HEADER SUGAR BINDING PROTEIN 14-DEC-18 6NDR TITLE CRYSTAL STRUCTURE OF DTDP-6-DEOXY-D-GLUCOSE-3,5-EPIMERASE RMLC FROM TITLE 2 LEGIONELLA PNEUMOPHILA PHILADELPHIA 1 IN COMPLEX WITH DTDP-4-KETO-L- TITLE 3 RHAMNOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DTDP-4-DEHYDRORHAMNOSE 3,5-EPIMERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA STR. SOURCE 3 PHILADELPHIA 1; SOURCE 4 ORGANISM_TAXID: 272624; SOURCE 5 ATCC: 33152; SOURCE 6 GENE: LPG0756; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS SSGCID, DTDP-4-DEHYDRORHAMNOSE 3, 5-EPIMERASE, DTDP-6-DEOXY-D- KEYWDS 2 GLUCOSE-3, RMLC, LPG0756, LEGIONELLA PNEUMOPHILA, STRUCTURAL KEYWDS 3 GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, KEYWDS 4 SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 2 11-OCT-23 6NDR 1 REMARK REVDAT 1 26-DEC-18 6NDR 0 JRNL AUTH J.ABENDROTH,M.-S.SCHULZE,S.J.MAYCLIN,D.D.LORIMER, JRNL AUTH 2 P.S.HORANYI,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF DTDP-6-DEOXY-D-GLUCOSE-3,5-EPIMERASE JRNL TITL 2 RMLC FROM LEGIONELLA PNEUMOPHILA PHILADELPHIA 1 IN COMPLEX JRNL TITL 3 WITH DTDP-4-KETO-L-RHAMNOSE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.20 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 57344 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.176 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1949 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 47.2228 - 3.8556 1.00 4211 157 0.1365 0.1435 REMARK 3 2 3.8556 - 3.0605 1.00 4120 138 0.1303 0.1605 REMARK 3 3 3.0605 - 2.6736 1.00 4096 143 0.1567 0.1856 REMARK 3 4 2.6736 - 2.4292 0.99 4077 121 0.1559 0.1629 REMARK 3 5 2.4292 - 2.2551 0.99 4023 160 0.1494 0.1839 REMARK 3 6 2.2551 - 2.1221 1.00 4089 125 0.1500 0.1895 REMARK 3 7 2.1221 - 2.0159 1.00 4026 141 0.1553 0.1847 REMARK 3 8 2.0159 - 1.9281 1.00 4019 160 0.1550 0.1926 REMARK 3 9 1.9281 - 1.8539 0.98 3976 141 0.1653 0.1928 REMARK 3 10 1.8539 - 1.7899 0.96 3943 130 0.1799 0.2172 REMARK 3 11 1.7899 - 1.7339 0.95 3837 132 0.1840 0.2396 REMARK 3 12 1.7339 - 1.6844 0.93 3728 140 0.1791 0.2194 REMARK 3 13 1.6844 - 1.6400 0.91 3659 152 0.1888 0.2414 REMARK 3 14 1.6400 - 1.6000 0.89 3591 109 0.2024 0.2255 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 3343 REMARK 3 ANGLE : 1.019 4571 REMARK 3 CHIRALITY : 0.073 490 REMARK 3 PLANARITY : 0.006 605 REMARK 3 DIHEDRAL : 14.821 2003 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 13 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 0 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.2947 -2.3469 44.9281 REMARK 3 T TENSOR REMARK 3 T11: 0.1728 T22: 0.0847 REMARK 3 T33: 0.1659 T12: 0.0310 REMARK 3 T13: 0.0284 T23: -0.0345 REMARK 3 L TENSOR REMARK 3 L11: 5.9560 L22: 2.7180 