HEADER LIGASE 23-MAY-06 2CNQ TITLE ATOMIC RESOLUTION STRUCTURE OF SAICAR-SYNTHASE FROM SACCHAROMYCES TITLE 2 CEREVISIAE COMPLEXED WITH ADP, AICAR, SUCCINATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHORIBOSYLAMINOIMIDAZOLE-SUCCINOCARBOXAMIDE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SAICAR SYNTHETASE; COMPND 5 EC: 6.3.2.6 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932 KEYWDS LIGASE, PHOSPHORIBOSYLAMINOIMIDAZOLESUCCINOCARBOXAMIDE (SAICAR) SYN KEYWDS 2 LIGASE, SYNTHETASE, ACETYLATION, ATP-BINDING PROTEIN, PURINE KEYWDS 3 BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR D.V.URUSOVA,S.V.ANTONYUK,A.I.GREBENKO,V.M.LEVDIKOV,V.V.BARYNIN, AUTHOR 2 A.N.POPOV,V.S.LAMZIN,W.R.MELIK-ADAMYAN REVDAT 8 13-NOV-24 2CNQ 1 REMARK REVDAT 7 13-DEC-23 2CNQ 1 REMARK LINK REVDAT 6 24-JUL-19 2CNQ 1 REMARK REVDAT 5 10-JUL-19 2CNQ 1 REMARK LINK REVDAT 4 19-DEC-18 2CNQ 1 REMARK LINK ATOM REVDAT 3 24-FEB-09 2CNQ 1 VERSN REVDAT 2 19-SEP-06 2CNQ 1 REMARK HET HETNAM HETSYN REVDAT 2 2 1 FORMUL LINK ATOM ANISOU REVDAT 2 3 1 HETATM CONECT REVDAT 1 08-JUN-06 2CNQ 0 JRNL AUTH D.V.URUSOVA,S.V.ANTONYUK,A.I.GREBENKO,V.M.LEVDIKOV, JRNL AUTH 2 V.V.BARYNIN,A.N.POPOV,V.S.LAMZIN,W.R.MELIK-ADAMYAN JRNL TITL SAICAR SYNTHASE: SUBSTRATE RECOGNITION, CONFORMATIONAL JRNL TITL 2 FLEXIBILITY AND CATALYSIS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 146100 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) : 0.116 REMARK 3 R VALUE (WORKING SET) : 0.115 REMARK 3 FREE R VALUE : 0.130 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4546 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) : 1.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8806 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1940 REMARK 3 BIN FREE R VALUE SET COUNT : 293 REMARK 3 BIN FREE R VALUE : 0.2190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2406 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 158 REMARK 3 SOLVENT ATOMS : 733 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 7.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 8.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.32000 REMARK 3 B22 (A**2) : -0.15000 REMARK 3 B33 (A**2) : -0.17000 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): 0.021 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.021 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.012 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.478 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.982 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.978 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2953 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2679 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4030 ; 1.980 ; 2.037 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6339 ; 1.717 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 332 ; 6.527 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;37.052 ;24.961 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 577 ;12.275 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;21.248 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 