Current Protein Identity：O75475
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Difference tags compare only the current result set; every original PDB and assembly record remains separate.
Related-Structure Differences
Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.
| PDB Entry | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Experimental Method | Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 1Z9E Solution structure of the HIV-1 integrase-binding domain in LEDGF/p75 Deposited 2005-04-01 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
347–471（125 aa）
Fragment：sequence database residues 347-471 contains: HIV-1 integrase-binding domain (residues 347-429)
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7.25；298 K；Ionic strength (raw mmCIF value) 100 mM NaCl, 50 mM Posphate buffer；Pressure ambient
NMR sample composition
0.7 mM protein, 100 mM NaCl, 50 mM Phosphate buffer, 90% H2O, 10% D2O | 90% H2O/10% D2O
NMR sample composition
0.7 mM protein, 100 mM NaCl, 38 mM Na2HPO4, 12 mM NaH2PO4, 100% D2O | 100% D2O
|
Resolution not provided |
| 2B4J Structural basis for the recognition between HIV-1 integrase and LEDGF/p75 Deposited 2005-09-24 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
Chain C
347–442（96 aa）
Fragment：LEDGF
Chain D
347–442（96 aa）
Fragment：LEDGF
|
Not recorded | PO4 PHOSPHATE ION × 2 GOL GLYCEROL × 4 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.25；295 K；PEG-3350, Na2HPO4, NaH2PO4, KH2PO4, NACL, HEPES, pH 6.25, VAPOR DIFFUSION, HANGING DROP, temperature 295K
|
Resolution 2.02 Å R-free 0.226 |
| 2B4J Structural basis for the recognition between HIV-1 integrase and LEDGF/p75 Deposited 2005-09-24 | Assembly 2 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain C
347–442（96 aa）
Fragment：LEDGF
Chain D
347–442（96 aa）
Fragment：LEDGF
|
Not recorded | PO4 PHOSPHATE ION × 4 GOL GLYCEROL × 8 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.25；295 K；PEG-3350, Na2HPO4, NaH2PO4, KH2PO4, NACL, HEPES, pH 6.25, VAPOR DIFFUSION, HANGING DROP, temperature 295K
|
Resolution 2.02 Å R-free 0.226 |
| 2M16 P75/LEDGF PWWP Domain Deposited 2012-11-18 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
1–93（93 aa）
Fragment：unp residues 1-93
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7.5；298 K；Ionic strength (raw mmCIF value) 0.35；Pressure ambient
NMR sample composition
0.35-0.45 mM [U-99% 13C; U-99% 15N] entity, 50 mM HEPES, 150 mM sodium chloride, 2 mM beta-mercaptoethanol, 0.66 mM DSS, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 2MSR Solution structure of LEDGF/p75 IBD in complex with MLL1 peptide (140-160) Deposited 2014-08-05 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain B
344–426（83 aa）
Fragment：UNP residues 344-425
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 125；Pressure ambient
NMR sample composition
0.5 mM MLL1_140, 0.5 mM [U-13C; U-15N] IBD, 25 mM HEPES, 100 mM sodium chloride, 0.05 % beta-mercaptoethanol, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 2MTN Solution structure of MLL-IBD complex Deposited 2014-08-23 | Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
337–442（106 aa）
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 6.5；298 K；Ionic strength (raw mmCIF value) 0.05；Pressure ambient
NMR sample composition
50 mM potassium phosphate, 50 mM sodium chloride, 90% H2O/10% D2O | 90% H2O/10% D2O
|
Resolution not provided |
| 2N3A Solution structure of LEDGF/p75 IBD in complex with POGZ peptide (1389-1404) Deposited 2015-05-26 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain B
348–426（79 aa）
Fragment：UNP residues 348-426
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 125；Pressure ambient
NMR sample composition
0.5 mM peptide, 0.5 mM [U-13C; U-15N] protein, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain C
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 10 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain m
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 11 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain q
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 12 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain u
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 13 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
Chain G
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain W
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain i
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 6 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 14 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
Chain C
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain K
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain a
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 6 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 15 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
Chain m
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain q
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain u
