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CRYSTAL STRUCTURE OF THE N-TERMINAL COILED COIL DOMAIN FROM APC

Method: X-RAY DIFFRACTION D_max: 83.3 Å Quality: REASONABLE

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1. Protein Identity and Related Structures Protein Identity & Related Structures

ADENOMATOUS POLYPOSIS COLI PROTEIN

Homo sapiens

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count	Chain A； UniProt 2–55	Fragment：N-TERMINAL COILED COIL DOMAIN	No other associated polymer	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 4.8；277 K；15% PEG 4000, 0.1M AMMONIUM ACETATE, 0.1M NA ACETATE, pH 4.8, VAPOR DIFFUSION, HANGING DROP	Resolution 2.40 Å R-free 0.277
2	Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count	Chain B； UniProt 2–55	Fragment：N-TERMINAL COILED COIL DOMAIN	SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 4.8；277 K；15% PEG 4000, 0.1M AMMONIUM ACETATE, 0.1M NA ACETATE, pH 4.8, VAPOR DIFFUSION, HANGING DROP	Resolution 2.40 Å R-free 0.277
3	Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric（4） Consistent with protein copy count	Chain A； UniProt 2–55 Chain B； UniProt 2–55	Fragment：N-TERMINAL COILED COIL DOMAIN	SO4 SULFATE ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 4.8；277 K；15% PEG 4000, 0.1M AMMONIUM ACETATE, 0.1M NA ACETATE, pH 4.8, VAPOR DIFFUSION, HANGING DROP	Resolution 2.40 Å R-free 0.277
4	Protein homooligomer Homooligomer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 2–55 Chain B； UniProt 2–55	Fragment：N-TERMINAL COILED COIL DOMAIN	SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 4.8；277 K；15% PEG 4000, 0.1M AMMONIUM ACETATE, 0.1M NA ACETATE, pH 4.8, VAPOR DIFFUSION, HANGING DROP	Resolution 2.40 Å R-free 0.277
5	Protein homooligomer Homooligomer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 2–55	Fragment：N-TERMINAL COILED COIL DOMAIN	No other associated polymer	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 4.8；277 K；15% PEG 4000, 0.1M AMMONIUM ACETATE, 0.1M NA ACETATE, pH 4.8, VAPOR DIFFUSION, HANGING DROP	Resolution 2.40 Å R-free 0.277

