HEADER PLANT PROTEIN 29-APR-20 6YWJ TITLE ARABIDOPSIS ASPARTATE TRANSCARBAMOYLASE MUTANT F161A COMPLEX WITH UMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRB; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: THALE CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: AXX17_AT3G21670; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS TRANSFERASE, CHLOROPLAST, PYRIMIDINE DE NOVO BIOSYNTHESIS, PLANT KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.RAMON MAIQUES,F.DEL CANO OCHOA,L.BELLIN,T.MOHLMANN REVDAT 2 24-JAN-24 6YWJ 1 REMARK REVDAT 1 03-MAR-21 6YWJ 0 JRNL AUTH L.BELLIN,F.DEL CANO-OCHOA,A.VELAZQUEZ-CAMPOY,T.MOHLMANN, JRNL AUTH 2 S.RAMON-MAIQUES JRNL TITL MECHANISMS OF FEEDBACK INHIBITION AND SEQUENTIAL FIRING OF JRNL TITL 2 ACTIVE SITES IN PLANT ASPARTATE TRANSCARBAMOYLASE. JRNL REF NAT COMMUN V. 12 947 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 33574254 JRNL DOI 10.1038/S41467-021-21165-9 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 30890 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.982 REMARK 3 FREE R VALUE TEST SET COUNT : 1539 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2181 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.1590 REMARK 3 BIN FREE R VALUE SET COUNT : 126 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4884 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 8 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 11.61700 REMARK 3 B22 (A**2) : 11.61700 REMARK 3 B33 (A**2) : -23.23400 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): 0.051 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.040 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.091 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.608 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5012 ; 0.011 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4821 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6753 ; 1.784 ; 1.642 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11155 ; 1.297 ; 1.581 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 621 ; 7.950 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 259 ;33.096 ;21.699 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 929 ;17.261 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;19.435 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 663 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5543 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1049 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1013 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 83 ; 0.203 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2401 ; 0.167 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 112 ; 0.190 ; 0.200 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): 2490 ; 4.353 ; 4.386 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2489 ; 4.351 ; 4.385 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3109 ; 5.774 ; 6.589 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3110 ; 5.774 ; 6.590 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2521 ; 4.822 ; 4.740 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2518 ; 4.822 ; 4.742 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3644 ; 6.847 ; 6.935 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3645 ; 6.846 ; 6.935 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 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.4827 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : -K, -H, -L REMARK 3 TWIN FRACTION : 0.5173 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: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 6YWJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292108423. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JAN-19 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 : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97926 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30917 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 48.304 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.19400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.25500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6YPO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN AT 5 MG/ML IN BUFFER 20 MM REMARK 280 TRIS PH 7.0, 0.1 M NACL, 2% GLYCEROL, 0.2 MM TRIS(2-CARBOXYETHYL) REMARK 280 PHOSPHINE (TCEP) AND WITH 5 MM UMP. CRYSTALLIZATION SOLUTION: REMARK 280 18-22 % PEG3350, 0.1 M NA2SO4 AND 0.1 M BIS-TRIS PH 6.5 CRYSTALS REMARK 280 WERE CRYO-PROTECTED BY SOAKING IN A SOLUTION CONTAINING THE REMARK 280 MOTHER LIQUOR SUPPLEMENTED WITH 20% GLYCEROL AND THE 5 MM UMP., REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 63.92250 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 63.92250 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 63.92250 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 -0.500000 -0.866025 0.000000 104.34300 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 180.72738 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -104.34300 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 180.72738 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -0.500000 -0.866025 0.000000 104.34300 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 180.72738 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -104.34300 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 180.72738 REMARK 350 BIOMT3 3 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 MET A 59 REMARK 465 GLY A 60 REMARK 465 SER A 61 REMARK 465 SER A 62 REMARK 465 HIS A 63 REMARK 465 HIS A 64 REMARK 465 HIS A 65 REMARK 465 HIS A 66 REMARK 465 HIS A 67 REMARK 465 HIS A 68 REMARK 465 SER A 69 REMARK 465 SER A 70 REMARK 465 GLY A 71 REMARK 465 LEU A 72 REMARK 465 GLU A 73 REMARK 465 VAL A 74 REMARK 465 LEU A 75 REMARK 465 PHE A 76 REMARK 465 GLN A 77 REMARK 465 GLY A 78 REMARK 465 MET B 59 REMARK 465 GLY B 60 REMARK 465 SER B 61 REMARK 465 SER B 62 REMARK 465 HIS B 63 REMARK 465 HIS B 64 REMARK 465 HIS B 65 REMARK 465 HIS B 66 REMARK 465 HIS B 67 REMARK 465 HIS B 68 REMARK 465 SER B 69 REMARK 465 SER B 70 REMARK 465 GLY B 71 REMARK 465 LEU B 72 REMARK 465 GLU B 73 REMARK 465 VAL B 74 REMARK 465 LEU B 75 REMARK 465 PHE B 76 REMARK 465 GLN B 77 REMARK 465 GLY B 78 REMARK 465 PRO B 79 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 HIS B 80 CG ND1 CD2 CE1 NE2 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 SER A 134 79.52 -151.37 REMARK 500 PHE A 330 40.30 -105.45 REMARK 500 HIS A 348 112.15 -166.86 REMARK 500 LEU A 350 162.51 63.75 REMARK 500 LEU A 353 -117.81 -90.40 REMARK 500 PRO A 364 2.17 -66.04 REMARK 500 ILE B 88 -50.81 -125.31 REMARK 500 ARG B 327 106.82 -47.12 REMARK 500 LEU B 350 159.95 74.31 REMARK 500 LEU B 353 -131.49 -96.58 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 GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue U5P A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue U5P B 402 DBREF1 6YWJ A 82 390 UNP A0A178VJE3_ARATH DBREF2 6YWJ A A0A178VJE3 82 390 DBREF1 6YWJ B 82 390 UNP A0A178VJE3_ARATH DBREF2 6YWJ B A0A178VJE3 82 390 SEQADV 6YWJ MET A 59 UNP A0A178VJE INITIATING METHIONINE SEQADV 6YWJ GLY A 60 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER A 61 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER A 62 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS A 63 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS A 64 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS A 65 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS A 66 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS A 67 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS A 68 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER A 69 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER A 70 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLY A 71 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ LEU A 72 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLU A 73 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ VAL A 74 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ LEU A 75 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ PHE A 76 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLN A 77 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLY A 78 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ PRO A 79 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS A 80 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ MET A 81 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ ALA A 161 UNP A0A178VJE PHE 161 CONFLICT SEQADV 6YWJ MET B 59 UNP A0A178VJE INITIATING METHIONINE SEQADV 6YWJ GLY B 60 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER B 61 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER B 62 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS B 63 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS B 64 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS B 65 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS B 66 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS B 67 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS B 68 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER B 69 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ SER B 70 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLY B 71 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ LEU B 72 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLU B 73 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ VAL B 74 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ LEU B 75 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ PHE B 76 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLN B 77 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ GLY B 78 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ PRO B 79 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ HIS B 80 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ MET B 81 UNP A0A178VJE EXPRESSION TAG SEQADV 6YWJ ALA B 161 UNP A0A178VJE PHE 161 CONFLICT SEQRES 1 A 332 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 332 LEU GLU VAL LEU PHE GLN GLY PRO HIS MET PHE GLU LEU SEQRES 3 A 332 SER ASP VAL ILE GLU GLY LYS GLN PHE ASP ARG GLU MET SEQRES 4 A 332 LEU SER ALA ILE PHE ASP VAL ALA ARG GLU MET GLU LYS SEQRES 5 A 332 ILE GLU LYS SER SER SER GLN SER GLU ILE LEU LYS GLY SEQRES 6 A 332 TYR LEU MET ALA THR LEU PHE TYR GLU PRO SER THR ARG SEQRES 7 A 332 THR ARG LEU SER PHE GLU SER ALA MET LYS ARG LEU GLY SEQRES 8 A 332 GLY GLU VAL LEU THR THR GLU ASN ALA ARG GLU ALA SER SEQRES 9 A 332 SER ALA ALA LYS GLY GLU THR LEU GLU ASP THR ILE ARG SEQRES 10 A 332 THR VAL GLU GLY TYR SER ASP ILE ILE VAL MET ARG HIS SEQRES 11 A 332 PHE GLU SER GLY ALA ALA ARG LYS ALA ALA ALA THR ALA SEQRES 12 A 332 ASN ILE PRO VAL ILE ASN ALA GLY ASP GLY PRO GLY GLU SEQRES 13 A 332 HIS PRO THR GLN ALA LEU LEU ASP VAL TYR THR ILE GLN SEQRES 14 A 332 SER GLU ILE GLY LYS LEU ASP GLY ILE SER VAL ALA LEU SEQRES 15 A 332 VAL GLY ASP LEU ALA ASN GLY ARG THR VAL ARG SER LEU SEQRES 16 A 332 ALA TYR LEU LEU ALA LYS PHE LYS ASP VAL LYS ILE TYR SEQRES 17 A 332 PHE VAL SER PRO GLU ILE VAL LYS MET LYS ASP ASP ILE SEQRES 18 A 332 LYS ASP TYR LEU THR SER SER GLY VAL GLU TRP GLU GLU SEQRES 19 A 332 SER SER ASP LEU MET GLU VAL ALA SER LYS CYS ASP VAL SEQRES 20 A 332 VAL TYR GLN THR ARG ILE GLN ARG GLU ARG PHE GLY GLU SEQRES 21 A 332 ARG LEU ASP LEU TYR GLU ALA ALA ARG GLY LYS PHE ILE SEQRES 22 A 332 VAL ASP LYS ASP LEU LEU GLY VAL MET GLN LYS LYS ALA SEQRES 23 A 332 ILE ILE MET HIS PRO LEU PRO ARG LEU ASP GLU ILE THR SEQRES 24 A 332 ALA ASP VAL ASP ALA ASP PRO ARG ALA ALA TYR PHE ARG SEQRES 25 A 332 GLN ALA LYS ASN GLY LEU PHE ILE ARG MET ALA LEU LEU SEQRES 26 A 332 LYS LEU LEU LEU VAL GLY TRP SEQRES 1 B 332 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 332 LEU GLU VAL LEU PHE GLN GLY PRO HIS MET PHE GLU LEU SEQRES 3 B 332 SER ASP VAL ILE GLU GLY LYS GLN PHE ASP ARG GLU MET SEQRES 4 B 332 LEU SER ALA ILE PHE ASP VAL ALA ARG GLU MET GLU LYS SEQRES 5 B 332 ILE GLU LYS SER SER SER GLN SER GLU ILE LEU LYS GLY SEQRES 6 B 332 TYR LEU MET ALA THR LEU PHE TYR GLU PRO SER THR ARG SEQRES 7 B 332 THR ARG LEU SER PHE GLU SER ALA MET LYS ARG LEU GLY SEQRES 8 B 332 GLY GLU VAL LEU THR THR GLU ASN ALA ARG GLU ALA SER SEQRES 9 B 332 SER ALA ALA LYS GLY GLU THR LEU GLU ASP THR ILE ARG SEQRES 10 B 332 THR VAL GLU GLY TYR SER ASP ILE ILE VAL MET ARG HIS SEQRES 11 B 332 PHE GLU SER GLY ALA ALA ARG LYS ALA ALA ALA THR ALA SEQRES 12 B 332 ASN ILE PRO VAL ILE ASN ALA GLY ASP GLY PRO GLY GLU SEQRES 13 