HEADER HYDROLASE 20-JUN-24 9FS3 TITLE MUTANT S1538A OF THE DIHYDROOROTASE DOMAIN OF HUMAN CAD PROTEIN IN APO TITLE 2 FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: MULTIFUNCTIONAL PROTEIN CAD; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CARBAMOYL PHOSPHATE SYNTHETASE 2-ASPARTATE TRANSCARBAMYLASE- COMPND 5 DIHYDROOROTASE; COMPND 6 EC: 6.3.5.5,3.5.1.2,6.3.4.16,2.1.3.2,3.5.2.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES 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_LINE: HEK293S-GNTI; SOURCE 9 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3022; SOURCE 10 EXPRESSION_SYSTEM_ORGAN: EMBRYO; SOURCE 11 EXPRESSION_SYSTEM_TISSUE: KIDNEY; SOURCE 12 EXPRESSION_SYSTEM_CELL: EPITHELIAL-LIKE; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: POPIN-M-HUDHO-S1538A KEYWDS NUCLEOTIDE METABOLISM, DE NOVO PYRIMIDINE SYNTHESIS, CAD DISEASE, KEYWDS 2 MULTIENZYMATIC PROTEIN, ZINC, CARBOXYLATED LYSINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.DEL CANO-OCHOA,S.RAMON-MAIQUES REVDAT 2 11-DEC-24 9FS3 1 TITLE REVDAT 1 04-DEC-24 9FS3 0 JRNL AUTH F.DEL CANO-OCHOA,L.RAMADANE-MORCHADI,L.EIXERES, JRNL AUTH 2 M.MORENO-MORCILLO,R.FERNANDEZ-LEIRO,S.RAMON-MAIQUES JRNL TITL DISRUPTION OF CAD OLIGOMERIZATION BY PATHOGENIC VARIANTS. JRNL REF J.MOL.BIOL. V. 436 68832 2024 JRNL REFN ESSN 1089-8638 JRNL PMID 39447673 JRNL DOI 10.1016/J.JMB.2024.168832 REMARK 2 REMARK 2 RESOLUTION. 1.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.75 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 130231 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 6582 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 48.7500 - 3.6600 0.96 4299 208 0.1399 0.1548 REMARK 3 2 3.6600 - 2.9100 0.97 4158 230 0.1335 0.1629 REMARK 3 3 2.9100 - 2.5400 0.99 4214 214 0.1382 0.1513 REMARK 3 4 2.5400 - 2.3100 0.99 4228 208 0.1282 0.1378 REMARK 3 5 2.3100 - 2.1400 1.00 4250 205 0.1201 0.1437 REMARK 3 6 2.1400 - 2.0200 1.00 4187 243 0.1194 0.1480 REMARK 3 7 2.0200 - 1.9100 1.00 4221 223 0.1276 0.1520 REMARK 3 8 1.9100 - 1.8300 1.00 4185 220 0.1283 0.1551 REMARK 3 9 1.8300 - 1.7600 0.99 4189 194 0.1248 0.1564 REMARK 3 10 1.7600 - 1.7000 1.00 4176 225 0.1276 0.1397 REMARK 3 11 1.7000 - 1.6500 1.00 4192 210 0.1266 0.1534 REMARK 3 12 1.6500 - 1.6000 1.00 4183 219 0.1288 0.1536 REMARK 3 13 1.6000 - 1.5600 1.00 4159 211 0.1329 0.1604 REMARK 3 14 1.5600 - 1.5200 1.00 4194 209 0.1417 0.1598 REMARK 3 15 1.5200 - 1.4900 1.00 4161 216 0.1684 0.1989 REMARK 3 16 1.4900 - 1.4500 0.99 4110 262 0.1808 0.2149 REMARK 3 17 1.4500 - 1.4200 0.99 4127 234 0.1851 0.2274 REMARK 3 18 1.4200 - 1.4000 0.99 4129 235 0.1909 0.2197 REMARK 3 19 1.4000 - 1.3700 0.99 4110 202 0.1983 0.2177 REMARK 3 20 1.3700 - 1.3500 0.98 4091 244 0.2153 0.2400 REMARK 3 21 1.3500 - 1.3300 0.98 4084 233 0.2334 0.2626 REMARK 3 22 1.3300 - 1.3100 0.98 4079 207 0.2438 0.2527 REMARK 3 23 1.3100 - 1.2900 0.98 4109 209 0.2547 0.2819 REMARK 3 24 1.2900 - 1.2700 0.96 4004 206 0.2638 0.2897 REMARK 3 25 1.2700 - 1.2500 0.96 4025 220 0.2843 0.3173 REMARK 3 26 1.2500 - 1.2400 0.97 3999 226 0.2947 0.3098 REMARK 3 27 1.2400 - 1.2200 0.96 3988 197 0.3243 0.3510 REMARK 3 28 1.2200 - 1.2100 0.95 3925 245 0.3418 0.3830 REMARK 3 29 1.2100 - 1.1900 0.95 3964 214 0.3421 0.3568 REMARK 3 30 1.1900 - 1.1800 0.94 3909 213 0.3457 0.3463 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.163 