PDB Short entry for 6J5B HEADER TRANSCRIPTION/DNA 10-JAN-19 6J5B 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, C, D, F, H, J; COMPND 4 SYNONYM: ATPHR1; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'- COMPND 8 D(*GP*GP*TP*AP*CP*AP*GP*TP*AP*TP*AP*TP*AP*CP*CP*AP*TP*AP*AP*A)-3'); COMPND 9 CHAIN: B, E, I; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'- COMPND 13 D(*TP*TP*TP*AP*TP*GP*GP*TP*AP*TP*AP*TP*AP*CP*TP*GP*TP*AP*CP*C)-3'); COMPND 14 CHAIN: G, K, U; COMPND 15 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 KEYWDS MYB DOMAIN DNA, TRANSCRIPTION, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.Q.JIANG,L.F.SUN,M.N.ISUPOV,Y.K.WU REVDAT 3 27-MAR-24 6J5B 1 REMARK REVDAT 2 31-JUL-19 6J5B 1 JRNL REVDAT 1 24-APR-19 6J5B 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. 2.70 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 : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 27093 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) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1473 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1700 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.4260 REMARK 3 BIN FREE R VALUE SET COUNT : 94 REMARK 3 BIN FREE R VALUE : 0.4590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2772 REMARK 3 NUCLEIC ACID ATOMS : 2442 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 99.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.03000 REMARK 3 B22 (A**2) : -0.85000 REMARK 3 B33 (A**2) : 3.10000 REMARK 3 B12 (A**2) : -1.41000 REMARK 3 B13 (A**2) : -8.39000 REMARK 3 B23 (A**2) : -8.45000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.556 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.307 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.326 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.211 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5564 ; 0.008 ; 0.011 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8008 ; 1.489 ; 1.403 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 341 ; 4.694 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;31.185 ;18.690 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 536 ;24.311 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;26.300 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 718 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3338 ; 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 21 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 226 281 C 226 281 1738 0.070 0.050 REMARK 3 2 A 226 282 D 226 282 1765 0.070 0.050 REMARK 3 3 A 226 281 F 226 281 1706 0.080 0.050 REMARK 3 4 A 226 281 H 226 281 1728 0.080 0.050 REMARK 3 5 A 226 281 J 226 281 1699 0.090 0.050 REMARK 3 6 B 1 20 E 1 20 1812 0.060 0.050 REMARK 3 7 B 1 20 I 1 20 1809 0.060 0.050 REMARK 3 8 C 226 281 D 226 281 1740 0.050 0.050 REMARK 3 9 C 225 281 F 225 281 1748 0.060 0.050 REMARK 3 10 C 225 281 H 225 281 1759 0.050 0.050 REMARK 3 11 C 226 281 J 226 281 1711 0.080 0.050 REMARK 3 12 D 226 281 F 226 281 1712 0.070 0.050 REMARK 3 13 D 226 281 H 226 281 1734 0.050 0.050 REMARK 3 14 D 226 281 J 226 281 1704 0.080 0.050 REMARK 3 15 E 1 20 I 1 20 1820 0.060 0.050 REMARK 3 16 F 225 282 H 225 282 1739 0.080 0.050 REMARK 3 17 F 226 281 J 226 281 1728 0.070 0.050 REMARK 3 18 G 1 20 K 1 20 1778 0.060 0.050 REMARK 3 19 G 1 20 U 1 20 1746 0.080 0.050 REMARK 3 20 H 226 281 J 226 281 1699 0.080 0.050 REMARK 3 21 K 1 20 U 1 20 1765 0.060 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 6J5B 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_1300010474. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JAN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.3 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29308 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 47.520 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.31130 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: 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): 3.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 3350, 0.2M CACL2, 0.1M MES PH REMARK 280 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 5190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, U 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: 5410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, E, F, G 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: 3 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: 5440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, I, J, K 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 224 REMARK 465 LYS A 225 REMARK 465 ARG A 283 REMARK 465 ARG C 283 REMARK 465 GLY D 224 REMARK 465 LYS D 225 REMARK 465 ARG D 283 REMARK 465 GLY F 224 REMARK 465 ARG F 283 REMARK 465 GLY H 224 REMARK 465 ARG H 283 REMARK 465 GLY J 224 REMARK 465 LYS J 225 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 TYR A 282 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TYR C 282 