HEADER PROTEIN BINDING 25-AUG-17 5Y9J TITLE BAFF IN COMPLEX WITH BELIMUMAB COMPND MOL_ID: 1; COMPND 2 MOLECULE: BELIBUMAB LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: BELIMUMAB HEAVY CHAIN; COMPND 7 CHAIN: H; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 13B; COMPND 11 CHAIN: A; COMPND 12 SYNONYM: B LYMPHOCYTE STIMULATOR,BLYS,B-CELL-ACTIVATING FACTOR,BAFF, COMPND 13 DENDRITIC CELL-DERIVED TNF-LIKE MOLECULE,TNF- AND APOL-RELATED COMPND 14 LEUKOCYTE EXPRESSED LIGAND 1,TALL-1; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: TNFSF13B, BAFF, BLYS, TALL1, TNFSF20, ZTNF4, UNQ401/PRO738; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BAFF, BELIMUMAB, ANTIBODY, LUPUS, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR Y.-S.HEO,W.SHIN REVDAT 2 04-SEP-19 5Y9J 1 JRNL REVDAT 1 21-FEB-18 5Y9J 0 JRNL AUTH W.SHIN,H.T.LEE,H.LIM,S.H.LEE,J.Y.SON,J.U.LEE,K.Y.YOO, JRNL AUTH 2 S.E.RYU,J.RHIE,J.Y.LEE,Y.S.HEO JRNL TITL BAFF-NEUTRALIZING INTERACTION OF BELIMUMAB RELATED TO ITS JRNL TITL 2 THERAPEUTIC EFFICACY FOR TREATING SYSTEMIC LUPUS JRNL TITL 3 ERYTHEMATOSUS. JRNL REF NAT COMMUN V. 9 1200 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 29572471 JRNL DOI 10.1038/S41467-018-03620-2 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.28 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 48698 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2457 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 26.2819 - 5.3586 0.97 2700 149 0.1661 0.1924 REMARK 3 2 5.3586 - 4.2592 0.98 2650 153 0.1290 0.1681 REMARK 3 3 4.2592 - 3.7225 0.99 2631 133 0.1488 0.1699 REMARK 3 4 3.7225 - 3.3829 0.99 2680 131 0.1592 0.2054 REMARK 3 5 3.3829 - 3.1409 0.99 2630 147 0.1732 0.2132 REMARK 3 6 3.1409 - 2.9559 0.97 2557 153 0.1847 0.2184 REMARK 3 7 2.9559 - 2.8081 0.96 2550 139 0.1915 0.2359 REMARK 3 8 2.8081 - 2.6860 0.95 2487 133 0.2094 0.2247 REMARK 3 9 2.6860 - 2.5827 0.95 2509 129 0.2102 0.2623 REMARK 3 10 2.5827 - 2.4936 0.94 2487 121 0.2284 0.2314 REMARK 3 11 2.4936 - 2.4157 0.95 2548 118 0.2344 0.2833 REMARK 3 12 2.4157 - 2.3467 0.94 2436 148 0.2348 0.3483 REMARK 3 13 2.3467 - 2.2849 0.94 2509 120 0.2317 0.2855 REMARK 3 14 2.2849 - 2.2292 0.96 2524 130 0.2344 0.3124 REMARK 3 15 2.2292 - 2.1786 0.97 2558 125 0.2290 0.2721 REMARK 3 16 2.1786 - 2.1322 0.98 2590 131 0.2253 0.2616 REMARK 3 17 2.1322 - 2.0896 0.99 2574 162 0.2264 0.2607 REMARK 3 18 2.0896 - 2.0502 0.99 2621 135 0.2393 0.2724 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.970 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 : 0.007 4432 REMARK 3 ANGLE : 1.129 6025 REMARK 3 CHIRALITY : 0.047 683 REMARK 3 PLANARITY : 0.008 777 REMARK 3 DIHEDRAL : 13.453 1592 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'L' AND ((RESSEQ 111:211)) REMARK 3 ORIGIN FOR THE GROUP (A): 44.5347 50.1643 67.4291 REMARK 3 T TENSOR REMARK 3 T11: 0.3037 