HEADER TRANSFERASE 09-SEP-99 1D09 TITLE ASPARTATE TRANSCARBAMOYLASE COMPLEXED WITH N-PHOSPHONACETYL-L- TITLE 2 ASPARTATE (PALA) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTATE CARBAMOYLTRANSFERASE CATALYTIC CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 EC: 2.1.3.2; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: COMPLEXED WITH N-PHOSPHONACETYL-L-ASPARTATE; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ASPARTATE CARBAMOYLTRANSFERASE REGULATORY CHAIN; COMPND 9 CHAIN: B, D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: NATURAL PYRB PROMOTOR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PEK54, A PLASMID WITH THE PYRBI GENES SOURCE 8 INSERTED INTO PUC119; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 11 ORGANISM_TAXID: 562; SOURCE 12 GENE: PYRI; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 EXPRESSION_SYSTEM_PLASMID: PEK54, A PLASMID WITH THE PYRBI GENES SOURCE 16 INSERTED INTO PUC119 KEYWDS PROTEIN-INHIBITOR COMPLEX ASPARTATE TRANSCARBAMOYLASE ASPARTATE KEYWDS 2 TRANSCARBAMYLASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR L.JIN,B.STEC,W.N.LIPSCOMB,E.R.KANTROWITZ REVDAT 6 13-MAR-24 1D09 1 COMPND SOURCE REMARK REVDAT 5 07-FEB-24 1D09 1 REMARK SEQADV LINK ATOM REVDAT 4 13-JUL-11 1D09 1 VERSN REVDAT 3 24-FEB-09 1D09 1 VERSN REVDAT 2 23-MAY-00 1D09 1 JRNL DBREF REVDAT 1 28-JAN-00 1D09 0 JRNL AUTH L.JIN,B.STEC,W.N.LIPSCOMB,E.R.KANTROWITZ JRNL TITL INSIGHTS INTO THE MECHANISMS OF CATALYSIS AND HETEROTROPIC JRNL TITL 2 REGULATION OF ESCHERICHIA COLI ASPARTATE TRANSCARBAMOYLASE JRNL TITL 3 BASED UPON A STRUCTURE OF THE ENZYME COMPLEXED WITH THE JRNL TITL 4 BISUBSTRATE ANALOGUE N-PHOSPHONACETYL-L-ASPARTATE AT 2.1 A. JRNL REF PROTEINS V. 37 729 1999 JRNL REFN ISSN 0887-3585 JRNL PMID 10651286 JRNL DOI 10.1002/(SICI)1097-0134(19991201)37:4<729::AID-PROT21>3.3.CO JRNL DOI 2 ;2-6 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.KE,W.N.LIPSCOMB,Y.CHO,R.B.HONZATKO REMARK 1 TITL COMPLEX OF N-PHOSPHONACETYL-L-ASPARTATE WITH ASPARTATE REMARK 1 TITL 2 CARBAMOYLTRANSFERASE REMARK 1 REF J.MOL.BIOL. V. 204 725 1988 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 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 : 59066 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 5868 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 : 7232 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 617 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.60 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) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 1.740 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 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 1D09 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-SEP-99. REMARK 100 THE DEPOSITION ID IS D_1000009672. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-DEC-97 REMARK 200 TEMPERATURE (KELVIN) : 295.0 REMARK 200 PH : 5.9 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 : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : UCSD MARK III REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SDMS REMARK 200 DATA SCALING SOFTWARE : SDMS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73113 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 8.