HEADER DE NOVO PROTEIN 29-JUN-22 8DIJ TITLE NMR STRUCTURE OF STREPTOCOCCAL PROTEIN GB1 BACKBONE MODIFIED VARIANT: TITLE 2 BETA-ACPC24, BETA-3-LYS28, BETA-3-LYS31, BETA-ACPC35 COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMMUNOGLOBULIN G-BINDING PROTEIN G; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: IGG-BINDING PROTEIN G; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: STREPTOCOCCUS; SOURCE 4 ORGANISM_TAXID: 1301 KEYWDS SYNTHETIC PROTEIN, UNNATURAL BACKBONE, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR S.R.RAO,Z.E.REINERT REVDAT 3 15-NOV-23 8DIJ 1 ATOM REVDAT 2 19-JUL-23 8DIJ 1 JRNL REVDAT 1 23-NOV-22 8DIJ 0 JRNL AUTH S.R.RAO,T.W.HARMON,S.L.HEATH,J.A.WOLFE,J.R.SANTHOUSE, JRNL AUTH 2 G.L.O'BRIEN,A.N.DISTEFANO,Z.E.REINERT,W.S.HORNE JRNL TITL CHEMICAL SHIFTS OF ARTIFICIAL MONOMERS USED TO CONSTRUCT JRNL TITL 2 HETEROGENEOUS-BACKBONE PROTEIN MIMETICS IN RANDOM COIL AND JRNL TITL 3 FOLDED STATES. JRNL REF PEPT SCI (HOBOKEN) V. 115 2023 JRNL REFN ISSN 2475-8817 JRNL PMID 37397503 JRNL DOI 10.1002/PEP2.24297 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 8DIJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-22. REMARK 100 THE DEPOSITION ID IS D_1000264744. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 40 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.65 MM STREPTOCOCCAL PROTEIN REMARK 210 GB1 BACKBONE MODIFIED VARIANT: REMARK 210 BETA-ACPC24, BETA-3-LYS28, BETA- REMARK 210 3-LYS31, BETA-ACPC35, 20 MM REMARK 210 SODIUM PHOSPHATE, 0.1 MM DSS, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 2D 1H-1H 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 ASN A 8 63.90 -115.73 REMARK 500 2 ASN A 8 65.18 -113.83 REMARK 500 3 ASN A 8 64.76 -103.62 REMARK 500 4 ASN A 8 63.99 -106.80 REMARK 500 5 ASN A 8 61.72 -109.66 REMARK 500 6 ASN A 8 58.04 -116.68 REMARK 500 7 ASN A 8 71.66 -118.28 REMARK 500 8 ASN A 8 62.21 -117.33 REMARK 500 9 ASN A 8 56.18 -109.64 REMARK 500 9 THR A 11 -60.43 -92.02 REMARK 500 10 ASN A 8 62.55 -116.24 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 ALA A 23 XCP A 24 1 143.39 REMARK 500 B3K A 28 VAL A 29 1 146.44 REMARK 500 B3K A 31 GLN A 32 1 148.65 REMARK 500 ALA A 34 XCP A 35 1 141.41 REMARK 500 ALA A 23 XCP A 24 2 143.93 REMARK 500 B3K A 28 VAL A 29 2 147.20 REMARK 500 B3K A 31 GLN A 32 2 149.84 REMARK 500 ALA A 34 XCP A 35 2 142.58 REMARK 500 ALA A 23 XCP A 24 3 142.55 REMARK 500 B3K A 28 VAL A 29 3 143.39 REMARK 500 B3K A 31 GLN A 32 3 147.03 REMARK 500 ALA A 34 XCP A 35 3 141.19 REMARK 500 ALA A 23 XCP A 24 4 141.06 REMARK 500 B3K A 28 VAL A 29 4 143.99 REMARK 500 B3K A 31 GLN A 32 4 148.97 REMARK 500 ALA A 34 XCP A 35 4 142.33 REMARK 500 ALA A 23 XCP A 24 5 141.81 REMARK 500 B3K A 28 VAL A 29 5 143.37 REMARK 500 B3K A 31 GLN A 32 5 145.44 REMARK 500 ALA A 34 XCP A 35 5 142.12 REMARK 500 ALA A 23 XCP A 24 6 142.68 REMARK 500 B3K A 28 VAL A 29 6 144.41 REMARK 500 B3K A 31 GLN A 32 6 146.48 REMARK 500 ALA A 34 XCP A 35 6 141.53 REMARK 500 ALA A 23 XCP