HEADER OXIDOREDUCTASE 27-NOV-17 5YVR TITLE CRYSTAL STRUCTURE OF THE H277A MUTANT OF ADH/D1, AN ARCHAEAL HALO- TITLE 2 THERMOPHILIC RED SEA BRINE POOL ALCOHOL DEHYDROGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALCOHOL DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CANDIDATE DIVISON MSBL1 ARCHAEON SCGC- SOURCE 3 AAA259E19; SOURCE 4 ORGANISM_TAXID: 1698264; SOURCE 5 GENE: AKJ65_00115; SOURCE 6 EXPRESSION_SYSTEM: HALOFERAX VOLCANII; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 2246; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: H1895; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTA963 KEYWDS PROTEIN-COFACTOR COMPLEX, DEHYDROGENASE, MUTANT, HALOPHILIC, KEYWDS 2 THERMOPHILIC, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.W.GROETZINGER,E.STRILLINGER,A.FRANK,J.EPPINGER,M.GROLL,S.T.AROLD REVDAT 4 22-NOV-23 5YVR 1 REMARK REVDAT 3 07-FEB-18 5YVR 1 AUTHOR JRNL REVDAT 2 31-JAN-18 5YVR 1 TITLE SOURCE JRNL REVDAT 1 27-DEC-17 5YVR 0 JRNL AUTH S.W.GROETZINGER,R.KARAN,E.STRILLINGER,S.BADER,A.FRANK, JRNL AUTH 2 I.S.AL ROWAIHI,A.AKAL,W.WACKEROW,J.A.ARCHER,M.RUEPING, JRNL AUTH 3 D.WEUSTER-BOTZ,M.GROLL,J.EPPINGER,S.T.AROLD JRNL TITL IDENTIFICATION AND EXPERIMENTAL CHARACTERIZATION OF AN JRNL TITL 2 EXTREMOPHILIC BRINE POOL ALCOHOL DEHYDROGENASE FROM SINGLE JRNL TITL 3 AMPLIFIED GENOMES JRNL REF ACS CHEM. BIOL. V. 13 161 2018 JRNL REFN ESSN 1554-8937 JRNL PMID 29188989 JRNL DOI 10.1021/ACSCHEMBIO.7B00792 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.32 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.150 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 31602 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.477 REMARK 3 FREE R VALUE TEST SET COUNT : 2995 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 33.3286 - 5.2244 1.00 2754 141 0.1446 0.1621 REMARK 3 2 5.2244 - 4.1493 1.00 2742 144 0.1307 0.1720 REMARK 3 3 4.1493 - 3.6255 1.00 2717 143 0.1434 0.1569 REMARK 3 4 3.6255 - 3.2943 1.00 2758 144 0.1781 0.2175 REMARK 3 5 3.2943 - 3.0584 1.00 2743 145 0.1920 0.2286 REMARK 3 6 3.0584 - 2.8782 1.00 2741 145 0.2044 0.2411 REMARK 3 7 2.8782 - 2.7341 1.00 2742 142 0.2038 0.2782 REMARK 3 8 2.7341 - 2.6151 1.00 2713 144 0.1904 0.2799 REMARK 3 9 2.6151 - 2.5145 1.00 2759 145 0.1870 0.2319 REMARK 3 10 2.5145 - 2.4278 1.00 2742 138 0.1816 0.2302 REMARK 3 11 2.4278 - 2.3519 1.00 2731 141 0.1766 0.2139 REMARK 3 12 2.3519 - 2.2847 1.00 2723 145 0.1990 0.2914 REMARK 3 13 2.2847 - 2.2245 1.00 2735 139 0.2226 0.2697 REMARK 3 14 2.2245 - 2.1703 1.00 2771 145 0.2380 0.2766 REMARK 3 15 2.1703 - 2.1209 1.00 2725 140 0.2438 0.2912 REMARK 3 16 2.1209 - 2.0758 1.00 2682 146 0.2631 0.2621 REMARK 3 17 2.0758 - 2.0343 1.00 2771 145 0.3067 0.3111 REMARK 3 18 2.0343 - 1.9959 1.00 2685 145 0.3699 0.4112 REMARK 3 19 1.9959 - 1.9603 1.00 2751 147 0.4876 0.5083 REMARK 3 20 1.9603 - 1.9270 1.00 2735 146 0.6105 0.5512 REMARK 3 21 1.9270 - 1.8960 0.89 2469 125 0.7425 0.5798 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) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.82 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 : 0.016 3159 REMARK 3 ANGLE : 1.280 