Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3J1Z

Inward-Facing Conformation of the Zinc Transporter YiiP revealed by Cryo-electron Microscopy

Functional Information from GO Data

Chain	GOid	namespace	contents
P	0005886	cellular_component	plasma membrane
P	0006811	biological_process	monoatomic ion transport
P	0006812	biological_process	monoatomic cation transport
P	0006826	biological_process	iron ion transport
P	0006829	biological_process	zinc ion transport
P	0006882	biological_process	intracellular zinc ion homeostasis
P	0008324	molecular_function	monoatomic cation transmembrane transporter activity
P	0015086	molecular_function	cadmium ion transmembrane transporter activity
P	0015093	molecular_function	ferrous iron transmembrane transporter activity
P	0015341	molecular_function	zinc efflux antiporter activity
P	0016020	cellular_component	membrane
P	0034755	biological_process	iron ion transmembrane transport
P	0046872	molecular_function	metal ion binding
P	0055085	biological_process	transmembrane transport
P	0070574	biological_process	cadmium ion transmembrane transport
P	0071577	biological_process	zinc ion transmembrane transport
P	0098655	biological_process	monoatomic cation transmembrane transport
Q	0005886	cellular_component	plasma membrane
Q	0006811	biological_process	monoatomic ion transport
Q	0006812	biological_process	monoatomic cation transport
Q	0006826	biological_process	iron ion transport
Q	0006829	biological_process	zinc ion transport
Q	0006882	biological_process	intracellular zinc ion homeostasis
Q	0008324	molecular_function	monoatomic cation transmembrane transporter activity
Q	0015086	molecular_function	cadmium ion transmembrane transporter activity
Q	0015093	molecular_function	ferrous iron transmembrane transporter activity
Q	0015341	molecular_function	zinc efflux antiporter activity
Q	0016020	cellular_component	membrane
Q	0034755	biological_process	iron ion transmembrane transport
Q	0046872	molecular_function	metal ion binding
Q	0055085	biological_process	transmembrane transport
Q	0070574	biological_process	cadmium ion transmembrane transport
Q	0071577	biological_process	zinc ion transmembrane transport
Q	0098655	biological_process	monoatomic cation transmembrane transport

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	280
Details	Topological domain: {"description":"Cytoplasmic","evidences":[{"source":"UniProtKB","id":"P69380","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	202
Details	Transmembrane: {"description":"Helical","evidences":[{"source":"UniProtKB","id":"P69380","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	84
Details	Topological domain: {"description":"Periplasmic","evidences":[{"source":"UniProtKB","id":"P69380","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6E","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6J","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6K","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6E","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6J","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6E","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6F","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6J","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6E","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6J","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6E","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6K","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6H","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6F","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6J","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI12
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6E","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6F","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6J","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI13
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29507252","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"34254979","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"NOV-2022","submissionDatabase":"PDB data bank","title":"Characterization of individual Zn2+ binding sites of YiiP.","authors":["Lopez-Redondo M.L.","Hussein A.K.","Stokes D.L."]}},{"source":"PDB","id":"5VRF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7KZZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6E","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6F","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8F6I","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)