HEADER MEMBRANE PROTEIN 07-OCT-17 5YJ4 TITLE STRUCTURE FOR THE PROTECTIVE MUTANT G127V OF HUMAN PRION PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR PRION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 91-231; COMPND 5 SYNONYM: PRP,ASCR,PRP27-30,PRP33-35C; 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: PRNP, ALTPRP, PRIP, PRP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI-PICHIA PASTORIS SHUTTLE VECTOR SOURCE 7 PPPARG4; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 1182032 KEYWDS PRION DISEASE, G127V MUTANT, DISEASE-RESISTANCE, MEMBRANE PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Z.ZHENG,D.LIN REVDAT 3 14-JUN-23 5YJ4 1 REMARK SSBOND REVDAT 2 24-APR-19 5YJ4 1 JRNL REVDAT 1 11-APR-18 5YJ4 0 JRNL AUTH Z.ZHENG,M.ZHANG,Y.WANG,R.MA,C.GUO,L.FENG,J.WU,H.YAO,D.LIN JRNL TITL STRUCTURAL BASIS FOR THE COMPLETE RESISTANCE OF THE HUMAN JRNL TITL 2 PRION PROTEIN MUTANT G127V TO PRION DISEASE. JRNL REF SCI REP V. 8 13211 2018 JRNL REFN ESSN 2045-2322 JRNL PMID 30181558 JRNL DOI 10.1038/S41598-018-31394-6 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 2841 ARE NOE-DERIVED DISTANCE REMARK 3 CONSTRAINTS, 168 DIHEDRAL ANGLE RESTRAINTS REMARK 4 REMARK 4 5YJ4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-FEB-18. REMARK 100 THE DEPOSITION ID IS D_1300005368. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-99% 13C; U-99% 15N] REMARK 210 HUPRP(G127V), 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HN(CO)CA; 3D HNCO; REMARK 210 3D HBHA(CO)NH; 3D H(CCO)NH; 3D REMARK 210 C(CO)NH; 3D HCCH-TOCSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 850 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA, X-PLOR NIH, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 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 HH11 ARG A 156 HZ2 LYS A 194 1.27 REMARK 500 O ASN A 153 H ARG A 156 1.51 REMARK 500 O MET A 154 H TYR A 157 1.55 REMARK 500 H TYR A 162 OG1 THR A 183 1.57 REMARK 500 HD21 ASN A 181 N ILE A 182 1.58 REMARK 500 O HIS A 177 OD1 ASN A 181 2.17 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 95 -156.42 -111.61 REMARK 500 1 SER A 97 -157.32 -120.88 REMARK 500 1 PRO A 102 126.68 -39.65 REMARK 500 1 PRO A 105 -166.30 -46.15 REMARK 500 1 ASN A 108 -69.67 -136.26 REMARK 500 1 MET A 109 110.58 51.41 REMARK 500 1 LYS A 110 -145.38 -86.07 REMARK 500 1 ALA A 113 14.95 44.18 REMARK 500 1 ALA A 115 67.13 -173.78 REMARK 500 1 ALA A 116 -138.09 -134.92 REMARK 500 1 ALA A 120 102.13 66.21 REMARK 500 1 PHE A 141 -74.48 -47.20 REMARK 500 1 PRO A 165 166.95 -43.25 REMARK 500 1 MET A 166 -82.57 -64.25 REMARK 500 1 