4TKN: SNX17 FERM domain

Structure of the SNX17 FERM domain bound to the second NPxF motif of KRIT1. Determined by X-ray diffraction at 3.0 Å resolution. Released 30 Jul 2014.

Method: X-ray diffraction
Resolution: 3.0 Å
Organism: Homo sapiens
Chains: 6
Atoms: 6,419
Mol. weight: 103.18 kDa
Released: 30 Jul 2014

Explore 4TKN in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4TKN contains 40 α-helices and 52 β-strands across 6 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: 12 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	116-122	7	1
β-strand	128-134	7	1
α-helix	139-150	12
α-helix	154-159	6
β-strand	160-167	8	1
α-helix	168	1
β-strand	173-178	6	1
α-helix	179-180	2
α-helix	185-190	6
β-strand	197-203	7	1
α-helix	208-210	3
α-helix	211-214	4
α-helix	218-233	16
β-strand	238	1	2
α-helix	241-253	13
α-helix	257-263	7
β-strand	267	1	2
β-strand	272-273	2	3
β-strand	277-279	3	4
β-strand	286-288	3	4
β-strand	289-293	5	3
β-strand	296-300	5	3
β-strand	310-314	5	3
α-helix	315-317	3
β-strand	318-325	8	4
β-strand	346-355	10	4
β-strand	358-365	8	4
α-helix	369-387	19

Chain B: 12 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	116-122	7	5
β-strand	128-134	7	5
α-helix	139-150	12
α-helix	154-159	6
β-strand	160-167	8	5
α-helix	168	1
β-strand	173-178	6	5
α-helix	179-180	2
α-helix	185-190	6
β-strand	197-203	7	5
α-helix	208-210	3
α-helix	211-215	5
α-helix	218-233	16
β-strand	238	1	6
β-strand	239	1	7
α-helix	241-253	13
α-helix	257-263	7
β-strand	267	1	6
β-strand	272-273	2	8
β-strand	278-279	2	9
β-strand	289-293	5	8
β-strand	296-300	5	8
β-strand	311-314	4	8
α-helix	315-317	3
β-strand	318-325	8	9
β-strand	346-355	10	9
β-strand	358-365	8	9
α-helix	369-387	19

Chain C: 13 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	116-122	7	10
β-strand	128-134	7	10
α-helix	139-150	12
α-helix	154-159	6
β-strand	160-167	8	10
α-helix	168	1
β-strand	173-178	6	10
α-helix	179-180	2
α-helix	185-190	6
β-strand	197-203	7	10
α-helix	208-210	3
α-helix	211-214	4
α-helix	218-233	16
β-strand	238	1	11
β-strand	239	1	7
α-helix	241-253	13
α-helix	257-263	7
β-strand	267	1	11
β-strand	272-273	2	12
β-strand	277-279	3	13
β-strand	286-288	3	13
β-strand	289-293	5	12
β-strand	296-300	5	12
β-strand	310-314	5	12
α-helix	315-317	3
β-strand	318-325	8	13
α-helix	326-328	3
β-strand	346-355	10	13
β-strand	358-365	8	13
α-helix	369-387	19

Chains D, E and F: 1 helix, 1 β-strand

Element	Residues	Length	Sheet
α-helix	228	1
β-strand	229-230	2	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Sorting nexin-17	A, B, C	protein	286	Homo sapiens	Q15036 (AlphaFold model)
Krev interaction trapped protein 1	D, E, F	protein	19	Homo sapiens	O00522 (AlphaFold model)

Sequence of entity 1 (A, B, C), FASTA

>4TKN_1 Sorting nexin-17 (chains A, B, C)
GSETQQVPTEEVSLEVLLSNGQKVLVNVLTSDQTEDVLEAVAAKLDLPDDLIGYFSLFLV
REKEDGAFSFVRKLQEFELPYVSVTSLRSQEYKIVLRKSYWDSAYDDDVMENRVGLNLLY
AQTVSDIERGWILVTKEQHRQLKSLQEKVSKKEFLRLAQTLRHYGYLRFDACVADFPEKD
CPVVVSAGNSELSLQLRLPGQQLREGSFRVTRMRCWRVTSSVPLPSGSTSSPGRGRGEVR
LELAFEYLMSKDRLQWVTITSPQAIMMSICLQSMVDELMVKKSGGS

Sequence of entity 2 (D, E, F), FASTA

>4TKN_2 Krev interaction trapped protein 1 (chains D, E, F)
GPLGSPADTCIYNPLFGSD

Primary citation

Structural Determinants for Binding of Sorting Nexin 17 (SNX17) to the Cytoplasmic Adaptor Protein Krev Interaction Trapped 1 (KRIT1). Stiegler, A.L., Zhang, R., Liu, W. et al. J Biol Chem (2014) 289:25362-25373. DOI 10.1074/jbc.M114.584011 · PubMed

Other PDB entries of the same protein (UniProt Q15036 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3LUI 1.8 Å, Crystal structure of the SNX17 PX domain with bound sulphate
4GXB 1.8 Å, Structure of the SNX17 atypical FERM domain bound to the NPxY motif of P-selectin
3FOG 2.8 Å, Crystal structure of the PX domain of sorting nexin-17 (SNX17)
9AU7 3.4 Å, Human Retriever VPS35L/VPS29/VPS26C complex bound to SNX17 peptide (Composite Map)
7RM8 Solution NMR structure of PDLIM7 PDZ bound to SNX17 peptide

Browse structure collections

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