5LQB: Interleukin-2

Complex structure of human IL2 mutant, Proleukin, with Fab fragment of NARA1 antibody. Determined by X-ray diffraction at 1.95 Å resolution. Released 14 Dec 2016.

Method: X-ray diffraction
Resolution: 1.95 Å
Organisms: Homo sapiens, Mus musculus
Chains: 3
Atoms: 4,828
Mol. weight: 63.05 kDa
Released: 14 Dec 2016

Explore 5LQB in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5LQB contains 25 α-helices and 50 β-strands across 3 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, 4 β-strands

Element	Residues	Length	Sheet
α-helix	28-48	21
α-helix	56-59	4
β-strand	64	1	1
β-strand	67	1	2
α-helix	73-75	3
α-helix	76-91	16
α-helix	102-117	16
α-helix	120-122	3
α-helix	123-125	3
β-strand	127	1	2
β-strand	132	1	1
α-helix	134-151	18

Chain H: 10 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	3
α-helix	7-9	3
β-strand	10-12	3	4
β-strand	18-25	8	3
α-helix	29-31	3
β-strand	34-40	7	4
β-strand	44-51	8	4
β-strand	58-60	3	4
α-helix	62-64	3
β-strand	65	1	3
β-strand	68-73	6	3
α-helix	74-76	3
β-strand	78-83	6	3
α-helix	88-90	3
β-strand	92-100	9	4
β-strand	107-111	5	4
β-strand	115-119	5	4
α-helix	122-124	3
β-strand	125	1	5
α-helix	126-127	2
β-strand	128-132	5	6
α-helix	133-135	3
β-strand	143-153	11	6
β-strand	154	1	5
β-strand	159-162	4	7
α-helix	163-165	3
β-strand	167	1	7
β-strand	171-173	3	6
α-helix	174-176	3
β-strand	177-179	3	6
β-strand	182-192	11	6
β-strand	202-207	6	7
β-strand	211-216	6	7

Chain L: 7 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	8
β-strand	10-14	5	9
β-strand	19-25	7	8
β-strand	30-31	2	10
β-strand	34-35	2	10
β-strand	37-42	6	9
β-strand	49-53	5	9
β-strand	57-58	2	9
α-helix	59	1
β-strand	66-71	6	8
β-strand	74-79	6	8
α-helix	84-86	3
β-strand	88-94	7	9
α-helix	100	1
β-strand	101-102	2	9
β-strand	106-111	6	9
β-strand	115	1	11
β-strand	118-122	5	12
α-helix	123-125	3
α-helix	126-129	4
β-strand	133-143	11	12
β-strand	144	1	11
β-strand	148-154	7	13
β-strand	157-159	3	13
β-strand	163-167	5	12
α-helix	168-171	4
β-strand	177-186	10	12
α-helix	187-191	5
β-strand	195-202	8	13
β-strand	205-214	10	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Interleukin-2	A	protein	132	Homo sapiens	P60568 (AlphaFold model)
anti-hIL2 FAB fragment heavy chain	H	protein	224	Mus musculus
anti-hIL2 FAB fragment light chain	L	protein	218	Mus musculus

Sequence of entity 1 (A), FASTA

>5LQB_1 Interleukin-2 (chains A)
PTSSSTKKTQLQLEHLLLDLQMILNGINNYKNPKLTRMLTFKFYMPKKATELKHLQCLEE
ELKPLEEVLNLAQSKNFHLRPRDLISNINVIVLELKGSETTFMCEYADETATIVEFLNRW
ITFSQSIISTLT

Sequence of entity 2 (H), FASTA

>5LQB_2 anti-hIL2 FAB fragment heavy chain (chains H)
QVQLQQSGAELVRPGTSVKVSCKASGYAFTNYLIEWVKQRPGQGLEWIGVINPGSGGTNY
NEKFKGKATLTADKSSSTAYMQLSSLTSDDSAVYFCARWRGDGYYAYFDVWGAGTTVTVS
SAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQS
DLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRGPT

Sequence of entity 3 (L), FASTA

>5LQB_3 anti-hIL2 FAB fragment light chain (chains L)
DIVLTQSPASLAVSLGQRATISCKASQSVDYDGDSYMNWYQQKPGQPPKLLIYAASNLES
GIPARFSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVS
IFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMS
STLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC

Primary citation

Improved cancer immunotherapy by a CD25-mimobody conferring selectivity to human interleukin-2. Arenas-Ramirez, N., Zou, C., Popp, S. et al. Sci Transl Med (2016) 8:367ra166-367ra166. DOI 10.1126/scitranslmed.aag3187 · PubMed

Other PDB entries of the same protein (UniProt P60568 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8SOZ 1.64 Å, Structure of the complex formed by human interleukin-2 and scFv 602
8SOW 1.71 Å, Structure of the complex formed by human interleukin-2 and scFv F10
7M2G 1.79 Å, INTERLEUKIN-2 (human) mutant P65K, C125S
4NEJ 1.92 Å, Small molecular fragment bound to crystal contact interface of Interleukin-2
4NEM 1.93 Å, Small molecular fragment bound to crystal contact interface of Interleukin-2
1M48 1.95 Å, Crystal Structure of Human IL-2 Complexed with (R)-N-[2-[1-(Aminoiminomethyl)-3-piperidin…
1M47 1.99 Å, Crystal Structure of Human Interleukin-2
1M49 2.0 Å, Crystal Structure of Human Interleukin-2 Complexed with SP-1985
1M4B 2.15 Å, Crystal Structure of Human Interleukin-2 K43C Covalently Modified at C43 with…
1M4A 2.18 Å, Crystal Structure of Human Interleukin-2 Y31C Covalently Modified at C31 with…
1NBP 2.2 Å, Crystal Structure Of Human Interleukin-2 Y31C Covalently Modified At C31 With…
7RA9 2.2 Å, Designed StabIL-2 seq1

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