HEADER TRANSFERASE 05-APR-05 1ZA1 TITLE STRUCTURE OF WILD-TYPE E. COLI ASPARTATE TRANSCARBAMOYLASE IN THE TITLE 2 PRESENCE OF CTP AT 2.20 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTATE CARBAMOYLTRANSFERASE CATALYTIC CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: ASPARTATE TRANSCARBAMYLASE, ATCASE; COMPND 5 EC: 2.1.3.2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ASPARTATE CARBAMOYLTRANSFERASE REGULATORY CHAIN; COMPND 9 CHAIN: B, D; COMPND 10 EC: 2.1.3.2; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: PYRB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: EK1104; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PEK54; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 12 ORGANISM_TAXID: 562; SOURCE 13 GENE: PYRI; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: EK1104; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PEK54 KEYWDS ORDERED SUBSTRATE BINDING, COOPERATIVITY, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.WANG,K.A.STIEGLITZ,J.P.CARDIA,E.R.KANTROWITZ REVDAT 6 23-AUG-23 1ZA1 1 REMARK SEQADV LINK REVDAT 5 11-OCT-17 1ZA1 1 REMARK REVDAT 4 13-JUL-11 1ZA1 1 VERSN REVDAT 3 24-FEB-09 1ZA1 1 VERSN REVDAT 2 13-DEC-05 1ZA1 1 JRNL REVDAT 1 07-JUN-05 1ZA1 0 JRNL AUTH J.WANG,K.A.STIEGLITZ,J.P.CARDIA,E.R.KANTROWITZ JRNL TITL STRUCTURAL BASIS FOR ORDERED SUBSTRATE BINDING AND JRNL TITL 2 COOPERATIVITY IN ASPARTATE TRANSCARBAMOYLASE JRNL REF PROC.NATL.ACAD.SCI.USA V. 102 8881 2005 JRNL REFN ISSN 0027-8424 JRNL PMID 15951418 JRNL DOI 10.1073/PNAS.0503742102 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 74750 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 SET) : 0.205 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 7475 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7215 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 603 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1ZA1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-APR-05. REMARK 100 THE DEPOSITION ID IS D_1000032486. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-MAY-04 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS REMARK 200 DATA SCALING SOFTWARE : R-AXIS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 80374 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 5.350 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.23 REMARK 200 R MERGE FOR SHELL (I) : 0.44400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1NBE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40 MM CITRIC ACID, 3 MM SODIUM AZIDE, REMARK 280 1MM 2-MERCAPTOETHANOL, 1MM CTP, 0.2MM EDTA, PH 5.7, REMARK 280 MICRODIALYSIS, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-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 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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 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: DODECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 34900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 103040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -93.