HEADER MEMBRANE PROTEIN 28-JUL-10 2L1D TITLE MOUSE PRION PROTEIN (121-231) CONTAINING THE SUBSTITUTION Y169G COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR PRION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 120-231; COMPND 5 ENGINEERED: YES; COMPND 6 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, RP23-401J24.1-001; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PRSETA KEYWDS PRION, MUTATION, MEMBRANE PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.CHRISTEN,F.F.DAMBERGER,D.R.PEREZ,S.HORNEMANN,K.WUTHRICH REVDAT 2 09-NOV-11 2L1D 1 JRNL REVDAT 1 10-AUG-11 2L1D 0 JRNL AUTH F.F.DAMBERGER,B.CHRISTEN,D.R.PEREZ,S.HORNEMANN,K.WUTHRICH JRNL TITL CELLULAR PRION PROTEIN CONFORMATION AND FUNCTION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 17308 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 21987789 JRNL DOI 10.1073/PNAS.1106325108 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPALP REMARK 3 AUTHORS : LUGINBUHL, GUNTERT, BILLETER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2L1D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-AUG-10. REMARK 100 THE RCSB ID CODE IS RCSB101833. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293.2 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 0.01 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.9 MM [U-99% 13C; U-99% 15N] REMARK 210 PROTEIN, 10 MM [U-2H] SODIUM REMARK 210 ACETATE-2, 0.02 % SODIUM AZIDE-3, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 900 MHZ; 750 MHZ; 600 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : DRX; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, CARA, ATNOS/CANDID 1.2, REMARK 210 DYANA 1.0.3, MOLMOL REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 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 128 OD2 ASP A 178 1.51 REMARK 500 HG1 THR A 199 OD2 ASP A 202 1.58 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 1 THR A 190 CA - CB - CG2 ANGL. DEV. = 11.5 DEGREES REMARK 500 2 VAL A 209 CA - CB - CG1 ANGL. DEV. = 9.8 DEGREES REMARK 500 7 VAL A 176 CA - CB - CG2 ANGL. DEV. = 13.4 DEGREES REMARK 500 7 ASP A 178 CB - CG - OD1 ANGL. DEV. = -8.6 DEGREES REMARK 500 9 ARG A 208 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 11 ARG A 136 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 12 VAL A 209 CA - CB - CG1 ANGL. DEV. = 10.4 DEGREES REMARK 500 13 THR A 190 CA - CB - CG2 ANGL. DEV. = 8.6 DEGREES REMARK 500 17 ARG A 136 CD - NE - CZ ANGL. DEV. = 11.0 DEGREES REMARK 500 17 ARG A 136 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 19 VAL A 176 CA - CB - CG2 ANGL. DEV. = 14.1 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 121 65.80 35.77 REMARK 500 1 PHE A 141 -33.00 65.96 REMARK 500 1 ASN A 173 2.27 -69.44 REMARK 500 1 THR A 188 -57.48 -122.77 REMARK 500 1 THR A 191 -46.60 -141.83 REMARK 500 1 LYS A 194 -89.51 -92.08 REMARK 500 1 ASN A 197 52.71 -144.14 REMARK 500 1 ASP A 227 22.41 45.90 REMARK 500 1 SER A 231 125.24 144.64 REMARK 500 2 SER A 120 134.55 66.51 REMARK 500 2 PHE A 141 -44.44 64.79 REMARK 500 2 THR A 188 -65.84 -93.59 REMARK 500 2 THR A 191 -39.67 -142.11 REMARK 500 2 LYS A 194 -64.50 -102.74 REMARK 500 2 ASN A 197 20.86 -152.68 REMARK 500 2 SER A 231 151.15 66.27 REMARK 500 3 HIS A 140 74.97 -115.49 REMARK 500 3 THR A 188 -52.26 -141.07 REMARK 500 3 THR A 191 -51.22 -141.53 REMARK 500 3 LYS A 194 -77.29 -76.25 REMARK 500 3 ASN A 197 17.60 -145.84 REMARK 500 3 PHE A 198 123.64 -24.30 REMARK 500 3 ASP A 227 28.77 43.52 REMARK 500 3 SER A 231 106.99 53.88 REMARK 500 4 SER A 120 134.61 73.40 REMARK 500 4 ALA A 133 105.19 -49.57 REMARK 500 4 PHE A 141 -41.95 65.89 REMARK 500 4 THR A 188 -53.16 -135.38 REMARK 500 4 THR A 191 -45.40 -148.50 REMARK 500 4 LYS A 194 -70.17 -100.38 REMARK 500 4 ASN A 197 41.76 -143.89 REMARK 500 4 ASP A 227 -0.42 58.82 REMARK 500 4 SER A 231 84.52 47.44 REMARK 500 5 SER A 120 