CfbA, containing a non-His-rich region derived from Methanosarcina barkeri CfbA in place of the His-rich region, is constructed. The X-ray crystal structure of the chimeric CfbA shows that the non-His-rich region has a structured form and is positioned as in the Archaeoglobus fulgidus CbiXS, which is also a non-His-rich ancestral chelatase. Therefore, the resulting structures of wild-type and chimeric CfbA demonstrate not only that the His-rich region is intrinsically flexible, but also that the non-His-rich CfbA is structurally similar to CbiXS from archaea with no coenzyme F430, rather than the His-rich CfbA
evolution
within bacteria, siroheme synthesis may occur via one, two or three enzymes, the correspondent pathways are named as types 1, 2 and 3, respectively. Phylogenetic analysis reveals that type 1 is the most used pathway in Gammaproteobacteria and Streptomycetales, type 2 predominates in Fibrobacteres and Vibrionales, and type 3 predominates in Firmicutes of the Bacillales order. The current distribution of siroheme pathways within bacteria, which changes at the genus or species level and within taxa, seems to be the result of evolutionary multiple fusion/fission events. Within the organisms that perform siroheme biosynthesis via the type 3 pathway, the chelatase operative in the last step may be performed by four different enzymes, namely SirB, CbiXL, CbiXS, and CbiK. The last three proteins have been described as sirohydrochlorin cobaltochelatases (EC 4.99.1.3), but they also exhibit ferrochelatase activity
evolution
-
the enzyme SirB belongs to the class II chelatase family
-
physiological function

Bacillus subtilis SirB catalyses the insertion of Fe2+ into the substrate sirohydrochlorin (SHC) in siroheme biosynthesis
physiological function
the gene annotated as nirR in the genome of Staphylococcus aureus, and proposed to encode a nitrite reductase transcriptional regulator, is in fact a sirohydrochlorin ferrochelatase that performs the last step of the siroheme biosynthesis pathway, phylogenetic analysis
physiological function
-
Bacillus subtilis SirB catalyses the insertion of Fe2+ into the substrate sirohydrochlorin (SHC) in siroheme biosynthesis
-
additional information

the structure of SirB with Co2+ shows that the active site of SirB is located at the N-terminal domain with metal-binding amino acid residues His10, Glu43, and His76, which is also predicted for CbiX, but is distinct from the C-terminal active sites of CbiK and HemH. The key structural features for substrate recognition of SirB is the hydrophobic area at the active site as well as the substituents of the tetrapyrroles
additional information
residues H22 and H87, which are predicted by homology modelling to be located at the active site, control the ferrochelatase activity by binding of the metallated substrate. Homology-based structure modelling of ShfC using Salmonella enterica enzyme CbiK (PDB ID 2XWP) as template, which contains a metallated sirohydrochlorin at the active site
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C135A
-
the mutant shows increased specific activity compared to the wild type enzyme
C199A
-
the mutant shows reduced specific activity compared to the wild type enzyme
C210A
-
the mutant shows increased specific activity compared to the wild type enzyme
C213A
-
the mutant shows reduced specific activity compared to the wild type enzyme
C219A
-
the mutant shows increased specific activity compared to the wild type enzyme
H237A
mutant of bifunctional Met8p is active as both dehydrogenase and ferrochelatase
S128A
-
mutant has higher cobalt chelatase activity than wild-type CysG with sirohydrochlorin as substrate
S128D
-
mutant has lower cobalt chelatase activity than wild-type CysG with sirohydrochlorin as substrate
H146L
site-directed mutagenesis, although H146 is highly conserved among sirohydrochlorin ferrochelatase-like proteins, replacement by leucine does not cause alterations on the phenotype
H22L
site-directed mutagenesis, the mutation does not revert the cysteine auxotrophy of the strain, which is consistent with the need of these residues are necessary for the function of the enzyme
H87L
site-directed mutagenesis, the mutation does not revert the cysteine auxotrophy of the strain, which is consistent with the need of these residues are necessary for the function of the enzyme
D141A

-
mutant of bifunctional Met8p is devoid of both dehydrogenase and ferrochelatase activities
D141A
mutant of bifunctional Met8p is completely inactive as both dehydrogenase and ferrochelatase
G22D

-
mutant of bifunctional Met8p is completely inactive as NAD+-dependent dehydrogenase, but functions as ferrochelatase
G22D
mutant of bifunctional Met8p is completely inactive as dehydrogenase, but functions as ferrochelatase
additional information

