HEADER DNA BINDING PROTEIN 13-FEB-17 5X4F TITLE SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF TDP-43 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TAR DNA-BINDING PROTEIN 43; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-77; COMPND 5 SYNONYM: TDP-43; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TARDBP, TDP43; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR KEYWDS DIMERIZATION, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR L.-L.JIANG,W.XUE,H.-Y.HU REVDAT 5 15-MAY-24 5X4F 1 REMARK REVDAT 4 14-JUN-23 5X4F 1 REMARK REVDAT 3 27-FEB-19 5X4F 1 JRNL REVDAT 2 18-OCT-17 5X4F 1 REMARK REVDAT 1 16-AUG-17 5X4F 0 JRNL AUTH L.L.JIANG,W.XUE,J.Y.HONG,J.T.ZHANG,M.J.LI,S.N.YU,J.H.HE, JRNL AUTH 2 H.Y.HU JRNL TITL THE N-TERMINAL DIMERIZATION IS REQUIRED FOR TDP-43 SPLICING JRNL TITL 2 ACTIVITY. JRNL REF SCI REP V. 7 6196 2017 JRNL REFN ESSN 2045-2322 JRNL PMID 28733604 JRNL DOI 10.1038/S41598-017-06263-3 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5X4F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1300002875. 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 : 0.08 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1 MM U-99% 13C; U-99% 15N TDP(1 REMARK 210 -77)-GB1-C39/C50S, 20 MM SODIUM REMARK 210 PHOSPHATE, 50 MM SODIUM CHLORIDE, REMARK 210 0.05 V/V SODIUM AZIDE, 90 % H2O, REMARK 210 10 % D2O, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCO; 3D HNCACB; 3D HNHA; 3D REMARK 210 1H-15N NOESY; 3D HCCH-TOCSY; 3D REMARK 210 C(CO)NH; 3D 1H-13C NOESY REMARK 210 ALIPHATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, SPARKY, CNS, MOLMOL, REMARK 210 TOPSPIN REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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 HA GLU A 9 HB VAL A 75 0.91 REMARK 500 HD13 ILE A 5 HE1 TYR A 73 1.22 REMARK 500 HB2 LEU A 27 HB THR A 30 1.24 REMARK 500 HA ASN A 45 HA GLN A 49 1.24 REMARK 500 HA2 GLY A 37 HG11 VAL A 75 1.27 REMARK 500 HB2 TRP A 68 HD11 LEU A 71 1.28 REMARK 500 HG11 VAL A 47 H SER A 48 1.34 REMARK 500 O THR A 32 H GLN A 34 1.53 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 ASP A 13 -121.53 -84.84 REMARK 500 1 LEU A 27 94.45 -68.90 REMARK 500 1 ALA A 33 38.53 -53.12 REMARK 500 1 GLN A 34 -164.72 170.22 REMARK 500 1 ALA A 38 -91.02 47.15 REMARK 500 1 ASN A 45 -60.28 98.66 REMARK 500 1 VAL A 47 -101.52 -98.32 REMARK 500 1 MET A 51 82.18 -69.52 REMARK 500 1 ALA A 66 28.22 -155.61 REMARK 500 1 TRP A 68 -81.56 -107.71 REMARK 500 1 LEU A 71 162.04 -48.70 REMARK 500 2 SER A 2 79.30 62.26 REMARK 500 2 ASP A 13 -112.71 -74.28 REMARK 500 2 