10 20 30 40 50 60 70 80 2HRF - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER METAL TRANSPORT 20-JUL-06 2HRF
TITLE SOLUTION STRUCTURE OF CU(I) P174L HSCO1
COMPND MOL_ID: 1; COMPND 2 MOLECULE: SCO1 PROTEIN HOMOLOG, MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN (RESIDUES 132-301); 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 STRAIN: HUMAN; SOURCE 6 GENE: SCO1, SCOD1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21DE3 GOLD; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PETG-30A
KEYWDS CHAPERONE, MITOCHONDRION, 3D-STRUCTURE, METAL-BINDING, KEYWDS 2 DISEASE MUTATION, STRUCTURAL GENOMICS, STRUCTURAL KEYWDS 3 PROTEOMICS IN EUROPE, SPINE, METAL TRANSPORT
EXPDTA SOLUTION NMR
MDLTYP MINIMIZED AVERAGE
AUTHOR L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,I.LEONTARI,M.MARTINELLI, AUTHOR 2 P.PALUMAA,R.SILLARD,S.WANG,STRUCTURAL PROTEOMICS IN EUROPE AUTHOR 3 (SPINE)
REVDAT 2 24-FEB-09 2HRF 1 VERSN REVDAT 1 16-JAN-07 2HRF 0
JRNL AUTH L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,I.LEONTARI, JRNL AUTH 2 M.MARTINELLI,P.PALUMAA,R.SILLARD,S.WANG JRNL TITL HUMAN SCO1 FUNCTIONAL STUDIES AND PATHOLOGICAL JRNL TITL 2 IMPLICATIONS OF THE P174L MUTANT. JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 15 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17182746 JRNL DOI 10.1073/PNAS.0606189103
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 8.0 REMARK 3 AUTHORS : PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM,FERGUSON, REMARK 3 SEIBEL,SINGH,WEINER,KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2HRF COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JUL-06. REMARK 100 THE RCSB ID CODE IS RCSB038674.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : 50MM PHOSPHATE BUFFER REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM CU(I)P174LHSCO1 U-15N, REMARK 210 13C, 50MM PHOSPHATE BUFFER NA, REMARK 210 90% H2O, 10% D2O; 1MM CU(I) REMARK 210 P174LHSCO1 U-15N, 50MM REMARK 210 PHOSPHATE BUFFER NA, 90% H2O, REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY, 3D_ REMARK 210 15N-SEPARATED_NOESY, HNCA, REMARK 210 HN(CO)CA, CBCA(CO)NH, HCCH- REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ, 800 MHZ, 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.6, CARA 2.0, DYANA REMARK 210 1.5 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY.
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 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 PHE A 130 C - N - CA ANGL. DEV. = 15.8 DEGREES REMARK 500 ARG A 207 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 231 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 LYS A 300 CA - CB - CG ANGL. DEV. = 33.2 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 PHE A 130 129.55 84.01 REMARK 500 SER A 141 56.21 -140.24 REMARK 500 TYR A 155 -73.06 -107.39 REMARK 500 THR A 167 37.95 -76.69 REMARK 500 HIS A 168 -16.54 -142.62 REMARK 500 ASP A 171 -71.50 -141.78 REMARK 500 THR A 191 -37.70 75.17 REMARK 500 ASP A 204 109.03 -163.54 REMARK 500 ARG A 207 15.26 -174.95 REMARK 500 SER A 221 142.35 -170.71 REMARK 500 THR A 228 -164.70 -125.65 REMARK 500 LYS A 250 52.54 -91.83 REMARK 500 GLU A 252 -134.11 -151.56 REMARK 500 GLU A 254 -0.29 69.19 REMARK 500 ILE A 257 57.85 -63.41 REMARK 500 GLU A 272 -142.24 -105.10 REMARK 500 GLN A 279 -32.02 -39.40 REMARK 500 LYS A 283 -63.37 -29.37 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 TYR A 216 0.09 SIDE_CHAIN 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 CU1 A 302 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 260 NE2 REMARK 620 2 CYS A 169 SG 104.6 REMARK 620 3 CYS A 173 SG 103.5 116.4 REMARK 620 N 1 2
