HEADER ISOMERASE 23-AUG-24 9J9R TITLE ARTIFICIAL MONONUCLEAR ZN-BOUND METALLOPROTEIN 6 (M6:ZN) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DTDP-4-DEHYDRORHAMNOSE 3,5-EPIMERASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: THYMIDINE DIPHOSPHO-4-KETO-RHAMNOSE 3,5-EPIMERASE,DTDP-4- COMPND 5 KETO-6-DEOXYGLUCOSE 3,DTDP-6-DEOXY-D-XYLO-4-HEXULOSE 3,DTDP-L- COMPND 6 RHAMNOSE SYNTHASE; COMPND 7 EC: 5.1.3.13; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOTHERMOBACTER THERMAUTOTROPHICUS; SOURCE 3 ORGANISM_TAXID: 145262; SOURCE 4 GENE: RMLC, MTH_1790; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS THERMOPHILIC ISOMERASE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR W.J.JEONG,W.J.SONG REVDAT 2 23-JUL-25 9J9R 1 REMARK REVDAT 1 02-JUL-25 9J9R 0 JRNL AUTH W.J.JEONG,W.J.SONG JRNL TITL METAL-INSTALLER: A PROTEIN DESIGNER TOOL TO CREATE JRNL TITL 2 METAL-BINDING SITES JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 23324 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1160 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1655 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 116 REMARK 3 BIN FREE R VALUE : 0.3790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6088 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 4 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.94000 REMARK 3 B22 (A**2) : -2.83000 REMARK 3 B33 (A**2) : 3.44000 REMARK 3 B12 (A**2) : 1.57000 REMARK 3 B13 (A**2) : -1.62000 REMARK 3 B23 (A**2) : 1.05000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.384 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.331 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.099 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.909 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.867 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6248 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 5656 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8464 ; 1.483 ; 1.835 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13028 ; 0.541 ; 1.782 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 728 ; 7.206 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 56 ; 4.492 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1044 ;18.054 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 864 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7580 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1556 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2924 ; 2.353 ; 2.875 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2924 ; 2.353 ; 2.875 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3648 ; 3.760 ; 5.160 