HEADER BIOSYNTHETIC PROTEIN 22-AUG-18 6HG3 TITLE HYBRID DIHYDROOROTASE DOMAIN OF HUMAN CAD WITH E. COLI FLEXIBLE LOOP, TITLE 2 BOUND TO DIHYDROOROTATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAD PROTEIN; COMPND 3 CHAIN: A; COMPND 4 EC: 6.3.5.5,2.1.3.2,3.5.2.3; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 OTHER_DETAILS: THE REGION NATTN IS NOT OBSERVED IN THE ELECTRON COMPND 8 DENSITY MAP AND IS MISSING FROM THE MODEL SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CAD; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL: HEK293 GNTI; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: POPIN-M KEYWDS DE NOVO PYRIMIDINE BIOSYNTHESIS, CAD, TIM-BARREL, CARBOXYLATED KEYWDS 2 LYSINE, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.RAMON-MAIQUES,F.DEL CANO-OCHOA REVDAT 4 17-JAN-24 6HG3 1 REMARK REVDAT 3 15-NOV-23 6HG3 1 REMARK LINK ATOM REVDAT 2 19-DEC-18 6HG3 1 JRNL REVDAT 1 24-OCT-18 6HG3 0 JRNL AUTH F.DEL CANO-OCHOA,A.GRANDE-GARCIA,M.REVERTE-LOPEZ,M.D'ABRAMO, JRNL AUTH 2 S.RAMON-MAIQUES JRNL TITL CHARACTERIZATION OF THE CATALYTIC FLEXIBLE LOOP IN THE JRNL TITL 2 DIHYDROOROTASE DOMAIN OF THE HUMAN MULTI-ENZYMATIC PROTEIN JRNL TITL 3 CAD. JRNL REF J. BIOL. CHEM. V. 293 18903 2018 JRNL REFN ESSN 1083-351X JRNL PMID 30315107 JRNL DOI 10.1074/JBC.RA118.005494 REMARK 2 REMARK 2 RESOLUTION. 1.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12_2829 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.336 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 28660 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.045 REMARK 3 FREE R VALUE TEST SET COUNT : 1446 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.8998 - 4.2415 0.99 2898 144 0.1571 0.1700 REMARK 3 2 4.2415 - 3.3668 0.98 2763 143 0.1425 0.1619 REMARK 3 3 3.3668 - 2.9413 0.99 2738 152 0.1733 0.1933 REMARK 3 4 2.9413 - 2.6724 0.99 2734 161 0.1756 0.2027 REMARK 3 5 2.6724 - 2.4809 0.99 2718 133 0.1668 0.1946 REMARK 3 6 2.4809 - 2.3346 1.00 2777 131 0.1670 0.2136 REMARK 3 7 2.3346 - 2.2177 0.91 2440 150 0.2220 0.2455 REMARK 3 8 2.2177 - 2.1211 0.99 2732 153 0.1762 0.2067 REMARK 3 9 2.1211 - 2.0395 0.99 2664 146 0.2135 0.2520 REMARK 3 10 2.0395 - 1.9691 1.00 2750 133 0.1891 0.2185 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.166 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.706 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.23 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.32 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 2927 REMARK 3 ANGLE : 0.901 4006 REMARK 3 CHIRALITY : 0.047 453 REMARK 3 PLANARITY : 0.005 526 REMARK 3 DIHEDRAL : 19.140 1780 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6HG3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-AUG-18. REMARK 100 THE DEPOSITION ID IS D_1200011614. