HEADER HORMONE 18-JUL-18 6H3E TITLE RECEPTOR-BOUND GHRELIN CONFORMATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: APPETITE-REGULATING HORMONE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GROWTH HORMONE SECRETAGOGUE,GROWTH HORMONE-RELEASING COMPND 5 PEPTIDE,MOTILIN-RELATED PEPTIDE,PROTEIN M46; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606 KEYWDS NEUROPEPTIDE, ACYL CHAIN, GROWTH HORMONE SECRETAGOGUE RECEPTOR, GPCR, KEYWDS 2 LIPOPEPTIDE HORMONE, OBESITY, DIABETES, ADDICTION., HORMONE EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR G.FERRE,M.DAMIAN,C.M'KADMI,O.SAUREL,G.CZAPLICKI,P.DEMANGE,J.MARIE, AUTHOR 2 J.A.FEHRENTZ,J.L.BANERES,A.MILON REVDAT 6 23-OCT-24 6H3E 1 REMARK REVDAT 5 14-JUN-23 6H3E 1 REMARK REVDAT 4 04-SEP-19 6H3E 1 JRNL REVDAT 3 28-AUG-19 6H3E 1 JRNL REVDAT 2 21-AUG-19 6H3E 1 JRNL REVDAT 1 24-JUL-19 6H3E 0 JRNL AUTH G.FERRE,M.LOUET,O.SAUREL,B.DELORT,G.CZAPLICKI,C.M'KADMI, JRNL AUTH 2 M.DAMIAN,P.RENAULT,S.CANTEL,L.GAVARA,P.DEMANGE,J.MARIE, JRNL AUTH 3 J.A.FEHRENTZ,N.FLOQUET,A.MILON,J.L.BANERES JRNL TITL STRUCTURE AND DYNAMICS OF G PROTEIN-COUPLED RECEPTOR-BOUND JRNL TITL 2 GHRELIN REVEAL THE CRITICAL ROLE OF THE OCTANOYL CHAIN. JRNL REF PROC.NATL.ACAD.SCI.USA V. 116 17525 2019 JRNL REFN ESSN 1091-6490 JRNL PMID 31416915 JRNL DOI 10.1073/PNAS.1905105116 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 14 REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6H3E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1200008787. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 280 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 KCL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.37 MM [U-15N]-PHE-LEU-VAL REMARK 210 GHRELIN 1-18, 2.05 UM [U-2H] REMARK 210 GHRELIN RECEPTOR, 90% H2O/10% REMARK 210 D2O; 1.37 MM [U-15N]-PHE-LEU-VAL REMARK 210 GHRELIN 1-18, 2.05 UM [U-2H] REMARK 210 GHRELIN RECEPTOR, 2.05 UM REMARK 210 JMV5327, 90% H2O/10% D2O; 1.15 REMARK 210 MM [U-15N]-PHE-LEU-VAL-SER-GLN- REMARK 210 GLU GHRELIN 1-18, 1.72 UM [U-2H] REMARK 210 GHRELIN RECEPTOR, 90% H2O/10% REMARK 210 D2O; 1.15 MM [U-15N]-PHE-LEU-VAL- REMARK 210 SER-GLN-GLU GHRELIN 1-18, 1.72 REMARK 210 UM [U-2H] GHRELIN RECEPTOR, 1.72 REMARK 210 UM JMV5327, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 3D 1H-1H-15N NOESY-HMQC; 2D 1H- REMARK 210 15N SOFAST-HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.5, TOPSPIN 3.2, SPARKY REMARK 210 1.2 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 2140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 ARG A 15 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 3 ARG A 15 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 4 ARG A 15 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 7 ARG A 11 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 10 