HEADER TRANSFERASE/ANTIBIOTIC 09-JAN-12 3VET TITLE CRYSTAL STRUCTURE OF THE O-CARBAMOYLTRANSFERASE TOBZ IN COMPLEX WITH TITLE 2 TOBRAMYCIN, CARBAMOYL PHOSPHATE AND ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: O-CARBAMOYLTRANSFERASE TOBZ; COMPND 3 CHAIN: A; COMPND 4 EC: 2.1.3.-; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOALLOTEICHUS TENEBRARIUS; SOURCE 3 ORGANISM_COMMON: STREPTOMYCES TENEBRARIUS; SOURCE 4 ORGANISM_TAXID: 1933; SOURCE 5 STRAIN: DSM40770T; SOURCE 6 GENE: TACA, TOBZ; SOURCE 7 EXPRESSION_SYSTEM: STREPTOMYCES LIVIDANS; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 457428; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: TK24; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PUWL201PW KEYWDS ANTIBIOTIC BIOSYNTHESIS, SUBSTRATE ASSISTED CATALYSIS, SUBSTRATE KEYWDS 2 CHANNELING, ADENYLATION, STRUCTURAL ENZYMOLOGY, ENZYME EVOLUTION, KEYWDS 3 TRANSFERASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.PARTHIER,M.T.STUBBS,S.GOERLICH,F.JAENECKE REVDAT 5 13-SEP-23 3VET 1 REMARK SEQADV LINK REVDAT 4 15-NOV-17 3VET 1 REMARK REVDAT 3 02-MAY-12 3VET 1 JRNL REVDAT 2 14-MAR-12 3VET 1 JRNL REVDAT 1 25-JAN-12 3VET 0 JRNL AUTH C.PARTHIER,S.GORLICH,F.JAENECKE,C.BREITHAUPT,U.BRAUER, JRNL AUTH 2 U.FANDRICH,D.CLAUSNITZER,U.F.WEHMEIER,C.BOTTCHER,D.SCHEEL, JRNL AUTH 3 M.T.STUBBS JRNL TITL THE O-CARBAMOYLTRANSFERASE TOBZ CATALYZES AN ANCIENT JRNL TITL 2 ENZYMATIC REACTION. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 51 4046 2012 JRNL REFN ISSN 1433-7851 JRNL PMID 22383337 JRNL DOI 10.1002/ANIE.201108896 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7_650 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.04 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.560 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 42176 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 2108 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 34.0447 - 6.6644 1.00 2644 147 0.1748 0.1730 REMARK 3 2 6.6644 - 5.2961 1.00 2655 137 0.1634 0.2052 REMARK 3 3 5.2961 - 4.6285 1.00 2624 140 0.1334 0.1785 REMARK 3 4 4.6285 - 4.2062 1.00 2653 143 0.1308 0.1711 REMARK 3 5 4.2062 - 3.9052 1.00 2628 144 0.1335 0.1431 REMARK 3 6 3.9052 - 3.6752 1.00 2645 136 0.1367 0.1613 REMARK 3 7 3.6752 - 3.4913 1.00 2639 136 0.1537 0.1994 REMARK 3 8 3.4913 - 3.3395 1.00 2662 133 0.1577 0.1927 REMARK 3 9 3.3395 - 3.2110 1.00 2635 143 0.1699 0.2116 REMARK 3 10 3.2110 - 3.1003 1.00 2629 134 0.1712 0.2174 REMARK 3 11 3.1003 - 3.0034 1.00 2647 141 0.1758 0.2223 REMARK 3 12 3.0034 - 2.9176 1.00 2650 146 0.1753 0.2284 REMARK 3 13 