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB	Difference from Current Entry 1DEB	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1EMU STRUCTURE OF THE AXIN RGS-HOMOLOGOUS DOMAIN IN COMPLEX WITH A SAMP REPEAT FROM APC Deposited 2000-03-17	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 2034–2049（16 aa） Fragment：THIRD SAMP REPEAT	Not recorded	GOL GLYCEROL × 7	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；293 K；MES, PEG 400, glycerol, DTT, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 1.90 Å R-free 0.221
1JPP The Structure of a beta-Catenin Binding Repeat from Adenomatous Polyposis Coli (APC) in Complex with beta-Catenin Deposited 2001-08-02	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 1021–1035（15 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；293 K；PEG 8000, sodium potassium phosphate, sodium chloride, DTT, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 3.10 Å R-free 0.274
1JPP The Structure of a beta-Catenin Binding Repeat from Adenomatous Polyposis Coli (APC) in Complex with beta-Catenin Deposited 2001-08-02	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 1021–1035（15 aa）	Not recorded	GOL GLYCEROL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；293 K；PEG 8000, sodium potassium phosphate, sodium chloride, DTT, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 3.10 Å R-free 0.274
1M5I Crystal Structure of the coiled coil region 129-250 of the tumor suppressor gene product APC Deposited 2002-07-09	Different construct Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 126–250（125 aa） Fragment：coiled-coil region	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；16% PEG 3350, 100mM potassium iodide, 10mM strontium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 277K	Resolution 2.00 Å R-free 0.309
1T08 Crystal structure of beta-catenin/ICAT helical domain/unphosphorylated APC R3 Deposited 2004-04-07	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain C 1484–1498（15 aa） Fragment：repeat 3 (RESIDUES 1484-1498)	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions EVAPORATION；pH 6.5；297 K；PEG3400, Potassium phosphate, pH 6.5, EVAPORATION, temperature 297K	Resolution 2.10 Å R-free 0.241
1TH1 Beta-catenin in complex with a phosphorylated APC 20aa repeat fragment Deposited 2004-05-31	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 1362–1540（179 aa） Fragment：phosphorylated 20 amino acid repeat	Non-standard monomer：Yes (specific site not provided by mmCIF)	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；Tris, sidium chloride, PEG2000MME, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 2.50 Å R-free 0.257
1TH1 Beta-catenin in complex with a phosphorylated APC 20aa repeat fragment Deposited 2004-05-31	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 1362–1540（179 aa） Fragment：phosphorylated 20 amino acid repeat	Non-standard monomer：Yes (specific site not provided by mmCIF)	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；Tris, sidium chloride, PEG2000MME, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 2.50 Å R-free 0.257
1V18 The crystal structure of beta-catenin armadillo repeat complexed with a phosphorylated APC 20mer repeat. Deposited 2004-04-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 1482–1528（47 aa） Fragment：RESIDUES 1482-1528	Non-standard monomer：Yes (specific site not provided by mmCIF)	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions pH 6.5；pH 6.50	Resolution 2.10 Å R-free 0.253
2RQU Solution structure of the complex between the DDEF1 SH3 domain and the APC SAMP1 motif Deposited 2009-12-14	Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 1578–1596（19 aa） Fragment：UNP residues 1578-1596	Not recorded	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 7.2；278 K；Pressure ambient NMR sample composition 0.5 mM [U-15N] DDEF1 SH3-1, 0.5 mM [U-15N] APC SAMP1-2, 5 mM sodium phosphate-3, 5 mM [U-2H] DTT-4, 0.02 % sodium azide-5, 90% H2O/10% D2O \| 90% H2O/10% D2O NMR sample composition 0.5 mM [U-13C; U-15N] DDEF1 SH3-6, 0.5 mM [U-13C; U-15N] APC SAMP1-7, 5 mM sodium phosphate-8, 5 mM [U-2H] DTT-9, 0.02 % sodium azide-10, 90% H2O/10% D2O \| 90% H2O/10% D2O NMR sample composition 0.5 mM [U-13C; U-15N] DDEF1 SH3-11, 0.5 mM [U-13C; U-15N] APC SAMP1-12, 5 mM sodium phosphate-13, 5 mM [U-2H] DTT-14, 0.02 % sodium phosphate-15, 100% D2O \| 100% D2O NMR sample composition 0.5 mM [U-15% 13C; U-15N] DDEF1 SH3-16, 0.5 mM [U-15% 13C; U-15N] APC SAMP1-17, 5 mM sodium phosphate-18, 5 mM [U-2H] DTT-19, 0.02 % sodium azide-20, 90% H2O/10% D2O \| 90% H2O/10% D2O	Resolution not provided
3AU3 Crystal structure of armadillo repeat domain of APC Deposited 2011-01-28	Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 396–732（337 aa） Fragment：Armadillo repeat, UNP residues 396-732	Non-standard monomer：Yes (specific site not provided by mmCIF)	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100mM sodium acetate, 1.25M lithium citrate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K	Resolution 2.10 Å R-free 0.232
3QHE Crystal structure of the complex between the armadillo repeat domain of adenomatous polyposis coli and the tyrosine-rich domain of Sam68 Deposited 2011-01-25	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 396–732（337 aa） Fragment：Armadillo repeat domain, residues 396-732	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.5；293 K；100mM BIS-TRIS (pH 5.5), 150mM NaCl, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K	Resolution 2.40 Å R-free 0.230
