HEADER DNA BINDING PROTEIN 31-OCT-19 6TAZ TITLE TIMELESS COUPLES G QUADRUPLEX DETECTION WITH PROCESSING BY DDX11 TITLE 2 DURING DNA REPLICATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN TIMELESS HOMOLOG; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: HTIM; 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: TIMELESS, TIM, TIM1, TIMELESS1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA-BINDING PROTEIN, 3-HELIX BUNDLE, TANDEM REPEAT, DNA BINDING KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR L.LERNER KOCH,S.HOLZER,M.L.KILKENNY,P.MURAT,S.SVIKOVIC,D.SCHIAVONE, AUTHOR 2 A.BITTLESTON,J.D.MAMAN,D.BRANZEI,K.STOTT,L.PELLEGRINI,E.J.SALE REVDAT 5 19-JUN-24 6TAZ 1 REMARK REVDAT 4 14-JUN-23 6TAZ 1 REMARK REVDAT 3 16-DEC-20 6TAZ 1 JRNL REVDAT 2 12-AUG-20 6TAZ 1 JRNL REVDAT 1 01-JUL-20 6TAZ 0 JRNL AUTH L.K.LERNER,S.HOLZER,M.L.KILKENNY,S.SVIKOVIC,P.MURAT, JRNL AUTH 2 D.SCHIAVONE,C.B.ELDRIDGE,A.BITTLESTON,J.D.MAMAN,D.BRANZEI, JRNL AUTH 3 K.STOTT,L.PELLEGRINI,J.E.SALE JRNL TITL TIMELESS COUPLES G-QUADRUPLEX DETECTION WITH PROCESSING BY JRNL TITL 2 DDX11 HELICASE DURING DNA REPLICATION. JRNL REF EMBO J. V. 39 04185 2020 JRNL REFN ESSN 1460-2075 JRNL PMID 32705708 JRNL DOI 10.15252/EMBJ.2019104185 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER A. T. ET.AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6TAZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292105126. 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 : 50 REMARK 210 PRESSURE : ATMOSPHERIC BAR REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-13C; U-15N] TIMDBD, 10 REMARK 210 MM NA SODIUM PHOSPHATE, 40 MM NA REMARK 210 POTASSIUM CHLORIDE, 0.5 MM NA REMARK 210 EDTA, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ARIA, CCPNMR ANALYSIS REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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: 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 ARG B 4 -163.41 -121.24 REMARK 500 1 ARG B 5 63.48 -68.49 REMARK 500 1 ASN B 41 38.83 -84.13 REMARK 500 1 GLN B 67 0.14 -164.24 REMARK 500 1 HIS B 72 0.44 -66.10 REMARK 500 1 ILE B 73 115.62 -11.56 REMARK 500 1 LEU B 75 97.97 -48.01 REMARK 500 1 ASP B 93 37.33 -86.75 REMARK 500 1 ASP B 96 99.15 -168.24 REMARK 500 1 ARG B 134 80.94 -63.04 REMARK 500 1 LEU B 138 105.42 -46.36 REMARK 500 2 ASN B 41 38.15 -88.90 REMARK 500 2 LEU B 75 80.29 -61.17 REMARK 500 2 LYS B 132 107.00 -51.66 REMARK 500 2 LYS B 137 90.50 -69.17 REMARK 500 2 ALA B 139 -156.12 -72.15 REMARK 500 3 SER B 3 -54.98 -147.70 REMARK 500 3 ASN B 41 42.04 -83.00 REMARK 500 3 GLN B 67 -80.05 -137.15 REMARK 500 3 LYS B 69 95.44 -67.71 REMARK 500 3 HIS B 72 -100.75 -63.29 