HEADER DE NOVO PROTEIN 14-JAN-22 7TIP TITLE BACKBONE-MODIFIED VARIANT OF THE B DOMAIN OF STAPHYLOCOCCAL PROTEIN A: TITLE 2 BETA3-RESIDUES IN HELIX 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMMUNOGLOBULIN G BINDING PROTEIN A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: B DOMAIN, RESIDUES 185-242; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 4 ORGANISM_TAXID: 1280 KEYWDS DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR J.R.SANTHOUSE,J.M.G.LEUNG,L.T.CHONG,W.S.HORNE REVDAT 2 15-NOV-23 7TIP 1 ATOM REVDAT 1 21-DEC-22 7TIP 0 JRNL AUTH J.R.SANTHOUSE,J.M.G.LEUNG,L.T.CHONG,W.S.HORNE JRNL TITL IMPLICATIONS OF THE UNFOLDED STATE IN THE FOLDING ENERGETICS JRNL TITL 2 OF HETEROGENEOUS-BACKBONE PROTEIN MIMETICS. JRNL REF CHEM SCI V. 13 11798 2022 JRNL REFN ISSN 2041-6520 JRNL PMID 36320921 JRNL DOI 10.1039/D2SC04427G REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7TIP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-22. REMARK 100 THE DEPOSITION ID IS D_1000262370. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.5 MM B DOMAIN OF REMARK 210 STAPHYLOCOCCAL PROTEIN A: BETA3- REMARK 210 E25, BETA3-N27, BETA3-Q32, BETA3- REMARK 210 K35, 0.2 MM DSS, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 2D 1H-1H COSY; 2D DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, NMRFAM-SPARKY, ARIA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 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 1 ASP A 2 -38.20 -167.44 REMARK 500 1 ASN A 3 38.37 -82.65 REMARK 500 1 LYS A 4 -64.53 -123.22 REMARK 500 1 PRO A 38 20.59 -74.63 REMARK 500 2 LYS A 4 -72.94 71.71 REMARK 500 2 ASN A 6 -75.73 -65.71 REMARK 500 2 LYS A 7 -47.88 -156.68 REMARK 500 3 ASN A 3 122.08 -177.18 REMARK 500 3 PHE A 5 -74.19 -143.91 REMARK 500 3 LEU A 19 105.84 -55.42 REMARK 500 3 PRO A 38 97.94 -63.79 REMARK 500 3 SER A 39 -59.20 -158.13 REMARK 500 3 GLN A 40 49.63 -84.54 REMARK 500 3 PRO A 57 76.13 -69.37 REMARK 500 4 ASN A 3 43.27 -84.32 REMARK 500 4 ASN A 6 -90.03 -75.71 REMARK 500 4 LYS A 7 -58.68 -140.47 REMARK 500 4 ASP A 37 107.73 -165.06 REMARK 500 4 PRO A 38 37.06 -81.77 REMARK 500 5 PHE A 5 -69.00 -134.78 REMARK 500 5 ASP A 37 110.43 -160.57 REMARK 500 5 PRO A 38 35.48 -94.51 REMARK 500 5 GLN A 40 41.43 -94.66 REMARK 500 5 PRO A 57 -163.59 -74.88 REMARK 500 6 ASP A 2 -63.77 -103.13 REMARK 500 6 LYS A 7 -54.48 -169.58 REMARK 500 6 ASP A 37 102.14 -162.47 REMARK 500 6 GLN A 40 37.12 -82.14 REMARK 500 7 ASN A 3 -76.58 -81.77 REMARK 500 7 PHE A 5 -162.94 -113.55 REMARK 500 7 ASN A 6 -79.64 -65.03 REMARK 500 7 LYS A 7 -49.98 -156.92 