464 ; 0.158 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3030 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 542 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 865 ; 0.253 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3565 ; 0.204 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1602 ; 0.211 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2157 ; 0.097 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 776 ; 0.184 ; 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): 22 ; 0.229 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 98 ; 0.250 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 110 ; 0.227 ; 0.200 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): 1834 ; 1.501 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2737 ; 1.872 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1485 ; 2.430 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1287 ; 3.077 ; 4.500 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 : BABINET MODEL WITH 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2CNQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1290027729. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-97 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 150732 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.000 REMARK 200 RESOLUTION RANGE LOW (A) : 18.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.25000 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1A48 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SUPHATE, ATP, AICAR, MG, ASP, REMARK 280 PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 30.34150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.44650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.92550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.44650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.34150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.92550 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 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 GLU A 166 REMARK 465 GLN A 167 REMARK 465 GLY A 168 REMARK 465 HIS A 306 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 169 CG CD OE1 OE2 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 O GLN A 144 O HOH A 2384 1.53 REMARK 500 OG1 THR A 136 O HOH A 2373 1.68 REMARK 500 O2 SIN A 1312 O HOH A 2703 1.97 REMARK 500 O HOH A 2637 O HOH A 2644 2.07 REMARK 500 O HOH A 2169 O HOH A 2379 2.17 REMARK 500 O HOH A 2497 O HOH A 2500 2.18 REMARK 500 O HOH A 2054 O HOH A 2276 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 LYS A 225 CE LYS A 225 NZ 1.400 REMARK 500 LYS A 225 CE LYS A 225 NZ 1.163 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 LYS A 225 CD - CE - NZ ANGL. DEV. = -53.6 DEGREES REMARK 500 LYS A 225 CD - CE - NZ ANGL. DEV. = -39.5 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 ASP A 104 -3.07 69.76 REMARK 500 THR A 226 -8.64 -140.83 REMARK 500 ASP A 233 -140.22 60.33 REMARK 500 ASP A 259 -173.41 -173.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LEU A 142 10.