ASP A 167 30.11 37.56 REMARK 500 1 GLU A 168 149.23 -175.80 REMARK 500 1 SER A 170 -159.30 -148.90 REMARK 500 1 ASN A 171 158.32 -39.78 REMARK 500 1 CYS A 179 -75.06 -46.19 REMARK 500 1 LYS A 194 -85.29 -41.76 REMARK 500 1 ARG A 228 -160.29 -59.74 REMARK 500 1 SER A 230 177.52 64.49 REMARK 500 2 GLN A 91 -117.29 -74.38 REMARK 500 2 THR A 95 107.40 -37.76 REMARK 500 2 HIS A 96 34.43 -95.64 REMARK 500 2 SER A 97 101.02 -164.90 REMARK 500 2 GLN A 98 -98.99 -60.71 REMARK 500 2 PRO A 102 -13.82 -39.71 REMARK 500 2 SER A 103 -12.97 -42.77 REMARK 500 2 THR A 107 -154.23 -99.20 REMARK 500 2 ASN A 108 24.64 -167.31 REMARK 500 2 MET A 109 -121.24 62.00 REMARK 500 2 ALA A 113 40.45 -145.46 REMARK 500 2 ALA A 115 87.86 36.97 REMARK 500 2 ALA A 118 -37.54 170.80 REMARK 500 2 VAL A 122 -178.76 -65.67 REMARK 500 2 MET A 166 -87.83 -53.16 REMARK 500 2 ASP A 167 89.55 55.81 REMARK 500 2 TYR A 169 -95.69 -104.20 REMARK 500 2 SER A 170 -77.74 -142.58 REMARK 500 2 CYS A 179 -80.99 -55.44 REMARK 500 2 GLU A 196 -146.66 -127.04 REMARK 500 2 PHE A 198 70.62 34.35 REMARK 500 3 GLN A 98 -153.08 37.21 REMARK 500 3 ASN A 100 78.57 36.61 REMARK 500 3 THR A 107 71.03 -105.35 REMARK 500 3 MET A 109 149.08 -178.52 REMARK 500 3 ALA A 113 -156.80 -61.97 REMARK 500 3 ALA A 115 138.72 -178.34 REMARK 500 3 ALA A 117 -178.19 55.38 REMARK 500 REMARK 500 THIS ENTRY HAS 421 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36122 RELATED DB: BMRB REMARK 900 STRUCTURE FOR THE PROTECTIVE MUTANT G127V OF HUMAN PRION PROTEIN DBREF 5YJ4 A 91 231 UNP P04156 PRIO_HUMAN 91 231 SEQADV 5YJ4 MET A 90 UNP P04156 INITIATING METHIONINE SEQADV 5YJ4 VAL A 127 UNP P04156 GLY 127 VARIANT SEQRES 1 A 142 MET GLN GLY GLY GLY THR HIS SER GLN TRP ASN LYS PRO SEQRES 2 A 142 SER LYS PRO LYS THR ASN MET LYS HIS MET ALA GLY ALA SEQRES 3 A 142 ALA ALA ALA GLY ALA VAL VAL GLY GLY LEU GLY VAL TYR SEQRES 4 A 142 MET LEU GLY SER ALA MET SER ARG PRO ILE ILE HIS PHE SEQRES 5 A 142 GLY SER ASP TYR GLU ASP ARG TYR TYR ARG GLU ASN MET SEQRES 6 A 142 HIS ARG TYR PRO ASN GLN VAL TYR TYR ARG PRO MET ASP SEQRES 7 A 142 GLU TYR SER ASN GLN ASN ASN PHE VAL HIS ASP CYS VAL SEQRES 8 A 142 ASN ILE THR ILE LYS GLN HIS THR VAL THR THR THR THR SEQRES 9 A 142 LYS GLY GLU ASN PHE THR GLU THR ASP VAL LYS MET MET SEQRES 10 A 142 GLU ARG VAL VAL GLU GLN MET CYS ILE THR GLN TYR GLU SEQRES 11 A 142 ARG GLU SER GLN ALA TYR TYR GLN ARG GLY SER SER HELIX 1 AA1 SER A 143 HIS A 155 1 13 HELIX 2 AA2 ASN A 171 GLY A 195 1 25 HELIX 3 AA3 THR A 199 SER A 230 1 32 SSBOND 1 CYS A 179 CYS A 214 1555 1555 2.02 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