HEADER METAL BINDING PROTEIN 23-AUG-04 1X9L TITLE SOLUTION STRUCTURE OF CUI-DR1885 FROM DEINOCOCCUS RADIODURANS CAVEAT 1X9L CHIRALITY ERRORS IN MODELS 1 AND 9. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CUI-DR1885; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS; SOURCE 3 ORGANISM_TAXID: 243230; SOURCE 4 STRAIN: R1 KEYWDS COPPER BINDING PROTEIN, DEINOCOCCUS RADIODURANS, SOLUTION STRUCTURE, KEYWDS 2 HOLO-FORM, STRUCTURAL PROTEOMICS IN EUROPE, SPINE, STRUCTURAL KEYWDS 3 GENOMICS, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 MDLTYP MINIMIZED AVERAGE AUTHOR L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,E.KATSARI,N.KATSAROS,K.KUBICEK, AUTHOR 2 STRUCTURAL PROTEOMICS IN EUROPE (SPINE) REVDAT 5 01-MAY-24 1X9L 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 1X9L 1 VERSN REVDAT 3 24-FEB-09 1X9L 1 VERSN REVDAT 2 19-APR-05 1X9L 1 JRNL REVDAT 1 31-AUG-04 1X9L 0 JRNL AUTH L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,E.KATSARI,N.KATSAROS, JRNL AUTH 2 K.KUBICEK JRNL TITL A COPPER(I) PROTEIN POSSIBLY INVOLVED IN THE ASSEMBLY OF CUA JRNL TITL 2 CENTER OF BACTERIAL CYTOCHROME C OXIDASE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 102 3994 2005 JRNL REFN ISSN 0027-8424 JRNL PMID 15753304 JRNL DOI 10.1073/PNAS.0406150102 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, DYANA 1.5 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUENTERT, P. (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1X9L COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000030111. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 101.325 ATM REMARK 210 SAMPLE CONTENTS : 1MM CUI-DR1885, 100MM PHOSPHATE REMARK 210 BUFFER K, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 2D NOESY; 2D REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.2, SPARKY 3.106 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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 PRO A 11 C - N - CA ANGL. DEV. = 9.0 DEGREES REMARK 500 9 ALA A 17 C - N - CA ANGL. DEV. = 16.9 DEGREES REMARK 500 14 ARG A 149 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 1 THR A 4 85.12 -58.57 REMARK 500 1 MET A 5 -158.34 -62.05 REMARK 500 1 PRO A 6 -167.87 51.62 REMARK 500 1 ALA A 7 -94.41 61.87 REMARK 500 1 HIS A 8 -58.48 -136.79 REMARK 500 1 THR A 9 -76.21 -13.79 REMARK 500 1 PRO A 10 -109.14 61.61 REMARK 500 1 PRO A 11 66.30 -23.32 REMARK 500 1 ALA A 12 52.19 -103.64 REMARK 500 1 GLN A 13 -164.06 59.51 REMARK 500 1 PRO A 16 -91.56 -28.85 REMARK 500 1 GLN A 19 -64.51 93.03 REMARK 500 1 LYS A 20 -44.63 165.01 REMARK 500 1 ALA A 23 -54.93 80.82 REMARK 500 1 GLN A 24 -65.03 74.82 REMARK 500 1 ALA A 25 136.64 162.50 REMARK 500 1 THR A 29 57.42 -161.71 REMARK 500 1 VAL A 38 108.22 -17.50 REMARK 