REMARK 500 8 ASP A 2 -59.83 -126.76 REMARK 500 8 PHE A 5 -158.44 -147.98 REMARK 500 8 ASP A 37 112.40 -170.44 REMARK 500 8 SER A 39 -58.80 -137.45 REMARK 500 8 GLN A 40 39.55 -81.87 REMARK 500 9 ASP A 2 21.24 -161.73 REMARK 500 9 ASN A 6 -72.77 -68.76 REMARK 500 9 LYS A 7 -55.13 -159.90 REMARK 500 9 LEU A 19 109.73 -56.18 REMARK 500 10 ASP A 2 -80.24 -95.70 REMARK 500 10 LEU A 19 109.41 -55.39 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 B3E A 25 GLN A 26 1 141.44 REMARK 500 B3X A 28 ALA A 29 1 144.71 REMARK 500 B3Q A 32 SER A 33 1 147.36 REMARK 500 B3K A 35 ASP A 36 1 144.57 REMARK 500 B3E A 25 GLN A 26 2 141.10 REMARK 500 B3X A 28 ALA A 29 2 142.91 REMARK 500 B3Q A 32 SER A 33 2 143.33 REMARK 500 B3K A 35 ASP A 36 2 140.45 REMARK 500 B3E A 25 GLN A 26 3 140.22 REMARK 500 B3X A 28 ALA A 29 3 145.51 REMARK 500 B3Q A 32 SER A 33 3 143.50 REMARK 500 B3K A 35 ASP A 36 3 140.78 REMARK 500 B3E A 25 GLN A 26 4 140.36 REMARK 500 B3X A 28 ALA A 29 4 144.13 REMARK 500 B3Q A 32 SER A 33 4 145.17 REMARK 500 B3K A 35 ASP A 36 4 141.66 REMARK 500 B3E A 25 GLN A 26 5 141.94 REMARK 500 B3X A 28 ALA A 29 5 147.46 REMARK 500 B3Q A 32 SER A 33 5 143.90 REMARK 500 B3K A 35 ASP A 36 5 140.97 REMARK 500 B3E A 25 GLN A 26 6 139.11 REMARK 500 B3X A 28 ALA A 29 6 143.38 REMARK 500 B3Q A 32 SER A 33 6 144.49 REMARK 500 B3K A 35 ASP A 36 6 142.47 REMARK 500 B3E A 25 GLN A 26 7 141.66 REMARK 500 B3X A 28 ALA A 29 7 144.12 REMARK 500 B3Q A 32 SER A 33 7 147.24 REMARK 500 B3K A 35 ASP A 36 7 140.83 REMARK 500 B3E A 25 GLN A 26 8 143.51 REMARK 500 B3X A 28 ALA A 29 8 145.45 REMARK 500 B3Q A 32 SER A 33 8 144.46 REMARK 500 B3K A 35 ASP A 36 8 142.03 REMARK 500 B3E A 25 GLN A 26 9 143.73 REMARK 500 B3X A 28 ALA A 29 9 143.83 REMARK 500 B3Q A 32 SER A 33 9 144.99 REMARK 500 B3K A 35 ASP A 36 9 145.66 REMARK 500 B3E A 25 GLN A 26 10 141.40 REMARK 500 B3X A 28 ALA A 29 10 145.67 REMARK 500 B3Q A 32 SER A 33 10 144.17 REMARK 500 B3K A 35 ASP A 36 10 143.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 1 B3E A 25 -17.19 REMARK 500 1 B3X A 28 -18.39 REMARK 500 1 B3Q A 32 -18.06 REMARK 500 1 B3K A 35 -17.52 REMARK 500 2 B3E A 25 -17.28 REMARK 500 2 B3X A 28 -19.00 REMARK 500 2 B3Q A 32 -18.71 REMARK 500 2 B3K A 35 -17.29 REMARK 500 3 B3E A 25 -18.33 REMARK 500 3 B3X A 28 -17.92 REMARK 500 3 B3Q A 32 -18.07 REMARK 500 3 B3K A 35 -18.30 REMARK 500 4 B3E A 25 -17.58 REMARK 500 4 B3X A 28 -18.29 REMARK 500 4 B3Q A 32 -18.88 REMARK 500 4 B3K A 35 -15.96 REMARK 500 5 B3E A 25 -17.97 REMARK 500 5 B3X A 28 -18.72 REMARK 500 5 B3Q A 32 -17.35 REMARK 500 5 B3K A 