HEADER OXIDOREDUCTASE 08-JAN-18 6FFK TITLE HUMAN APO-SOD1 BOUND TO PTCL2(1R,2R-1,4-DACH COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUPEROXIDE DISMUTASE [CU-ZN]; COMPND 3 CHAIN: A, B, D, F; COMPND 4 SYNONYM: SUPEROXIDE DISMUTASE 1,HSOD1; COMPND 5 EC: 1.15.1.1; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: IN THE SECOND DIMER RESIDUES 68 TO 78 AND RESIDUES 125 COMPND 8 TO 140 SHOW NO DENSITY AT ALL AND SO THEY HAVE NON BEEN MODELED SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SOD1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR V.CALDERONE,C.NATIVI,F.CANTINI,L.DI CESARE MANNELLI REVDAT 3 17-JAN-24 6FFK 1 REMARK REVDAT 2 27-DEC-23 6FFK 1 COMPND SOURCE REMARK HET REVDAT 2 2 1 HETNAM FORMUL ATOM REVDAT 1 28-NOV-18 6FFK 0 JRNL AUTH F.CANTINI,V.CALDERONE,L.DI CESARE MANNELLI,M.KORSAK, JRNL AUTH 2 L.GONNELLI,O.FRANCESCONI,C.GHELARDINI,L.BANCI,C.NATIVI JRNL TITL INTERACTION OF HALF OXA-/HALFCIS-PLATIN COMPLEX WITH HUMAN JRNL TITL 2 SUPEROXIDE DISMUTASE AND INDUCED REDUCTION OF NEUROTOXICITY. JRNL REF ACS MED CHEM LETT V. 9 1094 2018 JRNL REFN ISSN 1948-5875 JRNL PMID 30429951 JRNL DOI 10.1021/ACSMEDCHEMLETT.8B00199 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 43129 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) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2157 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.00 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.72 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2793 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2612 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2653 REMARK 3 BIN R VALUE (WORKING SET) : 0.2579 REMARK 3 BIN FREE R VALUE : 0.3226 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.01 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 140 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4050 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 63 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.03190 REMARK 3 B22 (A**2) : -11.61590 REMARK 3 B33 (A**2) : 9.58400 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.33560 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.350 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.164 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.148 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.172 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.153 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4162 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 5622 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1440 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 726 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4162 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 2 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 534 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4289 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.12 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.92 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.93 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|1 - A|153 } REMARK 3 ORIGIN FOR THE GROUP (A): 13.0627 -17.8180 -20.7048 REMARK 3 T TENSOR REMARK 3 T11: 0.0919 T22: 0.6920 REMARK 3 T33: 0.0400 T12: 0.0378 REMARK 3 T13: -0.0121 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 2.2267 L22: 1.2070 REMARK 3 L33: 5.1271 L12: -0.2189 REMARK 3 L13: -0.0450 L23: -0.3744 REMARK 3 S TENSOR REMARK 3 S11: 0.0406 S12: -0.2955 S13: -0.2289 REMARK 3 S21: 0.1169 S22: -0.1273 S23: 0.0333 REMARK 3 S31: 0.2738 S32: 0.2316 S33: 0.0868 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|1 - B|153 } REMARK 3 ORIGIN FOR THE GROUP (A): 3.8276 -11.8408 -46.3592 REMARK 3 T TENSOR REMARK 3 T11: 0.0627 T22: 0.8157 REMARK 3 T33: 0.0265 T12: 0.0611 REMARK 3 T13: -0.0121 T23: -0.0176 REMARK 3 L TENSOR REMARK 3 L11: 2.7525 L22: 1.1106 REMARK 3 L33: 3.9817 L12: 0.1855 REMARK 3 L13: 0.2617 L23: 0.1228 REMARK 3 S TENSOR REMARK 3 S11: 0.0216 S12: 0.6566 S13: 0.1347 REMARK 3 S21: -0.0513 S22: 0.1000 S23: 0.0233 REMARK 3 S31: -0.0891 S32: -0.2653 S33: -0.1216 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { D|1 - D|153 } REMARK 3 ORIGIN FOR THE GROUP (A): -22.0225 -12.1999 -7.4932 REMARK 3 T TENSOR REMARK 3 T11: 0.0822 T22: 0.6381 REMARK 3 T33: 0.0066 T12: 0.0666 REMARK 3 T13: -0.0236 T23: 0.0383 REMARK 3 L TENSOR REMARK 3 L11: 4.0608 L22: 2.7983 REMARK 3 L33: 6.2547 L12: -0.4219 REMARK 3 L13: 1.1927 L23: -0.6083 REMARK 3 S TENSOR REMARK 3 S11: -0.0542 S12: -0.5658 S13: -0.2135 REMARK 3 S21: 0.2002 S22: 0.0407 S23: -0.0682 REMARK 3 S31: 0.2926 S32: -0.0782 S33: 0.0135 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { F|1 - F|153 } REMARK 3 ORIGIN FOR THE GROUP (A): -29.1056 -0.8913 -31.9538 REMARK 3 T TENSOR REMARK 3 T11: 0.1013 T22: 0.7743 REMARK 3 T33: 0.0504 T12: 0.1558 REMARK 3 T13: -0.0103 T23: 0.0415 REMARK 3 L TENSOR REMARK 3 L11: 3.5938 L22: 1.6898 REMARK 3 L33: 6.5246 L12: -0.5294 REMARK 3 L13: -0.3074 L23: -0.5840 REMARK 3 S TENSOR REMARK 3 S11: 0.1125 S12: 0.6495 S13: 0.3213 REMARK 3 S21: -0.0592 S22: -0.0762 S23: -0.0709 REMARK 3 S31: -0.4511 S32: -0.4979 S33: -0.0363 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6FFK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1200008233. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.972 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82609 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.54000 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: 3RE0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, 20% PEG 3350, PH 7.0, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -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 78.42500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.68500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 78.42500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.68500 REMARK 290 SMTRY3 4 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: 1640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 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 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: 1640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, F 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 D 68 REMARK 465 ARG D 69 REMARK 465 LYS D 70 REMARK 465 HIS D 71 REMARK 465 GLY D 72 REMARK 465 GLY D 73 REMARK 465 PRO D 74 REMARK 465 LYS D 75 REMARK 465 ASP D 76 REMARK 465 GLU D 77 REMARK 465 GLU D 78 REMARK 465 ASP D 125 REMARK 465 LEU D 126 REMARK 465 GLY D 127 REMARK 465 LYS D 128 REMARK 465 GLY D 129 REMARK 465 GLY D 130 REMARK 465 ASN D 131 REMARK 465 GLU D 132 REMARK 465 GLU D 133 REMARK 465 SER D 134 REMARK 465 THR D 135 REMARK 465 LYS D 136 REMARK 465 THR D 137 REMARK 465 GLY D 138 REMARK 465 ASN D 139 REMARK 465 ALA D 140 REMARK 465 SER F 68 REMARK 465 ARG F 69 REMARK 465 LYS F 70 REMARK 465 HIS F 71 REMARK 465 GLY F 72 REMARK 465 GLY F 73 REMARK 465 PRO F 74 REMARK 465 LYS F 75 REMARK 465 ASP F 76 REMARK 465 GLU F 77 REMARK 465 GLU F 78 REMARK 465 ASP F 125 REMARK 465 LEU F 126 REMARK 465 GLY F 127 REMARK 465 LYS F 128 REMARK 465 GLY F 129 REMARK 465 GLY F 130 REMARK 465 ASN F 131 REMARK 465 GLU F 132 REMARK 465 GLU F 133 REMARK 465 SER F 134 REMARK 465 THR F 135 REMARK 465 LYS F 136 REMARK 465 THR F 137 REMARK 465 GLY F 138 REMARK 465 ASN F 139 REMARK 465 ALA F 140 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 VAL F 5 O HOH F 301 1.34 REMARK 500 O HOH B 303 O HOH F 305 1.64 REMARK 500 O HOH A 305 O HOH A 316 1.79 REMARK 500 OG SER F 25 O HOH F 302 1.97 REMARK 500 OG SER B 25 O HOH B 301 2.04 REMARK 500 OG SER B 107 O HOH B 302 2.12 REMARK 500 O SER A 59 O HOH A 301 2.16 REMARK 500 O GLY B 27 O HOH B 303 2.17 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 98 85.51 -150.83 REMARK 500 ASP B 90 -169.92 -74.47 REMARK 500 ASN D 26 34.72 -95.88 REMARK 500 ASP F 83 95.79 -68.75 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 D7Z A 201 PT8 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 111 SG REMARK 620 2 D7Z A 201 N1 97.7 REMARK 620 3 D7Z A 201 N2 119.5 87.2 REMARK 620 4 D7Z A 201 CL1 84.3 177.8 91.