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 6 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 16 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
Chain O
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain S
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
Chain e
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 6 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain G
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 3 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain K
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 4 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain O
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 5 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain S
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 6 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain W
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 7 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain a
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 8 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain e
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3F9K Two domain fragment of HIV-2 integrase in complex with LEDGF IBD Deposited 2008-11-14 | Assembly 9 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain i
347–435（89 aa）
Fragment：LEDGF, Integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；2.6M sodium acetate, 10mM MgCl2, 0.1M Bis-Tris Propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.20 Å R-free 0.234 |
| 3HPG Visna virus integrase (residues 1-219) in complex with LEDGF IBD: examples of open integrase dimer-dimer interfaces Deposited 2009-06-04 | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain G
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain H
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain K
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain L
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 4 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.6；291 K；25-30% Jeffamine M600, 100mM Bis-Tris propane-HCl, pH6.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.28 Å R-free 0.253 |
| 3HPG Visna virus integrase (residues 1-219) in complex with LEDGF IBD: examples of open integrase dimer-dimer interfaces Deposited 2009-06-04 | Assembly 2 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain I
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain J
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain K
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain L
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 4 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.6；291 K；25-30% Jeffamine M600, 100mM Bis-Tris propane-HCl, pH6.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.28 Å R-free 0.253 |
| 3HPG Visna virus integrase (residues 1-219) in complex with LEDGF IBD: examples of open integrase dimer-dimer interfaces Deposited 2009-06-04 | Assembly 3 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain G
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain H
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain I
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
Chain J
347–435（89 aa）
Fragment：integrase binding domain, UNP residues 347-435
|
Not recorded | ZN ZINC ION × 4 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.6；291 K；25-30% Jeffamine M600, 100mM Bis-Tris propane-HCl, pH6.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 3.28 Å R-free 0.253 |
| 3HPH Closed tetramer of Visna virus integrase (residues 1-219) in complex with LEDGF IBD Deposited 2009-06-04 | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain E
348–435（88 aa）
Fragment：Integrase binding domain, UNP residues 348-435
Chain F
348–435（88 aa）
Fragment：Integrase binding domain, UNP residues 348-435
Chain G
348–435（88 aa）
Fragment：Integrase binding domain, UNP residues 348-435
Chain H
348–435（88 aa）
Fragment：Integrase binding domain, UNP residues 348-435
|
Not recorded | ZN ZINC ION × 4 GOL GLYCEROL × 4 PO4 PHOSPHATE ION × 3 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；291 K；0.7-0.9M (NH4)2HPO4, 2.5% Jeffamine M600,100mM Bis-Tris propane-HCl, pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.64 Å R-free 0.253 |
| 3U88 Crystal structure of human menin in complex with MLL1 and LEDGF Deposited 2011-10-16 | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain C
347–435（89 aa）
|
Not recorded | CHD CHOLIC ACID × 1 GGB L-CANAVANINE × 4 0BR (4beta,8alpha,9R)-6'-methoxy-10,11-dihydrocinchonan-9-ol × 1 GLV GLYOXYLIC ACID × 4 SO4 SULFATE ION × 4 | X-RAY DIFFRACTION |
X-ray crystallization conditions
pH 7；277 K；1.6 M ammonium sulfate, pH 7.0, vapor diffusion, hanging drop, temperature 277K
|
Resolution 3.00 Å R-free 0.233 |
| 3U88 Crystal structure of human menin in complex with MLL1 and LEDGF Deposited 2011-10-16 | Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain D
347–435（89 aa）
|
Not recorded | CHD CHOLIC ACID × 1 GGB L-CANAVANINE × 1 0BR (4beta,8alpha,9R)-6'-methoxy-10,11-dihydrocinchonan-9-ol × 1 GLV GLYOXYLIC ACID × 2 SO4 SULFATE ION × 4 | X-RAY DIFFRACTION |