2.9176 - 2.8409 1.00 2627 141 0.1764 0.2465 REMARK 3 14 2.8409 - 2.7716 1.00 2676 140 0.1717 0.2339 REMARK 3 15 2.7716 - 2.7086 1.00 2639 138 0.1724 0.2082 REMARK 3 16 2.7086 - 2.6510 1.00 2622 134 0.1722 0.2121 REMARK 3 17 2.6510 - 2.5980 1.00 2633 139 0.1728 0.2382 REMARK 3 18 2.5980 - 2.5490 1.00 2638 139 0.1831 0.2485 REMARK 3 19 2.5490 - 2.5035 1.00 2673 140 0.1822 0.2183 REMARK 3 20 2.5035 - 2.4610 1.00 2605 142 0.1713 0.2228 REMARK 3 21 2.4610 - 2.4213 1.00 2647 136 0.1880 0.2186 REMARK 3 22 2.4213 - 2.3841 1.00 2667 141 0.1912 0.2407 REMARK 3 23 2.3841 - 2.3490 1.00 2618 137 0.2117 0.2342 REMARK 3 24 2.3490 - 2.3160 1.00 2654 140 0.2091 0.2879 REMARK 3 25 2.3160 - 2.2847 1.00 2637 141 0.2149 0.2813 REMARK 3 26 2.2847 - 2.2550 1.00 2610 141 0.2194 0.2585 REMARK 3 27 2.2550 - 2.2268 1.00 2677 141 0.2222 0.2905 REMARK 3 28 2.2268 - 2.2000 1.00 2621 143 0.2309 0.2552 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 31.48 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.97 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.12500 REMARK 3 B22 (A**2) : 4.12500 REMARK 3 B33 (A**2) : -8.24990 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 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 : 0.007 4625 REMARK 3 ANGLE : 1.131 6320 REMARK 3 CHIRALITY : 0.070 693 REMARK 3 PLANARITY : 0.005 824 REMARK 3 DIHEDRAL : 16.812 1696 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 0:151) REMARK 3 ORIGIN FOR THE GROUP (A): 11.8837 32.3344 26.3868 REMARK 3 T TENSOR REMARK 3 T11: 0.0345 T22: 0.0160 REMARK 3 T33: 0.0444 T12: 0.1125 REMARK 3 T13: 0.0057 T23: -0.0456 REMARK 3 L TENSOR REMARK 3 L11: 0.0673 L22: 0.0645 REMARK 3 L33: 0.0248 L12: -0.0302 REMARK 3 L13: -0.0110 L23: 0.0222 REMARK 3 S TENSOR REMARK 3 S11: -0.0136 S12: -0.0316 S13: 0.0327 REMARK 3 S21: -0.0645 S22: -0.0754 S23: 0.0618 REMARK 3 S31: -0.0374 S32: -0.0911 S33: -0.0686 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 152:322) REMARK 3 ORIGIN FOR THE GROUP (A): 16.5933 28.6275 1.1630 REMARK 3 T TENSOR REMARK 3 T11: 0.2620 T22: 0.1783 REMARK 3 T33: 0.1672 T12: 0.0704 REMARK 3 T13: -0.0500 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 0.1124 L22: 0.1701 REMARK 3 L33: 0.1045 L12: -0.0184 REMARK 3 L13: 0.0272 L23: -0.0060 REMARK 3 S TENSOR REMARK 3 S11: 0.0346 S12: 0.1039 S13: -0.0154 REMARK 3 S21: -0.1435 S22: -0.0435 S23: 0.0367 REMARK 3 S31: -0.0348 S32: -0.0919 S33: -0.0099 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 323:463) REMARK 3 ORIGIN FOR THE GROUP (A): 32.4832 42.5338 17.7783 REMARK 3 T TENSOR REMARK 3 T11: 0.1825 T22: 0.1689 