HEADER TRANSCRIPTION/DNA 10-JAN-19 6J4R TITLE STRUCTURAL BASIS FOR THE TARGET DNA RECOGNITION AND BINDING BY THE MYB TITLE 2 DOMAIN OF PHOSPHATE STARVATION RESPONSE REGULATOR 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN PHOSPHATE STARVATION RESPONSE 1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: MYB DOMAIN; COMPND 5 SYNONYM: ATPHR1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*CP*CP*AP*TP*AP*TP*AP*TP*GP*AP*C)-3'); COMPND 9 CHAIN: F; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'-D(*GP*TP*CP*AP*TP*AP*TP*AP*TP*GP*G)-3'); COMPND 13 CHAIN: E; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: DNA (5'-D(*GP*GP*TP*AP*TP*AP*TP*AP*CP*TP*G)-3'); COMPND 17 CHAIN: X; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 5; COMPND 20 MOLECULE: DNA (5'-D(*CP*AP*GP*TP*AP*TP*AP*TP*AP*CP*C)-3'); COMPND 21 CHAIN: Y; COMPND 22 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: PHR1, AT4G28610, T5F17.60; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630; SOURCE 19 MOL_ID: 4; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 22 ORGANISM_TAXID: 32630; SOURCE 23 MOL_ID: 5; SOURCE 24 SYNTHETIC: YES; SOURCE 25 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 26 ORGANISM_TAXID: 32630 KEYWDS MYB DOMAIN DNA, TRANSCRIPTION, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.Q.JIANG,L.F.SUN,M.N.ISUPOV REVDAT 4 27-MAR-24 6J4R 1 REMARK REVDAT 3 20-NOV-19 6J4R 1 REMARK REVDAT 2 31-JUL-19 6J4R 1 JRNL REVDAT 1 24-APR-19 6J4R 0 JRNL AUTH M.JIANG,L.SUN,M.N.ISUPOV,J.A.LITTLECHILD,X.WU,Q.WANG,Q.WANG, JRNL AUTH 2 W.YANG,Y.WU JRNL TITL STRUCTURAL BASIS FOR THE TARGET DNA RECOGNITION AND BINDING JRNL TITL 2 BY THE MYB DOMAIN OF PHOSPHATE STARVATION RESPONSE 1. JRNL REF FEBS J. V. 286 2809 2019 JRNL REFN ISSN 1742-464X JRNL PMID 30974511 JRNL DOI 10.1111/FEBS.14846 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 71.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 13959 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 720 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1007 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.4990 REMARK 3 BIN FREE R VALUE SET COUNT : 49 REMARK 3 BIN FREE R VALUE : 0.5320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1821 REMARK 3 NUCLEIC ACID ATOMS : 886 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 1 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 102.8 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.16000 REMARK 3 B22 (A**2) : 6.16000 REMARK 3 B33 (A**2) : -12.32000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.572 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.313 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.324 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.322 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2851 ; 0.012 ; 0.011 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4023 ; 1.629 ; 1.467 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 223 ; 5.153 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 94 ;23.646 ;19.149 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 352 ;21.247 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;22.941 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 367 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1826 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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: U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6J4R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1300010467. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14723 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 75.610 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 12.60 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 13.20 REMARK 200 R MERGE FOR SHELL (I) : 4.07200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28%PEG3350 , 0.1M CITRATE-NA PH 5.