HEADER IMMUNE SYSTEM/INHIBITOR 07-DEC-16 5U66 TITLE MODIFIED SINGLE HELIX FROM THE B-DOMAIN OF PROTEIN A BOUND TO IGG1 FC COMPND MOL_ID: 1; COMPND 2 MOLECULE: STAPLED PEPTIDE FROM DOMAIN B OF PROTEIN A; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: IGG1 FC DERIVED FROM CD4-FC FUSION; COMPND 7 CHAIN: A; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 4 ORGANISM_TAXID: 1280; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: DKFZP686C11235; SOURCE 10 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 10029 KEYWDS IGG1 FC, STAPLE PEPTIDE, PROTEIN A, B-DOMAIN, IMMUNE SYSTEM-INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.H.ULTSCH,C.EIGENBROT REVDAT 6 15-NOV-23 5U66 1 LINK REVDAT 5 04-OCT-23 5U66 1 REMARK REVDAT 4 16-DEC-20 5U66 1 REMARK HETSYN LINK ATOM REVDAT 3 29-JUL-20 5U66 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 08-NOV-17 5U66 1 JRNL REVDAT 1 24-MAY-17 5U66 0 JRNL AUTH M.ULTSCH,A.BRAISTED,H.R.MAUN,C.EIGENBROT JRNL TITL 3-2-1: STRUCTURAL INSIGHTS FROM STEPWISE SHRINKAGE OF A JRNL TITL 2 THREE-HELIX FC-BINDING DOMAIN TO A SINGLE HELIX. JRNL REF PROTEIN ENG. DES. SEL. V. 30 619 2017 JRNL REFN ESSN 1741-0134 JRNL PMID 28475752 JRNL DOI 10.1093/PROTEIN/GZX029 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 3 NUMBER OF REFLECTIONS : 26544 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2942 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1645 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 79.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.1780 REMARK 3 BIN FREE R VALUE SET COUNT : 208 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1802 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 224 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.83000 REMARK 3 B22 (A**2) : 0.36000 REMARK 3 B33 (A**2) : 0.47000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.150 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.116 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.075 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.143 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1942 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1800 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2637 ; 1.964 ; 2.013 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4188 ; 3.847 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 215 ; 6.722 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 85 ;35.350 ;24.588 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 313 ;13.807 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;19.009 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 304 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2050 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 414 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 881 ; 5.954 ; 2.136 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 880 ; 5.950 ; 2.134 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1088 ; 7.425 ; 3.214 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1089 ; 7.424 ; 3.216 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1061 ; 6.967 ; 2.819 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1062 ; 6.968 ; 2.821 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1549 ; 8.310 ; 4.057 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2027 ; 8.697 ;28.479 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2028 ; 8.695 ;28.501 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 3740 ; 4.661 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 154 ;31.501 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3759 ;25.131 ; 5.