A 24 7 142.22 REMARK 500 B3K A 28 VAL A 29 7 141.78 REMARK 500 ALA A 34 XCP A 35 7 141.76 REMARK 500 ALA A 23 XCP A 24 8 141.66 REMARK 500 B3K A 28 VAL A 29 8 145.99 REMARK 500 B3K A 31 GLN A 32 8 145.69 REMARK 500 ALA A 34 XCP A 35 8 140.94 REMARK 500 ALA A 23 XCP A 24 9 144.05 REMARK 500 B3K A 28 VAL A 29 9 144.56 REMARK 500 B3K A 31 GLN A 32 9 147.63 REMARK 500 ALA A 34 XCP A 35 9 141.44 REMARK 500 ALA A 23 XCP A 24 10 142.13 REMARK 500 B3K A 28 VAL A 29 10 145.03 REMARK 500 B3K A 31 GLN A 32 10 149.60 REMARK 500 ALA A 34 XCP A 35 10 141.78 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 B3K A 28 -18.16 REMARK 500 1 B3K A 31 -18.79 REMARK 500 2 B3K A 28 -17.98 REMARK 500 2 B3K A 31 -18.48 REMARK 500 3 B3K A 28 -17.84 REMARK 500 3 B3K A 31 -18.85 REMARK 500 4 B3K A 28 -18.08 REMARK 500 4 B3K A 31 -18.84 REMARK 500 5 B3K A 28 -18.15 REMARK 500 5 B3K A 31 -19.24 REMARK 500 6 B3K A 28 -18.21 REMARK 500 6 B3K A 31 -19.05 REMARK 500 7 B3K A 28 -18.02 REMARK 500 7 B3K A 31 -18.82 REMARK 500 8 B3K A 28 -18.32 REMARK 500 8 B3K A 31 -19.32 REMARK 500 9 B3K A 28 -18.01 REMARK 500 9 B3K A 31 -18.58 REMARK 500 10 B3K A 28 -18.40 REMARK 500 10 B3K A 31 -18.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4OZB RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF THE SAME PROTEIN REMARK 900 RELATED ID: 31031 RELATED DB: BMRB REMARK 900 NMR STRUCTURE OF STREPTOCOCCAL PROTEIN GB1 BACKBONE MODIFIED REMARK 900 VARIANT: BETA-ACPC24, BETA-3-LYS28, BETA-3-LYS31, BETA-ACPC35 DBREF 8DIJ A 1 56 UNP P19909 SPG2_STRSG 302 357 SEQADV 8DIJ XCP A 24 UNP P19909 ALA 325 CONFLICT SEQADV 8DIJ XCP A 35 UNP P19909 ASN 336 CONFLICT SEQADV 8DIJ NH2 A 57 UNP P19909 AMIDATION SEQRES 1 A 57 ASP THR TYR LYS LEU ILE LEU ASN GLY LYS THR LEU LYS SEQRES 2 A 57 GLY GLU THR THR THR GLU ALA VAL ASP ALA XCP THR ALA SEQRES 3 A 57 GLU B3K VAL PHE B3K GLN TYR ALA XCP ASP ASN GLY VAL SEQRES 4 A 57 ASP GLY GLU TRP THR TYR ASP ASP ALA THR LYS THR PHE SEQRES 5 A 57 THR VAL THR GLU NH2 MODRES 8DIJ B3K A 28 LYS MODIFIED RESIDUE MODRES 8DIJ B3K A 31 LYS MODIFIED RESIDUE HET XCP A 24 17 HET B3K A 28 25 HET B3K A 31 25 HET XCP A 35 17 HET NH2 A 57 3 HETNAM XCP (1S,2S)-2-AMINOCYCLOPENTANECARBOXYLIC ACID HETNAM B3K (3S)-3,7-DIAMINOHEPTANOIC ACID HETNAM NH2 AMINO GROUP FORMUL 1 XCP 2(C6 H11 N O2) FORMUL 1 B3K 2(C7 H16 N2 O2) FORMUL 1 NH2 H2 N HELIX 1 AA1 ASP A 22 ASN A 37 1 16 SHEET 1 AA1 4 LYS A 13 GLU A 19 0 SHEET 2 AA1 4 THR A 2 ASN A 8 -1 N LEU A 5 O THR A 16 SHEET 3 AA1 4 THR A 51 THR A 55 1 O PHE A 52 N LYS A 4 SHEET 4 AA1 4 GLU A 42 ASP A 46 -1 N ASP A 46 O THR A 51 LINK C ALA A 23 N XCP A 24 1555 1555 1.33 LINK C XCP A 24 N THR A 25 1555 1555 1.33 LINK C GLU A 27 N B3K A 28 1555 1555 1.32 LINK C B3K A 28 N VAL A 29 1555 1555 1.33 LINK C PHE A 30 N B3K A 31 1555 1555 1.32 LINK C B3K A 31 N GLN A 32 1555 1555 1.33 LINK C ALA A 34 N XCP A 35 1555 1555 1.33 LINK C XCP A 35 N ASP A 36 1555 1555 1.33 LINK C GLU A 56 N NH2 A 57 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