T22: 0.2620 REMARK 3 T33: 0.2853 T12: -0.0097 REMARK 3 T13: -0.0020 T23: 0.0225 REMARK 3 L TENSOR REMARK 3 L11: 3.6967 L22: 2.8080 REMARK 3 L33: 5.2164 L12: -0.6814 REMARK 3 L13: -1.6168 L23: 0.0041 REMARK 3 S TENSOR REMARK 3 S11: 0.1395 S12: -0.2220 S13: 0.2795 REMARK 3 S21: 0.1418 S22: 0.0043 S23: -0.2301 REMARK 3 S31: -0.2458 S32: 0.0856 S33: -0.1149 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'L' AND ((RESSEQ 2:110)) REMARK 3 ORIGIN FOR THE GROUP (A): 41.6932 13.8948 52.9879 REMARK 3 T TENSOR REMARK 3 T11: 0.2758 T22: 0.2730 REMARK 3 T33: 0.2058 T12: -0.0608 REMARK 3 T13: 0.0312 T23: -0.0465 REMARK 3 L TENSOR REMARK 3 L11: 2.4556 L22: 5.1198 REMARK 3 L33: 2.1518 L12: 1.0413 REMARK 3 L13: -0.4886 L23: -0.9186 REMARK 3 S TENSOR REMARK 3 S11: -0.0611 S12: 0.0271 S13: -0.0946 REMARK 3 S21: -0.2580 S22: 0.0513 S23: -0.2137 REMARK 3 S31: -0.0227 S32: 0.2131 S33: 0.0056 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'H' AND ((RESSEQ 2:123)) REMARK 3 ORIGIN FOR THE GROUP (A): 29.9103 13.0969 71.2499 REMARK 3 T TENSOR REMARK 3 T11: 0.2473 T22: 0.3091 REMARK 3 T33: 0.2344 T12: -0.0428 REMARK 3 T13: -0.0017 T23: -0.0173 REMARK 3 L TENSOR REMARK 3 L11: 0.7636 L22: 3.8127 REMARK 3 L33: 3.8753 L12: 1.3781 REMARK 3 L13: 1.4889 L23: 2.7376 REMARK 3 S TENSOR REMARK 3 S11: -0.0347 S12: -0.0500 S13: 0.0373 REMARK 3 S21: 0.0683 S22: -0.0299 S23: 0.1299 REMARK 3 S31: -0.0815 S32: 0.0573 S33: 0.0486 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'H' AND ((RESSEQ 124:224)) REMARK 3 ORIGIN FOR THE GROUP (A): 28.9844 44.9991 69.9380 REMARK 3 T TENSOR REMARK 3 T11: 0.2796 T22: 0.4250 REMARK 3 T33: 0.2890 T12: -0.0019 REMARK 3 T13: -0.0134 T23: 0.0753 REMARK 3 L TENSOR REMARK 3 L11: 2.4468 L22: 4.2871 REMARK 3 L33: 4.3129 L12: -0.9259 REMARK 3 L13: 1.1863 L23: -1.6445 REMARK 3 S TENSOR REMARK 3 S11: -0.0387 S12: -0.3573 S13: -0.1259 REMARK 3 S21: -0.0397 S22: 0.3439 S23: 0.4661 REMARK 3 S31: -0.1489 S32: -0.6970 S33: -0.3073 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' REMARK 3 ORIGIN FOR THE GROUP (A): 29.8279 -17.1739 55.9756 REMARK 3 T TENSOR REMARK 3 T11: 0.1918 T22: 0.2223 REMARK 3 T33: 0.1868 T12: -0.0230 REMARK 3 T13: -0.0371 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 2.5445 L22: 1.6936 REMARK 3 L33: 1.6944 L12: -0.8829 REMARK 3 L13: -1.0456 L23: 0.7951 REMARK 3 S TENSOR REMARK 3 S11: 0.0233 S12: -0.1069 S13: 0.0232 REMARK 3 S21: 0.1079 S22: 0.0360 S23: -0.1945 REMARK 3 S31: -0.0225 S32: 0.2245 S33: -0.0428 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 5Y9J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1300004893. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-SEP-16 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 : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48698 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 200 DATA REDUNDANCY : 14.