HEADER HYDROLASE 30-SEP-24 9DTC TITLE CRYSTAL STRUCTURE OF ADP-RIBOSE DIPHOSPHATASE FROM KLEBSIELLA TITLE 2 PNEUMONIAE (ADP RIBOSE BOUND, ORTHRHOMBIC FORM2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADP-RIBOSE PYROPHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ADP-RIBOSE DIPHOSPHATASE,ADP-RIBOSE PHOSPHOHYDROLASE, COMPND 5 ADENOSINE DIPHOSPHORIBOSE PYROPHOSPHATASE; COMPND 6 EC: 3.6.1.13; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 573; SOURCE 4 GENE: KPHS_45750; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: KLPNC.20447.A.B1 KEYWDS SSGCID, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR KEYWDS 2 INFECTIOUS DISEASE, ADP-RIBOSE DIPHOSPHATASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE,SEATTLE AUTHOR 2 STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 1 09-OCT-24 9DTC 0 JRNL AUTH M.R.MIAN,L.LIU,S.LOVELL,G.W.BUCHKO,K.P.BATTAILE JRNL TITL CRYSTAL STRUCTURE OF ADP-RIBOSE DIPHOSPHATASE FROM JRNL TITL 2 KLEBSIELLA PNEUMONIAE (ADP RIBOSE BOUND, ORTHRHOMBIC FORM2) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_5295: ???) 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.71 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 83046 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 4157 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 48.7100 - 4.3500 0.93 2639 155 0.1583 0.1891 REMARK 3 2 4.3500 - 3.4500 0.96 2629 129 0.1423 0.1740 REMARK 3 3 3.4500 - 3.0200 0.97 2619 142 0.1603 0.1727 REMARK 3 4 3.0200 - 2.7400 0.98 2647 123 0.1584 0.1880 REMARK 3 5 2.7400 - 2.5400 0.98 2636 146 0.1526 0.1691 REMARK 3 6 2.5400 - 2.3900 0.99 2621 151 0.1477 0.1488 REMARK 3 7 2.3900 - 2.2700 0.99 2679 119 0.1510 0.1979 REMARK 3 8 2.2700 - 2.1800 0.99 2619 151 0.1480 0.1691 REMARK 3 9 2.1800 - 2.0900 0.99 2627 141 0.1522 0.1644 REMARK 3 10 2.0900 - 2.0200 1.00 2665 144 0.1536 0.1941 REMARK 3 11 2.0200 - 1.9600 1.00 2627 142 0.1575 0.1845 REMARK 3 12 1.9600 - 1.9000 1.00 2627 136 0.1498 0.1749 REMARK 3 13 1.9000 - 1.8500 0.99 2617 150 0.1566 0.2164 REMARK 3 14 1.8500 - 1.8000 0.99 2621 142 0.1652 0.1900 REMARK 3 15 1.8000 - 1.7600 1.00 2655 124 0.1706 0.1976 REMARK 3 16 1.7600 - 1.7300 1.00 2630 121 0.1745 0.2149 REMARK 3 17 1.7300 - 1.6900 1.00 2609 152 0.1716 0.2047 REMARK 3 18 1.6900 - 1.6600 1.00 2644 159 0.1740 0.2033 REMARK 3 19 1.6600 - 1.6300 1.00 2617 155 0.1706 0.2219 REMARK 3 20 1.6300 - 1.6000 1.00 2623 123 0.1769 0.1960 REMARK 3 21 1.6000 - 1.5800 1.00 2672 130 0.1789 0.2004 REMARK 3 22 1.5800 - 1.5500 1.00 2598 135 0.1876 0.2151 REMARK 3 23 1.5500 - 1.5300 1.00 2623 135 0.1976 0.2256 REMARK 3 24 1.5300 - 1.5100 1.00 2606 133 0.1906 0.2499 REMARK 3 25 1.5100 - 1.4900 1.00 2659 139 0.2092 0.2113 REMARK 3 26 1.4900 - 1.4700 1.00 2608 130 0.2169 0.2392 REMARK 3 27 1.4700 - 1.4500 1.00 2606 152 0.2292 0.2267 REMARK 3 28 1.4500 - 1.4300 1.00 2641 136 0.2589 0.2849 REMARK 3 29 1.4300 - 1.4200 1.00 2587 