6EWC: Non-phosphorylated form of RLS PHOSPHOPEPTIDE

Crystal structure of non-phosphorylated form of RLS PHOSPHOPEPTIDE BOUND TO HLA-A2 in complex with LILRB1. Determined by X-ray diffraction at 3.2 Å resolution. Released 7 Nov 2018.

Method: X-ray diffraction
Resolution: 3.2 Å
Organism: Homo sapiens
Chains: 8
Atoms: 9,226
Mol. weight: 133.01 kDa
Released: 7 Nov 2018

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

Secondary structure: helices and β-sheets

6EWC contains 36 α-helices and 110 β-strands across 8 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: 9 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	1
β-strand	21-28	8	1
β-strand	31-37	7	1
α-helix	45	1
β-strand	46-47	2	1
α-helix	50-53	4
α-helix	57-84	28
β-strand	94-103	10	1
β-strand	109-118	10	1
β-strand	121-126	6	1
β-strand	133-134	2	1
α-helix	139-149	11
α-helix	152-161	10
α-helix	163-174	12
α-helix	176-179	4
β-strand	183	1	2
α-helix	184-185	2
β-strand	186-193	8	3
β-strand	198-208	11	3
β-strand	209	1	2
β-strand	214-219	6	4
β-strand	222-223	2	4
β-strand	229-230	2	3
β-strand	234-235	2	3
β-strand	241-250	10	3
α-helix	254-256	3
β-strand	257-262	6	4
β-strand	270-273	4	4

Chains B and F: 3 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	2	1	5
β-strand	3	1	6
α-helix	4-5	2
β-strand	6-11	6	7
β-strand	21-30	10	7
β-strand	31	1	6
β-strand	36-41	6	8
β-strand	44-45	2	8
α-helix	46	1
β-strand	50-51	2	7
α-helix	52-54	3
β-strand	55-56	2	7
β-strand	62-70	9	7
β-strand	78-83	6	8
β-strand	87	1	9
β-strand	91-94	4	8

Chains C and G: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-4	3

Chain D: 5 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	7-11	5	10
β-strand	15-17	3	11
β-strand	22-27	6	10
β-strand	35	1	12
β-strand	38-39	2	13
α-helix	45-49	5
α-helix	52-55	4
β-strand	59-62	4	10
α-helix	67-69	3
β-strand	71-74	4	13
β-strand	77	1	12
α-helix	85-87	3
β-strand	91-93	3	13
β-strand	94-96	3	11
β-strand	99	1	9
β-strand	103-107	5	14
β-strand	111-113	3	15
β-strand	118-123	6	14
β-strand	126	1	5
β-strand	130-136	7	16
β-strand	144-147	4	16
β-strand	156-161	6	14
β-strand	171-177	7	16
β-strand	184	1	11
β-strand	185	1	16
α-helix	186-191	6
β-strand	192-193	2	16
β-strand	195-197	3	15

Chain E: 9 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	17
β-strand	21-28	8	17
β-strand	31-37	7	17
α-helix	45	1
β-strand	46-47	2	17
α-helix	50-53	4
α-helix	57-84	28
β-strand	94-103	10	17
β-strand	109-118	10	17
β-strand	121-126	6	17
β-strand	133-134	2	17
α-helix	140-149	10
α-helix	152-161	10
α-helix	163-174	12
α-helix	176-179	4
β-strand	183	1	18
α-helix	184-185	2
β-strand	186-193	8	19
β-strand	198-208	11	19
β-strand	209	1	18
β-strand	214-219	6	20
β-strand	222-223	2	20
β-strand	229-230	2	19
β-strand	234-235	2	19
β-strand	241-250	10	19
α-helix	254-256	3
β-strand	257-262	6	20
β-strand	270-273	4	20

Chain H: 5 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	7-11	5	26
β-strand	15-17	3	27
β-strand	22-27	6	26
β-strand	35-39	5	28
α-helix	45-49	5
α-helix	52-55	4
β-strand	59-62	4	26
α-helix	67-69	3
β-strand	71-77	7	28
β-strand	78	1	29
β-strand	84	1	29
α-helix	85-87	3
β-strand	91-93	3	28
β-strand	94-96	3	27
β-strand	99	1	25
β-strand	103-107	5	30
β-strand	111-113	3	31
β-strand	118-123	6	30
β-strand	126	1	21
β-strand	130-136	7	32
β-strand	144-147	4	32
β-strand	156-161	6	30
β-strand	171-177	7	32
β-strand	184	1	27
β-strand	185	1	32
α-helix	186-191	6
β-strand	192-193	2	32
β-strand	195-197	3	31

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
HLA class I histocompatibility antigen, A-2 alpha chain	A, E	protein	276	Homo sapiens	P04439 (AlphaFold model)
Beta-2-microglobulin	B, F	protein	99	Homo sapiens	P61769 (AlphaFold model)
Reticulophagy regulator 2	C, G	protein	9	Homo sapiens	Q8NC44 (AlphaFold model)
Leukocyte immunoglobulin-like receptor subfamily B member 1	D, H	protein	195	Homo sapiens	Q8NHL6 (AlphaFold model)

Sequence of entity 1 (A, E), FASTA

>6EWC_1 HLA class I histocompatibility antigen, A-2 alpha chain (chains A, E)
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDG
KDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQ
RTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B, F), FASTA

>6EWC_2 Beta-2-microglobulin (chains B, F)
IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDW
SFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C, G), FASTA

>6EWC_3 Reticulophagy regulator 2 (chains C, G)
RLSSPLHFV

Sequence of entity 4 (D, H), FASTA

>6EWC_4 Leukocyte immunoglobulin-like receptor subfamily B member 1 (chains D, H)
PKPTLWAEPGSVITQGSPVTLRCQGGQETQEYRLYREKKTAPWITRIPQELVKKGQFPIP
SITWEHAGRYRCYYGSDTAGRSESSDPLELVVTGAYIKPTLSAQPSPVVNSGGNVTLQCD
SQVAFDGFILCKEGEDEHPQCLNSQPHARGSSRAIFSVGPVSPSRRWWYRCYAYDSNSPY
EWSLPSDLLELLVLG

Primary citation

Application of the immunoregulatory receptor LILRB1 as a crystallisation chaperone for human class I MHC complexes. Mohammed, F., Stones, D.H., Willcox, B.E. J Immunol Methods (2019) 464:47-56. DOI 10.1016/j.jim.2018.10.011 · PubMed

Other PDB entries of the same protein (UniProt P04439 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3MRE 1.1 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with EBV bmlf1-280-288…
3D25 1.3 Å, Crystal structure of HA-1 minor histocompatibility antigen bound to human class I MHC…
3MRG 1.3 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with HCV NS3-1073-1081…
6JOZ 1.35 Å, Crystal structure of BRLF peptide from EBV in complex with HLA-A1101.
5C0G 1.37 Å, HLA-A02 carrying YLGGPDFPTI
5N1Y 1.39 Å, HLA-A02 carrying MVWGPDPLYV
1I4F 1.4 Å, Crystal structure of HLA-A*0201/MAGE-A4-peptide complex
1OGA 1.4 Å, A structural basis for immunodominant human T-cell receptor recognition.
3MRB 1.4 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with HCMV pp65-495-503…
3MRK 1.4 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with AFP137 nonapeptide
6J2A 1.4 Å, The structure of HLA-A*3003/NP44
1X7Q 1.45 Å, Crystal structure of HLA-A*1101 with sars nucleocapsid peptide

Browse structure collections

About this viewer

MolViewer shows 6EWC directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.