3QHE Crystal structure of the complex between the armadillo repeat domain of adenomatous polyposis coli and the tyrosine-rich domain of Sam68 Deposited 2011-01-25	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 396–732（337 aa） Fragment：Armadillo repeat domain, residues 396-732	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.5；293 K；100mM BIS-TRIS (pH 5.5), 150mM NaCl, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K	Resolution 2.40 Å R-free 0.230
3RL7 Crystal structure of hDLG1-PDZ1 complexed with APC Deposited 2011-04-19	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain G 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；287 K；0.8M Na2HPO4, 0.9M KH2PO4, pH 7.5, vapor diffusion, hanging drop, temperature 287K	Resolution 2.30 Å R-free 0.231
3RL7 Crystal structure of hDLG1-PDZ1 complexed with APC Deposited 2011-04-19	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain H 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；287 K；0.8M Na2HPO4, 0.9M KH2PO4, pH 7.5, vapor diffusion, hanging drop, temperature 287K	Resolution 2.30 Å R-free 0.231
3RL7 Crystal structure of hDLG1-PDZ1 complexed with APC Deposited 2011-04-19	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain J 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；287 K；0.8M Na2HPO4, 0.9M KH2PO4, pH 7.5, vapor diffusion, hanging drop, temperature 287K	Resolution 2.30 Å R-free 0.231
3RL7 Crystal structure of hDLG1-PDZ1 complexed with APC Deposited 2011-04-19	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain I 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；287 K；0.8M Na2HPO4, 0.9M KH2PO4, pH 7.5, vapor diffusion, hanging drop, temperature 287K	Resolution 2.30 Å R-free 0.231
3RL7 Crystal structure of hDLG1-PDZ1 complexed with APC Deposited 2011-04-19	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain K 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；287 K；0.8M Na2HPO4, 0.9M KH2PO4, pH 7.5, vapor diffusion, hanging drop, temperature 287K	Resolution 2.30 Å R-free 0.231
3RL7 Crystal structure of hDLG1-PDZ1 complexed with APC Deposited 2011-04-19	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 6 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain L 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；287 K；0.8M Na2HPO4, 0.9M KH2PO4, pH 7.5, vapor diffusion, hanging drop, temperature 287K	Resolution 2.30 Å R-free 0.231
3RL8 Crystal structure of hDLG1-PDZ2 complexed with APC Deposited 2011-04-19	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain F 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；287 K；0.8M Na2HPO4, 0.9M KH2PO4, pH 7.5, vapor diffusion, hanging drop, temperature 287K	Resolution 2.20 Å R-free 0.245
3T7U A NeW Crystal structure of APC-ARM Deposited 2011-07-31	Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 407–775（369 aa） Fragment：ARM 1-7 domain, UNP residues 407-775	Not recorded	PO4 PHOSPHATE ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；287 K；1.02M Sodium phosphate monobasic monohydrate, 0.18M Potassium phosphate dibasic, vapor diffusion, hanging drop, temperature 287K	Resolution 2.90 Å R-free 0.313
3T7U A NeW Crystal structure of APC-ARM Deposited 2011-07-31	Different construct Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 407–775（369 aa） Fragment：ARM 1-7 domain, UNP residues 407-775	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；287 K；1.02M Sodium phosphate monobasic monohydrate, 0.18M Potassium phosphate dibasic, vapor diffusion, hanging drop, temperature 287K	Resolution 2.90 Å R-free 0.313
4G69 Structure of the Human Discs Large 1 PDZ2 - Adenomatous Polyposis Coli Cytoskeletal Polarity Complex Deposited 2012-07-18	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 2833–2843（11 aa） Fragment：APC C-terminal peptide, UNP residues 2833-2843	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.25；300 K；Protein solution: 1.4 mM Dlg1 PDZ2, 1.7 mM APC, 100 mM NaCl, 25 mM Tris pH 7.0, 0.1% B-ME Well: 200 mM sodium acetate, 100 mM sodium cacodylate pH 6.25, 28% PEG 8000 Drop = 1:1 protein:well solution , VAPOR DIFFUSION, HANGING DROP, temperature 300K	Resolution 2.00 Å R-free 0.183
4YJE Crystal structure of APC-ARM in complexed with Amer1-A1 Deposited 2015-03-03	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；287 K；12% PEG 20000	Resolution 1.90 Å R-free 0.221
4YJL Crystal structure of APC-ARM in complexed with Amer1-A2 Deposited 2015-03-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	EDO 1,2-ETHANEDIOL × 9	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；287 K；0.2M NACL, 10% PEG 8000	Resolution 2.10 Å R-free 0.225
4YJL Crystal structure of APC-ARM in complexed with Amer1-A2 Deposited 2015-03-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	EDO 1,2-ETHANEDIOL × 5	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；287 K；0.2M NACL, 10% PEG 8000	Resolution 2.10 Å R-free 0.225
4YJL Crystal structure of APC-ARM in complexed with Amer1-A2 Deposited 2015-03-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	EDO 1,2-ETHANEDIOL × 5	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；287 K；0.2M NACL, 10% PEG 8000	Resolution 2.10 Å R-free 0.225