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 44.48300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 44.48300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 71.72250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 44.48300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 44.48300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 71.72250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 44.48300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 44.48300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 71.72250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 44.48300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 44.48300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 71.72250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, F, E 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 REMARK 350 BIOMOLECULE: 2 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: 4490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, X, Y 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 LYS B 225 REMARK 465 LYS C 225 REMARK 465 ARG C 281 REMARK 465 TYR C 282 REMARK 465 TYR D 282 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 ARG A 281 CG CD NE CZ NH1 NH2 REMARK 470 DC F 1 O5' REMARK 470 DG E 1 O5' REMARK 470 DG X 1 O5' REMARK 470 DC Y 1 O5' REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 229 CD ARG A 229 NE -0.238 REMARK 500 ARG A 229 NE ARG A 229 CZ 0.153 REMARK 500 ARG B 229 CZ ARG B 229 NH2 0.172 REMARK 500 ARG C 229 CZ ARG C 229 NH2 0.091 REMARK 500 ARG D 229 CZ ARG D 229 NH2 0.119 REMARK 500 DA F 10 O3' DC F 11 P -0.083 REMARK 500 DA E 8 O3' DT E 9 P -0.109 REMARK 500 DT X 7 O3' DA X 8 P -0.090 REMARK 500 DT Y 4 O3' DA Y 5 P -0.073 REMARK 500 DA Y 5 O3' DT Y 6 P -0.076 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 229 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG B 229 CG - CD - NE ANGL. DEV. = -12.8 DEGREES REMARK 500 DG F 9 O5' - P - OP1 ANGL. DEV. = -5.6 DEGREES REMARK 500 DG X 2 O5' - P - OP1 ANGL. DEV. = -5.7 DEGREES REMARK 500 DT X 5 O5' - P - OP2 ANGL. DEV. = 9.6 DEGREES REMARK 500 DT Y 4 C1' - O4' - C4' ANGL. DEV. = -6.7 DEGREES REMARK 500 DT Y 6 C1' - O4' - C4' ANGL. DEV. = -6.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 6J4R A 225 282 UNP Q94CL7 PHR1_ARATH 225 282 DBREF 6J4R B 225 282 UNP Q94CL7 PHR1_ARATH 225 282 DBREF 6J4R C 225 282 UNP Q94CL7 PHR1_ARATH 225 282 DBREF 6J4R D 225 282 UNP Q94CL7 PHR1_ARATH 225 282 DBREF 6J4R F 1 11 PDB 6J4R 6J4R 1 11 DBREF 6J4R E 1 11 PDB 6J4R 6J4R 1 11 DBREF 6J4R X 1 11 PDB 6J4R 6J4R 1 11 DBREF 6J4R Y 1 11 PDB 6J4R 6J4R 1 11 SEQRES 1 A 58 LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU ALA SEQRES 2 A 58 PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU ARG SEQRES 3 A 58 ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL GLU SEQRES 4 A 58 GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN LYS SEQRES 5 A 58 TYR ARG THR ALA ARG TYR SEQRES 1 B 58 LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU ALA SEQRES 2 B 58 PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU ARG SEQRES 3 B 58 ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL GLU SEQRES 4 B 58 GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN LYS SEQRES 5 B 58 TYR ARG THR ALA ARG TYR SEQRES 1 C 58 LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU ALA SEQRES 2 C 58 PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU ARG SEQRES 3 C 58 ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL GLU SEQRES 4 C 58 GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN LYS SEQRES 5 C 58 TYR ARG THR ALA ARG TYR SEQRES 1 D 58 LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU ALA SEQRES 2 D 58 PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU ARG SEQRES 3 D 58 ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL GLU SEQRES 4 D 58 GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN LYS SEQRES 5 D 58 TYR ARG THR ALA ARG TYR SEQRES 1 F 11 DC DC DA DT DA DT DA DT DG DA DC SEQRES 1 E 11 DG DT DC DA DT DA DT DA DT DG DG SEQRES 1 X 11 DG DG DT DA DT DA DT DA DC DT DG SEQRES 1 Y 11 DC DA DG DT DA DT DA DT DA DC DC FORMUL 9 HOH *(H2 O) HELIX 1 AA1 THR A 231 LEU A 245 1 15 HELIX 2 AA2 GLY A 246 ALA A 251 1 6 HELIX 3 AA3 THR A 252 LYS A 261 1 10 HELIX 4 AA4 THR A 266 ALA A 280 1 15 HELIX 5 AA5 THR B 231 LEU B 245 1 15 HELIX 6 AA6 THR B 252 LYS B 261 1 10 HELIX 7 AA7 THR B 266 ALA B 280 1 15 HELIX 8 AA8 THR C 231 LEU C 245 1 15 HELIX 9 AA9 THR C 252 LYS C 261 1 10 HELIX 10 AB1 THR C 266 ALA C 280 1 15 HELIX 11 AB2 THR D 231 LEU D 245 1 15 HELIX 12 AB3 THR D 252 LYS D 261 1 10 HELIX 13 AB4 THR D 266 ALA D 280 1 15 CRYST1 88.966 88.966 143.445 90.00 90.00 90.00 P 42 21 2 32 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 0.011240 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011240 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006971 0.00000