4292 REMARK 3 CHIRALITY : 0.070 490 REMARK 3 PLANARITY : 0.009 554 REMARK 3 DIHEDRAL : 18.743 1899 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -1 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.9570 16.4119 36.5807 REMARK 3 T TENSOR REMARK 3 T11: 0.3800 T22: 0.4345 REMARK 3 T33: 0.5303 T12: -0.0095 REMARK 3 T13: 0.0733 T23: -0.0200 REMARK 3 L TENSOR REMARK 3 L11: 0.7086 L22: 1.6515 REMARK 3 L33: 1.7297 L12: -0.3228 REMARK 3 L13: -1.1598 L23: 0.1518 REMARK 3 S TENSOR REMARK 3 S11: 0.1609 S12: 0.0959 S13: 0.0474 REMARK 3 S21: -0.0046 S22: -0.0409 S23: -0.0418 REMARK 3 S31: -0.2986 S32: 0.2661 S33: -0.0008 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 29 THROUGH 98 ) REMARK 3 ORIGIN FOR THE GROUP (A): 28.9878 27.2386 56.6100 REMARK 3 T TENSOR REMARK 3 T11: 0.7063 T22: 0.5956 REMARK 3 T33: 0.5504 T12: -0.2731 REMARK 3 T13: 0.1355 T23: -0.1564 REMARK 3 L TENSOR REMARK 3 L11: 1.8561 L22: 2.0374 REMARK 3 L33: 2.4649 L12: -0.0854 REMARK 3 L13: 0.5907 L23: 0.2542 REMARK 3 S TENSOR REMARK 3 S11: 0.2731 S12: -0.5137 S13: 0.5064 REMARK 3 S21: 0.7010 S22: -0.1654 S23: -0.0038 REMARK 3 S31: -0.6433 S32: 0.1760 S33: 0.0018 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 99 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2649 29.7346 48.4057 REMARK 3 T TENSOR REMARK 3 T11: 0.6647 T22: 0.5734 REMARK 3 T33: 0.7213 T12: -0.0009 REMARK 3 T13: 0.2330 T23: -0.1108 REMARK 3 L TENSOR REMARK 3 L11: 0.4978 L22: 0.5941 REMARK 3 L33: 1.2608 L12: 0.1369 REMARK 3 L13: 0.2362 L23: -0.4322 REMARK 3 S TENSOR REMARK 3 S11: 0.2170 S12: -0.0344 S13: 0.4740 REMARK 3 S21: 0.2731 S22: -0.1964 S23: 0.3100 REMARK 3 S31: -0.6657 S32: -0.4861 S33: -0.0002 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 132 THROUGH 182 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.6736 22.7831 45.3197 REMARK 3 T TENSOR REMARK 3 T11: 0.5538 T22: 0.4783 REMARK 3 T33: 0.5049 T12: -0.0564 REMARK 3 T13: 0.1656 T23: -0.0437 REMARK 3 L TENSOR REMARK 3 L11: 1.1500 L22: 1.8647 REMARK 3 L33: 1.9786 L12: 0.0410 REMARK 3 L13: -0.3964 L23: 0.1457 REMARK 3 S TENSOR REMARK 3 S11: 0.3415 S12: -0.1499 S13: 0.3212 REMARK 3 S21: 0.1937 S22: -0.2059 S23: 0.1369 REMARK 3 S31: -0.5142 S32: -0.2764 S33: -0.0001 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 183 THROUGH 220 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.6287 6.8987 47.4644 REMARK 3 T TENSOR REMARK 3 T11: 0.5030 T22: 0.4834 REMARK 3 T33: 0.4854 T12: -0.1338 REMARK 3 T13: 0.0241 T23: 0.0203 REMARK 3 L TENSOR REMARK 3 L11: 1.4405 L22: 1.5887 REMARK 3 L33: 1.7035 L12: 0.1140 REMARK 3 L13: -1.3314 L23: -0.1503 REMARK 3 S TENSOR REMARK 3 S11: 0.2206 S12: -0.2583 S13: -0.1270 REMARK 3 S21: 0.3474 S22: -0.2104 S23: 0.0186 REMARK 3 S31: 0.2751 S32: 0.0122 S33: 0.0004 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 221 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.6073 3.5911 46.3622 REMARK 3 T TENSOR REMARK 3 T11: 0.5259 T22: 0.4475 REMARK 3 T33: 0.4635 T12: -0.1485 REMARK 3 T13: 0.0431 T23: 0.0040 REMARK 3 L TENSOR REMARK 3 L11: 1.9437 L22: 1.8923 REMARK 3 L33: 2.5990 L12: 0.2025 REMARK 3 L13: -0.7717 L23: -0.0721 REMARK 3 S TENSOR