to study the structural flexibility of the His-rich region, a chimeric CfbA, containing a non-His-rich region derived from Methanosarcina barkeri CfbA in place of the His-rich region, is constructed. The X-ray crystal structure of the chimeric CfbA shows that the non-His-rich region has a structured form and is positioned as in the Archaeoglobus fulgidus CbiXS, which is also a non-His-rich ancestral chelatase. Therefore, the resulting structures of wild-type and chimeric CfbA demonstrate not only that the His-rich region is intrinsically flexible, but also that the non-His-rich CfbA is structurally similar to CbiXS from archaea with no coenzyme F430, rather than the His-rich CfbA
additional information
construction of a nirR mutant, the evaluation of the expression of nirB and cysG1 in the Staphylococcus aureus DELTAnirR mutant reveals that the expression of these genes shows negligible differences between wild-type and the mutant, which rules out the regulatory role of NirR. Under anaerobic conditions, the sirohydrochlorin ferrochelatase nirR mutant strain shows no nitrite consumption, which is consistent with the lack of siroheme formation. Co-expression of sirohydrochlorin ferrochelatase NirR, encoded by gene nirR, with Methanothermobacter thermautotrophicus sirC and Pseudomonas denitrificans cobA leads to complementation of Escherichia coli DELTA302a mutant. This strain lacks the Escherichia coli cysG gene, and because it is unable to synthesize siroheme, it only grows in medium supplemented with cysteine or sulfide, or when the strain expresses other proteins capable of producing siroheme
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Schubert, H.L.; Raux, E.; Brindley, A.A.; Leech, H.K.; Wilson, K.S.; Hill, C.P.; Warren, M.J.
The structure of Saccharomyces cerevisiae Met8p, a bifunctional dehydrogenase and ferrochelatase
EMBO J.
21
2068-2075
2002
Saccharomyces cerevisiae, Saccharomyces cerevisiae (P15807)
brenda
Raux, E.; Leech, H.K.; Beck, R.; Schubert, H.L.; Santander, P.J.; Roessner, C.A.; Scott, A.I.; Martens, J.H.; Jahn, D.; Thermes, C.; Rambach, A.; Warren, M.J.
Identification and functional analysis of enzymes required for precorrin-2 dehydrogenation and metal ion insertion in the biosynthesis of sirohaem and cobalamin in Bacillus megaterium
Biochem. J.
370
505-516
2003
Priestia megaterium, Priestia megaterium DSM 509
brenda
Schubert, H.L.; Raux, E.; Matthews, M.A.; Phillips, J.D.; Wilson, K.S.; Hill, C.P.; Warren, M.J.
Structural diversity in metal ion chelation and the structure of uroporphyrinogen III synthase
Biochem. Soc. Trans.
30
595-600
2002
Saccharomyces cerevisiae
brenda
Stroupe, M.E.; Leech, H.K.; Daniels, D.S.; Warren, M.J.; Getzoff, E.D.
CysG structure reveals tetrapyrrole-binding features and novel regulation of siroheme biosynthesis
Nat. Struct. Biol.
10
1064-1073
2003
Salmonella enterica
brenda
Raux-Deery, E.; Leech, H.K.; Nakrieko, K.A.; McLean, K.J.; Munro, A.W.; Heathcote, P.; Rigby, S.E.; Smith, A.G.; Warren, M.J.
Identification and characterization of the terminal enzyme of siroheme biosynthesis from Arabidopsis thaliana: a plastid-located sirohydrochlorin ferrochelatase containing a 2FE-2S center
J. Biol. Chem.
280
4713-4721
2005
Arabidopsis thaliana
brenda
Lobo, S.A.; Brindley, A.; Warren, M.J.; Saraiva, L.M.
Functional characterization of the early steps of tetrapyrrole biosynthesis and modification in Desulfovibrio vulgaris Hildenborough
Biochem. J.
420
317-325
2009
no activity in Desulfovibrio vulgaris
brenda
Romao, C.V.; Ladakis, D.; Lobo, S.A.; Carrondo, M.A.; Brindley, A.A.; Deery, E.; Matias, P.M.; Pickersgill, R.W.; Saraiva, L.M.; Warren, M.J.
Evolution in a family of chelatases facilitated by the introduction of active site asymmetry and protein oligomerization
Proc. Natl. Acad. Sci. USA
108
97-102
2011
Priestia megaterium
brenda
Saha, K.; Webb, M.E.; Rigby, S.E.; Leech, H.K.; Warren, M.J.; Smith, A.G.
Characterization of the evolutionarily conserved iron-sulfur cluster of sirohydrochlorin ferrochelatase from Arabidopsis thaliana
Biochem. J.
444
227-237
2012
Arabidopsis thaliana
brenda
Bali, S.; Rollauer, S.; Roversi, P.; Raux-Deery, E.; Lea, S.M.; Warren, M.J.; Ferguson, S.J.
Identification and characterization of the missing terminal enzyme for siroheme biosynthesis in alpha-proteobacteria
Mol. Microbiol.
92
153-163
2014
Paracoccus pantotrophus
brenda
Garai, S.; Joshi, N.C.; Tripathy, B.C.
Phylogenetic analysis and photoregulation of siroheme biosynthesis genes uroporphyrinogen III methyltransferase and sirohydrochlorin ferrochelatase of Arabidopsis thaliana
Physiol. Mol. Biol. Plants
22
351-359
2016
Arabidopsis thaliana (Q84JH7)
brenda
Videira, M.A.M.; Lobo, S.A.L.; Sousa, F.L.; Saraiva, L.M.
Identification of the sirohaem biosynthesis pathway in Staphylococcus aureus
FEBS J.
287
1537-1553
2020
Staphylococcus aureus (A0A0H3KA92)
brenda
Fujishiro, T.; Ogawa, S.
The nickel-sirohydrochlorin formation mechanism of the ancestral class II chelatase CfbA in coenzyme F430 biosynthesis
Chem. Sci.
12
2172-2180
2021
Methanocaldococcus jannaschii (A0A832WLA4)
brenda
Fujishiro, T.; Shimada, Y.; Nakamura, R.; Ooi, M.
Structure of sirohydrochlorin ferrochelatase SirB the last of the structures of the class II chelatase family
Dalton Trans.
48
6083-6090
2019
Bacillus subtilis (O34632), Bacillus subtilis 168 (O34632)
brenda