HEADER TRANSCRIPTION 08-OCT-16 5H1E
TITLE INTERACTION BETWEEN VITAMIN D RECEPTOR AND COACTIVATOR PEPTIDE SRC2-3
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: VITAMIN D3 RECEPTOR;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: UNP RESIDUES 116-164, 212-423;
COMPND 5 SYNONYM: VDR,1,25-DIHYDROXYVITAMIN D3 RECEPTOR,NUCLEAR RECEPTOR
COMPND 6 SUBFAMILY 1 GROUP I MEMBER 1;
COMPND 7 ENGINEERED: YES;
COMPND 8 MOL_ID: 2;
COMPND 9 MOLECULE: NUCLEAR RECEPTOR COACTIVATOR 2 PEPTIDE;
COMPND 10 CHAIN: C;
COMPND 11 FRAGMENT: UNP RESIDUES 740-752;
COMPND 12 SYNONYM: NCOA-2,CLASS E BASIC HELIX-LOOP-HELIX PROTEIN 75,BHLHE75,
COMPND 13 TRANSCRIPTIONAL INTERMEDIARY FACTOR 2,HTIF2;
COMPND 14 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS;
SOURCE 3 ORGANISM_COMMON: RAT;
SOURCE 4 ORGANISM_TAXID: 10116;
SOURCE 5 GENE: VDR, NR1I1;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 MOL_ID: 2;
SOURCE 10 SYNTHETIC: YES;
SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 12 ORGANISM_COMMON: HUMAN;
SOURCE 13 ORGANISM_TAXID: 9606
KEYWDS TRANSCRIPTION, VITAMIN D3, VDRE, RXR, CO-FACTORS, TIF2
EXPDTA X-RAY DIFFRACTION
AUTHOR D.EGAWA,T.ITOH,A.KATO,S.KATAOKA,Y.ANAMI,K.YAMAMOTO
REVDAT 3 20-MAR-24 5H1E 1 REMARK
REVDAT 2 26-FEB-20 5H1E 1 REMARK
REVDAT 1 11-JAN-17 5H1E 0
JRNL AUTH D.EGAWA,T.ITOH,A.KATO,S.KATAOKA,Y.ANAMI,K.YAMAMOTO
JRNL TITL SRC2-3 BINDS TO VITAMIN D RECEPTOR WITH HIGH SENSITIVITY AND
JRNL TITL 2 STRONG AFFINITY
JRNL REF BIOORG. MED. CHEM. V. 25 568 2017
JRNL REFN ESSN 1464-3391
JRNL PMID 27890450
JRNL DOI 10.1016/J.BMC.2016.11.020
REMARK 2
REMARK 2 RESOLUTION. 2.60 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.8.0103
REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER,
REMARK 3 : NICHOLLS,WINN,LONG,VAGIN
REMARK 3
REMARK 3 REFINEMENT TARGET : NULL
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.99
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 77.2
REMARK 3 NUMBER OF REFLECTIONS : 6283
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT
REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM
REMARK 3 R VALUE (WORKING + TEST SET) : 0.240
REMARK 3 R VALUE (WORKING SET) : 0.239
REMARK 3 FREE R VALUE : 0.248
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.900
REMARK 3 FREE R VALUE TEST SET COUNT : 469
REMARK 3
REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN.
REMARK 3 TOTAL NUMBER OF BINS USED : 20
REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67
REMARK 3 REFLECTION IN BIN (WORKING SET) : 476
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 78.40
REMARK 3 BIN R VALUE (WORKING SET) : 0.3260
REMARK 3 BIN FREE R VALUE SET COUNT : 32
REMARK 3 BIN FREE R VALUE : 0.2590
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 1993
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 30
REMARK 3 SOLVENT ATOMS : 38
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.15
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -0.02000
REMARK 3 B22 (A**2) : -2.26000
REMARK 3 B33 (A**2) : 2.11000
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : 0.61000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED OVERALL COORDINATE ERROR.