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2005 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A2033 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH A2045 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH A2081 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A2085 DISTANCE = 7.58 ANGSTROMS REMARK 525 HOH A2117 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A2171 DISTANCE = 5.87 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1314 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP A1307 O1B REMARK 620 2 ADP A1307 O1A 92.2 REMARK 620 3 HOH A2518 O 96.9 85.6 REMARK 620 4 HOH A2538 O 173.9 93.9 84.2 REMARK 620 5 HOH A2670 O 92.3 95.1 170.8 86.6 REMARK 620 6 HOH A2684 O 84.4 172.0 87.6 89.6 92.3 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1314 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1315 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1316 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1317 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1318 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SIN A1312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SIN A1313 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A1307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMZ A1308 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMZ A1309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMP A1310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A1311 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A48 RELATED DB: PDB REMARK 900 SAICAR SYNTHASE REMARK 900 RELATED ID: 1OBD RELATED DB: PDB REMARK 900 SAICAR-SYNTHASE COMPLEXED WITH ATP REMARK 900 RELATED ID: 1OBG RELATED DB: PDB REMARK 900 SAICAR-SYNTHASE COMPLEXED WITH ATP REMARK 900 RELATED ID: 2CNU RELATED DB: PDB REMARK 900 ATOMIC RESOLUTION STRUCTURE OF SAICAR-SYNTHASE FROM SACCHAROMYCES REMARK 900 CEREVISIAE COMPLEXED WITH ASPARTIC ACID REMARK 900 RELATED ID: 2CNV RELATED DB: PDB REMARK 900 SAICAR-SYNTHASE FROM SACCHAROMYCES CEREVISIAE COMPLEXED SAICAR REMARK 900 RELATED ID: 1KUT RELATED DB: PDB REMARK 900 STRUCTURAL GENOMICS, PROTEIN TM1243, (SAICAR SYNTHETASE) REMARK 900 RELATED ID: 2GQR RELATED DB: PDB REMARK 900 SAICAR SYNTHETASE COMPLEXED WITH ADP-MG2+ REMARK 900 RELATED ID: 2GQS RELATED DB: PDB REMARK 900 SAICAR SYNTHETASE COMPLEXED WITH CAIR-MG2+ AND ADP REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONFLICT IN THE RECORDS BELOW HAS BEEN DESCRIBED IN REMARK 999 REFERENCES WITH PUBMED ID=1658741, 7941740 AND 7731988 REMARK 999 INSIDE UNIPROT ENTRY P27616. DBREF 2CNQ A 1 1 PDB 2CNQ 2CNQ 1 1 DBREF 2CNQ A 2 306 UNP P27616 PUR7_YEAST 2 306 SEQADV 2CNQ GLU A 185 UNP P27616 GLY 185 CONFLICT SEQRES 1 A 306 ACE SER ILE THR LYS THR GLU LEU ASP GLY ILE LEU PRO SEQRES 2 A 306 LEU VAL ALA ARG GLY LYS VAL ARG ASP ILE TYR GLU VAL SEQRES 3 A 306 ASP ALA GLY THR LEU LEU PHE VAL ALA THR ASP ARG ILE SEQRES 4 A 306 SER ALA TYR ASP VAL ILE MET GLU ASN SER ILE PRO GLU SEQRES 5 A 306 LYS GLY ILE LEU LEU THR LYS LEU SER GLU PHE TRP PHE SEQRES 6 A 306 LYS PHE LEU SER ASN ASP VAL ARG ASN HIS LEU VAL ASP SEQRES 7 A 306 ILE ALA PRO GLY LYS THR ILE PHE ASP TYR LEU PRO ALA SEQRES 8 A 306 LYS