REMARK 3 T33: 0.1575 T12: -0.0004 REMARK 3 T13: 0.0220 T23: 0.0250 REMARK 3 L TENSOR REMARK 3 L11: 0.6052 L22: 0.2332 REMARK 3 L33: 0.4028 L12: 0.2277 REMARK 3 L13: -0.2024 L23: 0.1405 REMARK 3 S TENSOR REMARK 3 S11: -0.0175 S12: -0.1386 S13: 0.0598 REMARK 3 S21: -0.1192 S22: 0.0046 S23: -0.0110 REMARK 3 S31: -0.2151 S32: 0.1302 S33: -0.0136 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 464:566) REMARK 3 ORIGIN FOR THE GROUP (A): 36.4763 44.6504 13.1337 REMARK 3 T TENSOR REMARK 3 T11: 0.2103 T22: 0.2380 REMARK 3 T33: 0.1848 T12: -0.0134 REMARK 3 T13: 0.0186 T23: 0.0370 REMARK 3 L TENSOR REMARK 3 L11: 0.7167 L22: 0.6064 REMARK 3 L33: 0.3349 L12: 0.3716 REMARK 3 L13: -0.3454 L23: -0.1242 REMARK 3 S TENSOR REMARK 3 S11: -0.0390 S12: 0.0083 S13: 0.1204 REMARK 3 S21: -0.1553 S22: 0.0797 S23: 0.0152 REMARK 3 S31: -0.0701 S32: 0.1913 S33: -0.0085 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 3VET COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069955. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42176 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 34.041 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.2300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.73000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.420 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: PDB ENTRY 3VEO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M SODIUM POTASSIUM TARTRATE, 0.1 M REMARK 280 MES, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 93.63600 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 187.27200 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 140.45400 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 234.09000 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 46.81800 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 93.63600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 187.27200 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 234.09000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 140.45400 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 46.81800 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 ASP A 567 REMARK 465 LEU A 568 REMARK 465 ARG A 569 REMARK 465 HIS A 570 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 12 67.35 39.75 REMARK 500 HIS A 40 -6.11 82.19 REMARK 500 ASP A 137 -155.97 -139.29 REMARK 500 GLN A 139 135.22 -170.85 REMARK 500 GLU A 142 -48.17 -135.24 REMARK 500 ALA A 204 -50.88 -128.53 REMARK 500 VAL A 335 52.90 -109.98 REMARK 500 TRP A 495 18.76 59.92 REMARK 500 ASN A 507 81.63 -164.84 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 FE2 A 607 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 114 NE2 REMARK 620 2 HIS A 118 NE2 93.3 REMARK 620 3 ASP A 137 OD1 97.3 102.1 REMARK 620 4 ASP A 338 OD2 85.1 85.4 171.9 REMARK 620 5 ADP A 603 O3B 81.5 167.0 90.4 82.3 REMARK 620 6 ADP A 603 O1A 162.4 89.3 99.1 77.7 92.