4YJL Crystal structure of APC-ARM in complexed with Amer1-A2 Deposited 2015-03-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	EDO 1,2-ETHANEDIOL × 7	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；287 K；0.2M NACL, 10% PEG 8000	Resolution 2.10 Å R-free 0.225
4YJL Crystal structure of APC-ARM in complexed with Amer1-A2 Deposited 2015-03-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain E 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	EDO 1,2-ETHANEDIOL × 7	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；287 K；0.2M NACL, 10% PEG 8000	Resolution 2.10 Å R-free 0.225
4YJL Crystal structure of APC-ARM in complexed with Amer1-A2 Deposited 2015-03-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 6 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain F 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	EDO 1,2-ETHANEDIOL × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；287 K；0.2M NACL, 10% PEG 8000	Resolution 2.10 Å R-free 0.225
4YK6 Crystal structure of APC-ARM in complexed with Amer1-A4 Deposited 2015-03-04	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：ARM DOMAIN, UNP RESIDUES 407-751	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；287 K；0.2M NACL, 10% PEG8000	Resolution 1.70 Å R-free 0.240
5B6G Protein-protein interaction Deposited 2016-05-27	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：UNP RESIDUES 407-751	Not recorded	SO4 SULFATE ION × 1 GOL GLYCEROL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；0.2 M Ammonium sulfate, 0.1 M Tris pH 8.0, 25 % w/v PEG 4000	Resolution 1.99 Å R-free 0.215
5IZ6 Protein-protein interaction Deposited 2016-03-25	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：UNP RESIDUES 407-751	Not recorded	SO4 SULFATE ION × 1 PEG DI(HYDROXYETHYL)ETHER × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；0.2M Ammonium sulfate 0.1M Tris pH 8.0, 25% w/v PEG 3350	Resolution 2.15 Å R-free 0.206
5IZ8 Protein-protein interaction Deposited 2016-03-25	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：UNP RESIDUES 407-751	Not recorded	PGE TRIETHYLENE GLYCOL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；0.2M Ammonium sulfate, 0.1M Tris pH 8.0, 25% w/v PEG 4000	Resolution 3.06 Å R-free 0.253
5IZ8 Protein-protein interaction Deposited 2016-03-25	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 407–751（345 aa） Fragment：UNP RESIDUES 407-751	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；0.2M Ammonium sulfate, 0.1M Tris pH 8.0, 25% w/v PEG 4000	Resolution 3.06 Å R-free 0.253
5IZ9 Protein-protein interaction Deposited 2016-03-25	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：UNP RESIDUES 407-751	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；0.2M Ammonium sulfate, 0.1M Tris pH 8.0, 25 % w/v PEG 4000	Resolution 2.93 Å R-free 0.282
5IZA Protein-protein interaction Deposited 2016-03-25	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa） Fragment：UNP RESIDUES 407-751	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；0.2M Ammonium sulfate, 0.1M Tris pH 8.0, 25% w/v PEG 4000	Resolution 1.50 Å R-free 0.159
5Z8H APC with an inhibitor Deposited 2018-01-31	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–741（335 aa）	Not recorded	GOL GLYCEROL × 3	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；0.2M Ammonium sulfate 0.1M Tris pH 8.0, 25% w/v PEG 3350	Resolution 1.79 Å R-free 0.211
7F6M Crystal structure of APC complexed with a peptide inhibitor MAI-516 Deposited 2021-06-25	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–751（345 aa）	Not recorded	GOL GLYCEROL × 5 SO4 SULFATE ION × 2 PEG DI(HYDROXYETHYL)ETHER × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；0.2M Ammonium sulfate 0.1M Tris pH 8.0, 25% w/v PEG 3350	Resolution 2.40 Å R-free 0.256
7F7O APC-Asef FP assay tracer Deposited 2021-06-30	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 407–738（332 aa）	Not recorded	4CI N-[3',6'-bis(oxidanyl)-3-oxidanylidene-spiro[2-benzofuran-1,9'-xanthene]-5-yl]methanethioamide × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；0.2M Ammonium sulfate, 0.1M Tris pH 8.0, 25% w/v PEG 3350	Resolution 2.80 Å R-free 0.328
7XTY Crystal Structure of the second PDZ domain from human PTPN13 in complex with APC peptide Deposited 2022-05-18	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.8；289 K；0.1M citric acid (pH 3.5), 3M NaCl	Resolution 2.10 Å R-free 0.240
7XTY Crystal Structure of the second PDZ domain from human PTPN13 in complex with APC peptide Deposited 2022-05-18	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 2833–2843（11 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.8；289 K；0.1M citric acid (pH 3.5), 3M NaCl	Resolution 2.10 Å R-free 0.240
8GSJ APC-Asef tripeptide inhibitor Deposited 2022-09-06	Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 407–738（332 aa）	Not recorded	K8C 2-methylsulfanylpyrimidine-4-carbaldehyde × 1 GLU GLUTAMIC ACID × 1 NAL BETA-(2-NAPHTHYL)-ALANINE × 1 LEU LEUCINE × 1 GJZ (1R,2S)-2-phenylcyclopropanamine × 1 GOL GLYCEROL × 4 SO4 SULFATE ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；0.2M Ammonium sulfate, 0.1M Tris pH 8.0, 25% w/v PEG 4000	Resolution 2.10 Å R-free 0.256
8X2Q The Crystal Structure of APC from Biortus. Deposited 2023-11-10	Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 126–250（125 aa）	Not recorded	EDO 1,2-ETHANEDIOL × 3	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；(PEG-G2) 0.2M NaAc pH 7.0, 20% PEG 3350	Resolution 2.00 Å R-free 0.263

