HEADER METAL TRANSPORT 08-DEC-07 2RNB TITLE SOLUTION STRUCTURE OF HUMAN CU(I)COX17 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C OXIDASE COPPER CHAPERONE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: COX17; 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: COX17; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-ORIGAMI(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PETG-30A KEYWDS COILED COIL-HELIX-COILED COIL-HELIX DOMAIN, COPPER BINDING PROTEIN, KEYWDS 2 ALPHA-HAIRPIN FOLD, CHAPERONE, METAL-BINDING, MITOCHONDRION, METAL KEYWDS 3 TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,A.JANICKA,M.MARTINELLI,H.KOZLOWSKI, AUTHOR 2 P.PALUMAA REVDAT 4 14-JUN-23 2RNB 1 REMARK REVDAT 3 26-FEB-20 2RNB 1 REMARK SEQADV REVDAT 2 01-APR-08 2RNB 1 JRNL AUTHOR VERSN REVDAT 1 18-DEC-07 2RNB 0 JRNL AUTH L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,A.JANICKA,M.MARTINELLI, JRNL AUTH 2 H.KOZLOWSKI,P.PALUMAA JRNL TITL A STRUCTURAL-DYNAMICAL CHARACTERIZATION OF HUMAN COX17 JRNL REF J.BIOL.CHEM. V. 283 7912 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18093982 JRNL DOI 10.1074/JBC.M708016200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, AMBER 8.0 REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), CASE, DARDEN, CHEATHAM, REMARK 3 III, SIMMERLING, WANG, DUKE, LUO, ... AND KOLL REMARK 3 (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NMR REFINEMENT IS BASED ON NOE-DERIVED REMARK 3 DISTANCE RESTRAINTS AND TORSION ANGLE RESTRAINTS REMARK 4 REMARK 4 2RNB COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-DEC-07. REMARK 100 THE DEPOSITION ID IS D_1000150059. 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 : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5-1MM COX17; 0.5-1MM COPPER REMARK 210 (I) ION; 1MM DTT; 50MM POTASSIUM REMARK 210 PHOSPHATE; 90% H2O/10% D2O; 0.5- REMARK 210 1MM [U-100% 15N] COX17; 0.5-1MM REMARK 210 COPPER (I) ION; 1MM DTT; 50MM REMARK 210 POTASSIUM PHOSPHATE; 90% H2O/10% REMARK 210 D2O; 0.5-1MM [U-100% 13C; U-100% REMARK 210 15N] COX17; 0.5-1MM COPPER (I) REMARK 210 ION; 1MM DTT; 50MM POTASSIUM REMARK 210 PHOSPHATE; 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HN(CO)CA; 3D HCCH- REMARK 210 TOCSY; 3D HBHA(CO)NH; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY; 2D 1H-1H REMARK 210 NOESY; 2D 1H-1H TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 500 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.1, ATNOS, CARA, CANDID, REMARK 210 TALOS, WHAT IF REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 400 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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: 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 1 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 1 PHE A 65 CB - CG - CD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 1 PHE A 65 CB - CG - CD1 ANGL. DEV. = 5.1 DEGREES REMARK 500 2 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 2 ARG A 61 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 2 PHE A 65 CB - CG - CD2 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 PHE A 65 CB - CG - CD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 3 PHE A 65 CB - CG - CD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 3 PHE A 65 CB - CG - CD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 4 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 4 PHE A 65 CB - CG - CD2 ANGL. DEV. = 4.7 DEGREES REMARK 500 4 PHE A 65 CB - CG - CD1 ANGL. DEV. = -6.3 DEGREES REMARK 500 5 ARG A 61 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 6 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 6 ARG A 61 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 6 PHE A 65 CB - CG - CD1 ANGL. DEV. = -5.0 DEGREES REMARK 500 7 ARG A 61 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 8 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 9 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 10 ARG A 61 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 10 ARG A 61 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 11 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 12 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 13 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 13 ARG A 61 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 14 PHE A 65 CB - CG - CD1 ANGL. DEV. = -5.4 DEGREES REMARK 500 15 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 16 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 