HEADER TRANSFERASE 11-FEB-23 8CIX TITLE DNA-POLYMERASE SLIDING CLAMP (DNAN) FROM ESCHERICHIA COLI IN COMPLEX TITLE 2 WITH GRISELIMYCIN. COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA SLIDING CLAMP; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BETA CLAMP,SLIDING CLAMP,BETA-CLAMP PROCESSIVITY FACTOR,DNA COMPND 5 POLYMERASE III BETA SLIDING CLAMP SUBUNIT; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GRISELIMYCIN; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: DNAN, B3701, JW3678; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: STREPTOMYCES GRISEUS; SOURCE 11 ORGANISM_TAXID: 1911 KEYWDS DNAN, SLIDING CLAMP, DNA-POLYMERASE BETA SUBUNIT, ANTIBIOTIC, NATURAL KEYWDS 2 PRODUCT, ANTI-TUBERCULOSIS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.FU,Y.LIU,C.WALT,C.BADER,S.RASHEED,P.LUKAT,M.NEUBER,W.BLANKENFELDT, AUTHOR 2 O.KALININA,R.MUELLER REVDAT 2 07-FEB-24 8CIX 1 JRNL REVDAT 1 29-NOV-23 8CIX 0 JRNL AUTH C.FU,Y.LIU,C.WALT,S.RASHEED,C.D.BADER,P.LUKAT,M.NEUBER, JRNL AUTH 2 F.P.J.HAECKL,W.BLANKENFELDT,O.V.KALININA,R.MULLER JRNL TITL ELUCIDATION OF UNUSUAL BIOSYNTHESIS AND DNAN-TARGETING MODE JRNL TITL 2 OF ACTION OF POTENT ANTI-TUBERCULOSIS ANTIBIOTICS JRNL TITL 3 MYCOPLANECINS. JRNL REF NAT COMMUN V. 15 791 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 38278788 JRNL DOI 10.1038/S41467-024-44953-5 REMARK 2 REMARK 2 RESOLUTION. 1.76 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20-4487 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) : 1.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 45163 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.360 REMARK 3 FREE R VALUE TEST SET COUNT : 2420 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 51.8800 - 4.5300 1.00 2662 160 0.1911 0.1796 REMARK 3 2 4.5300 - 3.6000 1.00 2558 149 0.1390 0.1636 REMARK 3 3 3.6000 - 3.1400 1.00 2564 135 0.1684 0.2058 REMARK 3 4 3.1400 - 2.8500 1.00 2528 141 0.1740 0.1985 REMARK 3 5 2.8500 - 2.6500 1.00 2512 158 0.1936 0.2254 REMARK 3 6 2.6500 - 2.4900 1.00 2523 123 0.1855 0.2168 REMARK 3 7 2.4900 - 2.3700 1.00 2529 123 0.1794 0.2197 REMARK 3 8 2.3700 - 2.2700 1.00 2516 128 0.1713 0.2146 REMARK 3 9 2.2700 - 2.1800 1.00 2515 131 0.1646 0.1985 REMARK 3 10 2.1800 - 2.1000 1.00 2461 147 0.1717 0.2320 REMARK 3 11 2.1000 - 2.0400 1.00 2474 147 0.2057 0.2294 REMARK 3 12 2.0400 - 1.9800 1.00 2534 135 0.1916 0.2271 REMARK 3 13 1.9800 - 1.9300 1.00 2485 121 0.1851 0.2141 REMARK 3 14 1.9300 - 1.8800 1.00 2455 163 0.1937 0.2385 REMARK 3 15 1.8800 - 1.8400 1.00 2450 152 0.2166 0.2663 REMARK 3 16 1.8400 - 1.8000 1.00 2487 151 0.2674 0.2821 REMARK 3 17 1.8000 - 1.7600 1.00 2490 156 0.3080 0.4000 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.160 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 : 0.010 3148 REMARK 3 ANGLE : 1.035 4315 REMARK 3 CHIRALITY : 0.062 507 REMARK 3 PLANARITY : 0.010 571 REMARK 3 DIHEDRAL : 14.747 1274 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 197 THROUGH 253 ) REMARK 3 ORIGIN FOR THE GROUP (A): 122.1251 27.2702 17.3186 REMARK 3 T TENSOR REMARK 3 T11: 0.2409 T22: 0.2275 REMARK 3 T33: 0.2530 T12: 0.0229 REMARK 3 T13: 0.0106 T23: 0.0317 REMARK 3 L TENSOR REMARK 3 L11: 2.8333 L22: 0.4859 REMARK 3 L33: 0.7017 L12: 0.1798 REMARK 3 L13: 0.3940 L23: 0.1675 REMARK 3 S TENSOR REMARK 3 S11: -0.0858 S12: -0.1089 S13: 0.3069 REMARK 3 S21: 0.0285 S22: 0.0378 S23: 0.0270 REMARK 3 S31: -0.0494 S32: 0.0676 S33: 0.0301 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 254 THROUGH 366 ) REMARK 3 ORIGIN FOR THE GROUP (A): 97.7711 10.5152 18.1653 REMARK 3 T TENSOR REMARK 3 T11: 0.1756 T22: 0.2050 REMARK 3 T33: 0.1802 T12: 0.0042 REMARK 3 T13: -0.0039 T23: 0.0135 REMARK 3 L TENSOR REMARK 3 L11: 0.8342 L22: 1.5512 REMARK 3 L33: 0.7644 L12: 0.1189 REMARK 3 L13: -0.4156 L23: -0.1724 REMARK 3 S TENSOR REMARK 3 S11: 0.0347 S12: -0.0464 S13: 0.0591 REMARK 3 S21: -0.0354 S22: -0.0250 S23: 0.0486 REMARK 3 S31: -0.0338 S32: -0.0043 S33: -0.0078 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -1 THROUGH 196 ) REMARK 3 ORIGIN FOR THE GROUP (A): 136.4838 21.6167 18.5821 REMARK 3 T TENSOR REMARK 3 T11: 0.2182 T22: 0.2064 REMARK 3 T33: 0.1941 T12: 0.0082 REMARK 3 T13: 0.0048 T23: -0.0014 REMARK 3 L TENSOR REMARK 3 L11: 2.2147 L22: 0.2514 REMARK 3 L33: -0.0429 L12: -0.5374 REMARK 3 L13: 0.3125 L23: -0.0716 REMARK 3 S TENSOR REMARK 3 S11: -0.0129 S12: 0.0064 S13: 0.1921 REMARK 3 S21: 0.0214 S22: 0.0113 S23: -0.0407 REMARK 3 S31: -0.0168 S32: -0.0109 S33: 0.0027 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 8CIX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-FEB-23. REMARK 100 THE DEPOSITION ID IS D_1292128607. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JAN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45185 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760 REMARK 200 RESOLUTION RANGE LOW (A) : 75.280 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 13.70 REMARK 200 R MERGE FOR SHELL (I) : 1.03000 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 (%): 55.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.36 M CACL2 0.13 M MGCL2 0.24 M NA REMARK 280 ACETATE 8.3 % (V/V) GLYCEROL 12.2 % (W/V) PEG 3350 0.1 M HEPES/ REMARK 280 NAOH 7.7 CRYOPROTECTION: 10 % (V/V) (2R,3R)-2,3-BUTANEDIOL., PH REMARK 280 7.7, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 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 REMARK 290 6555 -X+1/2,-Y+1/2,Z REMARK 290 7555 -X+1/2,Y+1/2,-Z REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 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 41.96800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 75.28050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 41.96800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 75.28050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 41.96800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 75.28050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 41.96800 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 75.28050 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC 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 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 251.80800 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 GLY A -2 REMARK 465 GLY A 22 REMARK 465 GLY A 23 REMARK 465 ARG A 24 REMARK 465 PRO A 25 REMARK 465 GLY A 209 REMARK 465 GLY A 210 REMARK 465 ASP A 211 REMARK 465 ASN A 212 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 ASP A 39 CG OD1 OD2 REMARK 470 ASP A 121 CG OD1 OD2 REMARK 470 ARG A 240 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 332 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 OE1 GLN A 355 O HOH A 501 2.00 REMARK 500 O HOH A 855 O HOH A 863 2.05 REMARK 500 OE2 GLU A 276 O HOH A 502 2.09 REMARK 500 O HOH A 505 O HOH A 641 2.13 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 650 O HOH A 839 3856 2.14 REMARK 500 O HOH A 523 O HOH A 633 3856 2.15 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 LEU A 49 -16.75 88.08 REMARK 500 LEU A 207 48.12 -89.49 REMARK 500 LYS A 332 69.88 -119.04 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 864 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A 865 DISTANCE = 6.95 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 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 6 OE1 REMARK 620 2 GLU A 6 OE2 52.5 REMARK 620 3 GLY A 85 O 78.2 124.2 REMARK 620 4 HOH A 566 O 77.8 94.0 99.9 REMARK 620 5 HOH A 595 O 131.8 82.8 150.0 90.0 REMARK 620 6 HOH A 727 O 147.7 157.0 78.5 84.5 74.3 REMARK 620 7 HOH A 751 O 111.5 91.5 83.1 170.7 83.3 87.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 408 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 8 OE1 REMARK 620 2 GLU A 334 OE1 103.7 REMARK 620 3 GLU A 334 OE2 103.1 1.3 REMARK 620 4 HOH A 523 O 101.3 5.8 6.8 REMARK 620 5 HOH A 692 O 103.2 1.5 2.7 4.3 REMARK 620 6 HOH A 702 O 102.2 4.6 5.6 1.3 3.0 REMARK 620 7 HOH A 772 O 99.7 4.4 4.5 4.0 3.5 3.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 93 OE1 REMARK 620 2 GLU A 314 O 41.6 REMARK 620 3 ACT A 409 OXT 78.0 87.2 REMARK 620 4 ACT A 409 O 139.5 132.9 61.7 REMARK 620 5 ACT A 410 OXT 84.9 72.0 159.1 135.3 REMARK 620 6 ACT A 410 O 143.0 120.4 138.9 77.5 58.5 REMARK 620 7 HOH A 760 O 98.1 57.5 89.4 85.9 81.1 82.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 413 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 107 OG REMARK 620 2 HOH A 612 O 135.8 REMARK 620 3 HOH A 679 O 126.5 92.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 407 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 118 OD1 REMARK 620 2 ACT A 411 O 141.8 REMARK 620 3 ACT A 411 OXT 164.6 53.2 REMARK 620 4 HOH A 538 O 89.7 98.7 82.7 REMARK 620 5 HOH A 644 O 74.6 77.1 119.0 144.0 REMARK 620 6 HOH A 652 O 72.9 76.5 115.5 66.4 78.0 REMARK 620 7 HOH A 778 O 105.1 85.3 76.6 150.7 65.3 141.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 416 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 228 O REMARK 620 2 PHE A 230 O 105.4 REMARK 620 3 HOH A 548 O 128.5 118.6 REMARK 620 4 HOH A 808 O 94.5 111.3 93.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 419 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 295 O REMARK 620 2 ASN A 295 OD1 71.1 REMARK 620 3 HOH A 592 O 76.5 140.4 REMARK 620 4 HOH A 696 O 86.0 78.0 77.6 REMARK 620 5 HOH A 784 O 142.2 74.3 125.8 72.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 415 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 345 OG REMARK 620 2 HOH A 555 O 68.9 REMARK 620 3 HOH A 756 O 77.8 140.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 508 O REMARK 620 2 HOH A 786 O 139.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 405 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 628 O REMARK 620 2 HOH A 700 O 129.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 417 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 644 O REMARK 620 2 HOH A 653 O 148.3 REMARK 620 3 HOH A 778 O 73.6 75.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 418 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 569 O REMARK 620 2 HOH A 684 O 111.2 REMARK 620 3 HOH A 816 O 95.8 106.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 420 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 565 O REMARK 620 2 HOH A 623 O 97.0 REMARK 620 3 HOH A 832 O 121.3 67.0 REMARK 620 4 HOH A 844 O 125.2 136.2 95.8 REMARK 620 N 1 2 3 DBREF 8CIX A 1 366 UNP P0A988 DPO3B_ECOLI 1 366 DBREF 8CIX B 1 11 PDB 8CIX 8CIX 1 11 SEQADV 8CIX GLY A -2 UNP P0A988 EXPRESSION TAG SEQADV 8CIX GLY A -1 UNP P0A988 EXPRESSION TAG SEQADV 8CIX ARG A 0 UNP P0A988 EXPRESSION TAG SEQRES 1 A 369 GLY GLY ARG MET LYS PHE THR VAL GLU ARG GLU HIS LEU SEQRES 2 A 369 LEU LYS PRO LEU GLN GLN VAL SER GLY PRO LEU GLY GLY SEQRES 3 A 369 ARG PRO THR LEU PRO ILE LEU GLY ASN LEU LEU LEU GLN SEQRES 4 A 369 VAL ALA ASP GLY THR LEU SER LEU THR GLY THR ASP LEU SEQRES 5 A 369 GLU MET GLU MET VAL ALA ARG VAL ALA LEU VAL GLN PRO SEQRES 6 A 369 HIS GLU PRO GLY ALA THR THR VAL PRO ALA ARG LYS PHE SEQRES 7 A 369 PHE ASP ILE CYS ARG GLY LEU PRO GLU GLY ALA GLU ILE SEQRES 8 A 369 ALA VAL GLN LEU GLU GLY GLU ARG MET LEU VAL ARG SER SEQRES 9 A 369 GLY ARG SER ARG PHE SER LEU SER THR LEU PRO ALA ALA SEQRES 10 A 369 ASP PHE PRO ASN LEU ASP ASP TRP GLN SER GLU VAL GLU SEQRES 11 A 369 PHE THR LEU PRO GLN ALA THR MET LYS ARG LEU ILE GLU SEQRES 12 A 369 ALA THR GLN PHE SER MET ALA HIS GLN ASP VAL ARG TYR SEQRES 13 A 369 TYR LEU ASN GLY MET LEU PHE GLU THR GLU GLY GLU GLU SEQRES 14 A 369 LEU ARG THR VAL ALA THR ASP GLY HIS ARG LEU ALA VAL SEQRES 15 A 369 CYS SER MET PRO ILE GLY GLN SER LEU PRO SER HIS SER SEQRES 16 A 369 VAL ILE VAL PRO ARG LYS GLY VAL ILE GLU LEU MET ARG SEQRES 17 A 369 MET LEU ASP GLY GLY ASP ASN PRO LEU ARG VAL GLN ILE SEQRES 18 A 369 GLY SER ASN ASN ILE ARG ALA HIS VAL GLY ASP PHE ILE SEQRES 19 A 369 PHE THR SER LYS LEU VAL ASP GLY ARG PHE PRO ASP TYR SEQRES 20 A 369 ARG ARG VAL LEU PRO LYS ASN PRO ASP LYS HIS LEU GLU SEQRES 21 A 369 ALA GLY CYS ASP LEU LEU LYS GLN ALA PHE ALA ARG ALA SEQRES 22 A 369 ALA ILE LEU SER ASN GLU LYS PHE ARG GLY VAL ARG LEU SEQRES 23 A 369 TYR VAL SER GLU ASN GLN LEU LYS ILE THR ALA ASN ASN SEQRES 24 A 369 PRO GLU GLN GLU GLU ALA GLU GLU ILE LEU ASP VAL THR SEQRES 25 A 369 TYR SER GLY ALA GLU MET GLU ILE GLY PHE ASN VAL SER SEQRES 26 A 369 TYR VAL LEU ASP VAL LEU ASN ALA LEU LYS CYS GLU ASN SEQRES 27 A 369 VAL ARG MET MET LEU THR ASP SER VAL SER SER VAL GLN SEQRES 28 A 369 ILE GLU ASP ALA ALA SER GLN SER ALA ALA TYR VAL VAL SEQRES 29 A 369 MET PRO MET ARG LEU SEQRES 1 B 11 ACE MVA MP8 NZC LEU MP8 LEU MVA PRO MLU GLY HET ACE B 1 6 HET MVA B 2 19 HET MP8 B 3 17 HET NZC B 4 16 HET MP8 B 6 17 HET MVA B 8 19 HET MLU B 10 22 HET GOL A 401 14 HET CA A 402 1 HET CA A 403 1 HET CA A 404 1 HET CA A 405 1 HET CA A 406 1 HET CA A 407 1 HET CA A 408 1 HET ACT A 409 7 HET ACT A 410 7 HET ACT A 411 7 HET MG A 412 1 HET MG A 413 1 HET MG A 414 1 HET MG A 415 1 HET NA A 416 1 HET NA A 417 1 HET NA A 418 1 HET NA A 419 1 HET NA A 420 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 GOL GLYCEROL HETNAM CA CALCIUM ION HETNAM ACT ACETATE ION HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL 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 GOL C3 H8 O3 FORMUL 4 CA 7(CA 2+) FORMUL 11 ACT 3(C2 H3 O2 1-) FORMUL 14 MG 4(MG 2+) FORMUL 18 NA 5(NA 1+) FORMUL 23 HOH *377(H2 O) HELIX 1 AA1 ARG A 7 SER A 18 1 12 HELIX 2 AA2 LEU A 27 LEU A 30 5 4 HELIX 3 AA3 ALA A 72 LEU A 82 1 11 HELIX 4 AA4 PRO A 112 PHE A 116 5 5 HELIX 5 AA5 PRO A 131 GLN A 143 1 13 HELIX 6 AA6 PHE A 144 MET A 146 5 3 HELIX 7 AA7 ARG A 152 GLY A 157 5 6 HELIX 8 AA8 PRO A 196 LEU A 207 1 12 HELIX 9 AA9 ASP A 243 VAL A 247 5 5 HELIX 10 AB1 CYS A 260 ILE A 272 1 13 HELIX 11 AB2 VAL A 321 LEU A 331 1 11 SHEET 1 AA1 4 LYS A 2 GLU A 6 0 SHEET 2 AA1 4 GLU A 87 GLU A 93 -1 O VAL A 90 N PHE A 3 SHEET 3 AA1 4 ARG A 96 SER A 101 -1 O ARG A 100 N ALA A 89 SHEET 4 AA1 4 SER A 104 SER A 109 -1 O PHE A 106 N VAL A 99 SHEET 1 AA2 8 GLY A 66 PRO A 71 0 SHEET 2 AA2 8 ASN A 32 ALA A 38 -1 N LEU A 35 O THR A 68 SHEET 3 AA2 8 THR A 41 THR A 47 -1 O SER A 43 N GLN A 36 SHEET 4 AA2 8 MET A 51 ALA A 58 -1 O VAL A 57 N LEU A 42 SHEET 5 AA2 8 PHE A 230 LYS A 235 -1 O THR A 233 N GLU A 52 SHEET 6 AA2 8 ASN A 222 VAL A 227 -1 N ALA A 225 O PHE A 232 SHEET 7 AA2 8 LEU A 214 GLY A 219 -1 N GLY A 219 O ASN A 222 SHEET 8 AA2 8 SER A 124 LEU A 130 -1 N PHE A 128 O VAL A 216 SHEET 1 AA3 6 LYS A 254 GLY A 259 0 SHEET 2 AA3 6 ASN A 335 LEU A 340 -1 O MET A 338 N LEU A 256 SHEET 3 AA3 6 VAL A 347 ASP A 351 -1 O GLN A 348 N MET A 339 SHEET 4 AA3 6 ALA A 357 VAL A 361 -1 O TYR A 359 N ILE A 349 SHEET 5 AA3 6 ARG A 176 VAL A 195 -1 N LEU A 177 O VAL A 360 SHEET 6 AA3 6 MET A 158 THR A 172 -1 O GLY A 164 N LEU A 188 SHEET 1 AA4 4 GLU A 301 ASP A 307 0 SHEET 2 AA4 4 GLN A 289 ASN A 295 -1 N ILE A 292 O GLU A 304 SHEET 3 AA4 4 GLY A 280 SER A 286 -1 N ARG A 282 O THR A 293 SHEET 4 AA4 4 MET A 315 ASN A 320 -1 O ILE A 317 N LEU A 283 LINK C ACE B 1 N MVA B 2 1555 1555 1.36 LINK C MVA B 2 N MP8 B 3 1555 1555 1.34 LINK C MP8 B 3 N NZC B 4 1555 1555 1.36 LINK C NZC B 4 N LEU B 5 1555 1555 1.33 LINK OG1 NZC B 4 C GLY B 11 1555 1555 1.35 LINK C LEU B 5 N MP8 B 6 1555 1555 1.34 LINK C MP8 B 6 N LEU B 7 1555 1555 1.34 LINK C LEU B 7 N MVA B 8 1555 1555 1.35 LINK C MVA B 8 N PRO B 9 1555 1555 1.34 LINK C PRO B 9 N MLU B 10 1555 1555 1.35 LINK C MLU B 10 N GLY B 11 1555 1555 1.33 LINK OE1 GLU A 6 CA CA A 402 1555 1555 2.47 LINK OE2 GLU A 6 CA CA A 402 1555 1555 2.47 LINK OE1 GLU A 8 CA CA A 408 1555 3856 2.25 LINK O GLY A 85 CA CA A 402 1555 1555 2.37 LINK OE1 GLU A 93 CA CA A 404 1555 1555 2.36 LINK OG ASER A 107 MG MG A 413 1555 1555 2.85 LINK OD1 ASN A 118 CA CA A 407 1555 1555 2.27 LINK O GLY A 228 NA NA A 416 1555 1555 2.69 LINK O PHE A 230 NA NA A 416 1555 1555 2.77 LINK O ASN A 295 NA NA A 419 1555 1555 2.57 LINK OD1 ASN A 295 NA NA A 419 1555 1555 3.08 LINK O GLU A 314 CA CA A 404 1555 1455 2.30 LINK OE1 GLU A 334 CA CA A 408 1555 1555 2.59 LINK OE2 GLU A 334 CA CA A 408 1555 1555 2.43 LINK OG SER A 345 MG MG A 415 1555 1555 2.58 LINK CA CA A 402 O HOH A 566 1555 3856 2.38 LINK CA CA A 402 O HOH A 595 1555 3856 2.33 LINK CA CA A 402 O HOH A 727 1555 1555 2.41 LINK CA CA A 402 O HOH A 751 1555 1555 2.30 LINK CA CA A 403 O HOH A 508 1555 1555 2.98 LINK CA CA A 403 O HOH A 786 1555 1555 2.59 LINK CA CA A 404 OXT ACT A 409 1555 1555 2.27 LINK CA CA A 404 O ACT A 409 1555 1555 2.42 LINK CA CA A 404 OXT ACT A 410 1555 1555 2.37 LINK CA CA A 404 O ACT A 410 1555 1555 2.50 LINK CA CA A 404 O HOH A 760 1555 1555 2.43 LINK CA CA A 405 O HOH A 628 1555 1555 2.93 LINK CA CA A 405 O HOH A 700 1555 3856 3.18 LINK CA CA A 407 O ACT A 411 1555 1555 2.53 LINK CA CA A 407 OXT ACT A 411 1555 1555 2.66 LINK CA CA A 407 O HOH A 538 1555 1555 2.59 LINK CA CA A 407 O HOH A 644 1555 1555 2.49 LINK CA CA A 407 O HOH A 652 1555 1555 2.55 LINK CA CA A 407 O HOH A 778 1555 1555 2.57 LINK CA CA A 408 O HOH A 523 1555 3856 2.66 LINK CA CA A 408 O HOH A 692 1555 1555 2.42 LINK CA CA A 408 O HOH A 702 1555 1555 2.48 LINK CA CA A 408 O HOH A 772 1555 1555 2.54 LINK MG MG A 413 O HOH A 612 1555 1655 2.96 LINK MG MG A 413 O HOH A 679 1555 1555 2.96 LINK MG MG A 414 O HOH A 640 1555 1555 2.88 LINK MG MG A 415 O HOH A 555 1555 1555 1.98 LINK MG MG A 415 O HOH A 756 1555 1555 2.37 LINK NA NA A 416 O HOH A 548 1555 1555 2.56 LINK NA NA A 416 O HOH A 808 1555 1555 2.82 LINK NA NA A 417 O HOH A 644 1555 1555 2.27 LINK NA NA A 417 O HOH A 653 1555 1555 2.33 LINK NA NA A 417 O HOH A 778 1555 1555 2.29 LINK NA NA A 418 O HOH A 569 1555 1555 2.49 LINK NA NA A 418 O HOH A 684 1555 1555 2.86 LINK NA NA A 418 O HOH A 816 1555 1555 2.27 LINK NA NA A 419 O HOH A 592 1555 1555 2.37 LINK NA NA A 419 O HOH A 696 1555 1555 2.66 LINK NA NA A 419 O HOH A 784 1555 1555 2.22 LINK NA NA A 420 O HOH A 565 1555 1555 2.72 LINK NA NA A 420 O HOH A 623 1555 1555 2.98 LINK NA NA A 420 O HOH A 832 1555 1655 2.18 LINK NA NA A 420 O HOH A 844 1555 1555 2.93 CISPEP 1 MVA B 8 PRO B 9 0 -5.32 CRYST1 83.936 150.561 71.594 90.00 90.00 90.00 C 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 0.011914 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006642 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013968 0.00000