HEADER TRANSFERASE 20-FEB-13 4JBR TITLE TRNA-GUANINE TRANSGLYCOSYLASE Y330C MUTANT AS COVALENTLY LINKED DIMER TITLE 2 IN SPACE GROUP P6(5)22 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA-GUANINE TRANSGLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GUANINE INSERTION ENZYME, QUEUINE TRNA-RIBOSYLTRANSFERASE; COMPND 5 EC: 2.4.2.29; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZYMOMONAS MOBILIS SUBSP. MOBILIS; SOURCE 3 ORGANISM_TAXID: 264203; SOURCE 4 STRAIN: ATCC 31821 / ZM4 / CP4; SOURCE 5 GENE: TGT, ZMO0363; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODONPLUS-RIPL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PASK-IBA13PLUS KEYWDS COVALENT DIMER, TIM-BARREL, TRANSFERASE, GUANINE, PREQ1, TRNA EXPDTA X-RAY DIFFRACTION AUTHOR S.JAKOBI,G.KLEBE REVDAT 4 20-SEP-23 4JBR 1 REMARK REVDAT 3 24-AUG-22 4JBR 1 JRNL REVDAT 2 16-JUN-21 4JBR 1 JRNL REMARK SEQADV LINK REVDAT 1 19-MAR-14 4JBR 0 JRNL AUTH D.NGUYEN,X.XIE,S.JAKOBI,F.TERWESTEN,A.METZ,T.X.P.NGUYEN, JRNL AUTH 2 V.A.PALCHYKOV,A.HEINE,K.REUTER,G.KLEBE JRNL TITL TARGETING A CRYPTIC POCKET IN A PROTEIN-PROTEIN CONTACT BY JRNL TITL 2 DISULFIDE-INDUCED RUPTURE OF A HOMODIMERIC INTERFACE. JRNL REF ACS CHEM.BIOL. V. 16 1090 2021 JRNL REFN ESSN 1554-8937 JRNL PMID 34081441 JRNL DOI 10.1021/ACSCHEMBIO.1C00296 REMARK 2 REMARK 2 RESOLUTION. 2.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.3_928) 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) : 2.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 12578 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 635 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 28.1118 - 4.9860 0.99 2527 135 0.2328 0.2769 REMARK 3 2 4.9860 - 3.9610 1.00 2376 136 0.1758 0.1900 REMARK 3 3 3.9610 - 3.4614 1.00 2365 120 0.1771 0.2179 REMARK 3 4 3.4614 - 3.1454 1.00 2362 115 0.2065 0.2677 REMARK 3 5 3.1454 - 2.9202 1.00 2313 129 0.2433 0.3459 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 : 0.86 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 45.56 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.920 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.91 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.94040 REMARK 3 B22 (A**2) : -1.94040 REMARK 3 B33 (A**2) : 3.88090 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 : 0.003 2850 REMARK 3 ANGLE : 0.665 3856 REMARK 3 CHIRALITY : 0.041 418 REMARK 3 PLANARITY : 0.003 513 REMARK 3 DIHEDRAL : 12.268 1009 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 11:70) REMARK 3 ORIGIN FOR THE GROUP (A): 9.5978 40.2921 -11.7112 REMARK 3 T TENSOR REMARK 3 T11: 0.3232 T22: 0.2649 REMARK 3 T33: 0.2751 T12: 0.0534 REMARK 3 T13: -0.0075 T23: -0.0121 REMARK 3 L TENSOR REMARK 3 L11: 0.0393 L22: 0.0731 REMARK 3 L33: 0.0485 L12: 0.0564 REMARK 3 L13: 0.0152 L23: 0.0274 REMARK 3 S TENSOR REMARK 3 S11: -0.0658 S12: 0.0267 S13: -0.0470 REMARK 3 S21: -0.0041 S22: -0.1069 S23: -0.1071 REMARK 3 S31: -0.0588 S32: -0.0822 S33: -0.0005 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 71:98) REMARK 3 ORIGIN