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU1 A 302
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2GQK RELATED DB: PDB REMARK 900 THE FAMILY OF 30 STRUCTURES OF WILD TYPE NI(II) HUMAN SCO1 REMARK 900 RELATED ID: 2GQL RELATED DB: PDB REMARK 900 THE AVERAGE MINIMIZED STRUCTURE OF WILD TYPE HUMAN SCO1 REMARK 900 COMPLEXED WITH NI(II) IONS. REMARK 900 RELATED ID: 2GQM RELATED DB: PDB REMARK 900 THE FAMILY OF 30 STRUCTURES OF WILD TYPE CU(I) HUMAN SCO1 REMARK 900 RELATED ID: 2GT6 RELATED DB: PDB REMARK 900 THE AVERAGE MINIMIZED STRUCTURE OF WILD TYPE HUMAN SCO1 REMARK 900 COMPLEXED WITH CU(I) REMARK 900 RELATED ID: 2GT5 RELATED DB: PDB REMARK 900 THE FAMILY OF 30 STRUCTURES OF WILD TYPE HUMAN SCO1, APO REMARK 900 FORM REMARK 900 RELATED ID: 2GVP RELATED DB: PDB REMARK 900 THE AVERAGE MINIMIZED STRUCTURE OF WILD TYPE HUMAN SCO1, REMARK 900 APO FORM REMARK 900 RELATED ID: 2HRN RELATED DB: PDB
DBREF 2HRF A 132 301 UNP O75880 SCO1_HUMAN 132 301
SEQADV 2HRF SER A 129 UNP O75880 CLONING ARTIFACT SEQADV 2HRF PHE A 130 UNP O75880 CLONING ARTIFACT SEQADV 2HRF THR A 131 UNP O75880 CLONING ARTIFACT SEQADV 2HRF LEU A 174 UNP O75880 PRO 174 ENGINEERED
SEQRES 1 A 173 SER PHE THR GLY LYS PRO LEU LEU GLY GLY PRO PHE SER SEQRES 2 A 173 LEU THR THR HIS THR GLY GLU ARG LYS THR ASP LYS ASP SEQRES 3 A 173 TYR LEU GLY GLN TRP LEU LEU ILE TYR PHE GLY PHE THR SEQRES 4 A 173 HIS CYS PRO ASP VAL CYS LEU GLU GLU LEU GLU LYS MET SEQRES 5 A 173 ILE GLN VAL VAL ASP GLU ILE ASP SER ILE THR THR LEU SEQRES 6 A 173 PRO ASP LEU THR PRO LEU PHE ILE SER ILE ASP PRO GLU SEQRES 7 A 173 ARG ASP THR LYS GLU ALA ILE ALA ASN TYR VAL LYS GLU SEQRES 8 A 173 PHE SER PRO LYS LEU VAL GLY LEU THR GLY THR ARG GLU SEQRES 9 A 173 GLU VAL ASP GLN VAL ALA ARG ALA TYR ARG VAL TYR TYR SEQRES 10 A 173 SER PRO GLY PRO LYS ASP GLU ASP GLU ASP TYR ILE VAL SEQRES 11 A 173 ASP HIS THR ILE ILE MET TYR LEU ILE GLY PRO ASP GLY SEQRES 12 A 173 GLU PHE LEU ASP TYR PHE GLY GLN ASN LYS ARG LYS GLY SEQRES 13 A 173 GLU ILE ALA ALA SER ILE ALA THR HIS MET ARG PRO TYR SEQRES 14 A 173 ARG LYS LYS SER
HET CU1 A 302 1
HETNAM CU1 COPPER (I) ION
FORMUL 2 CU1 CU 1+
HELIX 1 1 THR A 151 LEU A 156 1 6 HELIX 2 2 ASP A 171 THR A 191 1 21 HELIX 3 3 THR A 209 GLU A 219 1 11 HELIX 4 4 THR A 230 TYR A 241 1 12 HELIX 5 5 ARG A 282 ARG A 295 1 14
SHEET 1 A 7 ARG A 149 LYS A 150 0 SHEET 2 A 7 LEU A 142 THR A 144 -1 N LEU A 142 O LYS A 150 SHEET 3 A 7 VAL A 225 THR A 228 -1 O THR A 228 N THR A 143 SHEET 4 A 7 THR A 197 SER A 202 1 N PHE A 200 O LEU A 227 SHEET 5 A 7 LEU A 160 GLY A 165 1 N LEU A 161 O LEU A 199 SHEET 6 A 7 MET A 264 ILE A 267 -1 O ILE A 267 N LEU A 160 SHEET 7 A 7 PHE A 273 PHE A 277 -1 O PHE A 277 N MET A 264
LINK CU CU1 A 302 NE2 HIS A 260 1555 1555 2.04 LINK CU CU1 A 302 SG CYS A 169 1555 1555 2.43 LINK CU CU1 A 302 SG CYS A 173 1555 1555 2.42
CISPEP 1 SER A 129 PHE A 130 0 -0.84 CISPEP 2 PHE A 130 THR A 131 0 -3.10 CISPEP 3 LYS A 300 SER A 301 0 -12.55
SITE 1 AC1 4 CYS A 169 VAL A 172 CYS A 173 HIS A 260
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