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TYR F 282 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TYR H 282 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU J 240 OE1 OE2 REMARK 470 ARG J 283 CG CD NE CZ NH1 NH2 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 DC B 5 C1' - O4' - C4' ANGL. DEV. = -6.0 DEGREES REMARK 500 DT G 8 O5' - P - OP1 ANGL. DEV. = -5.5 DEGREES REMARK 500 DT G 8 O5' - P - OP2 ANGL. DEV. = 8.0 DEGREES REMARK 500 DC I 5 C1' - O4' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 DT K 2 O5' - P - OP1 ANGL. DEV. = -5.4 DEGREES REMARK 500 DT K 8 O5' - P - OP2 ANGL. DEV. = 8.3 DEGREES REMARK 500 DT U 8 O5' - P - OP1 ANGL. DEV. = -5.5 DEGREES 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 ARG A 281 -76.76 -111.62 REMARK 500 ARG C 281 -78.19 -109.57 REMARK 500 ARG D 281 -74.30 -112.65 REMARK 500 ARG F 281 -89.83 -112.63 REMARK 500 ARG J 281 4.48 -69.08 REMARK 500 REMARK 500 REMARK: NULL DBREF 6J5B A 224 283 UNP Q94CL7 PHR1_ARATH 224 283 DBREF 6J5B B 1 20 PDB 6J5B 6J5B 1 20 DBREF 6J5B C 224 283 UNP Q94CL7 PHR1_ARATH 224 283 DBREF 6J5B D 224 283 UNP Q94CL7 PHR1_ARATH 224 283 DBREF 6J5B E 1 20 PDB 6J5B 6J5B 1 20 DBREF 6J5B F 224 283 UNP Q94CL7 PHR1_ARATH 224 283 DBREF 6J5B G 1 20 PDB 6J5B 6J5B 1 20 DBREF 6J5B H 224 283 UNP Q94CL7 PHR1_ARATH 224 283 DBREF 6J5B I 1 20 PDB 6J5B 6J5B 1 20 DBREF 6J5B J 224 283 UNP Q94CL7 PHR1_ARATH 224 283 DBREF 6J5B K 1 20 PDB 6J5B 6J5B 1 20 DBREF 6J5B U 1 20 PDB 6J5B 6J5B 1 20 SEQRES 1 A 60 GLY LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU SEQRES 2 A 60 ALA PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU SEQRES 3 A 60 ARG ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL SEQRES 4 A 60 GLU GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN SEQRES 5 A 60 LYS TYR ARG THR ALA ARG TYR ARG SEQRES 1 B 20 DG DG DT DA DC DA DG DT DA DT DA DT DA SEQRES 2 B 20 DC DC DA DT DA DA DA SEQRES 1 C 60 GLY LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU SEQRES 2 C 60 ALA PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU SEQRES 3 C 60 ARG ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL SEQRES 4 C 60 GLU GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN SEQRES 5 C 60 LYS TYR ARG THR ALA ARG TYR ARG SEQRES 1 D 60 GLY LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU SEQRES 2 D 60 ALA PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU SEQRES 3 D 60 ARG ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL SEQRES 4 D 60 GLU GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN SEQRES 5 D 60 LYS TYR ARG THR ALA ARG TYR ARG SEQRES 1 E 20 DG DG DT DA DC DA DG DT DA DT DA DT DA SEQRES 2 E 20 DC DC DA DT DA DA DA SEQRES 1 F 60 GLY LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU SEQRES 2 F 60 ALA PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU SEQRES 3 F 60 ARG ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL SEQRES 4 F 60 GLU GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN SEQRES 5 F 60 LYS TYR ARG THR ALA ARG TYR ARG SEQRES 1 G 20 DT DT DT DA DT DG DG DT DA DT DA DT DA SEQRES 2 G 20 DC DT DG DT DA DC DC SEQRES 1 H 60 GLY LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU SEQRES 2 H 60 ALA PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU SEQRES 3 H 60 ARG ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL SEQRES 4 H 60 GLU GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN SEQRES 5 H 60 LYS TYR ARG THR ALA ARG TYR ARG SEQRES 1 I 20 DG DG DT DA DC DA DG DT DA DT DA DT DA SEQRES 2 I 20 DC DC DA DT DA DA DA SEQRES 1 J 60 GLY LYS ALA ARG MET ARG TRP THR PRO GLU LEU HIS GLU SEQRES 2 J 60 ALA PHE VAL GLU ALA VAL ASN SER LEU GLY GLY SER GLU SEQRES 3 J 60 ARG ALA THR PRO LYS GLY VAL LEU LYS ILE MET LYS VAL SEQRES 4 J 60 GLU GLY LEU THR ILE TYR HIS VAL LYS SER HIS LEU GLN SEQRES 5 J 60 LYS TYR ARG THR ALA ARG TYR ARG SEQRES 1 K 20 DT DT DT DA DT DG DG DT DA DT DA DT DA SEQRES 2 K 20 DC DT DG DT DA DC DC SEQRES 1 U 20 DT DT DT DA DT DG DG DT DA DT DA DT DA SEQRES 2 U 20 DC DT DG DT DA DC DC HELIX 1 AA1 THR A 231 LEU A 245 1 15 HELIX 2 AA2 THR A 252 LYS A 261 1 10 HELIX 3 AA3 THR A 266 ALA A 280 1 15 HELIX 4 AA4 THR C 231 LEU C 245 1 15 HELIX 5 AA5 THR C 252 LYS C 261 1 10 HELIX 6 AA6 THR C 266 ALA C 280 1 15 HELIX 7 AA7 THR D 231 LEU D 245 1 15 HELIX 8 AA8 THR D 252 LYS D 261 1 10 HELIX 9 AA9 THR D 266 ALA D 280 1 15 HELIX 10 AB1 THR F 231 LEU F 245 1 15 HELIX 11 AB2 THR F 252 LYS F 261 1 10 HELIX 12 AB3 THR F 266 ALA F 280 1 15 HELIX 13 AB4 THR H 231 LEU H 245 1 15 HELIX 14 AB5 THR H 252 LYS H 261 1 10 HELIX 15 AB6 THR H 266 ALA H 280 1 15 HELIX 16 AB7 THR J 231 LEU J 245 1 15 HELIX 17 AB8 THR J 252 LYS J 261 1 10 HELIX 18 AB9 THR J 266 ALA J 280 1 15 CRYST1 53.581 53.581 98.884 91.47 91.47 94.79 P 1 6 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 0.018663 0.001564 0.000523 0.00000 SCALE2 0.000000 0.018729 0.000523 0.00000 SCALE3 0.000000 0.000000 0.010120 0.00000