HEADER OXIDOREDUCTASE 21-NOV-03 1RK7 TITLE SOLUTION STRUCTURE OF APO CU,ZN SUPEROXIDE DISMUTASE: ROLE OF METAL TITLE 2 IONS IN PROTEIN FOLDING COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUPEROXIDE DISMUTASE [CU-ZN]; COMPND 3 CHAIN: A; COMPND 4 EC: 1.15.1.1; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: 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: TOPP1; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PBR322 WITH HUMAN SOD GENE KEYWDS APO FORM OF MONOMERIC MUTANT OF CU, ZN SOD; SOLUTION STRUCTURE, KEYWDS 2 Q133M2SOD, OXIDOREDUCTASE EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR L.BANCI,I.BERTINI,F.CRAMARO,R.DEL CONTE,M.S.VIEZZOLI REVDAT 3 27-OCT-21 1RK7 1 REMARK SEQADV REVDAT 2 24-FEB-09 1RK7 1 VERSN REVDAT 1 02-DEC-03 1RK7 0 JRNL AUTH L.BANCI,I.BERTINI,F.CRAMARO,R.DEL CONTE,M.S.VIEZZOLI JRNL TITL SOLUTION STRUCTURE OF APO CU,ZN SUPEROXIDE DISMUTASE: ROLE JRNL TITL 2 OF METAL IONS IN PROTEIN FOLDING JRNL REF BIOCHEMISTRY V. 42 9543 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12911296 JRNL DOI 10.1021/BI034324M REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CALIBA, AMBER REMARK 3 AUTHORS : GUENTER ET AL. (CALIBA), PEARLMAN ET AL. (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES WERE CALCULATED USING REMARK 3 THE CONSTRAINTS: 2382 MEANINGFUL UPPER DISTANCE LIMITS, 42 REMARK 3 DIHEDRAL PHI ANGLES, 41 DIHEDRAL PSI ANGLES AND 42 PROTON PAIRS REMARK 3 STEREOSPECIFICALLY ASSIGNED. THE DISULPHIDE BRIDGE BETWEEN C57 REMARK 3 AND C146 WAS INTRODUCED WITH THE UPPER AND LOWER DISTANCES REMARK 3 LIMITS BETWEEN THE CB AND SG ATOMS OF THE TWO SIDE CHAINS. REMARK 4 REMARK 4 1RK7 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-NOV-03. REMARK 100 THE DEPOSITION ID IS D_1000020828. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : APO SOD 2MM; APO SOD 2MM REMARK 210 ENRICHED IN 15N; APO SOD 2MM REMARK 210 ENRICHED IN 15N AND 13C REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : CBCA(CO)NH, REMARK 210 HNCACB,HNCO,HN(CA)CO,13C H(C)CH-TOCSY,13CC(CO)NH-TOCSY,13C NOESY- REMARK 210 HSQC; HNHA,HNHB,15N HSQC NOESY,15N HSQC; 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : GLOMSA, DYANA, XWINNMR, PROCHECK REMARK 210 -NMR AQUA REMARK 210 METHOD USED : SIMULATED ANNEALING AND REMARK 210 RESTRAINED ENERGY MINIMIZATION REMARK 210 IN VACUUM REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 400 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY,TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE SOLUTION STRUCTURE OF APO SOD WAS DETERMINED USING REMARK 210 TRIPLE RESONANCE THREE AND BI DIMENSIONAL AND HOMONUCLEAR REMARK 210 BIDIMENSIONAL TECHNIQUES REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 LEU A 117 H GLY A 147 1.55 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 1 LYS A 9 136.10 -178.29 REMARK 500 1 VAL A 14 92.78 -60.04 REMARK 500 1 ASN A 26 34.31 -152.97 REMARK 