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 606 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 322 O REMARK 620 2 ARG A 324 O 70.6 REMARK 620 3 VAL A 327 O 69.2 56.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 605 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 530 OG REMARK 620 2 ADP A 601 O3B 82.6 REMARK 620 3 ADP A 601 O2A 170.9 88.8 REMARK 620 4 CP A 602 O2P 86.3 96.6 97.5 REMARK 620 5 HOH A 987 O 89.5 91.8 88.1 169.9 REMARK 620 6 HOH A 988 O 99.9 177.1 88.7 85.1 86.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CP A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TOY A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 608 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VEN RELATED DB: PDB REMARK 900 TOBZ REMARK 900 RELATED ID: 3VEO RELATED DB: PDB REMARK 900 TOBZ IN COMPLEX WITH CARBAMOYL PHOSPHATE REMARK 900 RELATED ID: 3VER RELATED DB: PDB REMARK 900 TOBZ IN COMPLEX WITH CARBAMOYL ADENYLATE INTERMEDIATE REMARK 900 RELATED ID: 3VES RELATED DB: PDB REMARK 900 TOBZ IN COMPLEX WITH AMPCPP AND CARBAMOYL PHOSPHATE REMARK 900 RELATED ID: 3VEW RELATED DB: PDB REMARK 900 TOBZ IN COMPLEX WITH ADP REMARK 900 RELATED ID: 3VEX RELATED DB: PDB REMARK 900 TOBZ H14N VARIANT IN COMPLEX WITH CARBAMOYL ADENYLATE INTERMEDIATE REMARK 900 RELATED ID: 3VEZ RELATED DB: PDB REMARK 900 TOBZ K443A VARIANT IN COMPLEX WITH ATP, ADP AND CARBAMOYL PHOSPHATE REMARK 900 RELATED ID: 3VF2 RELATED DB: PDB REMARK 900 TOBZ M473I VARIANT IN COMPLEX WITH CARBAMOYL PHOSPHATE AND ADP REMARK 900 RELATED ID: 3VF4 RELATED DB: PDB REMARK 900 TOBZ S530A VARIANT IN COMPLEX WITH CARBAMOYL PHOSPHATE AND ADP DBREF 3VET A 1 570 UNP Q70IY1 Q70IY1_STRSD 1 570 SEQADV 3VET HIS A -5 UNP Q70IY1 EXPRESSION TAG SEQADV 3VET HIS A -4 UNP Q70IY1 EXPRESSION TAG SEQADV 3VET HIS A -3 UNP Q70IY1 EXPRESSION TAG SEQADV 3VET HIS A -2 UNP Q70IY1 EXPRESSION TAG SEQADV 3VET HIS A -1 UNP Q70IY1 EXPRESSION TAG SEQADV 3VET HIS A 0 UNP Q70IY1 EXPRESSION TAG SEQADV 3VET LEU A 35 UNP Q70IY1 PHE 35 ENGINEERED MUTATION SEQRES 1 A 576 HIS HIS HIS HIS HIS HIS MET ARG VAL LEU GLY LEU ASN SEQRES 2 A 576 GLY TRP PRO ARG ASP PHE HIS ASP ALA SER ALA ALA LEU SEQRES 3 A 576 LEU VAL ASP GLY ARG ILE ALA ALA PHE ALA GLU GLU GLU SEQRES 4 A 576 ARG LEU THR ARG