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 120.29400 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 60.14700 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 104.17766 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 B 1 REMARK 465 MET D 1 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 HOH B 906 O HOH B 993 2.19 REMARK 500 O1A CTP D 902 O HOH D 906 2.19 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 LEU A 140 CA - CB - CG ANGL. DEV. = 20.3 DEGREES REMARK 500 ARG A 269 N - CA - C ANGL. DEV. = -16.7 DEGREES REMARK 500 LEU C 140 CA - CB - CG ANGL. DEV. = 23.0 DEGREES REMARK 500 PRO D 110 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 PRO D 120 C - N - CA ANGL. DEV. = 9.2 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 SER A 52 80.32 -169.77 REMARK 500 ASP A 75 112.72 12.59 REMARK 500 ASN A 78 -75.78 -165.73 REMARK 500 THR A 79 125.22 58.55 REMARK 500 SER A 80 31.67 -86.41 REMARK 500 LEU A 81 93.24 -171.14 REMARK 500 LYS A 83 -61.86 -168.54 REMARK 500 ASN A 132 -90.69 -93.78 REMARK 500 HIS A 134 59.27 -157.28 REMARK 500 PRO A 195 150.20 -49.44 REMARK 500 LEU A 267 149.80 69.97 REMARK 500 VAL A 270 -46.64 144.49 REMARK 500 TRP A 284 19.21 -143.93 REMARK 500 HIS B 3 77.13 -101.79 REMARK 500 ASN B 5 -54.00 -139.59 REMARK 500 LYS B 6 29.16 -173.84 REMARK 500 LEU B 7 -141.25 -157.88 REMARK 500 PRO B 22 -172.95 -60.41 REMARK 500 GLN B 24 53.87 29.21 REMARK 500 GLU B 52 31.99 -78.68 REMARK 500 MET B 53 -57.25 177.55 REMARK 500 LYS B 56 168.45 177.17 REMARK 500 LYS B 60 124.24 -175.60 REMARK 500 PRO B 79 -71.39 -47.81 REMARK 500 ALA B 81 -149.88 -172.22 REMARK 500 THR B 82 127.01 -175.71 REMARK 500 ASN B 88 50.53 72.03 REMARK 500 TYR B 89 4.20 47.37 REMARK 500 VAL B 91 107.35 -54.45 REMARK 500 ASN B 105 -29.29 49.62 REMARK 500 PRO B 120 47.08 -70.06 REMARK 500 ARG B 128 92.99 -164.29 REMARK 500 ASN B 132 87.77 52.82 REMARK 500 ASP B 133 46.62 161.85 REMARK 500 ILE B 134 126.91 -31.46 REMARK 500 GLN C 6 19.58 55.53 REMARK 500 HIS C 41 -6.21 83.23 REMARK 500 SER C 52 83.56 -160.61 REMARK 500 ASP C 75 178.63 46.00 REMARK 500 LYS C 84 84.36 179.54 REMARK 500 ASN C 132 -82.93 -92.90 REMARK 500 HIS C 134 63.99 -159.52 REMARK 500 GLN C 231 75.99 -68.06 REMARK 500 LYS C 244 -39.12 -39.92 REMARK 500 PHE C 247 17.56 -143.47 REMARK 500 LEU C 267 155.75 69.57 REMARK 500 VAL C 270 -58.76 173.41 REMARK 500 VAL C 309 37.03 -80.34 REMARK 500 LYS D 6 -68.62 -108.57 REMARK 500 LYS D 13 -84.30 -68.40 REMARK 500 REMARK 500 THIS ENTRY HAS 61 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR D 140 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL 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 ZN B 154 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 109 SG REMARK 620 2 CYS B 114 SG 112.6 REMARK 620 3 CYS B 138 SG 116.5 103.5 REMARK 620 4 CYS B 141 SG 101.1 110.0 113.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 154 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 109 SG REMARK 620 2 CYS D 114 SG 114.6 REMARK 620 3 CYS D 138 SG 118.4 104.8 REMARK 620 4 CYS D 141 SG 102.6 109.2 106.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CTP B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CTP D 902 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NBE RELATED DB: PDB REMARK 900 THE REGULATORY CHAIN MUTANT T82A OF E. COLI ASPARTATE REMARK 900 TRANSCARBAMOYLASE REMARK 900 RELATED ID: 1ZA2 RELATED DB: PDB REMARK 900 STRUCTURE OF WILD-TYPE E. COLI ASPARTATE TRANSCARBAMOYLASE IN THE REMARK 900 PRESENCE OF CTP, CARBAMOYL PHOSPHATE AT 2.50 A RESOLUTION DBREF 1ZA1 A 1 310 UNP P00479 PYRB_ECOLI 1 310 DBREF 1ZA1 C 1 310 UNP P00479 PYRB_ECOLI 1 310 DBREF 1ZA1 B 2 153 UNP P00478 PYRI_ECOLI 1 152 DBREF 1ZA1 D 2 153 UNP P00478 PYRI_ECOLI 1 152 SEQADV 1ZA1 MET B 1 UNP P00478 INITIATING METHIONINE SEQADV 1ZA1 MET D 1 UNP P00478 INITIATING METHIONINE SEQRES 1 A 310 ALA ASN PRO LEU TYR GLN LYS HIS ILE ILE SER ILE ASN SEQRES 2 A 310 ASP LEU SER ARG ASP ASP LEU ASN LEU VAL LEU ALA THR SEQRES 3 A 310 ALA ALA LYS LEU LYS ALA ASN PRO GLN PRO GLU LEU LEU SEQRES 4 A 310 LYS HIS LYS VAL ILE ALA SER CYS PHE PHE GLU ALA SER SEQRES 5 A 310 THR ARG THR ARG LEU SER PHE GLU THR SER MET HIS ARG SEQRES 6 A 310 LEU GLY ALA SER VAL VAL GLY PHE SER ASP SER ALA ASN SEQRES 7 A 310 THR SER LEU GLY LYS LYS GLY GLU THR LEU ALA ASP THR SEQRES 8 A 310 ILE SER VAL ILE SER THR TYR VAL ASP ALA ILE VAL MET SEQRES 9 A 310 ARG HIS PRO GLN GLU GLY ALA ALA ARG LEU ALA THR GLU SEQRES 10 A 310 PHE SER GLY ASN VAL PRO VAL LEU ASN ALA GLY ASP GLY SEQRES 11 A 310 SER ASN GLN HIS PRO THR GLN THR LEU LEU ASP LEU PHE SEQRES 12 A 310 THR ILE GLN GLU THR GLN GLY ARG LEU ASP ASN LEU HIS SEQRES 13 A 310 VAL ALA MET VAL GLY ASP LEU LYS TYR GLY ARG THR VAL SEQRES 14 A 310 HIS SER LEU THR GLN ALA LEU ALA LYS PHE ASP GLY ASN SEQRES 15 A 310 ARG PHE TYR PHE ILE ALA PRO ASP ALA LEU ALA MET PRO SEQRES 16 A 310 GLN TYR ILE LEU ASP MET LEU ASP GLU LYS GLY ILE ALA SEQRES 17 A 310 TRP SER LEU HIS SER SER ILE GLU GLU VAL MET ALA GLU SEQRES 18 A 310 VAL ASP ILE LEU TYR MET THR ARG