FOR THE GROUP (A): 26.2276 40.6282 -6.6375 REMARK 3 T TENSOR REMARK 3 T11: 0.3296 T22: 0.3118 REMARK 3 T33: 0.3690 T12: -0.0571 REMARK 3 T13: -0.0460 T23: -0.0534 REMARK 3 L TENSOR REMARK 3 L11: 0.0203 L22: 0.0194 REMARK 3 L33: 0.0293 L12: 0.0049 REMARK 3 L13: -0.0204 L23: 0.0117 REMARK 3 S TENSOR REMARK 3 S11: 0.0731 S12: 0.1267 S13: 0.0642 REMARK 3 S21: 0.0751 S22: 0.0135 S23: -0.1029 REMARK 3 S31: 0.0786 S32: -0.0011 S33: -0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 99:147) REMARK 3 ORIGIN FOR THE GROUP (A): 24.5129 47.3107 6.2469 REMARK 3 T TENSOR REMARK 3 T11: 0.3361 T22: 0.1976 REMARK 3 T33: 0.2551 T12: -0.1225 REMARK 3 T13: -0.1266 T23: -0.0433 REMARK 3 L TENSOR REMARK 3 L11: 0.1235 L22: 0.0035 REMARK 3 L33: 0.2619 L12: 0.0030 REMARK 3 L13: -0.1545 L23: -0.0141 REMARK 3 S TENSOR REMARK 3 S11: 0.0782 S12: 0.0666 S13: -0.0422 REMARK 3 S21: 0.1126 S22: -0.0279 S23: -0.0188 REMARK 3 S31: -0.0132 S32: 0.0010 S33: 0.1716 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 148:236) REMARK 3 ORIGIN FOR THE GROUP (A): 10.5319 52.9110 4.8845 REMARK 3 T TENSOR REMARK 3 T11: 0.3496 T22: 0.1209 REMARK 3 T33: 0.1263 T12: -0.0542 REMARK 3 T13: 0.0171 T23: -0.1658 REMARK 3 L TENSOR REMARK 3 L11: 0.0863 L22: 0.2067 REMARK 3 L33: 0.0710 L12: -0.0011 REMARK 3 L13: -0.0025 L23: -0.0846 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: -0.0631 S13: 0.0760 REMARK 3 S21: -0.1144 S22: -0.1458 S23: -0.0184 REMARK 3 S31: -0.0002 S32: -0.0901 S33: -0.4985 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 237:282) REMARK 3 ORIGIN FOR THE GROUP (A): 0.2166 42.5370 1.0199 REMARK 3 T TENSOR REMARK 3 T11: 0.3246 T22: 0.3689 REMARK 3 T33: 0.3347 T12: 0.0374 REMARK 3 T13: 0.0026 T23: -0.0963 REMARK 3 L TENSOR REMARK 3 L11: 0.0295 L22: 0.0321 REMARK 3 L33: 0.0241 L12: 0.0334 REMARK 3 L13: 0.0186 L23: 0.0218 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: -0.0885 S13: -0.0101 REMARK 3 S21: -0.0774 S22: -0.1328 S23: -0.1141 REMARK 3 S31: -0.0472 S32: -0.1067 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 283:318) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2558 17.1715 -2.5439 REMARK 3 T TENSOR REMARK 3 T11: 0.3297 T22: 0.3658 REMARK 3 T33: 0.4817 T12: -0.0862 REMARK 3 T13: -0.0631 T23: 0.1254 REMARK 3 L TENSOR REMARK 3 L11: 0.0272 L22: 0.0099 REMARK 3 L33: 0.0141 L12: -0.0156 REMARK 3 L13: -0.0211 L23: 0.0127 REMARK 3 S TENSOR REMARK 3 S11: 0.0040 S12: -0.1063 S13: -0.1283 REMARK 3 S21: 0.0360 S22: -0.0611 S23: 0.1641 REMARK 3 S31: -0.1134 S32: -0.0526 S33: -0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 319:385) REMARK 3 ORIGIN FOR THE GROUP (A): 3.2365 23.7349 -7.3798 REMARK 3 T TENSOR REMARK 3 T11: 0.2658 T22: 0.2893 REMARK 3 T33: 0.3159 T12: -0.0245 REMARK 3 T13: -0.0220 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 0.0346 L22: 0.0417 REMARK 3 L33: 0.0158 L12: -0.0096 REMARK 3 L13: -0.0297 L23: 0.0047 REMARK 3 S TENSOR REMARK 3 S11: 0.1805 S12: -0.0630 S13: -0.0263 REMARK 3 S21: 0.0496 S22: -0.1801 S23: 0.0144 REMARK 3 S31: 0.0572 S32: 0.0243 S33: 0.0000 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TLS REFINEMENT IN 7 GROUPS REMARK 4 REMARK 4 4JBR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000077846. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-13 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 : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12637 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.920 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 15.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10000 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 16.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.44100 REMARK 200 FOR SHELL : 6.060 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: 1PUD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MGAC 0.2M, PEG3350 20%; 2% DMSO AND REMARK 280 10% GLYCEROL IN CRYOPROTECTION BUFFER, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 77.51333 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 38.75667 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 58.13500 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 19.37833 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 96.89167 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 77.51333 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 38.75667 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 19.37833 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 58.13500 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 96.89167 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 300 REMARK: DIMERIZATION AND FORMATION OF DISULFIDBRIDGE UPON REMARK 300 CRYSTALLIZATION, MONOMERIC STATE IN SOLUTION PROVEN BY NATIVE REMARK 300 NANOESI-MS 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: 1650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -19.37833 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 A 527 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 -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 VAL A 2 REMARK 465 GLU A 3 REMARK 465 ALA A 4 REMARK 465 THR A 5 REMARK 465 ALA A 6 REMARK 465 GLN A 7 REMARK 465 GLU A 8 REMARK 465 THR A 9 REMARK 465 ASP A 10 REMARK 465 SER A 113 REMARK 465 SER A 386 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 ARG A 11 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 52 CG CD CE NZ REMARK 470 LYS A 85 CG CD CE NZ REMARK 470 LEU A 86 CG CD1 CD2 REMARK 470 MET A 109 CG SD CE REMARK 470 SER A 112 OG REMARK 470 LEU A 114 CG CD1 CD2 REMARK 470 LYS A 116 CG CD CE NZ REMARK 470 GLN A 117 CG CD OE1 NE2 REMARK 470 LYS A 125 CG CD CE NZ REMARK 470 ASP A 129 CG OD1 OD2 REMARK 470 ARG A 132 CG CD NE CZ NH1 NH2 REMARK 470 CYS A 158 SG REMARK 470 THR A 159 OG1 CG2 REMARK 470 SER A 166 OG REMARK 470 ARG A 167 CG CD NE CZ NH1 NH2 REMARK 470 SER A 170 OG REMARK 470 SER A 171 OG REMARK 470 GLU A 173 CG CD OE1 OE2 REMARK 470 LYS A 180 CG CD CE NZ REMARK 470 LYS A 190 CG CD CE NZ REMARK 470 GLU A 191 CG CD OE1 OE2 REMARK 470 GLU A 194 CG CD OE1 OE2 REMARK 470 SER A 205 OG REMARK 