6PD4: Hendra Virus Attachment G Glycoprotein

Crystal Structure of Hendra Virus Attachment G Glycoprotein. Determined by X-ray diffraction at 2.2 Å resolution. Released 27 Nov 2019.

Method: X-ray diffraction
Resolution: 2.2 Å
Organism: Hendra henipavirus
Chains: 2
Atoms: 7,734
Mol. weight: 104.01 kDa
Ligands: NAG
Released: 27 Nov 2019

Explore 6PD4 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6PD4 contains 15 α-helices and 67 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: 7 helices, 34 β-strands

Element	Residues	Length	Sheet
β-strand	178-180	3	1
α-helix	185-187	3
β-strand	201-202	2	1
α-helix	203-204	2
β-strand	205	1	2
β-strand	215-225	11	2
β-strand	228-237	10	2
β-strand	244-257	14	2
β-strand	263-271	9	2
β-strand	279-287	9	3
β-strand	290-297	8	3
α-helix	310-312	3
β-strand	314-320	7	3
β-strand	332-337	6	3
β-strand	339-341	3	4
β-strand	347-350	4	4
β-strand	354	1	3
β-strand	356-358	3	4
β-strand	361-371	11	4
α-helix	372-374	3
α-helix	379-381	3
α-helix	394-397	4
β-strand	407-417	11	4
β-strand	425-430	6	4
β-strand	431	1	5
α-helix	432	1
β-strand	442-447	6	6
β-strand	450-455	6	6
β-strand	465-471	7	6
β-strand	475	1	5
β-strand	476-479	4	6
β-strand	509	1	1
β-strand	511-515	5	7
β-strand	520-526	7	7
β-strand	533	1	8
β-strand	535-541	7	7
β-strand	544-550	7	7
β-strand	557	1	8
β-strand	558-568	11	1
β-strand	571-582	12	1
β-strand	587-596	10	1

Chain B: 8 helices, 33 β-strands

Element	Residues	Length	Sheet
β-strand	178-180	3	9
α-helix	185-187	3
β-strand	201-202	2	9
α-helix	204-206	3
β-strand	215-225	11	10
β-strand	228-237	10	10
α-helix	243	1
β-strand	244-257	14	10
β-strand	263-271	9	10
β-strand	279-287	9	11
β-strand	290-297	8	11
α-helix	310-312	3
β-strand	314-320	7	11
β-strand	332-337	6	11
β-strand	339-341	3	12
β-strand	347-350	4	12
β-strand	354	1	11
β-strand	356-358	3	12
β-strand	361-371	11	12
α-helix	372-374	3
α-helix	379-381	3
α-helix	394-397	4
β-strand	407-417	11	12
β-strand	425-430	6	12
β-strand	431	1	13
α-helix	432	1
β-strand	442-447	6	14
β-strand	450-455	6	14
β-strand	465-471	7	14
β-strand	475	1	13
β-strand	476-479	4	14
β-strand	509	1	9
β-strand	511-515	5	15
β-strand	520-526	7	15
β-strand	533	1	16
β-strand	535-541	7	15
β-strand	544-550	7	15
β-strand	557	1	16
β-strand	558-568	11	9
β-strand	571-582	12	9
β-strand	587-596	10	9

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Attachment glycoprotein	A, B	protein	441	Hendra henipavirus	O89343 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>6PD4_1 Attachment glycoprotein (chains A, B)
YRPISQGVSDLVGLPNQICLQKTTSTILKPRLISYTLPINTREGVCITDPLLAVDNGFFA
YSHLEKIGSCTRGIAKQRIIGVGEVLDRGDKVPSMFMTNVWTPPNPSTIHHCSSTYHEDF
YYTLCAVSHVGDPILNSTSWTESLSLIRLAVRPKSDSGDYNQKYIAITKVERGKYDKVMP
YGPSGIKQGDTLYFPAVGFLPRTEFQYNDSNCPIIHCKYSKAENCRLSMGVNSKSHYILR
SGLLKYNLSLGGDIILQFIEIADNRLTIGSPSKIYNSLGQPVFYQASYSWDTMIKLGDVD
TVDPLRVQWRNNSVISRPGQSQCPRFNVCPEVCWEGTYNDAFLIDRLNWVSAGVYLNSNQ
TAENPVFAVFKDNEILYQVPLAEDDTNAQKTITDCFLLENVIWCISLVEIYDTGDSVIRP
KLFAVKIPAQCSESGRGLVPR

Ligands and cofactors

ID	Name	Formula	Copies
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	2

Water and common crystallization additives (SO4) are not listed.

Primary citation

New insights into the Hendra virus attachment and entry process from structures of the virus G glycoprotein and its complex with Ephrin-B2. Xu, K., Chan, Y.P., Rajashankar, K.R. et al. PLoS One (2012) 7:e48742. DOI 10.1371/journal.pone.0048742 · PubMed

Other PDB entries of the same protein (UniProt O89343 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6VY4 2.0 Å, Crystal structure of Hendra receptor binding protein head domain in complex with human…
6VY6 2.6 Å, Crystal structure of Hendra receptor binding protein head domain in complex with human…
6CMG 2.7 Å, Crystal Structure of the Hendra Virus Attachment G Glycoprotein Bound to a Potent…
6PDL 2.7 Å, Crystal Structure of Hendra Virus Attachment G Glycoprotein in Complex with Receptor…
6CMI 2.72 Å, Crystal Structure of the Hendra Virus Attachment G Glycoprotein Bound to a Potent…
7SYY 2.74 Å, Hendra virus G protein head domain in complex with cross-neutralizing murine antibody…
7SYZ 2.86 Å, Hendra virus G protein head domain in complex with cross-neutralizing murine antibody…
2X9M 2.9 Å, Hendra virus attachment glycoprotein
8VF1 3.0 Å, Crystal Structure of the Hendra Virus Attachment G glycoprotein (HeV-G)
8JR3 3.22 Å, Crystal structure of Hendra Virus attachment(G) glycoprotein mutant S586N in complex…
2VSK 3.3 Å, Hendra virus attachment glycoprotein in complex with human cell surface receptor ephrinB2
8JR5 3.3 Å, Crystal structure of Hendra Virus attachment(G) glycoprotein mutant S586N

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