4QFF: PDB entry 4QFF

Structure of a 16 nm protein cage designed by fusing symmetric oligomeric domains, quadruple mutant, P212121 form. Determined by X-ray diffraction at 7.81 Å resolution. Released 20 May 2015.

Method: X-ray diffraction
Resolution: 7.81 Å
Organisms: Streptomyces aureofaciens, Influenza A virus
Chains: 12
Atoms: 40,512
Mol. weight: 602.27 kDa
Released: 20 May 2015

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

Secondary structure: helices and β-sheets

4QFF contains 294 α-helices and 156 β-strands across 12 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.

Chains A, E, G and J: 25 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	2-8	7	1
β-strand	11-16	6	1
β-strand	17-20	4	2
β-strand	25-29	5	2
α-helix	36-39	4
α-helix	40-49	10
β-strand	52-56	5	2
α-helix	57-58	2
α-helix	73-87	15
β-strand	92-97	6	2
α-helix	99-111	13
β-strand	116-122	7	2
β-strand	130	1	3
β-strand	140	1	3
α-helix	142-154	13
α-helix	156-168	13
α-helix	170-173	4
β-strand	174	1	4
β-strand	178	1	4
α-helix	180-191	12
α-helix	195-204	10
α-helix	213-215	3
β-strand	220-225	6	2
α-helix	237-243	7
β-strand	248-252	5	2
α-helix	259-262	4
α-helix	264-295	32
α-helix	299	1
α-helix	302-315	14
α-helix	322-330	9
α-helix	337-350	14
α-helix	357-360	4
α-helix	361-366	6
α-helix	369-371	3
α-helix	373-386	14
α-helix	392-399	8
α-helix	404-415	12
α-helix	423-440	18

Chains B, C, H, I and K: 24 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	2-8	7	5
β-strand	11-16	6	5
β-strand	17-20	4	6
β-strand	25-29	5	6
α-helix	36-39	4
α-helix	40-49	10
β-strand	52-56	5	6
α-helix	57-58	2
α-helix	73-87	15
β-strand	92-97	6	6
α-helix	99-111	13
β-strand	116-122	7	6
β-strand	130	1	7
β-strand	140	1	7
α-helix	142-154	13
α-helix	156-168	13
α-helix	170-173	4
β-strand	174	1	8
β-strand	178	1	8
α-helix	180-191	12
α-helix	195-204	10
α-helix	213-215	3
β-strand	220-225	6	6
α-helix	237-243	7
β-strand	248-252	5	6
α-helix	259-262	4
α-helix	264-295	32
α-helix	299	1
α-helix	302-315	14
α-helix	322-330	9
α-helix	337-350	14
α-helix	357-360	4
α-helix	361-367	7
α-helix	373-386	14
α-helix	392-399	8
α-helix	404-415	12
α-helix	423-440	18

Chains D and F: 25 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	2-8	7	13
β-strand	11-16	6	13
β-strand	17-20	4	14
β-strand	25-29	5	14
α-helix	36-39	4
α-helix	40-49	10
β-strand	52-56	5	14
α-helix	57-58	2
α-helix	73-87	15
β-strand	92-97	6	14
α-helix	100-111	12
β-strand	116-122	7	14
β-strand	130	1	15
β-strand	140	1	15
α-helix	142-154	13
α-helix	156-168	13
α-helix	170-173	4
β-strand	174	1	16
β-strand	178	1	16
α-helix	180-191	12
α-helix	195-204	10
α-helix	213-215	3
β-strand	220-225	6	14
α-helix	237-243	7
β-strand	248-252	5	14
α-helix	259-262	4
α-helix	264-295	32
α-helix	299	1
α-helix	302-315	14
α-helix	322-330	9
α-helix	337-350	14
α-helix	357-360	4
α-helix	361-366	6
α-helix	369-371	3
α-helix	373-386	14
α-helix	392-399	8
α-helix	404-415	12
α-helix	423-440	18