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 52.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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 (%): 60.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS(HYDROXYMETHYL)AMINOMETHANE REMARK 280 PH 8.5, 20% (W/V)POLYETHYLENE GLYCOL 1,000, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 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 67.00050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.00050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 67.00050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.00050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 67.00050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 67.00050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 67.00050 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 67.00050 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 67.00050 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 67.00050 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 67.00050 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 67.00050 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 67.00050 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 67.00050 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 67.00050 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 67.00050 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 67.00050 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 67.00050 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, 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 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 306 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 343 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 367 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 424 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 431 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 436 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 SER L 1 REMARK 465 GLU L 212 REMARK 465 CYS L 213 REMARK 465 SER L 214 REMARK 465 GLN H 1 REMARK 465 SER H 138 REMARK 465 LYS H 139 REMARK 465 SER H 140 REMARK 465 THR H 141 REMARK 465 SER H 142 REMARK 465 SER H 225 REMARK 465 CYS H 226 REMARK 465 ASP H 227 REMARK 465 LYS H 228 REMARK 465 THR H 229 REMARK 465 HIS H 230 REMARK 465 HIS H 231 REMARK 465 HIS H 232 REMARK 465 HIS H 233 REMARK 465 HIS H 234 REMARK 465 HIS H 235 REMARK 465 ALA A 134 REMARK 465 VAL A 135 REMARK 465 GLN A 136 REMARK 465 GLY A 137 REMARK 465 PRO A 138 REMARK 465 GLU A 139 REMARK 465 GLU A 140 REMARK 465 THR A 141 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 H 393 O HOH H 462 1.86 REMARK 500 OE1 GLN A 260 O HOH A 301 1.86 REMARK 500 O HOH A 328 O HOH A 358 1.90 REMARK 500 O HOH A 330 O HOH A 411 1.91 REMARK 500 O HOH H 426 O HOH H 431 1.93 REMARK 500 O HOH L 329 O HOH L 462 