140 0.2634 0.2790 REMARK 3 30 1.4200 - 1.4000 1.00 2638 122 0.3125 0.3202 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.600 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.008 3487 REMARK 3 ANGLE : 1.084 4770 REMARK 3 CHIRALITY : 0.081 533 REMARK 3 PLANARITY : 0.011 607 REMARK 3 DIHEDRAL : 18.287 1357 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 7 THROUGH 23 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.5151 -18.7135 23.8104 REMARK 3 T TENSOR REMARK 3 T11: 0.1704 T22: 0.1362 REMARK 3 T33: 0.2711 T12: 0.0344 REMARK 3 T13: 0.0118 T23: 0.0616 REMARK 3 L TENSOR REMARK 3 L11: 1.7207 L22: 0.4315 REMARK 3 L33: 0.8720 L12: 0.8457 REMARK 3 L13: -0.9377 L23: -0.5387 REMARK 3 S TENSOR REMARK 3 S11: -0.3818 S12: 0.0319 S13: -0.3486 REMARK 3 S21: -0.0527 S22: 0.1109 S23: -0.2158 REMARK 3 S31: 0.3257 S32: 0.0441 S33: -0.2032 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 24 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.4158 -15.9956 27.8523 REMARK 3 T TENSOR REMARK 3 T11: 0.1720 T22: 0.2060 REMARK 3 T33: 0.1834 T12: 0.0287 REMARK 3 T13: -0.0068 T23: 0.1044 REMARK 3 L TENSOR REMARK 3 L11: 0.3868 L22: 0.6909 REMARK 3 L33: 0.3301 L12: 0.2778 REMARK 3 L13: -0.2861 L23: -0.0299 REMARK 3 S TENSOR REMARK 3 S11: -0.0997 S12: -0.1611 S13: -0.0666 REMARK 3 S21: 0.0843 S22: -0.1181 S23: -0.0564 REMARK 3 S31: 0.1757 S32: 0.1574 S33: -0.2530 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 49 THROUGH 93 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.7927 -3.4839 6.8204 REMARK 3 T TENSOR REMARK 3 T11: 0.1325 T22: 0.1343 REMARK 3 T33: 0.1136 T12: -0.0027 REMARK 3 T13: 0.0040 T23: 0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.3743 L22: 0.1309 REMARK 3 L33: 0.1935 L12: 0.1345 REMARK 3 L13: -0.2022 L23: 0.0388 REMARK 3 S TENSOR REMARK 3 S11: -0.0219 S12: 0.0941 S13: -0.0299 REMARK 3 S21: -0.0340 S22: 0.0082 S23: 0.0438 REMARK 3 S31: 0.0083 S32: -0.1085 S33: -0.0003 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 94 THROUGH 104 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.9476 -16.6457 4.5454 REMARK 3 T TENSOR REMARK 3 T11: 0.2237 T22: 0.1679 REMARK 3 T33: 0.2559 T12: -0.0508 REMARK 3 T13: 0.0111 T23: -0.0212 REMARK 3 L TENSOR REMARK 3 L11: 0.0957 L22: 0.0488 REMARK 3 L33: 0.0992 L12: -0.0116 REMARK 3 L13: 0.0398 L23: 0.0600 REMARK 3 S TENSOR REMARK 3 S11: -0.0577 S12: 0.1021 S13: -0.2035 REMARK 3 S21: -0.1550 S22: 0.0922 S23: 0.0148 REMARK 3 S31: 0.1607 S32: -0.2503 S33: 0.0004 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 105 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.3756 -11.7507 1.3672 REMARK 3 T TENSOR REMARK 3 T11: 0.1759 T22: 0.1287 REMARK 3 T33: 0.1359 T12: -0.0151 REMARK 3 T13: 0.0124 T23: -0.0258 REMARK 3 L TENSOR REMARK 3 L11: 0.2331 L22: 0.3639 REMARK 3 L33: 0.4516 L12: -0.1335 REMARK 3 L13: -0.0666 L23: -0.3176 REMARK 3 S TENSOR REMARK 3 S11: -0.0244 S12: 0.0638 S13: -0.1340 REMARK 3 S21: -0.0981 S22: -0.0059 S23: -0.0160 REMARK 3 S31: 0.1548 S32: 0.0488 S33: -0.0382 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 148 THROUGH 210 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.8018 0.1008 -3.3748 REMARK 3 T TENSOR REMARK 3 T11: 0.1484 T22: 0.1831 REMARK 3 T33: 0.1198 T12: 0.0019 REMARK 3 T13: 0.0021 T23: -0.0002 REMARK 3 L TENSOR REMARK 3 L11: 0.4929 L22: 0.8550 REMARK 3 L33: 1.1246 L12: 0.1594 REMARK 3 L13: -0.4288 L23: -0.0893 REMARK 3 S TENSOR REMARK 3 S11: -0.0520 S12: 0.1975 S13: -0.0157 REMARK 3 S21: -0.1057 S22: 0.0346 S23: 0.0334 REMARK 3 S31: -0.0207 S32: -0.1235 S33: -0.0001 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 7 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.1426 -1.5996 17.4991 REMARK 3 T TENSOR REMARK 3 T11: 0.1362 T22: 0.1650 REMARK 3 T33: 0.1487 T12: 0.0042 REMARK 3 T13: 0.0012 T23: 0.0190 REMARK 3 L TENSOR REMARK 3 L11: 0.6665 L22: 0.3268 REMARK 3 L33: 0.4061 L12: -0.3686 REMARK 3 L13: -0.0595 L23: 0.2566 REMARK 3 S TENSOR REMARK 3 S11: -0.0392 S12: 0.0463 S13: 0.0598 REMARK 3 S21: 0.0537 S22: -0.0470 S23: 0.0781 REMARK 3 S31: -0.0741 S32: -0.0464 S33: -0.0013 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 49 THROUGH 93 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.8454 -4.2641 17.4975 REMARK 3 T TENSOR REMARK 3 T11: 0.1289 T22: 0.1227 REMARK 3 T33: 0.1403 T12: 0.0069 REMARK 3 T13: 0.0041 T23: 0.0150 REMARK 3 L TENSOR REMARK 3 L11: 0.3498 L22: 0.2776 REMARK 3 L33: 0.0677 L12: 0.0523 REMARK 3 L13: 0.0578 L23: 0.0915 REMARK 3 S TENSOR REMARK 3 S11: -0.0110 S12: -0.0753 S13: -0.0915 REMARK 3 S21: 0.0205 S22: 0.0076 S23: -0.0712 REMARK 3 S31: 0.0135 S32: 0.0305 S33: 0.0000 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 94 THROUGH 104 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.5990 5.8595 25.3744 REMARK 3 T TENSOR REMARK 3 T11: 0.1796 T22: 0.2090 REMARK 3 T33: 0.1934 T12: -0.0042 REMARK 3 T13: 0.0405 T23: -0.0107 REMARK 3 L TENSOR REMARK 3 L11: 0.1065 L22: 0.2157 REMARK 3 L33: 0.0144 L12: 0.1545 REMARK 3 L13: 0.0166 L23: 0.0155 REMARK 3 S TENSOR REMARK 3 S11: 0.1240 S12: -0.3036 S13: 0.0610 REMARK 3 S21: 0.0893 S22: 0.0366 S23: 0.0983 REMARK 3 S31: 0.0041 S32: 0.0026 S33: 0.0002 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 105 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.6285 7.1807 19.0792 REMARK 3 T TENSOR REMARK 3 T11: 0.1299 T22: 0.1263 REMARK 3 T33: 0.1365 T12: 0.0012 REMARK 3 T13: 0.0101 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.5770 L22: 0.2451 REMARK 3 L33: 0.0329 L12: -0.0020 REMARK 3 L13: -0.1617 L23: -0.0153 REMARK 3 S TENSOR REMARK 3 S11: 0.0052 S12: -0.0624 S13: 0.1365 REMARK 3 S21: -0.0030 S22: 0.0206 S23: 0.0278 REMARK 3 S31: -0.0111 S32: -0.0178 S33: -0.0000 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 148 THROUGH 209 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.9316 2.0340 