HEADER IMMUNE SYSTEM 27-JUN-02 1H0T TITLE AN AFFIBODY IN COMPLEX WITH A TARGET PROTEIN: STRUCTURE AND COUPLED TITLE 2 FOLDING COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMMUNOGLOBULIN G BINDING PROTEIN A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 213-269; COMPND 5 SYNONYM: IGG BINDING PROTEIN A; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ZSPA-1 AFFIBODY; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET28A(+); SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 13 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PET28A(+) KEYWDS IMMUNE SYSTEM, PROTEIN-PROTEIN INTERACTIONS, PROTEIN ENGINEERING, KEYWDS 2 MOLECULAR RECOGNITION, NMR SPECTROSCOPY, MOLTEN GLOBULE, INDUCED KEYWDS 3 FIT, COUPLED PROTEIN FOLDING, AFFIBODY, IGG BINDING PROTEIN A EXPDTA SOLUTION NMR NUMMDL 40 AUTHOR E.WAHLBERG,C.LENDEL,M.HELGSTRAND,P.ALLARD,V.DINCBAS-RENQVIST, AUTHOR 2 A.HEDQVIST,H.BERGLUND,P.-A.NYGREN,T.HARD REVDAT 6 17-JAN-18 1H0T 1 JRNL REVDAT 5 21-DEC-16 1H0T 1 SOURCE REMARK VERSN REVDAT 4 24-FEB-09 1H0T 1 VERSN REVDAT 3 25-FEB-04 1H0T 1 ATOM REVDAT 2 20-MAR-03 1H0T 1 JRNL REVDAT 1 27-FEB-03 1H0T 0 JRNL AUTH E.WAHLBERG,C.LENDEL,M.HELGSTRAND,P.ALLARD, JRNL AUTH 2 V.DINCBAS-RENQVIST,A.HEDQVIST,H.BERGLUND,P.-A.NYGREN,T.HARD JRNL TITL AN AFFIBODY IN COMPLEX WITH A TARGET PROTEIN: STRUCTURE AND JRNL TITL 2 COUPLED FOLDING JRNL REF PROC.NATL.ACAD.SCI.USA V. 100 3185 2003 JRNL REFN ISSN 0027-8424 JRNL PMID 12594333 JRNL DOI 10.1073/PNAS.0436086100 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR_NIH REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE. REMARK 4 REMARK 4 1H0T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JUN-02. REMARK 100 THE DEPOSITION ID IS D_1290009976. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5.6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWIN-NMR, NMR-PIPE, ANSIG FOR REMARK 210 WINDOWS WINDOWS, XPLOR REMARK 210 METHOD USED : SIMULATED ANEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 40 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION AND REMARK 210 GOOD RAMACHANDRAN PLOTS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C, 15N-LABELED PROTEINS. ONE OF THE SUBUNITS REMARK 210 WAS LABELED THE OTHER SUBUNIT WAS KEPT UNLABELED. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 2 LYS B 4 42.27 -158.40 REMARK 500 3 LYS A 4 -77.54 -100.16 REMARK 500 4 LYS A 4 -38.90 -156.08 REMARK 500 4 ASN B 3 71.02 -107.03 REMARK 500 4 THR B 18 42.48 -145.07 REMARK 500 6 PHE B 5 46.94 -93.00 REMARK 500 8 LYS A 4 -74.74 -94.29 REMARK 500 9 PHE B 5 43.83 -91.19 REMARK 500 10 ASN B 3 67.89 -104.80 REMARK 500 10 THR B 18 41.78 -144.50 REMARK 500 11 PHE B 5 31.69 -98.70 REMARK 500 13 ASP A 2 -56.68 -136.62 REMARK 500 14 THR B 18 33.77 -142.82 REMARK 500 15 ASN A 23 -166.13 51.68 REMARK 500 15 LYS B 4 47.18 -91.32 REMARK 500 16 PHE B 5 53.55 -97.30 REMARK 500 17 LYS B 4 -41.85 -149.06 REMARK 500 17 PHE B 5 98.38 -58.05 REMARK 500 18 LYS A 4 -79.27 -99.74 REMARK 500 18 PHE B 5 50.77 -104.59 REMARK 500 18 THR B 18 39.11 -140.36 REMARK 500 20 PHE B 5 38.96 -97.27 REMARK 500 20 THR B 18 37.67 -140.20 REMARK 500 21 ASN B 3 58.97 -105.69 REMARK 500 22 LYS A 4 -67.66 -164.97 REMARK 500 22 PHE B 5 30.47 -99.13 REMARK 500 22 THR B 18 38.42 -140.01 REMARK 500 24 ASN B 6 -43.65 -135.39 REMARK 500 25 ASN A 3 -67.30 -99.17 REMARK 500 25 LYS A 4 -46.36 -148.00 REMARK 500 26 LYS A 4 -46.52 -135.36 REMARK 500 26 ASN B 3 48.48 -100.35 REMARK 500 26 PHE B 5 36.92 -86.36 REMARK 500 28 PHE B 5 53.44 -100.80 REMARK 500 29 PHE A 5 -41.54 -141.56 REMARK 500 29 THR B 18 35.36 -141.04 REMARK 500 30 THR B 18 37.96 -145.06 REMARK 500 31 ASN B 3 59.78 -110.99 REMARK 500 32 LYS B 4 63.89 -103.32 REMARK 500 33 ASP A 2 -168.73 -120.14 REMARK 500 33 LYS A 4 -75.24 -80.29 REMARK 500 33 ASN B 3 49.62 -109.79 REMARK 500 33 LYS B 4 86.99 55.24 REMARK 500 33 PHE B 5 42.52 -85.85 REMARK 500 34 LYS A 4 -74.19 -77.18 REMARK 500 35 ASN A 3 -62.81 -92.96 REMARK 500 35 LYS A 4 -56.65 -151.78 REMARK 500 35 ASN B 3 89.14 57.59 REMARK 500 37 ASN A 23 -165.87 -115.52 REMARK 500 38 LYS A 4 -61.78 -144.12 REMARK 500 REMARK 500 THIS ENTRY HAS 52 RAMACHANDRAN OUTLIERS. 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 ARG A 27 0.21 SIDE CHAIN REMARK 500 1 ARG B 14 0.30 SIDE CHAIN REMARK 500 2 ARG A 27 0.12 SIDE CHAIN REMARK 500 2 ARG B 14 0.31 SIDE CHAIN REMARK 500 3 ARG A 27 0.27 SIDE CHAIN REMARK 500 3 ARG B 14 0.32 SIDE CHAIN REMARK 500 4 ARG A 27 0.26 SIDE CHAIN REMARK 500 4 ARG B 14 0.30 SIDE CHAIN REMARK 500 5 ARG A 27 0.27 SIDE CHAIN REMARK 500 5 ARG B 14 0.31 SIDE CHAIN REMARK 500 6 ARG A 27 0.31 SIDE CHAIN REMARK 500 6 ARG B 14 0.32 SIDE CHAIN REMARK 500 7 ARG A 27 0.20 SIDE CHAIN REMARK 500 7 ARG B 14 0.32 SIDE CHAIN REMARK 500 8 ARG A 27 0.25 SIDE CHAIN REMARK 500 8 ARG B 14 0.31 SIDE CHAIN REMARK 500 9 ARG A 27 0.22 SIDE CHAIN REMARK 500 9 ARG B 14 0.31 SIDE CHAIN REMARK 500 10 ARG A 27 0.27 SIDE CHAIN REMARK 500 10 ARG B 14 0.31 SIDE