REMARK 3 L33: 4.0268 L12: -0.4514 REMARK 3 L13: -0.5220 L23: 0.7829 REMARK 3 S TENSOR REMARK 3 S11: 0.1302 S12: -0.0131 S13: 0.3230 REMARK 3 S21: 0.1777 S22: 0.1278 S23: 0.0163 REMARK 3 S31: -0.6182 S32: -0.1035 S33: -0.2566 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 12 THROUGH 31 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.1075 1.3693 27.2532 REMARK 3 T TENSOR REMARK 3 T11: 0.2811 T22: 0.1190 REMARK 3 T33: 0.1857 T12: 0.0479 REMARK 3 T13: 0.0024 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 2.5293 L22: 0.9672 REMARK 3 L33: 3.4234 L12: 0.0719 REMARK 3 L13: 1.0698 L23: -0.1757 REMARK 3 S TENSOR REMARK 3 S11: 0.0648 S12: 0.3416 S13: 0.1333 REMARK 3 S21: -0.2006 S22: -0.0322 S23: 0.0659 REMARK 3 S31: -0.6906 S32: -0.0797 S33: 0.0020 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 32 THROUGH 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.3527 -14.9394 35.7426 REMARK 3 T TENSOR REMARK 3 T11: 0.0781 T22: 0.1018 REMARK 3 T33: 0.1316 T12: 0.0278 REMARK 3 T13: 0.0056 T23: -0.0077 REMARK 3 L TENSOR REMARK 3 L11: 1.2976 L22: 0.8294 REMARK 3 L33: 2.0868 L12: 0.4015 REMARK 3 L13: -0.2114 L23: -0.0434 REMARK 3 S TENSOR REMARK 3 S11: -0.0203 S12: -0.0146 S13: -0.0234 REMARK 3 S21: -0.0362 S22: -0.0401 S23: 0.0024 REMARK 3 S31: 0.0139 S32: 0.0418 S33: 0.0536 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 71 THROUGH 125 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.5788 -12.3452 40.6120 REMARK 3 T TENSOR REMARK 3 T11: 0.0747 T22: 0.1003 REMARK 3 T33: 0.1249 T12: 0.0091 REMARK 3 T13: -0.0012 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 1.1214 L22: 0.7331 REMARK 3 L33: 2.8150 L12: -0.0016 REMARK 3 L13: 0.1767 L23: -0.4182 REMARK 3 S TENSOR REMARK 3 S11: -0.0059 S12: 0.0222 S13: 0.0055 REMARK 3 S21: -0.0252 S22: -0.0224 S23: -0.0067 REMARK 3 S31: -0.0457 S32: -0.1580 S33: 0.0197 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 126 THROUGH 145 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.8468 -21.5301 34.9641 REMARK 3 T TENSOR REMARK 3 T11: 0.1486 T22: 0.1127 REMARK 3 T33: 0.1826 T12: -0.0094 REMARK 3 T13: -0.0094 T23: -0.0203 REMARK 3 L TENSOR REMARK 3 L11: 0.5883 L22: 0.5484 REMARK 3 L33: 1.5593 L12: 0.1378 REMARK 3 L13: -0.9059 L23: -0.5916 REMARK 3 S TENSOR REMARK 3 S11: -0.0538 S12: -0.0006 S13: -0.2034 REMARK 3 S21: -0.0978 S22: -0.0158 S23: 0.0221 REMARK 3 S31: 0.2662 S32: -0.0601 S33: 0.0604 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 146 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.8269 -23.2300 41.7625 REMARK 3 T TENSOR REMARK 3 T11: 0.1115 T22: 0.1738 REMARK 3 T33: 0.2061 T12: -0.0712 REMARK 3 T13: 0.0131 T23: -0.0332 REMARK 3 L TENSOR REMARK 3 L11: 1.5939 L22: 