HEADER MEMBRANE PROTEIN 05-FEB-18 6FNV TITLE SOLUTION STRUCTURE OF MULE DEER PRION PROTEIN WITH POLYMORPHISM S138 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR PRION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MDPRP(S138); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ODOCOILEUS HEMIONUS; SOURCE 3 ORGANISM_COMMON: MULE DEER; SOURCE 4 ORGANISM_TAXID: 9872; SOURCE 5 GENE: PRNP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS PRION PROTEIN, MEMBRANE PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR U.SLAPSAK,G.ILC,J.PLAVEC REVDAT 2 14-JUN-23 6FNV 1 REMARK REVDAT 1 28-AUG-19 6FNV 0 JRNL AUTH U.SLAPSAK,G.ILC,J.PLAVEC JRNL TITL SOLUTION STRUCTURE OF MULE DEER PRION PROTEIN WITH JRNL TITL 2 POLYMORPHISM S138 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : YASARA NOVA REMARK 3 AUTHORS : KRIEGER, E. ET AL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6FNV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-FEB-18. REMARK 100 THE DEPOSITION ID IS D_1200008630. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 BAR REMARK 210 SAMPLE CONTENTS : 0.48 MM [U-99% 13C; U-99% 15N] REMARK 210 MDPRP(S138), 20 MM SODIUM REMARK 210 PHOSPHATE, 90 % H2O, 10 % [U-2H] REMARK 210 D2O, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D HNCO; 3D HN(CO)CA; REMARK 210 3D HNCA; 3D CBCA(CO)NH; 3D REMARK 210 HNCACB; 3D HBHA(CO)NH; 3D C(CO) REMARK 210 NH; 3D HCCH-TOCSY; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY ALIPHATIC; REMARK 210 3D 1H-13C NOESY AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : UNIFORM NMR SYSTEM REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 3.1, CARA 1.9.1B18, SPARKY REMARK 210 3.114, NMRPIPE, TALOS, VNMR, REMARK 210 PSVS, CCPNMR ANALYSIS REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : 13 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: 10900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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: 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 5 ARG A 159 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 10 PRO A 105 C - N - CA ANGL. DEV. = 9.4 DEGREES REMARK 500 18 PRO A 105 C - N - CA ANGL. DEV. = 9.2 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 LYS A 107 162.72 63.10 REMARK 500 1 ALA A 123 -165.69 -109.14 REMARK 500 1 LEU A 128 -62.16 -132.74 REMARK 500 1 ARG A 139 105.28 -46.32 REMARK 500 2 SER A 100 46.71 -151.98 REMARK 500 2 ALA A 119 46.30 -141.49 REMARK 500 2 LEU A 128 -67.91 -133.70 REMARK 500 3 LEU A 128 -59.53 -130.31 REMARK 500 3 ARG A 139 105.80 -46.49 REMARK 500 3 ASN A 200 -6.56 -140.34 REMARK 500 4 ASN A 111 32.81 -158.93 REMARK 500 4 LEU A 128 -72.26 -131.96 REMARK 500 5 GLN A 95 -32.73 62.49 REMARK 500 5 LEU A 128 -68.98 -127.96 REMARK 500 5 ARG A 139 107.71 -46.52 REMARK 500 5 ASN A 200 -14.16 -143.46 REMARK 500 6 PRO A 105 40.80 -81.72 REMARK 500 6 ASN A 111 22.69 45.82 REMARK 500 6 LEU A 128 -67.69 -125.10 REMARK 500 6 ARG A 139 105.21 -46.37 REMARK 500 7 SER A 100 33.23 -142.63 REMARK 500 7 LEU A 128 -73.43 -126.47 REMARK 500 7 ARG A 139 105.29 -46.44 REMARK 500 8 LEU A 128 -80.35 -125.57 REMARK 500 9 LEU A 128 -62.35 -130.13 REMARK 500 10 GLN A 101 -19.94 -164.13 REMARK 500 10 VAL A 124 52.89 38.40 REMARK 500 10 LEU A 128 -60.93 -131.55 REMARK 500 10 ARG A 139 107.09 -48.58 REMARK 500 11 THR A 110 31.93 -82.53 REMARK 500 11 LEU A 128 -68.81 -127.28 REMARK 500 11 ARG A 139 105.26 -46.40 REMARK 500 12 SER A 100 34.79 -82.16 REMARK 500 12 TRP A 102 -49.25 -134.15 REMARK 500 12 ASN A 111 43.03 -84.00 REMARK 500 12 LEU A 128 -50.98 -133.32 REMARK 500 12 ARG A 139 109.82 -48.04 REMARK 500 13 SER A 100 -43.57 -150.28 REMARK 500 13 GLN A 101 8.06 52.42 REMARK 500 13 LEU A 128 -67.40 -127.47 REMARK 500 14 SER A 100 51.38 -141.39 REMARK 500 14 LEU A 128 -68.04 -130.26 REMARK 500 15 HIS A 99 -26.63 62.93 REMARK 500 15 ASN A 103 179.04 67.38 REMARK 500 15 ALA A 119 80.59 -154.28 REMARK 500 15 ALA A 120 83.84 -151.51 REMARK 500 15 LEU A 128 -62.17 -131.08 REMARK 500 16 THR A 110 39.30 -95.38 REMARK 500 16 ALA A 119 41.02 -143.10 REMARK 500 16 VAL A 124 89.09 41.36 REMARK 500 REMARK 500 THIS ENTRY HAS 70 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34236 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF MULE DEER PRION PROTEIN WITH POLYMORPHISM S138 DBREF 6FNV A 94 233 UNP Q6VS46 Q6VS46_ODOHE 94 233 SEQRES 1 A 140 GLY GLN GLY GLY THR HIS SER GLN TRP ASN LYS PRO SER SEQRES 2 A 140 LYS PRO LYS THR ASN MET LYS HIS VAL ALA GLY ALA ALA SEQRES 3 A 140 ALA ALA GLY ALA VAL VAL GLY GLY LEU GLY GLY TYR MET SEQRES 4 A 140 LEU GLY SER ALA MET SER ARG PRO LEU ILE HIS PHE GLY SEQRES 5 A 140 ASN ASP TYR GLU ASP ARG TYR TYR ARG GLU ASN MET TYR SEQRES 6 A 140 ARG TYR PRO ASN GLN VAL TYR TYR ARG PRO VAL ASP GLN SEQRES 7 A 140 TYR ASN ASN GLN ASN THR PHE VAL HIS ASP CYS VAL ASN SEQRES 8 A 140 ILE THR VAL LYS GLN HIS THR VAL THR THR THR THR LYS SEQRES 9 A 140 GLY GLU ASN PHE THR GLU THR ASP ILE LYS MET MET GLU SEQRES 10 A 140 ARG VAL VAL GLU GLN MET CYS ILE THR GLN TYR GLN ARG SEQRES 11 A 140 GLU SER GLN ALA TYR TYR GLN ARG GLY ALA HELIX 1 AA1 ASN A 146 MET A 157 1 12 HELIX 2 AA2 TYR A 158 TYR A 160 5 3 HELIX 3 AA3 PRO A 168 TYR A 172 5 5 HELIX 4 AA4 ASN A 174 GLY A 198 1 25 HELIX 5 AA5 THR A 202 ARG A 231 1 30 SHEET 1 AA1 2 MET A 132 LEU A 133 0 SHEET 2 AA1 2 TYR A 165 TYR A 166 -1 O TYR A 166 N MET A 132 SSBOND 1 CYS A 182 CYS A 217 1555 1555 2.03 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