VAL GLN LYS GLU ARG SEQRES 19 A 310 LEU ASP PRO SER GLU TYR ALA ASN VAL LYS ALA GLN PHE SEQRES 20 A 310 VAL LEU ARG ALA SER ASP LEU HIS ASN ALA LYS ALA ASN SEQRES 21 A 310 MET LYS VAL LEU HIS PRO LEU PRO ARG VAL ASP GLU ILE SEQRES 22 A 310 ALA THR ASP VAL ASP LYS THR PRO HIS ALA TRP TYR PHE SEQRES 23 A 310 GLN GLN ALA GLY ASN GLY ILE PHE ALA ARG GLN ALA LEU SEQRES 24 A 310 LEU ALA LEU VAL LEU ASN ARG ASP LEU VAL LEU SEQRES 1 B 153 MET THR HIS ASP ASN LYS LEU GLN VAL GLU ALA ILE LYS SEQRES 2 B 153 ARG GLY THR VAL ILE ASP HIS ILE PRO ALA GLN ILE GLY SEQRES 3 B 153 PHE LYS LEU LEU SER LEU PHE LYS LEU THR GLU THR ASP SEQRES 4 B 153 GLN ARG ILE THR ILE GLY LEU ASN LEU PRO SER GLY GLU SEQRES 5 B 153 MET GLY ARG LYS ASP LEU ILE LYS ILE GLU ASN THR PHE SEQRES 6 B 153 LEU SER GLU ASP GLN VAL ASP GLN LEU ALA LEU TYR ALA SEQRES 7 B 153 PRO GLN ALA THR VAL ASN ARG ILE ASP ASN TYR GLU VAL SEQRES 8 B 153 VAL GLY LYS SER ARG PRO SER LEU PRO GLU ARG ILE ASP SEQRES 9 B 153 ASN VAL LEU VAL CYS PRO ASN SER ASN CYS ILE SER HIS SEQRES 10 B 153 ALA GLU PRO VAL SER SER SER PHE ALA VAL ARG LYS ARG SEQRES 11 B 153 ALA ASN ASP ILE ALA LEU LYS CYS LYS TYR CYS GLU LYS SEQRES 12 B 153 GLU PHE SER HIS ASN VAL VAL LEU ALA ASN SEQRES 1 C 310 ALA ASN PRO LEU TYR GLN LYS HIS ILE ILE SER ILE ASN SEQRES 2 C 310 ASP LEU SER ARG ASP ASP LEU ASN LEU VAL LEU ALA THR SEQRES 3 C 310 ALA ALA LYS LEU LYS ALA ASN PRO GLN PRO GLU LEU LEU SEQRES 4 C 310 LYS HIS LYS VAL ILE ALA SER CYS PHE PHE GLU ALA SER SEQRES 5 C 310 THR ARG THR ARG LEU SER PHE GLU THR SER MET HIS ARG SEQRES 6 C 310 LEU GLY ALA SER VAL VAL GLY PHE SER ASP SER ALA ASN SEQRES 7 C 310 THR SER LEU GLY LYS LYS GLY GLU THR LEU ALA ASP THR SEQRES 8 C 310 ILE SER VAL ILE SER THR TYR VAL ASP ALA ILE VAL MET SEQRES 9 C 310 ARG HIS PRO GLN GLU GLY ALA ALA ARG LEU ALA THR GLU SEQRES 10 C 310 PHE SER GLY ASN VAL PRO VAL LEU ASN ALA GLY ASP GLY SEQRES 11 C 310 SER ASN GLN HIS PRO THR GLN THR LEU LEU ASP LEU PHE SEQRES 12 C 310 THR ILE GLN GLU THR GLN GLY ARG LEU ASP ASN LEU HIS SEQRES 13 C 310 VAL ALA MET VAL GLY ASP LEU LYS TYR GLY ARG THR VAL SEQRES 14 C 310 HIS SER LEU THR GLN ALA LEU ALA LYS PHE ASP GLY ASN SEQRES 15 C 310 ARG PHE TYR PHE ILE ALA PRO ASP ALA LEU ALA MET PRO SEQRES 16 C 310 GLN TYR ILE LEU ASP MET LEU ASP GLU LYS GLY ILE ALA SEQRES 17 C 310 TRP SER LEU HIS SER SER ILE GLU GLU VAL MET ALA GLU SEQRES 18 C 310 VAL ASP ILE LEU TYR MET THR ARG VAL GLN LYS GLU ARG SEQRES 19 C 310 LEU ASP PRO SER GLU TYR ALA ASN VAL LYS ALA GLN PHE SEQRES 20 C 310 VAL LEU ARG ALA SER ASP LEU HIS ASN ALA LYS ALA ASN SEQRES 21 C 310 MET LYS VAL LEU HIS PRO LEU PRO ARG VAL ASP GLU ILE SEQRES 22 C 310 ALA THR ASP VAL ASP LYS THR PRO HIS ALA TRP TYR PHE