4.4783 REMARK 3 L33: 3.3522 L12: -0.2515 REMARK 3 L13: -0.1352 L23: 0.7532 REMARK 3 S TENSOR REMARK 3 S11: 0.0400 S12: 0.0810 S13: -0.2440 REMARK 3 S21: -0.1485 S22: -0.1002 S23: 0.1610 REMARK 3 S31: 0.2966 S32: -0.4161 S33: 0.0299 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 170 THROUGH 187 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.4315 -25.3795 52.0251 REMARK 3 T TENSOR REMARK 3 T11: 0.1154 T22: 0.1329 REMARK 3 T33: 0.1336 T12: 0.0021 REMARK 3 T13: 0.0092 T23: 0.0320 REMARK 3 L TENSOR REMARK 3 L11: 6.6015 L22: 7.5318 REMARK 3 L33: 0.9995 L12: 4.3210 REMARK 3 L13: 0.7948 L23: 0.9423 REMARK 3 S TENSOR REMARK 3 S11: 0.1003 S12: -0.4458 S13: -0.4755 REMARK 3 S21: 0.1169 S22: -0.1326 S23: -0.3912 REMARK 3 S31: 0.1514 S32: -0.0264 S33: -0.0179 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 0 THROUGH 31 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.1054 -20.5328 17.1328 REMARK 3 T TENSOR REMARK 3 T11: 0.2025 T22: 0.1144 REMARK 3 T33: 0.1685 T12: 0.0120 REMARK 3 T13: 0.0087 T23: -0.0275 REMARK 3 L TENSOR REMARK 3 L11: 2.2698 L22: 1.4724 REMARK 3 L33: 3.2623 L12: 0.2593 REMARK 3 L13: -1.4044 L23: -0.4725 REMARK 3 S TENSOR REMARK 3 S11: -0.1752 S12: 0.0856 S13: -0.2056 REMARK 3 S21: -0.1217 S22: 0.0250 S23: 0.0764 REMARK 3 S31: 0.4249 S32: -0.1326 S33: 0.2977 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 32 THROUGH 46 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.4409 -15.7732 23.6232 REMARK 3 T TENSOR REMARK 3 T11: 0.1694 T22: 0.2554 REMARK 3 T33: 0.1773 T12: 0.0437 REMARK 3 T13: 0.0046 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 2.6734 L22: 3.1020 REMARK 3 L33: 5.8458 L12: 0.9359 REMARK 3 L13: -0.0835 L23: 1.5176 REMARK 3 S TENSOR REMARK 3 S11: 0.0012 S12: 0.1449 S13: -0.2939 REMARK 3 S21: -0.0834 S22: 0.0166 S23: -0.2706 REMARK 3 S31: 0.2597 S32: 0.6138 S33: -0.0457 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 47 THROUGH 125 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.1114 -5.6242 12.0741 REMARK 3 T TENSOR REMARK 3 T11: 0.1633 T22: 0.1290 REMARK 3 T33: 0.1223 T12: 0.0073 REMARK 3 T13: 0.0053 T23: 0.0092 REMARK 3 L TENSOR REMARK 3 L11: 1.0982 L22: 0.8000 REMARK 3 L33: 2.3987 L12: 0.1697 REMARK 3 L13: -0.3227 L23: -0.2186 REMARK 3 S TENSOR REMARK 3 S11: 0.0115 S12: 0.0726 S13: 0.0416 REMARK 3 S21: -0.0376 S22: -0.0290 S23: -0.0529 REMARK 3 S31: -0.1924 S32: 0.0214 S33: 0.0177 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 126 THROUGH 145 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.5460 0.6784 18.7940 REMARK 3 T TENSOR REMARK 3 T11: 0.2657 T22: 0.1515 REMARK 3 T33: 0.1908 T12: -0.0014 REMARK 3 T13: 0.0194 T23: 0.0155 REMARK 3 L TENSOR REMARK 3 L11: 0.1625 L22: 0.6777 