470 VAL A 206 CG1 CG2 REMARK 470 GLN A 213 CG CD OE1 NE2 REMARK 470 GLU A 220 CG CD OE1 OE2 REMARK 470 VAL A 228 CG1 CG2 REMARK 470 ASP A 238 CG OD1 OD2 REMARK 470 GLU A 239 CG CD OE1 OE2 REMARK 470 ARG A 242 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 243 CG1 CG2 REMARK 470 ARG A 286 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 289 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 369 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 384 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 385 CG OD1 ND2 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 PHE A 14 105.17 -160.25 REMARK 500 THR A 47 -93.02 -116.84 REMARK 500 ALA A 48 6.33 -163.23 REMARK 500 MET A 109 30.82 -89.91 REMARK 500 SER A 110 3.42 -162.41 REMARK 500 ASP A 129 -19.47 -141.73 REMARK 500 SER A 205 -133.17 50.72 REMARK 500 LYS A 325 -52.91 -150.43 REMARK 500 ARG A 384 -141.42 54.91 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 A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 318 SG REMARK 620 2 CYS A 320 SG 103.2 REMARK 620 3 CYS A 323 SG 117.6 112.8 REMARK 620 4 HIS A 349 ND1 103.6 116.0 103.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4HTB RELATED DB: PDB REMARK 900 RELATED ID: 3UNT RELATED DB: PDB REMARK 900 RELATED ID: 4DXX RELATED DB: PDB REMARK 900 RELATED ID: 4DY1 RELATED DB: PDB REMARK 900 RELATED ID: 3UVI RELATED DB: PDB REMARK 900 RELATED ID: 1PUD RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AMINO ACID AT POSITION 312 IS LYS. SEE REUTER ET AL. [J. REMARK 999 BACTERIOL. 177:5284-5288(1995)] DBREF 4JBR A 1 386 UNP P28720 TGT_ZYMMO 1 386 SEQADV 4JBR GLY A -1 UNP P28720 EXPRESSION TAG SEQADV 4JBR SER A 0 UNP P28720 EXPRESSION TAG SEQADV 4JBR LYS A 312 UNP P28720 THR 312 SEE REMARK 999 SEQADV 4JBR CYS A 330 UNP P28720 TYR 330 ENGINEERED MUTATION SEQRES 1 A 388 GLY SER MET VAL GLU ALA THR ALA GLN GLU THR ASP ARG SEQRES 2 A 388 PRO ARG PHE SER PHE SER ILE ALA ALA ARG GLU GLY LYS SEQRES 3 A 388 ALA ARG THR GLY THR ILE GLU MET LYS ARG GLY VAL ILE SEQRES 4 A 388 ARG THR PRO ALA PHE MET PRO VAL GLY THR ALA ALA THR SEQRES 5 A 388 VAL LYS ALA LEU LYS PRO GLU THR VAL ARG ALA THR GLY SEQRES 6 A 388 ALA ASP ILE ILE LEU GLY ASN THR TYR HIS LEU MET LEU SEQRES 7 A 388 ARG PRO GLY ALA GLU ARG ILE ALA LYS LEU GLY GLY LEU SEQRES 8 A 388 HIS SER PHE MET GLY TRP ASP ARG PRO ILE LEU THR ASP SEQRES 9 A 388 SER GLY GLY TYR GLN VAL MET SER LEU SER SER LEU THR SEQRES 10 A 388 LYS GLN SER GLU GLU GLY VAL THR PHE LYS SER HIS LEU SEQRES 11 A 388 ASP GLY SER ARG HIS MET LEU SER PRO GLU ARG SER ILE SEQRES 12 A 388 GLU ILE GLN HIS LEU LEU GLY SER ASP ILE VAL MET ALA SEQRES 13 A 388 PHE ASP GLU CYS THR PRO TYR PRO ALA THR PRO SER ARG SEQRES 14 A 388 ALA ALA SER SER MET GLU ARG SER MET ARG TRP ALA LYS SEQRES 15 A 388 ARG SER ARG ASP ALA PHE ASP SER ARG LYS GLU GLN ALA SEQRES 16 A 388 GLU ASN ALA ALA LEU PHE GLY ILE GLN GLN GLY SER VAL SEQRES 17 A 388 PHE GLU ASN LEU ARG GLN GLN SER ALA ASP ALA LEU ALA SEQRES 18 A 388 GLU ILE GLY PHE ASP GLY TYR ALA VAL GLY GLY LEU ALA