145.27 -173.16 REMARK 500 5 VAL A 121 69.66 26.48 REMARK 500 5 PHE A 141 -53.27 70.50 REMARK 500 5 THR A 191 -46.20 -141.91 REMARK 500 5 LYS A 194 -85.13 -90.88 REMARK 500 5 PHE A 198 104.54 -25.30 REMARK 500 5 ASP A 227 -8.63 58.29 REMARK 500 5 SER A 231 126.93 57.96 REMARK 500 6 SER A 120 136.75 65.35 REMARK 500 6 VAL A 121 69.20 33.91 REMARK 500 6 ALA A 133 105.49 -50.02 REMARK 500 6 PRO A 137 -179.19 -68.48 REMARK 500 6 ASN A 153 15.92 -145.24 REMARK 500 6 PHE A 175 -57.01 -122.90 REMARK 500 6 THR A 188 -51.44 -124.98 REMARK 500 6 THR A 190 2.47 -68.00 REMARK 500 6 THR A 191 -39.62 -133.16 REMARK 500 REMARK 500 THIS ENTRY HAS 175 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 GLY A 195 GLU A 196 6 -145.68 REMARK 500 THR A 190 THR A 191 15 -148.43 REMARK 500 THR A 190 THR A 191 18 -145.75 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 0.08 SIDE CHAIN REMARK 500 2 ARG A 136 0.09 SIDE CHAIN REMARK 500 2 ARG A 148 0.09 SIDE CHAIN REMARK 500 2 ARG A 151 0.10 SIDE CHAIN REMARK 500 3 ARG A 151 0.08 SIDE CHAIN REMARK 500 4 ARG A 156 0.09 SIDE CHAIN REMARK 500 4 TYR A 225 0.08 SIDE CHAIN REMARK 500 4 ARG A 229 0.10 SIDE CHAIN REMARK 500 6 ARG A 148 0.10 SIDE CHAIN REMARK 500 6 ARG A 151 0.13 SIDE CHAIN REMARK 500 6 ARG A 229 0.12 SIDE CHAIN REMARK 500 7 ARG A 156 0.08 SIDE CHAIN REMARK 500 7 PHE A 175 0.09 SIDE CHAIN REMARK 500 9 TYR A 150 0.07 SIDE CHAIN REMARK 500 10 TYR A 163 0.07 SIDE CHAIN REMARK 500 10 PHE A 175 0.10 SIDE CHAIN REMARK 500 10 ARG A 229 0.15 SIDE CHAIN REMARK 500 11 ARG A 151 0.10 SIDE CHAIN REMARK 500 11 TYR A 157 0.09 SIDE CHAIN REMARK 500 12 ARG A 151 0.09 SIDE CHAIN REMARK 500 12 ARG A 164 0.16 SIDE CHAIN REMARK 500 12 TYR A 225 0.08 SIDE CHAIN REMARK 500 12 TYR A 226 0.07 SIDE CHAIN REMARK 500 12 ARG A 229 0.09 SIDE CHAIN REMARK 500 13 TYR A 149 0.18 SIDE CHAIN REMARK 500 13 ARG A 151 0.08 SIDE CHAIN REMARK 500 13 ARG A 164 0.10 SIDE CHAIN REMARK 500 13 ARG A 208 0.10 SIDE CHAIN REMARK 500 14 TYR A 128 0.07 SIDE CHAIN REMARK 500 14 TYR A 155 0.09 SIDE CHAIN REMARK 500 14 ARG A 208 0.10 SIDE CHAIN REMARK 500 14 TYR A 226 0.08 SIDE CHAIN REMARK 500 15 ARG A 148 0.08 SIDE CHAIN REMARK 500 15 TYR A 155 0.09 SIDE CHAIN REMARK 500 15 TYR A 225 0.07 SIDE CHAIN REMARK 500 16 ARG A 148 0.08 SIDE CHAIN REMARK 500 18 ARG A 136 0.10 SIDE CHAIN REMARK 500 18 ARG A 156 0.08 SIDE CHAIN REMARK 500 18 ARG A 164 0.11 SIDE CHAIN REMARK 500 19 ARG A 164 0.13 SIDE CHAIN REMARK 500 19 PHE A 175 0.10 SIDE CHAIN REMARK 500 19 TYR A 225 0.08 SIDE CHAIN REMARK 500 20 TYR A 155 0.09 SIDE CHAIN REMARK 500 20 PHE A 175 0.08 SIDE CHAIN REMARK 500 20 TYR A 225 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2L1E RELATED DB: PDB REMARK 900 RELATED ID: 2L1H RELATED DB: PDB REMARK 900 RELATED ID: 2L1K RELATED DB: PDB REMARK 900 RELATED ID: 17081 RELATED DB: BMRB DBREF 2L1D A 121 232 UNP Q4FJQ7 Q4FJQ7_MOUSE 120 231 SEQADV 2L1D GLY A 119 UNP Q4FJQ7 EXPRESSION TAG SEQADV 2L1D SER A 120 UNP Q4FJQ7 EXPRESSION TAG SEQADV 2L1D GLY A 169 UNP Q4FJQ7 TYR 168 ENGINEERED MUTATION SEQRES 1 A 114 GLY SER VAL VAL GLY GLY LEU GLY GLY TYR MET LEU GLY SEQRES 2 A 114 SER ALA MET SER ARG PRO MET ILE HIS PHE GLY ASN ASP SEQRES 3 A 114 TRP GLU ASP ARG TYR TYR ARG GLU ASN MET TYR ARG TYR SEQRES 4 A 114 PRO ASN GLN VAL TYR TYR ARG PRO VAL ASP GLN GLY SER SEQRES 5 A 114 ASN GLN ASN ASN PHE VAL HIS ASP CYS VAL ASN ILE THR SEQRES 6 A 114 ILE LYS GLN HIS THR VAL THR THR THR THR LYS GLY GLU SEQRES 7 A 114 ASN PHE THR GLU THR ASP VAL LYS MET MET GLU ARG VAL SEQRES 8 A 114 VAL GLU GLN MET CYS VAL THR GLN TYR GLN LYS GLU SER SEQRES 9 A 114 GLN ALA TYR TYR ASP GLY ARG ARG SER SER HELIX 1 1 ASN A 143 ASN A 153 1 11 HELIX 2 2 MET A 154 TYR A 157 5 4 HELIX 3 3 ASN A 171 THR A 188 1 18 HELIX 4 4 THR A 199 ASP A 227 1 29 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 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