HEADER TRANSFERASE/ANTIBIOTIC 06-JUN-19 6P81 TITLE STRUCTURE OF DNA POLYMERASE III, BETA SUBUNIT/ BETA SLIDING CLAMP FROM TITLE 2 KLEBSIELLA PNEUMONIAE, EXPRESSED WITH AN N-TERMINAL HIS-SMT3 FUSION TITLE 3 TAG, IN COMPLEX WITH GRISELIMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-LIKE PROTEIN SMT3,BETA SLIDING CLAMP; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KLPNA.17987.A.EN11; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: GRISELIMYCIN; COMPND 8 CHAIN: B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 3 S288C), KLEBSIELLA PNEUMONIAE IS22; SOURCE 4 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 5 ORGANISM_TAXID: 559292, 1432547; SOURCE 6 STRAIN: ATCC 204508 / S288C; SOURCE 7 VARIANT: IS22; SOURCE 8 GENE: SMT3, YDR510W, D9719.15; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 11 EXPRESSION_SYSTEM_VARIANT: BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: KLPNA.17987.A.EN11; SOURCE 14 MOL_ID: 2; SOURCE 15 ORGANISM_SCIENTIFIC: STREPTOMYCES CAELICUS; SOURCE 16 ORGANISM_TAXID: 1520516 KEYWDS SSGCID, BETA SLIDING CLAMP, DNA POLYMERASE III, BETA SUBUNIT, KEYWDS 2 GRISELIMYCIN, HIS-SMT3 FUSION, STRUCTURAL GENOMICS, SEATTLE KEYWDS 3 STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, TRANSFERASE- KEYWDS 4 ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 15-NOV-23 6P81 1 LINK REVDAT 2 11-OCT-23 6P81 1 LINK REVDAT 1 10-JUL-19 6P81 0 JRNL AUTH J.ABENDROTH,D.D.LORIMER,P.S.HORANYI,T.E.EDWARDS JRNL TITL STRUCTURE OF DNA POLYMERASE III, BETA SUBUNIT/ BETA SLIDING JRNL TITL 2 CLAMP FROM KLEBSIELLA PNEUMONIAE, EXPRESSED WITH AN JRNL TITL 3 N-TERMINAL HIS-SMT3 FUSION TAG, IN COMPLEX WITH GRISELIMYCIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.75 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 56482 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.620 REMARK 3 FREE R VALUE TEST SET COUNT : 2045 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 47.0314 - 4.3148 0.99 3814 155 0.1660 0.1882 REMARK 3 2 4.3148 - 3.4251 1.00 3707 119 0.1496 0.1564 REMARK 3 3 3.4251 - 2.9923 1.00 3663 139 0.1753 0.2020 REMARK 3 4 2.9923 - 2.7187 1.00 3631 130 0.1992 0.2423 REMARK 3 5 2.7187 - 2.5239 1.00 3648 135 0.1922 0.2385 REMARK 3 6 2.5239 - 2.3751 1.00 3624 135 0.1922 0.2292 REMARK 3 7 2.3751 - 2.2561 1.00 3601 155 0.1956 0.2262 REMARK 3 8 2.2561 - 2.1579 1.00 3597 138 0.1980 0.2462 REMARK 3 9 2.1579 - 2.0748 1.00 3613 133 0.2076 0.2682 REMARK 3 10 2.0748 - 2.0032 1.00 3612 124 0.2234 0.2459 REMARK 3 11 2.0032 - 1.9406 1.00 3572 138 0.2209 0.2441 REMARK 3 12 1.9406 - 1.8851 1.00 3602 137 0.2293 0.2428 REMARK 3 13 1.8851 - 1.8355 1.00 3580 139 0.2449 0.2605 REMARK 3 14 1.8355 - 1.7907 1.00 3590 131 0.2582 0.3408 REMARK 3 15 1.7907 - 1.7500 1.00 3583 137 0.2709 0.2738 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.13 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.82 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 : 0.006 3612 REMARK 3 ANGLE : 0.850 4911 REMARK 3 CHIRALITY : 0.054 570 REMARK 3 PLANARITY : 0.005 648 REMARK 3 DIHEDRAL : 13.186 2246 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 254 THROUGH 366 ) REMARK 3 ORIGIN FOR THE GROUP (A): 53.6320 69.6684 83.7241 REMARK 3 T TENSOR REMARK 3 T11: 0.1589 T22: 0.1981 REMARK 3 T33: 0.2370 T12: -0.0212 REMARK 3 T13: -0.0788 T23: 0.0468 REMARK 3 L TENSOR REMARK 3 L11: 1.0119 L22: 2.2752 REMARK 3 L33: 1.9396 L12: 0.4251 REMARK 3 L13: -0.1542 L23: 0.2531 REMARK 3 S TENSOR REMARK 3 S11: -0.0808 S12: 0.0066 S13: 0.0892 REMARK 3 S21: -0.2939 S22: 0.1594 S23: 0.2974 REMARK 3 S31: -0.1308 S32: -0.1175 S33: -0.0614 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -77 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.6258 12.3433 58.7150 REMARK 3 T TENSOR REMARK 3 T11: 0.6480 T22: 0.4640 REMARK 3 T33: 0.3707 T12: -0.0185 REMARK 3 T13: -0.0863 T23: -0.0628 REMARK 3 L TENSOR REMARK 3 L11: 1.2337 L22: 1.4765 REMARK 3 L33: 6.2048 L12: -0.4797 REMARK 3 L13: 0.9682 L23: 1.4026 REMARK 3 S TENSOR REMARK 3 S11: 0.1624 S12: 0.2922 S13: -0.1933 REMARK 3 S21: -0.6966 S22: -0.4205 S23: 0.3952 REMARK 3 S31: 0.2116 S32: -0.6453 S33: 0.2080 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 18 THROUGH 101 ) REMARK 3 ORIGIN FOR THE GROUP (A): 53.7956 19.1172 76.4874 REMARK 3 T TENSOR REMARK 3 T11: 0.2084 T22: 0.1698 REMARK 3 T33: 0.1942 T12: -0.0817 REMARK 3 T13: -0.0184 T23: 0.0208 REMARK 3 L TENSOR REMARK 3 L11: 2.9119 L22: 2.4588 REMARK 3 L33: 3.1622 L12: -0.9292 REMARK 3 L13: 1.3564 L23: -0.9578 REMARK 3 S TENSOR REMARK 3 S11: -0.0807 S12: 0.0165 S13: 0.0493 REMARK 3 S21: -0.2485 S22: 0.0996 S23: 0.1730 REMARK 3 S31: -0.0336 S32: -0.0841 S33: 0.0089 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 102 THROUGH 196 ) REMARK 3 ORIGIN FOR THE GROUP (A): 52.0671 42.7549 68.4383 REMARK 3 T TENSOR REMARK 3 T11: 0.4726 T22: 0.2940 REMARK 3 T33: 0.3138 T12: -0.1241 REMARK 3 T13: -0.1440 T23: 0.0605 REMARK 3 L TENSOR REMARK 3 L11: -0.2041 L22: 2.9072 REMARK 3 L33: 0.1963 L12: 0.3412 REMARK 3 L13: -0.0758 L23: -0.3065 REMARK 3 S TENSOR REMARK 3 S11: -0.2079 S12: 0.0227 S13: 0.0428 REMARK 3 S21: -0.8300 S22: 0.1716 S23: 0.2340 REMARK 3 S31: -0.0514 S32: -0.0231 S33: 0.0422 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 197 THROUGH 253 ) REMARK 3 ORIGIN FOR THE GROUP (A): 53.0954 44.9364 66.5975 REMARK 3 T TENSOR REMARK 3 T11: 0.5508 T22: 0.2934 REMARK 3 T33: 0.3095 T12: -0.1511 REMARK 3 T13: -0.1844 T23: 0.0706 REMARK 3 L TENSOR REMARK 3 L11: 0.2627 L22: 4.7983 REMARK 3 L33: 0.9479 L12: -0.5583 REMARK 3 L13: -0.1983 L23: -0.3526 REMARK 3 S TENSOR REMARK 3 S11: -0.1361 S12: 0.1335 S13: 0.0653 REMARK 3 S21: -0.8627 S22: 0.1208 S23: 0.1512 REMARK 3 S31: -0.1535 S32: -0.0090 S33: 0.0274 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 6P81 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1000242079. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAY-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : C(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56497 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 47.014 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.393 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.42 REMARK 200 R MERGE FOR SHELL (I) : 0.61600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.140 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MORDA, PARROT REMARK 200 STARTING MODEL: PDB ENTRIES 3DLG AND REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MICROLYTIC MCSG-2, CONDITION D4: 30% REMARK 280 (V/V) PEG 300, 200MM CALCIUM ACETATE, 100MM SODIUM ACETATE / REMARK 280 ACETIC ACID PH 4.5: KLPNA.17987.A.EN11.PD383542 AT 20.95MG/ML + REMARK 280 2MM GRISELIMYCIN: TRAY 309729 D4: CRYO: DIRECT: PUCK ECJ6-1., REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+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 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 35.51000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 41.55000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 94.09000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.51000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 41.55000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 94.09000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.51000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 41.55000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 94.09000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.51000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 41.55000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 94.09000 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: 1140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 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 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE ACE-MVA-MP8-NZC-LEU-MP8-LEU-MVA-PRO-MLU-GLY IS PEPTIDE-LIKE, A REMARK 400 MEMBER OF INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ACE-MVA-MP8-NZC-LEU-MP8-LEU-MVA-PRO-MLU-GLY REMARK 400 CHAIN: B REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 -95 REMARK 465 GLY A -94 REMARK 465 HIS A -93 REMARK 465 HIS A -92 REMARK 465 HIS A -91 REMARK 465 HIS A -90 REMARK 465 HIS A -89 REMARK 465 HIS A -88 REMARK 465 SER A -87 REMARK 465 GLY A -86 REMARK 465 GLU A -85 REMARK 465 VAL A -84 REMARK 465 LYS A -83 REMARK 465 PRO A -82 REMARK 465 GLU A -81 REMARK 465 VAL A -80 REMARK 465 LYS A -79 REMARK 465 PRO A -78 REMARK 465 LEU A 21 REMARK 465 GLY A 22 REMARK 465 GLY A 209 REMARK 465 GLY A 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 GLU A -77 CG CD OE1 OE2 REMARK 470 LYS A -58 CG CD CE NZ REMARK 470 LYS A -57 CG CD CE NZ REMARK 470 LYS A -44 CG CD CE NZ REMARK 470 GLU A -39 CG CD OE1 OE2 REMARK 470 ASP A -37 CG OD1 OD2 REMARK 470 GLN A -25 CG CD OE1 NE2 REMARK 470 ARG A -5 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 12 CG CD CE NZ REMARK 470 ARG A 24 