2.02 REMARK 500 O HOH L 448 O HOH L 461 2.06 REMARK 500 O HOH H 411 O HOH H 460 2.06 REMARK 500 O HOH A 433 O HOH A 434 2.12 REMARK 500 O HOH L 433 O HOH L 471 2.12 REMARK 500 OG SER L 167 O HOH L 301 2.14 REMARK 500 OG SER H 171 O HOH H 301 2.15 REMARK 500 O HOH L 392 O HOH L 465 2.18 REMARK 500 O HOH H 359 O HOH H 463 2.19 REMARK 500 O HOH L 445 O HOH H 403 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 382 O HOH A 414 10545 1.86 REMARK 500 O HOH A 401 O HOH A 401 10545 1.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO H 112 C - N - CD ANGL. DEV. = -16.2 DEGREES 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 ALA L 83 175.15 177.94 REMARK 500 HIS L 96 -169.63 60.28 REMARK 500 ASP L 153 -114.79 55.39 REMARK 500 SER H 16 -158.57 -88.27 REMARK 500 ASN H 30 -130.56 44.08 REMARK 500 ALA H 109 -159.81 -125.14 REMARK 500 SER H 111 113.10 -178.06 REMARK 500 ASP H 154 61.43 63.81 REMARK 500 ASN A 242 87.31 -158.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER H 111 PRO H 112 57.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SER H 111 11.08 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 L 477 DISTANCE = 6.90 ANGSTROMS REMARK 525 HOH H 487 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH A 436 DISTANCE = 6.79 ANGSTROMS DBREF 5Y9J L 1 214 PDB 5Y9J 5Y9J 1 214 DBREF 5Y9J H 1 235 PDB 5Y9J 5Y9J 1 235 DBREF 5Y9J A 134 285 UNP Q9Y275 TN13B_HUMAN 134 285 SEQRES 1 L 214 SER SER GLU LEU THR GLN ASP PRO ALA VAL SER VAL ALA SEQRES 2 L 214 LEU GLY GLN THR VAL ARG VAL THR CYS GLN GLY ASP SER SEQRES 3 L 214 LEU ARG SER TYR TYR ALA SER TRP TYR GLN GLN LYS PRO SEQRES 4 L 214 GLY GLN ALA PRO VAL LEU VAL ILE TYR GLY LYS ASN ASN SEQRES 5 L 214 ARG PRO SER GLY ILE PRO ASP ARG PHE SER GLY SER SER SEQRES 6 L 214 SER GLY ASN THR ALA SER LEU THR ILE THR GLY ALA GLN SEQRES 7 L 214 ALA GLU ASP GLU ALA ASP TYR TYR CYS SER SER ARG ASP SEQRES 8 L 214 SER SER GLY ASN HIS TRP VAL PHE GLY GLY GLY THR GLU SEQRES 9 L 214 LEU THR VAL LEU GLY GLN PRO LYS ALA ALA PRO SER VAL SEQRES 10 L 214 THR LEU PHE PRO PRO SER SER GLU GLU LEU GLN ALA ASN SEQRES 11 L 214 LYS ALA THR LEU VAL CYS LEU ILE SER ASP PHE TYR PRO SEQRES 12 L 214 GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SER SER PRO SEQRES 13 L 214 VAL LYS ALA GLY VAL GLU THR THR THR PRO SER LYS GLN SEQRES 14 L 214 SER ASN ASN LYS TYR ALA ALA SER SER TYR LEU SER LEU SEQRES 15 L 214 THR PRO GLU GLN TRP LYS SER HIS ARG SER TYR SER CYS SEQRES 16 L 214 GLN VAL THR HIS GLU GLY SER THR VAL GLU LYS THR VAL SEQRES 17 L 214 ALA PRO THR GLU CYS SER SEQRES 1 H 235 GLN VAL GLN LEU GLN GLN SER GLY ALA GLU VAL LYS LYS SEQRES 2 H 235 PRO GLY SER SER VAL ARG VAL SER CYS LYS ALA SER GLY SEQRES 3 H 235 GLY THR PHE ASN ASN ASN ALA ILE ASN TRP VAL ARG GLN SEQRES 4 H 235 ALA PRO GLY GLN GLY LEU GLU TRP MET GLY GLY ILE ILE SEQRES 5 H 235 PRO MET PHE GLY THR ALA LYS TYR SER GLN