REMARK 3 L33: 2.2434 L12: 0.3145 REMARK 3 L13: -0.5885 L23: -0.8042 REMARK 3 S TENSOR REMARK 3 S11: 0.0679 S12: 0.1232 S13: 0.1797 REMARK 3 S21: 0.0549 S22: -0.0501 S23: -0.0098 REMARK 3 S31: -0.5410 S32: 0.0644 S33: 0.0211 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 146 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.6650 2.4054 2.6199 REMARK 3 T TENSOR REMARK 3 T11: 0.2877 T22: 0.1724 REMARK 3 T33: 0.1339 T12: 0.0787 REMARK 3 T13: 0.0032 T23: 0.0473 REMARK 3 L TENSOR REMARK 3 L11: 2.6889 L22: 4.7790 REMARK 3 L33: 3.7663 L12: 0.3690 REMARK 3 L13: -1.3873 L23: 0.9791 REMARK 3 S TENSOR REMARK 3 S11: 0.1568 S12: 0.2624 S13: 0.2345 REMARK 3 S21: -0.1555 S22: -0.1434 S23: 0.1252 REMARK 3 S31: -0.3984 S32: -0.2361 S33: -0.0528 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 170 THROUGH 187 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.5445 4.9688 6.0530 REMARK 3 T TENSOR REMARK 3 T11: 0.2523 T22: 0.2433 REMARK 3 T33: 0.1299 T12: -0.0764 REMARK 3 T13: 0.0186 T23: 0.0507 REMARK 3 L TENSOR REMARK 3 L11: 9.2256 L22: 5.3265 REMARK 3 L33: 5.9901 L12: -2.1247 REMARK 3 L13: 1.3722 L23: -1.3401 REMARK 3 S TENSOR REMARK 3 S11: 0.0728 S12: 0.2966 S13: 0.1540 REMARK 3 S21: 0.1767 S22: -0.2263 S23: -0.2532 REMARK 3 S31: -0.3656 S32: 0.6514 S33: 0.1773 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 6NDR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-DEC-18. REMARK 100 THE DEPOSITION ID IS D_1000238631. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : RIGAKU VARIMAX REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57363 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 47.202 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 4.036 REMARK 200 R MERGE (I) : 0.03000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.84 REMARK 200 R MERGE FOR SHELL (I) : 0.35900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.020 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MORDA REMARK 200 STARTING MODEL: PDB ENTRY 2IXI AS PER MORDA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MICROLYTIC MCSG1 SCREEN, CONDITION E4: REMARK 280 200MM LITHIUM SULFATE, 25% PEG 3350, 100MM TRIS BASE / HCL PH REMARK 280 8.5: LEPNA.18372.A.B1.PW38444 AT 17.2MG/ML. CRYO: 20% EG: TRAY: REMARK 280 300303E4G8: PUCK UHG9-6., VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 51.69000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.08000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.69000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.08000 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: 7180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 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 