9KJU: Local refinement of the y+LAT1-4F2hc

Local refinement of the y+LAT1-4F2hc bound with Arg. Determined by electron microscopy at 2.7 Å resolution. Released 2 Apr 2025.

Method: Electron microscopy
Resolution: 2.7 Å
Organism: Homo sapiens
Chains: 2
Atoms: 7,398
Mol. weight: 129.67 kDa
Ligands: ARG
Released: 2 Apr 2025

Explore 9KJU in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9KJU contains 46 α-helices and 22 β-strands across 2 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: 21 helices, 20 β-strands

Element	Residues	Length	Sheet
α-helix	167-173	7
α-helix	180-205	26
α-helix	212-214	3
α-helix	219-221	3
β-strand	225-228	4	1
α-helix	232-235	4
α-helix	244-248	5
α-helix	249-255	7
β-strand	259-262	4	1
β-strand	266-267	2	2
β-strand	277-281	5	2
α-helix	288-300	13
β-strand	304-308	5	1
α-helix	325-341	17
β-strand	345-348	4	1
α-helix	351-353	3
α-helix	357-371	15
β-strand	376-380	5	1
α-helix	386-391	6
β-strand	400-402	3	1
α-helix	413-427	15
β-strand	432-434	3	3
α-helix	442-444	3
α-helix	448-450	3
α-helix	451-459	9
β-strand	463-465	3	3
β-strand	466-468	3	1
α-helix	488-490	3
α-helix	510-513	4
α-helix	520-531	12
α-helix	535-538	4
β-strand	541-545	5	4
β-strand	551-557	7	4
β-strand	563-569	7	4
β-strand	575-576	2	5
α-helix	586-588	3
β-strand	593-594	2	6
β-strand	599	1	4
β-strand	610-611	2	6
β-strand	616-617	2	5
β-strand	622-627	6	4

Chain B: 25 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	39-50	12
α-helix	54-57	4
α-helix	61-66	6
α-helix	69-97	29
α-helix	104-111	8
α-helix	114-122	9
α-helix	123-127	5
α-helix	128-143	16
α-helix	155-175	21
α-helix	177-208	32
α-helix	225-238	14
α-helix	245-251	7
α-helix	255-284	30
α-helix	287-290	4
α-helix	296-304	9
α-helix	311-340	30
α-helix	346-349	4
β-strand	351-352	2	7
α-helix	359-372	14
α-helix	379-383	5
α-helix	386-406	21
α-helix	419-437	19
α-helix	440-451	12
α-helix	454-456	3
α-helix	457-461	5
α-helix	470-487	18
β-strand	489-490	2	7

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Amino acid transporter heavy chain SLC3A2	A	protein	645	Homo sapiens	P08195 (AlphaFold model)
Y+L amino acid transporter 1	B	protein	529	Homo sapiens	Q9UM01 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>9KJU_1 Amino acid transporter heavy chain SLC3A2 (chains A)
HHHHHHHHHHSGRELQPPEASIAVVSIPRQLPGSHSEAGVQGLSAGDDSELGSHCVAQTG
LELLASGDPLPSASQNAEMIETGSDCVTQAGLQLLASSDPPALASKNAEVTGTMSQDTEV
DMKEVELNELEPEKQPMNAASGAAMSLAGAEKNGLVKIKVAEDEAEAAAAAKFTGLSKEE
LLKVAGSPGWVRTRWALLLLFWLGWLGMLAGAVVIIVRAPRCRELPAQKWWHTGALYRIG
DLQAFQGHGAGNLAGLKGRLDYLSSLKVKGLVLGPIHKNQKDDVAQTDLLQIDPNFGSKE
DFDSLLQSAKKKSIRVILDLTPNYRGENSWFSTQVDTVATKVKDALEFWLQAGVDGFQVR
DIENLKDASSFLAEWQNITKGFSEDRLLIAGTNSSDLQQILSLLESNKDLLLTSSYLSDS
GSTGEHTKSLVTQYLNATGNRWCSWSLSQARLLTSFLPAQLLRLYQLMLFTLPGTPVFSY
GDEIGLDAAALPGQPMEAPVMLWDESSFPDIPGAVSANMTVKGQSEDPGSLLSLFRRLSD
QRSKERSLLHGDFHAFSAGPGLFSYIRHWDQNERFLVVLNFGDVGLSAGLQASDLPASAS
LPAKADLLLSTQPGREEGSPLELERLKLEPHEGLLLRFPYAATGA

Sequence of entity 2 (B), FASTA

>9KJU_2 Y+L amino acid transporter 1 (chains B)
DYKDDDDKSGPDEVDASGRVDSTEYEVASQPEVETSPLGDGASPGPEQVKLKKEISLLNG
VCLIVGNMIGSGIFVSPKGVLIYSASFGLSLVIWAVGGLFSVFGALCYAELGTTIKKSGA
SYAYILEAFGGFLAFIRLWTSLLIIEPTSQAIIAITFANYMVQPLFPSCFAPYAASRLLA
AACICLLTFINCAYVKWGTLVQDIFTYAKVLALIAVIVAGIVRLGQGASTHFENSFEGSS
FAVGDIALALYSALFSYSGWDTLNYVTEEIKNPERNLPLSIGISMPIVTIIYILTNVAYY
TVLDMRDILASDAVAVTFADQIFGIFNWIIPLSVALSCFGGLNASIVAASRLFFVGSREG
HLPDAICMIHVERFTPVPSLLFNGIMALIYLCVEDIFQLINYYSFSYWFFVGLSIVGQLY
LRWKEPDRPRPLKLSVFFPIVFCLCTIFLVAVPLYSDTINSLIGIAIALSGLPFYFLIIR
VPEHKRPLYLRRIVGSATRYLQVLCMSVAAEMDLEDGGEMPKQRDPKSN

Ligands and cofactors

ID	Name	Formula	Copies
ARG	Arginine	C6 H15 N4 O2	1

Primary citation

Structural basis for the substrate recognition and transport mechanism of the human y + LAT1-4F2hc transporter complex. Dai, L., Zeng, Q., Zhang, T. et al. Sci Adv (2025) 11:eadq0558-eadq0558. DOI 10.1126/sciadv.adq0558 · PubMed

Other PDB entries of the same protein (UniProt P08195 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6S8V 1.8 Å, Structure of the high affinity Anticalin P3D11 in complex with the human CD98 heavy…
2DH2 2.1 Å, Crystal Structure of human ED-4F2hc
8G0M 2.25 Å, Structure of complex between TV6.6 and CD98hc ECD
2DH3 2.8 Å, Crystal Structure of human ED-4F2hc
7DF1 2.81 Å, Crystal structure of human CD98 heavy chain extracellular domain in complex with S1-F4…
7CMI 2.9 Å, The LAT2-4F2hc complex in complex with leucine
7DSK 2.9 Å, Overall structure of the LAT1-4F2hc bound with JX-075
7DSL 2.9 Å, Overall structure of the LAT1-4F2hc bound with JX-078
8YLP 2.9 Å, Overall structure of the y+LAT1-4F2hc bound with Arg
7DSN 3.1 Å, Overall structure of the LAT1-4F2hc bound with JX-119
8X0W 3.1 Å, Overall structure of the LAT1-4F2hc bound with Leu
8A6L 3.18 Å, Human 4F2hc-LAT2 heterodimeric amino acid transporter in complex with anticalin D11vs

Browse structure collections

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