ASN PHE GLN SEQRES 6 H 235 GLY ARG VAL ALA ILE THR ALA ASP GLU SER THR GLY THR SEQRES 7 H 235 ALA SER MET GLU LEU SER SER LEU ARG SER GLU ASP THR SEQRES 8 H 235 ALA VAL TYR TYR CYS ALA ARG SER ARG ASP LEU LEU LEU SEQRES 9 H 235 PHE PRO HIS HIS ALA LEU SER PRO TRP GLY ARG GLY THR SEQRES 10 H 235 MET VAL THR VAL SER SER ALA SER THR LYS GLY PRO SER SEQRES 11 H 235 VAL PHE PRO LEU ALA PRO SER SER LYS SER THR SER GLY SEQRES 12 H 235 GLY THR ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE SEQRES 13 H 235 PRO GLU PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU SEQRES 14 H 235 THR SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SEQRES 15 H 235 SER GLY LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SEQRES 16 H 235 SER SER SER LEU GLY THR GLN THR TYR ILE CYS ASN VAL SEQRES 17 H 235 ASN HIS LYS PRO SER ASN THR LYS VAL ASP LYS LYS VAL SEQRES 18 H 235 GLU PRO LYS SER CYS ASP LYS THR HIS HIS HIS HIS HIS SEQRES 19 H 235 HIS SEQRES 1 A 152 ALA VAL GLN GLY PRO GLU GLU THR VAL THR GLN ASP CYS SEQRES 2 A 152 LEU GLN LEU ILE ALA ASP SER GLU THR PRO THR ILE GLN SEQRES 3 A 152 LYS GLY SER TYR THR PHE VAL PRO TRP LEU LEU SER PHE SEQRES 4 A 152 LYS ARG GLY SER ALA LEU GLU GLU LYS GLU ASN LYS ILE SEQRES 5 A 152 LEU VAL LYS GLU THR GLY TYR PHE PHE ILE TYR GLY GLN SEQRES 6 A 152 VAL LEU TYR THR ASP LYS THR TYR ALA MET GLY HIS LEU SEQRES 7 A 152 ILE GLN ARG LYS LYS VAL HIS VAL PHE GLY ASP GLU LEU SEQRES 8 A 152 SER LEU VAL THR LEU PHE ARG CYS ILE GLN ASN MET PRO SEQRES 9 A 152 GLU THR LEU PRO ASN ASN SER CYS TYR SER ALA GLY ILE SEQRES 10 A 152 ALA LYS LEU GLU GLU GLY ASP GLU LEU GLN LEU ALA ILE SEQRES 11 A 152 PRO ARG GLU ASN ALA GLN ILE SER LEU ASP GLY ASP VAL SEQRES 12 A 152 THR PHE PHE GLY ALA LEU LYS LEU LEU FORMUL 4 HOH *500(H2 O) HELIX 1 AA1 ASP L 25 SER L 29 5 5 HELIX 2 AA2 GLN L 78 GLU L 82 5 5 HELIX 3 AA3 SER L 123 ALA L 129 1 7 HELIX 4 AA4 THR L 183 HIS L 190 1 8 HELIX 5 AA5 GLU H 74 THR H 76 5 3 HELIX 6 AA6 ARG H 87 THR H 91 5 5 HELIX 7 AA7 SER H 166 ALA H 168 5 3 HELIX 8 AA8 SER H 197 LEU H 199 5 3 HELIX 9 AA9 LYS H 211 ASN H 214 5 4 SHEET 1 AA1 4 THR L 5 GLN L 6 0 SHEET 2 AA1 4 VAL L 18 GLN L 23 -1 O GLN L 23 N THR L 5 SHEET 3 AA1 4 THR L 69 ILE L 74 -1 O ALA L 70 N CYS L 22 SHEET 4 AA1 4 PHE L 61 SER L 66 -1 N SER L 62 O THR L 73 SHEET 1 AA2 5 ALA L 9 ALA L 13 0 SHEET 2 AA2 5 THR L 103 LEU L 108 1 O LEU L 108 N VAL L 12 SHEET 3 AA2 5 ALA L 83 SER L 89 -1 N ALA L 83 O LEU L 105 SHEET 4 AA2 5 SER L 33 GLN L 37 -1 N TYR L 35 O TYR L 86 SHEET 5 AA2 5 VAL L 44 ILE L 47 -1 O ILE L 47 N TRP L 34 SHEET 1 AA3 4 ALA L 9 ALA L 13 0 SHEET 2 AA3 4 THR L 103 LEU L 108 1 O LEU L 108 N VAL L 12 SHEET 3 AA3 4 ALA L 83 SER L 89 -1 N ALA L 83 O LEU L 105 SHEET 4 AA3 4 VAL L 98 PHE L 99 -1 O VAL L 98 N SER L 89 SHEET 1 AA4 4 SER L 116 PHE L 120 0 SHEET 2 AA4 4 ALA L 132 PHE L 141 -1 O LEU L 137 N THR L 118 SHEET 