HEADER TRANSPORT PROTEIN 05-MAR-15 5AKV TITLE TRANSTHYRETIN BINDING HETEROGENEITY AND ANTI-AMYLOIDOGENIC ACTIVITY OF TITLE 2 NATURAL POLYPHENOLS AND THEIR METABOLITES: GENISTEIN-7-O- GLUCURONIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSTHYRETIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 21-147; COMPND 5 SYNONYM: ATTR, PREALBUMIN, TBPA; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11B KEYWDS TRANSPORT PROTEIN, AMYLOID, FIBRILLOGENESIS, FIBRILLOGENESIS KEYWDS 2 INHIBITORS, POLYPHENOLS, POLYPHENOL METABOLITES, TRANSTHYRETIN, KEYWDS 3 NEGATIVE COOPERATIVITY EXPDTA X-RAY DIFFRACTION AUTHOR P.FLORIO,C.FOLL,M.CIANCI,D.DEL RIO,G.ZANOTTI,R.BERNI REVDAT 6 10-JAN-24 5AKV 1 REMARK REVDAT 5 15-MAY-19 5AKV 1 REMARK REVDAT 4 07-MAR-18 5AKV 1 SOURCE REMARK REVDAT 3 13-JAN-16 5AKV 1 JRNL REVDAT 2 28-OCT-15 5AKV 1 JRNL REVDAT 1 21-OCT-15 5AKV 0 JRNL AUTH P.FLORIO,C.FOLLI,M.CIANCI,D.DEL RIO,G.ZANOTTI,R.BERNI JRNL TITL TRANSTHYRETIN BINDING HETEROGENEITY AND ANTI-AMYLOIDOGENIC JRNL TITL 2 ACTIVITY OF NATURAL POLYPHENOLS AND THEIR METABOLITES JRNL REF J.BIOL.CHEM. V. 290 29769 2015 JRNL REFN ISSN 0021-9258 JRNL PMID 26468275 JRNL DOI 10.1074/JBC.M115.690172 REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.64 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 36328 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1819 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 63.6913 - 3.5739 0.99 2827 163 0.1610 0.1749 REMARK 3 2 3.5739 - 2.8367 0.99 2699 148 0.1648 0.2052 REMARK 3 3 2.8367 - 2.4781 1.00 2673 154 0.1682 0.2017 REMARK 3 4 2.4781 - 2.2515 1.00 2668 130 0.1640 0.1923 REMARK 3 5 2.2515 - 2.0901 1.00 2691 127 0.1613 0.2306 REMARK 3 6 2.0901 - 1.9669 1.00 2641 143 0.1662 0.1752 REMARK 3 7 1.9669 - 1.8684 1.00 2616 142 0.1646 0.2006 REMARK 3 8 1.8684 - 1.7871 0.99 2634 127 0.1779 0.2185 REMARK 3 9 1.7871 - 1.7183 1.00 2640 128 0.2023 0.2249 REMARK 3 10 1.7183 - 1.6590 0.99 2620 139 0.2049 0.2487 REMARK 3 11 1.6590 - 1.6071 0.99 2603 133 0.2171 0.2738 REMARK 3 12 1.6071 - 1.5611 0.99 2604 140 0.2131 0.2523 REMARK 3 13 1.5611 - 1.5200 0.99 2593 145 0.2407 0.3020 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.590 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 2093 REMARK 3 ANGLE : 1.515 2896 REMARK 3 CHIRALITY : 0.051 322 REMARK 3 PLANARITY : 0.008 376 REMARK 3 DIHEDRAL : 14.741 757 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5AKV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1290063207. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-AUG-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.967 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : KB MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36372 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 63.