HEADER OXIDOREDUCTASE 02-SEP-08 3ECW TITLE CRYSTAL STRUCTURE OF THE ALS-RELATED PATHOLOGICAL MUTANT T54R OF HUMAN TITLE 2 APO CU,ZN SUPEROXIDE DISMUTASE (SOD1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUPEROXIDE DISMUTASE [CU-ZN]; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 1.15.1.1; COMPND 5 ENGINEERED: YES 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; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ORIGAMI PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PENTR/TEV/D-TOPO KEYWDS HUMAN SUPEROXIDE DISMUTASE, HOMODIMERIC PROTEIN, APO PROTEIN, KEYWDS 2 AGGREGATION, ALS, MUTANT, ACETYLATION, AMYOTROPHIC LATERAL KEYWDS 3 SCLEROSIS, ANTIOXIDANT, COPPER, CYTOPLASM, DISEASE MUTATION, METAL- KEYWDS 4 BINDING, OXIDOREDUCTASE, UBL CONJUGATION, ZINC EXPDTA X-RAY DIFFRACTION AUTHOR V.CALDERONE REVDAT 3 30-AUG-23 3ECW 1 REMARK REVDAT 2 20-OCT-21 3ECW 1 REMARK SEQADV REVDAT 1 19-MAY-09 3ECW 0 JRNL AUTH L.BANCI,I.BERTINI,M.BOCA,V.CALDERONE,F.CANTINI,S.GIROTTO, JRNL AUTH 2 M.VIERU JRNL TITL STRUCTURAL AND DYNAMIC ASPECTS RELATED TO OLIGOMERIZATION OF JRNL TITL 2 APO SOD1 AND ITS MUTANTS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 106 6980 2009 JRNL REFN ISSN 0027-8424 JRNL PMID 19369197 JRNL DOI 10.1073/PNAS.0809845106 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.BANCI,I.BERTINI,A.DURAZO,S.GIROTTO,E.B.GRALLA, REMARK 1 AUTH 2 M.MARTINELLI,J.S.VALENTINE,M.VIERU,J.P.WHITELEGGE REMARK 1 TITL METAL-FREE SUPEROXIDE DISMUTASE FORMS SOLUBLE OLIGOMERS REMARK 1 TITL 2 UNDER PHYSIOLOGICAL CONDITIONS: A POSSIBLE GENERAL MECHANISM REMARK 1 TITL 3 FOR FAMILIAL ALS. REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 104 11263 2007 REMARK 1 REFN ISSN 0027-8424 REMARK 1 REFERENCE 2 REMARK 1 AUTH L.BANCI,I.BERTINI,M.BOCA,S.GIROTTO,M.MARTINELLI, REMARK 1 AUTH 2 J.S.VALENTINE,M.VIERU REMARK 1 TITL SOD1 AND AMYOTROPHIC LATERAL SCLEROSIS: MUTATIONS AND REMARK 1 TITL 2 OLIGOMERIZATION. REMARK 1 REF PLOS ONE V. 3 1677 2008 REMARK 1 REFN ESSN 1932-6203 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 27233 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2715 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1869 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 158 REMARK 3 BIN FREE R VALUE : 0.3230 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4028 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 363 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.69000 REMARK 3 B22 (A**2) : 2.28000 REMARK 3 B33 (A**2) : -2.54000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.58000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.301 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.265 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.178 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.750 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.881 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4096 ; 0.025 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5529 ; 2.248 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 545 ; 8.506 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;41.603 ;25.287 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 664 ;19.858 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;16.616 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 616 ; 0.158 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3112 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1810 ; 0.223 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2568 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 342 ; 0.228 ; 0.200 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): 35 ; 0.203 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.272 ; 0.200 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): 2785 ; 1.306 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4282 ; 2.128 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1462 ; 3.372 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1247 ; 4.896 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.40 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 3ECW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-OCT-08. REMARK 100 THE DEPOSITION ID IS D_1000049164. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-SEP-07 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 : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99180 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : SI 111 REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29951 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 39.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : 0.09800 REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.44300 REMARK 200 R SYM FOR SHELL (I) : 0.44300 REMARK 200 FOR SHELL : 1.900 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: 1HL5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES 20% PEG 3350, PH 7.0, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289.1K 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 78.47000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.01650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 78.47000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.01650 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 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 APPLY THE FOLLOWING TO CHAINS: C, D 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 C 68 REMARK 465 ARG C 69 REMARK 465 LYS C 70 REMARK 465 HIS C 71 REMARK 465 GLY C 72 REMARK 465 GLY C 73 REMARK 465 PRO C 74 REMARK 465 LYS C 75 REMARK 465 ASP C 76 REMARK 465 GLU C 77 REMARK 465 GLU C 78 REMARK 465 ARG C 79 REMARK 465 ASP C 125 REMARK 465 LEU C 126 REMARK 465 GLY C 127 REMARK 465 LYS C 128 REMARK 465 GLY C 129 REMARK 465 GLY C 130 REMARK 465 ASN C 131 REMARK 465 GLU C 132 REMARK 465 GLU C 133 REMARK 465 SER C 134 REMARK 465 THR C 135 REMARK 465 LYS C 136 REMARK 465 THR C 137 REMARK 465 GLY C 138 REMARK 465 ASN C 139 REMARK 465 ALA C 140 REMARK 465 GLY C 141 REMARK 465 LEU D 67 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 ARG D 79 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 GLY D 141 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 NH1 ARG A 69 O GLU A 77 2.11 REMARK 500 REMARK 500 REMARK: NULL 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 VAL A 31 CA VAL A 31 CB 0.152 REMARK 500 VAL C 5 CB VAL C 5 CG2 0.128 REMARK 500 CYS C 6 CB CYS C 6 SG -0.113 REMARK 500 VAL D 7 CB VAL D 7 CG1 0.138 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 THR C 2 CB - CA - C ANGL. DEV. = 18.7 DEGREES REMARK 500 LEU C 8 CA - CB - CG ANGL. DEV. = 15.0 DEGREES REMARK 500 LEU C 42 CA - CB - CG ANGL. DEV. = 19.8 DEGREES REMARK 500 ASP C 52 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP C 52 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG C 115 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG C 115 NE - CZ - NH2 ANGL. DEV. = -3.1 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 LEU A 126 32.13 73.03 REMARK 500 LYS A 136 -60.65 -97.30 REMARK 500 SER B 68 36.27 33.02 REMARK 500 ASP B 90 -169.09 -66.84 REMARK 500 LEU B 126 37.21 70.42 REMARK 500 GLU C 40 130.95 -29.80 REMARK 500 ASP C 83 99.14 -68.15 REMARK 500 ASP C 90 -172.90 -68.87 REMARK 500 ASP C 92 0.83 -55.97 REMARK 500 ASP D 90 -172.14 -69.