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 10 ARG A 15 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES 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 3 140.63 -173.60 REMARK 500 1 LEU A 5 145.24 82.46 REMARK 500 1 SER A 6 145.40 -172.00 REMARK 500 1 HIS A 9 155.81 86.89 REMARK 500 1 LYS A 16 50.46 -148.66 REMARK 500 1 GLU A 17 -44.12 178.99 REMARK 500 2 LEU A 5 149.64 68.80 REMARK 500 2 HIS A 9 154.86 81.06 REMARK 500 2 ARG A 15 -141.19 52.13 REMARK 500 2 GLU A 17 -12.19 -148.64 REMARK 500 3 LEU A 5 162.76 73.13 REMARK 500 3 HIS A 9 177.11 80.36 REMARK 500 3 LYS A 16 18.44 -165.53 REMARK 500 3 GLU A 17 -28.00 -157.49 REMARK 500 4 LEU A 5 162.31 64.66 REMARK 500 4 PRO A 7 20.63 -75.46 REMARK 500 4 HIS A 9 172.86 68.31 REMARK 500 4 VAL A 12 109.30 69.19 REMARK 500 4 ARG A 15 11.38 58.52 REMARK 500 5 LEU A 5 159.09 80.43 REMARK 500 5 PRO A 7 20.56 -79.22 REMARK 500 5 HIS A 9 72.15 66.31 REMARK 500 5 GLN A 10 8.21 81.45 REMARK 500 5 GLN A 13 -21.00 -155.30 REMARK 500 5 LYS A 16 -169.94 -125.37 REMARK 500 6 ASP A 3 149.72 -171.93 REMARK 500 6 LEU A 5 161.56 67.82 REMARK 500 6 SER A 6 136.83 159.90 REMARK 500 6 HIS A 9 143.76 89.07 REMARK 500 6 GLN A 13 24.11 -146.52 REMARK 500 6 GLN A 14 174.35 176.28 REMARK 500 6 ARG A 15 -41.03 -149.83 REMARK 500 6 LYS A 16 113.36 -165.98 REMARK 500 7 LEU A 5 152.99 71.09 REMARK 500 7 SER A 6 117.54 -168.94 REMARK 500 7 PRO A 7 24.56 -78.45 REMARK 500 7 GLU A 8 -160.54 -125.59 REMARK 500 7 HIS A 9 162.15 79.76 REMARK 500 7 VAL A 12 129.42 -171.25 REMARK 500 8 LEU A 5 151.73 77.51 REMARK 500 8 SER A 6 94.90 -175.52 REMARK 500 8 PRO A 7 22.07 -79.94 REMARK 500 8 HIS A 9 -179.93 75.23 REMARK 500 8 GLN A 13 38.54 -154.86 REMARK 500 9 LEU A 5 158.94 61.96 REMARK 500 9 HIS A 9 136.69 95.81 REMARK 500 9 GLN A 10 172.33 171.32 REMARK 500 9 VAL A 12 139.50 170.28 REMARK 500 9 ARG A 15 -23.47 73.09 REMARK 500 9 GLU A 17 -4.02 -157.81 REMARK 500 REMARK 500 THIS ENTRY HAS 55 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FKZ A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Ligand NH2 A 19 bound to SER A REMARK 800 18 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34303 RELATED DB: BMRB REMARK 900 RECEPTOR-BOUND GHRELIN CONFORMATION DBREF 6H3E A 1 18 UNP Q9UBU3 GHRL_HUMAN 24 41 SEQADV 6H3E ASP A 3 UNP Q9UBU3 SER 26 ENGINEERED MUTATION SEQADV 6H3E NH2 A 19 UNP Q9UBU3 AMIDATION SEQRES 1 A 19 GLY SER ASP PHE LEU SER PRO GLU HIS GLN ARG VAL GLN SEQRES 2 A 19 GLN ARG LYS GLU SER NH2 HET NH2 A 19 3 HET FKZ A 101 27 HETNAM NH2 AMINO GROUP HETNAM FKZ OCTAN-1-AMINE FORMUL 1 NH2 H2 N FORMUL 2 FKZ C8 H19 N LINK CG ASP A 3 N FKZ A 101 1555 1555 1.37 LINK C SER A 18 N NH2 A 19 1555 1555 1.32 SITE 1 AC1 5 ASP A 3 PHE A 4 SER A 6 GLU A 8 SITE 2 AC1 5 HIS A 9 SITE 1 AC2 1 SER A 18 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