10 20 30 40 50 60 70 80 1KVF - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DE NOVO PROTEIN 25-JAN-02 1KVF
TITLE EMP-18 ERYTHROPOIETIN RECEPTOR AGONIST PEPTIDE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN: EMP-18 RECEPTOR AGONIST; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. IT SOURCE 4 IS A NOVEL SEQUENCE DERIVED FROM PHAGE-DISPLAY SELECTION.
KEYWDS BETA HAIRPIN PEPTIDE, DE NOVO PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR N.J.SKELTON,S.RUSSELL,F.DE SAUVAGE,A.G.COCHRAN
REVDAT 2 24-FEB-09 1KVF 1 VERSN REVDAT 1 06-MAR-02 1KVF 0
JRNL AUTH N.J.SKELTON,S.RUSSELL,F.DE SAUVAGE,A.G.COCHRAN JRNL TITL AMINO ACID DETERMINANTS OF BETA-HAIRPIN JRNL TITL 2 CONFORMATION IN ERYTHROPOEITIN RECEPTOR AGONIST JRNL TITL 3 PEPTIDES DERIVED FROM A PHAGE DISPLAY LIBRARY JRNL REF J.MOL.BIOL. V. 316 1111 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 11884148 JRNL DOI 10.1006/JMBI.2002.5410
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.L.JOHNSON,F.X.FARRELL,F.P.BARBONE,F.J.MCMAHON, REMARK 1 AUTH 2 J.TULLAI,K.HOEY,O.LIVNAH,N.C.WRIGHTON, REMARK 1 AUTH 3 S.A.MIDDLETON,D.A.LOUGHNEY,W.J.DOWER,L.S.MULCAHY, REMARK 1 AUTH 4 I.A.WILSON,L.K.JOLLIFFE REMARK 1 TITL IDENTIFICATION OF A 13 AMINO ACID PEPTIDE MIMETIC REMARK 1 TITL 2 OF ERYTHROPOIETIN AND DESCRIPTION OF AMINO ACIDS REMARK 1 TITL 3 CRITICAL FOR THE MIMETIC ACTIVITY OF EMP1 REMARK 1 REF BIOCHEMISTRY V. 37 3699 1998 REMARK 1 REFN ISSN 0006-2960 REMARK 1 DOI 10.1021/BI971956Y
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 3.1 REMARK 3 AUTHORS : ACCELRYS REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON 52 NOE REMARK 3 DISTANCE RESTRAINTS, 11 PHI AND 4 CHI-1 DIHEDRAL ANGLE REMARK 3 RESTRAINTS. NO HYDROGEN BOND RESTRAINTS WERE EMPLOYED. THE REMARK 3 MEAN BACKBONE ATOM RMSD TO THE MEAN STRUCTURE WITHIN THE REMARK 3 DISULFIDE CYCLE IS 0.43 +/- 0.12 ANGSTOMS.
REMARK 4 REMARK 4 1KVF COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JAN-02. REMARK 100 THE RCSB ID CODE IS RCSB015380.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303; 303 REMARK 210 PH : 5.1; 5.1 REMARK 210 IONIC STRENGTH : 0; 0 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 3 MM PEPTIDE; 3 MM PEPTIDE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D-ROESY, 2D-NOESY, DQF-COSY, REMARK 210 COSY-35 REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DGII 98.0 REMARK 210 METHOD USED : DISTANCE GEOMETRY AND REMARK 210 RESTRAINED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 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: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES. THE SAMPLE CONTAINS A MIXTURE OF CIS REMARK 210 AND TRANS ISOMERS ABOUT THE GLY7-PRO8 PEPTIDE BOND. BOTH SETS REMARK 210 OF RESONANCES WERE ASSIGNED. THE TRANS ISOFORM IS NOT WELL REMARK 210 ORDERED IN SOLUTION. THE CIS ISOFORM IS STRUCTURED, ESPECIALLY REMARK 210 WITHIN THE DISULFIDE CYCLE. STRUCTURES WERE CALCULATED ON THE REMARK 210 BASIS OF RESTRAINTS GENERATED ONLY FROM THE CIS ISOFORM.