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 D7Z B 201 PT8 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 111 SG REMARK 620 2 D7Z B 201 N1 95.5 REMARK 620 3 D7Z B 201 N2 113.4 87.0 REMARK 620 4 D7Z B 201 CL1 85.7 178.6 92.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 D7Z D 201 PT8 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 111 SG REMARK 620 2 D7Z D 201 N1 94.0 REMARK 620 3 D7Z D 201 N2 117.2 87.1 REMARK 620 4 D7Z D 201 CL1 88.6 177.3 92.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 D7Z F 201 PT8 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS F 111 SG REMARK 620 2 D7Z F 201 N1 93.7 REMARK 620 3 D7Z F 201 N2 124.2 86.8 REMARK 620 4 D7Z F 201 CL1 88.0 178.3 92.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D7Z A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D7Z B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D7Z D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D7Z F 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RE0 RELATED DB: PDB DBREF 6FFK A 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 6FFK B 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 6FFK D 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 6FFK F 1 153 UNP P00441 SODC_HUMAN 2 154 SEQRES 1 A 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 A 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 A 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 A 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 A 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 A 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 A 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 A 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 A 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 A 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 A 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 A 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN SEQRES 1 B 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 B 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 B 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 B 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 B 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 B 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 B 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 B 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 B 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 B 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 B 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 B 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN SEQRES 1 D 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 D 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 D 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 D 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 D 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 D 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 D 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 D 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 D 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 D 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 D 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 D 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN SEQRES 1 F 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 F 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 F 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 F 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 F 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 F 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 F 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 F 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 F 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 F 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 F 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 F 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN HET D7Z A 201 10 HET D7Z B 201 10 HET D7Z D 201 10 HET D7Z F 201 10 HETNAM D7Z PTCL2(1(R),2(R)-DACH) FORMUL 5 D7Z 4(C6 H12 CL2 N2 PT) FORMUL 9 HOH *63(H2 O) HELIX 1 AA1 ALA A 55 GLY A 61 5 7 HELIX 2 AA2 ALA B 55 GLY B 61 5 7 HELIX 3 AA3 ALA D 55 GLY D 61 5 7 HELIX 4 AA4 SER D 107 CYS D 111 5 5 HELIX 5 AA5 CYS F 57 GLY F 61 5 5 SHEET 1 AA1 5 ALA A 95 ASP A 101 0 SHEET 2 AA1 5 VAL A 29 LYS A 36 -1 N VAL A 29 O ASP A 101 SHEET 3 AA1 5 GLN A 15 GLN A 22 -1 N ASN A 19 O TRP A 32 SHEET 4 AA1 5 THR A 2 LYS A 9 -1 N ALA A 4 O PHE A 20 SHEET 5 AA1 5 GLY A 150 ALA A 152 -1 O ALA A 152 N LYS A 3 SHEET 1 AA2 4 ASP A 83 ALA A 89 0 SHEET 2 AA2 4 GLY A 41 HIS A 48 -1 N PHE A 45 O GLY A 85 SHEET 3 AA2 4 THR A 116 HIS A 120 -1 O THR A 116 N HIS A 48 SHEET 4 AA2 4 ARG A 143 VAL A 148 -1 O ALA A 145 N VAL A 119 SHEET 1 AA3 5 ALA B 95 ASP B 101 0 SHEET 2 AA3 5 VAL B 29 LYS B 36 -1 N VAL B 31 O ILE B 99 SHEET 3 AA3 5 GLN B 15 GLN B 22 -1 N ASN B 19 O TRP B 32 SHEET 4 AA3 5 THR B 2 LYS B 9 -1 N CYS B 6 O ILE B 18 SHEET 5 AA3 5 GLY B 150 ILE B 151 -1 O GLY B 150 N VAL B 5 SHEET 1 AA4 4 ASP B 83 ALA B 89 0 SHEET 2 AA4 4 GLY B 41 HIS B 48 -1 N PHE B 45 O GLY B 85 SHEET 3 AA4 4 THR B 116 HIS B 120 -1 O THR B 116 N HIS B 48 SHEET 4 AA4 4 ARG B 143 VAL B 148 -1 O ALA B 145 N VAL B 119 SHEET 1 AA5 5 ALA D 95 ASP D 101 0 SHEET 2 AA5 5 VAL D 29 LYS D 36 -1 N VAL D 31 O ILE D 99 SHEET 3 AA5 5 GLN D 15 GLN D 22 -1 N ASN D 19 O TRP D 32 SHEET 4 AA5 5 THR D 2 LEU D 8 -1 N CYS D 6 O ILE D 18 SHEET 5 AA5 5 GLY D 150 ILE D 151 -1 O GLY D 150 N VAL D 5 SHEET 1 AA6 4 ASP D 83 ALA D 89 0 SHEET 2 AA6 4 GLY D 41 HIS D 48 -1 N PHE D 45 O GLY D 85 SHEET 3 AA6 4 THR D 116 HIS D 120 -1 O THR D 116 N HIS D 48 SHEET 4 AA6 4 ARG D 143 VAL D 148 -1 O GLY D 147 N LEU D 117 SHEET 1 AA7 5 ALA F 95 ASP F 101 0 SHEET 2 AA7 5 VAL F 29 LYS F 36 -1 N VAL F 31 O ILE F 99 SHEET 3 AA7 5 GLN F 15 GLN F 22 -1 N ASN F 19 O TRP F 32 SHEET 4 AA7 5 THR F 2 LEU F 8 -1 N LEU F 8 O GLY F 16 SHEET 5 AA7 5 GLY F 150 ILE F 151 -1 O GLY F 150 N VAL F 5 SHEET 1 AA8 4 ASP F 83 ALA F 89 0 SHEET 2 AA8 4 GLY F 41 HIS F 48 -1 N HIS F 43 O VAL F 87 SHEET 3 AA8 4 THR F 116 HIS F 120 -1 O THR F 116 N HIS F 48 SHEET 4 AA8 4 ARG F 143 VAL F 148 -1 O GLY F 147 N LEU F 117 SSBOND 1 CYS A 57 CYS A 146 1555 1555 2.06 SSBOND 2 CYS B 57 CYS B 146 1555 1555 2.06 SSBOND 3 CYS D 57 CYS D 146 1555 1555 2.06 SSBOND 4 CYS F 57 CYS F 146 1555 1555 2.06 LINK SG CYS A 111 PT8 D7Z A 201 1555 1555 2.34 LINK SG CYS B 111 PT8 D7Z B 201 1555 1555 2.39 LINK SG CYS D 111 PT8 D7Z D 201 1555 1555 2.26 LINK SG CYS F 111 PT8 D7Z F 201 1555 1555 2.26 SITE 1 AC1 4 LEU A 106 SER A 107 CYS A 111 ILE A 113 SITE 1 AC2 5 LEU B 106 SER B 107 GLY B 108 CYS B 111 SITE 2 AC2 5 ILE B 113 SITE 1 AC3 4 LEU D 106 CYS D 111 ILE D 113 ARG D 115 SITE 1 AC4 5 LEU F 106 SER F 107 GLY F 108 CYS F 111 SITE 2 AC4 5 ILE F 113 CRYST1 156.850 35.370 114.590 90.00 112.26 90.00 C 1 2 1 16 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 0.006376 0.000000 0.002610 0.00000 SCALE2 0.000000 0.028273 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009430 0.00000