HEADER FLUORESCENT PROTEIN 08-AUG-22 8AO0 TITLE SOLUTION STRUCTURE OF NANOFAST/HBR-DOM2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOTOACTIVE YELLOW PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYP; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 GENE: PYP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FLUOROGEN-ACTIVATING PROTEIN, FAST, NANOFAST, SPATIAL STRUCTURE, KEYWDS 2 DYNAMICS, LIGAND SEPCIFICITY, FLUOROGEN, BINDING CONSTATNT, KEYWDS 3 FLUORESCENT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR V.A.LUSHPA,M.V.GONCHARUK,S.A.GONCHARUK,N.S.BALEEVA,M.S.BARANOV, AUTHOR 2 K.S.MINEEV REVDAT 2 23-OCT-24 8AO0 1 REMARK REVDAT 1 23-NOV-22 8AO0 0 JRNL AUTH V.A.LUSHPA,N.S.BALEEVA,S.A.GONCHARUK,M.V.GONCHARUK, JRNL AUTH 2 A.S.ARSENIEV,M.S.BARANOV,K.S.MINEEV JRNL TITL SPATIAL STRUCTURE OF NANOFAST IN THE APO STATE AND IN JRNL TITL 2 COMPLEX WITH ITS FLUOROGEN HBR-DOM2. JRNL REF INT J MOL SCI V. 23 2022 JRNL REFN ESSN 1422-0067 JRNL PMID 36232662 JRNL DOI 10.3390/IJMS231911361 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.98.13 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8AO0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-AUG-22. REMARK 100 THE DEPOSITION ID IS D_1292124780. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT PA REMARK 210 SAMPLE CONTENTS : 20 MM NAPI, 20 MM SODIUM REMARK 210 CHLORIDE, 0.001 % SODIUM AZIDE, REMARK 210 90% H2O/10% 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 HNCO; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HNCACO; 3D TOCSY; REMARK 210 3D HCCH-COSY; 3D HCCH-TOCSY; 3D REMARK 210 1H-13C NOESY; 3D 1H-15N NOESY; REMARK 210 3D HNCACB; HBCBCARHAR REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.0, QMDD 3.2, CARA REMARK 210 1.9.1.7 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 ASP A 39 -71.51 -89.71 REMARK 500 1 ASP A 45 97.37 -59.25 REMARK 500 1 PHE A 49 -71.12 -96.86 REMARK 500 1 ASN A 61 84.14 179.84 REMARK 500 1 ASP A 90 35.85 -142.01 REMARK 500 1 ALA A 102 103.70 -54.94 REMARK 500 1 HIS A 109 171.92 -55.17 REMARK 500 2 ASP A 39 -71.61 -90.80 REMARK 500 2 ASP A 45 97.82 -59.35 REMARK 500 2 PHE A 49 -68.92 -96.38 REMARK 500 2 ASN A 61 86.09 179.73 REMARK 500 2 ALA A 104 109.46 -172.26 REMARK 500 2 HIS A 109 -59.56 -127.72 REMARK 500 3 ASP A 39 -71.65 -90.07 REMARK 500 3 ASP A 45 97.10 -59.11 REMARK 500 3 PHE A 49 -71.67 -95.81 REMARK 500 3 ASN A 61 90.32 179.16 REMARK 500 3 ALA A 86 172.27 -56.04 REMARK 500 3 VAL A 99 176.29 -56.68 REMARK 500 3 ALA A 103 -75.28 -103.68 REMARK 500 4 ASP A 39 -71.28 -91.34 REMARK 500 4 ASP A 45 96.77 -59.35 REMARK 500 4 PHE A 49 -69.20 -95.37 REMARK 500 4 ASN A 61 83.82 179.51 REMARK 500 4 ASP A 90 35.97 -143.39 REMARK 500 4 VAL A 99 -179.73 -63.96 REMARK 500 5 ASP A 39 -71.59 -89.91 REMARK 500 5 ASP A 45 97.49 -59.10 REMARK 500 5 PHE A 49 -68.74 -95.63 REMARK 500 5 ASN A 61 81.17 -179.96 REMARK 500 6 ASP A 39 -71.54 -88.75 REMARK 500 6 ASP A 45 96.88 -59.24 REMARK 500 6 PHE A 49 -70.90 -99.27 REMARK 500 6 ASN A 61 87.07 179.03 REMARK 500 6 SER A 91 -175.73 -179.76 REMARK 500 7 ASP A 39 -71.35 -91.78 REMARK 500 7 ASP A 45 97.30 -59.04 REMARK 500 7 PHE A 49 -68.42 -94.45 REMARK 500 7 ASN A 61 84.54 