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3649 ; 3.759 ; 5.160 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3324 ; 2.768 ; 3.231 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3325 ; 2.768 ; 3.231 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4817 ; 4.491 ; 5.778 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 25064 ; 7.371 ;39.380 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 25065 ; 7.371 ;39.380 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 9J9R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-AUG-24. REMARK 100 THE DEPOSITION ID IS D_1300050726. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 7A (6B, 6C1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979340 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24882 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.570 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.12300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.44700 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M LI2SO4, 20 % PEG 4000, PH 8.0 REMARK 280 0.1M MOPS, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 3360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -83.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 26.24842 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 57.83749 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 3310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -82.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: D REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -26.54788 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -57.53716 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -71.48974 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 OD2 ASP D 88 OG1 THR D 95 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 NH1 ARG C 179 O LEU D 160 1454 2.08 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 ARG C 179 CA - CB - CG ANGL. DEV. = 18.7 DEGREES REMARK 500 ARG C 179 CB - CG - CD ANGL. DEV. = 17.5 DEGREES REMARK 500 ARG C 179 CG - CD - NE ANGL. DEV. = 17.4 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 PHE A 4 106.31 67.31 REMARK 500 THR A 9 -169.59 -117.25 REMARK 500 ASP A 24 -164.09 -167.05 REMARK 500 GLU A 68 -29.13 77.92 REMARK 500 LYS A 69 72.69 -151.03 REMARK 500 ASP A 165 80.14 65.32 REMARK 500 GLU B 68 -30.86 75.99 REMARK 500 LYS B 69 62.92 -151.58 REMARK 500 ASP B 165 87.33 71.74 REMARK 500 GLU C 68 -27.62 78.55 REMARK 500 LYS C 69 65.36 -150.99 REMARK 500 ASP C 165 80.90 65.78 REMARK 500 GLU D 68 -24.16 75.30 REMARK 500 ARG D 109 17.92 57.57 REMARK 500 SER D 145 -167.92 -161.17 REMARK 500 VAL D 163 -160.05 -124.15 REMARK 500 ASP D 164 100.30 -160.57 REMARK 500 ASP D 165 91.33 58.