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.43700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ENZYME: 12 MG/ML; BUFFER: 50 MM MALEIC REMARK 280 ACID, 3 MM SOLDIUM AZIDE 1 MM N- PHOSPHONACETYL-L-ASPARTATE, PH REMARK 280 5.9, LIQUID DIFFUSION 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: 32370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 105520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -124.0 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 122.24000 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 61.12000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 105.86295 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1360 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1365 LIES ON A SPECIAL POSITION. REMARK 375 HOH B1352 LIES ON A SPECIAL POSITION. REMARK 375 HOH C1337 LIES ON A SPECIAL POSITION. 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 B 1392 O HOH B 1392 3565 1.60 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 TYR A 226 CE2 TYR A 226 CD2 -0.103 REMARK 500 TYR C 98 CE2 TYR C 98 CD2 0.108 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 PRO A 36 C - N - CA ANGL. DEV. = 9.4 DEGREES REMARK 500 LEU A 114 CA - CB - CG ANGL. DEV. = 20.3 DEGREES REMARK 500 LEU A 264 CA - CB - CG ANGL. DEV. = 18.0 DEGREES REMARK 500 PRO B 49 C - N - CA ANGL. DEV. = 10.6 DEGREES REMARK 500 ASP C 14 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 LEU C 38 CA - CB - CG ANGL. DEV. = 15.6 DEGREES REMARK 500 PRO C 266 C - N - CA ANGL. DEV. = 10.7 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 GLN A 6 19.91 48.21 REMARK 500 ILE A 9 77.47 -110.75 REMARK 500 PRO A 36 -13.23 -46.50 REMARK 500 HIS A 41 -5.33 81.62 REMARK 500 SER A 52 139.84 -177.73 REMARK 500 ASN A 132 -91.68 -81.65 REMARK 500 HIS A 134 64.86 -156.39 REMARK 500 VAL A 218 -7.31 -147.47 REMARK 500 GLN A 231 68.23 -56.59 REMARK 500 SER A 252 -3.53 -54.74 REMARK 500 HIS A 265 130.12 179.81 REMARK 500 LEU A 267 158.78 63.84 REMARK 500 VAL A 270 -88.88 -120.44 REMARK 500 VAL A 309 125.81 -39.75 REMARK 500 THR B 2 -85.12 -37.23 REMARK 500 HIS B 3 -165.38 -165.45 REMARK 500 ASN B 5 80.09 139.43 REMARK 500 LYS B 6 119.43 65.22 REMARK 500 GLN B 8 146.05 -171.63 REMARK 500 GLU B 10 60.35 -171.16 REMARK 500 LYS B 13 -85.94 -54.50 REMARK 500 HIS B 20 43.03 73.55 REMARK 500 ILE B 25 -75.50 -117.10 REMARK 500 LEU B 35 11.14 -63.79 REMARK 500 ASN B 47 -10.83 58.02 REMARK 500 LEU B 48 107.76 -54.90 REMARK 500 PRO B 49 138.21 -37.88 REMARK 500 SER B 50 56.56 -153.71 REMARK 500 ARG B 55 60.07 -103.01 REMARK 500 ASN B 63 -33.66 71.44 REMARK 500 GLN B 73 -5.20 -56.68 REMARK 500 TYR B 77 -50.34 -128.30 REMARK 500 TYR B 89 -25.60 66.73 REMARK 500 VAL B 91 98.00 -66.74 REMARK 500 LYS B 94 103.82 -165.67 REMARK 500 ASN B 105 8.83 43.24 REMARK 500 ARG B 130 -81.27 -54.54 REMARK 500 ALA B 131 -78.27 -149.01 REMARK 500 ALA B 152 -154.67 -153.31 REMARK 500 GLN C 6 15.54 58.14 REMARK 500 HIS C 41 4.05 81.48 REMARK 500 ASN C 132 -89.66 -91.42 REMARK 500 HIS C 134 67.34 -165.81 REMARK 500 ASN C 154 17.10 53.59 REMARK 500 GLN C 