LYS LYS HIS GLY TYR ASN THR ALA PRO SEQRES 5 A 576 VAL GLN ALA ALA ALA PHE CYS LEU ALA GLN ALA GLY LEU SEQRES 6 A 576 THR VAL ASP ASP LEU ASP ALA VAL ALA PHE GLY TRP ASP SEQRES 7 A 576 LEU PRO ALA MET TYR ARG GLU ARG LEU GLY GLY TRP PRO SEQRES 8 A 576 HIS SER ASP SER GLU ALA LEU ASP ILE LEU LEU PRO ARG SEQRES 9 A 576 ASP VAL PHE PRO ARG ARG THR ASP PRO PRO LEU HIS PHE SEQRES 10 A 576 VAL GLN HIS HIS LEU ALA HIS ALA ALA SER ALA TYR TYR SEQRES 11 A 576 PHE SER GLY GLU ASP ARG GLY ALA VAL LEU ILE VAL ASP SEQRES 12 A 576 GLY GLN GLY GLU GLU GLU CYS VAL THR LEU ALA HIS ALA SEQRES 13 A 576 GLU GLY GLY LYS ILE THR VAL LEU ASP THR VAL PRO GLY SEQRES 14 A 576 ALA TRP SER LEU GLY PHE PHE TYR GLU HIS VAL SER GLU SEQRES 15 A 576 TYR THR GLY LEU GLY GLY ASP ASN PRO GLY LYS LEU MET SEQRES 16 A 576 GLY LEU ALA ALA HIS GLY THR THR VAL ASP GLU THR LEU SEQRES 17 A 576 SER ALA PHE ALA PHE ASP SER ASP GLY TYR ARG LEU ASN SEQRES 18 A 576 LEU ILE ASP PRO GLN ALA ARG ASP PRO GLU ASP TRP ASP SEQRES 19 A 576 GLU TYR SER VAL THR GLU ARG ALA TRP PHE ALA HIS LEU SEQRES 20 A 576 GLU ARG ILE TYR ARG LEU PRO PRO ASN GLU PHE VAL ARG SEQRES 21 A 576 ARG TYR ASP PRO ALA LYS GLY ARG VAL VAL ARG ASP THR SEQRES 22 A 576 ARG ARG ASP PRO TYR GLU TYR ARG ASP LEU ALA ALA THR SEQRES 23 A 576 ALA GLN ALA ALA LEU GLU ARG ALA VAL PHE GLY LEU ALA SEQRES 24 A 576 ASP SER VAL LEU ALA ARG THR GLY GLU ARG THR LEU PHE SEQRES 25 A 576 VAL ALA GLY GLY VAL GLY LEU ASN ALA THR MET ASN GLY SEQRES 26 A 576 LYS LEU LEU THR ARG SER THR VAL ASP LYS MET PHE VAL SEQRES 27 A 576 PRO PRO VAL ALA SER ASP ILE GLY VAL SER LEU GLY ALA SEQRES 28 A 576 ALA ALA ALA VAL ALA VAL GLU LEU GLY ASP ARG ILE ALA SEQRES 29 A 576 PRO MET GLY ASP THR ALA ALA TRP GLY PRO GLU PHE SER SEQRES 30 A 576 PRO ASP GLN VAL ARG ALA ALA LEU ASP ARG THR GLY LEU SEQRES 31 A 576 ALA TYR ARG GLU PRO ALA ASN LEU GLU ARG GLU VAL ALA SEQRES 32 A 576 ALA LEU ILE ALA SER GLY LYS VAL VAL GLY TRP ALA GLN SEQRES 33 A 576 GLY ARG GLY GLU VAL GLY PRO ARG ALA LEU GLY GLN ARG SEQRES 34 A 576 SER LEU LEU GLY SER ALA HIS SER PRO THR MET ARG ASP SEQRES 35 A 576 HIS ILE ASN LEU ARG VAL LYS ASP ARG GLU TRP TRP ARG SEQRES 36 A 576 PRO PHE ALA PRO SER MET LEU ARG SER VAL SER ASP GLN SEQRES 37 A 576 VAL LEU GLU VAL ASP ALA ASP PHE PRO TYR MET ILE MET SEQRES 38 A 576 THR THR LYS VAL ARG ALA ALA TYR ALA GLU ARG LEU PRO SEQRES 39 A 576 SER VAL VAL HIS GLU ASP TRP SER THR ARG PRO GLN THR SEQRES 40 A 576 VAL THR GLU ALA SER ASN PRO ARG TYR HIS ARG MET LEU SEQRES 41 A 576 THR GLU LEU GLY ASP LEU VAL GLY ASP PRO VAL CYS LEU SEQRES 42 A 576 ASN THR SER