8W2P | pdb_00008w2p

Deposited: 2024-02-20 Released: 2024-10-30
Deposition Author(s): Shen, B.W., Stoddard, B.L., Xu, S.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Macromolecule Content

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
site-specific DNA-methyltransferase (adenine-specific)	A, B	916	Geobacillus stearothermophilus	Mutation(s): 0 Gene Names: B9L19_03590 EC: 2.1.1.72
UniProt
Find proteins for A0AA91YUR9 (Geobacillus thermocatenulatus) Explore A0AA91YUR9 Go to UniProtKB: A0AA91YUR9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0AA91YUR9
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
S.BsaXI	C	476	Geobacillus stearothermophilus	Mutation(s): 0 Gene Names: GT3921_04730
UniProt
Find proteins for A0A226QBA7 (Geobacillus thermocatenulatus) Explore A0A226QBA7 Go to UniProtKB: A0A226QBA7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A226QBA7
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Reference Sequence

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Molecule	Chains	Length	Organism
Entity ID: 3
DNA (41-MER) Top strand of BsaXI cognate DNA substrate	D	52	Geobacillus stearothermophilus
Sequence Annotations Expand
Reference Sequence

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Molecule	Chains	Length	Organism
Entity ID: 4
DNA (41-MER) Complementary strand of BsaXI DNA substrate	E	52	Geobacillus stearothermophilus
Sequence Annotations Expand
Reference Sequence

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SAM (Subject of Investigation/LOI) Query on SAM Download:Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A] mmCIF format, chain F [auth A]	F [auth A]	S-ADENOSYLMETHIONINE C₁₅ H₂₂ N₆ O₅ S MEFKEPWMEQBLKI-FCKMPRQPSA-N		Interactions Focus chain F [auth A] Interactions & Density Focus chain F [auth A]
SAH (Subject of Investigation/LOI) Query on SAH Download:Ideal Coordinates CCD File SDF format, chain H [auth B] MOL2 format, chain H [auth B] mmCIF format, chain H [auth B]	H [auth B]	S-ADENOSYL-L-HOMOCYSTEINE C₁₄ H₂₀ N₆ O₅ S ZJUKTBDSGOFHSH-WFMPWKQPSA-N		Interactions Focus chain H [auth B] Interactions & Density Focus chain H [auth B]
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain G [auth A] MOL2 format, chain G [auth A] mmCIF format, chain G [auth A]	G [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Interactions & Density Focus chain G [auth A]