HEADER UNKNOWN FUNCTION 24-FEB-09 2KFM TITLE MOUSE PRION PROTEIN (121-231) WITH MUTATIONS Y225A AND Y226A COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR PRION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PRP, PRP27-30, PRP33-35C; 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, PRN-P, PRP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PRSETA KEYWDS MOUSE PRION PROTEIN, MUTATION Y225A, Y226A, LONG-RANGE EFFECT, CELL KEYWDS 2 MEMBRANE, GLYCOPROTEIN, GOLGI APPARATUS, GPI-ANCHOR, HYDROXYLATION, KEYWDS 3 LIPOPROTEIN, MEMBRANE, POLYMORPHISM, PRION, MEMBRANE PROTEIN, KEYWDS 4 UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.CHRISTEN,S.HORNEMANN,F.F.DAMBERGER,K.WUTHRICH REVDAT 4 20-OCT-21 2KFM 1 SEQADV REVDAT 3 19-FEB-20 2KFM 1 REMARK SEQADV REVDAT 2 22-NOV-17 2KFM 1 REMARK REVDAT 1 16-JUN-09 2KFM 0 JRNL AUTH B.CHRISTEN,S.HORNEMANN,F.F.DAMBERGER,K.WUTHRICH JRNL TITL PRION PROTEIN NMR STRUCTURE FROM TAMMAR WALLABY (MACROPUS JRNL TITL 2 EUGENII) SHOWS THAT THE BETA2-ALPHA2 LOOP IS MODULATED BY JRNL TITL 3 LONG-RANGE SEQUENCE EFFECTS. JRNL REF J.MOL.BIOL. V. 389 833 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19393664 JRNL DOI 10.1016/J.JMB.2009.04.040 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CARA, OPALP REMARK 3 AUTHORS : KELLER AND WUTHRICH (CARA), LUGINBUHL, GUNTERT, REMARK 3 BILLETER AND WUTHRICH (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KFM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000101061. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293.1 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 0.01 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 10 MM [U-100% 2H] SODIUM ACETATE REMARK 210 -1, 2 MM [U-99% 13C; U-99% 15N] REMARK 210 ENTITY-2, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D HNCA; 3D CBCA(CO)NH; REMARK 210 3D 1H-15N TOCSY; 3D HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ; 900 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : DRX; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ATNOS/CANDID 1.2, DYANA 1.0.3, REMARK 210 MOLMOL, XWINNMR 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 : NULL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 119 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 1.57 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 5 CYS A 179 CA - CB - SG ANGL. DEV. = 7.8 DEGREES REMARK 500 7 VAL A 122 CA - CB - CG1 ANGL. DEV. = 9.2 DEGREES REMARK 500 9 CYS A 179 CA - CB - SG ANGL. DEV. = 8.6 DEGREES REMARK 500 12 GLU A 211 CA - CB - CG ANGL. DEV. = 13.3 DEGREES REMARK 500 13 VAL A 122 CA - CB - CG1 ANGL. DEV. = 10.2 DEGREES REMARK 500 18 CYS A 179 CA - CB - SG ANGL. DEV. = 10.4 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 13.70 52.13 REMARK 500 1 PRO A 137 -173.54 -68.42 REMARK 500 1 SER A 170 -68.98 -91.20 REMARK 500 1 ALA A 225 -87.70 -120.04 REMARK 500 1 ARG A 229 36.03 -88.14 REMARK 500 2 VAL A 122 22.42 45.15 REMARK 500 2 ILE A 184 -75.17 -60.03 REMARK 500 2 ALA A 225 -38.25 -134.93 REMARK 500 2 ALA A 226 48.82 -150.10 REMARK 500 3 VAL A 121 -166.99 -77.09 REMARK 500 3 VAL A 122 46.52 -73.83 REMARK 500 3 PRO A 137 -176.96 -70.00 REMARK 500 3 ASP A 144 -64.70 -96.77 REMARK 500 3 ASP A 167 31.07 -72.79 REMARK 500 3 GLN A 168 14.06 -150.28 REMARK 500 3 GLN A 223 -48.80 -28.94 REMARK 500 3 ALA A 225 -78.08 -120.69 REMARK 500 3 ASP A 227 -60.98 -105.81 REMARK 500 3 SER A 231 80.41 -69.77 REMARK 500 4 PHE A 141 3.96 52.49 REMARK 500 4 ASP A 167 12.44 -69.23 REMARK 500 4 ALA A 225 -68.56 -143.38 