6HPR: CIAP1 RING domain

Crystal structure of cIAP1 RING domain bound to UbcH5B-Ub and a non-covalent Ub. Determined by X-ray diffraction at 1.7 Å resolution. Released 12 Dec 2018.

Method: X-ray diffraction
Resolution: 1.7 Å
Organism: Homo sapiens
Chains: 4
Atoms: 3,018
Mol. weight: 42.06 kDa
Ligands: ZN
Released: 12 Dec 2018

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

Secondary structure: helices and β-sheets

6HPR contains 19 α-helices and 31 β-strands across 4 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: 3 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	558-568	11
β-strand	570	1	1
β-strand	578	1	1
α-helix	579	1
β-strand	581-584	4	2
β-strand	589-591	3	2
α-helix	596-598	3
β-strand	601	1	3
β-strand	608	1	3
β-strand	611-614	4	2

Chain B: 5 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	1-7	7	4
β-strand	12-17	6	4
β-strand	22	1	5
α-helix	23-34	12
α-helix	38-40	3
β-strand	41-45	5	4
β-strand	48-49	2	4
α-helix	50-51	2
β-strand	55	1	5
α-helix	57-59	3
β-strand	66-71	6	4
α-helix	72-73	2

Chain C: 7 helices, 9 β-strands

Element	Residues	Length	Sheet
α-helix	3-15	13
β-strand	21-26	6	6
β-strand	29-38	10	6
α-helix	39-40	2
β-strand	49-55	7	6
α-helix	64-65	2
β-strand	66-69	4	6
β-strand	75	1	7
β-strand	78	1	7
β-strand	83	1	6
β-strand	84	1	7
β-strand	86	1	8
α-helix	87-89	3
α-helix	99-110	12
α-helix	121-129	9
α-helix	131-145	15

Chain D: 4 helices, 8 β-strands

Element	Residues	Length	Sheet
β-strand	1-6	6	9
β-strand	12-17	6	9
β-strand	22	1	10
α-helix	23-34	12
α-helix	38-40	3
β-strand	41-45	5	9
β-strand	48-49	2	9
α-helix	50-51	2
β-strand	55	1	10
α-helix	57-59	3
β-strand	66-71	6	9
β-strand	75	1	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Baculoviral IAP repeat-containing protein 2	A	protein	65	Homo sapiens	Q13490 (AlphaFold model)
Polyubiquitin-B	B, D	protein	81	Homo sapiens	P0CG47 (AlphaFold model)
Ubiquitin-conjugating enzyme E2 D2	C	protein	147	Homo sapiens	P62837 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>6HPR_1 Baculoviral IAP repeat-containing protein 2 (chains A)
GSLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIKGTV
RTFLS

Sequence of entity 2 (B, D), FASTA

>6HPR_2 Polyubiquitin-B (chains B, D)
GSGGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT
LSDYNIQKESTLHLVLRLRGG

Sequence of entity 3 (C), FASTA

>6HPR_3 Ubiquitin-conjugating enzyme E2 D2 (chains C)
MALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDY
PFKPPKVAFTTRIYHPNINSNGSIKLDILRSQWSPALTISKVLLSICSLLCDPNPDDPLV
PEIARIYKTDREKYNRIAREWTQKYAM

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	2

Primary citation

Structural insights into non-covalent ubiquitin activation of the cIAP1-UbcH5B∼ubiquitin complex. Patel, A., Sibbet, G.J., Huang, D.T. J Biol Chem (2019) 294:1240-1249. DOI 10.1074/jbc.RA118.006045 · PubMed

Other PDB entries of the same protein (UniProt Q13490 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4HY4 1.25 Å, Crystal structure of cIAP1 BIR3 bound to T3170284
7QGJ 1.3 Å, Apo structure of BIR2 Domain of BIRC2
3D9T 1.5 Å, CIAP1-BIR3 in complex with N-terminal peptide from Caspase-9 (ATPFQE)
8DSF 1.5 Å, Structure of cIAP1 with BCCov
4KMN 1.52 Å, Structure of cIAP1-BIR3 and inhibitor
4LGE 1.55 Å, Crystal structure of clAP1 BIR3 bound to T3261256
7TRL 1.74 Å, Crystal structure of human BIRC2 BIR3 domain in complex with histone H3
4HY5 1.75 Å, Crystal structure of cIAP1 BIR3 bound to T3256336
3UW4 1.79 Å, Crystal structure of cIAP1 BIR3 bound to GDC0152
4MU7 1.79 Å, Crystal structure of cIAP1 BIR3 bound to T3450325
5M6N 1.8 Å, Small Molecule inhibitors of IAP
9N23 1.8 Å, Crystal structure of cIAP1-BIR3 with XB2 series SMAC mimetic ligand

Browse structure collections

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