HEADER UNKNOWN FUNCTION 12-FEB-10 2KU5 TITLE MOUSE PRION PROTEIN (121-231) WITH MUTATION D167S COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR PRION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 119-231; COMPND 5 SYNONYM: PRP, PRP27-30, PRP33-35C; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: PRNP, PRN-P, PRP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PRSET KEYWDS MPRP_D167S, MOUSE, PRION, PROTEIN, AMYLOID, CELL MEMBRANE, DISULFIDE KEYWDS 2 BOND, GLYCOPROTEIN, GOLGI APPARATUS, GPI-ANCHOR, HYDROXYLATION, KEYWDS 3 LIPOPROTEIN, MEMBRANE, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.R.PEREZ,F.F.DAMBERGER,K.WUTHRICH REVDAT 5 14-JUN-23 2KU5 1 REMARK REVDAT 4 13-OCT-21 2KU5 1 SEQADV REVDAT 3 05-FEB-20 2KU5 1 REMARK SEQADV REVDAT 2 30-JUN-10 2KU5 1 JRNL REVDAT 1 09-JUN-10 2KU5 0 JRNL AUTH D.R.PEREZ,F.F.DAMBERGER,K.WUTHRICH JRNL TITL HORSE PRION PROTEIN NMR STRUCTURE AND COMPARISONS WITH JRNL TITL 2 RELATED VARIANTS OF THE MOUSE PRION PROTEIN. JRNL REF J.MOL.BIOL. V. 400 121 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20460128 JRNL DOI 10.1016/J.JMB.2010.04.066 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ATNOS-CANDID, OPALP REMARK 3 AUTHORS : HERRMANN AND WUTHRICH (ATNOS-CANDID), LUGINBUHL P, REMARK 3 GUNTERT P, BILLETER M, WUTHRICH K. (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KU5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000101575. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 10 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 10 MM [U-2H] SODIUM ACETATE-1, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D HNCA; 3D 1H REMARK 210 -15N TOCSY; 3D HNCACB; 3D 1H-13C REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 HH TYR A 163 OE2 GLU A 221 1.58 REMARK 500 HH TYR A 157 OD2 ASP A 202 1.59 REMARK 500 REMARK 500 REMARK: NULL 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 2 VAL A 203 CA - CB - CG2 ANGL. DEV. = 11.2 DEGREES REMARK 500 3 THR A 199 CA - CB - CG2 ANGL. DEV. = -8.9 DEGREES REMARK 500 5 VAL A 210 CA - CB - CG2 ANGL. DEV. = 18.6 DEGREES REMARK 500 9 ARG A 148 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 12 TYR A 218 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 13 ASP A 178 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 16 CYS A 179 CA - CB - SG ANGL. DEV. = 6.8 DEGREES REMARK 500 16 ARG A 229 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 16 ARG A 229 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 17 TYR A 226 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 18 PHE A 198 CB - CG - CD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 18 THR A 199 CA - CB - CG2 ANGL. DEV. = -8.5 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 