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.389 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.66 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.48 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 : 0.009 3000 REMARK 3 ANGLE : 1.147 4117 REMARK 3 CHIRALITY : 0.086 469 REMARK 3 PLANARITY : 0.011 544 REMARK 3 DIHEDRAL : 7.376 434 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 9FS3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JUN-24. REMARK 100 THE DEPOSITION ID IS D_1292138959. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-APR-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97926 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 X 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 130558 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.180 REMARK 200 RESOLUTION RANGE LOW (A) : 48.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 7.950 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.9500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.22 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.850 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER CCP4 V8.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES PH 7, 2.5 M SODIUM REMARK 280 FORMATE,, VAPOR DIFFUSION, 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 30.92100 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 30.92100 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 41.04950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 79.24950 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 41.04950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 79.24950 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 30.92100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 41.04950 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 79.24950 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 30.92100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 41.04950 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 79.24950 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 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 A2363 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2391 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2432 LIES ON A SPECIAL POSITION. 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 LYS A1460 CG CD CE NZ REMARK 470 ARG A1507 CG CD NE CZ NH1 NH2 REMARK 470 GLU A1561 CG CD OE1 OE2 REMARK 470 THR A1562 OG1 CG2 REMARK 470 PHE A1563 CG CD1 CD2 CE1 CE2 CZ REMARK 470 SER A1564 OG REMARK 470 GLU A1565 CG CD OE1 OE2 REMARK 470 ARG A1567 CG CD NE CZ NH1 NH2 REMARK 470 ARG A1667 CG CD NE CZ NH1 NH2 REMARK 470 ARG A1699 CG CD NE CZ NH1 NH2 REMARK 470 GLU A1746 CG CD OE1 OE2 REMARK 470 ARG A1785 CG CD NE CZ NH1 NH2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 1663 CA CB CG CD OE1 OE2 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 89.82 -150.86 REMARK 500 GLU A1483 153.62 175.68 REMARK 500 ASN A1505 46.88 -87.30 REMARK 500 ASN A1560 -137.62 -108.91 REMARK 500 GLU A1561 -101.82 -29.49 REMARK 500 THR A1562 157.06 86.86 REMARK 500 GLN A1593 -127.82 53.60 REMARK 500 HIS A1614 78.15 18.76 REMARK 500 HIS A1733 -67.46 -147.71 REMARK 500 ASP A1796 50.92 38.13 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 A2435 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A2436 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A2437 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A2438 DISTANCE = 6.35 ANGSTROMS REMARK 525 HOH A2439 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A2440 DISTANCE = 7.00 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1911 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1471 NE2 REMARK 620 2 HIS A1473 NE2 114.9 REMARK 620 3 KCX A1556 OQ2 90.6 91.8 REMARK 620 4 ASP A1686 OD1 84.2 90.0 174.7 REMARK 620 5 HOH A2134 O 118.1 126.9 91.3 91.