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 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 HIS A 0 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 105 CG CD OE1 OE2 REMARK 470 GLU A 160 CG CD OE1 OE2 REMARK 470 HIS B 0 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 22 CG CD OE1 OE2 REMARK 470 GLU B 105 CG CD OE1 OE2 REMARK 470 GLU B 160 CG CD OE1 OE2 REMARK 470 GLN B 161 CG CD OE1 NE2 REMARK 470 ARG B 184 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 186 CG CD OE1 NE2 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 HOH A 416 O HOH A 521 2.07 REMARK 500 OH TYR B 137 O HOH B 301 2.08 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 THR B 6 -169.95 -113.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 580 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A 581 DISTANCE = 5.90 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TDO A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TDO B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 206 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SSGCID-LEPNA.18372.A RELATED DB: TARGETTRACK DBREF 6NDR A 1 187 UNP Q5ZXH5 Q5ZXH5_LEGPH 1 187 DBREF 6NDR B 1 187 UNP Q5ZXH5 Q5ZXH5_LEGPH 1 187 SEQADV 6NDR MET A -7 UNP Q5ZXH5 INITIATING METHIONINE SEQADV 6NDR ALA A -6 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS A -5 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS A -4 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS A -3 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS A -2 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS A -1 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS A 0 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR MET B -7 UNP Q5ZXH5 INITIATING METHIONINE SEQADV 6NDR ALA B -6 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS B -5 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS B -4 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS B -3 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS B -2 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS B -1 UNP Q5ZXH5 EXPRESSION TAG SEQADV 6NDR HIS B 0 UNP Q5ZXH5 EXPRESSION TAG SEQRES 1 A 195 MET ALA HIS HIS HIS HIS HIS HIS MET ASN ILE ILE ASN SEQRES 2 A 195 THR GLN ILE ASP GLU LEU LYS ILE ILE GLU PRO LYS ILE SEQRES 3 A 195 TYR GLY ASP GLU ARG GLY PHE PHE TYR GLU SER PHE GLN SEQRES 4 A 195 ALA LYS ARG TYR GLU GLU LEU LEU GLY ILE THR ASP ARG SEQRES 5 A 195 PHE VAL GLN ASP ASN PHE SER ARG SER GLN LYS GLY VAL SEQRES 6 A 195 LEU ARG GLY LEU HIS TYR GLN SER GLN GLN THR GLN GLY SEQRES 7 A 195 LYS LEU VAL SER VAL LEU ALA GLY GLU VAL PHE ASP VAL SEQRES 8 A 195 ALA VAL ASP ILE ARG LEU GLY SER PRO THR PHE GLY GLN SEQRES 9 A 195 TRP VAL GLY VAL ILE LEU