35 -19.04 REMARK 500 6 B3E A 25 -17.53 REMARK 500 6 B3X A 28 -18.38 REMARK 500 6 B3Q A 32 -17.94 REMARK 500 6 B3K A 35 -18.05 REMARK 500 7 B3E A 25 -18.08 REMARK 500 7 B3X A 28 -19.07 REMARK 500 7 B3Q A 32 -18.06 REMARK 500 7 B3K A 35 -16.85 REMARK 500 8 B3E A 25 -18.14 REMARK 500 8 B3X A 28 -18.96 REMARK 500 8 B3Q A 32 -18.12 REMARK 500 8 B3K A 35 -17.88 REMARK 500 9 B3E A 25 -16.99 REMARK 500 9 B3X A 28 -18.21 REMARK 500 9 B3Q A 32 -18.63 REMARK 500 9 B3K A 35 -18.44 REMARK 500 10 B3E A 25 -17.06 REMARK 500 10 B3X A 28 -18.00 REMARK 500 10 B3Q A 32 -18.04 REMARK 500 10 B3K A 35 -18.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30981 RELATED DB: BMRB REMARK 900 BACKBONE-MODIFIED VARIANT OF THE B DOMAIN OF STAPHYLOCOCCAL PROTEIN REMARK 900 A: BETA3-RESIDUES IN HELIX 2 REMARK 900 RELATED ID: 7TIO RELATED DB: PDB REMARK 900 RELATED ID: 7TIQ RELATED DB: PDB REMARK 900 RELATED ID: 7TIR RELATED DB: PDB REMARK 900 RELATED ID: 7TIS RELATED DB: PDB DBREF 7TIP A 1 58 UNP Q2UW31 Q2UW31_STAAU 185 242 SEQADV 7TIP ALA A 29 UNP Q2UW31 GLY 213 ENGINEERED MUTATION SEQADV 7TIP B3Q A 32 UNP Q2UW31 GLN 216 ENGINEERED MUTATION SEQADV 7TIP NH2 A 59 UNP Q2UW31 AMIDATION SEQRES 1 A 59 ALA ASP ASN LYS PHE ASN LYS GLU GLN GLN ASN ALA PHE SEQRES 2 A 59 TYR GLU ILE LEU HIS LEU PRO ASN LEU ASN GLU B3E GLN SEQRES 3 A 59 ARG B3X ALA PHE ILE B3Q SER LEU B3K ASP ASP PRO SER SEQRES 4 A 59 GLN SER ALA ASN LEU LEU ALA GLU ALA LYS LYS LEU ASN SEQRES 5 A 59 ASP ALA GLN ALA PRO LYS NH2 MODRES 7TIP B3E A 25 GLU MODIFIED RESIDUE MODRES 7TIP B3X A 28 ASN MODIFIED RESIDUE MODRES 7TIP B3K A 35 LYS MODIFIED RESIDUE HET B3E A 25 18 HET B3X A 28 17 HET B3Q A 32 20 HET B3K A 35 25 HET NH2 A 59 3 HETNAM B3E (3S)-3-AMINOHEXANEDIOIC ACID HETNAM B3X (3S)-3,5-DIAMINO-5-OXOPENTANOIC ACID HETNAM B3Q (3S)-3,6-DIAMINO-6-OXOHEXANOIC ACID HETNAM B3K (3S)-3,7-DIAMINOHEPTANOIC ACID HETNAM NH2 AMINO GROUP HETSYN B3Q (S)-BETA-3-HOMOGLUTAMINE FORMUL 1 B3E C6 H11 N O4 FORMUL 1 B3X C5 H10 N2 O3 FORMUL 1 B3Q C6 H12 N2 O3 FORMUL 1 B3K C7 H16 N2 O2 FORMUL 1 NH2 H2 N HELIX 1 AA1 ASN A 6 LEU A 19 1 14 HELIX 2 AA2 ASN A 23 ASP A 37 1 15 HELIX 3 AA3 GLN A 40 GLN A 55 1 16 LINK C GLU A 24 N B3E A 25 1555 1555 1.33 LINK C B3E A 25 N GLN A 26 1555 1555 1.33 LINK C ARG A 27 N B3X A 28 1555 1555 1.32 LINK C B3X A 28 N ALA A 29 1555 1555 1.33 LINK C ILE A 31 N B3Q A 32 1555 1555 1.32 LINK C B3Q A 32 N SER A 33 1555 1555 1.33 LINK C LEU A 34 N B3K A 35 1555 1555 1.33 LINK C B3K A 35 N ASP A 36 1555 1555 1.33 LINK C LYS A 58 N NH2 A 59 1555 1555 1.32 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