HEADER DE NOVO PROTEIN 11-OCT-02 1N0D TITLE STABILITY OF CYCLIC BETA-HAIRPINS: ASYMMETRIC CONTIBUTIONS FROM SIDE TITLE 2 CHAINS OF HYDROGEN BONDED CROSS-STRAND RESIDUE PAIR COMPND MOL_ID: 1; COMPND 2 MOLECULE: BHP_VWLH, DISULFIDE CYCLIZED BETA-HAIRPIN PEPTIDE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THE STRUCTURE HAS A VALINE AND HISTIDINE HYDROGEN- COMPND 6 BONDED CROSS-STRAND PAIR. SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS BETA HAIRPIN, BETA TURN, CYCLIC DISULFIDE, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.J.RUSSELL,T.BLANDL,N.J.SKELTON,A.G.COCHRAN REVDAT 3 23-FEB-22 1N0D 1 REMARK LINK REVDAT 2 24-FEB-09 1N0D 1 VERSN REVDAT 1 04-FEB-03 1N0D 0 JRNL AUTH S.J.RUSSELL,T.BLANDL,N.J.SKELTON,A.G.COCHRAN JRNL TITL STABILITY OF CYCLIC BETA-HAIRPINS: ASYMMETRIC CONTRIBUTIONS JRNL TITL 2 FROM SIDE CHAINS OF HYDROGEN BONDED CROSS-STRAND RESIDUE JRNL TITL 3 PAIR JRNL REF J.AM.CHEM.SOC. V. 125 388 2003 JRNL REFN ISSN 0002-7863 JRNL PMID 12517150 JRNL DOI 10.1021/JA028075L REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.1, AMBER 6.0 REMARK 3 AUTHORS : BRUKER (XWINNMR), CASE, KOLLMAN ET AL. (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 100 STRUCTURES WERE CALCULATED USING DISTANCE GEOMETRY. REMARK 3 THE 80 STRUCTURES OF LOWEST PENALTY FUNCTION WERE REFINED USING REMARK 3 THE SANDER MODULE OF AMBER (V6.0). REMARK 3 THE CALCULATION EMPLOYED 72 DISTANCE RESTRAINTS, 11 DIHEDRAL ANGLE REMARK 3 RESTRAINTS AND 8 CHEMICAL SHIFT RESTRAINTS. REMARK 3 THE 20 STRUCTURES OF LOWEST VIOLATION ENERGY WERE CHOSEN TO REMARK 3 REPRESENT THE STRUCTURE. REMARK 3 THERE ARE NO VIOLATIONS OF THE INPUT RESTRAINTS > 0.1 A OR 2 REMARK 3 DEGREES. REMARK 3 THE RMS. DIFFERENCE BETWEEN CALCULATION AND OBSERVED CHEMICAL REMARK 3 SHIFTS IS 0.07 PPM. REMARK 3 78% OF THE BACKBONE GEOMETRIES ARE IN THE MOST FAVOURABLE REGION REMARK 3 OFTHE RAMACHANDRAN PLOT. REMARK 3 THE BACKBONE HEAVY ATOM RMSD FROM THE MEAN STRUCTURE IS 0.29+/- REMARK 3 0.05 A. REMARK 4 REMARK 4 1N0D COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-OCT-02. REMARK 100 THE DEPOSITION ID IS D_1000017361. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293; 293 REMARK 210 PH : 5.0; 5.0 REMARK 210 IONIC STRENGTH : 0; 0 REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 5 MM PEPTIDE, UNBUFFERED; 5 MM REMARK 210 PEPTIDE, UNBUFFERED REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : DQF-COSY; 2D TOCSY; 2D ROESY; 2D REMARK 210 COSY-35 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 : FELIX 980, DGII 980, AMBER 6.0 REMARK 210 METHOD USED : DISTANCE GEOMETRY AND RESTRAINED REMARK 210 MOLECULAR DYNAMICS WITH CHEMICAL REMARK 210 SHIFT REFINEMENT 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 : 5 REMARK 210 REMARK 210 REMARK: RESONANCE ASSIGNMENTS WERE MADE USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES 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 GLU A 5 57.25 -96.46 REMARK 500 6 GLU A 5 77.72 -106.68 REMARK 500 10 ASN A 7 10.81 -142.84 REMARK 500 14 GLU A 5 66.95 -108.43 REMARK 500 17 ASN A 7 11.26 -148.11 REMARK 500 20 GLU A 5 40.31 -90.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 A 12 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1N09 RELATED DB: PDB REMARK 900 A MINIMAL BETA-HAIRPIN PEPTIDE SCAFFOLD FOR BETA-TURN DISPLAY REMARK 900 RELATED ID: 1N0C RELATED DB: PDB REMARK 900 STABILITY OF CYCLIC BETA-HAIRPINS: ASYMMETRIC CONTIBUTIONS FROM REMARK 900 SIDE CHAINS OF HYDROGEN BONDED CROSS-STRAND RESIDUE PAIR REMARK 999 REMARK 999 SEQUENCE REMARK 999 THERE IS NO SEQUENCE DATABASE REFERENCE SINCE REMARK 999 THE PEPTIDE IS A DE NOVO DESIGNED SEQUENCE. DBREF 1N0D A 1 12 PDB 1N0D 1N0D 1 12 SEQRES 1 A 12 ACE CYS VAL TRP GLU GLY ASN LYS LEU HIS CYS NH2 HET ACE A 1 6 HET NH2 A 12 3 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP FORMUL 1 ACE C2 H4 O FORMUL 1 NH2 H2 N SHEET 1 A 2 VAL A 3 TRP A 4 0 SHEET 2 A 2 LEU A 9 HIS A 10 -1 O HIS A 10 N VAL A 3 SSBOND 1 CYS A 2 CYS A 11 1555 1555 2.04 LINK C ACE A 1 N CYS A 2 1555 1555 1.34 LINK C CYS A 11 N NH2 A 12 1555 1555 1.33 SITE 1 AC2 1 CYS A 11 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 HETATM 1 C ACE A 1 9.729 1.902 -9.636 1.00 0.00 C HETATM 2 O ACE A 1 9.821 0.789 -9.120 1.00 0.00 O HETATM 3 CH3 ACE A 1 10.971 2.735 -9.881 1.00 0.00 C HETATM 4 H1 ACE A 1 11.848 2.093 -9.810 1.00 0.00 H HETATM 5 H2 ACE A 1 10.930 3.195 -10.867 1.00 0.00 H HETATM 6 H3 ACE A 1 11.031 3.505 -9.112 1.00 0.00 H