PDB Short entry for 2UWR HEADER MEMBRANE PROTEIN 23-MAR-07 2UWR TITLE HIGH RESOLUTION STRUCTURE OF HUMAN CD59 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CD59 GLYCOPROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 26-102; COMPND 5 SYNONYM: CD59,MEMBRANE ATTACK COMPLEX INHIBITION FACTOR, MACIF, MAC- COMPND 6 INHIBITORY PROTEIN, MAC-IP, PROTECTIN, MEM43 ANTIGEN, MEMBRANE COMPND 7 INHIBITOR OF REACTIVE LYSIS, MIRL, 20 KDA HOMOLOGOUS RESTRICTION COMPND 8 FACTOR, HRF-20,HRF20,1F5 ANTIGEN; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: UT5600 DE3; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET59-06 KEYWDS MAC, MIRL, CD59, MEMBRANE, GPI-ANCHOR, LIPOPROTEIN, GLYCOPROTEIN, KEYWDS 2 COMPLEMENT REGULATOR, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.J.LEATH,S.JOHNSON,P.ROVERSI,B.P.MORGAN,R.A.G.SMITH,S.M.LEA REVDAT 3 13-DEC-23 2UWR 1 REMARK REVDAT 2 24-FEB-09 2UWR 1 VERSN REVDAT 1 07-AUG-07 2UWR 0 JRNL AUTH K.J.LEATH,S.JOHNSON,P.ROVERSI,T.R.HUGHES,R.A.G.SMITH, JRNL AUTH 2 L.MACKENZIE,B.P.MORGAN,S.M.LEA JRNL TITL HIGH-RESOLUTION STRUCTURES OF BACTERIALLY EXPRESSED SOLUBLE JRNL TITL 2 HUMAN CD59. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 63 648 2007 JRNL REFN ESSN 1744-3091 JRNL PMID 17671359 JRNL DOI 10.1107/S1744309107033477 REMARK 2 REMARK 2 RESOLUTION. 1.34 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT 5.13.1.0 REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.34 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 1.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 11863 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 593 REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.2070 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.2060 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.00 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 593 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 11863 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 635 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 68 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : 1.740 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.005 ; 2.000 ; 724 REMARK 3 BOND ANGLES (DEGREES) : 1.113 ; 2.000 ; 992 REMARK 3 TORSION ANGLES (DEGREES) : 16.338; 0.000 ; 150 REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : 0.010 ; 2.000 ; 26 REMARK 3 GENERAL PLANES (A) : 0.019 ; 5.000 ; 109 REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : 1.071 ; 20.000; 724 REMARK 3 NON-BONDED CONTACTS (A) : 0.067 ; 5.000 ; 21 REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : 0 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : BABINET SCALING REMARK 3 KSOL : 0.53 REMARK 3 BSOL : 119.0 REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : TNT PROTEGO REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : TNT BCORREL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2UWR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-MAR-07. REMARK 100 THE DEPOSITION ID IS D_1290032034. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13368 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.340 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.34 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.22000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2J8B REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 23.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG8000, 20% ETHANOL, 0.03M REMARK 280 POTASSIUM PHOSPHATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 12.76200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 40.57550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 13.95100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 40.57550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 12.76200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 13.95100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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: 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 ASN A 70 44.23 -87.17 REMARK 500 ASN A 70 44.60 -87.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CDQ RELATED DB: PDB REMARK 900 CD59 (NMR, 20 STRUCTURES) REMARK 900 RELATED ID: 1CDR RELATED DB: PDB REMARK 900 CD59 COMPLEXED WITH GLCNAC-BETA-1,4-GLCNAC -BETA-1 (NMR, 10 REMARK 900 STRUCTURES) REMARK 900 RELATED ID: 1CDS RELATED DB: PDB REMARK 900 CD59 COMPLEXED WITH GLCNAC-BETA-1,4-(FUC- ALPHA-1,6)- GLCNAC-BETA-1 REMARK 900 (NMR, 10 STRUCTURES) REMARK 900 RELATED ID: 1ERG RELATED DB: PDB REMARK 900 RELATED ID: 1ERH RELATED DB: PDB REMARK 900 RELATED ID: 2J8B RELATED DB: PDB REMARK 900 HIGH RESOLUTION STRUCTURE OF HUMAN CD59 REMARK 900 RELATED ID: 2UX2 RELATED DB: PDB REMARK 900 HIGH RESOLUTION STRUCTURE OF HUMAN CD59 DBREF 2UWR A 0 0 PDB 2UWR 2UWR 0 0 DBREF 2UWR A 1 77 UNP P13987 CD59_HUMAN 26 102 DBREF 2UWR A 78 78 PDB 2UWR 2UWR 78 78 SEQRES 1 A 79 MET LEU GLN CYS TYR ASN CYS PRO ASN PRO THR ALA ASP SEQRES 2 A 79 CYS LYS THR ALA VAL ASN CYS SER SER ASP PHE ASP ALA SEQRES 3 A 79 CYS LEU ILE THR LYS ALA GLY LEU GLN VAL TYR ASN LYS SEQRES 4 A 79 CYS TRP LYS PHE GLU HIS CYS ASN PHE ASN ASP VAL THR SEQRES 5 A 79 THR ARG LEU ARG GLU ASN GLU LEU THR TYR TYR CYS CYS SEQRES 6 A 79 LYS LYS ASP LEU CYS ASN PHE ASN GLU GLN LEU GLU ASN SEQRES 7 A 79 CYS FORMUL 2 HOH *68(H2 O) HELIX 1 1 LYS A 41 CYS A 45 5 5 HELIX 2 2 ASN A 46 ARG A 55 1 10 HELIX 3 3 ASN A 72 ASN A 77 1 6 SHEET 1 AA 2 GLN A 2 TYR A 4 0 SHEET 2 AA 2 ALA A 16 ASN A 18 -1 O VAL A 17 N CYS A 3 SHEET 1 AB 3 GLN A 34 TRP A 40 0 SHEET 2 AB 3 ALA A 25 ALA A 31 -1 O ALA A 25 N TRP A 40 SHEET 3 AB 3 THR A 60 CYS A 64 -1 O THR A 60 N LYS A 30 SSBOND 1 CYS A 3 CYS A 26 1555 1555 2.03 SSBOND 2 CYS A 6 CYS A 13 1555 1555 2.03 SSBOND 3 CYS A 19 CYS A 39 1555 1555 2.03 SSBOND 4 CYS A 45 CYS A 63 1555 1555 2.03 SSBOND 5 CYS A 64 CYS A 69 1555 1555 2.03 CRYST1 25.524 27.902 81.151 90.00 90.00 90.00 P 21 21 21 4 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 0.039179 0.000000 0.000000 0.00000 SCALE2 0.000000 0.035840 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012323 0.00000