500 1 SER A 41 44.25 -165.40 REMARK 500 1 ILE A 42 169.07 74.20 REMARK 500 1 LYS A 54 57.02 -141.82 REMARK 500 1 SER A 55 -40.63 -156.16 REMARK 500 1 ASP A 56 62.22 65.99 REMARK 500 1 VAL A 62 54.28 -143.75 REMARK 500 1 ALA A 64 59.97 -156.21 REMARK 500 1 PRO A 67 49.65 -75.78 REMARK 500 1 LEU A 68 -70.59 -125.55 REMARK 500 1 SER A 80 -20.59 166.01 REMARK 500 1 MET A 83 -168.10 -166.05 REMARK 500 1 TRP A 91 -165.30 172.65 REMARK 500 1 ALA A 96 177.93 58.38 REMARK 500 1 ARG A 97 33.99 38.81 REMARK 500 1 THR A 99 57.16 -111.49 REMARK 500 1 ASP A 107 136.45 65.45 REMARK 500 1 HIS A 108 -179.20 179.82 REMARK 500 1 LYS A 115 -72.97 -76.45 REMARK 500 1 VAL A 120 107.37 -54.01 REMARK 500 1 THR A 135 73.15 -156.35 REMARK 500 1 ASN A 145 110.68 65.47 REMARK 500 2 MET A 5 88.83 -158.03 REMARK 500 2 ALA A 15 68.65 -168.61 REMARK 500 2 THR A 29 59.32 -156.60 REMARK 500 2 ALA A 36 38.49 -79.11 REMARK 500 2 ALA A 37 -145.23 47.02 REMARK 500 2 SER A 41 58.91 -166.99 REMARK 500 2 ILE A 42 164.09 76.30 REMARK 500 2 ALA A 64 61.96 -156.47 REMARK 500 2 LEU A 68 -48.45 -162.97 REMARK 500 2 THR A 77 59.86 -145.83 REMARK 500 2 SER A 80 -58.15 -163.32 REMARK 500 REMARK 500 THIS ENTRY HAS 543 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 THR A 4 MET A 5 1 149.47 REMARK 500 ALA A 7 HIS A 8 1 117.38 REMARK 500 PRO A 11 ALA A 12 1 132.87 REMARK 500 ALA A 12 GLN A 13 1 -145.98 REMARK 500 THR A 14 ALA A 15 1 141.41 REMARK 500 ALA A 15 PRO A 16 1 -105.72 REMARK 500 ALA A 21 GLY A 22 1 -144.86 REMARK 500 PRO A 27 VAL A 28 1 -148.04 REMARK 500 MET A 83 ALA A 84 2 145.04 REMARK 500 ALA A 37 VAL A 38 3 -144.02 REMARK 500 GLY A 148 ARG A 149 3 -135.84 REMARK 500 MET A 1 GLY A 2 8 -137.46 REMARK 500 ALA A 7 HIS A 8 9 -148.98 REMARK 500 PRO A 11 ALA A 12 9 56.71 REMARK 500 SER A 55 ASP A 56 15 140.77 REMARK 500 ALA A 37 VAL A 38 16 140.22 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 TYR A 48 0.07 SIDE CHAIN REMARK 500 1 ARG A 149 0.08 SIDE CHAIN REMARK 500 2 TYR A 48 0.08 SIDE CHAIN REMARK 500 2 ARG A 149 0.13 SIDE CHAIN REMARK 500 5 TYR A 48 0.11 SIDE CHAIN REMARK 500 5 ARG A 104 0.12 SIDE CHAIN REMARK 500 6 HIS A 108 0.08 SIDE CHAIN REMARK 500 7 TYR A 48 0.07 SIDE CHAIN REMARK 500 8 TYR A 48 0.12 SIDE CHAIN REMARK 500 9 ARG A 97 0.07 SIDE CHAIN REMARK 500 9 ARG A 134 0.09 SIDE CHAIN REMARK 500 9 ARG A 149 0.08 SIDE CHAIN REMARK 500 11 TYR A 48 0.11 SIDE CHAIN REMARK 500 12 ARG A 134 0.10 SIDE CHAIN REMARK 500 13 TYR A 48 0.07 SIDE CHAIN REMARK 500 14 TYR A 48 0.13 SIDE CHAIN REMARK 500 14 ARG A 97 0.17 SIDE CHAIN REMARK 500 14 ARG A 104 0.16 SIDE CHAIN REMARK 500 14 ARG A 149 0.09 SIDE CHAIN REMARK 500 15 TYR A 48 0.09 SIDE CHAIN REMARK 500 15 ARG A 97 0.12 SIDE CHAIN REMARK 500 16 TYR A 48 0.13 SIDE CHAIN REMARK 