HEADER STRUCTURAL PROTEIN 24-SEP-96 1NEU TITLE STRUCTURE OF MYELIN MEMBRANE ADHESION MOLECULE P0 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MYELIN P0 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EXTRACELLULAR DOMAIN, RESIDUES 1 - 124; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MYELIN, STRUCTURAL PROTEIN, GLYCOPROTEIN, TRANSMEMBRANE, KEYWDS 2 PHOSPHORYLATION, IMMUNOGLOBULIN FOLD, MYELIN MEMBRANE ADHESION KEYWDS 3 MOLECULE EXPDTA X-RAY DIFFRACTION AUTHOR L.SHAPIRO,J.P.DOYLE,P.HENSLEY,D.R.COLMAN,W.A.HENDRICKSON REVDAT 3 05-JUN-24 1NEU 1 REMARK REVDAT 2 24-FEB-09 1NEU 1 VERSN REVDAT 1 15-MAY-97 1NEU 0 JRNL AUTH L.SHAPIRO,J.P.DOYLE,P.HENSLEY,D.R.COLMAN,W.A.HENDRICKSON JRNL TITL CRYSTAL STRUCTURE OF THE EXTRACELLULAR DOMAIN FROM P0, THE JRNL TITL 2 MAJOR STRUCTURAL PROTEIN OF PERIPHERAL NERVE MYELIN. JRNL REF NEURON V. 17 435 1996 JRNL REFN ISSN 0896-6273 JRNL PMID 8816707 JRNL DOI 10.1016/S0896-6273(00)80176-2 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 14237 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 918 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 164 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.014 REMARK 3 BOND ANGLES (DEGREES) : 1.541 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1NEU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000175263. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD, SIR/AS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: PHASING WAS OBTAINED FROM A MULTI-WAVELENGTH ANOMALOUS REMARK 200 DIFFRACTION (MAD) EXPERIMENT ON A PCMBS-DERIVATIZED CRYSTAL; THE REMARK 200 MERCURY POSITION WAS POORLY OCCUPIED (~0.2), AND SO THE DERIVED REMARK 200 PHASES WERE COMBINED WITH PHASES OBTAINED BY SIR/AS ON A MORE REMARK 200 COMPLETELY DERIVATIZED CRYSTAL. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 44.45000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 45.80000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 44.45000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 45.80000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 44.45000 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 45.80000 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 44.45000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 45.80000 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 44.45000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 45.80000 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 44.45000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 45.80000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 44.45000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 45.80000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 44.45000 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 44.45000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 45.80000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC 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 350 BIOMT1 2 0.000000 1.000000 0.000000 44.45000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 -44.45000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 45.80000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 PRO A 103 REMARK 465 PRO A 104 REMARK 465 ASP A 105 REMARK 465 ILE A 106 REMARK 465 LYS A 120 REMARK 465 VAL A 121 REMARK 465 PRO A 122 REMARK 465 THR A 123 REMARK 465 ARG A 124 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 27 CD OE1 OE2 REMARK 470 GLN A 57 CD OE1 NE2 REMARK 470 ASP A 61 CG OD1 OD2 REMARK 470 GLU A 119 CG CD OE1 OE2 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 PHE A 118 -158.43 -120.70 REMARK 500 REMARK 500 REMARK: NULL DBREF 1NEU A 1 124 UNP P06907 MYP0_RAT 30 153 SEQRES 1 A 124 ILE VAL VAL TYR THR ASP ARG GLU VAL TYR GLY ALA VAL SEQRES 2 A 124 GLY SER GLN VAL THR LEU HIS CYS SER PHE TRP SER SER SEQRES 3 A 124 GLU TRP VAL SER ASP ASP ILE SER PHE THR TRP ARG TYR SEQRES 4 A 124 GLN PRO GLU GLY GLY ARG ASP ALA ILE SER ILE PHE HIS SEQRES 5 A 124 TYR ALA LYS GLY GLN PRO TYR ILE ASP GLU VAL GLY THR SEQRES 6 A 124 PHE LYS GLU ARG ILE GLN TRP VAL GLY ASP PRO SER TRP SEQRES 7 A 124 LYS ASP GLY SER ILE VAL ILE HIS ASN LEU ASP TYR SER SEQRES 8 A 124 ASP ASN GLY THR PHE THR CYS ASP VAL LYS ASN PRO PRO SEQRES 9 A 124 ASP ILE VAL GLY LYS THR SER GLN VAL THR LEU TYR VAL SEQRES 10 A 124 PHE GLU LYS VAL PRO THR ARG FORMUL 2 HOH *164(H2 O) HELIX 1 1 PRO A 76 TRP A 78 5 3 HELIX 2 2 TYR A 90 ASP A 92 5 3 SHEET 1 A 2 VAL A 2 TYR A 4 0 SHEET 2 A 2 SER A 22 TRP A 24 -1 N TRP A 24 O VAL A 2 SHEET 1 B 6 GLU A 8 ALA A 12 0 SHEET 2 B 6 LYS A 109 PHE A 118 1 N THR A 114 O VAL A 9 SHEET 3 B 6 GLY A 94 LYS A 101 -1 N VAL A 100 O LYS A 109 SHEET 4 B 6 SER A 34 PRO A 41 -1 N GLN A 40 O THR A 95 SHEET 5 B 6 ILE A 48 ALA A 54 -1 N TYR A 53 O PHE A 35 SHEET 6 B 6 GLN A 57 ILE A 60 -1 N TYR A 59 O HIS A 52 SHEET 1 C 3 VAL A 17 LEU A 19 0 SHEET 2 C 3 ILE A 83 ILE A 85 -1 N ILE A 85 O VAL A 17 SHEET 3 C 3 ILE A 70 TRP A 72 -1 N GLN A 71 O VAL A 84 SSBOND 1 CYS A 21 CYS A 98 1555 1555 2.18 CRYST1 88.900 88.900 91.600 90.00 90.00 90.00 I 4 2 2 16 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 0.011249 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011249 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010917 0.00000