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28867 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.970 REMARK 200 RESOLUTION RANGE LOW (A) : 48.885 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4C6I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN AT 2-3 MG/ML IN 20 MM TRIS PH REMARK 280 8, 0.15 M NACL, 0.02 MM ZINC SULFATE, 0.2 MM TCEP, 4 MM REMARK 280 DIHYDROOROTATE MOTHER LIQUOR: 2.5-3 M POTASSIUM FORMATE, 0.1 M REMARK 280 HEPES PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.93900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 30.93900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 40.95450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 79.73600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.95450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 79.73600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 30.93900 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.95450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 79.73600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 30.93900 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.95450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 79.73600 REMARK 290 SMTRY3 8 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -175.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A2262 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2270 LIES ON A SPECIAL POSITION. 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 GLY A 1454 REMARK 465 PRO A 1455 REMARK 465 MET A 1456 REMARK 465 THR A 1457 REMARK 465 SER A 1458 REMARK 465 ASN A 1561 REMARK 465 ALA A 1562 REMARK 465 THR A 1563 REMARK 465 THR A 1564 REMARK 465 ASN A 1565 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 GLN A1459 CG CD OE1 NE2 REMARK 470 LYS A1460 CG CD CE NZ REMARK 470 GLU A1653 CG CD OE1 OE2 REMARK 470 ARG A1701 CG CD NE CZ NH1 NH2 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 C LEU A 1555 H2 KCX A 1556 1.09 REMARK 500 OQ1 KCX A 1556 ZN ZN A 1903 1.55 REMARK 500 CE1 HIS A 1471 OQ2 KCX A 1556 1.86 REMARK 500 O HOH A 2218 O HOH A 2290 2.06 REMARK 500 O HOH A 2045 O HOH A 2210 2.16 REMARK 500 O HOH A 2035 O HOH A 2078 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 HG CYS A 1698 HG CYS A 1698 3454 0.88 REMARK 500 SG CYS A 1698 HG CYS A 1698 3454 1.39 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 KCX A1556 CA - C - N ANGL. DEV. = -13.8 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 HIS A1471 83.93 -154.10 REMARK 500 ARG A1475 -9.29 68.12 REMARK 500 GLU A1483 149.34 175.78 REMARK 500 ASN A1505 46.98 -84.39 REMARK 500 GLN A1595 -127.91 53.92 REMARK 500 HIS A1616 75.46 19.48 REMARK 500 HIS A1735 -66.14 -147.50 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 A1904 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1471 NE2 REMARK 620 2 HIS A1473 NE2 121.7 REMARK 620 3 KCX A1556 OQ2 33.8 137.9 REMARK 620 4 ASP A1688 OD1 86.1 89.7 112.6 REMARK 620 5 HOH A2005 O 96.3 85.4 71.2 175.1 REMARK 620 6 HOH A2140 O 111.8 126.1 91.6 87.4 95.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1903 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1592 ND1 REMARK 620 2 HIS A1616 NE2 99.4 REMARK 620 3 HOH A2140 O 138.6 98.