LEU SER GLU PRO LYS TYR LYS THR GLN LEU GLU ASP SEQRES 9 A 306 ARG SER LEU LEU VAL HIS LYS HIS LYS LEU ILE PRO LEU SEQRES 10 A 306 GLU VAL ILE VAL ARG GLY TYR ILE THR GLY SER ALA TRP SEQRES 11 A 306 LYS GLU TYR VAL LYS THR GLY THR VAL HIS GLY LEU LYS SEQRES 12 A 306 GLN PRO GLN GLY LEU LYS GLU SER GLN GLU PHE PRO GLU SEQRES 13 A 306 PRO ILE PHE THR PRO SER THR LYS ALA GLU GLN GLY GLU SEQRES 14 A 306 HIS ASP GLU ASN ILE SER PRO ALA GLN ALA ALA GLU LEU SEQRES 15 A 306 VAL GLY GLU ASP LEU SER ARG ARG VAL ALA GLU LEU ALA SEQRES 16 A 306 VAL LYS LEU TYR SER LYS CYS LYS ASP TYR ALA LYS GLU SEQRES 17 A 306 LYS GLY ILE ILE ILE ALA ASP THR LYS PHE GLU PHE GLY SEQRES 18 A 306 ILE ASP GLU LYS THR ASN GLU ILE ILE LEU VAL ASP GLU SEQRES 19 A 306 VAL LEU THR PRO ASP SER SER ARG PHE TRP ASN GLY ALA SEQRES 20 A 306 SER TYR LYS VAL GLY GLU SER GLN ASP SER TYR ASP LYS SEQRES 21 A 306 GLN PHE LEU ARG ASP TRP LEU THR ALA ASN LYS LEU ASN SEQRES 22 A 306 GLY VAL ASN GLY VAL LYS MET PRO GLN ASP ILE VAL ASP SEQRES 23 A 306 ARG THR ARG ALA LYS TYR ILE GLU ALA TYR GLU THR LEU SEQRES 24 A 306 THR GLY SER LYS TRP SER HIS HET ACE A 1 3 HET ADP A1307 27 HET AMZ A1308 22 HET AMZ A1309 22 HET AMP A1310 23 HET ADP A1311 27 HET SIN A1312 8 HET SIN A1313 8 HET MG A1314 1 HET SO4 A1315 5 HET SO4 A1316 5 HET SO4 A1317 5 HET SO4 A1318 5 HETNAM ACE ACETYL GROUP HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM AMZ AMINOIMIDAZOLE 4-CARBOXAMIDE RIBONUCLEOTIDE HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM SIN SUCCINIC ACID HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETSYN AMZ AICAR FORMUL 1 ACE C2 H4 O FORMUL 2 ADP 2(C10 H15 N5 O10 P2) FORMUL 3 AMZ 2(C9 H15 N4 O8 P) FORMUL 5 AMP C10 H14 N5 O7 P FORMUL 7 SIN 2(C4 H6 O4) FORMUL 9 MG MG 2+ FORMUL 10 SO4 4(O4 S 2-) FORMUL 14 HOH *733(H2 O) HELIX 1 1 GLU A 52 LEU A 68 1 17 HELIX 2 2 THR A 84 LEU A 89 5 6 HELIX 3 3 PRO A 90 SER A 94 5 5 HELIX 4 4 GLU A 95 GLU A 103 1 9 HELIX 5 5 THR A 126 GLY A 137 1 12 HELIX 6 6 SER A 175 GLY A 184 1 10 HELIX 7 7 GLY A 184 GLY A 210 1 27 HELIX 8 8 LYS A 260 ASN A 270 1 11 HELIX 9 9 PRO A 281 GLY A 301 1 21 SHEET 1 AA 4 LEU A 14 ARG A 17 0 SHEET 2 AA 4 ARG A 21 ASP A 27 -1 O ILE A 23 N VAL A 15 SHEET 3 AA 4 THR A 30 ALA A 35 -1 O THR A 30 N VAL A 26 SHEET 4 AA 4 SER A 106 HIS A 110 -1 O LEU A 107 N PHE A 33 SHEET 1 AB 2 SER A 40 ALA A 41 0 SHEET 2 AB 2 VAL A 44 ILE A 45 -1 O VAL A 44 N ALA A 41 SHEET 1 AC 4 ARG A 73 ASN A 74 0 SHEET 2 AC 4 SER A 241 ASN A 245 0 SHEET 3 AC 4 ILE A 211 ASP A 223 -1 O ILE A 212 N TRP A 244 SHEET 4 AC 4 LYS A 113 LEU A 114 -1 O LYS A 113 N ILE A 222 SHEET 1 AD 5 ARG A 73 ASN A 74 0 SHEET 2 AD 5 GLU A 228 VAL A 232 1 O ILE A 229 N ARG A 73 SHEET 3 AD 5 ILE A 211 ASP A 223 -1 O GLU A 219 N VAL A 232 SHEET 4 AD 5 VAL A 119 TYR A 124 -1 O VAL A 119 N PHE A 218 SHEET 5 AD 5 GLU A 153 PHE A 159 -1 N PHE A 154 O GLY A 123 SHEET 1 AE 2 THR A 138 VAL A 139 0 SHEET 2 AE 2 LEU A 142 LYS A 143 -1 O LEU A 142 N VAL A 139 LINK C ACE A 1 N SER A 2 1555 1555 1.29 LINK O1B ADP A1307 MG MG A1314 1555 1555 1.96 LINK O1A ADP A1307 MG MG A1314 1555 1555 2.06 LINK MG MG A1314 O HOH A2518 