HEADER METAL BINDING PROTEIN 30-OCT-13 2MG9 TITLE TRUNCATED EGF-A COMPND MOL_ID: 1; COMPND 2 MOLECULE: LOW-DENSITY LIPOPROTEIN RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EGF-A DOMAIN, UNP RESIDUES 314-339; COMPND 5 SYNONYM: LDL RECEPTOR; COMPND 6 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; SOURCE 6 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS EGF-A, DISULFIDE RICH, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.I.SCHROEDER,K.ROSENGREN REVDAT 1 02-APR-14 2MG9 0 JRNL AUTH C.I.SCHROEDER,J.E.SWEDBERG,J.M.WITHKA,K.J.ROSENGREN,M.AKCAN, JRNL AUTH 2 D.J.CLAYTON,N.L.DALY,O.CHENEVAL,K.A.BORZILLERI,M.GRIFFOR, JRNL AUTH 3 I.STOCK,B.COLLESS,P.WALSH,P.SUNDERLAND,A.REYES,R.DULLEA, JRNL AUTH 4 M.AMMIRATI,S.LIU,K.F.MCCLURE,M.TU,S.K.BHATTACHARYA,S.LIRAS, JRNL AUTH 5 D.A.PRICE,D.J.CRAIK JRNL TITL DESIGN AND SYNTHESIS OF TRUNCATED EGF-A PEPTIDES THAT JRNL TITL 2 RESTORE LDL-R RECYCLING IN THE PRESENCE OF PCSK9 IN VITRO. JRNL REF CHEM.BIOL. V. 21 284 2014 JRNL REFN ISSN 1074-5521 JRNL PMID 24440079 JRNL DOI 10.1016/J.CHEMBIOL.2013.11.014 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MG9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-NOV-13. REMARK 100 THE RCSB ID CODE IS RCSB103592. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 5.3 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM EGFA-1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 2D 1H-13C HSQC; 2D DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, MOLMOL, TOPSPIN, XEASY, REMARK 210 TALOS REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST 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 2 HIS A 14 -166.42 -129.18 REMARK 500 3 HIS A 14 -166.69 -114.55 REMARK 500 6 HIS A 14 -168.52 -105.82 REMARK 500 8 HIS A 14 -166.64 -120.34 REMARK 500 9 HIS A 14 -166.25 -113.19 REMARK 500 10 HIS A 14 -166.52 -106.97 REMARK 500 12 HIS A 14 -166.19 -103.18 REMARK 500 12 TYR A 23 -178.53 -175.76 REMARK 500 13 HIS A 14 -166.86 -111.99 REMARK 500 14 HIS A 14 -164.37 -123.38 REMARK 500 15 HIS A 14 -166.67 -107.98 REMARK 500 16 TYR A 23 165.94 176.02 REMARK 500 18 HIS A 14 -168.16 -108.95 REMARK 500 18 TYR A 23 -176.74 -173.83 REMARK 500 20 HIS A 14 -167.48 -103.79 REMARK 500 REMARK 500 REMARK: NULL 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 1 CA A 101 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 18 OD1 REMARK 620 2 GLU A 4 OE1 93.1 REMARK 620 3 GLY A 22 O 103.6 86.0 REMARK 620 4 THR A 2 O 83.7 84.5 168.3 REMARK 620 5 LEU A 19 O 72.1 144.7 67.6 123.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19593 RELATED DB: BMRB DBREF 2MG9 A 1 26 UNP P01130 LDLR_HUMAN 314 339 SEQADV 2MG9 NH2 A 27 UNP P01130 AMIDATION SEQRES 1 A 27 GLY THR ASN GLU CYS LEU ASP ASN ASN GLY GLY CYS SER SEQRES 2 A 27 HIS VAL CYS ASN ASP LEU LYS ILE GLY TYR GLU CYS LEU SEQRES 3 A 27 NH2 HET NH2 A 27 3 HET CA A 101 1 HETNAM NH2 AMINO GROUP HETNAM CA CALCIUM ION FORMUL 1 NH2 H2 N FORMUL 2 CA CA 2+ HELIX 1 1 ASP A 7 CYS A 12 5 6 SHEET 1 A 2 CYS A 16 ASP A 18 0 SHEET 2 A 2 TYR A 23 CYS A 25 -1 O GLU A 24 N ASN A 17 SSBOND 1 CYS A 5 CYS A 16 1555 1555 2.03 SSBOND 2 CYS A 12 CYS A 25 1555 1555 2.03 LINK C LEU A 26 N NH2 A 27 1555 1555 1.31 LINK OD1 ASP A 18 CA CA A 101 1555 1555 2.19 LINK OE1 GLU A 4 CA CA A 101 1555 1555 2.20 LINK O GLY A 22 CA CA A 101 1555 1555 2.31 LINK O THR A 2 CA CA A 101 1555 1555 2.33 LINK O LEU A 19 CA CA A 101 1555 1555 3.00 SITE 1 AC1 5 THR A 2 GLU A 4 ASP A 18 LEU A 19 SITE 2 AC1 5 GLY A 22 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