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 121 CG OD1 OD2 REMARK 470 GLN A 123 CG CD OE1 NE2 REMARK 470 GLN A 186 CG CD OE1 NE2 REMARK 470 LYS A 198 CG CD CE NZ REMARK 470 ASP A 208 CG OD1 OD2 REMARK 470 ASP A 211 CG OD1 OD2 REMARK 470 ASN A 212 CG OD1 ND2 REMARK 470 ARG A 240 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 250 CG CD CE NZ 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 ASP A 121 O HOH A 1101 2.16 REMARK 500 O HOH A 1334 O HOH A 1424 2.19 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 SER A -66 -48.20 -130.02 REMARK 500 LEU A 49 -20.56 85.50 REMARK 500 PRO A 213 -168.34 -76.10 REMARK 500 LYS A 332 79.31 -101.71 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 A1488 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH A1489 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A1490 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH A1491 DISTANCE = 7.02 ANGSTROMS 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 CA A 400 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 6 OE1 REMARK 620 2 GLU A 6 OE2 52.1 REMARK 620 3 GLY A 85 O 79.2 127.5 REMARK 620 4 GLU A 87 OE2 106.6 91.5 84.0 REMARK 620 5 HOH A1145 O 129.2 79.3 151.7 86.5 REMARK 620 6 HOH A1197 O 79.9 91.9 98.3 173.4 88.6 REMARK 620 7 HOH A1306 O 148.7 157.2 75.2 88.4 77.9 86.3 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG5 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for ACE-MVA-MP8-NZC-LEU-MP8-LEU-MVA REMARK 800 -PRO-MLU-GLY chain B REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: KLPNA.17987.A RELATED DB: TARGETTRACK DBREF 6P81 A -85 0 UNP Q12306 SMT3_YEAST 13 98 DBREF 6P81 A 1 366 UNP W1BGQ6 W1BGQ6_KLEPN 1 366 DBREF 6P81 B 1001 1011 PDB 6P81 6P81 1001 1011 SEQADV 6P81 MET A -95 UNP Q12306 INITIATING METHIONINE SEQADV 6P81 GLY A -94 UNP Q12306 EXPRESSION TAG SEQADV 6P81 HIS A -93 UNP Q12306 EXPRESSION TAG SEQADV 6P81 HIS A -92 UNP Q12306 EXPRESSION TAG SEQADV 6P81 HIS A -91 UNP Q12306 EXPRESSION TAG SEQADV 6P81 HIS A -90 UNP Q12306 EXPRESSION TAG SEQADV 6P81 HIS A -89 UNP Q12306 EXPRESSION TAG SEQADV 6P81 HIS A -88 UNP Q12306 EXPRESSION TAG SEQADV 6P81 SER A -87 UNP Q12306 EXPRESSION TAG SEQADV 6P81 GLY A -86 UNP Q12306 EXPRESSION TAG SEQRES 1 A 462 MET GLY HIS HIS HIS HIS HIS HIS SER GLY GLU VAL LYS SEQRES 2 A 462 PRO GLU VAL LYS PRO GLU THR HIS ILE ASN LEU LYS VAL SEQRES 3 A 462 SER ASP GLY SER SER GLU ILE PHE PHE LYS ILE LYS LYS SEQRES 4 A 462 THR THR PRO LEU ARG ARG LEU MET GLU ALA PHE ALA LYS SEQRES 5 A 462 ARG GLN GLY LYS GLU MET ASP SER LEU ARG PHE LEU TYR SEQRES 6 A 462 ASP GLY ILE ARG ILE GLN ALA ASP GLN THR PRO GLU ASP SEQRES 7 A 462 LEU ASP MET GLU ASP ASN ASP ILE ILE GLU ALA HIS ARG SEQRES 8 A 462 GLU GLN ILE GLY GLY MET LYS PHE THR VAL GLU ARG GLU SEQRES 9 A 462 HIS LEU LEU LYS PRO LEU GLN GLN VAL SER GLY PRO LEU SEQRES 10 A 462 GLY GLY ARG PRO THR LEU PRO ILE LEU GLY ASN LEU LEU SEQRES 11 A 462 LEU GLN VAL ALA ASP GLY THR LEU SER LEU THR GLY THR SEQRES 12 A 462 ASP LEU GLU MET GLU MET VAL ALA ARG VAL ALA LEU VAL SEQRES 13 A 462 GLN PRO HIS GLU PRO GLY ALA THR THR VAL PRO ALA ARG SEQRES 14 A 462 LYS PHE PHE ASP ILE CYS ARG GLY LEU PRO GLU GLY ALA SEQRES 15 A 462 GLU ILE ALA VAL GLN LEU GLU GLY GLU ARG MET LEU VAL SEQRES 16 A 462 ARG SER GLY ARG SER ARG PHE SER LEU SER THR LEU PRO SEQRES 17 A 462 ALA ALA ASP PHE PRO ASN LEU ASP ASP TRP GLN SER GLU SEQRES 18 A 462 VAL GLU PHE THR LEU PRO GLN ALA THR MET LYS ARG LEU SEQRES 19 A 462 ILE GLU ALA THR GLN PHE SER MET ALA HIS GLN ASP VAL SEQRES 20 A 462 ARG TYR TYR LEU ASN GLY MET LEU PHE GLU THR GLU GLY SEQRES 21 A 462 GLU GLU LEU ARG THR VAL ALA THR ASP GLY HIS ARG LEU SEQRES 22 A 462 ALA VAL CYS SER MET PRO ILE GLY GLN SER LEU PRO SER SEQRES 23 A 462 HIS SER VAL ILE VAL PRO ARG LYS GLY VAL ILE GLU LEU SEQRES 24 A 462 MET ARG MET LEU ASP GLY GLY ASP ASN PRO LEU ARG VAL SEQRES 25 A 462 GLN ILE GLY SER ASN ASN ILE ARG ALA HIS VAL GLY ASP SEQRES 26 A 462 PHE ILE PHE THR SER LYS LEU VAL ASP GLY ARG PHE PRO SEQRES 27 A 462 ASP TYR ARG ARG VAL LEU PRO LYS ASN PRO ASP LYS HIS SEQRES 28 A 462 LEU GLU ALA GLY CYS ASP LEU LEU LYS GLN ALA PHE ALA SEQRES 29 A 462 ARG ALA ALA ILE LEU SER ASN GLU LYS PHE ARG GLY VAL SEQRES 30 A 462 ARG LEU TYR VAL SER GLU ASN GLN LEU LYS ILE THR ALA SEQRES 31 A 462 ASN ASN PRO GLU GLN GLU GLU ALA GLU GLU ILE LEU ASP SEQRES 32 A 462 VAL THR TYR SER GLY ALA GLU MET GLU ILE GLY PHE ASN SEQRES 33 A 462 VAL SER TYR VAL LEU ASP VAL LEU ASN ALA LEU LYS CYS SEQRES 34 A 462 GLU ASN VAL ARG MET MET LEU THR ASP SER VAL SER SER SEQRES 35 A 462 VAL GLN ILE GLU ASP ALA ALA SER GLN SER ALA ALA TYR SEQRES 36 A 462 VAL VAL MET PRO MET ARG LEU SEQRES 1 B 11 ACE MVA MP8 NZC LEU MP8 LEU MVA PRO MLU GLY HET ACE B1001 3 HET MVA B1002 8 HET MP8 B1003 8 HET NZC B1004 8 HET MP8 B1006 8 HET MVA B1008 8 HET MLU B1010 9 HET CA A 400 1 HET PG5 A 401 12 HET ACT A 402 4 HET CL A 403 1 HETNAM ACE ACETYL GROUP HETNAM MVA N-METHYLVALINE HETNAM MP8 (4R)-4-METHYL-L-PROLINE HETNAM NZC N-METHYLIDENE-L-THREONINE HETNAM MLU N-METHYL-D-LEUCINE HETNAM CA CALCIUM ION HETNAM PG5 1-METHOXY-2-[2-(2-METHOXY-ETHOXY]-ETHANE HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION FORMUL 2 ACE C2 H4 O FORMUL 2 MVA 2(C6 H13 N O2) FORMUL 2 MP8 2(C6 H11 N O2) FORMUL 2 NZC C5 H11 N O3 FORMUL 2 MLU C7 H15 N O2 FORMUL 3 CA CA 2+ FORMUL 4 PG5 C8 H18 O4 FORMUL 5 ACT C2 H3 O2 1- FORMUL 6 CL CL 1- FORMUL 7 HOH *398(H2 O) HELIX 1 AA1 LEU A -53 GLN A -42 1 12 HELIX 2 AA2 GLU A -39 ASP A -37 5 3 HELIX 3 AA3 ARG A 7 SER A 18 1 12 HELIX 4 AA4 LEU A 27 LEU A 30 5 4 HELIX 5 AA5 ALA A 72 LEU A 82 1 11 HELIX 6 AA6 PRO A 112 PHE A 116 5 5 HELIX 7 AA7 PRO A 131 GLN A 143 1 13 HELIX 8 AA8 PHE A 144 MET A 146 5 3 HELIX 9 AA9 ARG A 152 GLY A 157 5 6 HELIX 10 AB1 PRO A 196 MET A 206 1 11 HELIX 11 AB2 ASP A 243 VAL A 247 5 5 HELIX 12 AB3 CYS A 260 ILE A 272 1 13 HELIX 13 AB4 VAL A 321 LEU A 331 1 11 SHEET 1 AA1 5 GLU A -64 LYS A -58 0 SHEET 2 AA1 5 HIS A -75 