REMARK 3 S11: 0.1200 S12: -0.1765 S13: -0.2585 REMARK 3 S21: 0.2262 S22: -0.1606 S23: 0.0251 REMARK 3 S31: 0.4312 S32: -0.1601 S33: -0.0007 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 307 THROUGH 349 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.0763 -8.0102 37.8235 REMARK 3 T TENSOR REMARK 3 T11: 0.8431 T22: 0.5646 REMARK 3 T33: 0.7443 T12: -0.2854 REMARK 3 T13: 0.0512 T23: -0.0792 REMARK 3 L TENSOR REMARK 3 L11: 1.1223 L22: 1.5097 REMARK 3 L33: 1.1872 L12: -0.2853 REMARK 3 L13: -1.0655 L23: 0.1805 REMARK 3 S TENSOR REMARK 3 S11: 0.0191 S12: 0.1291 S13: -0.4718 REMARK 3 S21: -0.0015 S22: -0.1595 S23: 0.2894 REMARK 3 S31: 1.1767 S32: -0.4708 S33: 0.0001 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 350 THROUGH 400 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.0580 5.6853 49.9738 REMARK 3 T TENSOR REMARK 3 T11: 0.6033 T22: 0.8197 REMARK 3 T33: 0.6356 T12: -0.3044 REMARK 3 T13: 0.1599 T23: -0.0477 REMARK 3 L TENSOR REMARK 3 L11: 1.4106 L22: 1.9868 REMARK 3 L33: 1.6972 L12: 0.0446 REMARK 3 L13: -0.5563 L23: 0.6292 REMARK 3 S TENSOR REMARK 3 S11: 0.1973 S12: -0.1791 S13: 0.0410 REMARK 3 S21: 0.4191 S22: -0.2631 S23: 0.3375 REMARK 3 S31: 0.6011 S32: -0.9101 S33: -0.0026 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 5YVR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-NOV-17. REMARK 100 THE DEPOSITION ID IS D_1300005915. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-SEP-16 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 : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31652 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.896 REMARK 200 RESOLUTION RANGE LOW (A) : 48.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 2.22500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 5YVM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 150MM MG ACETATE, 27% METHYL-PENTANE REMARK 280 -DIOL, 100MM NA CACODYLATE, PH 6.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K 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 64.77000 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 64.77000 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 29.02500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 52.40000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 29.02500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 52.40000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.77000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 29.02500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 52.40000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.77000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 29.02500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 52.40000 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: 6190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 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 58.05000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 64.77000 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 688 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 MET A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 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 