HEADER HYDROLASE 17-AUG-06 2I3B TITLE SOLUTION STRUCTURE OF A HUMAN CANCER-RELATED NUCLEOSIDE TRIPHOSPHATASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN CANCER-RELATED NTPASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HCR-NTPASE; COMPND 5 EC: 3.6.1.15; COMPND 6 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: CDRT1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21D KEYWDS NTPASE, AAA, ROSSMANN, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.J.PLACZEK,M.S.ALMEIDA,K.WUTHRICH REVDAT 3 09-MAR-22 2I3B 1 REMARK REVDAT 2 24-FEB-09 2I3B 1 VERSN REVDAT 1 13-MAR-07 2I3B 0 JRNL AUTH W.J.PLACZEK,M.S.ALMEIDA,K.WUTHRICH JRNL TITL NMR STRUCTURE AND FUNCTIONAL CHARACTERIZATION OF A HUMAN JRNL TITL 2 CANCER-RELATED NUCLEOSIDE TRIPHOSPHATASE. JRNL REF J.MOL.BIOL. V. 367 788 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17291528 JRNL DOI 10.1016/J.JMB.2007.01.001 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ATNOS/CANDID VERSION 1.0, CYANA REMARK 3 AUTHORS : HERRMANN, T. (ATNOS/CANDID), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2I3B COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1000039083. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.4 REMARK 210 IONIC STRENGTH : 25MM MES, 10MM MGCL2 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM HCR-NTPASE U-15N,13C; 25 MM REMARK 210 MES BUFFER PH 6.4; 10 MM MGCL2; REMARK 210 5 MM DTT; 2 MM ATPGS; 90% H2O, REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -RESOLVED_ALIPHATIC_NOESY; 3D_ REMARK 210 13C-RESOLVED_AROMATIC_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA VERSION 1.0.3 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 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: 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 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 2 ARG A 63 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 3 VAL A 51 CA - CB - CG2 ANGL. DEV. = 10.6 DEGREES REMARK 500 3 VAL A 110 CG1 - CB - CG2 ANGL. DEV. = -10.0 DEGREES REMARK 500 5 VAL A 168 CA - CB - CG2 ANGL. DEV. = 10.4 DEGREES REMARK 500 6 HIS A 19 CB - CG - CD2 ANGL. DEV. = -10.6 DEGREES REMARK 500 7 HIS A 19 CB - CG - CD2 ANGL. DEV. = -10.3 DEGREES REMARK 500 7 THR A 134 CA - CB - CG2 ANGL. DEV. = 9.5 DEGREES REMARK 500 8 ARG A 46 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 8 VAL A 51 CA - CB - CG1 ANGL. DEV. = 9.5 DEGREES REMARK 500 10 ARG A 45 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 10 VAL A 51 CA - CB - CG1 ANGL. DEV. = 9.2 DEGREES REMARK 500 10 VAL A 184 CG1 - CB - CG2 ANGL. DEV. = -9.6 DEGREES REMARK 500 11 VAL A 51 CA - CB - CG2 ANGL. DEV. = 9.6 DEGREES REMARK 500 11 PHE A 87 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 14 VAL A 51 CA - CB - CG2 ANGL. DEV. = 10.0 DEGREES REMARK 500 15 ARG A 63 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 16 GLU A 38 CB - CA - C ANGL. DEV. = 12.5 DEGREES REMARK 500 19 VAL A 51 CA - CB - CG1 ANGL. DEV. = 9.2 DEGREES REMARK 500 20 ARG A 2 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 20 VAL A 51 CA - CB - CG1 ANGL. DEV. = 9.7 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 VAL A 12 115.80 65.56 REMARK 500 1 GLN