SER A -69 -1 N ILE A -74 O ILE A -59 SHEET 3 AA1 5 ASP A -11 ARG A -5 1 O ILE A -9 N LYS A -71 SHEET 4 AA1 5 LEU A -35 TYR A -31 -1 N ARG A -34 O HIS A -6 SHEET 5 AA1 5 ILE A -28 ARG A -27 -1 O ILE A -28 N TYR A -31 SHEET 1 AA2 4 LYS A 2 GLU A 6 0 SHEET 2 AA2 4 GLU A 87 GLU A 93 -1 O ILE A 88 N VAL A 5 SHEET 3 AA2 4 ARG A 96 SER A 101 -1 O ARG A 100 N ALA A 89 SHEET 4 AA2 4 SER A 104 SER A 109 -1 O PHE A 106 N VAL A 99 SHEET 1 AA3 8 GLY A 66 PRO A 71 0 SHEET 2 AA3 8 ASN A 32 ALA A 38 -1 N LEU A 35 O THR A 68 SHEET 3 AA3 8 THR A 41 THR A 47 -1 O SER A 43 N GLN A 36 SHEET 4 AA3 8 MET A 51 ALA A 58 -1 O VAL A 57 N LEU A 42 SHEET 5 AA3 8 PHE A 230 LYS A 235 -1 O THR A 233 N GLU A 52 SHEET 6 AA3 8 ASN A 222 VAL A 227 -1 N ALA A 225 O PHE A 232 SHEET 7 AA3 8 LEU A 214 ILE A 218 -1 N ARG A 215 O HIS A 226 SHEET 8 AA3 8 VAL A 126 LEU A 130 -1 N PHE A 128 O VAL A 216 SHEET 1 AA4 6 LYS A 254 GLY A 259 0 SHEET 2 AA4 6 ASN A 335 LEU A 340 -1 O LEU A 340 N LYS A 254 SHEET 3 AA4 6 VAL A 347 ASP A 351 -1 O GLN A 348 N MET A 339 SHEET 4 AA4 6 SER A 354 VAL A 361 -1 O TYR A 359 N ILE A 349 SHEET 5 AA4 6 ARG A 176 VAL A 195 -1 N VAL A 179 O ALA A 358 SHEET 6 AA4 6 MET A 158 THR A 172 -1 O GLU A 165 N ILE A 184 SHEET 1 AA5 4 GLU A 301 ASP A 307 0 SHEET 2 AA5 4 GLN A 289 ASN A 295 -1 N ILE A 292 O GLU A 304 SHEET 3 AA5 4 GLY A 280 SER A 286 -1 N TYR A 284 O LYS A 291 SHEET 4 AA5 4 MET A 315 ASN A 320 -1 O ILE A 317 N LEU A 283 LINK C ACE B1001 N MVA B1002 1555 1555 1.43 LINK C MVA B1002 N MP8 B1003 1555 1555 1.33 LINK C MP8 B1003 N NZC B1004 1555 1555 1.34 LINK C NZC B1004 N LEU B1005 1555 1555 1.32 LINK OG1 NZC B1004 C GLY B1011 1555 1555 1.38 LINK C LEU B1005 N MP8 B1006 1555 1555 1.33 LINK C MP8 B1006 N LEU B1007 1555 1555 1.33 LINK C LEU B1007 N MVA B1008 1555 1555 1.33 LINK C MVA B1008 N PRO B1009 1555 1555 1.34 LINK C PRO B1009 N MLU B1010 1555 1555 1.33 LINK C MLU B1010 N GLY B1011 1555 1555 1.33 LINK OE1 GLU A 6 CA CA A 400 1555 1555 2.53 LINK OE2 GLU A 6 CA CA A 400 1555 1555 2.45 LINK O GLY A 85 CA CA A 400 1555 1555 2.39 LINK OE2 GLU A 87 CA CA A 400 1555 1555 2.34 LINK CA CA A 400 O HOH A1145 1555 2765 2.36 LINK CA CA A 400 O HOH A1197 1555 2765 2.37 LINK CA CA A 400 O HOH A1306 1555 1555 2.39 CISPEP 1 MVA B 1008 PRO B 1009 0 3.10 SITE 1 AC1 6 GLU A 6 GLY A 85 GLU A 87 HOH A1145 SITE 2 AC1 6 HOH A1197 HOH A1306 SITE 1 AC2 6 ARG A 96 ARG A 105 SER A 107 GLN A 289 SITE 2 AC2 6 GLU A 301 GLU A 303 SITE 1 AC3 3 SER A 181 GLN A 355 SER A 356 SITE 1 AC4 3 HIS A 9 ASN A 335 HOH A1259 SITE 1 AC5 14 GLY A 174 HIS A 175 ARG A 176 LEU A 177 SITE 2 AC5 14 VAL A 360 MET A 362 PRO A 363 MET A 364 SITE 3 AC5 14 ARG A 365 HOH A1192 HOH B1101 HOH B1102 SITE 4 AC5 14 HOH B1103 HOH B1104 CRYST1 71.020 83.100 188.180 90.00 90.00 90.00 I 2 2 2 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 0.014081 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012034 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005314 0.00000