VAL A 122 43.06 -78.27 REMARK 500 1 PHE A 141 -4.59 59.59 REMARK 500 1 SER A 167 22.11 -67.66 REMARK 500 1 GLN A 168 15.67 -146.95 REMARK 500 1 SER A 170 -38.46 67.14 REMARK 500 1 ASN A 181 -70.98 -58.26 REMARK 500 1 VAL A 189 -62.87 -126.46 REMARK 500 1 THR A 190 -78.82 -49.10 REMARK 500 1 ASN A 197 117.42 -166.76 REMARK 500 1 GLN A 223 12.50 -67.33 REMARK 500 2 SER A 132 -175.11 -67.13 REMARK 500 2 PHE A 141 -7.64 61.91 REMARK 500 2 GLU A 152 -71.02 -79.20 REMARK 500 2 ASN A 159 21.96 -78.77 REMARK 500 2 SER A 167 -31.62 -35.44 REMARK 500 2 GLN A 186 3.59 -64.42 REMARK 500 2 VAL A 189 -64.36 -131.30 REMARK 500 2 THR A 190 -70.96 -57.02 REMARK 500 2 ASN A 197 97.56 -166.40 REMARK 500 2 TYR A 225 -54.93 -123.58 REMARK 500 2 ARG A 230 -163.55 -107.10 REMARK 500 3 VAL A 122 46.62 34.35 REMARK 500 3 LEU A 125 -109.13 -102.09 REMARK 500 3 SER A 135 -179.79 -69.30 REMARK 500 3 PHE A 141 -13.63 64.10 REMARK 500 3 GLU A 152 -73.01 -74.25 REMARK 500 3 TYR A 163 155.70 178.46 REMARK 500 3 VAL A 166 -4.41 -56.51 REMARK 500 3 SER A 170 45.01 24.81 REMARK 500 3 ASN A 173 -46.61 -130.54 REMARK 500 3 HIS A 187 0.97 -65.96 REMARK 500 3 VAL A 189 -62.40 -128.13 REMARK 500 3 THR A 190 -70.94 -54.76 REMARK 500 3 ASN A 197 104.09 -165.77 REMARK 500 3 LYS A 220 -71.81 -61.83 REMARK 500 3 TYR A 225 -58.26 -131.89 REMARK 500 4 PHE A 141 2.40 57.59 REMARK 500 4 VAL A 166 -4.98 -57.15 REMARK 500 4 TYR A 169 -71.09 -93.95 REMARK 500 4 SER A 170 -30.77 70.01 REMARK 500 4 VAL A 189 -68.73 -137.04 REMARK 500 4 ASN A 197 113.56 -163.75 REMARK 500 4 ARG A 230 -149.32 -93.22 REMARK 500 5 PHE A 141 -8.06 62.83 REMARK 500 5 SER A 170 -20.76 43.81 REMARK 500 5 ASN A 173 -40.75 -145.99 REMARK 500 5 VAL A 189 -65.80 -128.10 REMARK 500 5 THR A 190 -72.17 -48.85 REMARK 500 5 ASN A 197 115.68 -166.02 REMARK 500 5 ARG A 230 -159.53 -131.02 REMARK 500 REMARK 500 THIS ENTRY HAS 186 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 SER A 231 SER A 232 3 -136.80 REMARK 500 ARG A 230 SER A 231 9 145.05 REMARK 500 CYS A 179 VAL A 180 15 149.40 REMARK 500 SER A 170 ASN A 171 17 148.30 REMARK 500 SER A 231 SER A 232 20 -149.41 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 TYR A 128 0.07 SIDE CHAIN REMARK 500 1 TYR A 157 0.08 SIDE CHAIN REMARK 500 1 ARG A 208 0.11 SIDE CHAIN REMARK 500 1 TYR A 226 0.07 SIDE CHAIN REMARK 500 2 ARG A 164 0.13 SIDE CHAIN REMARK 500 3 TYR A 157 0.08 SIDE CHAIN REMARK 500 3 ARG A 164 0.09 SIDE CHAIN REMARK 500 3 TYR A 225 0.11 SIDE CHAIN REMARK 500 4 TYR A 128 0.07 SIDE CHAIN REMARK 500 4 ARG A 148 0.08 SIDE CHAIN REMARK 500 4 TYR A 149 0.09 SIDE CHAIN REMARK 500 4 TYR A 163 0.07 SIDE CHAIN REMARK 500 5 ARG A 148 0.09 SIDE CHAIN REMARK 500 5 TYR A 150 0.13 SIDE CHAIN REMARK 500 