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 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 LEU A 9 -60.23 -99.96 REMARK 500 2 LEU A 9 -55.17 -121.72 REMARK 500 3 LEU A 9 -55.96 -123.72 REMARK 500 5 LEU A 9 -52.66 -139.97 REMARK 500 7 TYR A 2 47.81 -82.27 REMARK 500 7 LEU A 9 36.08 -140.46 REMARK 500 10 LEU A 9 -54.63 -140.05 REMARK 500 11 LEU A 9 33.58 -140.90 REMARK 500 12 LEU A 9 -64.84 -102.18 REMARK 500 12 LYS A 14 75.76 -118.92 REMARK 500 13 LEU A 9 25.41 -140.22 REMARK 500 16 SER A 3 74.57 -113.25 REMARK 500 18 LEU A 9 26.54 -140.17 REMARK 500 19 TYR A 2 45.86 -76.90 REMARK 500 19 LEU A 9 -54.87 -140.08 REMARK 500 19 PRO A 15 107.87 -51.13 REMARK 500 20 TYR A 2 21.14 -145.29 REMARK 500 20 LEU A 9 -64.73 -103.06 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 5 TYR A 2 0.07 SIDE_CHAIN 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 NH2 A 17
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GJE RELATED DB: PDB REMARK 900 PEPTIDE ANTAGONIST OF IGFBP-1, MINIMIZED AVERAGE STRUCTURE REMARK 900 RELATED ID: 1KVG RELATED DB: PDB REMARK 900 EPO-3 BETA HAIRPIN PEPTIDE
REMARK 999 REMARK 999 SEQUENCE REMARK 999 AN APPROPRIATE DATABASE MATCH WAS REMARK 999 NOT AVAILABLE AT THE TIME OF PROCESSING.
DBREF 1KVF A 1 17 PDB 1KVF 1KVF 1 17
SEQRES 1 A 17 THR TYR SER CYS HIS PHE GLY PRO LEU THR TRP VAL CYS SEQRES 2 A 17 LYS PRO GLN NH2
HET NH2 A 17 3
HETNAM NH2 AMINO GROUP
FORMUL 1 NH2 H2 N
SHEET 1 A 2 SER A 3 PHE A 6 0 SHEET 2 A 2 TRP A 11 LYS A 14 -1 O LYS A 14 N SER A 3
SSBOND 1 CYS A 4 CYS A 13 1555 1555 2.05
LINK C GLN A 16 N NH2 A 17 1555 1555 1.33
CISPEP 1 GLY A 7 PRO A 8 1 4.83 CISPEP 2 GLY A 7 PRO A 8 2 -0.49 CISPEP 3 GLY A 7 PRO A 8 3 1.02 CISPEP 4 GLY A 7 PRO A 8 4 -0.34 CISPEP 5 GLY A 7 PRO A 8 5 1.02 CISPEP 6 GLY A 7 PRO A 8 6 3.75 CISPEP 7 GLY A 7 PRO A 8 7 -5.54 CISPEP 8 GLY A 7 PRO A 8 8 2.09 CISPEP 9 GLY A 7 PRO A 8 9 1.27 CISPEP 10 GLY A 7 PRO A 8 10 3.35 CISPEP 11 GLY A 7 PRO A 8 11 -0.29 CISPEP 12 GLY A 7 PRO A 8 12 5.24 CISPEP 13 GLY A 7 PRO A 8 13 1.59 CISPEP 14 GLY A 7 PRO A 8 14 3.73 CISPEP 15 GLY A 7 PRO A 8 15 4.93 CISPEP 16 GLY A 7 PRO A 8 16 2.47 CISPEP 17 GLY A 7 PRO A 8 17 1.45 CISPEP 18 GLY A 7 PRO A 8 18 -1.19 CISPEP 19 GLY A 7 PRO A 8 19 2.78 CISPEP 20 GLY A 7 PRO A 8 20 4.67
SITE 1 AC1 1 GLN A 16
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