X-ray crystallization conditions
pH 7；277 K；1.6 M ammonium sulfate, pH 7.0, vapor diffusion, hanging drop, temperature 277K
|
Resolution 3.00 Å R-free 0.233 |
| 3ZEH Solution structure of the Hs. PSIP1 PWWP domain Deposited 2012-12-05 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
3–100（98 aa）
Fragment：PWWP DOMAIN, RESIDUES 3-100
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 6；298 K；Ionic strength (raw mmCIF value) 100；Pressure 1.0
NMR sample composition
90% WATER 10% D2O 20 MM NAPI PH 6 100 MM NACL
|
Resolution not provided |
| 4FU6 Crystal structure of the PSIP1 PWWP domain Deposited 2012-06-28 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
1–135（135 aa）
Fragment：UNP residues 1-135
|
Not recorded | SO4 SULFATE ION × 3 GOL GLYCEROL × 1 UNX UNKNOWN LIGAND × 5 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION；pH 8.5；291 K；The protein sample was treated with V8 protease. 2.5M ammonium sulfate, 0.1M TRIS, pH 8.5, vapor diffusion, temperature 291K
|
Resolution 2.10 Å R-free 0.232 |
| 5N88 Crystal structure of antibody bound to viral protein Deposited 2017-02-23 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain E
347–424（78 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION；pH 8.5；277 K；25.0% PEG 3350, 10mM Tris pH8.5
|
Resolution 1.70 Å R-free 0.252 |
| 5N88 Crystal structure of antibody bound to viral protein Deposited 2017-02-23 | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain D
347–425（79 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION；pH 8.5；277 K；25.0% PEG 3350, 10mM Tris pH8.5
|
Resolution 1.70 Å R-free 0.252 |
| 5OYM HIV Integrase Binding Domain of Lens Epithelium-Derived Growth Factor Deposited 2017-09-11 | Assembly 1 Protein homooligomer Homooligomer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain A
345–431（87 aa）
Chain B
345–431（87 aa）
Chain C
345–431（87 aa）
Chain D
345–431（87 aa）
Chain E
345–431（87 aa）
Chain F
345–431（87 aa）
Chain G
345–431（87 aa）
Chain H
345–431（87 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；0.2 M Sodium Fluoride, 0.1 M bis-Tris propane, pH 8.5 and 20 % w/v PEG 3350
|
Resolution 2.05 Å R-free 0.236 |
| 5YI9 Solution structure of the LEDGF/p75 IBD - JPO2 (aa 56-91) complex Deposited 2017-10-03 | Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
345–442（98 aa）
Fragment：UNP RESIDUES 345-442,UNP RESIDUES 345-442
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 200；Pressure arbitrary
NMR sample composition
0.5 mM [U-13C; U-15N] LEDGF/p75 IBD- JPO2 M2, 50 mM TRIS, 150 mM sodium chloride, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 6EMO Solution structure of the LEDGF/p75 IBD - JPO2 (aa 1-32) complex Deposited 2017-10-03 | Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
345–442（98 aa）
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 200；Pressure arbitrary
NMR sample composition
0.5 mM [U-13C; U-15N] LEDGF/p75 IBD-JPO2 M1, 50 mM TRIS, 150 mM sodium chloride, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 6EMP Solution structure of the LEDGF/p75 IBD - POGZ (aa 1370-1404) complex Deposited 2017-10-03 | Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
345–442（98 aa）
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 200；Pressure arbitraty
NMR sample composition
0.5 mM [U-13C; U-15N] LEDGF/p75 IBD-POGZ, 50 mM TRIS, 150 mM sodium chloride, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 6EMQ Solution structure of the LEDGF/p75 IBD - MLL1 (aa 111-160) complex Deposited 2017-10-03 | Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
345–443（99 aa）
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 200；Pressure arbitrary
NMR sample composition
0.5 mM [U-13C; U-15N] LEDGF/p75 IBD-MLL1, 50 mM TRIS, 150 mM sodium chloride, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 6EMR Solution structure of the LEDGF/p75 IBD - IWS1 (aa 446-548) complex Deposited 2017-10-03 | Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
345–441（97 aa）
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 200；Pressure arbitrary
NMR sample composition
0.5 mM [U-13C; U-15N] LEDGF/p75 IBD-IWS1, 50 mM TRIS, 150 mM sodium chloride, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 6S01 Structure of LEDGF PWWP domain bound H3K36 methylated nucleosome Deposited 2019-06-13 | Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers |
Chain K
1–530（530 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5；Solution were made from stock solution
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 4 seconds before plunging
|
Resolution 3.20 Å |
| 6TRJ LEDGF/p75 IBD dimer Deposited 2019-12-19 | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain A
345–430（86 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；0.1M DL-Glutamic acid monohydrate; 0.1M
DL-Alanine; 0.1M Glycine; 0.1M DL-Lysine
monohydrochloride; 0.1M DL-Serine; 0.1 M Tris (base); BICINE pH 8.5; 20% v/v Glycerol; 10% w/v PEG 4000 (Morpheus Molecular Dimensions condition H11)
|
Resolution 1.30 Å R-free 0.177 |
