PDB Short entry for 2CNU HEADER LIGASE 24-MAY-06 2CNU TITLE ATOMIC RESOLUTION STRUCTURE OF SAICAR-SYNTHASE FROM SACCHAROMYCES TITLE 2 CEREVISIAE COMPLEXED WITH ASPARTIC ACID 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, ACETYLATION, ATP BINDING PROTEIN, PURINE 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 6 13-DEC-23 2CNU 1 REMARK REVDAT 5 24-JUL-19 2CNU 1 REMARK LINK REVDAT 4 04-SEP-13 2CNU 1 KEYWDS REMARK VERSN FORMUL REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 24-FEB-09 2CNU 1 VERSN REVDAT 2 08-JAN-07 2CNU 1 HEADER REVDAT 1 07-JUN-06 2CNU 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. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.999 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) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 125306 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) : 0.134 REMARK 3 R VALUE (WORKING SET) : 0.132 REMARK 3 FREE R VALUE : 0.159 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 6644 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) : 1.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8431 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 452 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2403 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 708 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.50000 REMARK 3 B22 (A**2) : -0.39000 REMARK 3 B33 (A**2) : 0.89000 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): 0.028 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.029 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.019 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.854 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2937 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2701 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4011 ; 2.242 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6383 ; 2.056 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 369 ; 6.686 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 19 ;19.971 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;19.971 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 49 ; 0.147 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3175 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 559 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 9 ; 0.352 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 729 ; 0.352 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2963 ; 0.223 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 1774 ; 0.103 ; 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): 16 ; 0.188 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 66 ; 0.199 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 84 ; 0.216 ; 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): 2197 ; 2.480 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2830 ; 2.988 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1411 ; 4.044 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1155 ; 4.956 ; 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 2CNU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1290028856. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-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) : 0.97 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE 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 : 131992 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 24.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: TRIS-HCL BUFFER, PH 7.5, ASPARTIC REMARK 280 ACID, AMMONIUM SULPHATE, 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 30.51150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.13650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.24850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.13650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.51150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.24850 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: PISA 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 GLN A 167 REMARK 465 GLY A 168 REMARK 465 GLU A 169 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 GLU A 166 C O CG CD OE1 OE2 REMARK 470 HIS A 170 CB CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 271 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 OD2 ASP A 1309 O HOH A 2673 1.81 REMARK 500 NH1 ARG A 17 O HOH A 2059 1.92 REMARK 500 O HOH A 2164 O HOH A 2165 1.95 REMARK 500 NZ LYS A 291 O HOH A 2647 1.96 REMARK 500 CG2 THR A 30 O HOH A 2341 1.99 REMARK 500 OD2 ASP A 78 O HOH A 2262 2.01 REMARK 500 N LEU A 187 OD1 ASP A 1309 2.02 REMARK 500 C SER A 305 O HOH A 2669 2.05 REMARK 500 O HOH A 2577 O HOH A 2651 2.06 REMARK 500 O ASP A 1308 O HOH A 2672 2.08 REMARK 500 OD2 ASP A 259 O HOH A 2578 2.08 REMARK 500 O HOH A 2310 O HOH A 2322 2.10 REMARK 500 NZ LYS A 260 O HOH A 2581 2.15 REMARK 500 O GLU A 234 O HOH A 2534 