HEADER DE NOVO PROTEIN 23-DEC-19 6LLQ TITLE SOLUTION NMR STRUCTURE OF DE NOVO ROSSMANN2X2 FOLD WITH MOST OF THE TITLE 2 CORE MUTATED TO VALINE, R2X2_VAL88 COMPND MOL_ID: 1; COMPND 2 MOLECULE: VAL88; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 3 ORGANISM_TAXID: 32644; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DE NOVO DESIGN, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.KOBAYASHI,T.SUGIKI,T.FUJIWARA,R.KOGA,M.YAMAMOTO,T.KOSUGI,N.KOGA REVDAT 4 15-MAY-24 6LLQ 1 REMARK REVDAT 3 14-JUN-23 6LLQ 1 REMARK REVDAT 2 23-DEC-20 6LLQ 1 JRNL REVDAT 1 02-DEC-20 6LLQ 0 JRNL AUTH R.KOGA,M.YAMAMOTO,T.KOSUGI,N.KOBAYASHI,T.SUGIKI,T.FUJIWARA, JRNL AUTH 2 N.KOGA JRNL TITL ROBUST FOLDING OF A DE NOVO DESIGNED IDEAL PROTEIN EVEN WITH JRNL TITL 2 MOST OF THE CORE MUTATED TO VALINE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 117 31149 2020 JRNL REFN ESSN 1091-6490 JRNL PMID 33229587 JRNL DOI 10.1073/PNAS.2002120117 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.98 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINMENT WITH RDC VALUES AS CONSTRAIN REMARK 4 REMARK 4 6LLQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-DEC-19. REMARK 100 THE DEPOSITION ID IS D_1300014751. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 108.6 REMARK 210 PRESSURE : 1.0 ATM REMARK 210 SAMPLE CONTENTS : 500 UM [U-99% 13C; U-99% 15N] REMARK 210 VAL88, 7.4 MM POTASSIUM REMARK 210 PHOSPHATE, 1.2 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 95 % H2O, 5 % [U-99% REMARK 210 2H] D2O, 95% H2O/5% D2O; 100 UM REMARK 210 [U-99% 13C; U-99% 15N] VAL88, REMARK 210 7.4 MM POTASSIUM PHOSPHATE, 1.2 REMARK 210 MM SODIUM PHOSPHATE, 100 MM REMARK 210 SODIUM CHLORIDE, 10 MG/ML PF1 REMARK 210 PHAGE, 95 % H2O, 5 % [U-99% 2H] REMARK 210 D2O, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D CBCA(CO)NH; 3D REMARK 210 HNCACB; 3D H(CCO)NH; 3D C(CO)NH; REMARK 210 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D HCCH-TOCSY REMARK 210 ALIPHATIC; 2D 1H-15N IPAP HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ; 950 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.2, NMRPIPE, NMRVIEW REMARK 210 9.0, MAGRO 2.0.24, CYANA 3.98, REMARK 210 TALOS TALOS+, MAGRO 2.01.12 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 : TARGET FUNCTION 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: 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 GLN A 47 -39.48 -130.18 REMARK 500 1 VAL A 86 -70.33 71.31 REMARK 500 1 HIS A 96 102.91 -171.49 REMARK 500 2 VAL A 86 41.73 37.84 REMARK 500 2 LYS A 87 161.89 179.00 REMARK 500 2 SER A 89 70.23 63.22 REMARK 500 2 LEU A 91 178.13 -56.58 REMARK 500 2 HIS A 93 76.98 -154.40 REMARK 