5 ARG A 156 0.12 SIDE CHAIN REMARK 500 5 TYR A 157 0.09 SIDE CHAIN REMARK 500 5 TYR A 218 0.11 SIDE CHAIN REMARK 500 6 TYR A 128 0.10 SIDE CHAIN REMARK 500 6 TYR A 150 0.12 SIDE CHAIN REMARK 500 6 ARG A 151 0.14 SIDE CHAIN REMARK 500 6 TYR A 162 0.12 SIDE CHAIN REMARK 500 6 TYR A 163 0.09 SIDE CHAIN REMARK 500 6 TYR A 226 0.07 SIDE CHAIN REMARK 500 6 ARG A 230 0.09 SIDE CHAIN REMARK 500 7 TYR A 128 0.10 SIDE CHAIN REMARK 500 7 ARG A 156 0.13 SIDE CHAIN REMARK 500 8 TYR A 128 0.09 SIDE CHAIN REMARK 500 8 TYR A 149 0.08 SIDE CHAIN REMARK 500 8 ARG A 151 0.09 SIDE CHAIN REMARK 500 8 TYR A 157 0.07 SIDE CHAIN REMARK 500 9 TYR A 128 0.08 SIDE CHAIN REMARK 500 10 TYR A 157 0.09 SIDE CHAIN REMARK 500 10 ARG A 230 0.08 SIDE CHAIN REMARK 500 11 ARG A 156 0.17 SIDE CHAIN REMARK 500 11 TYR A 157 0.08 SIDE CHAIN REMARK 500 11 ARG A 208 0.15 SIDE CHAIN REMARK 500 11 TYR A 226 0.09 SIDE CHAIN REMARK 500 12 TYR A 128 0.07 SIDE CHAIN REMARK 500 12 ARG A 156 0.11 SIDE CHAIN REMARK 500 12 ARG A 208 0.08 SIDE CHAIN REMARK 500 13 ARG A 156 0.09 SIDE CHAIN REMARK 500 13 ARG A 164 0.10 SIDE CHAIN REMARK 500 13 TYR A 226 0.07 SIDE CHAIN REMARK 500 14 ARG A 148 0.12 SIDE CHAIN REMARK 500 14 TYR A 150 0.08 SIDE CHAIN REMARK 500 14 ARG A 151 0.08 SIDE CHAIN REMARK 500 14 ARG A 156 0.13 SIDE CHAIN REMARK 500 14 TYR A 162 0.07 SIDE CHAIN REMARK 500 14 ARG A 229 0.11 SIDE CHAIN REMARK 500 15 ARG A 156 0.08 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 70 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16722 RELATED DB: BMRB REMARK 900 RELATED ID: 2KU4 RELATED DB: PDB REMARK 900 RELATED ID: 2KU6 RELATED DB: PDB DBREF 2KU5 A 121 232 UNP P04925 PRIO_MOUSE 120 231 SEQADV 2KU5 SER A 120 UNP P04925 EXPRESSION TAG SEQADV 2KU5 SER A 167 UNP P04925 ASP 166 ENGINEERED MUTATION SEQRES 1 A 113 SER VAL VAL GLY GLY LEU GLY GLY TYR MET LEU GLY SER SEQRES 2 A 113 ALA MET SER ARG PRO MET ILE HIS PHE GLY ASN ASP TRP SEQRES 3 A 113 GLU ASP ARG TYR TYR ARG GLU ASN MET TYR ARG TYR PRO SEQRES 4 A 113 ASN GLN VAL TYR TYR ARG PRO VAL SER GLN TYR SER ASN SEQRES 5 A 113 GLN ASN ASN PHE VAL HIS ASP CYS VAL ASN ILE THR ILE SEQRES 6 A 113 LYS GLN HIS THR VAL THR THR THR THR LYS GLY GLU ASN SEQRES 7 A 113 PHE THR GLU THR ASP VAL LYS MET MET GLU ARG VAL VAL SEQRES 8 A 113 GLU GLN MET CYS VAL THR GLN TYR GLN LYS GLU SER GLN SEQRES 9 A 113 ALA TYR TYR ASP GLY ARG ARG SER SER HELIX 1 1 TRP A 145 MET A 154 1 10 HELIX 2 2 TYR A 155 TYR A 157 5 3 HELIX 3 3 GLN A 172 LYS A 194 1 23 HELIX 4 4 THR A 199 GLN A 223 1 25 HELIX 5 5 ALA A 224 TYR A 225 5 2 HELIX 6 6 TYR A 226 ARG A 230 5 5 SHEET 1 A 2 MET A 129 LEU A 130 0 SHEET 2 A 2 TYR A 162 TYR A 163 -1 O TYR A 163 N MET A 129 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