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1912 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1471 ND1 REMARK 620 2 CYS A1613 SG 112.9 REMARK 620 3 GLU A1637 OE2 88.8 115.3 REMARK 620 4 HOH A2181 O 119.2 111.3 107.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1915 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1524 O REMARK 620 2 GLY A1804 O 89.1 REMARK 620 3 GLY A1806 O 106.5 93.6 REMARK 620 4 HOH A2268 O 76.9 80.8 173.5 REMARK 620 5 HOH A2275 O 151.7 70.8 94.8 80.3 REMARK 620 6 HOH A2328 O 111.6 153.9 95.3 88.5 84.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1910 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 KCX A1556 OQ1 REMARK 620 2 HIS A1590 ND1 105.7 REMARK 620 3 HIS A1614 NE2 112.8 94.5 REMARK 620 4 HOH A2134 O 104.8 131.0 107.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1913 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1734 NE2 REMARK 620 2 HIS A1741 ND1 26.9 REMARK 620 3 FMT A1906 O1 104.6 78.1 REMARK 620 4 HOH A2319 O 103.5 110.5 112.8 REMARK 620 N 1 2 3 DBREF 9FS3 A 1460 1821 UNP P27708 PYR1_HUMAN 1460 1821 SEQADV 9FS3 ALA A 1538 UNP P27708 SER 1538 ENGINEERED MUTATION SEQRES 1 A 362 LYS LEU VAL ARG LEU PRO GLY LEU ILE ASP VAL HIS VAL SEQRES 2 A 362 HIS LEU ARG GLU PRO GLY GLY THR HIS LYS GLU ASP PHE SEQRES 3 A 362 ALA SER GLY THR ALA ALA ALA LEU ALA GLY GLY ILE THR SEQRES 4 A 362 MET VAL CYS ALA MET PRO ASN THR ARG PRO PRO ILE ILE SEQRES 5 A 362 ASP ALA PRO ALA LEU ALA LEU ALA GLN LYS LEU ALA GLU SEQRES 6 A 362 ALA GLY ALA ARG CYS ASP PHE ALA LEU PHE LEU GLY ALA SEQRES 7 A 362 ALA SER GLU ASN ALA GLY THR LEU GLY THR VAL ALA GLY SEQRES 8 A 362 SER ALA ALA GLY LEU KCX LEU TYR LEU ASN GLU THR PHE SEQRES 9 A 362 SER GLU LEU ARG LEU ASP SER VAL VAL GLN TRP MET GLU SEQRES 10 A 362 HIS PHE GLU THR TRP PRO SER HIS LEU PRO ILE VAL ALA SEQRES 11 A 362 HIS ALA GLU GLN GLN THR VAL ALA ALA VAL LEU MET VAL SEQRES 12 A 362 ALA GLN LEU THR GLN ARG SER VAL HIS ILE CYS HIS VAL SEQRES 13 A 362 ALA ARG LYS GLU GLU ILE LEU LEU ILE LYS ALA ALA LYS SEQRES 14 A 362 ALA ARG GLY LEU PRO VAL THR CYS GLU VAL ALA PRO HIS SEQRES 15 A 362 HIS LEU PHE LEU SER HIS ASP ASP LEU GLU ARG LEU GLY SEQRES 16 A 362 PRO GLY LYS GLY GLU VAL ARG PRO GLU LEU GLY SER ARG SEQRES 17 A 362 GLN ASP VAL GLU ALA LEU TRP GLU ASN MET ALA VAL ILE SEQRES 18 A 362 ASP CYS PHE ALA SER ASP HIS ALA PRO HIS THR LEU GLU SEQRES 19 A 362 GLU LYS CYS GLY SER ARG PRO PRO PRO GLY PHE PRO GLY SEQRES 20 A 362 LEU GLU THR MET LEU PRO LEU LEU LEU THR ALA VAL SER SEQRES 21 A 362 GLU GLY ARG LEU SER LEU ASP ASP LEU LEU GLN ARG LEU SEQRES 22 A 362 HIS HIS ASN PRO ARG ARG ILE PHE HIS LEU PRO PRO GLN SEQRES 23 A 362 GLU ASP THR TYR VAL GLU VAL ASP LEU GLU HIS GLU TRP SEQRES 24 A 362 THR ILE PRO SER HIS MET PRO PHE SER LYS ALA HIS TRP SEQRES 25 A 362 THR PRO PHE GLU GLY GLN LYS VAL LYS GLY THR VAL ARG SEQRES 