HEADER DE NOVO PROTEIN 13-JAN-21 7LDF TITLE HIGH RESOLUTION NMR SOLUTION STRUCTURE OF A DE NOVO DESIGNED MINIMAL TITLE 2 THIOREDOXIN FOLD PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MINIMAL THIOREDOXIN FOLD PROTEIN, EMS_THIOM_802; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DE NOVO DESIGNED, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.L.URBAUER,E.M.STRAUCH REVDAT 3 14-DEC-22 7LDF 1 JRNL REVDAT 2 14-SEP-22 7LDF 1 HELIX SHEET REVDAT 1 13-JUL-22 7LDF 0 JRNL AUTH T.W.LINSKY,K.NOBLE,A.R.TOBIN,R.CROW,L.CARTER,J.L.URBAUER, JRNL AUTH 2 D.BAKER,E.M.STRAUCH JRNL TITL SAMPLING OF STRUCTURE AND SEQUENCE SPACE OF SMALL PROTEIN JRNL TITL 2 FOLDS. JRNL REF NAT COMMUN V. 13 7151 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 36418330 JRNL DOI 10.1038/S41467-022-34937-8 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.3 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1253 RESTRAINTS, 1137 NOE-DERIVED DISTANCE RESTRAINTS AND 116 REMARK 3 DIHEDRAL ANGLE RESTRAINTS REMARK 4 REMARK 4 7LDF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1000254103. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 10 MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 10 MM SODIUM PHOSPHATE, 10 MM REMARK 210 SODIUM CHLORIDE, 0.6 MM [U-98% REMARK 210 13C; U-98% 15N] EMS_THIOM_802 REMARK 210 (PROTEIN), 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-13C HSQC AROMATIC; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HNCO; 3D HN(CA)CO; REMARK 210 3D HBHA(CO)NH; 3D HCCH-TOCSY; REMARK 210 3D HCCH-COSY; 3D C(CO)NH; 3D REMARK 210 H(CCO)NH; 2D HBCBCGCDHD; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-TOCSY RELAYED CT REMARK 210 1H-13C HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DD2 REMARK 210 SPECTROMETER MANUFACTURER : AGILENT REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS, CYANA 2.1, FELIX 2007, REMARK 210 VNMRJ 4.2 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 O VAL A 60 H LEU A 64 1.55 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 SER A 37 79.78 -152.86 REMARK 500 6 HIS A 70 -50.35 70.74 REMARK 500 11 ASP A 2 -0.69 67.57 REMARK 500 14 HIS A 66 120.38 60.39 REMARK 500 15 SER A 37 77.67 -156.06 REMARK 500 16 HIS A 66 -54.39 68.88 REMARK 500 17 HIS A 66 127.29 62.95 REMARK 500 19 HIS A 66 127.86 62.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30844 RELATED DB: BMRB REMARK 900 HIGH RESOLUTION NMR SOLUTION STRUCTURE OF A DE NOVO DESIGNED REMARK 900 MINIMAL THIOREDOXIN FOLD PROTEIN DBREF 7LDF A 1 71 PDB 7LDF 7LDF 1 71 SEQRES 1 A 71 MET ASP GLU VAL LYS VAL HIS VAL GLY ASP ASP GLN PHE SEQRES 2 A 71 GLU GLU VAL SER ARG GLU ILE LYS LYS ALA GLY TRP LYS SEQRES 3 A 71 VAL GLU VAL HIS LYS HIS PRO SER ASN THR SER GLN VAL SEQRES 4 A 71 THR VAL THR LYS GLY ASN LYS GLN TRP THR PHE LYS ASP SEQRES 5 A 71 PRO LYS GLN ALA VAL GLU PHE VAL GLN LYS SER LEU GLU SEQRES 6 A 71 HIS HIS HIS HIS HIS HIS HELIX 1 AA1 ASP A 10 ALA A 23 1 14 HELIX 2 AA2 PRO A 53 GLU A 65 1 13 SHEET 1 AA1 4 LYS A 26 HIS A 32 0 SHEET 2 AA1 4 ASP A 2 VAL A 8 1 N VAL A 4 O LYS A 26 SHEET 3 AA1 4 SER A 37 LYS A 43 -1 N GLN A 38 O HIS A 7 SHEET 4 AA1 4 LYS A 46 PHE A 50 -1 O LYS A 46 N LYS A 43 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