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1904 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1905 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DOR A 1906 DBREF 6HG3 A 1456 1824 UNP P27708 PYR1_HUMAN 1456 1822 SEQADV 6HG3 GLY A 1454 UNP P27708 EXPRESSION TAG SEQADV 6HG3 PRO A 1455 UNP P27708 EXPRESSION TAG SEQADV 6HG3 ALA A 1560 UNP P27708 INSERTION SEQADV 6HG3 ALA A 1562 UNP P27708 INSERTION SEQADV 6HG3 THR A 1563 UNP P27708 GLU 1561 CONFLICT SEQADV 6HG3 ASN A 1565 UNP P27708 PHE 1563 CONFLICT SEQADV 6HG3 SER A 1567 UNP P27708 GLU 1565 CONFLICT SEQADV 6HG3 HIS A 1568 UNP P27708 LEU 1566 CONFLICT SEQADV 6HG3 GLY A 1569 UNP P27708 ARG 1567 CONFLICT SEQADV 6HG3 VAL A 1570 UNP P27708 LEU 1568 CONFLICT SEQADV 6HG3 THR A 1571 UNP P27708 ASP 1569 CONFLICT SEQRES 1 A 371 GLY PRO MET THR SER GLN LYS LEU VAL ARG LEU PRO GLY SEQRES 2 A 371 LEU ILE ASP VAL HIS VAL HIS LEU ARG GLU PRO GLY GLY SEQRES 3 A 371 THR HIS LYS GLU ASP PHE ALA SER GLY THR ALA ALA ALA SEQRES 4 A 371 LEU ALA GLY GLY ILE THR MET VAL CYS ALA MET PRO ASN SEQRES 5 A 371 THR ARG PRO PRO ILE ILE ASP ALA PRO ALA LEU ALA LEU SEQRES 6 A 371 ALA GLN LYS LEU ALA GLU ALA GLY ALA ARG CYS ASP PHE SEQRES 7 A 371 ALA LEU PHE LEU GLY ALA SER SER GLU ASN ALA GLY THR SEQRES 8 A 371 LEU GLY THR VAL ALA GLY SER ALA ALA GLY LEU KCX LEU SEQRES 9 A 371 TYR LEU ALA ASN ALA THR THR ASN SER SER HIS GLY VAL SEQRES 10 A 371 THR SER VAL VAL GLN TRP MET GLU HIS PHE GLU THR TRP SEQRES 11 A 371 PRO SER HIS LEU PRO ILE VAL ALA HIS ALA GLU GLN GLN SEQRES 12 A 371 THR VAL ALA ALA VAL LEU MET VAL ALA GLN LEU THR GLN SEQRES 13 A 371 ARG SER VAL HIS ILE CYS HIS VAL ALA ARG LYS GLU GLU SEQRES 14 A 371 ILE LEU LEU ILE LYS ALA ALA LYS ALA ARG GLY LEU PRO SEQRES 15 A 371 VAL THR CYS GLU VAL ALA PRO HIS HIS LEU PHE LEU SER SEQRES 16 A 371 HIS ASP ASP LEU GLU ARG LEU GLY PRO GLY LYS GLY GLU SEQRES 17 A 371 VAL ARG PRO GLU LEU GLY SER ARG GLN ASP VAL GLU ALA SEQRES 18 A 371 LEU TRP GLU ASN MET ALA VAL ILE ASP CYS PHE ALA SER SEQRES 19 A 371 ASP HIS ALA PRO HIS THR LEU GLU GLU LYS CYS GLY SER SEQRES 20 A 371 ARG PRO PRO PRO GLY PHE PRO GLY LEU GLU THR MET LEU SEQRES 21 A 371 PRO LEU LEU LEU THR ALA VAL SER GLU GLY ARG LEU SER SEQRES 22 A 371 LEU ASP ASP LEU LEU GLN ARG LEU HIS HIS ASN PRO ARG SEQRES 23 A 371 ARG ILE PHE HIS LEU PRO PRO GLN GLU ASP THR TYR VAL SEQRES 24 A 371 GLU VAL ASP LEU GLU HIS GLU TRP THR ILE PRO SER HIS SEQRES 25 A 371 MET PRO PHE SER LYS ALA HIS TRP THR PRO PHE GLU GLY SEQRES 26 A 371 GLN LYS VAL LYS GLY THR VAL ARG ARG VAL VAL LEU ARG SEQRES 27 A 371 GLY GLU VAL ALA TYR ILE ASP GLY GLN VAL LEU VAL PRO SEQRES 28 A 371 PRO GLY TYR GLY GLN ASP VAL ARG LYS TRP PRO GLN GLY SEQRES 29 A 371 ALA VAL PRO GLN LEU PRO PRO MODRES 6HG3 KCX A 1556 LYS MODIFIED RESIDUE HET KCX A1556 24 HET FMT A1901 4 HET FMT A1902 4 HET ZN A1903 1 HET ZN A1904 1 HET FMT A1905 4 HET DOR A1906 16 HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM FMT FORMIC ACID HETNAM ZN ZINC ION HETNAM DOR (4S)-2,6-DIOXOHEXAHYDROPYRIMIDINE-4-CARBOXYLIC ACID HETSYN DOR DIHYDROOROTIC ACID FORMUL 1 KCX C7 H14 N2 O4 FORMUL 2 FMT 3(C H2 