1555 1555 2.05 LINK MG MG A1314 O HOH A2538 1555 1555 1.99 LINK MG MG A1314 O HOH A2670 1555 1555 2.02 LINK MG MG A1314 O HOH A2684 1555 1555 2.11 SITE 1 AC1 5 ADP A1307 HOH A2518 HOH A2538 HOH A2670 SITE 2 AC1 5 HOH A2684 SITE 1 AC2 9 GLU A 52 ARG A 289 TRP A 304 SER A 305 SITE 2 AC2 9 HOH A2716 HOH A2717 HOH A2718 HOH A2719 SITE 3 AC2 9 HOH A2720 SITE 1 AC3 5 LYS A 225 HOH A2721 HOH A2722 HOH A2723 SITE 2 AC3 5 HOH A2726 SITE 1 AC4 12 ARG A 73 ASN A 74 LEU A 76 ASP A 78 SITE 2 AC4 12 HIS A 110 HOH A2255 HOH A2348 HOH A2721 SITE 3 AC4 12 HOH A2724 HOH A2726 HOH A2727 HOH A2728 SITE 1 AC5 9 PHE A 262 ARG A 287 LYS A 291 HOH A2640 SITE 2 AC5 9 HOH A2641 HOH A2729 HOH A2730 HOH A2731 SITE 3 AC5 9 HOH A2733 SITE 1 AC6 9 LYS A 5 GLU A 185 ASP A 186 HOH A2703 SITE 2 AC6 9 HOH A2704 HOH A2705 HOH A2706 HOH A2707 SITE 3 AC6 9 HOH A2708 SITE 1 AC7 12 TYR A 42 LYS A 131 ARG A 242 GLN A 261 SITE 2 AC7 12 ARG A 264 HOH A2584 HOH A2681 HOH A2709 SITE 3 AC7 12 HOH A2710 HOH A2711 HOH A2712 HOH A2713 SITE 1 AC8 29 GLY A 18 LYS A 19 VAL A 20 ARG A 21 SITE 2 AC8 29 ILE A 23 LEU A 31 PHE A 33 HIS A 75 SITE 3 AC8 29 HIS A 110 HIS A 112 LEU A 114 LYS A 143 SITE 4 AC8 29 GLU A 219 VAL A 232 ASP A 233 MG A1314 SITE 5 AC8 29 HOH A2078 HOH A2079 HOH A2518 HOH A2538 SITE 6 AC8 29 HOH A2670 HOH A2671 HOH A2672 HOH A2673 SITE 7 AC8 29 HOH A2674 HOH A2676 HOH A2677 HOH A2678 SITE 8 AC8 29 HOH A2684 SITE 1 AC9 26 GLU A 118 ILE A 120 ARG A 122 GLY A 127 SITE 2 AC9 26 SER A 128 ASP A 171 ASP A 215 LYS A 217 SITE 3 AC9 26 ASP A 239 SER A 240 SER A 241 ARG A 242 SITE 4 AC9 26 ARG A 264 ADP A1311 HOH A2078 HOH A2539 SITE 5 AC9 26 HOH A2679 HOH A2680 HOH A2681 HOH A2682 SITE 6 AC9 26 HOH A2683 HOH A2684 HOH A2685 HOH A2686 SITE 7 AC9 26 HOH A2696 HOH A2698 SITE 1 BC1 19 GLU A 62 LYS A 66 VAL A 77 ILE A 79 SITE 2 BC1 19 ILE A 85 LEU A 107 LEU A 108 ASP A 186 SITE 3 BC1 19 HOH A2270 HOH A2460 HOH A2687 HOH A2688 SITE 4 BC1 19 HOH A2689 HOH A2690 HOH A2691 HOH A2692 SITE 5 BC1 19 HOH A2693 HOH A2694 HOH A2695 SITE 1 BC2 19 GLU A 62 LYS A 66 VAL A 77 ILE A 79 SITE 2 BC2 19 ILE A 85 SER A 106 LEU A 107 LEU A 108 SITE 3 BC2 19 ASP A 186 HOH A2194 HOH A2270 HOH A2460 SITE 4 BC2 19 HOH A2689 HOH A2690 HOH A2691 HOH A2692 SITE 5 BC2 19 HOH A2693 HOH A2694 HOH A2695 SITE 1 BC3 22 LYS A 19 SER A 40 ALA A 41 TYR A 42 SITE 2 BC3 22 ASP A 43 HIS A 170 ASP A 171 LYS A 260 SITE 3 BC3 22 ARG A 264 AMZ A1308 HOH A2131 HOH A2136 SITE 4 BC3 22 HOH A2429 HOH A2682 HOH A2683 HOH A2686 SITE 5 BC3 22 HOH A2696 HOH A2698 HOH A2699 HOH A2700 SITE 6 BC3 22 HOH A2701 HOH A2710 CRYST1 60.683 61.851 76.893 90.00 90.00 90.00 P 21 21 21 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 0.016479 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016168 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013005 0.00000 HETATM 1 C ACE A 1 -28.111 31.339 14.650 1.00 8.96 C ANISOU 1 C ACE A 1 666 1324 1414 158 -55 14 C HETATM 2 O ACE A 1 -27.814 31.522 15.820 1.00 9.77 O ANISOU 2 O ACE A 1 812 1338 1560 204 62 -63 O HETATM 3 CH3 ACE A 1 -29.325 31.946 14.049 1.00 10.65 C ANISOU 3 CH3 ACE A 1 836 1549 1662 313 17 20 C