O ASN A 264 O HOH A 601 2.03 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 GLU A 20 -38.96 -38.15 REMARK 500 SER A 40 -37.59 -149.13 REMARK 500 ASN A 71 68.19 70.26 REMARK 500 ALA A 115 -146.30 -72.13 REMARK 500 ARG A 118 -156.64 116.51 REMARK 500 ASP A 119 7.34 129.89 REMARK 500 GLU A 128 97.80 -166.95 REMARK 500 SER A 150 68.24 -105.50 REMARK 500 HIS A 219 63.60 -151.87 REMARK 500 SER A 267 -131.50 -99.20 REMARK 500 THR A 270 -139.76 -128.96 REMARK 500 LYS A 326 -65.20 -98.87 REMARK 500 ASP A 386 151.10 -49.50 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 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 204 OD1 REMARK 620 2 HIS A 208 NE2 87.9 REMARK 620 3 HIS A 273 NE2 128.3 89.3 REMARK 620 4 HIS A 288 NE2 108.2 154.9 95.0 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 MN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NDP A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5YVM RELATED DB: PDB REMARK 900 5YVM CONTAINS THE WILD-TYPE OF THE SAME PROTEIN DBREF1 5YVR A 1 400 UNP A0A133UP32_9EURY DBREF2 5YVR A A0A133UP32 1 400 SEQADV 5YVR MET A -8 UNP A0A133UP3 INITIATING METHIONINE SEQADV 5YVR HIS A -7 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR HIS A -6 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR HIS A -5 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR HIS A -4 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR HIS A -3 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR HIS A -2 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR MET A -1 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR ARG A 0 UNP A0A133UP3 EXPRESSION TAG SEQADV 5YVR ALA A 277 UNP A0A133UP3 HIS 277 ENGINEERED MUTATION SEQRES 1 A 409 MET HIS HIS HIS HIS HIS HIS MET ARG MET GLU PHE ARG SEQRES 2 A 409 HIS ASN LEU PRO SER SER ASP ILE ILE PHE GLY SER GLY SEQRES 3 A 409 THR LEU GLU LYS ILE GLY GLU GLU THR LYS LYS TRP GLY SEQRES 4 A 409 ASP LYS ALA ILE LEU VAL THR GLY LYS SER ASN MET LYS SEQRES 5 A 409 LYS LEU GLY PHE LEU ALA ASP ALA ILE ASP TYR LEU GLU SEQRES 6 A 409 SER ALA GLY VAL GLU THR VAL HIS TYR GLY GLU ILE GLU SEQRES 7 A 409 PRO ASN PRO THR THR THR VAL VAL ASP GLU GLY ALA GLU SEQRES 8 A 409 ILE VAL LEU GLU GLU GLY CYS ASP VAL VAL VAL ALA LEU SEQRES 9 A 409 GLY GLY GLY SER SER MET ASP ALA ALA LYS GLY ILE ALA SEQRES 10 A 409 MET VAL ALA GLY HIS SER ALA GLU GLU ARG ASP ILE SER SEQRES 11 A 409 VAL TRP ASP PHE ALA PRO GLU GLY ASP LYS GLU THR LYS SEQRES 12 A 409 PRO ILE THR GLU LYS THR LEU PRO VAL ILE ALA ALA THR SEQRES 13 A 409 SER THR SER GLY THR GLY SER HIS VAL THR PRO TYR ALA SEQRES 14 A 409 VAL ILE THR ASN PRO GLU THR LYS GLY LYS PRO GLY PHE SEQRES 15 A 409 GLY ASN LYS HIS SER PHE PRO LYS VAL SER ILE VAL ASP SEQRES 16 A 409 ILE ASP ILE LEU LYS GLU MET PRO PRO ARG LEU THR ALA SEQRES 17 A 409 ILE THR GLY TYR ASP VAL PHE SER HIS VAL SER GLU ASN SEQRES 18 A 409 LEU THR ALA LYS GLY ASP HIS PRO THR ALA ASP PRO LEU SEQRES 19 A 409 ALA ILE ARG ALA ILE GLU TYR VAL THR GLU TYR LEU LEU SEQRES 20 A 409 ARG ALA VAL GLU ASP GLY GLU ASP ILE LYS ALA ARG GLU SEQRES 21 A 409 LYS MET ALA VAL ALA ASP THR TYR ALA GLY LEU SER ASN SEQRES 