O2) FORMUL 4 ZN 2(ZN 2+) FORMUL 7 DOR C5 H6 N2 O4 FORMUL 8 HOH *292(H2 O) HELIX 1 AA1 ASP A 1484 GLY A 1495 1 12 HELIX 2 AA2 ASP A 1512 ALA A 1527 1 16 HELIX 3 AA3 VAL A 1548 ALA A 1552 5 5 HELIX 4 AA4 SER A 1572 TRP A 1583 1 12 HELIX 5 AA5 GLN A 1595 THR A 1608 1 14 HELIX 6 AA6 ARG A 1619 ARG A 1632 1 14 HELIX 7 AA7 PRO A 1642 LEU A 1647 1 6 HELIX 8 AA8 SER A 1648 ASP A 1650 5 3 HELIX 9 AA9 ASP A 1651 GLY A 1656 1 6 HELIX 10 AB1 SER A 1668 ASN A 1678 1 11 HELIX 11 AB2 MET A 1679 ILE A 1682 5 4 HELIX 12 AB3 THR A 1693 GLY A 1699 1 7 HELIX 13 AB4 GLY A 1708 GLU A 1722 1 15 HELIX 14 AB5 SER A 1726 HIS A 1735 1 10 HELIX 15 AB6 HIS A 1735 HIS A 1743 1 9 HELIX 16 AB7 ASP A 1810 ALA A 1818 5 9 SHEET 1 AA1 5 VAL A1462 PRO A1465 0 SHEET 2 AA1 5 TYR A1751 THR A1761 -1 O VAL A1752 N LEU A1464 SHEET 3 AA1 5 LYS A1780 LEU A1790 -1 O ARG A1787 N GLU A1753 SHEET 4 AA1 5 GLU A1793 ILE A1797 -1 O GLU A1793 N LEU A1790 SHEET 5 AA1 5 GLN A1800 VAL A1801 -1 O GLN A1800 N ILE A1797 SHEET 1 AA2 3 LEU A1467 VAL A1472 0 SHEET 2 AA2 3 ILE A1497 ALA A1502 1 O MET A1499 N ASP A1469 SHEET 3 AA2 3 ASP A1530 LEU A1533 1 O ALA A1532 N ALA A1502 SHEET 1 AA3 6 LEU A1535 GLY A1536 0 SHEET 2 AA3 6 LEU A1555 TYR A1558 1 O KCX A1556 N LEU A1535 SHEET 3 AA3 6 ILE A1589 HIS A1592 1 O VAL A1590 N LEU A1557 SHEET 4 AA3 6 VAL A1612 ILE A1614 1 O HIS A1613 N ALA A1591 SHEET 5 AA3 6 VAL A1636 VAL A1640 1 O THR A1637 N ILE A1614 SHEET 6 AA3 6 CYS A1684 PHE A1685 1 O CYS A1684 N VAL A1640 SSBOND 1 CYS A 1698 CYS A 1698 1555 3454 2.07 LINK NE2 HIS A1471 OQ2 KCX A1556 1555 1555 1.30 LINK C LEU A1555 N KCX A1556 1555 1555 1.34 LINK C KCX A1556 N LEU A1557 1555 1555 1.33 LINK OQ1 KCX A1556 NE2 HIS A1616 1555 1555 1.31 LINK NE2 HIS A1471 ZN ZN A1904 1555 1555 2.34 LINK NE2 HIS A1473 ZN ZN A1904 1555 1555 2.08 LINK OQ2 KCX A1556 ZN ZN A1904 1555 1555 2.02 LINK ND1 HIS A1592 ZN ZN A1903 1555 1555 2.11 LINK NE2 HIS A1616 ZN ZN A1903 1555 1555 2.00 LINK OD1 ASP A1688 ZN ZN A1904 1555 1555 2.33 LINK ZN ZN A1903 O HOH A2140 1555 1555 2.07 LINK ZN ZN A1904 O HOH A2005 1555 1555 2.01 LINK ZN ZN A1904 O HOH A2140 1555 1555 1.99 CISPEP 1 GLU A 1476 PRO A 1477 0 5.48 CISPEP 2 ARG A 1507 PRO A 1508 0 1.19 CISPEP 3 ARG A 1663 PRO A 1664 0 -2.66 SITE 1 AC1 2 HIS A1736 ARG A1739 SITE 1 AC2 8 PRO A1588 ILE A1589 ARG A1610 SER A1611 SITE 2 AC2 8 VAL A1612 HIS A1613 HOH A2017 HOH A2078 SITE 1 AC3 6 KCX A1556 HIS A1592 HIS A1616 ZN A1904 SITE 2 AC3 6 DOR A1906 HOH A2140 SITE 1 AC4 7 HIS A1471 HIS A1473 KCX A1556 ASP A1688 SITE 2 AC4 7 ZN A1903 HOH A2005 HOH A2140 SITE 1 AC5 4 SER A1585 ARG A1610 SER A1611 HOH A2078 SITE 1 AC6 14 HIS A1473 ARG A1475 ASN A1505 TYR A1558 SITE 2 AC6 14 HIS A1592 VAL A1662 ARG A1663 ALA A1690 SITE 3 AC6 14 HIS A1692 PRO A1704 GLY A1705 ZN A1903 SITE 4 AC6 14 HOH A2009 HOH A2140 CRYST1 81.909 159.472 61.878 90.00 90.00 90.00 C 2 2 21 8 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 0.012209 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006271 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016161 0.00000