5UTZ: Human IL-2/Fab complex

Human IL-2/Fab complex. Determined by X-ray diffraction at 2.75 Å resolution. Released 11 Jul 2018.

Method: X-ray diffraction
Resolution: 2.75 Å
Organism: Homo sapiens
Chains: 12
Atoms: 17,641
Mol. weight: 249.7 kDa
Released: 11 Jul 2018

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

Secondary structure: helices and β-sheets

5UTZ contains 95 α-helices and 213 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.

Chain A: 7 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	5-30	26
α-helix	36-40	5
β-strand	44-47	4	31
α-helix	53-56	4
α-helix	57-60	4
α-helix	63-72	10
β-strand	79	1	20
α-helix	82-97	16
β-strand	107-112	6	31
α-helix	114-132	19

Chains B and H: 9 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	17
β-strand	11-12	2	18
α-helix	17	1
β-strand	18-25	8	17
β-strand	34-41	8	19
β-strand	47-53	7	19
β-strand	59-61	3	19
β-strand	69-74	6	17
β-strand	79-84	6	17
α-helix	89-91	3
β-strand	93-101	9	19
β-strand	103	1	20
β-strand	111	1	19
β-strand	115-117	3	19
β-strand	118-119	2	18
α-helix	122-124	3
β-strand	125	1	21
α-helix	126-127	2
β-strand	128-132	5	22
β-strand	143-153	11	22
β-strand	154	1	21
β-strand	159-162	4	23
α-helix	163-165	3
β-strand	167	1	23
β-strand	171-173	3	22
α-helix	174-176	3
β-strand	177-178	2	22
β-strand	184-193	10	22
α-helix	194-196	3
β-strand	197	1	24
β-strand	200	1	24
β-strand	203-208	6	23
α-helix	209-211	3
β-strand	213-218	6	23
α-helix	220-222	3

Chains C and L: 7 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	4-5	2	25
β-strand	9-12	4	26
β-strand	18-24	7	25
α-helix	29-31	3
β-strand	35-39	5	26
β-strand	46-49	4	26
β-strand	50	1	27
β-strand	54	1	27
β-strand	63-68	6	25
β-strand	73-78	6	25
α-helix	83-85	3
β-strand	87-94	8	26
β-strand	99-101	3	26
β-strand	102	1	25
β-strand	105-109	5	26
β-strand	115	1	28
α-helix	116-117	2
β-strand	118-122	5	29
α-helix	123-125	3
α-helix	126-129	4
β-strand	134-143	10	29
β-strand	144	1	28
β-strand	149-154	6	30
β-strand	157-159	3	30
β-strand	163-165	3	29
α-helix	166-168	3
β-strand	169-170	2	29
β-strand	176-184	9	29
α-helix	186-190	5
β-strand	195-201	7	30
β-strand	204-210	7	30

Chain D: 8 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	7-29	23
α-helix	34-36	3
α-helix	37-41	5
β-strand	44	1	15
β-strand	47	1	16
α-helix	53-56	4
α-helix	57-61	5
α-helix	63-72	10
β-strand	79	1	4
α-helix	82-97	16
β-strand	107	1	16
β-strand	112	1	15
α-helix	114-132	19

Chain E: 8 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	7-29	23
α-helix	34-36	3
α-helix	37-41	5
β-strand	44-47	4	46
α-helix	53-56	4
α-helix	57-60	4
α-helix	63-72	10
β-strand	79	1	35
α-helix	82-97	16
β-strand	107-112	6	46
α-helix	114-132	19

Chain F: 10 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	32
β-strand	11-12	2	33
α-helix	17	1
β-strand	18-25	8	32
β-strand	34-41	8	34
β-strand	47-53	7	34
β-strand	59-61	3	34
β-strand	69-74	6	32
β-strand	79-84	6	32
α-helix	89-91	3
β-strand	93-101	9	34
β-strand	103	1	35
β-strand	111	1	34
β-strand	115-117	3	34
β-strand	118-119	2	33
α-helix	122-124	3
β-strand	125	1	36
α-helix	126-127	2
β-strand	128-132	5	37
α-helix	133-135	3
β-strand	143-153	11	37
β-strand	154	1	36
β-strand	159-162	4	38
α-helix	163-165	3
β-strand	167	1	38
β-strand	171-173	3	37
α-helix	174-176	3
β-strand	177-178	2	37
β-strand	184-193	10	37
α-helix	194-196	3
β-strand	197	1	39
β-strand	200	1	39
β-strand	203-208	6	38
α-helix	209-211	3
β-strand	213-218	6	38
α-helix	220-222	3

