HEADER DNA BINDING PROTEIN 04-SEP-19 6KVG TITLE THE SOLUTION STRUCTURE OF HUMAN ORC6 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORIGIN RECOGNITION COMPLEX SUBUNIT 6; COMPND 3 CHAIN: A; COMPND 4 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: ORC6, ORC6L; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ORC6, DNA, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.LIU,N.XU,Y.YOU,G.ZHU REVDAT 5 15-MAY-24 6KVG 1 REMARK REVDAT 4 14-JUN-23 6KVG 1 REMARK REVDAT 3 18-NOV-20 6KVG 1 JRNL REVDAT 2 14-OCT-20 6KVG 1 JRNL REVDAT 1 09-SEP-20 6KVG 0 JRNL AUTH N.XU,Y.YOU,C.LIU,M.BALASOV,L.T.LUN,Y.GENG,C.P.FUNG,H.MIAO, JRNL AUTH 2 H.TIAN,T.T.CHOY,X.SHI,Z.FAN,B.ZHOU,K.AKHMETOVA,R.U.DIN, JRNL AUTH 3 H.YANG,Q.HAO,P.QIAN,I.CHESNOKOV,G.ZHU JRNL TITL STRUCTURAL BASIS OF DNA REPLICATION ORIGIN RECOGNITION BY JRNL TITL 2 HUMAN ORC6 PROTEIN BINDING WITH DNA. JRNL REF NUCLEIC ACIDS RES. V. 48 11146 2020 JRNL REFN ESSN 1362-4962 JRNL PMID 32986843 JRNL DOI 10.1093/NAR/GKAA751 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6KVG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-SEP-19. REMARK 100 THE DEPOSITION ID IS D_1300013719. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : AMBIENT PA REMARK 210 SAMPLE CONTENTS : 0.7 MM [U-99% 15N] HUMAN ORC6, REMARK 210 90% H2O/10% D2O; 0.7 MM [U-99% REMARK 210 13C; U-99% 15N] HUMAN ORC6, 90% REMARK 210 H2O/10% D2O; 0.7 MM [U-99% 13C] REMARK 210 HUMAN ORC6, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-15N REMARK 210 TOCSY; 3D HNCO; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D H(CCO)NH; 3D C(CO) REMARK 210 NH; 3D 1H-13C NOESY; 3D HCCH- REMARK 210 COSY; 3D HCCH-TOCSY; 2D 1H-15N REMARK 210 HSQC; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 750 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, SPARKY REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 OD2 ASP A 173 HZ2 LYS A 177 1.59 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 3 -33.06 69.83 REMARK 500 1 ALA A 16 15.49 -156.66 REMARK 500 1 SER A 39 -115.73 55.50 REMARK 500 1 ALA A 40 -33.56 67.41 REMARK 500 1 ILE A 96 -73.54 -134.81 REMARK 500 1 GLN A 127 -102.57 -137.46 REMARK 500 1 ASP A 132 -69.95 -123.80 REMARK 500 1 LYS A 153 -49.54 -144.56 REMARK 500 1 SER A 165 13.82 -169.16 REMARK 500 1 PRO A 190 38.60 -93.47 REMARK 500 1 LYS A 202 106.41 159.73 REMARK 500 1 GLU A 213 86.77 43.71 REMARK 