SER GLY GLU ASN LYS ARG GLN SEQRES 10 A 195 PHE TRP ILE PRO LYS GLY PHE ALA HIS GLY PHE TYR VAL SEQRES 11 A 195 LEU SER ALA MET ALA ASP PHE ALA TYR LYS CYS THR ASP SEQRES 12 A 195 TYR TYR HIS PRO GLU SER GLU PHE SER ILE HIS TYR LEU SEQRES 13 A 195 ASP PRO GLN LEU ALA ILE ASP TRP PRO LEU GLY GLU GLN SEQRES 14 A 195 VAL GLN LEU SER PRO LYS ASP ALA ALA ALA LYS LEU LEU SEQRES 15 A 195 ASN LEU ILE ASP ALA GLU LEU LEU PRO ARG TYR GLN ALA SEQRES 1 B 195 MET ALA HIS HIS HIS HIS HIS HIS MET ASN ILE ILE ASN SEQRES 2 B 195 THR GLN ILE ASP GLU LEU LYS ILE ILE GLU PRO LYS ILE SEQRES 3 B 195 TYR GLY ASP GLU ARG GLY PHE PHE TYR GLU SER PHE GLN SEQRES 4 B 195 ALA LYS ARG TYR GLU GLU LEU LEU GLY ILE THR ASP ARG SEQRES 5 B 195 PHE VAL GLN ASP ASN PHE SER ARG SER GLN LYS GLY VAL SEQRES 6 B 195 LEU ARG GLY LEU HIS TYR GLN SER GLN GLN THR GLN GLY SEQRES 7 B 195 LYS LEU VAL SER VAL LEU ALA GLY GLU VAL PHE ASP VAL SEQRES 8 B 195 ALA VAL ASP ILE ARG LEU GLY SER PRO THR PHE GLY GLN SEQRES 9 B 195 TRP VAL GLY VAL ILE LEU SER GLY GLU ASN LYS ARG GLN SEQRES 10 B 195 PHE TRP ILE PRO LYS GLY PHE ALA HIS GLY PHE TYR VAL SEQRES 11 B 195 LEU SER ALA MET ALA ASP PHE ALA TYR LYS CYS THR ASP SEQRES 12 B 195 TYR TYR HIS PRO GLU SER GLU PHE SER ILE HIS TYR LEU SEQRES 13 B 195 ASP PRO GLN LEU ALA ILE ASP TRP PRO LEU GLY GLU GLN SEQRES 14 B 195 VAL GLN LEU SER PRO LYS ASP ALA ALA ALA LYS LEU LEU SEQRES 15 B 195 ASN LEU ILE ASP ALA GLU LEU LEU PRO ARG TYR GLN ALA HET EDO A 201 4 HET EDO A 202 4 HET EDO A 203 4 HET SO4 A 204 5 HET SO4 A 205 5 HET TDO A 206 35 HET EDO A 207 4 HET TDO B 201 35 HET EDO B 202 4 HET EDO B 203 4 HET EDO B 204 4 HET EDO B 205 4 HET SO4 B 206 5 HETNAM EDO 1,2-ETHANEDIOL HETNAM SO4 SULFATE ION HETNAM TDO DTDP-4-KETO-L-RHAMNOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 8(C2 H6 O2) FORMUL 6 SO4 3(O4 S 2-) FORMUL 8 TDO 2(C16 H24 N2 O15 P2) FORMUL 16 HOH *526(H2 O) HELIX 1 AA1 ALA A 32 GLY A 40 1 9 HELIX 2 AA2 HIS A 138 GLU A 140 5 3 HELIX 3 AA3 SER A 165 ALA A 170 1 6 HELIX 4 AA4 LEU A 173 ILE A 177 5 5 HELIX 5 AA5 ASP A 178 LEU A 182 5 5 HELIX 6 AA6 ALA B 32 GLY B 40 1 9 HELIX 7 AA7 HIS B 138 GLU B 140 5 3 HELIX 8 AA8 SER B 165 ALA B 170 1 6 HELIX 9 AA9 LEU B 173 ILE B 177 5 5 HELIX 10 AB1 ASP B 178 LEU B 182 5 5 SHEET 1 AA1 8 ASN A 2 ASN A 5 0 SHEET 2 AA1 8 LYS A 12 GLU A 15 -1 O ILE A 13 N ILE A 4 SHEET 3 AA1 8 GLN A 109 ILE A 112 -1 O TRP A 111 N LYS A 12 SHEET 4 AA1 8 LYS A 71 ALA A 77 -1 N LYS A 71 O ILE A 112 SHEET 5 AA1 8 MET A 126 CYS A 133 -1 O ALA A 130 N SER A 74 SHEET 6 AA1 8 GLN A 47 GLN A 54 -1 N GLN A 47 O CYS A 133 SHEET 7 AA1 8 GLY B 24 GLN B 31 -1 O TYR B 27 N PHE A 50 SHEET 8 AA1 8 TYR B 19 ASP B 21 -1 N TYR B 19 O PHE B 26 SHEET 1 AA2 8 TYR