27 other PDB entries and 43 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	APC_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–54； UniProt 2–55 Author chain B； PDBConstruct 1–54； UniProt 2–55

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

Download Download SAXS (.dat) P(r) (.pr.out) CIF

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	1deb
Deposition date deposition_date	1999-11-14
Structure title title	CRYSTAL STRUCTURE OF THE N-TERMINAL COILED COIL DOMAIN FROM APC
Keywords keywords	APC, COILED COIL, TUMOR SUPPRESSOR, STRUCTURAL PROTEIN; STRUCTURAL PROTEIN
Experimental Method method	X-RAY DIFFRACTION

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	22.39 Å
Radius of gyration Rg (electron density) rg_electron	23.01 Å
Forward intensity I(0) i0	3296180.00
Molecular weight molecular_weight	12181.0 kDa
Excluded volume excluded_volume	14930 Å³
Envelope volume envelope_volume	21316 Å³
Hydration-shell volume shell_volume	9587 Å³
Envelope diameter envelope_diameter	84.2 Å
Shell Rg shell_rg	25.37 Å
Envelope Rg envelope_rg	23.80 Å
Shape Rg shape_rg	23.00 Å
Total Rg total_rg	23.43 Å
Total atoms total_atoms	849
Residues n_residues	107
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	83.3 Å
Rg (real space) rg_real	22.92 Å
Rg uncertainty (real space) rg_real_error	0.92 Å
I(0) (real space) i0_real	3.2960e+06
I(0) uncertainty (real space) i0_real_error	4.9230e+04
Rg (reciprocal space) rg_reciprocal	22.79 Å
I(0) (reciprocal space) i0_reciprocal	3296000.0000
Solution quality estimate total_estimate	0.7056
Solution quality rating solution_quality	REASONABLE a REASONABLE solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	16.4 Å
Skewness Skewness skewness	0.717
Kurtosis Kurtosis kurtosis	-0.152
Angular range angular_range	— – 0.3550 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	224200.0000
Real-space data points n_real_points	67
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.391; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.086; Smooth: 0.908

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	ADENOMATOUS POLYPOSIS COLI PROTEIN
Molecular weight formula_weight	6109.8 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	883

AAASYDQLLKQVEALKMENSNLRQELEDNSNHLTKLETEASNMKEVLKQLQGSI

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	human
NCBI Class编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	Escherichia coli

Entity 2 Entity 2 non-polymer

Description description	SULFATE ION
Molecular weight formula_weight	96.1 kDa
Source method src_method	syn
Copy count entity_count	1

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	34

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7. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_id	d1deba_
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.18 — N-terminal coiled coil domain from apc
Family Family family	h.1.18.1 — N-terminal coiled coil domain from apc

Domain ID domain_id	d1debb_
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.18 — N-terminal coiled coil domain from apc
Family Family family	h.1.18.1 — N-terminal coiled coil domain from apc

CATH v4.4 (2 domains)

Domain ID domain_id	1debA00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily	10 —

Domain ID domain_id	1debB00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily	10 —

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8. Citations (1)

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Unit-cell length a length_a	66.860 Å
Unit-cell length b length_b	66.860 Å
Unit-cell length c length_c	127.470 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	120.00 °
Molecules per unit cell Z z_pdb	24

Space group space_group	P 65 2 2
Space-group number int_tables_number	179
Crystal system crystal_system	—

Resolution resolution	2.400 Å
Low-resolution limit resolution_low	20.000 Å
R factor r_factor	0.2340
R_work r_work	0.2340
R_free r_free	0.2770

fit	/app/data/saxs_computation/de/1deb/1deb.fit
pddf	/app/data/pr_computation/de/1deb/1deb.pr.out
profile	/app/data/saxs_computation/de/1deb/1deb.dat