22 A 409 THR ILE SER GLY THR THR LEU ARG HIS ALA MET ALA ALA SEQRES 23 A 409 PRO ILE SER GLY TYR TYR PRO ASP ILE SER HIS GLY GLN SEQRES 24 A 409 ALA LEU ALA SER ILE SER VAL PRO ILE MET GLU HIS ASN SEQRES 25 A 409 ILE GLU ASN GLY ASP GLU LYS THR TRP GLU ARG TYR SER SEQRES 26 A 409 ARG ILE ALA VAL ALA LEU ASP ALA SER LYS PRO VAL ASP SEQRES 27 A 409 ASN THR ARG GLN ALA ALA SER LYS ALA VAL ASP GLY LEU SEQRES 28 A 409 LYS ASN LEU LEU ARG SER LEU ASP LEU ASP LYS PRO LEU SEQRES 29 A 409 SER GLU LEU GLY VAL GLU GLU GLU LYS ILE PRO GLU MET SEQRES 30 A 409 THR GLU GLY ALA PHE ILE TYR MET GLY GLY GLY ILE GLU SEQRES 31 A 409 ALA ASN PRO VAL ASP VAL SER LYS GLU ASP VAL LYS GLU SEQRES 32 A 409 ILE PHE ARG LYS SER LEU HET MN A 501 1 HET NDP A 502 74 HETNAM MN MANGANESE (II) ION HETNAM NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NDP PHOSPHATE FORMUL 2 MN MN 2+ FORMUL 3 NDP C21 H30 N7 O17 P3 FORMUL 4 HOH *88(H2 O) HELIX 1 AA1 GLY A 17 GLU A 20 5 4 HELIX 2 AA2 LYS A 21 LYS A 28 1 8 HELIX 3 AA3 SER A 40 LEU A 45 1 6 HELIX 4 AA4 GLY A 46 ALA A 58 1 13 HELIX 5 AA5 THR A 73 GLY A 88 1 16 HELIX 6 AA6 GLY A 97 HIS A 113 1 17 HELIX 7 AA7 SER A 121 ALA A 126 5 6 HELIX 8 AA8 GLY A 153 THR A 157 5 5 HELIX 9 AA9 ASN A 175 PHE A 179 5 5 HELIX 10 AB1 ILE A 187 LYS A 191 1 5 HELIX 11 AB2 PRO A 194 ALA A 215 1 22 HELIX 12 AB3 ALA A 222 ASP A 243 1 22 HELIX 13 AB4 ASP A 246 SER A 267 1 22 HELIX 14 AB5 THR A 270 TYR A 283 1 14 HELIX 15 AB6 SER A 287 ASN A 306 1 20 HELIX 16 AB7 ASP A 308 LEU A 322 1 15 HELIX 17 AB8 THR A 331 LEU A 349 1 19 HELIX 18 AB9 PRO A 354 GLY A 359 5 6 HELIX 19 AC1 GLU A 361 GLU A 363 5 3 HELIX 20 AC2 LYS A 364 MET A 376 1 13 HELIX 21 AC3 MET A 376 ASN A 383 1 8 HELIX 22 AC4 SER A 388 SER A 399 1 12 SHEET 1 AA1 6 ILE A 12 GLY A 15 0 SHEET 2 AA1 6 VAL A 182 ASP A 186 1 O SER A 183 N ILE A 13 SHEET 3 AA1 6 VAL A 143 THR A 147 1 N ALA A 145 O ILE A 184 SHEET 4 AA1 6 VAL A 91 GLY A 96 1 N ALA A 94 O ILE A 144 SHEET 5 AA1 6 LYS A 32 GLY A 38 1 N VAL A 36 O VAL A 93 SHEET 6 AA1 6 GLU A 61 ILE A 68 1 O TYR A 65 N LEU A 35 SHEET 1 AA2 2 ALA A 160 VAL A 161 0 SHEET 2 AA2 2 GLY A 172 PHE A 173 -1 O PHE A 173 N ALA A 160 LINK OD1 ASP A 204 MN MN A 501 1555 1555 2.10 LINK NE2 HIS A 208 MN MN A 501 1555 1555 2.47 LINK NE2 HIS A 273 MN MN A 501 1555 1555 2.27 LINK NE2 HIS A 288 MN MN A 501 1555 1555 2.27 SITE 1 AC1 6 ASP A 204 HIS A 208 HIS A 273 HIS A 288 SITE 2 AC1 6 LEU A 292 NDP A 502 SITE 1 AC2 37 GLY A 38 LYS A 39 SER A 40 ASN A 41 SITE 2 AC2 37 ASN A 71 GLY A 97 GLY A 98 SER A 99 SITE 3 AC2 37 ASP A 102 SER A 148 THR A 149 THR A 152 SITE 4 AC2 37 SER A 154 THR A 157 TYR A 159 VAL A 161 SITE 5 AC2 37 LYS A 170 ILE A 189 GLU A 192 MET A 193 SITE 6 AC2 37 PRO A 194 LEU A 197 THR A 201 ASP A 204 SITE 7 AC2 37 HIS A 208 HIS A 288 MN A 501 HOH A 617 SITE 8 AC2 37 HOH A 624 HOH A 627 HOH A 628 HOH A 631 SITE 9 AC2 37 HOH A 636 HOH A 638 HOH A 651 HOH A 661 SITE 10 AC2 37 HOH A 667 CRYST1 58.050 104.800 129.540 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 0.017227 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009542 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007720 0.00000