PHE ASN ASP ARG GLY GLU PRO ILE VAL SER SEQRES 43 A 576 SER PRO ALA ASP ALA LEU LEU THR PHE SER ARG LEU PRO SEQRES 44 A 576 ILE ASP ALA LEU ALA VAL GLY PRO TYR LEU VAL THR LYS SEQRES 45 A 576 ASP LEU ARG HIS HET ADP A 601 27 HET CP A 602 8 HET ADP A 603 27 HET TOY A 604 32 HET MN A 605 1 HET K A 606 1 HET FE2 A 607 1 HET EDO A 608 4 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM CP PHOSPHORIC ACID MONO(FORMAMIDE)ESTER HETNAM TOY TOBRAMYCIN HETNAM MN MANGANESE (II) ION HETNAM K POTASSIUM ION HETNAM FE2 FE (II) ION HETNAM EDO 1,2-ETHANEDIOL HETSYN TOY 4-AMINO-2-[4,6-DIAMINO-3-(3-AMINO-6-AMINOMETHYL-5- HETSYN 2 TOY HYDROXY-TETRAHYDRO-PYRAN-2-YLOXY)-2-HYDROXY- HETSYN 3 TOY CYCLOHEXYLOXY]-6-HYDROXYMETHYL-TETRAHYDRO-PYRAN-3,5- HETSYN 4 TOY DIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ADP 2(C10 H15 N5 O10 P2) FORMUL 3 CP C H4 N O5 P FORMUL 5 TOY C18 H37 N5 O9 FORMUL 6 MN MN 2+ FORMUL 7 K K 1+ FORMUL 8 FE2 FE 2+ FORMUL 9 EDO C2 H6 O2 FORMUL 10 HOH *288(H2 O) HELIX 1 1 GLU A 32 ARG A 37 1 6 HELIX 2 2 LYS A 38 TYR A 42 5 5 HELIX 3 3 PRO A 46 GLY A 58 1 13 HELIX 4 4 THR A 60 LEU A 64 5 5 HELIX 5 5 ASP A 72 LEU A 81 1 10 HELIX 6 6 SER A 87 LEU A 96 1 10 HELIX 7 7 GLN A 113 TYR A 124 1 12 HELIX 8 8 SER A 166 THR A 178 1 13 HELIX 9 9 ASN A 184 ALA A 193 1 10 HELIX 10 10 GLU A 229 TYR A 245 1 17 HELIX 11 11 ASP A 270 GLU A 273 5 4 HELIX 12 12 TYR A 274 GLY A 301 1 28 HELIX 13 13 GLY A 309 LEU A 313 5 5 HELIX 14 14 ASN A 314 THR A 323 1 10 HELIX 15 15 SER A 337 ILE A 339 5 3 HELIX 16 16 GLY A 340 LEU A 353 1 14 HELIX 17 17 SER A 371 GLY A 383 1 13 HELIX 18 18 ASN A 391 SER A 402 1 12 HELIX 19 19 THR A 433 ARG A 441 1 9 HELIX 20 20 ARG A 457 LEU A 464 1 8 HELIX 21 21 ARG A 480 GLU A 485 1 6 HELIX 22 22 LEU A 487 VAL A 491 5 5 HELIX 23 23 ASN A 507 GLY A 522 1 16 HELIX 24 24 SER A 541 LEU A 552 1 12 SHEET 1 A 5 ARG A 25 GLU A 31 0 SHEET 2 A 5 SER A 17 VAL A 22 -1 N LEU A 20 O ALA A 28 SHEET 3 A 5 ARG A 2 ASN A 7 -1 N GLY A 5 O ALA A 19 SHEET 4 A 5 ALA A 66 PHE A 69 1 O ALA A 68 N LEU A 6 SHEET 5 A 5 LEU A 109 PHE A 111 1 O HIS A 110 N PHE A 69 SHEET 1 B 5 LYS A 154 PRO A 162 0 SHEET 2 B 5 GLU A 143 GLU A 151 -1 N LEU A 147 O LEU A 158 SHEET 3 B 5 ARG A 130 VAL A 136 -1 N VAL A 133 O ALA A 148 SHEET 4 B 5 THR A 304 ALA A 308 1 O PHE A 306 N ALA A 132 SHEET 5 B 5 LYS A 329 PHE A 331 1 O LYS A 329 N LEU A 305 SHEET 1 C 2 PHE A 205 ASP A 208 0 SHEET 2 C 2 GLY A 211 LEU A 214 -1 O ARG A 213 N ALA A 206 SHEET 1 D 2 PHE A 252 TYR A 256 0 SHEET 2 D 2 VAL A 263 THR A 267 -1 O ASP A 266 N VAL A 253 SHEET 1 E 7 GLN A 500 VAL A 502 0 SHEET 2 E 7 