11.9118 REMARK 3 T TENSOR REMARK 3 T11: 0.1220 T22: 0.1336 REMARK 3 T33: 0.1281 T12: 0.0032 REMARK 3 T13: 0.0070 T23: 0.0022 REMARK 3 L TENSOR REMARK 3 L11: 0.8829 L22: 0.7953 REMARK 3 L33: 0.5368 L12: 0.2535 REMARK 3 L13: -0.0956 L23: 0.1470 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: 0.0078 S13: -0.0078 REMARK 3 S21: -0.0175 S22: 0.0228 S23: -0.0386 REMARK 3 S31: 0.0155 S32: 0.0842 S33: 0.0000 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 9DTC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-OCT-24. REMARK 100 THE DEPOSITION ID IS D_1000288772. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-FEB-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS-II REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9786 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 83201 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 48.710 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 10.20 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 9.60 REMARK 200 R MERGE FOR SHELL (I) : 1.40700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG 4000, 0.1M TRIS, PH 8.5, 0.2 M REMARK 280 SODIUM ACETATE, KLPNC.20447.A.B1.PB00133 AT 26 MG/ML. 3 MINUTUE REMARK 280 SOAK IN 15 MM AMP AND 15 MM ADP-RIBOSE. ELECTRON DENSITY REMARK 280 CONSISTENT WITH THE ALPHA-D-RIBOSE FORM. SUBUNIT B CONTAINS AMP REMARK 280 AND ADP-RIBOSE IN THE ACTIVE SITE AND WERE REFINED WITH GROUPED REMARK 280 OCCUPANCIES. PLATE LIU-S-102, F8. PUCK: PSL-1006, CRYO: 10% REMARK 280 EXTRA PEG 4000 ADDED TO THE DROP., VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 28.71300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.99100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.87450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.99100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.71300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.87450 REMARK 290 SMTRY3 4 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: 9490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 MET A -7 REMARK 465 ALA A -6 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 HIS A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 PRO A 4 REMARK 465 THR A 5 REMARK 465 GLN A 6 REMARK 465 MET B -7 REMARK 465 ALA B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 LYS B 3 REMARK 465 PRO B 4 REMARK 465 THR B 5 REMARK 465 GLN B 6 REMARK 465 LYS B 210 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 37 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 87 CG CD OE1 OE2 REMARK 470 MET A 98 CG SD CE REMARK 470 LYS A 154 CG CD CE NZ REMARK 470 GLU A 161 CG CD OE1 OE2 REMARK 470 GLU A 162 CG CD OE1 OE2 REMARK 470 GLN B 7 CG CD OE1 NE2 REMARK 470 ARG B 26 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 161 CG CD OE1 OE2 REMARK 470 GLU B 162 CG CD OE1 OE2 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 O3P AMP B 302 O HOH B 401 2.18 