231 73.86 -65.91 REMARK 500 LEU C 267 159.90 73.53 REMARK 500 VAL C 270 -80.07 -112.55 REMARK 500 THR D 2 -154.38 -170.48 REMARK 500 ASP D 4 170.81 -56.51 REMARK 500 LEU D 7 -92.50 -58.98 REMARK 500 REMARK 500 THIS ENTRY HAS 70 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 A 285 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 B1313 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 109 SG REMARK 620 2 CYS B 114 SG 111.6 REMARK 620 3 CYS B 138 SG 106.8 104.2 REMARK 620 4 CYS B 141 SG 105.1 117.9 110.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D1314 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 109 SG REMARK 620 2 CYS D 114 SG 121.4 REMARK 620 3 CYS D 138 SG 111.5 104.4 REMARK 620 4 CYS D 141 SG 103.1 110.8 104.6 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 1313 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 1314 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PAL A 1311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PAL C 1312 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8ATC RELATED DB: PDB REMARK 900 8ATC IS A LOWER RESOLUTION STRUCTURE DBREF 1D09 A 1 310 UNP P0A786 PYRB_ECOLI 2 311 DBREF 1D09 C 1 310 UNP P0A786 PYRB_ECOLI 2 311 DBREF 1D09 B 1 153 UNP P0A7F3 PYRI_ECOLI 1 153 DBREF 1D09 D 1 153 UNP P0A7F3 PYRI_ECOLI 1 153 SEQADV 1D09 GLN A 147 UNP P0A786 GLU 148 CONFLICT SEQADV 1D09 GLN A 149 UNP P0A786 GLU 150 CONFLICT SEQADV 1D09 GLN A 108 UNP P0A786 GLU 197 CONFLICT SEQADV 1D09 GLN C 147 UNP P0A786 GLU 148 CONFLICT SEQADV 1D09 GLN C 149 UNP P0A786 GLU 150 CONFLICT SEQADV 1D09 GLN C 108 UNP P0A786 GLU 197 CONFLICT 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 GLN 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 GLU 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 GLN 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 GLU 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 PAL A1311 16 HET ZN B1313 1 HET PAL C1312 16 HET ZN D1314 1 HETNAM PAL N-(PHOSPHONACETYL)-L-ASPARTIC ACID HETNAM ZN ZINC ION FORMUL 5 PAL 2(C6 H10 N O8 P) FORMUL 6 ZN 2(ZN 2+) FORMUL 9 HOH *617(H2 O) HELIX 1 1 SER A 16 ASN A 33 1 18 HELIX 2 2 THR A 53 LEU A 66 1 14 HELIX 3 3 ASP A 75 ASN A 78 5 4 HELIX 4 4 THR A 79 LYS A 84 1 6 HELIX 5 5 THR A 87 SER A 96 1 10 HELIX 6 6 GLY A 110 ALA A 115 1 6 HELIX 7 7 HIS A 134 GLY A 150 1 17 HELIX 8 8 GLY A 166 ALA A 177 1 12 HELIX 9 9 PRO A 189 ALA A 193 5 5 HELIX 10 10 PRO A 195 LYS A 205 1 11 HELIX 11 11 SER A 214 VAL A 218 5 5 HELIX 12 12 ASP A 236 VAL A 243 5 8 HELIX 13 13 ARG A 250 LEU A 254 5 5 HELIX 14 14 ALA A 274 THR A 280 5 7 HELIX 15 15 TRP A 284 ASN A 291 1 8 HELIX 16 16 ASN A 291 ASN A 305 1 15 HELIX 17 17 ILE B 25 PHE B 33 1 9 HELIX 18 18 SER B 67 GLN B 73 1 7 HELIX 19 19 ILE B 115 ALA B 118 5 4 HELIX 20 20 SER C 11 LEU C 15 5 5 HELIX 21 21 SER C 16 LYS C 31 1 16 HELIX 22 22 THR C 53 LEU C 66 1 14 HELIX 23 23 ASP C 75 ASN C 78 5 4 HELIX 24 24 THR C 79 LYS C 84 1 6 HELIX 25 25 THR C 87 SER C 96 1 10 HELIX 26 26 GLY C 110 SER C 119 1 10 HELIX 27 27 HIS C 134 GLY C 150 1 17 HELIX 28 28 GLY C 166 LEU C 176 1 11 HELIX 29 29 PRO C 189 ALA C 193 5 5 HELIX 30 30 PRO C 195 GLY C 206 1 12 HELIX 31 31 ASP C 