500 1 LYS A 30 97.58 -68.85 REMARK 500 1 LEU A 38 -170.93 -52.67 REMARK 500 1 GLU A 40 95.78 -40.42 REMARK 500 1 HIS A 46 173.20 -59.76 REMARK 500 1 VAL A 47 77.63 65.24 REMARK 500 1 ASP A 52 130.99 156.88 REMARK 500 1 ALA A 55 116.56 72.91 REMARK 500 1 CYS A 57 -72.33 -118.31 REMARK 500 1 THR A 58 -149.92 -114.72 REMARK 500 1 SER A 59 111.92 -178.48 REMARK 500 1 ALA A 60 -56.51 -159.63 REMARK 500 1 HIS A 63 36.95 -154.65 REMARK 500 1 PHE A 64 -149.91 67.82 REMARK 500 1 ARG A 69 -60.78 70.51 REMARK 500 1 ASP A 76 90.45 53.66 REMARK 500 1 GLU A 78 -68.02 173.89 REMARK 500 1 ARG A 79 45.54 30.90 REMARK 500 1 VAL A 81 -157.79 -97.75 REMARK 500 1 LEU A 84 -73.09 -93.28 REMARK 500 1 VAL A 87 -156.57 -117.58 REMARK 500 1 ASP A 90 -97.59 -82.96 REMARK 500 1 ASP A 92 23.20 -153.41 REMARK 500 1 VAL A 94 101.10 -39.93 REMARK 500 1 SER A 98 100.98 -164.44 REMARK 500 1 HIS A 110 63.55 -112.38 REMARK 500 1 THR A 116 85.38 -58.72 REMARK 500 1 LYS A 122 177.16 168.27 REMARK 500 1 GLU A 132 31.05 88.47 REMARK 500 1 GLN A 133 -64.64 -159.82 REMARK 500 1 THR A 137 -105.39 -124.04 REMARK 500 1 ALA A 140 -61.79 177.75 REMARK 500 1 LEU A 144 -70.44 -141.94 REMARK 500 1 CYS A 146 68.88 -156.10 REMARK 500 2 LYS A 9 117.26 -173.00 REMARK 500 2 VAL A 14 101.49 -53.25 REMARK 500 2 GLN A 22 81.04 -155.15 REMARK 500 2 LYS A 23 48.82 -85.53 REMARK 500 2 ASN A 26 33.42 -154.61 REMARK 500 2 LYS A 30 93.49 -66.00 REMARK 500 2 LEU A 38 -170.65 -54.02 REMARK 500 2 GLU A 40 122.16 -39.21 REMARK 500 2 GLU A 49 60.71 170.36 REMARK 500 2 GLU A 51 -153.50 43.63 REMARK 500 2 ASP A 52 114.16 -160.25 REMARK 500 2 ASN A 53 60.64 -179.38 REMARK 500 2 THR A 54 -51.58 -151.95 REMARK 500 2 ALA A 55 -85.22 169.50 REMARK 500 REMARK 500 THIS ENTRY HAS 1316 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BA9 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE HOLO MONOMERIC MUTANT OF CU, ZN SOD DBREF 1RK7 A 1 153 UNP P00441 SODC_HUMAN 1 153 SEQADV 1RK7 ALA A 6 UNP P00441 CYS 6 ENGINEERED MUTATION SEQADV 1RK7 GLU A 50 UNP P00441 PHE 50 ENGINEERED MUTATION SEQADV 1RK7 GLU A 51 UNP P00441 GLY 51 ENGINEERED MUTATION SEQADV 1RK7 SER A 111 UNP P00441 CYS 111 ENGINEERED MUTATION SEQADV 1RK7 GLN A 133 UNP P00441 GLU 133 ENGINEERED MUTATION SEQRES 1 A 153 ALA THR LYS ALA VAL ALA 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 GLU GLU 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 SER 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 GLN SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 A 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN SHEET 1 A 5 ASP A 96 ASP A 101 0 SHEET 2 A 5 VAL A 29 SER A 34 -1 N VAL A 29 O ASP A 101 SHEET 3 A 5 ILE A 17 GLN A 22 -1 N ILE A 17 O SER A 34 SHEET 4 A 5 THR A 2 VAL A 7 -1 N ALA A 4 O PHE A 20 SHEET 5 A 5 GLY A 150 ALA A 152 -1 O GLY A 150 N VAL A 5 SSBOND 1 CYS A 57 CYS A 146 1555 1555 1.96 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1