HEADER CYCLOSPORIN 27-MAR-92 2CYS OBSLTE 31-AUG-94 2CYS 3CYS TITLE THE NMR STRUCTURE OF CYCLOSPORIN A BOUND TO CYCLOPHILIN IN TITLE 2 AQUEOUS SOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE:; COMPND 3 CHAIN: NULL; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1 KEYWDS CYCLOSPORIN EXPDTA NMR AUTHOR C.WEBER,G.WIDER,B.VON FREYBERG,R.TRABER,W.BRAUN,H.WIDMER, AUTHOR 2 K.WUTHRICH REVDAT 2 31-AUG-94 2CYS 3 OBSLTE REVDAT 1 31-JAN-94 2CYS 0 JRNL AUTH C.WEBER,G.WIDER,B.VON FREYBERG,R.TRABER,W.BRAUN, JRNL AUTH 2 H.WIDMER,K.WUTHRICH JRNL TITL THE NMR STRUCTURE OF CYCLOSPORIN A BOUND TO JRNL TITL 2 CYCLOPHILIN IN AQUEOUS SOLUTION JRNL REF BIOCHEMISTRY V. 30 6563 1991 JRNL REFN ASTM BICHAW US ISSN 0006-2960 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.WUTHRICH,B.VON FREYBERG,C.WEBER,G.WIDER,R.TRABER, REMARK 1 AUTH 2 H.WIDMER,W.BRAUN REMARK 1 TITL RECEPTOR-INDUCED CONFORMATION CHANGE OF THE REMARK 1 TITL 2 IMMUNOSUPPRESSANT CYCLOSPORIN A REMARK 1 REF SCIENCE V. 254 953 1991 REMARK 1 REFN ASTM SCIEAS US ISSN 0036-8075 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.WIDER,C.WEBER,R.TRABER,H.WIDMER,K.WUTHRICH REMARK 1 TITL USE OF A DOUBLE-HALF-FILTER IN TWO-DIMENSIONAL REMARK 1 TITL 2 ==1==H NUCLEAR MAGNETIC RESONANCE STUDIES OF REMARK 1 TITL 3 RECEPTOR-BOUND CYCLOSPORIN REMARK 1 REF J.AM.CHEM.SOC. V. 112 9015 1990 REMARK 1 REFN ASTM JACSAT US ISSN 0002-7863 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2CYS COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 5 REMARK 5 2CYS THREE-DIMENSIONAL STRUCTURE IN AQUEOUS SOLUTION AS REMARK 5 2CYS DETERMINED BY NUCLEAR MAGNETIC RESONANCE, DISTANCE REMARK 5 GEOMETRY 2CYS AND RESTRAINED ENERGY REFINEMENT. 108 UPPER REMARK 5 LIMITS (37 2CYS INTRARESIDUAL, 50 SEQUENTIAL, 18 MEDIUM- REMARK 5 RANGE AND 3 2CYS LONG-RANGE LIMITS) ON DISTANCES OBTAINED REMARK 5 FROM NOE 2CYS MEASUREMENTS, 10 CONSTRAINTS ON PHI ANGLES, REMARK 5 10 CONSTRAINTS 2CYS ON PSI ANGLES AND 2 CONSTRAINTS ON CHI1 REMARK 5 ANGLES (VAL 5 AND 2CYS MLE 6) WERE USED AS CONSTRAINTS. 2CYS REMARK 6 REMARK 6 2CYS 120 CONFORMERS CONSISTENT WITH THE CONSTRAINTS WERE REMARK 6 2CYS CALCULATED BY USING THE DISTANCE GEOMETRY PROGRAM REMARK 6 DISMAN 2CYS (W. BRAUN, N. GO; J.MOL.BIOL. (1985) VOL. 186, REMARK 6 611-626). 2CYS A LIST OF ALL CONSTRAINTS IS DEPOSITED IN REMARK 6 THE PROTEIN 2CYS DATA BANK UNDER THE IDCODE 2CYS-MR. 2CYS REMARK 7 REMARK 7 2CYS FOR THE RESTRAINED ENERGY MINIMIZATION OF THE REMARK 7 CONFORMERS 2CYS THE PROGRAM FANTOM WAS USED (T.SCHAUMANN, REMARK 7 W.BRAUN,K. 2CYS WUTHRICH; BIOPOLYMERS (1989) VOL. 29, 679- REMARK 7 694). THE NMR 2CYS DISTANCE CONSTRAINTS WERE WEIGHTED SUCH REMARK 7 THAT A VIOLATION OF 2CYS AN UPPER DISTANCE LIMIT OF 0.2 REMARK 7 ANGSTROM CORRESPONDS TO AN 2CYS ENERGY OF KT/2 AND THE REMARK 7 DIHEDRAL ANGLE CONSTRAINTS WERE 2CYS WEIGHTED SUCH THAT A REMARK 7 VIOLATION OF 1 DEGREE CORRESPONDS TO 2CYS AN ENERGY OF 50* REMARK 7 KT. 9 DISTANCE CONSTRAINTS WERE ADDED TO 2CYS MAINTAIN REMARK 7 STANDARD BOND LENGTHS AND BOND ANGLES AT THE 2CYS LOCATION REMARK 7 OF CYCLIZATION BETWEEN MLE 6 AND ALA 7 AND 2CYS WEIGHTED REMARK 7 SUCH THAT A VIOLATION OF 0.03 ANGSTROMS 2CYS CORRESPONDS TO REMARK 7 KT/2. 2CYS REMARK 8 REMARK 8 2CYS THIS STRUCTURE REPRESENTS THE CONFORMER WITH THE REMARK 8 LOWEST 2CYS ECEPP/2 ENERGY AFTER ENERGY MINIMIZATION. THE REMARK 8 MAXIMAL 2CYS VIOLATION OF THE 9 CYCLIZATION DISTANCE LIMITS REMARK 8 WAS 0.02 2CYS ANGSTROMS. THE MAXIMAL VIOLATION OF THE 108 REMARK 8 UPPER LIMITS 2CYS ON DISTANCES WAS 0.44 ANGSTROMS. THE REMARK 8 MAXIMAL VIOLATION 2CYS OF THE DIHEDRAL ANGLE CONSTRAINTS REMARK 8 WAS 0.2 DEGREES. THE 2CYS BOND LENGTHS AND BOND ANGLES REMARK 8 COINCIDE EXACTLY WITH THE 2CYS STANDARD VALUES OF THE REMARK 8 ECEPP/2 FORCE FIELD (G.NEMETHY, 2CYS M.S.POTTLE, REMARK 8 H.A.SCHERAGA; J.PHYS.CHEM. (1983) VOL. 87, 2CYS 1883-1887). REMARK 8 THE ECEPP/2 ENERGY IS 99.6 KCAL/MOL. 2CYS REMARK 9 REMARK 9 2CYS CYCLOSPORIN IS A CYCLIC POLYPEPTIDE. RESIDUE 11 IS REMARK 9 LINKED 2CYS TO RESIDUE 1. NO TER RECORD IS INCLUDED SINCE REMARK 9 THE ORDER OF 2CYS THE RESIDUES IS ARBITRARY. 2CYS 2CYS REMARK 9 STRUCTURE OF CYCLOSPORIN A: 2CYS 2CYS 1 2 3 4 5 6 2CYS BMT- REMARK 9 ABA-SAR-MLE-VAL-MLE 2CYS | | 2CYS | |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