REMARK 500 4 ARG A 230 32.51 -95.21 REMARK 500 5 VAL A 122 26.60 48.69 REMARK 500 5 MET A 134 -157.22 -102.49 REMARK 500 5 PRO A 137 -177.57 -68.62 REMARK 500 5 ASP A 167 -7.05 -57.90 REMARK 500 5 ALA A 225 -99.01 -141.89 REMARK 500 5 ALA A 226 35.37 -81.64 REMARK 500 5 ARG A 230 40.59 -95.81 REMARK 500 5 SER A 231 89.89 -69.85 REMARK 500 6 VAL A 122 15.43 49.24 REMARK 500 6 PRO A 137 -170.67 -68.19 REMARK 500 6 ASN A 143 173.66 -59.58 REMARK 500 6 GLN A 186 -62.12 -124.89 REMARK 500 6 VAL A 189 -49.72 -137.34 REMARK 500 6 ALA A 225 -51.71 -135.60 REMARK 500 7 PRO A 137 -171.19 -68.04 REMARK 500 7 GLN A 168 46.59 -106.50 REMARK 500 7 VAL A 189 -55.56 -149.83 REMARK 500 7 THR A 191 -18.37 -153.42 REMARK 500 7 ALA A 225 -58.20 -130.60 REMARK 500 7 ALA A 226 33.42 -142.45 REMARK 500 8 PRO A 137 -168.92 -71.13 REMARK 500 8 GLN A 168 -38.76 173.17 REMARK 500 8 THR A 192 -8.42 -55.76 REMARK 500 8 ALA A 225 -44.08 -148.73 REMARK 500 8 ALA A 226 59.43 -156.30 REMARK 500 9 VAL A 122 42.16 38.27 REMARK 500 9 MET A 138 69.71 -113.55 REMARK 500 REMARK 500 THIS ENTRY HAS 121 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 170 ASN A 171 4 -149.03 REMARK 500 ALA A 226 ASP A 227 9 140.97 REMARK 500 ARG A 230 SER A 231 16 149.46 REMARK 500 THR A 190 THR A 191 19 -146.58 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 2 TYR A 128 0.09 SIDE CHAIN REMARK 500 2 TYR A 149 0.07 SIDE CHAIN REMARK 500 2 TYR A 162 0.08 SIDE CHAIN REMARK 500 3 ARG A 136 0.08 SIDE CHAIN REMARK 500 3 ARG A 208 0.11 SIDE CHAIN REMARK 500 5 TYR A 162 0.07 SIDE CHAIN REMARK 500 6 ARG A 136 0.10 SIDE CHAIN REMARK 500 6 TYR A 157 0.08 SIDE CHAIN REMARK 500 6 ARG A 208 0.08 SIDE CHAIN REMARK 500 7 TYR A 157 0.08 SIDE CHAIN REMARK 500 7 ARG A 229 0.09 SIDE CHAIN REMARK 500 7 ARG A 230 0.17 SIDE CHAIN REMARK 500 8 ARG A 229 0.08 SIDE CHAIN REMARK 500 9 ARG A 148 0.11 SIDE CHAIN REMARK 500 9 TYR A 150 0.09 SIDE CHAIN REMARK 500 10 ARG A 151 0.10 SIDE CHAIN REMARK 500 10 ARG A 230 0.07 SIDE CHAIN REMARK 500 11 TYR A 150 0.08 SIDE CHAIN REMARK 500 11 ARG A 151 0.08 SIDE CHAIN REMARK 500 12 ARG A 148 0.14 SIDE CHAIN REMARK 500 14 ARG A 156 0.09 SIDE CHAIN REMARK 500 15 TYR A 149 0.07 SIDE CHAIN REMARK 500 15 ARG A 156 0.12 SIDE CHAIN REMARK 500 16 TYR A 157 0.08 SIDE CHAIN REMARK 500 17 TYR A 150 0.10 SIDE CHAIN REMARK 500 17 ARG A 230 0.09 SIDE CHAIN REMARK 500 20 ARG A 136 0.08 SIDE CHAIN REMARK 500 20 ARG A 148 0.11 SIDE CHAIN REMARK 500 20 ARG A 156 0.11 SIDE CHAIN REMARK 500 20 TYR A 157 0.07 SIDE CHAIN REMARK 500 20 ARG A 208 0.14 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2KFL RELATED DB: PDB REMARK 900 TAMMAR WALLABY PRION PROTEIN (121-230) REMARK 900 RELATED ID: 2KFO RELATED DB: PDB REMARK 900 MOUSE PRION PROTEIN (121-231) WITH MUTATION V166A REMARK 900 RELATED ID: 16184 RELATED DB: BMRB DBREF 2KFM A 121 232 UNP P04925 PRIO_MOUSE 120 231 SEQADV 2KFM GLY A 119 UNP P04925 EXPRESSION TAG SEQADV 2KFM SER A 120 UNP P04925 EXPRESSION TAG SEQADV 2KFM ALA A 225 UNP P04925 TYR 224 ENGINEERED MUTATION SEQADV 2KFM ALA A 226 UNP P04925 TYR 225 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 TYR 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 ALA ALA ASP GLY ARG ARG SER SER HELIX 1 1 TRP A 145 MET A 154 1 10 HELIX 2 2 PRO A 165 TYR A 169 5 5 HELIX 3 3 ASN A 171 THR A 190 1 20 HELIX 4 4 THR A 191 GLY A 195 5 5 HELIX 5 5 THR A 199 SER A 222 1 24 HELIX 6 6 GLN A 223 ALA A 225 5 3 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 2.03 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