18 PHE A 65 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 19 ARG A 61 NE - CZ - NH1 ANGL. DEV. = 3.0 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 1 SER A 2 -157.78 52.37 REMARK 500 1 PRO A 6 27.18 -72.57 REMARK 500 1 LEU A 8 -174.38 53.75 REMARK 500 1 GLU A 17 105.88 -46.75 REMARK 500 1 SER A 18 103.76 -173.77 REMARK 500 1 GLN A 19 39.62 -149.32 REMARK 500 1 LYS A 21 -0.88 -140.25 REMARK 500 1 LYS A 44 -58.64 -139.24 REMARK 500 1 CYS A 49 16.05 -148.22 REMARK 500 2 THR A 4 -31.36 64.95 REMARK 500 2 MET A 5 54.42 38.02 REMARK 500 2 PRO A 6 29.73 -74.39 REMARK 500 2 LEU A 8 32.12 38.05 REMARK 500 2 ASP A 10 25.95 43.85 REMARK 500 2 ASN A 12 68.92 -164.41 REMARK 500 2 SER A 18 -38.15 -177.18 REMARK 500 2 GLN A 19 159.44 51.07 REMARK 500 2 GLU A 20 -175.18 -65.17 REMARK 500 2 CYS A 30 50.97 38.77 REMARK 500 2 LYS A 44 -33.84 -137.77 REMARK 500 2 CYS A 49 17.58 -146.83 REMARK 500 3 THR A 4 -40.11 -148.35 REMARK 500 3 MET A 5 51.71 31.13 REMARK 500 3 PRO A 6 13.07 -69.99 REMARK 500 3 LEU A 8 34.23 -158.37 REMARK 500 3 ASP A 10 66.31 -59.44 REMARK 500 3 ASN A 12 59.54 -146.64 REMARK 500 3 LYS A 44 -8.63 -147.87 REMARK 500 4 LEU A 8 144.28 -170.70 REMARK 500 4 VAL A 9 156.16 60.86 REMARK 500 4 PRO A 15 -177.82 -62.38 REMARK 500 4 SER A 18 15.99 -163.72 REMARK 500 4 LYS A 44 -11.13 -148.68 REMARK 500 4 CYS A 49 14.91 -141.20 REMARK 500 5 VAL A 9 95.31 50.66 REMARK 500 5 ASP A 10 109.09 -59.95 REMARK 500 5 ASN A 12 57.81 -152.99 REMARK 500 5 SER A 18 57.58 -155.45 REMARK 500 5 LYS A 44 -55.97 -138.43 REMARK 500 5 CYS A 49 16.11 -147.47 REMARK 500 6 THR A 4 -50.33 -158.54 REMARK 500 6 MET A 5 54.23 31.87 REMARK 500 6 VAL A 9 145.81 67.74 REMARK 500 6 SER A 11 22.82 46.11 REMARK 500 6 SER A 18 14.24 -67.22 REMARK 500 6 GLU A 20 -159.69 -169.17 REMARK 500 6 LYS A 21 33.62 -55.27 REMARK 500 6 LYS A 44 -59.23 -139.12 REMARK 500 6 CYS A 49 15.84 -147.81 REMARK 500 6 LYS A 66 73.11 -116.37 REMARK 500 REMARK 500 THIS ENTRY HAS 143 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 18 GLN A 19 1 148.30 REMARK 500 GLN A 19 GLU A 20 1 -146.16 REMARK 500 GLY A 64 PHE A 65 3 -142.87 REMARK 500 GLN A 19 GLU A 20 7 148.57 REMARK 500 LYS A 25 PRO A 26 7 -148.30 REMARK 500 GLY A 1 SER A 2 9 136.85 REMARK 500 GLY A 1 SER A 2 13 140.38 REMARK 500 LYS A 22 PRO A 23 14 149.96 REMARK 500 LYS A 25 PRO A 26 16 -148.28 REMARK 500 GLY A 1 SER A 2 17 -146.55 REMARK 500 ASP A 10 SER A 11 17 148.87 REMARK 500 GLN A 19 GLU A 20 17 147.01 REMARK 500 PHE A 65 LYS A 66 17 -136.04 REMARK 500 GLY A 64 PHE A 65 18 -148.58 REMARK 500 LYS A 66 ILE A 67 18 -147.72 REMARK 500 ASP A 10 SER A 11 20 -140.63 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 1 ARG A 61 0.11 SIDE CHAIN REMARK 500 5 PHE A 65 0.11 SIDE CHAIN REMARK 500 7 PHE A 65 0.09 SIDE CHAIN REMARK 500 8 GLU A 20 0.09 SIDE CHAIN REMARK 500 8 PHE A 65 0.11 SIDE CHAIN REMARK 500 9 PHE A 65 0.11 SIDE CHAIN REMARK 500 10 ARG A 61 0.13 SIDE CHAIN REMARK 500 10 PHE A 65 0.10 SIDE CHAIN REMARK 500 11 PHE A 65 0.10 SIDE CHAIN REMARK 500 12 PHE A 65 0.10 SIDE CHAIN REMARK 500 13 PHE A 65 0.08 SIDE CHAIN REMARK 500 16 PHE A 65 0.09 SIDE CHAIN REMARK 500 17 PHE A 65 0.09 SIDE CHAIN REMARK 500 18 PHE A 65 0.10 SIDE CHAIN REMARK 500 19 PHE A 65 0.08 SIDE CHAIN REMARK 500 20 PHE A 65 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL 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 68 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2RN9 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE APO FORM OF HUMAN COX17 REMARK 900 RELATED ID: 11020 RELATED DB: BMRB DBREF 2RNB A 5 67 UNP Q14061 COX17_HUMAN 1 63 SEQADV 2RNB GLY A 1 UNP Q14061 EXPRESSION TAG SEQADV 2RNB SER A 2 UNP Q14061 EXPRESSION TAG SEQADV 2RNB PHE A 3 UNP Q14061 EXPRESSION TAG SEQADV 2RNB THR A 4 UNP Q14061 EXPRESSION TAG SEQRES 1 A 67 GLY SER PHE THR MET PRO GLY LEU VAL ASP SER ASN PRO SEQRES 2 A 67 ALA PRO PRO GLU SER GLN GLU LYS LYS PRO LEU LYS PRO SEQRES 3 A 67 CYS CYS ALA CYS PRO GLU THR LYS LYS ALA ARG ASP ALA SEQRES 4 A 67 CYS ILE ILE GLU LYS GLY GLU GLU HIS CYS GLY HIS LEU SEQRES 5 A 67 ILE GLU ALA HIS LYS GLU CYS MET ARG ALA LEU GLY PHE SEQRES 6 A 67 LYS ILE HET CU1 A 68 1 HETNAM CU1 COPPER (I) ION FORMUL 2 CU1 CU 1+ HELIX 1 1 CYS A 30 LYS A 44 1 15 HELIX 2 2 GLY A 45 HIS A 48 5 4 HELIX 3 3 CYS A 49 ALA A 62 1 14 SSBOND 1 CYS A 30 CYS A 59 1555 1555 2.05 SSBOND 2 CYS A 40 CYS A 49 1555 1555 2.03 SITE 1 AC1 3 LYS A 25 CYS A 27 CYS A 28 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