HEADER HORMONE 21-DEC-15 2NA5 TITLE NMR SOLUTION STRUCTURE OF VITAMIN B12 CONJUGATES OF PYY3-36 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE YY; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 31-64; COMPND 5 SYNONYM: PYY, PYY-I, PEPTIDE TYROSINE TYROSINE, PEPTIDE YY(3-36), COMPND 6 PYY-II; COMPND 7 ENGINEERED: 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 VITAMIN-PEPTIDE CONJUGATE, HORMONE EXPDTA SOLUTION NMR AUTHOR R.P.DOYLE,K.E.HENRY,C.L.ROTH,D.J.KERWOOD,D.G.ALLIS,G.G.HOLZ,J.ZUBIETA REVDAT 4 15-NOV-23 2NA5 1 LINK ATOM REVDAT 3 18-AUG-21 2NA5 1 COMPND REMARK HETNAM FORMUL REVDAT 3 2 1 LINK REVDAT 2 12-OCT-16 2NA5 1 ATOM CONECT REVDAT 1 21-SEP-16 2NA5 0 JRNL AUTH K.E.HENRY,D.J.KERWOOD,D.G.ALLIS,J.L.WORKINGER, JRNL AUTH 2 R.L.BONACCORSO,G.G.HOLZ,C.L.ROTH,J.ZUBIETA,R.P.DOYLE JRNL TITL SOLUTION STRUCTURE AND CONSTRAINED MOLECULAR DYNAMICS STUDY JRNL TITL 2 OF VITAMIN B12 CONJUGATES OF THE ANORECTIC PEPTIDE JRNL TITL 3 PYY(3-36). JRNL REF CHEMMEDCHEM V. 11 1015 2016 JRNL REFN ISSN 1860-7179 JRNL PMID 27027248 JRNL DOI 10.1002/CMDC.201600073 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 1.3, GROMOS96 REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), SCHWEDE ET AL. REMARK 3 (GROMOS96) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 2D NOE CROSS PEAKS WERE CATEGORIZED AS REMARK 3 STRONG, MEDIUM, OR WEAK AND DISTANCE CONSTRAINTS WERE SET TO 1.8 REMARK 3 TO 3.5A, 1.8 TO 4.5A AND 1.8 TO 6.0A. REMARK 4 REMARK 4 2NA5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1000104614. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 1 MM VITAMIN B12 CONJUGATE OF REMARK 210 PYY3, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; 2D 1H-1H TOCSY; 2D DQF REMARK 210 -COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 1.3 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 4 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 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: 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 4QK A 4 111.17 -161.43 REMARK 500 PRO A 6 -159.49 -81.99 REMARK 500 PRO A 9 -152.76 -81.03 REMARK 500 ASP A 12 -77.13 -109.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 21 0.11 SIDE CHAIN REMARK 500 TYR A 22 0.06 SIDE CHAIN REMARK 500 TYR A 28 0.15 SIDE CHAIN 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 ARG A 34 12.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE DEPOSITORS STATE THAT WHILE ACTUALLY COVALENTLY LINKED BETWEEN REMARK 600 THE VITAMIN B12 AND PYY3-36, THIS ENTRY DISPLAYS THE SYSTEM REMARK 600 SEPARATED BETWEEN NZ2 AND C5R TO PRODUCE A SMALLER MODIFIED LYS AND REMARK 600 AN ACIDIC VITAMIN B12 IN ACCORDANCE WITH PDB ANNOTATION POLICIES. REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CNC A 101 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CNC A 101 N3B REMARK 620 2 CNC A 101 N21 95.9 REMARK 620 3 CNC A 101 N22 91.1 89.9 REMARK 620 4 CNC A 101 N23 84.4 173.9 96.2 REMARK 620 5 CNC A 101 N24 96.1 84.5 171.3 89.4 REMARK 620 6 CNC A 101 C1A 166.7 95.8 82.5 84.7 91.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CNC A 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25928 RELATED DB: BMRB DBREF 2NA5 A 3 36 UNP P10082 PYY_HUMAN 31 64 SEQRES 1 A 34 ILE 4QK PRO GLU ALA PRO GLY GLU ASP ALA SER PRO GLU SEQRES 2 A 34 GLU LEU ASN ARG TYR TYR ALA SER LEU ARG HIS TYR LEU SEQRES 3 A 34 ASN LEU VAL THR ARG GLN ARG TYR HET 4QK A 4 32 HET CNC A 101 178 HETNAM 4QK 6-[4-(2-AMINOETHYL)-1H-1,2,3-TRIAZOL-1-YL]-L-NORLEUCINE HETNAM CNC CYANOCOBALAMIN FORMUL 1 4QK C10 H19 N5 O2 FORMUL 2 CNC C63 H89 CO N14 O14 P 2+ HELIX 1 1 ALA A 13 THR A 33 1 21 LINK C ILE A 3 N 4QK A 4 1555 1555 1.34 LINK C 4QK A 4 N PRO A 6 1555 1555 1.34 LINK NZ2 4QK A 4 C5R CNC A 101 1555 1555 1.34 LINK N3B CNC A 101 CO CNC A 101 1555 1555 2.07 SITE 1 AC1 7 4QK A 4 ALA A 8 PRO A 9 GLY A 10 SITE 2 AC1 7 SER A 14 LEU A 18 TYR A 21 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