179.42 REMARK 500 7 ALA A 104 -174.89 -60.53 REMARK 500 8 ASP A 39 -71.58 -80.84 REMARK 500 8 ASP A 45 97.41 -59.43 REMARK 500 8 PHE A 49 -69.29 -96.35 REMARK 500 8 ASN A 61 84.46 179.39 REMARK 500 8 GLU A 106 41.55 -104.60 REMARK 500 9 ASP A 39 -71.24 -79.68 REMARK 500 9 ASP A 45 97.15 -59.62 REMARK 500 9 PHE A 49 -69.35 -97.40 REMARK 500 9 ASN A 61 85.37 179.85 REMARK 500 10 ASP A 39 -71.55 -89.70 REMARK 500 REMARK 500 THIS ENTRY HAS 120 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34746 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF NANOFAST/HBR-DOM2 COMPLEX DBREF 8AO0 A 2 99 UNP P16113 PYP_HALHA 28 125 SEQADV 8AO0 MET A 1 UNP P16113 INITIATING METHIONINE SEQADV 8AO0 GGL A 20 UNP P16113 GLU 46 CONFLICT SEQADV 8AO0 GLY A 43 UNP P16113 CYS 69 CONFLICT SEQADV 8AO0 TRP A 68 UNP P16113 TYR 94 CONFLICT SEQADV 8AO0 MET A 69 UNP P16113 THR 95 CONFLICT SEQADV 8AO0 ILE A 70 UNP P16113 PHE 96 CONFLICT SEQADV 8AO0 PRO A 71 UNP P16113 ASP 97 CONFLICT SEQADV 8AO0 THR A 72 UNP P16113 TYR 98 CONFLICT SEQADV 8AO0 SER A 73 UNP P16113 GLN 99 CONFLICT SEQADV 8AO0 ARG A 74 UNP P16113 MET 100 CONFLICT SEQADV 8AO0 GLY A 75 UNP P16113 THR 101 CONFLICT SEQADV 8AO0 LYS A 100 UNP P16113 EXPRESSION TAG SEQADV 8AO0 LEU A 101 UNP P16113 EXPRESSION TAG SEQADV 8AO0 ALA A 102 UNP P16113 EXPRESSION TAG SEQADV 8AO0 ALA A 103 UNP P16113 EXPRESSION TAG SEQADV 8AO0 ALA A 104 UNP P16113 EXPRESSION TAG SEQADV 8AO0 LEU A 105 UNP P16113 EXPRESSION TAG SEQADV 8AO0 GLU A 106 UNP P16113 EXPRESSION TAG SEQADV 8AO0 HIS A 107 UNP P16113 EXPRESSION TAG SEQADV 8AO0 HIS A 108 UNP P16113 EXPRESSION TAG SEQADV 8AO0 HIS A 109 UNP P16113 EXPRESSION TAG SEQADV 8AO0 HIS A 110 UNP P16113 EXPRESSION TAG SEQADV 8AO0 HIS A 111 UNP P16113 EXPRESSION TAG SEQADV 8AO0 HIS A 112 UNP P16113 EXPRESSION TAG SEQRES 1 A 112 MET PHE GLY ALA ILE GLN LEU ASP GLY ASP GLY ASN ILE SEQRES 2 A 112 LEU GLN TYR ASN ALA ALA GGL GLY ASP ILE THR GLY ARG SEQRES 3 A 112 ASP PRO LYS GLN VAL ILE GLY LYS ASN PHE PHE LYS ASP SEQRES 4 A 112 VAL ALA PRO GLY THR ASP SER PRO GLU PHE TYR GLY LYS SEQRES 5 A 112 PHE LYS GLU GLY VAL ALA SER GLY ASN LEU ASN THR MET SEQRES 6 A 112 PHE GLU TRP MET ILE PRO THR SER ARG GLY PRO THR LYS SEQRES 7 A 112 VAL LYS VAL HIS MET LYS LYS ALA LEU SER GLY ASP SER SEQRES 8 A 112 TYR TRP VAL PHE VAL LYS ARG VAL LYS LEU ALA ALA ALA SEQRES 9 A 112 LEU GLU HIS HIS HIS HIS HIS HIS HET GGL A 20 16 HET O1F A 201 29 HETNAM GGL GAMMA-L-GLUTAMIC ACID HETNAM O1F (5~{Z})-5-[(2,5-DIMETHOXY-4-OXIDANYL-PHENYL) HETNAM 2 O1F METHYLIDENE]-2-SULFANYLIDENE-1,3-THIAZOLIDIN-4-ONE HETSYN GGL L-GLUTAMIC ACID FORMUL 1 GGL C5 H9 N O4 FORMUL 2 O1F C12 H11 N O4 S2 HELIX 1 AA1 ASN A 17 GLY A 25 1 9 HELIX 2 AA2 ASP A 27 ILE A 32 1 6 HELIX 3 AA3 PHE A 49 GLY A 60 1 12 SHEET 1 AA1 5 ILE A 13 TYR A 16 0 SHEET 2 AA1 5 GLY A 3 LEU A 7 -1 N GLN A 6 O LEU A 14 SHEET 3 AA1 5 TYR A 92 ARG A 98 -1 O TYR A 92 N LEU A 7 SHEET 4 AA1 5 GLY A 75 LYS A 85 -1 N LYS A 80 O LYS A 97 SHEET 5 AA1 5 ASN A 63 THR A 72 -1 N TRP A 68 O VAL A 79 LINK C ALA A 19 N GGL A 20 1555 1555 1.33 LINK C GGL A 20 N GLY A 21 1555 1555 1.33 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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