4Z4K: GFP-TAX1BP1 UBZ1+2 domain fusion protein

Crystal structure of GFP-TAX1BP1 UBZ1+2 domain fusion protein. Determined by X-ray diffraction at 2.8 Å resolution. Released 6 Apr 2016.

Method: X-ray diffraction
Resolution: 2.8 Å
Organisms: Aequorea victoria, Homo sapiens
Chains: 2
Atoms: 4,642
Mol. weight: 66.76 kDa
Ligands: ZN
Released: 6 Apr 2016

Explore 4Z4K in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4Z4K contains 17 α-helices and 36 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 8 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	4-8	5
β-strand	12-22	11	1
β-strand	25-36	12	1
β-strand	41-48	8	1
α-helix	57-60	4
α-helix	69-71	3
β-strand	73	1	1
α-helix	76-81	6
α-helix	83-86	4
β-strand	92-100	9	1
β-strand	105-115	11	1
β-strand	118-128	11	1
β-strand	141	1	2
β-strand	148-155	8	1
β-strand	160-170	11	1
β-strand	171	1	2
β-strand	176-187	12	1
α-helix	196-197	2
β-strand	199-208	10	1
β-strand	217-227	11	1
β-strand	236-237	2	3
β-strand	244-245	2	3
α-helix	251-259	9
β-strand	263-264	2	4
β-strand	271-272	2	4
α-helix	278-286	9

Chain B: 9 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	4-8	5
β-strand	11-22	12	5
β-strand	25-36	12	5
β-strand	41-48	8	5
α-helix	57-60	4
α-helix	69-71	3
β-strand	73	1	5
α-helix	76-81	6
α-helix	83-86	4
β-strand	92-100	9	5
β-strand	105-115	11	5
β-strand	118-128	11	5
β-strand	141	1	6
β-strand	148-155	8	5
β-strand	160-170	11	5
β-strand	171	1	6
β-strand	176-187	12	5
α-helix	196-197	2
β-strand	199-208	10	5
β-strand	217-227	11	5
β-strand	236-237	2	7
β-strand	244-245	2	7
α-helix	246	1
α-helix	251-259	9
β-strand	263-264	2	8
β-strand	271-272	2	8
α-helix	279-286	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Green fluorescent protein,Tax1-binding protein 1	A, B	protein	290	Aequorea victoria, Homo sapiens	P42212 (AlphaFold model), Q86VP1 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>4Z4K_1 Green fluorescent protein,Tax1-binding protein 1 (chains A, B)
GSHMSKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPW
PTLVTTFGYGVQCFARYPDHMKQHDFFKSAMPEGYVQERTIFFKDDGNYKTRAEVKFEGD
TLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQ
LADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHMVLLEFVTAAGITGSDVHKK
CPLCELMFPPNYDQSKFEEHVESHWKVCPMCSEQFPPDYDQQVFERHVQTHF

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	4

Primary citation

A novel mode of ubiquitin recognition by the ubiquitin-binding zinc finger domain of WRNIP1. Suzuki, N., Rohaim, A., Kato, R. et al. FEBS J (2016) 283:2004-2017. DOI 10.1111/febs.13734 · PubMed

Other PDB entries of the same protein (UniProt P42212 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6L27 0.77 Å, X-ray crystal structure of the mutant green fluorescent protein
6JGJ 0.78 Å, Crystal structure of the F99S/M153T/V163A/E222Q variant of GFP at 0.78 A
6KL0 0.8 Å, Crystal structure of the S65T/F99S/M153T/V163A variant of perdeuterated GFP at pD 7.0
6JGI 0.85 Å, Crystal structure of the S65T/F99S/M153T/V163A variant of GFP at 0.85 A
6KL1 0.85 Å, Crystal structure of the S65T/F99S/M153T/V163A variant of non-deuterated GFP at pD 8.5
2WUR 0.9 Å, Atomic resolution structure of GFP measured on a rotating anode
6KKZ 0.9 Å, Crystal structure of the S65T/F99S/M153T/V163A variant of perdeuterated GFP at pD 8.5
6JGH 0.94 Å, Crystal structure of the F99S/M153T/V163A/T203I variant of GFP at 0.94 A
4AS8 1.02 Å, X-ray structure of the cyan fluorescent protein Cerulean cryoprotected with ethylene…
5OXC 1.02 Å, Structure of Cerulean Fluorescent Protein at 1.02 Angstrom resolution
7PCA 1.05 Å, Functional and structural characterization of redox sensitive superfolder green…
4GF6 1.1 Å, crystal structure of GFP with cuprum bound at the Incorporated metal Chelating Amino…

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