CHAIN REMARK 500 11 ARG A 27 0.21 SIDE CHAIN REMARK 500 11 ARG B 14 0.31 SIDE CHAIN REMARK 500 12 ARG A 27 0.17 SIDE CHAIN REMARK 500 12 ARG B 14 0.16 SIDE CHAIN REMARK 500 13 ARG A 27 0.13 SIDE CHAIN REMARK 500 13 ARG B 14 0.31 SIDE CHAIN REMARK 500 14 ARG A 27 0.21 SIDE CHAIN REMARK 500 14 ARG B 14 0.31 SIDE CHAIN REMARK 500 15 ARG A 27 0.21 SIDE CHAIN REMARK 500 15 ARG B 14 0.29 SIDE CHAIN REMARK 500 16 ARG A 27 0.20 SIDE CHAIN REMARK 500 16 ARG B 14 0.31 SIDE CHAIN REMARK 500 17 ARG A 27 0.10 SIDE CHAIN REMARK 500 17 ARG B 14 0.32 SIDE CHAIN REMARK 500 18 ARG A 27 0.15 SIDE CHAIN REMARK 500 18 ARG B 14 0.31 SIDE CHAIN REMARK 500 19 ARG A 27 0.25 SIDE CHAIN REMARK 500 19 ARG B 14 0.32 SIDE CHAIN REMARK 500 20 ARG A 27 0.21 SIDE CHAIN REMARK 500 20 ARG B 14 0.30 SIDE CHAIN REMARK 500 21 ARG A 27 0.23 SIDE CHAIN REMARK 500 21 ARG B 14 0.31 SIDE CHAIN REMARK 500 22 ARG A 27 0.23 SIDE CHAIN REMARK 500 22 ARG B 14 0.31 SIDE CHAIN REMARK 500 23 ARG A 27 0.22 SIDE CHAIN REMARK 500 23 ARG B 14 0.31 SIDE CHAIN REMARK 500 24 ARG B 14 0.31 SIDE CHAIN REMARK 500 25 ARG A 27 0.22 SIDE CHAIN REMARK 500 25 ARG B 14 0.31 SIDE CHAIN REMARK 500 26 ARG A 27 0.20 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 79 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DEE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE AT 2.7A RESOLUTION OF A COMPLEX BETWEEN A REMARK 900 STAPHYLOCOCCUS AUREUS DOMAIN AND A FAB FRAGMENT OF A HUMAN IGM REMARK 900 ANTIBODY DBREF 1H0T A 1 1 PDB 1H0T 1H0T 1 1 DBREF 1H0T A 2 58 UNP P02976 SPA1_STAAU 213 269 DBREF 1H0T B 1 58 PDB 1H0T 1H0T 1 58 SEQRES 1 A 58 VAL ASP ASN LYS PHE ASN LYS GLU GLN GLN ASN ALA PHE SEQRES 2 A 58 TYR GLU ILE LEU HIS LEU PRO ASN LEU ASN GLU GLU GLN SEQRES 3 A 58 ARG ASN ALA PHE ILE GLN SER LEU LYS ASP ASP PRO SER SEQRES 4 A 58 GLN SER ALA ASN LEU LEU ALA GLU ALA LYS LYS LEU ASN SEQRES 5 A 58 ASP ALA GLN ALA PRO LYS SEQRES 1 B 58 VAL ASP ASN LYS PHE ASN LYS GLU LEU SER VAL ALA GLY SEQRES 2 B 58 ARG GLU ILE VAL THR LEU PRO ASN LEU ASN ASP PRO GLN SEQRES 3 B 58 LYS LYS ALA PHE ILE PHE SER LEU TRP ASP ASP PRO SER SEQRES 4 B 58 GLN SER ALA ASN LEU LEU ALA GLU ALA LYS LYS LEU ASN SEQRES 5 B 58 ASP ALA GLN ALA PRO LYS HELIX 1 1 LYS A 4 HIS A 18 1 15 HELIX 2 2 GLU A 24 ASP A 36 1 13 HELIX 3 3 SER A 41 ALA A 54 1 14 HELIX 4 4 ASN B 6 THR B 18 1 13 HELIX 5 5 ASP B 24 ASP B 36 1 13 HELIX 6 6 PRO B 38 GLN B 40 5 3 HELIX 7 7 SER B 41 GLN B 55 1 15 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