REMARK 500 3 ILE B 73 148.83 -179.94 REMARK 500 3 LEU B 75 102.78 -48.22 REMARK 500 3 LEU B 138 163.34 -45.86 REMARK 500 4 SER B 3 45.35 -87.07 REMARK 500 4 ASN B 41 40.39 -83.96 REMARK 500 4 LEU B 75 88.58 -51.92 REMARK 500 4 LYS B 136 53.05 -103.48 REMARK 500 4 ALA B 139 -167.31 -68.61 REMARK 500 4 SER B 140 101.14 -50.23 REMARK 500 5 SER B 3 36.77 -79.92 REMARK 500 5 ASN B 41 38.36 -81.35 REMARK 500 5 LYS B 69 -63.05 -144.64 REMARK 500 5 LEU B 75 102.70 -52.93 REMARK 500 5 GLU B 126 147.90 -172.94 REMARK 500 5 LYS B 132 96.38 -66.75 REMARK 500 5 LYS B 136 -145.38 -87.29 REMARK 500 5 LEU B 138 104.39 -44.66 REMARK 500 6 SER B 3 -54.23 -136.56 REMARK 500 6 GLN B 67 -50.15 -139.79 REMARK 500 6 ILE B 73 130.28 -14.74 REMARK 500 6 LEU B 75 90.98 -50.13 REMARK 500 6 LYS B 132 -130.79 -32.09 REMARK 500 6 GLN B 135 97.22 -41.03 REMARK 500 6 LYS B 136 53.25 -96.19 REMARK 500 6 LEU B 138 80.12 -67.49 REMARK 500 7 SER B 3 -54.40 -148.32 REMARK 500 7 ASN B 41 40.61 -84.31 REMARK 500 7 ARG B 68 83.99 -69.29 REMARK 500 7 LYS B 69 -50.16 -155.54 REMARK 500 REMARK 500 THIS ENTRY HAS 138 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 HIS B 72 ILE B 73 3 139.25 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 12 ARG B 45 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6T9Q RELATED DB: PDB REMARK 900 RELATED ID: 34443 RELATED DB: BMRB REMARK 900 TIMELESS COUPLES G QUADRUPLEX DETECTION WITH PROCESSING BY DDX11 REMARK 900 DURING DNA REPLICATION DBREF 6TAZ B 3 141 UNP Q9UNS1 TIM_HUMAN 816 954 SEQADV 6TAZ ASP B 1 UNP Q9UNS1 EXPRESSION TAG SEQADV 6TAZ PRO B 2 UNP Q9UNS1 EXPRESSION TAG SEQRES 1 B 141 ASP PRO SER ARG ARG ALA PRO THR TRP SER PRO GLU GLU SEQRES 2 B 141 GLU ALA HIS LEU ARG GLU LEU TYR LEU ALA ASN LYS ASP SEQRES 3 B 141 VAL GLU GLY GLN ASP VAL VAL GLU ALA ILE LEU ALA HIS SEQRES 4 B 141 LEU ASN THR VAL PRO ARG THR ARG LYS GLN ILE ILE HIS SEQRES 5 B 141 HIS LEU VAL GLN MET GLY LEU ALA ASP SER VAL LYS ASP SEQRES 6 B 141 PHE GLN ARG LYS GLY THR HIS ILE VAL LEU TRP THR GLY SEQRES 7 B 141 ASP GLN GLU LEU GLU LEU GLN ARG LEU PHE GLU GLU PHE SEQRES 8 B 141 ARG ASP SER ASP ASP VAL LEU GLY HIS ILE MET LYS ASN SEQRES 9 B 141 ILE THR ALA LYS ARG SER ARG ALA ARG ILE VAL ASP LYS SEQRES 10 B 141 LEU LEU ALA LEU GLY LEU VAL ALA GLU ARG ARG GLU LEU SEQRES 11 B 141 TYR LYS LYS ARG GLN LYS LYS LEU ALA SER SER HELIX 1 AA1 SER B 10 LYS B 25 1 16 HELIX 2 AA2 ASP B 31 LEU B 40 1 10 HELIX 3 AA3 THR B 46 MET B 57 1 12 HELIX 4 AA4 SER B 62 ARG B 68 1 7 HELIX 5 AA5 THR B 77 PHE B 91 1 15 HELIX 6 AA6 ASP B 96 ASN B 104 1 9 HELIX 7 AA7 SER B 110 GLY B 122 1 13 HELIX 8 AA8 ARG B 127 TYR B 131 5 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