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 501 A 507 REMARK 3 ORIGIN FOR THE GROUP (A): 2.3485 43.8933 32.4682 REMARK 3 T TENSOR REMARK 3 T11: 0.2431 T22: 0.0624 REMARK 3 T33: 0.2250 T12: 0.0696 REMARK 3 T13: 0.1062 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 3.2657 L22: 5.9602 REMARK 3 L33: 3.4817 L12: 4.3122 REMARK 3 L13: 2.1148 L23: 2.1006 REMARK 3 S TENSOR REMARK 3 S11: -0.0919 S12: -0.1483 S13: 0.5122 REMARK 3 S21: -0.0795 S22: -0.2043 S23: 0.7413 REMARK 3 S31: 0.1009 S32: 0.0242 S33: 0.2962 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 5000 B 5014 REMARK 3 ORIGIN FOR THE GROUP (A): 24.7516 67.4886 39.4259 REMARK 3 T TENSOR REMARK 3 T11: 0.1421 T22: 0.1300 REMARK 3 T33: 0.0677 T12: -0.0024 REMARK 3 T13: -0.0023 T23: -0.0007 REMARK 3 L TENSOR REMARK 3 L11: 0.2299 L22: 0.1451 REMARK 3 L33: 1.0655 L12: -0.0603 REMARK 3 L13: -0.4587 L23: 0.2579 REMARK 3 S TENSOR REMARK 3 S11: 0.0170 S12: -0.0194 S13: 0.0034 REMARK 3 S21: -0.0076 S22: 0.0127 S23: -0.0076 REMARK 3 S31: -0.0364 S32: 0.0405 S33: -0.0297 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 237 A 443 REMARK 3 ORIGIN FOR THE GROUP (A): 9.2791 56.3909 33.4242 REMARK 3 T TENSOR REMARK 3 T11: 0.1397 T22: 0.1262 REMARK 3 T33: 0.0689 T12: -0.0007 REMARK 3 T13: 0.0053 T23: -0.0021 REMARK 3 L TENSOR REMARK 3 L11: 0.0625 L22: 0.0145 REMARK 3 L33: 0.2059 L12: 0.0255 REMARK 3 L13: 0.0515 L23: 0.0442 REMARK 3 S TENSOR REMARK 3 S11: -0.0015 S12: -0.0103 S13: 0.0108 REMARK 3 S21: 0.0039 S22: -0.0102 S23: -0.0005 REMARK 3 S31: 0.0448 S32: -0.0027 S33: 0.0117 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5U66 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1000225345. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-97; 19-APR-97 REMARK 200 TEMPERATURE (KELVIN) : 80; 80 REMARK 200 PH : 7.0-7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; N REMARK 200 RADIATION SOURCE : SSRL; ROTATING ANODE REMARK 200 BEAMLINE : BL7-1; NULL REMARK 200 X-RAY GENERATOR MODEL : NULL; RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98; 1.0 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD; MARMOSAIC REMARK 200 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29486 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 41.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 29.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.22900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 5U52 REMARK 200 REMARK 200 REMARK: BLOCKS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 4000, 0.1M HEPES PH 7.2, REMARK 280 5MG/ML PROTEIN CONCENTRATION., VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.96350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.96350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 24.58250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.40600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 24.58250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.40600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 45.96350 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 24.58250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 63.40600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 45.96350 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 24.58250 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 63.40600 REMARK 290 SMTRY3 8 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 38.