236 LYS C 244 5 9 HELIX 32 32 ARG C 250 HIS C 255 5 6 HELIX 33 33 TRP C 284 ASN C 305 1 22 HELIX 34 34 ILE D 25 LEU D 32 1 8 HELIX 35 35 GLY D 51 MET D 53 5 3 HELIX 36 36 ASP D 69 ALA D 78 1 10 HELIX 37 37 HIS D 147 LEU D 151 1 5 SHEET 1 A 4 SER A 69 PHE A 73 0 SHEET 2 A 4 VAL A 43 PHE A 48 1 O ILE A 44 N VAL A 71 SHEET 3 A 4 ALA A 101 HIS A 106 1 O ALA A 101 N ALA A 45 SHEET 4 A 4 VAL A 124 ASP A 129 1 N LEU A 125 O ILE A 102 SHEET 1 B 5 ALA A 208 LEU A 211 0 SHEET 2 B 5 ARG A 183 ILE A 187 1 N PHE A 184 O ALA A 208 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 ILE A 224 N ALA A 158 SHEET 5 B 5 LYS A 262 LEU A 264 1 O LYS A 262 N LEU A 225 SHEET 1 C10 GLU B 90 SER B 95 0 SHEET 2 C10 THR B 82 ASP B 87 -1 N VAL B 83 O SER B 95 SHEET 3 C10 GLY B 15 ILE B 21 -1 N GLY B 15 O ILE B 86 SHEET 4 C10 ASP B 57 GLU B 62 -1 N ASP B 57 O ILE B 21 SHEET 5 C10 ILE B 42 GLY B 45 -1 N THR B 43 O LYS B 60 SHEET 6 C10 ILE D 42 SER D 50 0 SHEET 7 C10 GLY D 54 GLU D 62 -1 O GLY D 54 N SER D 50 SHEET 8 C10 GLY D 15 ILE D 21 -1 N THR D 16 O ILE D 61 SHEET 9 C10 THR D 82 ILE D 86 -1 N THR D 82 O ASP C 19 SHEET 10 C10 VAL D 91 SER D 95 -1 N VAL D 92 O ARG D 85 SHEET 1 D 4 ARG B 102 ASP B 104 0 SHEET 2 D 4 SER B 124 LYS B 129 -1 O PHE B 125 N ILE B 103 SHEET 3 D 4 ILE B 134 CYS B 138 -1 N ALA B 135 O ARG B 128 SHEET 4 D 4 GLU B 144 SER B 146 -1 N PHE B 145 O LEU B 136 SHEET 1 E 2 LEU B 107 VAL B 108 0 SHEET 2 E 2 LEU B 151 ALA B 152 -1 O LEU B 151 N VAL B 108 SHEET 1 F 4 SER C 69 PHE C 73 0 SHEET 2 F 4 VAL C 43 PHE C 48 1 O ILE C 44 N VAL C 71 SHEET 3 F 4 ALA C 101 HIS C 106 1 O ALA C 101 N ALA C 45 SHEET 4 F 4 VAL C 124 ASP C 129 1 N LEU C 125 O ILE C 102 SHEET 1 G 5 ALA C 208 LEU C 211 0 SHEET 2 G 5 ARG C 183 ILE C 187 1 N PHE C 184 O ALA C 208 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 ILE C 224 N ALA C 158 SHEET 5 G 5 LYS C 262 LEU C 264 1 O LYS C 262 N LEU C 225 SHEET 1 H 4 ARG D 102 ASP D 104 0 SHEET 2 H 4 SER D 124 LYS D 129 -1 N PHE D 125 O ILE D 103 SHEET 3 H 4 ILE D 134 CYS D 138 -1 N ALA D 135 O 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 B1313 1555 1555 2.29 LINK SG CYS B 114 ZN ZN B1313 1555 1555 2.33 LINK SG CYS B 138 ZN ZN B1313 1555 1555 2.35 LINK SG CYS B 141 ZN ZN B1313 1555 1555 2.22 LINK SG CYS D 109 ZN ZN D1314 1555 1555 2.35 LINK SG CYS D 114 ZN ZN D1314 1555 1555 2.27 LINK SG CYS D 138 ZN ZN D1314 1555 1555 2.24 LINK SG CYS D 141 ZN ZN D1314 1555 1555 2.29 CISPEP 1 LEU A 267 PRO A 268 0 1.13 CISPEP 2 LEU C 267 PRO C 268 0 7.14 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 15 SER A 52 THR A 53 ARG A 54 THR A 55 SITE 2 AC3 15 SER A 80 LYS A 84 ARG A 105 HIS A 134 SITE 3 AC3 15 GLN A 137 ARG A 167 ARG A 229 GLN A 231 SITE 4 AC3 15 LEU A 267 HOH A1320 HOH A1375 SITE 1 AC4 16 SER C 52 THR C 53 ARG C 54 THR C 55 SITE 2 AC4 16 SER C 80 LYS C 84 ARG C 105 HIS C 134 SITE 3 AC4 16 ARG C 167 THR C 168 ARG C 229 LEU C 267 SITE 4 AC4 16 PRO C 268 HOH C1495 HOH C1496 HOH C1558 CRYST1 122.240 122.240 156.360 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 0.008181 0.004723 0.000000 0.00000 SCALE2 0.000000 0.009446 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006395 0.00000