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 28 OH REMARK 620 2 HIS B 54 ND1 73.7 REMARK 620 3 HOH B 301 O 75.2 1.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 54 ND1 REMARK 620 2 HIS A 130 ND1 121.5 REMARK 620 3 HOH A 301 O 94.5 111.1 REMARK 620 4 TYR B 28 OH 17.0 104.7 99.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR C 28 OH REMARK 620 2 HIS D 54 ND1 33.0 REMARK 620 3 HIS D 130 ND1 31.9 2.3 REMARK 620 4 HOH D 301 O 34.1 2.1 2.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 54 ND1 REMARK 620 2 HIS C 130 ND1 109.2 REMARK 620 3 HOH C 301 O 101.4 116.6 REMARK 620 4 TYR D 28 OH 57.6 84.0 67.7 REMARK 620 N 1 2 3 DBREF 9J9R A 3 185 UNP O27818 RMLC_METTH 3 185 DBREF 9J9R B 3 185 UNP O27818 RMLC_METTH 3 185 DBREF 9J9R C 3 185 UNP O27818 RMLC_METTH 3 185 DBREF 9J9R D 3 185 UNP O27818 RMLC_METTH 3 185 SEQADV 9J9R HIS A 54 UNP O27818 MET 54 CONFLICT SEQADV 9J9R HIS A 130 UNP O27818 ILE 130 CONFLICT SEQADV 9J9R HIS B 54 UNP O27818 MET 54 CONFLICT SEQADV 9J9R HIS B 130 UNP O27818 ILE 130 CONFLICT SEQADV 9J9R HIS C 54 UNP O27818 MET 54 CONFLICT SEQADV 9J9R HIS C 130 UNP O27818 ILE 130 CONFLICT SEQADV 9J9R HIS D 54 UNP O27818 MET 54 CONFLICT SEQADV 9J9R HIS D 130 UNP O27818 ILE 130 CONFLICT SEQRES 1 A 183 GLU PHE ARG PHE ILE LYS THR SER LEU ASP GLY ALA ILE SEQRES 2 A 183 ILE ILE GLU PRO GLU VAL TYR THR ASP GLU ARG GLY TYR SEQRES 3 A 183 PHE MET GLU THR PHE ASN GLU ALA ILE PHE GLN GLU ASN SEQRES 4 A 183 GLY LEU GLU VAL ARG PHE VAL GLN ASP ASN GLU SER HIS SEQRES 5 A 183 SER VAL ARG GLY VAL LEU ARG GLY LEU HIS PHE GLN ARG SEQRES 6 A 183 GLU LYS PRO GLN GLY LYS LEU VAL ARG VAL ILE ARG GLY SEQRES 7 A 183 GLU ILE PHE ASP VAL ALA VAL ASP LEU ARG LYS ASN SER SEQRES 8 A 183 ASP THR TYR GLY GLU TRP THR GLY VAL ARG LEU SER ASP SEQRES 9 A 183 GLU ASN ARG ARG GLU PHE PHE ILE PRO GLU GLY PHE ALA SEQRES 10 A 183 HIS GLY PHE LEU ALA LEU SER ASP GLU CYS HIS VAL ASN SEQRES 11 A 183 TYR LYS CYS THR GLU LEU TYR HIS PRO GLU TYR ASP SER SEQRES 12 A 183 GLY ILE PRO TRP ASP ASP PRO ASP ILE GLY ILE ASP TRP SEQRES 13 A 183 PRO LEU GLU MET VAL ASP ASP LEU ILE ILE SER GLU LYS SEQRES 14 A 183 ASP ARG ASN TRP LYS PRO LEU ARG GLU ASN PRO VAL TYR SEQRES 15 A 183 LEU SEQRES 1 B 183 GLU PHE ARG PHE ILE LYS THR SER LEU ASP GLY ALA ILE SEQRES 2 B 183 ILE ILE GLU PRO GLU VAL TYR THR ASP GLU ARG GLY TYR SEQRES 3 B 183 PHE MET GLU THR PHE ASN GLU ALA ILE PHE GLN GLU ASN SEQRES 4 B 183 GLY LEU GLU VAL ARG PHE VAL GLN ASP ASN GLU SER HIS SEQRES 5 B 183 SER VAL ARG GLY VAL LEU ARG GLY LEU HIS PHE GLN ARG SEQRES 6 B 183 GLU LYS PRO GLN GLY LYS LEU VAL ARG VAL ILE ARG GLY SEQRES 7 B 183 GLU ILE PHE ASP VAL ALA VAL ASP LEU ARG LYS ASN SER SEQRES 8 B 183 ASP THR TYR GLY GLU TRP THR GLY VAL ARG LEU SER ASP SEQRES 9 B 183 GLU ASN ARG ARG GLU PHE PHE ILE PRO GLU GLY PHE ALA SEQRES 10 B 183 HIS GLY PHE LEU ALA LEU SER ASP GLU CYS HIS VAL ASN SEQRES 11 B 183 TYR LYS CYS THR GLU LEU TYR HIS PRO GLU TYR ASP SER SEQRES 12 B 183 GLY ILE PRO TRP ASP ASP PRO ASP ILE GLY ILE ASP TRP SEQRES 13 B 183 PRO LEU GLU MET VAL ASP ASP LEU ILE ILE SER GLU LYS SEQRES 14 B 183 ASP ARG ASN TRP LYS PRO LEU ARG GLU ASN PRO VAL TYR SEQRES 15 B 183 LEU SEQRES 1 C 183 GLU PHE ARG PHE ILE LYS THR SER LEU ASP GLY ALA ILE SEQRES 2 C 183 ILE ILE GLU PRO GLU VAL TYR THR ASP GLU ARG GLY TYR SEQRES 3 C 183 PHE MET GLU THR PHE ASN GLU ALA ILE PHE GLN GLU ASN SEQRES 4 C 183 GLY LEU GLU VAL ARG PHE VAL GLN ASP ASN GLU SER HIS SEQRES 5 C 183 SER VAL ARG GLY VAL LEU ARG GLY LEU HIS PHE GLN ARG SEQRES 6 C 183 GLU LYS PRO GLN GLY LYS LEU VAL ARG VAL ILE ARG GLY SEQRES 7 C 183 GLU ILE PHE ASP VAL ALA VAL ASP LEU ARG LYS ASN SER SEQRES 8 C 183 ASP THR TYR GLY GLU TRP THR GLY VAL ARG LEU SER ASP SEQRES 9 C 183 GLU ASN ARG ARG GLU PHE PHE ILE PRO GLU GLY PHE ALA SEQRES 10 C 183 HIS GLY PHE LEU ALA LEU SER ASP GLU CYS HIS VAL ASN SEQRES 11 C 183 TYR LYS CYS THR GLU LEU TYR HIS PRO GLU TYR ASP SER SEQRES 12 C 183 GLY ILE PRO TRP ASP ASP PRO ASP ILE GLY ILE ASP TRP SEQRES 13 C 183 PRO LEU GLU MET VAL ASP ASP LEU ILE ILE SER GLU LYS SEQRES 14 C 183 ASP ARG ASN TRP LYS PRO LEU ARG GLU ASN PRO VAL TYR SEQRES 15 C 183 LEU SEQRES 1 D 183 GLU PHE ARG PHE ILE LYS THR SER LEU ASP GLY ALA ILE SEQRES 2 D 183 ILE ILE GLU PRO GLU VAL TYR THR ASP GLU ARG GLY TYR SEQRES 3 D 183 PHE MET GLU THR PHE ASN GLU ALA ILE PHE GLN GLU ASN SEQRES 4 D 183 GLY LEU GLU VAL ARG PHE VAL GLN ASP ASN GLU SER HIS SEQRES 5 D 183 SER VAL ARG GLY VAL LEU ARG GLY LEU HIS PHE GLN ARG SEQRES 6 D 183 GLU LYS PRO GLN GLY LYS LEU VAL ARG VAL ILE ARG GLY SEQRES 7 D 183 GLU ILE PHE ASP VAL ALA VAL ASP LEU ARG LYS ASN SER SEQRES 8 D 183 ASP THR TYR GLY GLU TRP THR GLY VAL ARG LEU SER ASP SEQRES 9 D 183 GLU ASN ARG ARG GLU PHE PHE ILE PRO GLU GLY PHE ALA SEQRES 10 D 183 HIS GLY PHE LEU ALA LEU SER ASP GLU CYS HIS VAL ASN SEQRES 11 D 183 TYR LYS CYS THR GLU LEU TYR HIS PRO GLU TYR ASP SER SEQRES 12 D 183 GLY ILE PRO TRP ASP ASP PRO ASP ILE GLY ILE ASP TRP SEQRES 13 D 183 PRO LEU GLU MET VAL ASP ASP LEU ILE ILE SER GLU LYS SEQRES 14 D 183 ASP ARG ASN TRP LYS PRO LEU ARG GLU ASN PRO VAL TYR SEQRES 15 D 183 LEU HET ZN A 201 1 HET ZN B 201 1 HET ZN C 201 1 HET ZN D 201 1 HETNAM ZN ZINC ION FORMUL 5 ZN 4(ZN 2+) FORMUL 9 HOH *4(H2 O) HELIX 1 AA1 ASN A 34 ASN A 41 1 8 HELIX 2 AA2 HIS A 140 GLU A 142 5 3 HELIX 3 AA3 PRO A 159 VAL A 163 5 5 HELIX 4 AA4 ASN B 34 ASN B 41 1 8 HELIX 5 AA5 HIS B 140 GLU B 142 5 3 HELIX 6 AA6 PRO B 159 VAL B 163 5 5 HELIX 7 AA7 GLU B 170 ASN B 174 5 5 HELIX 8 AA8 ASN C 34 ASN C 41 1 8 HELIX 9 AA9 HIS C 140 GLU C 142 5 3 HELIX 10 AB1 PRO C 159 VAL C 163 5 5 HELIX 11 AB2 ASN D 34 ASN D 41 1 8 HELIX 12 AB3 HIS D 140 GLU D 142 5 3 HELIX 13 AB4 GLU D 170 ASN D 174 5 5 SHEET 1 AA1 6 ARG A 5 LYS A 8 0 SHEET 2 AA1 6 ILE A 15 GLU A 18 -1 O GLU A 18 N ARG A 5 SHEET 3 AA1 6 GLU A 111 ILE A 114 -1 O PHE A 113 N ILE A 15 SHEET 4 AA1 6 LYS A 73 ARG A 79 -1 N LYS A 73 O ILE A 114 SHEET 5 AA1 6 GLU A 128 CYS A 135 -1 O LYS A 134 N LEU A 74 SHEET 6 AA1 6 GLN A 49 VAL A 56 -1 N SER A 55 O CYS A 129 SHEET 1 AA2 2 VAL A 21 ASP A 24 0 SHEET 2 AA2 2 GLY A 27 MET A 30 -1 O PHE A 29 N TYR A 22 SHEET 1 AA3 5 TRP A 99 SER A 105 0 SHEET 2 AA3 5 GLU A 81 ASP A 88 -1 N ILE A 82 O LEU A 104 SHEET 3 AA3 5 PHE A 118 ALA A 124 -1 O GLY A 121 N VAL A 85 SHEET 4 AA3 5 LEU A 60 GLN A 66 -1 N HIS A 64 O HIS A 120 SHEET 5 AA3 5 ASP A 144 GLY A 146 -1 O SER A 145 N PHE A 65 SHEET 1 AA4 6 ARG B 5 LYS B 8 0 SHEET 2 AA4 6 ILE B 15 GLU B 18 -1 O ILE B 16 N ILE B 7 SHEET 3 AA4 6 GLU B 111 ILE B 114 -1 O GLU B 111 N ILE B 17 SHEET 4 AA4 6 LYS B 73 ARG B 79 -1 N LYS B 73 O ILE B 114 SHEET 5 AA4 6 GLU B 128 CYS B 135 -1 O ASN B 132 N ARG B 76 SHEET 6 AA4 6 GLN B 49 VAL B 56 -1 N GLN B 49 O CYS B 135 SHEET 1 AA5 8 GLY B 27 MET B 30 0 SHEET 2 AA5 8 VAL B 21 ASP B 24 -1 N TYR B 22 O PHE B 29 SHEET 3 AA5 8 PHE C 4 LYS C 8 -1 O PHE C 6 N THR B 23 SHEET 4 AA5 8 ILE C 15 PRO C 19 -1 O ILE C 16 N ILE C 7 SHEET 5 AA5 8 GLU C 111 ILE C 114 -1 O GLU C 111 N ILE C 17 SHEET 6 AA5 8 LYS C 73 ARG C 79 -1 N LYS C 73 O ILE C 114 SHEET 7 AA5 8 GLU C 128 CYS C 135 -1 O ASN C 132 N ARG C 76 SHEET 8 AA5 8 GLN C 49 VAL C 56 -1 N SER C 55 O CYS C 129 SHEET 1 AA6 5 TRP B 99 SER B 105 0 SHEET 2 AA6 5 GLU B 81 ASP B 88 -1 N ILE B 82 O LEU B 104 SHEET 3 AA6 5 PHE B 118 ALA B 124 -1 O GLY B 121 N VAL B 85 SHEET 4 AA6 5 LEU B 60 GLN B 66 -1 N HIS B 64 O HIS B 120 SHEET 5 AA6 5 ASP B 144 GLY B 146 -1 O SER B 145 N PHE B 65 SHEET 1 AA7 2 VAL C 21 ASP C 24 0 SHEET 2 AA7 2 GLY C 27 MET C 30 -1 O PHE C 29 N TYR C 22 SHEET 1 AA8 5 TRP C 99 SER C 105 0 SHEET 2 AA8 5 GLU C 81 ASP C 88 -1 N ILE C 82 O LEU C 104 SHEET 3 AA8 5 PHE C 118 ALA C 124 -1 O GLY C 121 N VAL C 85 SHEET 4 AA8 5 LEU C 60 GLN C 66 -1 N HIS C 64 O HIS C 120 SHEET 5 AA8 5 ASP C 144 GLY C 146 -1 O SER C 145 N PHE C 65 SHEET 1 AA9 6 ARG D 5 LYS D 8 0 SHEET 2 AA9 6 ILE D 15 GLU D 18 -1 O ILE D 16 N ILE D 7 SHEET 3 AA9 6 GLU D 111 ILE D 114 -1 O GLU D 111 N ILE D 17 SHEET 4 AA9 6 LYS D 73 ARG D 79 -1 N VAL D 75 O PHE D 112 SHEET 