2.15 REMARK 500 OE2 GLU A 47 O HOH A 2156 2.16 REMARK 500 OD2 ASP A 186 O HOH A 2466 2.16 REMARK 500 OD1 ASN A 270 O HOH A 2598 2.18 REMARK 500 CE LYS A 143 O HOH A 2382 2.19 REMARK 500 O HOH A 2332 O HOH A 2335 2.19 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 O HOH A 2131 O HOH A 2382 4555 2.10 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 66 CD LYS A 66 CE -0.489 REMARK 500 LYS A 66 CD LYS A 66 CE -0.750 REMARK 500 LYS A 197 CD LYS A 197 CE 1.006 REMARK 500 SER A 248 CB SER A 248 OG -0.110 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 38 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 LYS A 66 CG - CD - CE ANGL. DEV. = 36.8 DEGREES REMARK 500 LYS A 66 CD - CE - NZ ANGL. DEV. = -14.9 DEGREES REMARK 500 ARG A 264 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 264 NE - CZ - NH2 ANGL. DEV. = -3.2 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 27 -169.53 -163.07 REMARK 500 ASP A 104 -10.79 73.28 REMARK 500 ASP A 104 -10.79 72.16 REMARK 500 THR A 226 -7.12 -144.64 REMARK 500 ASP A 233 -146.59 61.79 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 A2015 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH A2018 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH A2019 DISTANCE = 7.09 ANGSTROMS REMARK 525 HOH A2034 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A2054 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A2068 DISTANCE = 7.78 ANGSTROMS REMARK 525 HOH A2074 DISTANCE = 6.65 ANGSTROMS REMARK 525 HOH A2075 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A2087 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH A2088 DISTANCE = 6.64 ANGSTROMS REMARK 525 HOH A2093 DISTANCE = 5.93 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1313 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1314 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1315 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1316 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1317 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ASP A 1308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ASP A 1309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ASP A 1310 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 DBREF 2CNU A 1 1 PDB 2CNU 2CNU 1 1 DBREF 2CNU A 2 306 UNP P27616 PUR7_YEAST 2 306 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 ASP A1308 18 HET ASP A1309 9 HET ASP A1310 9 HET SO4 A1311 10 HET SO4 A1312 10 HET SO4 A1313 5 HET SO4 A1314 5 HET SO4 A1315 5 HET SO4 A1316 5 HET SO4 A1317 5 HETNAM ACE ACETYL GROUP HETNAM ASP ASPARTIC ACID HETNAM SO4 SULFATE ION FORMUL 1 ACE C2 H4 O FORMUL 2 ASP 3(C4 H7 N O4) FORMUL 5 SO4 7(O4 S 2-) FORMUL 12 HOH *708(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 ILE A 229 LEU A 231 1 O ILE A 229 N ARG A 73 SHEET 3 AC 4 PHE A 220 ILE A 222 -1 O GLY A 221 N ILE A 230 SHEET 4 AC 4 LYS A 113 LEU A 114 -1 O LYS A 113 N ILE A 222 SHEET 1 AD 4 GLU A 153 PHE A 159 0 SHEET 2 AD 4 VAL A 119 TYR A 124 -1 O ARG A 122 N ILE A 158 SHEET 3 AD 4 ILE A 211 PHE A 218 -1 O ALA A 214 N GLY A 123 SHEET 4 AD 4 SER A 241 ASN A 245 -1 O ARG A 242 N ALA A 214 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 1.28 SITE 1 AC1 8 GLY A 18 LYS A 19 VAL A 20 ARG A 21 SITE 2 AC1 8 HOH A2677 HOH A2678 HOH A2680 HOH A2681 SITE 1 AC2 8 ARG A 122 GLY A 127 SER A 128 ARG A 242 SITE 2 AC2 8 HOH A2547 HOH A2682 HOH A2683 HOH A2685 SITE 1 AC3 12 TYR A 249 ARG A 289 TRP A 304 SER A 305 SITE 2 AC3 12 HOH A2551 HOH A2686 HOH A2687 HOH A2688 SITE 3 AC3 12 HOH A2689 HOH A2690 HOH A2691 HOH A2692 SITE 1 AC4 8 TYR A 42 GLN A 261 ARG A 264 HOH A2567 SITE 2 AC4 8 HOH A2584 HOH A2694 HOH A2695 HOH A2696 SITE 1 AC5 10 ARG A 242 TRP A 244 GLN A 255 SER A 257 SITE 2 AC5 10 ARG A 264 HOH A2363 HOH A2567 HOH A2698 SITE 3 AC5 10 HOH A2699 HOH A2700 SITE 1 AC6 11 LYS A 19 ASP A 43 VAL A 44 ILE A 45 SITE 2 AC6 11 LYS A 83 ASN A 276 HOH A2136 HOH A2144 SITE 3 AC6 11 HOH A2702 HOH A2703 HOH A2704 SITE 1 AC7 6 TRP A 130 HOH A2247 HOH A2402 HOH A2487 SITE 2 AC7 6 HOH A2706 HOH A2707 SITE 1 AC8 9 SER A 40 ALA A 41 TYR A 42 ASP A 43 SITE 2 AC8 9 LYS A 260 ARG A 264 HOH A2581 HOH A2583 SITE 3 AC8 9 HOH A2672 SITE 1 AC9 7 VAL A 183 GLY A 184 GLU A 185 ASP A 186 SITE 2 AC9 7 LEU A 187 HOH A2673 HOH A2675 SITE 1 BC1 6 ARG A 73 LEU A 76 HIS A 110 HOH A2253 SITE 2 BC1 6 HOH A2257 HOH A2351 CRYST1 61.023 62.497 78.273 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 0.016387 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016001 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012776 0.00000 HETATM 1 C ACE A 1 16.007 44.640 -3.973 1.00 15.69 C ANISOU 1 C ACE A 1 2172 1737 2053 -225 405 -17 C HETATM 2 O ACE A 1 16.108 44.240 -2.835 1.00 17.34 O ANISOU 2 O ACE A 1 2544 1797 2248 -450 520 -340 O HETATM 3 CH3 ACE A 1 16.639 45.961 -4.358 1.00 18.46 C ANISOU 3 CH3 ACE A 1 2477 1903 2633 -292 354 15 C