ALA A 33 38.37 -54.75 REMARK 500 2 GLN A 34 -166.53 170.77 REMARK 500 2 ALA A 38 -88.19 58.68 REMARK 500 2 PRO A 46 9.62 -57.81 REMARK 500 2 VAL A 47 -94.40 -111.34 REMARK 500 2 MET A 51 92.09 -67.83 REMARK 500 2 TRP A 68 -89.55 -81.37 REMARK 500 2 ASN A 70 -45.18 87.04 REMARK 500 2 LEU A 71 173.20 47.07 REMARK 500 3 SER A 2 -178.41 65.84 REMARK 500 3 ASP A 13 -111.60 -77.02 REMARK 500 3 ALA A 33 40.18 -55.33 REMARK 500 3 GLN A 34 -164.13 169.91 REMARK 500 3 ALA A 38 -88.69 51.09 REMARK 500 3 SER A 39 -36.41 -133.97 REMARK 500 3 ASN A 45 -75.84 105.88 REMARK 500 3 PRO A 46 -3.23 -55.41 REMARK 500 3 VAL A 47 -94.87 -105.35 REMARK 500 3 MET A 51 85.63 -62.61 REMARK 500 3 ALA A 66 32.47 -162.89 REMARK 500 3 TRP A 68 -77.86 -103.89 REMARK 500 3 ASN A 70 -56.95 -127.92 REMARK 500 3 LEU A 71 167.34 56.45 REMARK 500 4 SER A 2 84.11 60.08 REMARK 500 4 ASP A 13 -114.84 -81.83 REMARK 500 4 LEU A 27 96.51 -65.19 REMARK 500 4 ALA A 33 40.70 -55.55 REMARK 500 4 GLN A 34 -163.30 172.15 REMARK 500 4 ALA A 38 -92.12 52.75 REMARK 500 4 VAL A 47 -91.27 -94.73 REMARK 500 4 MET A 51 87.58 -64.85 REMARK 500 4 ASN A 70 -59.07 -141.69 REMARK 500 4 LEU A 71 151.25 58.08 REMARK 500 5 ASP A 13 -117.93 -83.70 REMARK 500 5 ALA A 33 37.35 -55.63 REMARK 500 5 GLN A 34 -165.71 171.48 REMARK 500 5 ALA A 38 -81.25 61.10 REMARK 500 REMARK 500 THIS ENTRY HAS 104 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 ARG A 44 ASN A 45 1 141.23 REMARK 500 ARG A 44 ASN A 45 3 144.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36060 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF TDP-43 DBREF 5X4F A 1 77 UNP Q13148 TADBP_HUMAN 1 77 SEQADV 5X4F SER A 39 UNP Q13148 CYS 39 ENGINEERED MUTATION SEQADV 5X4F SER A 50 UNP Q13148 CYS 50 ENGINEERED MUTATION SEQRES 1 A 77 MET SER GLU TYR ILE ARG VAL THR GLU ASP GLU ASN ASP SEQRES 2 A 77 GLU PRO ILE GLU ILE PRO SER GLU ASP ASP GLY THR VAL SEQRES 3 A 77 LEU LEU SER THR VAL THR ALA GLN PHE PRO GLY ALA SER SEQRES 4 A 77 GLY LEU ARG TYR ARG ASN PRO VAL SER GLN SER MET ARG SEQRES 5 A 77 GLY VAL ARG LEU VAL GLU GLY ILE LEU HIS ALA PRO ASP SEQRES 6 A 77 ALA GLY TRP GLY ASN LEU VAL TYR VAL VAL ASN TYR HELIX 1 AA1 LEU A 28 ALA A 33 1 6 SHEET 1 AA1 4 ILE A 16 ILE A 18 0 SHEET 2 AA1 4 ILE A 5 VAL A 7 -1 N ILE A 5 O ILE A 18 SHEET 3 AA1 4 VAL A 72 ASN A 76 1 O TYR A 73 N ARG A 6 SHEET 4 AA1 4 GLY A 40 ARG A 44 -1 N ARG A 42 O VAL A 74 SHEET 1 AA2 3 THR A 25 LEU A 27 0 SHEET 2 AA2 3 ILE A 60 HIS A 62 -1 O LEU A 61 N VAL A 26 SHEET 3 AA2 3 ARG A 55 VAL A 57 -1 N ARG A 55 O HIS A 62 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