B 332 HIS PRO THR GLN ALA LEU LEU ASP VAL TYR THR ILE GLN SEQRES 14 B 332 SER GLU ILE GLY LYS LEU ASP GLY ILE SER VAL ALA LEU SEQRES 15 B 332 VAL GLY ASP LEU ALA ASN GLY ARG THR VAL ARG SER LEU SEQRES 16 B 332 ALA TYR LEU LEU ALA LYS PHE LYS ASP VAL LYS ILE TYR SEQRES 17 B 332 PHE VAL SER PRO GLU ILE VAL LYS MET LYS ASP ASP ILE SEQRES 18 B 332 LYS ASP TYR LEU THR SER SER GLY VAL GLU TRP GLU GLU SEQRES 19 B 332 SER SER ASP LEU MET GLU VAL ALA SER LYS CYS ASP VAL SEQRES 20 B 332 VAL TYR GLN THR ARG ILE GLN ARG GLU ARG PHE GLY GLU SEQRES 21 B 332 ARG LEU ASP LEU TYR GLU ALA ALA ARG GLY LYS PHE ILE SEQRES 22 B 332 VAL ASP LYS ASP LEU LEU GLY VAL MET GLN LYS LYS ALA SEQRES 23 B 332 ILE ILE MET HIS PRO LEU PRO ARG LEU ASP GLU ILE THR SEQRES 24 B 332 ALA ASP VAL ASP ALA ASP PRO ARG ALA ALA TYR PHE ARG SEQRES 25 B 332 GLN ALA LYS ASN GLY LEU PHE ILE ARG MET ALA LEU LEU SEQRES 26 B 332 LYS LEU LEU LEU VAL GLY TRP HET GOL A 401 6 HET U5P A 402 21 HET GOL B 401 6 HET U5P B 402 21 HETNAM GOL GLYCEROL HETNAM U5P URIDINE-5'-MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 2(C3 H8 O3) FORMUL 4 U5P 2(C9 H13 N2 O9 P) FORMUL 7 HOH *8(H2 O) HELIX 1 AA1 GLU A 89 PHE A 93 5 5 HELIX 2 AA2 ASP A 94 SER A 114 1 21 HELIX 3 AA3 SER A 134 LEU A 148 1 15 HELIX 4 AA4 THR A 169 GLU A 178 1 10 HELIX 5 AA5 GLY A 192 ALA A 201 1 10 HELIX 6 AA6 HIS A 215 GLY A 231 1 17 HELIX 7 AA7 GLY A 247 ALA A 258 1 12 HELIX 8 AA8 PRO A 270 LYS A 274 5 5 HELIX 9 AA9 LYS A 276 SER A 286 1 11 HELIX 10 AB1 ASP A 295 SER A 301 1 7 HELIX 11 AB2 GLN A 312 GLY A 317 5 6 HELIX 12 AB3 ARG A 319 ALA A 325 1 7 HELIX 13 AB4 ASP A 333 GLY A 338 1 6 HELIX 14 AB5 THR A 357 ASP A 363 5 7 HELIX 15 AB6 ALA A 367 GLY A 389 1 23 HELIX 16 AB7 GLU B 89 PHE B 93 5 5 HELIX 17 AB8 ASP B 94 SER B 114 1 21 HELIX 18 AB9 SER B 134 LEU B 148 1 15 HELIX 19 AC1 THR B 169 GLU B 178 1 10 HELIX 20 AC2 GLY B 192 ALA B 201 1 10 HELIX 21 AC3 HIS B 215 GLY B 231 1 17 HELIX 22 AC4 GLY B 247 ALA B 258 1 12 HELIX 23 AC5 PRO B 270 LYS B 274 5 5 HELIX 24 AC6 LYS B 276 SER B 286 1 11 HELIX 25 AC7 ASP B 295 SER B 301 1 7 HELIX 26 AC8 GLN B 312 GLY B 317 5 6 HELIX 27 AC9 ARG B 319 ARG B 327 1 9 HELIX 28 AD1 ASP B 333 VAL B 339 1 7 HELIX 29 AD2 THR B 357 ASP B 363 5 7 HELIX 30 AD3 ALA B 367 GLY B 389 1 23 SHEET 1 AA1 4 GLU A 151 THR A 155 0 SHEET 2 AA1 4 LEU A 125 PHE A 130 1 N THR A 128 O LEU A 153 SHEET 3 AA1 4 ILE A 183 ARG A 187 1 O VAL A 185 N ALA A 127 SHEET 4 AA1 4 VAL A 205 ASN A 207 1 O ILE A 206 N ILE A 184 SHEET 1 AA2 5 GLU A 289 SER A 293 0 SHEET 2 AA2 5 LYS A 264 VAL A 268 1 N ILE A 265 O GLU A 289 SHEET 3 AA2 5 SER A 237 VAL A 241 1 N LEU A 240 O TYR A 266 SHEET 4 AA2 5 VAL A 305 GLN A 308 1 O TYR A 307 N ALA A 239 SHEET 5 AA2 5 ILE A 345 MET A 347 1 O MET A 347 N VAL A 306 SHEET 1 AA3 4 GLU B 151 THR B 155 0 SHEET 2 AA3 4 LEU B 125 PHE B 130 1 N THR B 128 O LEU B 153 SHEET 3 AA3 4 ILE B 183 HIS B 188 1 O ILE B 183 N ALA B 127 SHEET 4 AA3 4 VAL B 205 ASP B 210 1 O ALA B 208 N MET B 186 SHEET 1 AA4 5 GLU B 289 SER B 293 0 SHEET 2 AA4 5 LYS B 264 VAL B 268 1 N PHE B 267 O GLU B 291 SHEET 3 AA4 5 SER B 237 VAL B 241 1 N LEU B 240 O TYR B 266 SHEET 4 AA4 5 VAL B 305 TYR B 307 1 O TYR B 307 N ALA B 239 SHEET 5 AA4 5 ILE B 345 MET B 347 1 O MET B 347 N VAL B 306 CISPEP 1 LEU A 350 PRO A 351 0 -11.39 CISPEP 2 LEU B 350 PRO B 351 0 -8.01 SITE 1 AC1 7 ARG A 136 ALA A 161 GLU A 168 THR A 169 SITE 2 AC1 7 ASP A 172 THR A 173 THR A 176 SITE 1 AC2 16 ARG A 136 THR A 137 SER A 162 ALA A 164 SITE 2 AC2 16 ALA A 165 ARG A 187 HIS A 215 GLN A 218 SITE 3 AC2 16 ARG A 248 THR A 249 THR A 309 ARG A 310 SITE 4 AC2 16 HIS A 348 PRO A 349 LEU A 350 PRO A 351 SITE 1 AC3 7 ARG B 136 GLU B 168 THR B 169 ASP B 172 SITE 2 AC3 7 THR B 173 THR B 176 PRO B 351 SITE 1 AC4 15 ARG B 136 THR B 137 SER B 162 ALA B 164 SITE 2 AC4 15 ARG B 187 HIS B 215 GLN B 218 ARG B 248 SITE 3 AC4 15 THR B 249 THR B 309 ARG B 310 HIS B 348 SITE 4 AC4 15 PRO B 349 LEU B 350 PRO B 351 CRYST1 104.343 104.343 127.845 90.00 90.00 120.00 P 63 12 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 0.009584 0.005533 0.000000 0.00000 SCALE2 0.000000 0.011066 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007822 0.00000