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 ILE A 127 -78.74 -97.32 REMARK 500 SER A 133 77.02 -169.85 REMARK 500 HIS A 157 -158.82 -138.17 REMARK 500 ASP A 186 29.66 -149.01 REMARK 500 ILE B 127 -77.54 -95.98 REMARK 500 SER B 133 74.91 -168.10 REMARK 500 HIS B 157 -158.33 -135.09 REMARK 500 ASP B 186 35.35 -148.47 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 MG A 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 96 O REMARK 620 2 GLU A 116 OE2 85.4 REMARK 620 3 AR6 A 301 O2B 93.1 173.4 REMARK 620 4 HOH A 401 O 168.1 86.5 94.0 REMARK 620 5 HOH A 406 O 79.7 77.0 96.4 90.0 REMARK 620 6 HOH A 428 O 96.2 88.0 98.6 92.2 164.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 112 OE1 REMARK 620 2 GLU A 116 OE2 86.3 REMARK 620 3 GLU A 164 OE2 165.5 88.0 REMARK 620 4 HOH A 406 O 96.4 79.7 95.7 REMARK 620 5 HOH A 476 O 84.0 111.1 85.6 169.2 REMARK 620 6 HOH A 505 O 107.0 162.8 81.4 87.9 81.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 96 O REMARK 620 2 GLU B 116 OE2 89.1 REMARK 620 3 AR6 B 301 O1B 90.2 163.9 REMARK 620 4 AMP B 302 O3P 98.1 112.3 52.0 REMARK 620 5 HOH B 401 O 72.7 74.3 90.2 45.8 REMARK 620 6 HOH B 437 O 162.3 84.3 91.6 69.6 89.7 REMARK 620 7 HOH B 463 O 98.9 93.4 102.5 149.2 165.0 97.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 112 OE1 REMARK 620 2 GLU B 116 OE2 88.1 REMARK 620 3 GLU B 164 OE2 165.2 86.7 REMARK 620 4 HOH B 401 O 92.2 81.6 100.7 REMARK 620 5 HOH B 421 O 85.9 109.0 82.7 169.1 REMARK 620 6 HOH B 560 O 99.2 162.3 89.7 82.1 87.6 REMARK 620 N 1 2 3 4 5 DBREF1 9DTC A 1 210 UNP A0A0H3GVQ7_KLEPH DBREF2 9DTC A A0A0H3GVQ7 1 210 DBREF1 9DTC B 1 210 UNP A0A0H3GVQ7_KLEPH DBREF2 9DTC B A0A0H3GVQ7 1 210 SEQADV 9DTC MET A -7 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC ALA A -6 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS A -5 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS A -4 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS A -3 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS A -2 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS A -1 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS A 0 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC MET B -7 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC ALA B -6 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS B -5 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS B -4 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS B -3 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS B -2 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS B -1 UNP A0A0H3GVQ EXPRESSION TAG SEQADV 9DTC HIS B 0 UNP A0A0H3GVQ EXPRESSION TAG SEQRES 1 A 218 MET ALA HIS HIS HIS HIS HIS HIS MET SER LYS PRO THR SEQRES 2 A 218 GLN GLN GLY ILE THR PHE SER LYS ASN ASP VAL GLU ILE SEQRES 3 A 218 ILE ALA ARG GLU THR LEU TYR ARG GLY PHE PHE SER LEU SEQRES 4 A 218 ASP LEU TYR ARG PHE ARG HIS ARG LEU PHE ASN GLY GLY SEQRES 5 A 218 MET