A 19 ASP A 21 0 SHEET 2 AA2 8 GLY A 24 GLN A 31 -1 O PHE A 26 N TYR A 19 SHEET 3 AA2 8 GLN B 47 GLN B 54 -1 O PHE B 50 N TYR A 27 SHEET 4 AA2 8 MET B 126 CYS B 133 -1 O CYS B 133 N GLN B 47 SHEET 5 AA2 8 LYS B 71 ALA B 77 -1 N ALA B 77 O ASP B 128 SHEET 6 AA2 8 GLN B 109 ILE B 112 -1 O ILE B 112 N LYS B 71 SHEET 7 AA2 8 LYS B 12 GLU B 15 -1 N LYS B 12 O TRP B 111 SHEET 8 AA2 8 ASN B 2 ASN B 5 -1 N ILE B 4 O ILE B 13 SHEET 1 AA3 5 TRP A 97 SER A 103 0 SHEET 2 AA3 5 GLU A 79 ASP A 86 -1 N ASP A 82 O VAL A 100 SHEET 3 AA3 5 PHE A 116 VAL A 122 -1 O GLY A 119 N VAL A 83 SHEET 4 AA3 5 LEU A 58 GLN A 64 -1 N HIS A 62 O HIS A 118 SHEET 5 AA3 5 GLU A 142 SER A 144 -1 O PHE A 143 N TYR A 63 SHEET 1 AA4 5 TRP B 97 SER B 103 0 SHEET 2 AA4 5 GLU B 79 ASP B 86 -1 N ASP B 82 O VAL B 100 SHEET 3 AA4 5 PHE B 116 VAL B 122 -1 O GLY B 119 N VAL B 83 SHEET 4 AA4 5 LEU B 58 GLN B 64 -1 N HIS B 62 O HIS B 118 SHEET 5 AA4 5 GLU B 142 SER B 144 -1 O PHE B 143 N TYR B 63 CISPEP 1 GLY A 60 LEU A 61 0 -7.36 CISPEP 2 GLY B 60 LEU B 61 0 -6.17 SITE 1 AC1 7 GLU A 15 ASN A 106 ARG A 108 HOH A 316 SITE 2 AC1 7 HOH A 359 HOH A 370 HOH A 407 SITE 1 AC2 6 GLN A 7 VAL A 98 GLY A 99 LEU A 173 SITE 2 AC2 6 HOH A 301 HOH A 305 SITE 1 AC3 3 GLU A 79 ASN A 175 HOH A 323 SITE 1 AC4 8 ALA A 77 GLY A 78 GLY A 104 HOH A 315 SITE 2 AC4 8 HOH A 362 HOH A 422 HOH A 445 ARG B 52 SITE 1 AC5 6 TYR A 136 ARG A 184 HOH A 326 HOH A 366 SITE 2 AC5 6 LYS B 33 HOH B 434 SITE 1 AC6 19 GLN A 47 ASN A 49 ARG A 59 HIS A 62 SITE 2 AC6 19 LYS A 71 HIS A 118 TYR A 131 TYR A 137 SITE 3 AC6 19 GLU A 142 LYS A 167 HOH A 302 HOH A 306 SITE 4 AC6 19 HOH A 398 HOH A 428 HOH A 482 TYR B 19 SITE 5 AC6 19 ARG B 23 PHE B 26 GLU B 28 SITE 1 AC7 6 SER A 29 LEU A 76 HOH A 392 HOH A 405 SITE 2 AC7 6 ASN B 49 EDO B 202 SITE 1 AC8 21 TYR A 19 ARG A 23 PHE A 26 GLU A 28 SITE 2 AC8 21 GLN B 47 ASN B 49 ARG B 59 HIS B 62 SITE 3 AC8 21 LYS B 71 HIS B 118 TYR B 131 TYR B 137 SITE 4 AC8 21 GLU B 142 LYS B 167 HOH B 301 HOH B 302 SITE 5 AC8 21 HOH B 317 HOH B 359 HOH B 411 HOH B 414 SITE 6 AC8 21 HOH B 449 SITE 1 AC9 6 ASN A 49 EDO A 207 SER B 29 LEU B 76 SITE 2 AC9 6 HOH B 344 HOH B 395 SITE 1 AD1 7 GLU B 15 ASN B 106 ARG B 108 HOH B 334 SITE 2 AD1 7 HOH B 339 HOH B 362 HOH B 378 SITE 1 AD2 6 GLN B 7 VAL B 98 GLY B 99 LEU B 173 SITE 2 AD2 6 HOH B 305 HOH B 314 SITE 1 AD3 3 GLU B 79 ASN B 175 HOH B 476 SITE 1 AD4 8 ARG A 52 ALA B 77 GLY B 78 GLY B 104 SITE 2 AD4 8 HOH B 309 HOH B 336 HOH B 374 HOH B 462 CRYST1 103.380 46.160 102.030 90.00 112.29 90.00 C 1 2 1 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 0.009673 0.000000 0.003966 0.00000 SCALE2 0.000000 0.021664 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010593 0.00000