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.52000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 1F41 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS OF WT HUMAN TTR- LIGAND REMARK 280 COMPLEXES WERE OBTAINED AT ROOM TEMPERATURE IN ABOUT ONE WEEK BY REMARK 280 CO-CRYSTALLIZATION, USING THE HANGING-DROP VAPOR DIFFUSION REMARK 280 METHOD. THE PROTEIN (5 MG/ML), IN 20 MM SODIUM PHOSPHATE, PH 7, REMARK 280 WAS INCUBATED WITH A FOUR-FOLD MOLAR EXCESS OF LIGANDS REMARK 280 SOLUBILIZED IN DMSO. DROPS WERE FORMED BY MIXING EQUAL VOLUMES REMARK 280 OF THE SOLUTION CONTAINING LIGAND-TTR COMPLEXES AND OF THE REMARK 280 RESERVOIR/PRECIPITANT SOLUTION (2.2 M AMMONIUM SULPHATE, 0.1 M REMARK 280 KCL, 0.03 M SODIUM PHOSPHATE, PH 7.0)., VAPOR DIFFUSION, HANGING REMARK 280 DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 21.42150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.47950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.42150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.47950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 42.84300 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 84.95900 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 O5 G7G A1126 LIES ON A SPECIAL POSITION. REMARK 375 C24 G7G A1126 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 1 REMARK 465 PRO A 2 REMARK 465 THR A 3 REMARK 465 GLY A 4 REMARK 465 THR A 5 REMARK 465 GLY A 6 REMARK 465 GLU A 7 REMARK 465 SER A 8 REMARK 465 LYS A 9 REMARK 465 LYS A 126 REMARK 465 GLU A 127 REMARK 465 GLY B 1 REMARK 465 PRO B 2 REMARK 465 THR B 3 REMARK 465 GLY B 4 REMARK 465 THR B 5 REMARK 465 GLY B 6 REMARK 465 GLU B 7 REMARK 465 SER B 8 REMARK 465 LYS B 9 REMARK 465 PRO B 125 REMARK 465 LYS B 126 REMARK 465 GLU B 127 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD1 ASP B 74 O HOH B 2050 1.92 REMARK 500 O HOH A 2059 O HOH A 2060 2.06 REMARK 500 O HOH B 2046 O HOH B 2072 2.09 REMARK 500 OD1 ASP A 99 O HOH A 2118 2.13 REMARK 500 O HOH B 2027 O HOH B 2032 2.16 REMARK 500 O HOH B 2078 O HOH B 2079 2.16 REMARK 500 O HOH A 2017 O HOH A 2038 2.16 REMARK 500 O HOH A 2130 O HOH B 2078 2.17 REMARK 500 O HOH B 2062 O HOH B 2063 2.17 REMARK 500 O HOH A 2093 O HOH A 2096 2.17 REMARK 500 O GLY A 83 O HOH A 2101 2.19 REMARK 500 O HOH A 2013 O HOH A 2018 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2037 O HOH A 2058 4456 2.03 REMARK 500 O HOH A 2015 O HOH A 2061 4456 2.09 REMARK 500 O HOH A 2010 O HOH B 2068 2665 2.15 REMARK 500 O HOH A 2029 O HOH A 2079 4556 2.16 REMARK 500 O HOH A 2009 O HOH A 2144 2665 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE B 44 -43.26 -131.68 REMARK 500 ASP B 99 -104.98 -72.96 REMARK 500 SER B 100 84.72 46.07 REMARK 500 PRO B 102 171.02 -51.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE G7G A 1126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE G7G B 1126 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5AKS RELATED DB: PDB REMARK 900 TRANSTHYRETIN BINDING HETEROGENEITY AND ANTI-AMYLOIDOGENIC ACTIVITY REMARK 900 OF NATURAL POLYPHENOLS AND THEIR METABOLITES: RESVERATROL-3-O- REMARK 900 GLUCURONIDE REMARK 900 RELATED ID: 5AKT RELATED DB: PDB REMARK 900 TRANSTHYRETIN BINDING HETEROGENEITY AND ANTI-AMYLOIDOGENIC ACTIVITY REMARK 900 OF NATURAL POLYPHENOLS AND THEIR METABOLITES: RESVERATROL-4'-O- REMARK 900 GLUCURONIDE REMARK 900 RELATED ID: 5AL0 RELATED DB: PDB REMARK 900 TRANSTHYRETIN BINDING HETEROGENEITY AND ANTI-AMYLOIDOGENIC ACTIVITY REMARK 900 OF NATURAL POLYPHENOLS