SEQRES 23 C 310 GLN GLN ALA GLY ASN GLY ILE PHE ALA ARG GLN ALA LEU SEQRES 24 C 310 LEU ALA LEU VAL LEU ASN ARG ASP LEU VAL LEU SEQRES 1 D 153 MET THR HIS ASP ASN LYS LEU GLN VAL GLU ALA ILE LYS SEQRES 2 D 153 ARG GLY THR VAL ILE ASP HIS ILE PRO ALA GLN ILE GLY SEQRES 3 D 153 PHE LYS LEU LEU SER LEU PHE LYS LEU THR GLU THR ASP SEQRES 4 D 153 GLN ARG ILE THR ILE GLY LEU ASN LEU PRO SER GLY GLU SEQRES 5 D 153 MET GLY ARG LYS ASP LEU ILE LYS ILE GLU ASN THR PHE SEQRES 6 D 153 LEU SER GLU ASP GLN VAL ASP GLN LEU ALA LEU TYR ALA SEQRES 7 D 153 PRO GLN ALA THR VAL ASN ARG ILE ASP ASN TYR GLU VAL SEQRES 8 D 153 VAL GLY LYS SER ARG PRO SER LEU PRO GLU ARG ILE ASP SEQRES 9 D 153 ASN VAL LEU VAL CYS PRO ASN SER ASN CYS ILE SER HIS SEQRES 10 D 153 ALA GLU PRO VAL SER SER SER PHE ALA VAL ARG LYS ARG SEQRES 11 D 153 ALA ASN ASP ILE ALA LEU LYS CYS LYS TYR CYS GLU LYS SEQRES 12 D 153 GLU PHE SER HIS ASN VAL VAL LEU ALA ASN HET ZN B 154 1 HET CTP B 901 29 HET ZN D 154 1 HET CTP D 902 29 HETNAM ZN ZINC ION HETNAM CTP CYTIDINE-5'-TRIPHOSPHATE FORMUL 5 ZN 2(ZN 2+) FORMUL 6 CTP 2(C9 H16 N3 O14 P3) FORMUL 9 HOH *603(H2 O) HELIX 1 1 SER A 11 LEU A 15 5 5 HELIX 2 2 SER A 16 ASN A 33 1 18 HELIX 3 3 SER A 52 LEU A 66 1 15 HELIX 4 4 THR A 87 SER A 96 1 10 HELIX 5 5 GLY A 110 GLU A 117 1 8 HELIX 6 6 HIS A 134 GLY A 150 1 17 HELIX 7 7 GLY A 166 ALA A 177 1 12 HELIX 8 8 PRO A 189 ALA A 193 5 5 HELIX 9 9 PRO A 195 LYS A 205 1 11 HELIX 10 10 SER A 214 VAL A 222 5 9 HELIX 11 11 ASP A 236 LYS A 244 1 9 HELIX 12 12 ALA A 245 VAL A 248 5 4 HELIX 13 13 ARG A 250 HIS A 255 5 6 HELIX 14 14 TRP A 284 ASN A 305 1 22 HELIX 15 15 ILE B 25 PHE B 33 1 9 HELIX 16 16 ASP B 72 LEU B 76 5 5 HELIX 17 17 HIS B 147 ASN B 153 1 7 HELIX 18 18 SER C 11 LEU C 15 5 5 HELIX 19 19 SER C 16 ASN C 33 1 18 HELIX 20 20 SER C 52 LEU C 66 1 15 HELIX 21 21 THR C 87 SER C 96 1 10 HELIX 22 22 GLY C 110 GLU C 117 1 8 HELIX 23 23 HIS C 134 GLY C 150 1 17 HELIX 24 24 GLY C 166 ALA C 177 1 12 HELIX 25 25 PRO C 189 ALA C 193 5 5 HELIX 26 26 PRO C 195 LYS C 205 1 11 HELIX 27 27 SER C 214 VAL C 222 5 9 HELIX 28 28 GLN C 231 LEU C 235 5 5 HELIX 29 29 ASP C 236 ALA C 245 1 10 HELIX 30 30 GLN C 246 VAL C 248 5 3 HELIX 31 31 ARG C 250 HIS C 255 5 6 HELIX 32 32 ALA C 274 THR C 280 5 7 HELIX 33 33 TRP C 284 ASN C 305 1 22 HELIX 34 34 ILE D 25 PHE D 33 1 9 HELIX 35 35 SER D 67 GLN D 73 1 7 HELIX 36 36 HIS D 147 ALA D 152 1 6 SHEET 1 A 4 SER A 69 PHE A 73 0 SHEET 2 A 4 VAL A 43 PHE A 48 1 N ILE A 44 O SER A 69 SHEET 3 A 4 ALA A 101 HIS A 106 1 O VAL A 103 N ALA A 45 SHEET 4 A 4 VAL A 124 ASP A 129 1 O ALA A 127 N MET A 104 SHEET 1 B 5 TRP A 209 HIS A 212 0 SHEET 2 B 5 ARG A 183 ILE A 187 1 N PHE A 186 O SER A 210 SHEET 3 B 5 HIS A 156 VAL