Chain L: 24 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	2-8	7	45
β-strand	11-16	6	45
β-strand	17-20	4	46
β-strand	25-29	5	46
α-helix	36-39	4
α-helix	40-49	10
β-strand	52-56	5	46
α-helix	57-58	2
α-helix	73-87	15
β-strand	92-97	6	46
α-helix	100-111	12
β-strand	116-122	7	46
β-strand	130	1	47
β-strand	140	1	47
α-helix	142-154	13
α-helix	156-168	13
α-helix	170-173	4
β-strand	174	1	48
β-strand	178	1	48
α-helix	180-191	12
α-helix	195-204	10
α-helix	213-215	3
β-strand	220-225	6	46
α-helix	237-243	7
β-strand	248-252	5	46
α-helix	259-262	4
α-helix	264-295	32
α-helix	299	1
α-helix	302-315	14
α-helix	322-330	9
α-helix	337-350	14
α-helix	357-360	4
α-helix	361-367	7
α-helix	373-386	14
α-helix	392-399	8
α-helix	404-415	12
α-helix	423-440	18

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Non-haem bromoperoxidase BPO-A2, Matrix protein 1 chimera	A, B, C, D, E, F, G, H, I, J, K, L	protein	456	Streptomyces aureofaciens, Influenza A virus	P03485 (AlphaFold model), P29715 (AlphaFold model)

Sequence of entity 1 (A, B, C, D, E, F, G, H, I, J, K, L), FASTA

>4QFF_1 Non-haem bromoperoxidase BPO-A2, Matrix protein 1 chimera (chains A, B, C, D, E, F, G, H, I, J, K, L)
MPFITVGQENSTSIDLYYEDHGTGTPVVLIHGFPLSGHSWERQSAALLDAGARVITYDRR
GFGQSSQPTTGYDYDTFAADLNTVLETLDLQDAVLVGFSMGTGEVARYVSSYGTARIAAV
AFLASLEPFLLKTDDNPDGAAPQEFFDGIVAAVKADRYAFYTGFFNDFYNLDENLGTRIS
EEAVRNSWNTAASGGFFAAAAAPTTWYTDFRADIPRIDVPALILHGTGDRTLPIENTARV
FHKALPSAEYVEVEGAPHGLLWTHAEEVNTALLAFLAKAQEAQKQKLLTEVETYVLSIIP
SGPLKAEIAQRLEDVFAGKNTDLEVLMEWLKTRPILSPLTKGILGFVFTLTVPSERGLQR
RRFVQNALNGNGDPNNMDKAVKLYRKLKREITFHGAKEISLSYSAGALASCMGLIYNRMG
AVTTEVAFGLVCATCEQIADSQHRSHRQLEHHHHHH

Primary citation

Structural transition of a protein nanocage as a function of pH and salt concentration. Lai, Y.-T., Yeates, T.O. To be published.

Other PDB entries of the same protein (UniProt P03485 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2VLL 1.6 Å, The Structural Dynamics and Energetics of an Immunodominant T-cell Receptor are…
5TEZ 1.7 Å, TCR F50 recgonizing M1-HLA-A2
5ISZ 2.06 Å, Crystal structure of LS01-TCR/M1-HLA-A*02 complex
1AA7 2.08 Å, Influenza virus matrix protein crystal structure at PH 4.0
5CQE 2.1 Å, 2.1 Angstrom resolution crystal structure of matrix protein 1 (M1; residues 1-164) from…
5EUO 2.1 Å, PF6-M1-HLA-A2
1EA3 2.3 Å, Influenza virus M1 protein
2VLR 2.3 Å, The Structural Dynamics and Energetics of an Immunodominant T-cell Receptor are…
5JHD 2.46 Å, Crystal structure of LS10-TCR/M1-HLA-A*02 complex
1HHI 2.5 Å, The antigenic identity of peptide(slash)mhc complexes: a comparison of the conformation…
3VDX 3.0 Å, Structure of a 16 nm protein cage designed by fusing symmetric oligomeric domains
7JM3 3.4 Å, Full-length three-dimensional structure of the influenza A virus M1 protein and its…

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