A 42 109.67 -58.99 REMARK 500 1 LEU A 61 -69.98 -142.92 REMARK 500 1 LEU A 90 -33.84 -145.23 REMARK 500 1 ALA A 91 39.31 -80.24 REMARK 500 1 LEU A 92 -55.16 -135.69 REMARK 500 1 ARG A 96 70.89 -152.62 REMARK 500 1 ALA A 98 174.09 57.29 REMARK 500 1 CYS A 100 -170.23 -174.80 REMARK 500 1 SER A 101 -67.69 71.36 REMARK 500 1 SER A 102 -174.97 57.61 REMARK 500 1 GLN A 106 -156.97 51.51 REMARK 500 1 GLU A 113 90.86 51.14 REMARK 500 1 GLU A 118 -3.86 -50.26 REMARK 500 1 GLN A 122 -71.49 -132.23 REMARK 500 1 ALA A 152 13.33 -66.81 REMARK 500 1 LEU A 153 -39.83 -131.67 REMARK 500 1 LYS A 161 -40.71 63.75 REMARK 500 1 GLU A 171 -74.00 -79.99 REMARK 500 1 ASN A 172 32.39 -87.79 REMARK 500 1 ARG A 188 109.28 -40.58 REMARK 500 2 HIS A 3 119.97 -24.63 REMARK 500 2 GLU A 39 164.33 96.17 REMARK 500 2 VAL A 77 -4.13 -140.66 REMARK 500 2 GLN A 79 -31.44 86.59 REMARK 500 2 LEU A 90 -37.54 -142.26 REMARK 500 2 LEU A 92 -64.54 -141.03 REMARK 500 2 ASP A 99 -65.84 -109.82 REMARK 500 2 CYS A 100 -156.68 53.53 REMARK 500 2 GLU A 113 69.23 34.33 REMARK 500 2 SER A 121 109.87 -55.64 REMARK 500 2 GLN A 122 -83.73 -120.35 REMARK 500 2 PHE A 124 -74.26 -49.55 REMARK 500 2 LYS A 147 -61.24 -153.95 REMARK 500 2 LYS A 161 -23.28 62.20 REMARK 500 2 ARG A 173 -65.16 -29.71 REMARK 500 3 ARG A 2 -166.05 -163.23 REMARK 500 3 VAL A 12 109.78 59.55 REMARK 500 3 THR A 37 94.71 -161.86 REMARK 500 3 LEU A 66 -169.12 54.00 REMARK 500 3 GLN A 79 -51.72 177.04 REMARK 500 3 LEU A 92 -60.35 -144.63 REMARK 500 3 ARG A 96 108.26 -174.05 REMARK 500 3 ALA A 98 51.95 -150.12 REMARK 500 3 CYS A 100 107.71 62.85 REMARK 500 3 SER A 101 49.53 -73.49 REMARK 500 3 ASP A 112 -169.61 -105.69 REMARK 500 3 GLU A 118 -68.42 -24.63 REMARK 500 3 GLN A 122 -87.71 -127.44 REMARK 500 3 PRO A 150 -164.90 -71.55 REMARK 500 REMARK 500 THIS ENTRY HAS 372 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 GLY A 59 PRO A 60 1 146.22 REMARK 500 ARG A 188 LYS A 189 3 -116.56 REMARK 500 GLY A 59 PRO A 60 4 -144.46 REMARK 500 ARG A 2 HIS A 3 5 141.45 REMARK 500 GLY A 136 THR A 137 5 -140.05 REMARK 500 VAL A 30 PRO A 31 6 145.95 REMARK 500 SER A 101 SER A 102 6 -145.69 REMARK 500 SER A 133 THR A 134 7 149.39 REMARK 500 ARG A 188 LYS A 189 11 -146.85 REMARK 500 VAL A 32 ASP A 33 14 146.72 REMARK 500 ARG A 188 LYS A 189 14 128.92 REMARK 500 ASP A 112 GLU A 113 15 -149.84 REMARK 500 THR A 131 LEU A 132 15 146.76 REMARK 500 GLY A 59 PRO A 60 16 145.86 REMARK 500 ILE A 139 LEU A 140 17 144.80 REMARK 500 ALA A 1 ARG A 2 19 147.90 REMARK 500 ALA A 1 ARG A 2 20 149.42 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 2 0.09 SIDE CHAIN REMARK 500 1 TYR A 36 0.08 SIDE CHAIN REMARK 500 1 ARG A 63 0.07 SIDE CHAIN REMARK 500 2 ARG A 76 0.09 SIDE CHAIN REMARK 500 3 TYR A 36 0.09 SIDE CHAIN REMARK 500 3 ARG A 45 0.09 SIDE CHAIN REMARK 500 3 ARG A 160 0.10 SIDE CHAIN REMARK 500 4 ARG A 46 0.10 SIDE CHAIN REMARK 500 5 ARG A 45 0.08 SIDE CHAIN REMARK 500 5 ARG A 160 0.09 SIDE CHAIN REMARK 500 6 ARG A 173 0.09 SIDE CHAIN REMARK 500 8 TYR A 80 0.11 SIDE CHAIN REMARK 500 8 ARG A 129 0.09 SIDE CHAIN REMARK 500 9 TYR A 36 0.11 SIDE CHAIN REMARK 500 9 ARG A 45 0.09 SIDE CHAIN REMARK 500 9 TYR A 80 0.06 SIDE