PRO A 453 LEU A 456 1 N MET A 455 O VAL A 502 SHEET 3 E 7 VAL A 525 SER A 530 -1 O CYS A 526 N SER A 454 SHEET 4 E 7 ARG A 423 SER A 428 -1 N LEU A 425 O THR A 529 SHEET 5 E 7 VAL A 406 ALA A 409 -1 N VAL A 406 O LEU A 426 SHEET 6 E 7 ALA A 556 VAL A 559 1 O ALA A 556 N GLY A 407 SHEET 7 E 7 TYR A 562 THR A 565 -1 O VAL A 564 N LEU A 557 SHEET 1 F 2 THR A 477 LYS A 478 0 SHEET 2 F 2 SER A 496 THR A 497 -1 O THR A 497 N THR A 477 LINK NE2 HIS A 114 FE FE2 A 607 1555 1555 2.20 LINK NE2 HIS A 118 FE FE2 A 607 1555 1555 2.25 LINK OD1 ASP A 137 FE FE2 A 607 1555 1555 2.36 LINK O LEU A 322 K K A 606 1555 1555 3.46 LINK O ARG A 324 K K A 606 1555 1555 3.48 LINK O VAL A 327 K K A 606 1555 1555 3.35 LINK OD2 ASP A 338 FE FE2 A 607 1555 1555 2.22 LINK OG SER A 530 MN MN A 605 1555 1555 2.19 LINK O3B ADP A 601 MN MN A 605 1555 1555 2.17 LINK O2A ADP A 601 MN MN A 605 1555 1555 2.04 LINK O2P CP A 602 MN MN A 605 1555 1555 2.21 LINK O3B ADP A 603 FE FE2 A 607 1555 1555 2.23 LINK O1A ADP A 603 FE FE2 A 607 1555 1555 2.10 LINK MN MN A 605 O HOH A 987 1555 1555 2.53 LINK MN MN A 605 O HOH A 988 1555 1555 2.15 SITE 1 AC1 21 GLY A 186 GLY A 190 ARG A 418 LYS A 443 SITE 2 AC1 21 ARG A 445 ARG A 449 PRO A 450 HIS A 492 SITE 3 AC1 21 SER A 496 ARG A 498 SER A 530 ASN A 532 SITE 4 AC1 21 ARG A 534 GLY A 535 CP A 602 MN A 605 SITE 5 AC1 21 HOH A 727 HOH A 827 HOH A 829 HOH A 838 SITE 6 AC1 21 HOH A 988 SITE 1 AC2 13 ARG A 418 ALA A 419 LYS A 443 MET A 473 SITE 2 AC2 13 ARG A 498 ASN A 528 THR A 529 SER A 530 SITE 3 AC2 13 ADP A 601 MN A 605 HOH A 803 HOH A 816 SITE 4 AC2 13 HOH A 988 SITE 1 AC3 22 HIS A 14 TRP A 71 HIS A 114 HIS A 118 SITE 2 AC3 22 ASP A 137 GLY A 138 GLN A 139 GLY A 168 SITE 3 AC3 22 TYR A 171 GLU A 172 PRO A 185 GLY A 310 SITE 4 AC3 22 VAL A 311 LEU A 313 ASN A 314 SER A 337 SITE 5 AC3 22 ASP A 338 TOY A 604 FE2 A 607 HOH A 821 SITE 6 AC3 22 HOH A 833 HOH A 860 SITE 1 AC4 12 ASP A 12 HIS A 14 PHE A 169 GLU A 172 SITE 2 AC4 12 GLU A 176 ASP A 228 TYR A 230 ADP A 603 SITE 3 AC4 12 HOH A 821 HOH A 834 HOH A 861 HOH A 921 SITE 1 AC5 5 SER A 530 ADP A 601 CP A 602 HOH A 987 SITE 2 AC5 5 HOH A 988 SITE 1 AC6 3 LEU A 322 ARG A 324 VAL A 327 SITE 1 AC7 5 HIS A 114 HIS A 118 ASP A 137 ASP A 338 SITE 2 AC7 5 ADP A 603 SITE 1 AC8 7 GLU A 369 PHE A 370 ALA A 409 GLY A 411 SITE 2 AC8 7 ARG A 423 GLY A 560 HOH A 854 CRYST1 98.818 98.818 280.908 90.00 90.00 120.00 P 61 2 2 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 0.010120 0.005843 0.000000 0.00000 SCALE2 0.000000 0.011685 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003560 0.00000