2J4W: Apical membrane antigen 1

Structure of a Plasmodium vivax apical membrane antigen 1-Fab F8.12.19 complex. Determined by X-ray diffraction at 2.5 Å resolution. Released 30 Jan 2007.

Method: X-ray diffraction
Resolution: 2.5 Å
Organisms: PLASMODIUM VIVAX, MUS MUSCULUS
Chains: 3
Atoms: 3,773
Mol. weight: 98.84 kDa
Released: 30 Jan 2007

Explore 2J4W in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2J4W contains 19 α-helices and 49 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 D: 2 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	423-424	2	1
α-helix	427-430	4
α-helix	435-436	2
β-strand	437-440	4	1
β-strand	445-448	4	1
β-strand	452	1	2

Chain H: 8 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	3
β-strand	11-12	2	4
β-strand	18-25	8	3
α-helix	29-31	3
β-strand	34-39	6	5
β-strand	45-51	7	5
β-strand	57-59	3	5
α-helix	61-63	3
β-strand	68-72	5	3
β-strand	77-82	6	3
α-helix	84-86	3
β-strand	88-94	7	5
β-strand	102-103	2	5
β-strand	107-109	3	5
β-strand	110-111	2	4
α-helix	115-116	2
β-strand	117	1	6
β-strand	120-124	5	7
β-strand	137-147	11	7
β-strand	148	1	6
β-strand	153-157	4	8
α-helix	162-164	3
β-strand	166	1	8
β-strand	171-173	3	7
α-helix	174-176	3
β-strand	177-178	2	7
β-strand	185-194	10	7
α-helix	198-202	4
β-strand	206-212	6	8
α-helix	213-215	3
β-strand	217-222	6	8

Chain L: 9 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	9
β-strand	10-13	4	10
β-strand	19-25	7	9
β-strand	34-38	5	10
α-helix	43-44	2
β-strand	45-49	5	10
β-strand	53-54	2	10
α-helix	55	1
β-strand	62-67	6	9
β-strand	70-75	6	9
α-helix	80-82	3
β-strand	84-90	7	10
β-strand	93	1	2
α-helix	96	1
β-strand	97-98	2	10
β-strand	102-106	5	10
α-helix	107	1
β-strand	111	1	11
β-strand	114-118	5	12
α-helix	119-121	3
α-helix	122-126	5
β-strand	129-139	11	12
β-strand	140	1	11
β-strand	145-150	6	13
β-strand	155-156	2	13
β-strand	159-163	5	12
α-helix	164-167	4
β-strand	173-182	10	12
α-helix	183-187	5
β-strand	191-197	7	13
β-strand	205-210	6	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Apical membrane antigen 1	D	protein	445	PLASMODIUM VIVAX	Q9TY14 (AlphaFold model)
FAB fragment of monoclonal antibody F8.12.19	H	protein	225	MUS MUSCULUS	Q569B4 (AlphaFold model)
FAB fragment of monoclonal antibody F8.12.19	L	protein	213	MUS MUSCULUS	Q5XFY8 (AlphaFold model)

Sequence of entity 1 (D), FASTA

>2J4W_1 APICAL MEMBRANE ANTIGEN 1 (chains D)
PTVERSTRMGNPWKAFMEKYDIERTHSSGVRVDLGEDAEVENAKYRIPAGRCPVFGKGIV
IENSDVSFLRPVATGDQKLKDGGFAFPNANDHISPMTLANLKERYKDNVEMMKLNDIALC
RTHAASFVMAGDQNSNYRHPAVYDEKEKTCHMLYLSAQENMGPRYCSPDAQNRDAVFCFK
PDKDESFENLVYLSKNVRNDWDKKCPRKNLGNAKFGLWVDGNCEEIPYVKEVEAEDLREC
NRIVFGASASDQPTQYEEEMTDYQKIQQGFRQNNREMIKGAFLPVGAFNSDNFKSKGRGF
NWANFDSVKRKCYIFNTKPTCLINDKNFIATTALSHPQEVDLEFPCSIYKDEIEREIKKQ
SRNMNLYSVDGERIVLPRIFISNDKESIKCPCEPERISESTCNFYVCNCVEKRAEIKELN
QVVIKEEFRLYYELGEEKSNKQMLL

Sequence of entity 2 (H), FASTA

>2J4W_2 FAB FRAGMENT OF MONOCLONAL ANTIBODY F8.12.19 (chains H)
EVQLVESGGGLVKPGGSLKLSCAASGFIFSDYYMYWVRQTPEKRLEWVATISDGNSYTYY
VDSVKGRFTISRDNAKNNLYLQMSSLKSEDTAIYYCARDGPTDSSGYGGFGYWGQGTLVT
VSEAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVL
QSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKIVPRDC

Sequence of entity 3 (L), FASTA

>2J4W_3 FAB FRAGMENT OF MONOCLONAL ANTIBODY F8.12.19 (chains L)
QSVLSQSPAILSASPGEKVTMTCRARSSVSYMHWYQQKSGSSPKPWIHATSNLASGVPAR
FSGSGSGTSYSLTISRVEAEDAATYYCQQWSSHPPTFGSGTKLEIKRADAAPTVSIFPPS
SEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTL
TKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC

Primary citation

Cross-Reactivity Studies of an Anti-Plasmodium Vivax Apical Membrane Antigen 1 Monoclonal Antibody: Binding and Structural Characterisation. Igonet, S., Vulliez-Le Normand, B., Faure, G. et al. J Mol Biol (2007) 366:1523. DOI 10.1016/J.JMB.2006.12.028 · PubMed

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