26 A 362 ARG VAL VAL LEU ARG GLY GLU VAL ALA TYR ILE ASP GLY SEQRES 27 A 362 GLN VAL LEU VAL PRO PRO GLY TYR GLY GLN ASP VAL ARG SEQRES 28 A 362 LYS TRP PRO GLN GLY ALA VAL PRO GLN LEU PRO MODRES 9FS3 KCX A 1556 LYS MODIFIED RESIDUE HET KCX A1556 23 HET FMT A1901 5 HET FMT A1902 5 HET FMT A1903 5 HET FMT A1904 5 HET FMT A1905 5 HET FMT A1906 5 HET FMT A1907 5 HET FMT A1908 5 HET FMT A1909 5 HET ZN A1910 1 HET ZN A1911 1 HET ZN A1912 1 HET ZN A1913 1 HET GOL A1914 13 HET NA A1915 1 HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM FMT FORMIC ACID HETNAM ZN ZINC ION HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 KCX C7 H14 N2 O4 FORMUL 2 FMT 9(C H2 O2) FORMUL 11 ZN 4(ZN 2+) FORMUL 15 GOL C3 H8 O3 FORMUL 16 NA NA 1+ FORMUL 17 HOH *441(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 1570 TRP A 1581 1 12 HELIX 5 AA5 GLN A 1593 THR A 1606 1 14 HELIX 6 AA6 ARG A 1617 ARG A 1630 1 14 HELIX 7 AA7 PRO A 1640 LEU A 1645 1 6 HELIX 8 AA8 SER A 1646 ASP A 1648 5 3 HELIX 9 AA9 ASP A 1649 GLY A 1658 1 10 HELIX 10 AB1 SER A 1666 ASN A 1676 1 11 HELIX 11 AB2 MET A 1677 ILE A 1680 5 4 HELIX 12 AB3 THR A 1691 GLY A 1697 1 7 HELIX 13 AB4 GLY A 1706 GLU A 1720 1 15 HELIX 14 AB5 SER A 1724 HIS A 1733 1 10 HELIX 15 AB6 HIS A 1733 HIS A 1741 1 9 HELIX 16 AB7 ASP A 1808 ALA A 1816 5 9 SHEET 1 AA1 5 VAL A1462 PRO A1465 0 SHEET 2 AA1 5 TYR A1749 THR A1759 -1 O VAL A1750 N LEU A1464 SHEET 3 AA1 5 LYS A1778 LEU A1788 -1 O ARG A1785 N GLU A1751 SHEET 4 AA1 5 GLU A1791 ILE A1795 -1 O ALA A1793 N VAL A1786 SHEET 5 AA1 5 GLN A1798 VAL A1799 -1 O GLN A1798 N ILE A1795 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 A1587 HIS A1590 1 O VAL A1588 N LEU A1555 SHEET 4 AA3 6 VAL A1610 ILE A1612 1 O HIS A1611 N ALA A1589 SHEET 5 AA3 6 VAL A1634 VAL A1638 1 O THR A1635 N ILE A1612 SHEET 6 AA3 6 CYS A1682 PHE A1683 1 O CYS A1682 N VAL A1638 LINK C LEU A1555 N KCX A1556 1555 1555 1.33 LINK C KCX A1556 N ALEU A1557 1555 1555 1.33 LINK C KCX A1556 N BLEU A1557 1555 1555 1.34 LINK NE2 HIS A1471 ZN ZN A1911 1555 1555 2.07 LINK ND1 HIS A1471 ZN ZN A1912 1555 1555 2.06 LINK NE2 HIS A1473 ZN ZN A1911 1555 1555 2.07 LINK O GLU A1524 NA NA A1915 1555 1555 2.52 LINK OQ1 KCX A1556 ZN ZN A1910 1555 1555 1.92 LINK OQ2 KCX A1556 ZN ZN A1911 1555 1555 2.16 LINK ND1 HIS A1590 ZN ZN A1910 1555 1555 2.12 LINK SG CYS A1613 ZN ZN A1912 1555 1555 2.34 LINK NE2 HIS A1614 ZN ZN A1910 1555 1555 2.08 LINK OE2 GLU A1637 ZN ZN A1912 1555 1555 2.13 LINK OD1 ASP A1686 ZN ZN A1911 1555 1555 2.19 LINK NE2 HIS A1734 ZN ZN A1913 1555 1555 2.12 LINK ND1 HIS A1741 ZN ZN A1913 1555 3554 2.14 LINK O GLY A1804 NA NA A1915 1555 1555 2.43 LINK O GLY A1806 NA NA A1915 1555 1555 2.36 LINK O1 FMT A1906 ZN ZN A1913 1555 1555 1.99 LINK ZN ZN A1910 O HOH A2134 1555 1555 1.98 LINK ZN ZN A1911 O HOH A2134 1555 1555 1.95 LINK ZN ZN A1912 O HOH A2181 1555 1555 2.04 LINK ZN ZN A1913 O HOH A2319 1555 1555 2.21 LINK NA NA A1915 O HOH A2268 1555 1555 2.21 LINK NA NA A1915 O HOH A2275 1555 1555 2.69 LINK NA NA A1915 O HOH A2328 1555 1555 2.38 CISPEP 1 GLU A 1476 PRO A 1477 0 5.75 CISPEP 2 ARG A 1507 PRO A 1508 0 1.39 CISPEP 3 ARG A 1661 PRO A 1662 0 -8.90 CRYST1 82.099 158.499 61.842 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 0.012180 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006309 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016170 0.00000