500 1 VAL A 215 78.02 67.65 REMARK 500 1 MET A 218 91.66 82.42 REMARK 500 1 ALA A 244 -153.32 64.84 REMARK 500 1 LYS A 248 73.07 -107.94 REMARK 500 2 SER A 0 78.37 58.18 REMARK 500 2 ALA A 16 20.31 -143.45 REMARK 500 2 ALA A 40 34.51 -89.18 REMARK 500 2 ILE A 96 -53.98 41.04 REMARK 500 2 CYS A 107 31.24 -99.78 REMARK 500 2 PRO A 126 -70.30 -43.36 REMARK 500 2 GLN A 127 -26.84 172.65 REMARK 500 2 SER A 136 -90.19 -136.27 REMARK 500 2 PHE A 140 -71.95 -47.65 REMARK 500 2 THR A 141 8.39 -159.43 REMARK 500 2 LYS A 153 -58.56 -154.87 REMARK 500 2 LEU A 154 92.41 68.31 REMARK 500 2 LYS A 155 -21.02 -151.83 REMARK 500 2 ASP A 192 -41.75 -167.08 REMARK 500 2 ALA A 207 133.21 74.27 REMARK 500 2 ALA A 209 85.24 -156.81 REMARK 500 2 GLU A 226 -79.21 64.45 REMARK 500 2 THR A 229 80.05 48.52 REMARK 500 2 GLN A 230 -57.82 -143.75 REMARK 500 2 ASP A 231 -27.47 -177.07 REMARK 500 2 ALA A 246 -68.92 -107.79 REMARK 500 2 GLN A 247 169.81 64.89 REMARK 500 3 MET A 1 -20.93 71.23 REMARK 500 3 ALA A 16 24.93 -159.13 REMARK 500 3 ARG A 41 -60.68 72.35 REMARK 500 3 SER A 94 -40.01 -150.54 REMARK 500 3 GLN A 127 -53.34 -173.51 REMARK 500 3 THR A 141 83.36 49.39 REMARK 500 3 LYS A 153 -60.37 -131.49 REMARK 500 3 LEU A 154 81.97 48.66 REMARK 500 3 LYS A 155 -39.22 -149.44 REMARK 500 3 SER A 165 51.71 85.11 REMARK 500 3 PRO A 190 -49.71 -20.12 REMARK 500 3 VAL A 193 109.36 -56.55 REMARK 500 REMARK 500 THIS ENTRY HAS 397 RAMACHANDRAN OUTLIERS. 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 200 0.07 SIDE CHAIN REMARK 500 3 ARG A 22 0.09 SIDE CHAIN REMARK 500 5 ARG A 32 0.07 SIDE CHAIN REMARK 500 9 ARG A 188 0.07 SIDE CHAIN REMARK 500 17 ARG A 237 0.08 SIDE CHAIN REMARK 500 18 ARG A 188 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36286 RELATED DB: BMRB REMARK 900 THE SOLUTION STRUCTURE OF HUMAN ORC6 DBREF 6KVG A 1 252 UNP Q9Y5N6 ORC6_HUMAN 1 252 SEQADV 6KVG GLY A -3 UNP Q9Y5N6 EXPRESSION TAG SEQADV 6KVG PRO A -2 UNP Q9Y5N6 EXPRESSION TAG SEQADV 6KVG GLY A -1 UNP Q9Y5N6 EXPRESSION TAG SEQADV 6KVG SER A 0 UNP Q9Y5N6 EXPRESSION TAG SEQRES 1 A 256 GLY PRO GLY SER MET GLY SER GLU LEU ILE GLY ARG LEU SEQRES 2 A 256 ALA PRO ARG LEU GLY LEU ALA GLU PRO ASP MET LEU ARG SEQRES 3 A 256 LYS ALA GLU GLU TYR LEU ARG LEU SER ARG VAL LYS CYS SEQRES 4 A 256 VAL GLY LEU SER ALA ARG THR THR GLU THR SER SER ALA SEQRES 5 A 256 VAL MET CYS LEU ASP LEU ALA ALA