A 160 1 N VAL A 157 O ARG A 183 SHEET 4 B 5 ILE A 224 MET A 227 1 O TYR A 226 N ALA A 158 SHEET 5 B 5 LYS A 262 LEU A 264 1 O LEU A 264 N MET A 227 SHEET 1 C 4 ILE B 61 GLU B 62 0 SHEET 2 C 4 GLY B 15 ASP B 19 -1 N THR B 16 O ILE B 61 SHEET 3 C 4 THR B 82 ASP B 87 -1 O ILE B 86 N GLY B 15 SHEET 4 C 4 GLU B 90 LYS B 94 -1 O VAL B 92 N ARG B 85 SHEET 1 D 7 LYS B 56 LEU B 58 0 SHEET 2 D 7 ILE B 42 LEU B 48 -1 N GLY B 45 O LEU B 58 SHEET 3 D 7 ILE D 42 SER D 50 -1 O LEU D 46 N ILE B 42 SHEET 4 D 7 GLY D 54 GLU D 62 -1 O LEU D 58 N GLY D 45 SHEET 5 D 7 GLY D 15 ILE D 21 -1 N ILE D 21 O ASP D 57 SHEET 6 D 7 THR D 82 ASP D 87 -1 O THR D 82 N ASP D 19 SHEET 7 D 7 GLU D 90 SER D 95 -1 O GLU D 90 N ASP D 87 SHEET 1 E 4 ARG B 102 ASP B 104 0 SHEET 2 E 4 SER B 124 ARG B 128 -1 O PHE B 125 N ILE B 103 SHEET 3 E 4 ALA B 135 CYS B 138 -1 O ALA B 135 N ARG B 128 SHEET 4 E 4 GLU B 144 SER B 146 -1 O PHE B 145 N LEU B 136 SHEET 1 F 4 SER C 69 SER C 74 0 SHEET 2 F 4 VAL C 43 PHE C 48 1 N PHE C 48 O PHE C 73 SHEET 3 F 4 ALA C 101 HIS C 106 1 O VAL C 103 N ALA C 45 SHEET 4 F 4 VAL C 124 ASP C 129 1 O ALA C 127 N MET C 104 SHEET 1 G 5 TRP C 209 LEU C 211 0 SHEET 2 G 5 ARG C 183 ILE C 187 1 N PHE C 186 O SER C 210 SHEET 3 G 5 HIS C 156 VAL C 160 1 N VAL C 157 O ARG C 183 SHEET 4 G 5 ILE C 224 MET C 227 1 O TYR C 226 N ALA C 158 SHEET 5 G 5 LYS C 262 LEU C 264 1 O LEU C 264 N MET C 227 SHEET 1 H 4 ARG D 102 ASP D 104 0 SHEET 2 H 4 SER D 124 ARG D 130 -1 O PHE D 125 N ILE D 103 SHEET 3 H 4 ASP D 133 CYS D 138 -1 O ALA D 135 N ARG D 128 SHEET 4 H 4 GLU D 144 SER D 146 -1 O PHE D 145 N LEU D 136 LINK SG CYS B 109 ZN ZN B 154 1555 1555 2.49 LINK SG CYS B 114 ZN ZN B 154 1555 1555 2.49 LINK SG CYS B 138 ZN ZN B 154 1555 1555 2.54 LINK SG CYS B 141 ZN ZN B 154 1555 1555 2.47 LINK SG CYS D 109 ZN ZN D 154 1555 1555 2.37 LINK SG CYS D 114 ZN ZN D 154 1555 1555 2.35 LINK SG CYS D 138 ZN ZN D 154 1555 1555 2.36 LINK SG CYS D 141 ZN ZN D 154 1555 1555 2.43 CISPEP 1 LEU A 267 PRO A 268 0 0.15 CISPEP 2 LEU C 267 PRO C 268 0 0.03 SITE 1 AC1 4 CYS B 109 CYS B 114 CYS B 138 CYS B 141 SITE 1 AC2 4 CYS D 109 CYS D 114 CYS D 138 CYS D 141 SITE 1 AC3 11 THR B 2 ILE B 12 ASP B 19 HIS B 20 SITE 2 AC3 11 LYS B 60 ILE B 86 TYR B 89 LYS B 94 SITE 3 AC3 11 HOH B 907 HOH B 910 HOH B 979 SITE 1 AC4 15 THR D 2 ALA D 11 ILE D 12 VAL D 17 SITE 2 AC4 15 ASP D 19 HIS D 20 LEU D 58 LYS D 60 SITE 3 AC4 15 THR D 82 ASN D 84 ILE D 86 TYR D 89 SITE 4 AC4 15 VAL D 91 LYS D 94 HOH D 906 CRYST1 120.294 120.294 142.555 90.00 90.00 120.00 P 3 2 1 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 0.008313 0.004799 0.000000 0.00000 SCALE2 0.000000 0.009599 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007015 0.00000