3 AA4 4 TYR L 174 LEU L 182 -1 O SER L 178 N CYS L 136 SHEET 4 AA4 4 VAL L 161 THR L 163 -1 N GLU L 162 O TYR L 179 SHEET 1 AA5 4 SER L 116 PHE L 120 0 SHEET 2 AA5 4 ALA L 132 PHE L 141 -1 O LEU L 137 N THR L 118 SHEET 3 AA5 4 TYR L 174 LEU L 182 -1 O SER L 178 N CYS L 136 SHEET 4 AA5 4 SER L 167 LYS L 168 -1 N SER L 167 O ALA L 175 SHEET 1 AA6 4 SER L 155 VAL L 157 0 SHEET 2 AA6 4 THR L 147 ALA L 152 -1 N ALA L 152 O SER L 155 SHEET 3 AA6 4 TYR L 193 HIS L 199 -1 O GLN L 196 N ALA L 149 SHEET 4 AA6 4 SER L 202 VAL L 208 -1 O VAL L 204 N VAL L 197 SHEET 1 AA7 4 LEU H 4 GLN H 6 0 SHEET 2 AA7 4 VAL H 18 ALA H 24 -1 O LYS H 23 N GLN H 5 SHEET 3 AA7 4 THR H 78 LEU H 83 -1 O ALA H 79 N CYS H 22 SHEET 4 AA7 4 VAL H 68 ASP H 73 -1 N ALA H 69 O GLU H 82 SHEET 1 AA8 6 GLU H 10 LYS H 12 0 SHEET 2 AA8 6 THR H 117 VAL H 121 1 O THR H 120 N GLU H 10 SHEET 3 AA8 6 ALA H 92 SER H 99 -1 N ALA H 92 O VAL H 119 SHEET 4 AA8 6 ALA H 33 GLN H 39 -1 N ALA H 33 O SER H 99 SHEET 5 AA8 6 LEU H 45 ILE H 51 -1 O MET H 48 N TRP H 36 SHEET 6 AA8 6 LYS H 59 TYR H 60 -1 O LYS H 59 N GLY H 50 SHEET 1 AA9 4 SER H 130 LEU H 134 0 SHEET 2 AA9 4 THR H 145 TYR H 155 -1 O GLY H 149 N LEU H 134 SHEET 3 AA9 4 TYR H 186 PRO H 195 -1 O LEU H 188 N VAL H 152 SHEET 4 AA9 4 VAL H 173 THR H 175 -1 N HIS H 174 O VAL H 191 SHEET 1 AB1 4 SER H 130 LEU H 134 0 SHEET 2 AB1 4 THR H 145 TYR H 155 -1 O GLY H 149 N LEU H 134 SHEET 3 AB1 4 TYR H 186 PRO H 195 -1 O LEU H 188 N VAL H 152 SHEET 4 AB1 4 VAL H 179 LEU H 180 -1 N VAL H 179 O SER H 187 SHEET 1 AB2 3 THR H 161 TRP H 164 0 SHEET 2 AB2 3 ILE H 205 HIS H 210 -1 O ASN H 207 N SER H 163 SHEET 3 AB2 3 THR H 215 LYS H 220 -1 O VAL H 217 N VAL H 208 SHEET 1 AB3 5 TRP A 168 ARG A 174 0 SHEET 2 AB3 5 CYS A 146 ALA A 151 -1 N CYS A 146 O ARG A 174 SHEET 3 AB3 5 PHE A 278 LYS A 283 -1 O PHE A 279 N LEU A 149 SHEET 4 AB3 5 GLY A 191 TYR A 201 -1 N PHE A 194 O LEU A 282 SHEET 5 AB3 5 ASN A 243 LEU A 253 -1 O GLY A 249 N ILE A 195 SHEET 1 AB4 2 ILE A 158 LYS A 160 0 SHEET 2 AB4 2 TYR A 163 PHE A 165 -1 O PHE A 165 N ILE A 158 SHEET 1 AB5 5 LEU A 178 LYS A 181 0 SHEET 2 AB5 5 LYS A 184 VAL A 187 -1 O LEU A 186 N GLU A 179 SHEET 3 AB5 5 GLU A 258 ALA A 262 -1 O LEU A 259 N ILE A 185 SHEET 4 AB5 5 ALA A 207 LYS A 215 -1 N LYS A 215 O GLU A 258 SHEET 5 AB5 5 LEU A 226 ASN A 235 -1 O VAL A 227 N ARG A 214 SSBOND 1 CYS L 22 CYS L 87 1555 1555 2.05 SSBOND 2 CYS L 136 CYS L 195 1555 1555 2.05 SSBOND 3 CYS H 22 CYS H 96 1555 1555 2.06 SSBOND 4 CYS H 150 CYS H 206 1555 1555 2.04 CISPEP 1 TYR L 142 PRO L 143 0 1.08 CISPEP 2 PHE H 156 PRO H 157 0 -6.19 CISPEP 3 GLU H 158 PRO H 159 0 1.80 CRYST1 134.001 134.001 134.001 90.00 90.00 90.00 P 21 3 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 0.007463 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007463 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007463 0.00000