SER TRP MET LYS CYS SEQRES 6 A 256 PRO LEU ASP ARG ALA TYR LEU ILE LYS LEU SER GLY LEU SEQRES 7 A 256 ASN LYS GLU THR TYR GLN SER CYS LEU LYS SER PHE GLU SEQRES 8 A 256 CYS LEU LEU GLY LEU ASN SER ASN ILE GLY ILE ARG ASP SEQRES 9 A 256 LEU ALA VAL GLN PHE SER CYS ILE GLU ALA VAL ASN MET SEQRES 10 A 256 ALA SER LYS ILE LEU LYS SER TYR GLU SER SER LEU PRO SEQRES 11 A 256 GLN THR GLN GLN VAL ASP LEU ASP LEU SER ARG PRO LEU SEQRES 12 A 256 PHE THR SER ALA ALA LEU LEU SER ALA CYS LYS ILE LEU SEQRES 13 A 256 LYS LEU LYS VAL ASP LYS ASN LYS MET VAL ALA THR SER SEQRES 14 A 256 GLY VAL LYS LYS ALA ILE PHE ASP ARG LEU CYS LYS GLN SEQRES 15 A 256 LEU GLU LYS ILE GLY GLN GLN VAL ASP ARG GLU PRO GLY SEQRES 16 A 256 ASP VAL ALA THR PRO PRO ARG LYS ARG LYS LYS ILE VAL SEQRES 17 A 256 VAL GLU ALA PRO ALA LYS GLU MET GLU LYS VAL GLU GLU SEQRES 18 A 256 MET PRO HIS LYS PRO GLN LYS ASP GLU ASP LEU THR GLN SEQRES 19 A 256 ASP TYR GLU GLU TRP LYS ARG LYS ILE LEU GLU ASN ALA SEQRES 20 A 256 ALA SER ALA GLN LYS ALA THR ALA GLU HELIX 1 AA1 SER A 3 ALA A 10 1 8 HELIX 2 AA2 PRO A 11 LEU A 13 5 3 HELIX 3 AA3 GLU A 17 CYS A 35 1 19 HELIX 4 AA4 THR A 43 MET A 59 1 17 HELIX 5 AA5 ASP A 64 SER A 72 1 9 HELIX 6 AA6 ASN A 75 GLY A 91 1 17 HELIX 7 AA7 GLY A 97 SER A 106 1 10 HELIX 8 AA8 CYS A 107 GLU A 109 5 3 HELIX 9 AA9 ALA A 110 SER A 123 1 14 HELIX 10 AB1 GLN A 127 VAL A 131 5 5 HELIX 11 AB2 THR A 141 LYS A 153 1 13 HELIX 12 AB3 ASP A 157 SER A 165 1 9 HELIX 13 AB4 LYS A 168 ASP A 187 1 20 HELIX 14 AB5 THR A 195 LYS A 199 5 5 HELIX 15 AB6 ASP A 231 ALA A 243 1 13 CISPEP 1 ASP A 187 ARG A 188 1 -1.82 CISPEP 2 ASP A 187 ARG A 188 2 6.75 CISPEP 3 ASP A 187 ARG A 188 3 3.05 CISPEP 4 ASP A 187 ARG A 188 4 -2.22 CISPEP 5 ASP A 187 ARG A 188 5 -9.05 CISPEP 6 ASP A 187 ARG A 188 6 -7.03 CISPEP 7 ASP A 187 ARG A 188 7 5.13 CISPEP 8 ASP A 187 ARG A 188 8 2.37 CISPEP 9 ASP A 187 ARG A 188 9 -1.21 CISPEP 10 ASP A 187 ARG A 188 10 -11.90 CISPEP 11 ASP A 187 ARG A 188 11 -1.12 CISPEP 12 ASP A 187 ARG A 188 12 13.91 CISPEP 13 ASP A 187 ARG A 188 13 3.59 CISPEP 14 ASP A 187 ARG A 188 14 -7.69 CISPEP 15 ASP A 187 ARG A 188 15 -9.26 CISPEP 16 ASP A 187 ARG A 188 16 2.57 CISPEP 17 ASP A 187 ARG A 188 17 10.42 CISPEP 18 ASP A 187 ARG A 188 18 -8.21 CISPEP 19 ASP A 187 ARG A 188 19 -12.17 CISPEP 20 ASP A 187 ARG A 188 20 -4.78 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