| 6TVM LEDGF/p75 dimer (residues 345-467) Deposited 2020-01-10 | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain A
345–467（123 aa）
Chain B
345–467（123 aa）
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7；298 K；Ionic strength (raw mmCIF value) 120；Pressure 1
NMR sample composition
0.5 mM [U-13C; U-15N] LEDGF, 20 mM HEPES, 100 mM sodium chloride, 1 mM TCEP, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 6ZV0 TFIIS N-terminal domain (TND) from human LEDGF/p75 Deposited 2020-07-23 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
345–431（87 aa）
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 7.4；298 K；Ionic strength (raw mmCIF value) 225；Pressure 1
NMR sample composition
0.6 mM [U-13C; U-15N] LEDGF/p75, 25 mM [U-2H] TRIS, 200 mM sodium chloride, 1 mM TCEP, 95% H2O/5% D2O | 95% H2O/5% D2O
|
Resolution not provided |
| 7OUF Structure of the STLV intasome:B56 complex bound to the strand-transfer inhibitor XZ450 Deposited 2021-06-11 | Assembly 1 Insufficient information Heteromer；Protein × 6 PDB declaration: decameric（10） Consistent with all polymers |
Chain C
1–325（325 aa）
Chain F
1–325（325 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 4 1L0 4-azanyl-~{N}-[[2,4-bis(fluoranyl)phenyl]methyl]-6-[3-(dimethylamino)-3-oxidanylidene-propyl]-1-oxidanyl-2-oxidanylidene-1,8-naphthyridine-3-carboxamide × 2 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 7OUG STLV-1 intasome:B56 in complex with the strand-transfer inhibitor raltegravir Deposited 2021-06-11 | Assembly 1 Insufficient information Heteromer；Protein × 6 PDB declaration: decameric（10） Consistent with all polymers |
Chain C
1–325（325 aa）
Chain F
1–325（325 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 4 RLT N-(4-fluorobenzyl)-5-hydroxy-1-methyl-2-(1-methyl-1-{[(5-methyl-1,3,4-oxadiazol-2-yl)carbonyl]amino}ethyl)-6-oxo-1,6-di hydropyrimidine-4-carboxamide × 2 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 7PEL CryoEM structure of simian T-cell lymphotropic virus intasome in complex with PP2A regulatory subunit B56 gamma Deposited 2021-08-10 | Assembly 1 Insufficient information Heteromer；Protein × 6 PDB declaration: decameric（10） Consistent with all polymers |
Chain C
1–325（325 aa）
Chain F
1–325（325 aa）
|
Not recorded | ZN ZINC ION × 4 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.34 Å |
| 7Z1Z MVV strand transfer complex (STC) intasome in complex with LEDGF/p75 at 3.5 A resolution Deposited 2022-02-25 | Assembly 1 Protein–DNA Heteromer；Protein × 18 PDB declaration: 24-meric（24） Consistent with all polymers |
Chain Q
347–435（89 aa）
Chain R
347–435（89 aa）
|
Not recorded | ZN ZINC ION × 12 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 6.5；310 mM NaCl, 3 mM CaCl2, 25 mM BisTris-HCl, pH 6.5.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 8CBN structure of LEDGF/p75 PWWP domain bound to the H3K36 trimethylated dinucleosome Deposited 2023-01-25 | Assembly 1 Protein–DNA Heteromer；Protein × 10 PDB declaration: dodecameric（12） Consistent with all polymers |
Chain K
1–530（530 aa）
Chain L
1–530（530 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.34 Å |
| 8CBQ structure of LEDGF/p75 PWWP domain bound to the H3K36 trimethylated dinucleosome Deposited 2023-01-25 | Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers |
Chain K
1–530（530 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 8PC5 H3K36me3 nucleosome-LEDGF/p75 PWWP domain complex Deposited 2023-06-09 | Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers |
Chain K
1–530（530 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.02 Å |
| 8PC6 H3K36me3 nucleosome-LEDGF/p75 PWWP domain complex - pose 2 Deposited 2023-06-09 | Assembly 1 Protein–DNA Heteromer；Protein × 10 PDB declaration: dodecameric（12） Consistent with all polymers |
Chain K
1–530（530 aa）
Chain L
1–530（530 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.04 Å |
| 8PEO H3K36me2 nucleosome-LEDGF/p75 PWWP domain complex Deposited 2023-06-14 | Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers |
Chain K
1–530（530 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.69 Å |
| 8PEP H3K36me2 nucleosome-LEDGF/p75 PWWP domain complex - pose 2 Deposited 2023-06-14 | Assembly 1 Protein–DNA Heteromer；Protein × 10 PDB declaration: 12-meric（12） Consistent with all polymers |
Chain K
1–530（530 aa）
Chain L
1–530（530 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.33 Å |
| 9BW9 Tetrameric Complex of full-length HIV-1 integrase protein bound to the integrase binding domain of LEDGF/p75 Deposited 2024-05-21 | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain E
347–435（89 aa）
Chain F
347–435（89 aa）
Chain G
347–435（89 aa）
Chain H
347–435（89 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Cryo-EM grids were prepared by freezing using a manual plunger in cold room at 4C
|
Resolution 4.10 Å |
| 9XYC Pol II-DSIF-SPT6-PAF1c-TFIIS-IWS1-ELOF1-LEDGF-nucleosome LEDGF+nucleosome map Q Deposited 2025-08-25 | Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers |
Chain l
2–530（529 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |