HEADER METAL BINDING PROTEIN 26-MAR-24 8YTR TITLE THE STRUCTURE OF CU(II)-COPC FROM THIOALKALIVIBRIO PARADOXUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: COPC DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THIOALKALIVIBRIO PARADOXUS ARH 1; SOURCE 3 ORGANISM_TAXID: 713585; SOURCE 4 GENE: THITH_13340; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS COPC, COPPER RESISTANCE PROTEIN C, COPPER CHAPERONE, CU(II)-LOADED, KEYWDS 2 HOLO-FORM, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR O.G.KULIKOVA,A.Y.SOLOVIEVA,L.A.VARFOLOMEEVA,N.I.DERGOUSOVA, AUTHOR 2 A.Y.NIKOLAEVA,K.M.BOYKO,T.V.TIKHONOVA,V.O.POPOV REVDAT 1 24-APR-24 8YTR 0 JRNL AUTH O.G.KULIKOVA,A.Y.SOLOVIEVA,L.A.VARFOLOMEEVA,N.I.DERGOUSOVA, JRNL AUTH 2 A.Y.NIKOLAEVA,K.M.BOYKO,T.V.TIKHONOVA,V.O.POPOV JRNL TITL THE STRUCTURE OF CU(II)-COPC FROM THIOALKALIVIBRIO PARADOXUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 52.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 19980 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1015 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1468 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.03 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 68 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1933 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 103 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.23000 REMARK 3 B22 (A**2) : -1.41000 REMARK 3 B33 (A**2) : -1.79000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.52000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.142 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.135 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.127 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.994 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1998 ; 0.011 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 1806 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2708 ; 1.971 ; 1.821 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4157 ; 0.703 ; 1.726 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 251 ; 6.938 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 15 ; 8.455 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 288 ;15.128 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 313 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2374 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 446 ; 0.002 ; 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): 1010 ; 2.447 ; 2.293 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1010 ; 2.443 ; 2.294 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1259 ; 3.332 ; 4.096 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1260 ; 3.332 ; 4.099 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 988 ; 3.679 ;16.657 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 989 ; 3.677 ;16.645 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1450 ; 5.563 ; 4.713 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2072 ; 7.269 ;26.980 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2061 ; 7.275 ;26.820 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 31 A 205 REMARK 3 ORIGIN FOR THE GROUP (A): 10.8295 0.2919 41.9025 REMARK 3 T TENSOR REMARK 3 T11: 0.0163 T22: 0.0671 REMARK 3 T33: 0.0412 T12: -0.0052 REMARK 3 T13: -0.0013 T23: 0.0016 REMARK 3 L TENSOR REMARK 3 L11: 0.2372 L22: 1.7607 REMARK 3 L33: 1.4959 L12: 0.1356 REMARK 3 L13: 0.5665 L23: 0.1851 REMARK 3 S TENSOR REMARK 3 S11: 0.0189 S12: 0.0348 S13: -0.0234 REMARK 3 S21: 0.1425 S22: 0.0607 S23: -0.0954 REMARK 3 S31: 0.0510 S32: -0.0065 S33: -0.0796 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 31 B 156 REMARK 3 ORIGIN FOR THE GROUP (A): 3.3210 -13.1402 13.4246 REMARK 3 T TENSOR REMARK 3 T11: 0.0049 T22: 0.0588 REMARK 3 T33: 0.0166 T12: 0.0022 REMARK 3 T13: -0.0016 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 0.9707 L22: 1.1712 REMARK 3 L33: 1.5629 L12: 0.1005 REMARK 3 L13: 0.3585 L23: 0.8648 REMARK 3 S TENSOR REMARK 3 S11: 0.0210 S12: 0.0675 S13: -0.1001 REMARK 3 S21: -0.0057 S22: -0.0325 S23: 0.0444 REMARK 3 S31: 0.0608 S32: -0.0410 S33: 0.0115 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 8YTR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-MAR-24. REMARK 100 THE DEPOSITION ID IS D_1300046357. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-OCT-19 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 : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.999 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 : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21085 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 104.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.12900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.73500 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM FORMATE PH 6.6, 20% PEG REMARK 280 3350, VAPOR DIFFUSION, TEMPERATURE 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 19.13750 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 158 REMARK 465 SER A 159 REMARK 465 HIS A 160 REMARK 465 ALA B 157 REMARK 465 SER B 158 REMARK 465 SER B 159 REMARK 465 HIS B 160 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 35 NE CZ NH1 NH2 REMARK 480 GLU A 91 CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 35 CD ARG A 35 NE -0.150 REMARK 500 GLU A 91 CG GLU A 91 CD -0.213 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 GLU A 41 CG - CD - OE1 ANGL. DEV. = 14.9 DEGREES REMARK 500 GLU A 41 CG - CD - OE2 ANGL. DEV. = -14.5 DEGREES REMARK 500 GLU A 91 CB - CG - CD ANGL. DEV. = 19.3 DEGREES REMARK 500 GLU A 91 CG - CD - OE1 ANGL. DEV. = 17.9 DEGREES REMARK 500 GLU A 91 CG - CD - OE2 ANGL. DEV. = -18.4 DEGREES REMARK 500 GLU A 107 N - CA - CB ANGL. DEV. = -11.2 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 ASP A 45 -80.79 -88.02 REMARK 500 ARG A 50 17.13 -151.48 REMARK 500 ARG A 63 -65.71 86.95 REMARK 500 ASN A 77 -4.33 77.77 REMARK 500 GLN A 113 126.49 -28.80 REMARK 500 ASP B 45 -81.69 -86.88 REMARK 500 SER B 112 -101.76 -123.09 REMARK 500 ALA B 153 43.60 -103.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 53 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PEG A 202 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 CU A 204 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 31 N REMARK 620 2 HIS A 31 ND1 90.2 REMARK 620 3 ASP A 140 OD2 82.1 163.0 REMARK 620 4 HIS A 142 ND1 165.0 94.3 97.0 REMARK 620 5 HOH A 327 O 94.9 82.0 83.6 99.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU B 201 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 31 N REMARK 620 2 HIS B 31 ND1 94.3 REMARK 620 3 ASP B 140 OD2 78.8 168.2 REMARK 620 4 HIS B 142 ND1 163.6 94.5 94.6 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8YTQ RELATED DB: PDB REMARK 900 THE STRUCTURE OF THE APO-FORM OF THE SAME PROTEIN DBREF 8YTR A 31 160 UNP W0DSL1 W0DSL1_9GAMM 31 160 DBREF 8YTR B 31 160 UNP W0DSL1 W0DSL1_9GAMM 31 160 SEQRES 1 A 130 HIS ALA HIS LEU ARG ALA ALA ASP PRO PRO GLU ALA ILE SEQRES 2 A 130 VAL ASP ALA ALA GLY LEU ARG GLU ILE ARG LEU VAL PHE SEQRES 3 A 130 SER GLU PRO VAL VAL ASP ARG PHE SER THR PHE ARG ALA SEQRES 4 A 130 PHE ARG LEU SER LEU PRO GLU ASN GLY ILE ARG ASN LEU SEQRES 5 A 130 THR GLN LEU ASN THR LEU ALA SER GLU LEU GLY VAL ASP SEQRES 6 A 130 THR GLU GLU SER ALA HIS HIS GLU VAL GLU LEU GLU SER SEQRES 7 A 130 ASP LEU SER SER GLN SER ALA GLU VAL THR LEU HIS SER SEQRES 8 A 130 ASP GLU PRO LEU PRO ALA GLY ALA TYR ALA VAL VAL TRP SEQRES 9 A 130 ARG VAL LEU SER VAL ASP GLY HIS THR THR THR GLY PHE SEQRES 10 A 130 HIS ALA PHE VAL HIS ALA GLY GLY THR ALA SER SER HIS SEQRES 1 B 130 HIS ALA HIS LEU ARG ALA ALA ASP PRO PRO GLU ALA ILE SEQRES 2 B 130 VAL ASP ALA ALA GLY LEU ARG GLU ILE ARG LEU VAL PHE SEQRES 3 B 130 SER GLU PRO VAL VAL ASP ARG PHE SER THR PHE ARG ALA SEQRES 4 B 130 PHE ARG LEU SER LEU PRO GLU ASN GLY ILE ARG ASN LEU SEQRES 5 B 130 THR GLN LEU ASN THR LEU ALA SER GLU LEU GLY VAL ASP SEQRES 6 B 130 THR GLU GLU SER ALA HIS HIS GLU VAL GLU LEU GLU SER SEQRES 7 B 130 ASP LEU SER SER GLN SER ALA GLU VAL THR LEU HIS SER SEQRES 8 B 130 ASP GLU PRO LEU PRO ALA GLY ALA TYR ALA VAL VAL TRP SEQRES 9 B 130 ARG VAL LEU SER VAL ASP GLY HIS THR THR THR GLY PHE SEQRES 10 B 130 HIS ALA PHE VAL HIS ALA GLY GLY THR ALA SER SER HIS HET PEG A 201 7 HET PEG A 202 5 HET PEG A 203 7 HET CU A 204 1 HET CU B 201 1 HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM CU COPPER (II) ION FORMUL 3 PEG 3(C4 H10 O3) FORMUL 6 CU 2(CU 2+) FORMUL 8 HOH *103(H2 O) HELIX 1 AA1 ASN A 81 GLU A 91 1 11 HELIX 2 AA2 GLU A 97 HIS A 101 5 5 HELIX 3 AA3 ARG B 63 SER B 65 5 3 HELIX 4 AA4 ASN B 81 SER B 90 1 10 HELIX 5 AA5 GLU B 97 HIS B 101 5 5 SHEET 1 AA1 4 LEU A 34 ASP A 38 0 SHEET 2 AA1 4 GLU A 51 VAL A 60 -1 O VAL A 55 N ARG A 35 SHEET 3 AA1 4 SER A 114 SER A 121 -1 O LEU A 119 N ILE A 52 SHEET 4 AA1 4 LEU A 106 SER A 108 -1 N GLU A 107 O HIS A 120 SHEET 1 AA2 5 ILE A 43 VAL A 44 0 SHEET 2 AA2 5 THR A 143 HIS A 152 1 O VAL A 151 N VAL A 44 SHEET 3 AA2 5 GLY A 128 LEU A 137 -1 N GLY A 128 O HIS A 152 SHEET 4 AA2 5 THR A 66 LEU A 72 -1 N LEU A 72 O ALA A 129 SHEET 5 AA2 5 GLU A 103 VAL A 104 -1 O VAL A 104 N ALA A 69 SHEET 1 AA3 4 LEU B 34 ASP B 38 0 SHEET 2 AA3 4 GLU B 51 VAL B 61 -1 O VAL B 55 N ARG B 35 SHEET 3 AA3 4 GLN B 113 HIS B 120 -1 O VAL B 117 N LEU B 54 SHEET 4 AA3 4 GLU B 107 SER B 108 -1 N GLU B 107 O HIS B 120 SHEET 1 AA4 5 ILE B 43 VAL B 44 0 SHEET 2 AA4 5 THR B 143 HIS B 152 1 O VAL B 151 N VAL B 44 SHEET 3 AA4 5 GLY B 128 LEU B 137 -1 N GLY B 128 O HIS B 152 SHEET 4 AA4 5 THR B 66 ARG B 71 -1 N THR B 66 O ARG B 135 SHEET 5 AA4 5 GLU B 103 VAL B 104 -1 O VAL B 104 N ALA B 69 LINK N HIS A 31 CU CU A 204 1555 1555 2.02 LINK ND1 HIS A 31 CU CU A 204 1555 1555 2.00 LINK OD2 ASP A 140 CU CU A 204 1555 1555 2.01 LINK ND1 HIS A 142 CU CU A 204 1555 1555 2.00 LINK CU CU A 204 O HOH A 327 1555 1555 2.23 LINK N HIS B 31 CU CU B 201 1555 1555 2.02 LINK ND1 HIS B 31 CU CU B 201 1555 1555 1.99 LINK OD2 ASP B 140 CU CU B 201 1555 1555 2.08 LINK ND1 HIS B 142 CU CU B 201 1555 1555 1.97 CISPEP 1 ASP A 38 PRO A 39 0 3.55 CISPEP 2 ASP B 38 PRO B 39 0 9.90 CRYST1 28.241 38.275 104.666 90.00 90.33 90.00 P 1 21 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 0.035410 0.000000 0.000204 0.00000 SCALE2 0.000000 0.026127 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009554 0.00000