REMARK 3 ESU BASED ON R VALUE (A): NULL
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.415
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.299
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 33.372
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.915
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2087 ; 0.015 ; 0.019
REMARK 3 BOND LENGTHS OTHERS (A): 2032 ; 0.007 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2830 ; 1.542 ; 1.997
REMARK 3 BOND ANGLES OTHERS (DEGREES): 4690 ; 1.050 ; 3.000
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 250 ; 5.049 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 95 ;35.165 ;24.316
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 376 ;18.089 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;16.696 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 323 ; 0.075 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2293 ; 0.006 ; 0.021
REMARK 3 GENERAL PLANES OTHERS (A): 456 ; 0.004 ; 0.020
REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL
REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL
REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL
REMARK 3
REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1003 ; 0.748 ; 2.010
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1002 ; 0.749 ; 2.011
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1252 ; 1.156 ; 3.014
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1253 ; 1.155 ; 3.014
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1084 ; 0.622 ; 2.048
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1085 ; 0.622 ; 2.048
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1579 ; 0.967 ; 3.058
REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 8540 ; 1.747 ;18.915
REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 8536 ; 1.745 ;18.916
REMARK 3
REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3
REMARK 3 NCS RESTRAINTS STATISTICS
REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 4
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 123 A 419
REMARK 3 ORIGIN FOR THE GROUP (A): 19.4697 0.3538 19.1244
REMARK 3 T TENSOR
REMARK 3 T11: 0.2098 T22: 0.2256
REMARK 3 T33: 0.0801 T12: -0.0169
REMARK 3 T13: -0.0543 T23: 0.0152
REMARK 3 L TENSOR
REMARK 3 L11: 2.9404 L22: 1.1450
REMARK 3 L33: 1.2808 L12: -0.0224
REMARK 3 L13: -0.4829 L23: -0.0841
REMARK 3 S TENSOR
REMARK 3 S11: -0.0240 S12: -0.0218 S13: -0.0475
REMARK 3 S21: 0.0102 S22: -0.0032 S23: -0.0019
REMARK 3 S31: -0.0317 S32: 0.0064 S33: 0.0273
REMARK 3
REMARK 3 TLS GROUP : 2
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : C 741 C 750
REMARK 3 ORIGIN FOR THE GROUP (A): 6.1349 -10.6255 10.5453
REMARK 3 T TENSOR
REMARK 3 T11: 0.2836 T22: 0.2939
REMARK 3 T33: 0.3308 T12: 0.0336
REMARK 3 T13: 0.0080 T23: -0.0178
REMARK 3 L TENSOR
REMARK 3 L11: 2.3688 L22: 2.8861
REMARK 3 L33: 4.5222 L12: 1.7418
REMARK 3 L13: 1.1053 L23: -1.5778
REMARK 3 S TENSOR
REMARK 3 S11: -0.0979 S12: -0.0720 S13: -0.2083
REMARK 3 S21: 0.0298 S22: -0.0491 S23: -0.1721
REMARK 3 S31: 0.0575 S32: 0.1045 S33: 0.1469
REMARK 3
REMARK 3 TLS GROUP : 3
REMARK 3 NUMBER OF COMPONENTS GROUP : 1
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 501 A 501
REMARK 3 ORIGIN FOR THE GROUP (A): 13.2944 4.1223 25.0408
REMARK 3 T TENSOR
REMARK 3 T11: 0.2624 T22: 0.3561
REMARK 3 T33: 0.2342 T12: -0.0155
REMARK 3 T13: -0.0628 T23: 0.0072
REMARK 3 L TENSOR
REMARK 3 L11: 2.2779 L22: 6.8046
REMARK 3 L33: 6.4983 L12: 1.4594
REMARK 3 L13: -3.7610 L23: -3.7099
REMARK 3 S TENSOR
REMARK 3 S11: -0.2011 S12: 0.3991 S13: 0.1601
REMARK 3 S21: 0.2410 S22: 0.4431 S23: -0.1143
REMARK 3 S31: 0.2072 S32: -0.7130 S33: -0.2420
REMARK 3
REMARK 3 TLS GROUP : 4
REMARK 3 NUMBER OF COMPONENTS GROUP : 2
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 601 A 633
REMARK 3 RESIDUE RANGE : C 801 C 805
REMARK 3 ORIGIN FOR THE GROUP (A): 18.4148 0.1272 15.8009
REMARK 3 T TENSOR
REMARK 3 T11: 0.2174 T22: 0.1655
REMARK 3 T33: 0.0275 T12: -0.0083
REMARK 3 T13: 0.0607 T23: 0.0283
REMARK 3 L TENSOR
REMARK 3 L11: 2.0754 L22: 0.7894
REMARK 3 L33: 1.1907 L12: -0.0397
REMARK 3 L13: 0.5907 L23: 0.2190
REMARK 3 S TENSOR
REMARK 3 S11: -0.1107 S12: 0.1721 S13: 0.0115
REMARK 3 S21: 0.0152 S22: 0.0854 S23: 0.0512
REMARK 3 S31: -0.0909 S32: -0.0920 S33: 0.0254
REMARK 3
REMARK 3 BULK SOLVENT MODELLING.