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ECU RELATED DB: PDB REMARK 900 RELATED ID: 3ECV RELATED DB: PDB DBREF 3ECW A 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 3ECW B 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 3ECW C 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 3ECW D 1 153 UNP P00441 SODC_HUMAN 2 154 SEQADV 3ECW ARG A 54 UNP P00441 THR 55 ENGINEERED MUTATION SEQADV 3ECW ARG B 54 UNP P00441 THR 55 ENGINEERED MUTATION SEQADV 3ECW ARG C 54 UNP P00441 THR 55 ENGINEERED MUTATION SEQADV 3ECW ARG D 54 UNP P00441 THR 55 ENGINEERED MUTATION 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 ARG 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 ARG 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 C 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 C 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 C 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 C 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 C 153 ASN ARG ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 C 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 C 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 C 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 C 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 C 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 C 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 C 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 ARG 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 FORMUL 5 HOH *363(H2 O) HELIX 1 1 GLY A 56 GLY A 61 5 6 HELIX 2 2 ASN A 131 THR A 135 5 5 HELIX 3 3 GLY B 56 GLY B 61 5 6 HELIX 4 4 GLU B 132 LYS B 136 5 5 HELIX 5 5 ALA C 55 GLY C 61 5 7 HELIX 6 6 GLY D 56 GLY D 61 5 6 HELIX 7 7 SER D 107 CYS D 111 5 5 SHEET 1 A 5 ALA A 95 ASP A 101 0 SHEET 2 A 5 VAL A 29 LYS A 36 -1 N VAL A 29 O ASP A 101 SHEET 3 A 5 GLN A 15 GLN A 22 -1 N GLN A 15 O LYS A 36 SHEET 4 A 5 THR A 2 LEU A 8 -1 N LEU A 8 O GLY A 16 SHEET 5 A 5 GLY A 150 ILE A 151 -1 O GLY A 150 N VAL A 5 SHEET 1 B 4 ASP A 83 ALA A 89 0 SHEET 2 B 4 GLY A 41 HIS A 48 -1 N GLY A 41 O ALA A 89 SHEET 3 B 4 THR A 116 HIS A 120 -1 O HIS A 120 N GLY A 44 SHEET 4 B 4 ARG A 143 VAL A 148 -1 O ALA A 145 N VAL A 119 SHEET 1 C 5 ALA B 95 ASP B 101 0 SHEET 2 C 5 VAL B 29 LYS B 36 -1 N ILE B 35 O ALA B 95 SHEET 3 C 5 GLN B 15 GLN B 22 -1 N ASN B 19 O TRP B 32 SHEET 4 C 5 THR B 2 LYS B 9 -1 N LEU B 8 O GLY B 16 SHEET 5 C 5 GLY B 150 ILE B 151 -1 O GLY B 150 N VAL B 5 SHEET 1 D 4 ASP B 83 ALA B 89 0 SHEET 2 D 4 GLY B 41 HIS B 48 -1 N GLY B 41 O ALA B 89 SHEET 3 D 4 THR B 116 HIS B 120 -1 O THR B 116 N HIS B 48 SHEET 4 D 4 ARG B 143 VAL B 148 -1 O LEU B 144 N VAL B 119 SHEET 1 E 5 ALA C 95 ASP C 101 0 SHEET 2 E 5 VAL C 29 LYS C 36 -1 N VAL C 31 O ILE C 99 SHEET 3 E 5 GLN C 15 GLN C 22 -1 N ASN C 19 O TRP C 32 SHEET 4 E 5 THR C 2 LEU C 8 -1 N CYS C 6 O ILE C 18 SHEET 5 E 5 GLY C 150 ILE C 151 -1 O GLY C 150 N VAL C 5 SHEET 1 F 4 ASP C 83 ALA C 89 0 SHEET 2 F 4 GLY C 41 HIS C 48 -1 N GLY C 41 O ALA C 89 SHEET 3 F 4 THR C 116 HIS C 120 -1 O VAL C 118 N HIS C 46 SHEET 4 F 4 ARG C 143 VAL C 148 -1 O GLY C 147 N LEU C 117 SHEET 1 G 5 ALA D 95 ASP D 101 0 SHEET 2 G 5 VAL D 29 LYS D 36 -1 N VAL D 29 O ASP D 101 SHEET 3 G 5 GLN D 15 GLN D 22 -1 N GLN D 15 O LYS D 36 SHEET 4 G 5 THR D 2 LEU D 8 -1 N LEU D 8 O GLY D 16 SHEET 5 G 5 GLY D 150 ILE D 151 -1 O GLY D 150 N VAL D 5 SHEET 1 H 4 ASP D 83 ALA D 89 0 SHEET 2 H 4 GLY D 41 HIS D 48 -1 N HIS D 43 O VAL D 87 SHEET 3 H 4 THR D 116 HIS D 120 -1 O THR D 116 N HIS D 48 SHEET 4 H 4 ARG D 143 VAL D 148 -1 O LEU D 144 N VAL D 119 SSBOND 1 CYS A 57 CYS A 146 1555 1555 2.09 SSBOND 2 CYS B 57 CYS B 146 1555 1555 2.11 SSBOND 3 CYS C 57 CYS C 146 1555 1555 2.14 SSBOND 4 CYS D 57 CYS D 146 1555 1555 2.16 CRYST1 156.940 34.033 114.585 90.00 112.14 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 0.006372 0.000000 0.002593 0.00000 SCALE2 0.000000 0.029383 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009422 0.00000