SER GLY GLU ILE THR ARG GLU ILE PHE GLU ARG GLY SEQRES 6 A 218 HIS ALA ALA VAL LEU LEU PRO PHE ASP PRO VAL ARG ASP SEQRES 7 A 218 GLU VAL VAL LEU VAL GLU GLN ILE ARG ILE ALA ALA TYR SEQRES 8 A 218 ASP THR SER GLU SER PRO TRP LEU LEU GLU MET VAL ALA SEQRES 9 A 218 GLY MET ILE GLU ALA GLY GLU THR VAL GLU ASP VAL ALA SEQRES 10 A 218 ARG ARG GLU ALA LEU GLU GLU ALA GLY LEU GLU VAL GLY SEQRES 11 A 218 ARG THR LYS PRO ILE LEU SER TYR LEU ALA SER PRO GLY SEQRES 12 A 218 GLY THR SER GLU ARG LEU SER ILE LEU VAL GLY GLU VAL SEQRES 13 A 218 ASP ALA SER THR ALA LYS GLY ILE HIS GLY LEU ALA GLU SEQRES 14 A 218 GLU ASN GLU ASP ILE ARG VAL HIS VAL VAL SER ARG GLU SEQRES 15 A 218 GLN ALA TYR GLN TRP VAL GLU GLU GLY LYS ILE ASP ASN SEQRES 16 A 218 ALA ALA SER VAL ILE ALA LEU GLN TRP LEU GLN LEU HIS SEQRES 17 A 218 TYR HIS ASN LEU ARG ASN GLU TRP THR LYS SEQRES 1 B 218 MET ALA HIS HIS HIS HIS HIS HIS MET SER LYS PRO THR SEQRES 2 B 218 GLN GLN GLY ILE THR PHE SER LYS ASN ASP VAL GLU ILE SEQRES 3 B 218 ILE ALA ARG GLU THR LEU TYR ARG GLY PHE PHE SER LEU SEQRES 4 B 218 ASP LEU TYR ARG PHE ARG HIS ARG LEU PHE ASN GLY GLY SEQRES 5 B 218 MET SER GLY GLU ILE THR ARG GLU ILE PHE GLU ARG GLY SEQRES 6 B 218 HIS ALA ALA VAL LEU LEU PRO PHE ASP PRO VAL ARG ASP SEQRES 7 B 218 GLU VAL VAL LEU VAL GLU GLN ILE ARG ILE ALA ALA TYR SEQRES 8 B 218 ASP THR SER GLU SER PRO TRP LEU LEU GLU MET VAL ALA SEQRES 9 B 218 GLY MET ILE GLU ALA GLY GLU THR VAL GLU ASP VAL ALA SEQRES 10 B 218 ARG ARG GLU ALA LEU GLU GLU ALA GLY LEU GLU VAL GLY SEQRES 11 B 218 ARG THR LYS PRO ILE LEU SER TYR LEU ALA SER PRO GLY SEQRES 12 B 218 GLY THR SER GLU ARG LEU SER ILE LEU VAL GLY GLU VAL SEQRES 13 B 218 ASP ALA SER THR ALA LYS GLY ILE HIS GLY LEU ALA GLU SEQRES 14 B 218 GLU ASN GLU ASP ILE ARG VAL HIS VAL VAL SER ARG GLU SEQRES 15 B 218 GLN ALA TYR GLN TRP VAL GLU GLU GLY LYS ILE ASP ASN SEQRES 16 B 218 ALA ALA SER VAL ILE ALA LEU GLN TRP LEU GLN LEU HIS SEQRES 17 B 218 TYR HIS ASN LEU ARG ASN GLU TRP THR LYS HET AR6 A 301 36 HET AMP A 302 23 HET MG A 303 1 HET MG A 304 1 HET AR6 B 301 36 HET AMP B 302 23 HET MG B 303 1 HET MG B 304 1 HETNAM AR6 [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY- HETNAM 2 AR6 OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5- HETNAM 3 AR6 TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN HETNAM 4 AR6 PHOSPHATE HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM MG MAGNESIUM ION HETSYN AR6 ADENOSINE-5-DIPHOSPHORIBOSE FORMUL 3 AR6 2(C15 H23 N5 O14 P2) FORMUL 4 AMP 2(C10 H14 N5 O7 P) FORMUL 5 MG 4(MG 2+) FORMUL 11 HOH *369(H2 O) HELIX 1 AA1 SER A 12 ASN A 14 5 3 HELIX 2 AA2 ILE A 80 SER A 86 5 7 HELIX 3 AA3 THR A 104 GLY A 118 1 15 HELIX 4 AA4 ASP A 149 ALA A 153 5 5 HELIX 5 AA5 LEU A 159 ASN A 163 5 5 HELIX 6 AA6 ARG A 173 GLU A 182 1 10 HELIX 7 AA7 ASN A 187 LYS A 210 1 24 HELIX 8 AA8 SER B 12 ASN B 14 5 3 HELIX 9 AA9 ILE B 80 SER B 86 5 7 HELIX 10 AB1 THR B 