500 19 ARG A 104 0.11 SIDE CHAIN REMARK 500 20 TYR A 48 0.07 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 150 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 75 SD REMARK 620 2 MET A 86 SD 83.1 REMARK 620 3 HIS A 108 NE2 116.9 121.0 REMARK 620 4 MET A 110 SD 89.5 127.9 108.3 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 CU1 A 150 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: CIRMMP12 RELATED DB: TARGETDB DBREF 1X9L A 2 145 UNP Q9RT80 Q9RT80_DEIRA 35 178 SEQADV 1X9L MET A 1 UNP Q9RT80 INITIATING METHIONINE SEQADV 1X9L ILE A 146 UNP Q9RT80 CLONING ARTIFACT SEQADV 1X9L GLU A 147 UNP Q9RT80 CLONING ARTIFACT SEQADV 1X9L GLY A 148 UNP Q9RT80 CLONING ARTIFACT SEQADV 1X9L ARG A 149 UNP Q9RT80 CLONING ARTIFACT SEQRES 1 A 149 MET GLY HIS THR MET PRO ALA HIS THR PRO PRO ALA GLN SEQRES 2 A 149 THR ALA PRO ALA ALA GLN LYS ALA GLY ALA GLN ALA LEU SEQRES 3 A 149 PRO VAL THR VAL GLN GLY ALA THR VAL ALA ALA VAL PRO SEQRES 4 A 149 PRO SER ILE ARG ASP THR ALA ALA TYR MET THR LEU THR SEQRES 5 A 149 ASN LYS SER ASP GLN PRO ILE LYS LEU VAL GLY ALA ALA SEQRES 6 A 149 THR PRO LEU ALA THR SER PRO MET LEU MET THR THR THR SEQRES 7 A 149 HIS SER GLY GLY MET ALA GLY MET LYS MET VAL PRO TRP SEQRES 8 A 149 LEU THR ILE PRO ALA ARG GLY THR LEU THR LEU GLN ARG SEQRES 9 A 149 ASP GLY ASP HIS VAL MET LEU MET GLY LEU LYS ARG PRO SEQRES 10 A 149 LEU LYS VAL GLY GLU THR VAL ASN ILE THR LEU LYS ALA SEQRES 11 A 149 THR ASP GLY ARG THR LEU ASN VAL ALA ALA THR VAL LYS SEQRES 12 A 149 LYS ASN ILE GLU GLY ARG HET CU1 A 150 1 HETNAM CU1 COPPER (I) ION FORMUL 2 CU1 CU 1+ SHEET 1 A 5 THR A 101 LEU A 102 0 SHEET 2 A 5 ALA A 47 THR A 50 -1 N MET A 49 O LEU A 102 SHEET 3 A 5 THR A 34 VAL A 35 -1 N THR A 34 O TYR A 48 SHEET 4 A 5 LEU A 136 VAL A 142 1 O THR A 141 N VAL A 35 SHEET 5 A 5 GLU A 122 LEU A 128 -1 N VAL A 124 O ALA A 140 SHEET 1 B 2 PRO A 58 LEU A 61 0 SHEET 2 B 2 LEU A 92 PRO A 95 -1 O ILE A 94 N ILE A 59 SHEET 1 C 3 ALA A 84 GLY A 85 0 SHEET 2 C 3 ALA A 69 THR A 77 -1 N THR A 76 O GLY A 85 SHEET 3 C 3 HIS A 108 LEU A 114 -1 O MET A 112 N SER A 71 LINK SD MET A 75 CU CU1 A 150 1555 1555 2.44 LINK SD MET A 86 CU CU1 A 150 1555 1555 2.50 LINK NE2 HIS A 108 CU CU1 A 150 1555 1555 2.15 LINK SD MET A 110 CU CU1 A 150 1555 1555 2.41 CISPEP 1 GLY A 2 HIS A 3 1 -1.49 CISPEP 2 MET A 5 PRO A 6 1 6.46 CISPEP 3 HIS A 8 THR A 9 1 -12.25 CISPEP 4 PRO A 16 ALA A 17 1 -7.32 CISPEP 5 ALA A 18 GLN A 19 1 -14.49 CISPEP 6 GLY A 2 HIS A 3 9 1.25 CISPEP 7 HIS A 3 THR A 4 9 9.97 CISPEP 8 THR A 14 ALA A 15 9 13.55 CISPEP 9 PRO A 16 ALA A 17 9 -4.50 CISPEP 10 GLN A 19 LYS A 20 9 9.88 CISPEP 11 GLY A 22 ALA A 23 9 -2.24 SITE 1 AC1 4 MET A 75 MET A 86 HIS A 108 MET A 110 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