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, A, C 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 45.96350 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B5119 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 STAPLED PEPTIDE DERIVED FROM THE B-DOMAIN OF PROTEIN A BOUND TO REMARK 400 IGG1 FC REMARK 400 REMARK 400 THE STAPLED PEPTIDE FROM DOMAIN B OF PROTEIN A IS OLIGOPEPTIDE, A REMARK 400 MEMBER OF INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: STAPLED PEPTIDE FROM DOMAIN B OF PROTEIN A REMARK 400 CHAIN: B REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: single helix from the B-domain of protein A bound to REMARK 400 IgG1 Fc REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O HOH A 710 O HOH A 781 2.15 REMARK 500 O HOH B 5106 O HOH B 5110 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 85J B5004 C GLN B5005 N 0.161 REMARK 500 TYR B5010 C 85G B5011 N 0.218 REMARK 500 85G B5011 C ALA B5012 N 0.145 REMARK 500 GLU A 430 CD GLU A 430 OE2 0.083 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 ARG B5007 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 344 NE - CZ - NH1 ANGL. DEV. = -3.1 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 SER A 298 -0.18 66.01 REMARK 500 ALA A 327 2.54 -63.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 797 DISTANCE = 5.81 ANGSTROMS REMARK 525 HOH A 798 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A 799 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH A 800 DISTANCE = 6.71 ANGSTROMS DBREF 5U66 B 5000 5014 PDB 5U66 5U66 5000 5014 DBREF 5U66 A 237 443 UNP Q6MZV7 Q6MZV7_HUMAN 263 469 SEQRES 1 B 15 SIN PHE ASN MET 85J GLN GLN ARG ARG PHE TYR 85G ALA SEQRES 2 B 15 LEU HIS SEQRES 1 A 207 GLY PRO SER VAL PHE LEU PHE PRO PRO LYS PRO LYS ASP SEQRES 2 A 207 THR LEU MET ILE SER ARG THR PRO GLU VAL THR CYS VAL SEQRES 3 A 207 VAL VAL ASP VAL SER HIS GLU ASP PRO GLU VAL LYS PHE SEQRES 4 A 207 ASN TRP TYR VAL ASP GLY VAL GLU VAL HIS ASN ALA LYS SEQRES 5 A 207 THR LYS PRO ARG GLU GLU GLN TYR ASN SER THR TYR ARG SEQRES 6 A 207 VAL VAL SER VAL LEU THR VAL LEU HIS GLN ASP TRP LEU SEQRES 7 A 207 ASN GLY LYS GLU TYR LYS CYS LYS VAL SER ASN LYS ALA SEQRES 8 A 207 LEU PRO ALA PRO ILE GLU LYS THR ILE SER LYS ALA LYS SEQRES 9 A 207 GLY GLN PRO ARG GLU PRO GLN VAL TYR THR LEU PRO PRO SEQRES 10 A 207 SER ARG GLU GLU MET THR LYS ASN GLN VAL SER LEU THR SEQRES 11 A 207 CYS LEU VAL LYS GLY PHE TYR PRO SER ASP ILE ALA VAL SEQRES 12 A 207 GLU TRP GLU SER ASN GLY GLN PRO GLU ASN ASN TYR LYS SEQRES 13 A 207 THR THR PRO PRO VAL LEU ASP SER ASP GLY SER PHE PHE SEQRES 14 A 207 LEU TYR SER LYS LEU THR VAL ASP LYS SER ARG TRP GLN SEQRES 15 A 207 GLN GLY ASN VAL PHE SER CYS SER VAL MET HIS GLU ALA SEQRES 16 A 207 LEU HIS ASN HIS TYR THR GLN LYS SER LEU SER LEU HET SIN B5000 7 HET 85J B5004 12 HET 85G B5011 11 HET NAG C 1 14 HET NAG C 2 14 HET BMA C 3 11 HET MAN C 4 11 HET NAG C 5 14 HET GAL C 6 11 HET MAN C 7 11 HETNAM SIN SUCCINIC ACID HETNAM 85J N-PROPYL-L-GLUTAMINE HETNAM 85G N-ETHYL-L-GLUTAMINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE FORMUL 1 SIN C4 H6 O4 FORMUL 1 85J C8 H16 N2 O3 FORMUL 1 85G C7 