Chain G: 7 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	4-5	2	40
β-strand	9-12	4	41
β-strand	18-24	7	40
α-helix	29-31	3
β-strand	35-39	5	41
β-strand	46-49	4	41
β-strand	50	1	42
β-strand	54	1	42
β-strand	63-68	6	40
β-strand	73-78	6	40
α-helix	83-85	3
β-strand	88-94	7	41
β-strand	99-101	3	41
β-strand	102	1	40
β-strand	105-109	5	41
β-strand	115	1	43
α-helix	116-117	2
β-strand	118-122	5	44
α-helix	123-125	3
α-helix	126-130	5
β-strand	134-143	10	44
β-strand	144	1	43
β-strand	149-154	6	45
β-strand	157-159	3	45
β-strand	163-165	3	44
α-helix	166-168	3
β-strand	169-170	2	44
β-strand	176-184	9	44
α-helix	186-190	5
β-strand	195-201	7	45
β-strand	204-210	7	45

Chain I: 8 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	5-30	26
α-helix	36-40	5
β-strand	44-47	4	61
α-helix	53-56	4
α-helix	57-60	4
α-helix	63-72	10
β-strand	79	1	50
α-helix	82-97	16
α-helix	104-106	3
β-strand	107-112	6	61
α-helix	114-132	19

2 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Fab 5111 heavy chain	B, F, H, J	protein	224	Homo sapiens	Q6GMX6 (AlphaFold model)
Fab 5111 light chain	C, G, K, L	protein	216	Homo sapiens	Q6IPQ0 (AlphaFold model)
Interleukin-2	A, D, E, I	protein	133	Homo sapiens	P60568 (AlphaFold model)

Sequence of entity 1 (B, F, H, J), FASTA

>5UTZ_1 Fab 5111 heavy chain (chains B, F, H, J)
QLQLQESGPGLVKPSQTLSLTCTVSGGSISSGGYYWSWIRQHPGKGLEWIGYIYYSGSTY
YNPSLKSRVTISVDTSKNQFSLKLSSVTAADTAVYYCARTPTVTGDWFDPWGRGTLVTVS
SASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQS
SGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC

Sequence of entity 2 (C, G, K, L), FASTA

>5UTZ_2 Fab 5111 light chain (chains C, G, K, L)
NFMLTQPHSVSESPGKTVTISCTRSSGSIASNYVQWYQQRPGSSPTTVIYEDNQRPSGVP
DRFSGSIDSSSNSASLTISGLKTEDEADYYCQSYDSSNVVFGGGTKLTVLGQPKAAPSVT
LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS
YLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS

Sequence of entity 3 (A, D, E, I), FASTA

>5UTZ_3 Interleukin-2 (chains A, D, E, I)
APTSSSTKKTQLQLEHLLLDLQMILNGINNYKNPKLTRMLTFKFYMPKKATELKHLQCLE
EELKPLEEVLNLAQSKNFHLRPRDLISNINVIVLELKGSETTFMCEYADETATIVEFLNR
WITFCQSIISTLT

Primary citation

A human anti-IL-2 antibody that potentiates regulatory T cells by a structure-based mechanism. Trotta, E., Bessette, P.H., Silveria, S.L. et al. Nat Med (2018) 24:1005-1014. DOI 10.1038/s41591-018-0070-2 · PubMed

Other PDB entries of the same protein (UniProt Q6GMX6 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5VSI 1.51 Å, CH1/Ckappa Fab mutant 15.1
6DC4 1.7 Å, RSV-neutralizing human antibody AM22
4NPY 1.8 Å, Crystal structure of germline Fab PGT121, a putative precursor of the broadly reactive…
6BAH 1.9 Å, Trastuzumab Fab v3 with 5-diphenyl meditope variant
4LKX 1.92 Å, Humanized antibody 4B12 Fab complexed with a CemX segment
3ZL4 1.95 Å, Antibody structural organization: Role of kappa - lambda chain constant domain switch in…
6B9Y 2.14 Å, Trastuzumab Fab v3 in complex with 5-phenyl meditope variant
5VR9 2.15 Å, CH1/Ckappa Fab based on Matuzumab
6VPY 2.36 Å, I33M (I3.2 mutant from CH103 Lineage)
4FQQ 2.42 Å, Crystal Structure of Germline Antibody PGT121-GL Fab
6AL4 2.45 Å, Crystal structure of anti-CD19 antibody B43 FAB
4D9L 2.48 Å, Fab structure of anti-HIV-1 gp120 V2 mAb 697

Browse structure collections

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