500 2 HIS A 94 55.50 -109.58 REMARK 500 2 HIS A 96 90.91 63.08 REMARK 500 2 HIS A 97 -70.43 -58.94 REMARK 500 3 VAL A 86 -69.34 72.49 REMARK 500 4 VAL A 86 -70.17 71.54 REMARK 500 4 HIS A 95 41.29 -141.16 REMARK 500 4 HIS A 97 104.85 -172.72 REMARK 500 5 GLN A 47 -41.20 -134.04 REMARK 500 5 LYS A 87 -169.30 -179.39 REMARK 500 5 HIS A 94 37.70 -154.61 REMARK 500 6 VAL A 86 -69.37 72.46 REMARK 500 6 SER A 89 64.91 -101.77 REMARK 500 6 HIS A 95 101.32 -59.97 REMARK 500 7 GLN A 47 -39.15 -131.93 REMARK 500 7 VAL A 86 -70.42 71.32 REMARK 500 7 GLU A 92 93.40 -65.90 REMARK 500 8 ARG A 72 154.82 -43.09 REMARK 500 8 VAL A 86 -70.43 71.57 REMARK 500 8 SER A 89 100.25 -173.09 REMARK 500 8 LEU A 91 98.02 60.51 REMARK 500 8 HIS A 95 56.04 -100.63 REMARK 500 8 HIS A 97 53.07 -163.16 REMARK 500 9 LYS A 87 -35.32 -179.87 REMARK 500 9 HIS A 95 -61.15 -135.55 REMARK 500 9 HIS A 96 -175.56 56.33 REMARK 500 10 VAL A 86 -70.31 71.57 REMARK 500 10 HIS A 93 76.61 56.90 REMARK 500 10 HIS A 94 113.75 -163.54 REMARK 500 10 HIS A 95 132.22 -179.23 REMARK 500 11 VAL A 86 -70.38 71.02 REMARK 500 11 LEU A 91 75.73 61.09 REMARK 500 11 HIS A 96 -50.94 -174.37 REMARK 500 11 HIS A 97 -175.76 62.78 REMARK 500 12 GLN A 47 -38.10 -131.25 REMARK 500 12 VAL A 86 43.98 37.06 REMARK 500 12 LYS A 87 144.38 -173.47 REMARK 500 12 HIS A 94 56.49 -110.89 REMARK 500 13 ASN A 67 51.45 70.83 REMARK 500 13 TYR A 71 55.60 -118.78 REMARK 500 13 ARG A 72 160.93 -48.95 REMARK 500 13 VAL A 86 -70.51 71.40 REMARK 500 13 HIS A 95 178.65 -57.05 REMARK 500 REMARK 500 THIS ENTRY HAS 74 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36305 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF DE NOVO ROSSMANN2X2 FOLD WITHOUT TIGHT REMARK 900 PACKING, R2X2_VAL88 DBREF 6LLQ A 1 98 PDB 6LLQ 6LLQ 1 98 SEQRES 1 A 98 GLY ARG VAL VAL VAL VAL VAL THR SER GLU GLN VAL LYS SEQRES 2 A 98 GLU GLU VAL ARG LYS LYS PHE PRO GLN VAL GLU VAL ARG SEQRES 3 A 98 VAL VAL THR THR GLU GLU ASP ALA LYS GLN VAL VAL LYS SEQRES 4 A 98 GLU VAL GLN LYS LYS GLY VAL GLN LYS VAL VAL VAL VAL SEQRES 5 A 98 GLY VAL SER GLU LYS VAL VAL GLN LYS VAL LYS GLN GLU SEQRES 6 A 98 ALA ASN VAL GLN VAL TYR ARG VAL THR SER ASN ASP GLU SEQRES 7 A 98 VAL GLU GLN VAL VAL LYS ASP VAL LYS GLY SER GLY LEU SEQRES 8 A 98 GLU HIS HIS HIS HIS HIS HIS HELIX 1 AA1 SER A 9 PHE A 20 1 12 HELIX 2 AA2 THR A 30 GLY A 45 1 16 HELIX 3 AA3 SER A 55 ASN A 67 1 13 HELIX 4 AA4 SER A 75 VAL A 86 1 12 SHEET 1 AA1 4 GLU A 24 VAL A 27 0 SHEET 2 AA1 4 VAL A 4 VAL A 7 1 N VAL A 5 O ARG A 26 SHEET 3 AA1 4 LYS A 48 VAL A 52 1 O VAL A 50 N VAL A 4 SHEET 4 AA1 4 GLN A 69 VAL A 73 1 O TYR A 71 N VAL A 49 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