SEQRES 19 A 388 VAL GLY GLU GLY GLN ASP GLU MET PHE ARG VAL LEU ASP SEQRES 20 A 388 PHE SER VAL PRO MET LEU PRO ASP ASP LYS PRO HIS TYR SEQRES 21 A 388 LEU MET GLY VAL GLY LYS PRO ASP ASP ILE VAL GLY ALA SEQRES 22 A 388 VAL GLU ARG GLY ILE ASP MET PHE ASP CYS VAL LEU PRO SEQRES 23 A 388 THR ARG SER GLY ARG ASN GLY GLN ALA PHE THR TRP ASP SEQRES 24 A 388 GLY PRO ILE ASN ILE ARG ASN ALA ARG PHE SER GLU ASP SEQRES 25 A 388 LEU LYS PRO LEU ASP SER GLU CYS HIS CYS ALA VAL CYS SEQRES 26 A 388 GLN LYS TRP SER ARG ALA CYS ILE HIS HIS LEU ILE ARG SEQRES 27 A 388 ALA GLY GLU ILE LEU GLY ALA MET LEU MET THR GLU HIS SEQRES 28 A 388 ASN ILE ALA PHE TYR GLN GLN LEU MET GLN LYS ILE ARG SEQRES 29 A 388 ASP SER ILE SER GLU GLY ARG PHE SER GLN PHE ALA GLN SEQRES 30 A 388 ASP PHE ARG ALA ARG TYR PHE ALA ARG ASN SER HET ZN A 401 1 HET DMS A 402 4 HETNAM ZN ZINC ION HETNAM DMS DIMETHYL SULFOXIDE FORMUL 2 ZN ZN 2+ FORMUL 3 DMS C2 H6 O S FORMUL 4 HOH *121(H2 O) HELIX 1 1 LYS A 55 THR A 62 1 8 HELIX 2 2 ASN A 70 ARG A 77 1 8 HELIX 3 3 GLY A 79 LEU A 86 1 8 HELIX 4 4 GLY A 88 MET A 93 1 6 HELIX 5 5 GLY A 104 SER A 112 1 9 HELIX 6 6 SER A 136 LEU A 147 1 12 HELIX 7 7 THR A 164 SER A 188 1 25 HELIX 8 8 ARG A 189 GLU A 194 1 6 HELIX 9 9 PHE A 207 GLY A 222 1 16 HELIX 10 10 GLY A 236 VAL A 248 1 13 HELIX 11 11 PRO A 249 LEU A 251 5 3 HELIX 12 12 LYS A 264 GLU A 273 1 10 HELIX 13 13 VAL A 282 GLY A 291 1 10 HELIX 14 14 ASN A 304 GLU A 309 5 6 HELIX 15 15 SER A 327 ALA A 337 1 11 HELIX 16 16 GLU A 339 GLU A 367 1 29 HELIX 17 17 ARG A 369 ALA A 383 1 15 SHEET 1 A 3 PHE A 14 GLU A 22 0 SHEET 2 A 3 ALA A 25 MET A 32 -1 O GLU A 31 N SER A 15 SHEET 3 A 3 GLY A 35 THR A 39 -1 O THR A 39 N GLY A 28 SHEET 1 B 8 ALA A 41 PHE A 42 0 SHEET 2 B 8 MET A 278 PHE A 279 1 O PHE A 279 N ALA A 41 SHEET 3 B 8 HIS A 257 LEU A 259 1 N LEU A 259 O MET A 278 SHEET 4 B 8 GLY A 225 VAL A 228 1 N VAL A 228 O TYR A 258 SHEET 5 B 8 ALA A 197 GLN A 202 1 N GLY A 200 O ALA A 227 SHEET 6 B 8 ILE A 151 MET A 153 1 N VAL A 152 O ALA A 197 SHEET 7 B 8 ILE A 99 THR A 101 1 N THR A 101 O ILE A 151 SHEET 8 B 8 ILE A 67 GLY A 69 1 N GLY A 69 O LEU A 100 SHEET 1 C 3 LYS A 116 GLN A 117 0 SHEET 2 C 3 VAL A 122 LYS A 125 -1 O THR A 123 N LYS A 116 SHEET 3 C 3 ARG A 132 LEU A 135 -1 O LEU A 135 N VAL A 122 SHEET 1 D 2 GLN A 292 THR A 295 0 SHEET 2 D 2 GLY A 298 ASN A 301 -1 O ILE A 300 N ALA A 293 SSBOND 1 CYS A 330 CYS A 330 1555 12554 2.04 LINK SG CYS A 318 ZN ZN A 401 1555 1555 2.32 LINK SG CYS A 320 ZN ZN A 401 1555 1555 2.32 LINK SG CYS A 323 ZN ZN A 401 1555 1555 2.32 LINK ND1 HIS A 349 ZN ZN A 401 1555 1555 2.05 CISPEP 1 THR A 39 PRO A 40 0 -0.17 CISPEP 2 ARG A 77 PRO A 78 0 -0.09 CISPEP 3 TYR A 161 PRO A 162 0 -1.69 SITE 1 AC1 4 CYS A 318 CYS A 320 CYS A 323 HIS A 349 SITE 1 AC2 3 THR A 47 ALA A 49 MET A 93 CRYST1 127.552 127.552 116.270 90.00 90.00 120.00 P 65 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 0.007840 0.004526 0.000000 0.00000 SCALE2 0.000000 0.009053 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008601 0.00000