AND THEIR METABOLITES: RESVERATROL-3-O- REMARK 900 SULFATE REMARK 900 RELATED ID: 5AL8 RELATED DB: PDB REMARK 900 TRANSTHYRETIN BINDING HETEROGENEITY AND ANTI-AMYLOIDOGENIC ACTIVITY REMARK 900 OF NATURAL POLYPHENOLS AND THEIR METABOLITES: DAIDZEIN-7-O- REMARK 900 GLUCURONIDE DBREF 5AKV A 1 127 UNP P02766 TTHY_HUMAN 21 147 DBREF 5AKV B 1 127 UNP P02766 TTHY_HUMAN 21 147 SEQRES 1 A 127 GLY PRO THR GLY THR GLY GLU SER LYS CYS PRO LEU MET SEQRES 2 A 127 VAL LYS VAL LEU ASP ALA VAL ARG GLY SER PRO ALA ILE SEQRES 3 A 127 ASN VAL ALA VAL HIS VAL PHE ARG LYS ALA ALA ASP ASP SEQRES 4 A 127 THR TRP GLU PRO PHE ALA SER GLY LYS THR SER GLU SER SEQRES 5 A 127 GLY GLU LEU HIS GLY LEU THR THR GLU GLU GLU PHE VAL SEQRES 6 A 127 GLU GLY ILE TYR LYS VAL GLU ILE ASP THR LYS SER TYR SEQRES 7 A 127 TRP LYS ALA LEU GLY ILE SER PRO PHE HIS GLU HIS ALA SEQRES 8 A 127 GLU VAL VAL PHE THR ALA ASN ASP SER GLY PRO ARG ARG SEQRES 9 A 127 TYR THR ILE ALA ALA LEU LEU SER PRO TYR SER TYR SER SEQRES 10 A 127 THR THR ALA VAL VAL THR ASN PRO LYS GLU SEQRES 1 B 127 GLY PRO THR GLY THR GLY GLU SER LYS CYS PRO LEU MET SEQRES 2 B 127 VAL LYS VAL LEU ASP ALA VAL ARG GLY SER PRO ALA ILE SEQRES 3 B 127 ASN VAL ALA VAL HIS VAL PHE ARG LYS ALA ALA ASP ASP SEQRES 4 B 127 THR TRP GLU PRO PHE ALA SER GLY LYS THR SER GLU SER SEQRES 5 B 127 GLY GLU LEU HIS GLY LEU THR THR GLU GLU GLU PHE VAL SEQRES 6 B 127 GLU GLY ILE TYR LYS VAL GLU ILE ASP THR LYS SER TYR SEQRES 7 B 127 TRP LYS ALA LEU GLY ILE SER PRO PHE HIS GLU HIS ALA SEQRES 8 B 127 GLU VAL VAL PHE THR ALA ASN ASP SER GLY PRO ARG ARG SEQRES 9 B 127 TYR THR ILE ALA ALA LEU LEU SER PRO TYR SER TYR SER SEQRES 10 B 127 THR THR ALA VAL VAL THR ASN PRO LYS GLU HET G7G A1126 32 HET G7G B1126 32 HETNAM G7G GENISTEIN-7-O-GLUCURONIDE FORMUL 3 G7G 2(C21 H18 O11) FORMUL 5 HOH *225(H2 O) HELIX 1 1 ASP A 74 LEU A 82 1 9 HELIX 2 2 ASP B 74 LEU B 82 1 9 SHEET 1 AA 2 SER A 23 PRO A 24 0 SHEET 2 AA 2 LEU A 12 ASP A 18 -1 N ASP A 18 O SER A 23 SHEET 1 AB 2 GLU A 54 LEU A 55 0 SHEET 2 AB 2 LEU A 12 ASP A 18 -1 O VAL A 14 N LEU A 55 SHEET 1 BA 2 SER B 23 PRO B 24 0 SHEET 2 BA 2 LEU B 12 ASP B 18 -1 N ASP B 18 O SER B 23 SHEET 1 BB 2 GLU B 54 LEU B 55 0 SHEET 2 BB 2 LEU B 12 ASP B 18 -1 O VAL B 14 N LEU B 55 SHEET 1 AC 8 TRP A 41 LYS A 48 0 SHEET 2 AC 8 ALA A 29 LYS A 35 -1 O VAL A 30 N GLY A 47 SHEET 3 AC 8 GLY A 67 ILE A 73 -1 O ILE A 68 N LYS A 35 SHEET 4 AC 8 HIS A 88 ALA A 97 -1 O ALA A 91 N ILE A 73 SHEET 5 AC 8 HIS B 88 ALA B 97 -1 N GLU B 89 O VAL A 94 SHEET 6 AC 8 GLY B 67 ILE B 73 -1 O GLY B 67 N ALA B 97 SHEET 7 AC 8 ALA B 29 LYS B 35 -1 O HIS B 31 N GLU B 72 SHEET 8 AC 8 TRP B 41 LYS B 48 -1 O GLU B 42 N ARG B 34 SITE 1 AC1 9 MET A 13 LYS A 15 LEU A 17 GLU A 54 SITE 2 AC1 9 ALA A 108 LEU A 110 SER A 117 THR A 119 SITE 3 AC1 9 HOH A2134 SITE 1 AC2 10 MET B 13 LYS B 15 LEU B 17 GLU B 54 SITE 2 AC2 10 HIS B 56 ALA B 108 LEU B 110 SER B 117 SITE 3 AC2 10 THR B 119 HOH B2081 CRYST1 42.843 84.959 63.636 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.023341 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011770 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015714 0.00000