CHAIN REMARK 500 10 ARG A 76 0.09 SIDE CHAIN REMARK 500 11 ARG A 58 0.09 SIDE CHAIN REMARK 500 11 ARG A 76 0.08 SIDE CHAIN REMARK 500 11 ARG A 107 0.09 SIDE CHAIN REMARK 500 12 ARG A 76 0.11 SIDE CHAIN REMARK 500 12 TYR A 80 0.08 SIDE CHAIN REMARK 500 13 ARG A 73 0.08 SIDE CHAIN REMARK 500 13 TYR A 80 0.07 SIDE CHAIN REMARK 500 14 ARG A 2 0.13 SIDE CHAIN REMARK 500 14 ARG A 58 0.10 SIDE CHAIN REMARK 500 14 ARG A 63 0.08 SIDE CHAIN REMARK 500 14 ARG A 188 0.11 SIDE CHAIN REMARK 500 15 ARG A 45 0.08 SIDE CHAIN REMARK 500 15 ARG A 107 0.14 SIDE CHAIN REMARK 500 16 ARG A 63 0.13 SIDE CHAIN REMARK 500 16 ARG A 158 0.08 SIDE CHAIN REMARK 500 16 ARG A 173 0.07 SIDE CHAIN REMARK 500 17 ARG A 76 0.14 SIDE CHAIN REMARK 500 17 TYR A 80 0.11 SIDE CHAIN REMARK 500 17 ARG A 107 0.09 SIDE CHAIN REMARK 500 18 ARG A 58 0.08 SIDE CHAIN REMARK 500 18 ARG A 188 0.08 SIDE CHAIN REMARK 500 20 ARG A 73 0.08 SIDE CHAIN REMARK 500 20 ARG A 76 0.08 SIDE CHAIN REMARK 500 20 ARG A 96 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7119 RELATED DB: BMRB REMARK 900 ASSIGNMENTS AND CONSTRAINT DATA FOR HCR-NTPASE DBREF 2I3B A 1 189 UNP Q5TDE9 Q5TDE9_HUMAN 2 190 SEQRES 1 A 189 ALA ARG HIS VAL PHE LEU THR GLY PRO PRO GLY VAL GLY SEQRES 2 A 189 LYS THR THR LEU ILE HIS LYS ALA SER GLU VAL LEU LYS SEQRES 3 A 189 SER SER GLY VAL PRO VAL ASP GLY PHE TYR THR GLU GLU SEQRES 4 A 189 VAL ARG GLN GLY GLY ARG ARG ILE GLY PHE ASP VAL VAL SEQRES 5 A 189 THR LEU SER GLY THR ARG GLY PRO LEU SER ARG VAL GLY SEQRES 6 A 189 LEU GLU PRO PRO PRO GLY LYS ARG GLU CYS ARG VAL GLY SEQRES 7 A 189 GLN TYR VAL VAL ASP LEU THR SER PHE GLU GLN LEU ALA SEQRES 8 A 189 LEU PRO VAL LEU ARG ASN ALA ASP CYS SER SER GLY PRO SEQRES 9 A 189 GLY GLN ARG VAL CYS VAL ILE ASP GLU ILE GLY LYS MET SEQRES 10 A 189 GLU LEU PHE SER GLN LEU PHE ILE GLN ALA VAL ARG GLN SEQRES 11 A 189 THR LEU SER THR PRO GLY THR ILE ILE LEU GLY THR ILE SEQRES 12 A 189 PRO VAL PRO LYS GLY LYS PRO LEU ALA LEU VAL GLU GLU SEQRES 13 A 189 ILE ARG ASN ARG LYS ASP VAL LYS VAL PHE ASN VAL THR SEQRES 14 A 189 LYS GLU ASN ARG ASN HIS LEU LEU PRO ASP ILE VAL THR SEQRES 15 A 189 CYS VAL GLN SER SER ARG LYS HELIX 1 1 GLY A 13 SER A 28 1 16 HELIX 2 2 ASP A 83 GLN A 89 1 7 HELIX 3 3 GLN A 122 THR A 134 1 13 HELIX 4 4 LEU A 153 ASN A 159 1 7 HELIX 5 5 ASN A 172 ASN A 174 5 3 HELIX 6 6 HIS A 175 GLN A 185 1 11 SHEET 1 A 5 GLU A 39 ARG A 41 0 SHEET 2 A 5 ARG A 46 THR A 53 -1 O ILE A 47 N VAL A 40 SHEET 3 A 5 ARG A 58 ARG A 63 -1 O GLY A 59 N VAL A 51 SHEET 4 A 5 VAL A 81 VAL A 82 -1 O VAL A 81 N ARG A 63 SHEET 5 A 5 CYS A 75 ARG A 76 -1 N CYS A 75 O VAL A 82 SHEET 1 B 7 GLU A 39 ARG A 41 0 SHEET 2 B 7 ARG A 46 THR A 53 -1 O ILE A 47 N VAL A 40 SHEET 3 B 7 ASP A 33 TYR A 36 -1 N TYR A 36 O VAL A 52 SHEET 4 B 7 CYS A 109 ILE A 111 1 O VAL A 110 N ASP A 33 SHEET 5 B 7 ILE A 139 THR A 142 1 O LEU A 140 N ILE A 111 SHEET 6 B 7 VAL A 4 THR A 7 1 N LEU A 6 O GLY A 141 SHEET 7 B 7 LYS A 164 ASN A 167 1 O LYS A 164 N PHE A 5 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 MODEL 2 MODEL 3 MODEL 4 MODEL 5 MODEL 6 MODEL 7 MODEL 8 MODEL 9 MODEL 10 MODEL 11 MODEL 12 MODEL 13 MODEL 14 MODEL 15 MODEL 16 MODEL 17 MODEL 18 MODEL 19 MODEL 20