5 AA9 6 GLU D 128 CYS D 135 -1 O ASN D 132 N ARG D 76 SHEET 6 AA9 6 GLN D 49 VAL D 56 -1 N SER D 53 O VAL D 131 SHEET 1 AB1 2 VAL D 21 ASP D 24 0 SHEET 2 AB1 2 GLY D 27 MET D 30 -1 O PHE D 29 N TYR D 22 SHEET 1 AB2 5 TRP D 99 SER D 105 0 SHEET 2 AB2 5 GLU D 81 ASP D 88 -1 N ILE D 82 O LEU D 104 SHEET 3 AB2 5 PHE D 118 ALA D 124 -1 O GLY D 121 N VAL D 85 SHEET 4 AB2 5 VAL D 59 GLN D 66 -1 N HIS D 64 O HIS D 120 SHEET 5 AB2 5 ASP D 144 GLY D 146 -1 O SER D 145 N PHE D 65 SHEET 1 AB3 5 TRP D 99 SER D 105 0 SHEET 2 AB3 5 GLU D 81 ASP D 88 -1 N ILE D 82 O LEU D 104 SHEET 3 AB3 5 PHE D 118 ALA D 124 -1 O GLY D 121 N VAL D 85 SHEET 4 AB3 5 VAL D 59 GLN D 66 -1 N HIS D 64 O HIS D 120 SHEET 5 AB3 5 ILE D 167 ILE D 168 1 O ILE D 167 N LEU D 60 LINK OH TYR A 28 ZN ZN B 201 1555 1565 2.30 LINK ND1 HIS A 54 ZN ZN A 201 1555 1555 2.27 LINK ND1 HIS A 130 ZN ZN A 201 1555 1555 2.04 LINK ZN ZN A 201 O HOH A 301 1555 1555 2.32 LINK ZN ZN A 201 OH TYR B 28 1545 1555 2.20 LINK ND1 HIS B 54 ZN ZN B 201 1555 1555 2.23 LINK ZN ZN B 201 O HOH B 301 1555 1555 2.42 LINK OH TYR C 28 ZN ZN D 201 1555 1544 2.17 LINK ND1 HIS C 54 ZN ZN C 201 1555 1555 2.32 LINK ND1 HIS C 130 ZN ZN C 201 1555 1555 2.03 LINK ZN ZN C 201 O HOH C 301 1555 1555 2.08 LINK ZN ZN C 201 OH TYR D 28 1566 1555 2.26 LINK ND1 HIS D 54 ZN ZN D 201 1555 1555 2.26 LINK ND1 HIS D 130 ZN ZN D 201 1555 1555 2.27 LINK ZN ZN D 201 O HOH D 301 1555 1555 2.52 CISPEP 1 GLY A 62 LEU A 63 0 -2.58 CISPEP 2 GLY B 62 LEU B 63 0 -4.83 CISPEP 3 GLY C 62 LEU C 63 0 -4.25 CISPEP 4 GLY D 62 LEU D 63 0 -12.16 CRYST1 52.456 63.515 71.491 90.12 89.76 65.59 P 1 4 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 0.019064 -0.008652 -0.000117 0.00000 SCALE2 0.000000 0.017290 0.000073 0.00000 SCALE3 0.000000 0.000000 0.013988 0.00000 TER 1523 LEU A 185 TER 3046 LEU B 185 TER 4569 LEU C 185 TER 6092 LEU D 185 HETATM 6093 ZN ZN A 201 -10.866 12.198 -5.441 1.00 22.22 ZN HETATM 6094 ZN ZN B 201 -37.051 -40.553 3.903 1.00 27.05 ZN HETATM 6095 ZN ZN C 201 -19.336 -56.585 -41.249 1.00 19.93 ZN HETATM 6096 ZN ZN D 201 7.039 -4.122 39.506 1.00 23.85 ZN HETATM 6097 O HOH A 301 -12.280 13.213 -3.910 1.00 8.81 O HETATM 6098 O HOH B 301 -38.648 -41.260 2.229 1.00 8.42 O HETATM 6099 O HOH C 301 -17.995 -57.499 -39.947 1.00 7.01 O HETATM 6100 O HOH D 301 8.562 -3.213 37.723 1.00 5.54 O CONECT 433 6093 CONECT 1052 6093 CONECT 1956 6094 CONECT 3479 6095 CONECT 4098 6095 CONECT 5002 6096 CONECT 5621 6096 CONECT 6093 433 1052 6097 CONECT 6094 1956 6098 CONECT 6095 3479 4098 6099 CONECT 6096 5002 5621 6100 CONECT 6097 6093 CONECT 6098 6094 CONECT 6099 6095 CONECT 6100 6096 MASTER 371 0 4 13 57 0 0 6 6096 4 15 60 END