H14 N2 O3 FORMUL 3 NAG 3(C8 H15 N O6) FORMUL 3 BMA C6 H12 O6 FORMUL 3 MAN 2(C6 H12 O6) FORMUL 3 GAL C6 H12 O6 FORMUL 4 HOH *224(H2 O) HELIX 1 AA1 ASN B 5002 ALA B 5012 1 11 HELIX 2 AA2 LYS A 246 MET A 252 1 7 HELIX 3 AA3 LEU A 309 ASN A 315 1 7 HELIX 4 AA4 SER A 354 LYS A 360 5 7 HELIX 5 AA5 LYS A 414 GLN A 419 1 6 HELIX 6 AA6 LEU A 432 ASN A 434 5 3 SHEET 1 AA1 4 SER A 239 PHE A 243 0 SHEET 2 AA1 4 GLU A 258 SER A 267 -1 O THR A 260 N PHE A 243 SHEET 3 AA1 4 THR A 299 THR A 307 -1 O TYR A 300 N VAL A 266 SHEET 4 AA1 4 LYS A 288 THR A 289 -1 N LYS A 288 O VAL A 305 SHEET 1 AA2 4 SER A 239 PHE A 243 0 SHEET 2 AA2 4 GLU A 258 SER A 267 -1 O THR A 260 N PHE A 243 SHEET 3 AA2 4 THR A 299 THR A 307 -1 O TYR A 300 N VAL A 266 SHEET 4 AA2 4 GLU A 293 GLU A 294 -1 N GLU A 293 O ARG A 301 SHEET 1 AA3 4 VAL A 282 VAL A 284 0 SHEET 2 AA3 4 LYS A 274 VAL A 279 -1 N VAL A 279 O VAL A 282 SHEET 3 AA3 4 TYR A 319 SER A 324 -1 O LYS A 322 N ASN A 276 SHEET 4 AA3 4 ILE A 332 ILE A 336 -1 O ILE A 336 N TYR A 319 SHEET 1 AA4 4 GLN A 347 LEU A 351 0 SHEET 2 AA4 4 GLN A 362 PHE A 372 -1 O THR A 366 N LEU A 351 SHEET 3 AA4 4 PHE A 404 ASP A 413 -1 O LEU A 410 N LEU A 365 SHEET 4 AA4 4 TYR A 391 THR A 393 -1 N LYS A 392 O LYS A 409 SHEET 1 AA5 4 GLN A 347 LEU A 351 0 SHEET 2 AA5 4 GLN A 362 PHE A 372 -1 O THR A 366 N LEU A 351 SHEET 3 AA5 4 PHE A 404 ASP A 413 -1 O LEU A 410 N LEU A 365 SHEET 4 AA5 4 VAL A 397 LEU A 398 -1 N VAL A 397 O PHE A 405 SHEET 1 AA6 4 GLN A 386 GLU A 388 0 SHEET 2 AA6 4 ALA A 378 SER A 383 -1 N TRP A 381 O GLU A 388 SHEET 3 AA6 4 PHE A 423 MET A 428 -1 O SER A 426 N GLU A 380 SHEET 4 AA6 4 TYR A 436 LEU A 441 -1 O LEU A 441 N PHE A 423 SSBOND 1 CYS A 261 CYS A 321 1555 1555 2.03 SSBOND 2 CYS A 367 CYS A 425 1555 1555 2.05 LINK C1 SIN B5000 N PHE B5001 1555 1555 1.34 LINK C MET B5003 N 85J B5004 1555 1555 1.40 LINK C 85J B5004 N GLN B5005 1555 1555 1.50 LINK CI 85J B5004 CK 85G B5011 1555 1555 1.51 LINK C TYR B5010 N 85G B5011 1555 1555 1.55 LINK C 85G B5011 N ALA B5012 1555 1555 1.48 LINK ND2 ASN A 297 C1 NAG C 1 1555 1555 1.46 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.45 LINK O4 NAG C 2 C1 BMA C 3 1555 1555 1.44 LINK O6 BMA C 3 C1 MAN C 4 1555 1555 1.45 LINK O3 BMA C 3 C1 MAN C 7 1555 1555 1.45 LINK O2 MAN C 4 C1 NAG C 5 1555 1555 1.46 LINK O4 NAG C 5 C1 GAL C 6 1555 1555 1.46 CISPEP 1 TYR A 373 PRO A 374 0 -3.10 CRYST1 49.165 126.812 91.927 90.00 90.00 90.00 C 2 2 21 8 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 0.020340 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007886 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010878 0.00000 HETATM 1 C1 SIN B5000 13.387 69.077 45.171 1.00 32.53 C ANISOU 1 C1 SIN B5000 3640 5181 3537 -323 1035 106 C HETATM 2 O1 SIN B5000 13.222 67.853 45.331 1.00 47.17 O ANISOU 2 O1 SIN B5000 4098 6132 7690 -1131 577 2033 O HETATM 3 C2 SIN B5000 12.181 69.912 44.763 1.00 31.58 C ANISOU 3 C2 SIN B5000 4370 5041 2588 -173 596 971 C HETATM 4 C3 SIN B5000 10.810 69.412 45.273 1.00 36.82 C ANISOU 4 C3 SIN B5000 4716 5736 3536 -340 1271 835 C HETATM 5 C4 SIN B5000 10.394 68.068 44.731 1.00 45.39 C ANISOU 5 C4 SIN B5000 5252 6746 5246 -375 653 162 C HETATM 6 O3 SIN B5000 10.774 67.715 43.571 1.00 45.52 O ANISOU 6 O3 SIN B5000 7989 5325 3981 634 -1952 -511 O HETATM 7 O4 SIN B5000 9.704 67.348 45.523 1.00 52.83 O ANISOU 7 O4 SIN B5000 7285 7762 5024 -581 -1837 3013 O