104 GLY B 118 1 15 HELIX 11 AB2 ASP B 149 ALA B 153 5 5 HELIX 12 AB3 LEU B 159 ASN B 163 5 5 HELIX 13 AB4 ARG B 173 GLU B 182 1 10 HELIX 14 AB5 ASN B 187 THR B 209 1 23 SHEET 1 AA1 3 VAL A 16 ARG A 26 0 SHEET 2 AA1 3 SER A 30 HIS A 38 -1 O LEU A 33 N GLU A 22 SHEET 3 AA1 3 ILE A 49 GLU A 55 -1 O ILE A 53 N ASP A 32 SHEET 1 AA2 5 TRP A 90 GLU A 93 0 SHEET 2 AA2 5 GLU A 71 ILE A 78 -1 N VAL A 75 O GLU A 93 SHEET 3 AA2 5 ALA A 59 ASP A 66 -1 N ASP A 66 O GLU A 71 SHEET 4 AA2 5 ARG A 140 GLU A 147 1 O GLY A 146 N LEU A 63 SHEET 5 AA2 5 THR A 124 LEU A 131 -1 N LEU A 128 O ILE A 143 SHEET 1 AA3 5 VAL A 95 MET A 98 0 SHEET 2 AA3 5 ALA A 59 ASP A 66 -1 N LEU A 62 O VAL A 95 SHEET 3 AA3 5 GLU A 71 ILE A 78 -1 O GLU A 71 N ASP A 66 SHEET 4 AA3 5 ILE A 166 SER A 172 -1 O HIS A 169 N LEU A 74 SHEET 5 AA3 5 ILE A 156 HIS A 157 -1 N HIS A 157 O ILE A 166 SHEET 1 AA4 3 VAL B 16 ARG B 26 0 SHEET 2 AA4 3 SER B 30 HIS B 38 -1 O LEU B 33 N GLU B 22 SHEET 3 AA4 3 ILE B 49 GLU B 55 -1 O ILE B 49 N PHE B 36 SHEET 1 AA5 5 TRP B 90 GLU B 93 0 SHEET 2 AA5 5 GLU B 71 ILE B 78 -1 N VAL B 75 O GLU B 93 SHEET 3 AA5 5 ALA B 59 ASP B 66 -1 N ASP B 66 O GLU B 71 SHEET 4 AA5 5 ARG B 140 GLU B 147 1 O LEU B 144 N LEU B 63 SHEET 5 AA5 5 THR B 124 LEU B 131 -1 N LEU B 128 O ILE B 143 SHEET 1 AA6 5 VAL B 95 MET B 98 0 SHEET 2 AA6 5 ALA B 59 ASP B 66 -1 N LEU B 62 O VAL B 95 SHEET 3 AA6 5 GLU B 71 ILE B 78 -1 O GLU B 71 N ASP B 66 SHEET 4 AA6 5 ILE B 166 SER B 172 -1 O HIS B 169 N LEU B 74 SHEET 5 AA6 5 ILE B 156 HIS B 157 -1 N HIS B 157 O ILE B 166 LINK O ALA A 96 MG MG A 304 1555 1555 2.25 LINK OE1 GLU A 112 MG MG A 303 1555 1555 2.20 LINK OE2 GLU A 116 MG MG A 303 1555 1555 2.10 LINK OE2 GLU A 116 MG MG A 304 1555 1555 2.18 LINK OE2 GLU A 164 MG MG A 303 1555 1555 2.25 LINK O2BAAR6 A 301 MG MG A 304 1555 1555 2.13 LINK MG MG A 303 O HOH A 406 1555 1555 2.17 LINK MG MG A 303 O HOH A 476 1555 1555 2.18 LINK MG MG A 303 O HOH A 505 1555 1555 2.17 LINK MG MG A 304 O HOH A 401 1555 1555 2.21 LINK MG MG A 304 O HOH A 406 1555 1555 2.21 LINK MG MG A 304 O HOH A 428 1555 1555 2.23 LINK O ALA B 96 MG MG B 303 1555 1555 2.31 LINK OE1 GLU B 112 MG MG B 304 1555 1555 2.14 LINK OE2 GLU B 116 MG MG B 303 1555 1555 2.20 LINK OE2 GLU B 116 MG MG B 304 1555 1555 2.14 LINK OE2 GLU B 164 MG MG B 304 1555 1555 2.30 LINK O1BBAR6 B 301 MG MG B 303 1555 1555 2.15 LINK O3PAAMP B 302 MG MG B 303 1555 1555 3.00 LINK MG MG B 303 O HOH B 401 1555 1555 2.44 LINK MG MG B 303 O HOH B 437 1555 1555 2.24 LINK MG MG B 303 O HOH B 463 1555 1555 2.35 LINK MG MG B 304 O HOH B 401 1555 1555 2.15 LINK MG MG B 304 O HOH B 421 1555 1555 2.07 LINK MG MG B 304 O HOH B 560 1555 1555 2.12 CRYST1 57.426 79.749 91.982 90.00 90.00 90.00 P 21 21 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 0.017414 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012539 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010872 0.00000