REMARK 3 METHOD USED : NULL
REMARK 3 PARAMETERS FOR MASK CALCULATION
REMARK 3 VDW PROBE RADIUS : 1.20
REMARK 3 ION PROBE RADIUS : 0.80
REMARK 3 SHRINKAGE RADIUS : 0.80
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING
REMARK 3 POSITIONS
REMARK 4
REMARK 4 5H1E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-OCT-16.
REMARK 100 THE DEPOSITION ID IS D_1300001730.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 20-DEC-14
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : NULL
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : PHOTON FACTORY
REMARK 200 BEAMLINE : BL-5A
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL
REMARK 200 DATA SCALING SOFTWARE : NULL
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6752
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600
REMARK 200 RESOLUTION RANGE LOW (A) : 41.990
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 78.0
REMARK 200 DATA REDUNDANCY : 2.000
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 73.3000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL
REMARK 200 COMPLETENESS FOR SHELL (%) : NULL
REMARK 200 DATA REDUNDANCY IN SHELL : NULL
REMARK 200 R MERGE FOR SHELL (I) : NULL
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL
REMARK 200 SOFTWARE USED: NULL
REMARK 200 STARTING MODEL: NULL
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 43.54
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: MOP-NA, NA-FORMATE, PEG 4000,
REMARK 280 ETHLENEGLYCOL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1
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 77.88500
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.44000
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 77.88500
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 21.44000
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: DIMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 2090 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 12010 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C
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 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 106
REMARK 465 SER A 107
REMARK 465 HIS A 108
REMARK 465 MET A 109
REMARK 465 GLY A 110
REMARK 465 SER A 111
REMARK 465 PRO A 112
REMARK 465 ASN A 113
REMARK 465 SER A 114
REMARK 465 PRO A 115
REMARK 465 LEU A 116
REMARK 465 LYS A 117
REMARK 465 ASP A 118
REMARK 465 SER A 119
REMARK 465 LEU A 120
REMARK 465 ARG A 121
REMARK 465 PRO A 122
REMARK 465 ASP A 207
REMARK 465 GLY A 208
REMARK 465 SER A 209
REMARK 465 THR A 210
REMARK 465 GLY A 211
REMARK 465 SER A 212
REMARK 465 VAL A 213
REMARK 465 THR A 214
REMARK 465 LEU A 215
REMARK 465 ASP A 216
REMARK 465 LEU A 217
REMARK 465 ASN A 420
REMARK 465 GLU A 421
REMARK 465 ILE A 422
REMARK 465 SER A 423
REMARK 465 LYS C 740
REMARK 465 LYS C 751
REMARK 465 ASP C 752
REMARK 470
REMARK 470 MISSING ATOM
REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER;
REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER;
REMARK 470 I=INSERTION CODE):
REMARK 470 M RES CSSEQI ATOMS
REMARK 470 LYS A 311 CG CD CE NZ
REMARK 470 LYS A 395 CG CD CE NZ
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 A 144 OG1 THR A 146 2.17
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 OE1 GLU A 405 OH TYR C 747 2556 1.55
REMARK 500 NH2 ARG A 151 OE1 GLU C 741 1565 2.06
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: COVALENT BOND ANGLES
REMARK 500
REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES
REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE
REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN
REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1)
REMARK 500
REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999
REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996
REMARK 500
REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3
REMARK 500 ARG A 270 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES
REMARK 500 ARG A 270 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES
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 VDX A 501
DBREF 5H1E A 116 423 UNP P13053 VDR_RAT 116 423
DBREF 5H1E C 740 752 UNP Q15596 NCOA2_HUMAN 740 752
SEQADV 5H1E GLY A 106 UNP P13053 EXPRESSION TAG
SEQADV 5H1E SER A 107 UNP P13053 EXPRESSION TAG
SEQADV 5H1E HIS A 108 UNP P13053 EXPRESSION TAG
SEQADV 5H1E MET A 109 UNP P13053 EXPRESSION TAG
SEQADV 5H1E GLY A 110 UNP P13053 EXPRESSION TAG
SEQADV 5H1E SER A 111 UNP P13053 EXPRESSION TAG
SEQADV 5H1E PRO A 112 UNP P13053 EXPRESSION TAG
SEQADV 5H1E ASN A 113 UNP P13053 EXPRESSION TAG
SEQADV 5H1E SER A 114 UNP P13053 EXPRESSION TAG
SEQADV 5H1E PRO A 115 UNP P13053 EXPRESSION TAG
SEQRES 1 A 271 GLY SER HIS MET GLY SER PRO ASN SER PRO LEU LYS ASP
SEQRES 2 A 271 SER LEU ARG PRO LYS LEU SER GLU GLU GLN GLN HIS ILE
SEQRES 3 A 271 ILE ALA ILE LEU LEU ASP ALA HIS HIS LYS THR TYR ASP
SEQRES 4 A 271 PRO THR TYR ALA ASP PHE ARG ASP PHE ARG PRO PRO VAL
SEQRES 5 A 271 ARG MET ASP GLY SER THR GLY SER VAL THR LEU ASP LEU
SEQRES 6 A 271 SER PRO LEU SER MET LEU PRO HIS LEU ALA ASP LEU VAL
SEQRES 7 A 271 SER TYR SER ILE GLN LYS VAL ILE GLY PHE ALA LYS MET
SEQRES 8 A 271 ILE PRO GLY PHE ARG ASP LEU THR SER ASP ASP GLN ILE
SEQRES 9 A 271 VAL LEU LEU LYS SER SER ALA ILE GLU VAL ILE MET LEU
SEQRES 10 A 271 ARG SER ASN GLN SER PHE THR MET ASP ASP MET SER TRP
SEQRES 11 A 271 ASP CYS GLY SER GLN ASP TYR LYS TYR ASP VAL THR ASP
SEQRES 12 A 271 VAL SER LYS ALA GLY HIS THR LEU GLU LEU ILE GLU PRO
SEQRES 13 A 271 LEU ILE LYS PHE GLN VAL GLY LEU LYS LYS LEU ASN LEU
SEQRES 14 A 271 HIS GLU GLU GLU HIS VAL LEU LEU MET ALA ILE CYS ILE
SEQRES 15 A 271 VAL SER PRO ASP ARG PRO GLY VAL GLN ASP ALA LYS LEU
SEQRES 16 A 271 VAL GLU ALA ILE GLN ASP ARG LEU SER ASN THR LEU GLN
SEQRES 17 A 271 THR TYR ILE ARG CYS ARG HIS PRO PRO PRO GLY SER HIS
SEQRES 18 A 271 GLN LEU TYR ALA LYS MET ILE GLN LYS LEU ALA ASP LEU
SEQRES 19 A 271 ARG SER LEU ASN GLU GLU HIS SER LYS GLN TYR ARG SER
SEQRES 20 A 271 LEU SER PHE GLN PRO GLU ASN SER MET LYS LEU THR PRO
SEQRES 21 A 271 LEU VAL LEU GLU VAL PHE GLY ASN GLU ILE SER
SEQRES 1 C 13 LYS GLU ASN ALA LEU LEU ARG TYR LEU LEU ASP LYS ASP
HET VDX A 501 30
HETNAM VDX 5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-
HETNAM 2 VDX OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-
HETNAM 3 VDX CYCLOHEXANE-1,3-DIOL
HETSYN VDX 1,25 DIHYDROXY VITAMIN D3
FORMUL 3 VDX C27 H44 O3
FORMUL 4 HOH *38(H2 O)
HELIX 1 AA1 SER A 125 TYR A 143 1 19
HELIX 2 AA2 TYR A 147 PHE A 153 5 7
HELIX 3 AA3 MET A 222 ILE A 244 1 23
HELIX 4 AA4 GLY A 246 LEU A 250 5 5
HELIX 5 AA5 THR A 251 ASN A 272 1 22
HELIX 6 AA6 ASP A 292 LYS A 298 1 7
HELIX 7 AA7 THR A 302 ASN A 320 1 19
HELIX 8 AA8 HIS A 322 VAL A 335 1 14
HELIX 9 AA9 ASP A 344 HIS A 367 1 24
HELIX 10 AB1 GLN A 374 GLN A 403 1 30
HELIX 11 AB2 GLN A 403 MET A 408 1 6
HELIX 12 AB3 THR A 411 GLY A 419 1 9
HELIX 13 AB4 ALA C 743 ASP C 750 1 8
SHEET 1 AA1 2 PHE A 275 THR A 276 0
SHEET 2 AA1 2 SER A 281 TRP A 282 -1 O SER A 281 N THR A 276
CISPEP 1 PRO A 369 PRO A 370 0 9.99
SITE 1 AC1 11 TYR A 143 LEU A 229 SER A 233 ILE A 267
SITE 2 AC1 11 ARG A 270 SER A 271 SER A 274 TRP A 282
SITE 3 AC1 11 VAL A 296 HIS A 301 HIS A 393
CRYST1 155.770 42.880 42.210 90.00 95.83 90.00 C 1 2 1 4
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 0.006420 0.000000 0.000655 0.00000
SCALE2 0.000000 0.023321 0.000000 0.00000
SCALE3 0.000000 0.000000 0.023814 0.00000