HEADER HIV-INACTIVATING PROTEIN 06-MAY-98 2EZN TITLE SOLUTION NMR STRUCTURE OF CYANOVIRIN-N ENSEMBLE OF 40 SIMULATED TITLE 2 ANNEALING STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYANOVIRIN-N; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC ELLIPSOSPORUM; SOURCE 3 ORGANISM_TAXID: 45916 KEYWDS HIV-INACTIVATING PROTEIN EXPDTA SOLUTION NMR NUMMDL 40 AUTHOR C.A.BEWLEY,A.M.GRONENBORN,G.M.CLORE REVDAT 3 09-MAR-22 2EZN 1 REMARK REVDAT 2 24-FEB-09 2EZN 1 VERSN REVDAT 1 11-MAY-99 2EZN 0 JRNL AUTH C.A.BEWLEY,K.R.GUSTAFSON,M.R.BOYD,D.G.COVELL,A.BAX, JRNL AUTH 2 G.M.CLORE,A.M.GRONENBORN JRNL TITL SOLUTION STRUCTURE OF CYANOVIRIN-N, A POTENT JRNL TITL 2 HIV-INACTIVATING PROTEIN. JRNL REF NAT.STRUCT.BIOL. V. 5 571 1998 JRNL REFN ISSN 1072-8368 JRNL PMID 9665171 JRNL DOI 10.1038/828 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, DELANO, GROSSE REMARK 3 -KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ,RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 AVE.RMS DIFF. TO MEAN FOR ALL NON-H-ATOMS (RESIDUES REMARK 3 1:101)= 0.433636 REMARK 3 REMARK 3 AVE.RMS DIFF. TO MEAN FOR BACKBONE ATOMS (N, CA, C', O) REMARK 3 (RESIDUES 1:101)= 0.139826 REMARK 3 REMARK 3 RMS DEVIATIONS FOR BONDS, ANGLES, IMPROPERS, CDIH, NOE, REMARK 3 COUP 5.067337E-03, 0.712983, 0.667194, 0.157308, REMARK 3 1.428009E-02, 0.608909 REMARK 3 C13CA AND CB SHIFTS RMS : 0.852581, 1.15742 REMARK 3 REMARK 3 JCOUP STATS: NON-GLY RESIDUES GLY REMARK 3 RMS-D: 0.608909 1.46813 REMARK 3 REMARK 3 BACKBONE DIPOLAR COUPLINGS NH CH CACO NCO HNCO REMARK 3 RMS : 0.466712 1.15058 1.29414 0.572019 1.2653 REMARK 3 REMARK 3 SIDECHAIN DIPOLAR COUPLINGS CH CH3S CH3D ARO REMARK 3 RMS DIPO_SIDE: 1.6875 0.796796 0.531907 0.160016 REMARK 3 REMARK 3 RMS FOR 1H SHIFTS: ALL ALPHA ALPHA_GLY METHYL(S) REMARK 3 METHYL(D) OTHER(S) OTHER(D) REMARK 3 RMS PROT: 0.263524 0.243015 0.23853 0.115892 0.148148 REMARK 3 0.267304 0.300122 REMARK 3 REMARK 3 IN THE RESTRAINED REGULARIZED MEAN COORDINATES (2EZM) THE REMARK 3 LAST COLUMN REPRESENTS THE AVERAGE RMS DIFFERENCE BETWEEN REMARK 3 THE INDIVIDUAL SIMULATED ANNEALING STRUCTURES AND THE MEAN REMARK 3 COORDINATE POSITIONS. THE LAST COLUMN IN THE INDIVIDUAL SA REMARK 3 STRUCTURES (2EZN) HAS NO MEANING. BEST FITTING TO GENERATE REMARK 3 THE AVERAGE STRUCTURE IS WITH RESPECT TO RESIDUES 1-101. REMARK 3 NOTE THE OCCUPANCY FIELD HAS NO MEANING. REMARK 4 REMARK 4 2EZN COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000178064. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.1 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : TRIPLE RESONANCE FOR ASSIGNMENT REMARK 210 OF PROTEIN: CBCA(CO)NH; CBCANH; REMARK 210 HNCO; C(CO)NH; H(CCO)NH; HCCH- REMARK 210 COSY; HCCH-TOCSY; HNHA; 15N- REMARK 210 SEPARATED HOHAHA; QUANTITATIVE J REMARK 210 CORRELATION FOR COUPLING REMARK 210 CONSTANTS; 3D 15N-SEPARATED NOE; REMARK 210 3D 13C-SEPARATED NOE AND ROE; 4D REMARK 210 15N/13C-SEPARATED NOE; 4D 13C/ REMARK 210 13C-SEPARATED NOE EXPERIMENTS; REMARK 210 3D HCA(CO)N FOR THREE-BOND REMARK 210 AMINIDE DEUTERIUM ISOTOPE SHIFTS; REMARK 210 VARIOUS COUPLED 2D AND 3D REMARK 210 SPECTRA TO MEASURE THE N-H; CA-H; REMARK 210 C-H CA-C'; N-C'; HN-C' DIPOLAR REMARK 210 COUPLINGS OBTAINED BY TAKING THE REMARK 210 DIFFERENCE IN THE J SPLITTINGS REMARK 210 IN ISOTROPIC MEDIUM; IN A LIQUID REMARK 210 CRYSTALLINE MEDIUM (4% 3:1 DMPC: REMARK 210 DHPC). REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : DMX500; DMX600; DMX750 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS (SEE ABOVE) ABOVE) REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 40 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE 3D STRUCTURE OF CYANOVIRIN SOLVED BY MULTI-DIMENSIONAL REMARK 210 HETERONUCLEAR NMR AND IS BASED ON 2597 EXPERIMENTAL NMR REMARK 210 RESTRAINTS: 419 SEQUENTIAL (|I- J|=1), 170 MEDIUM RANGE (1 < |I- REMARK 210 J| <=5) AND 554 LONG RANGE (|I-J| >5) INTERRESIDUES AND 19 REMARK 210 INTRARESIDUE APPROXIMATE INTERPROTON DISTANCE RESTRAINTS; 109 REMARK 210 DISTANCE RESTRAINTS FOR 55 H-BONDS; 339 TORSION ANGLE RESTRAINTS REMARK 210 (100 PHI, 98 PSI, 76 CHI1, 48 CHI2, 15 CHI3, 2 CHI4); 82 THREE- REMARK 210 BOND HN-HA COUPLING CONSTANT RESTRAINTS; 157 (82 CALPHA AND 75 REMARK 210 CBETA) 13C SHIFT RESTRAINTS; 362 1H SHIFT RESTRAINTS; AND 386 REMARK 210 DIPOLAR COUPLING RESTRAINTS (82 N-H, 76 C-H, 43 CA-C', 65 N-C' REMARK 210 62 HNC', 58 SIDE-CHAIN C-H). THE STRUCTURES WERE CALCULATED REMARK 210 USING THE SIMULATED ANNEALING PROTOCOL OF NILGES ET AL. (1988) REMARK 210 FEBS LETT. 229, 129-136 USING THE PROGRAM CNS (BRUNGER ET AL. REMARK 210 ACTA CRYST SERIES D IN PRESS) MODIFIED TO INCORPORATE COUPLING REMARK 210 CONSTANT (GARRETT ET AL. (1984) J. MAGN. RESON. SERIES B 104, 99- REMARK 210 103), CARBON CHEMICAL SHIFT (KUSZEWSKI ET AL. (1995) J. MAGN. REMARK 210 RESON. SERIES B 106, 92-96), 1H CHEMICAL SHIFT (KUSZEWSKI ET AL. REMARK 210 (1995) J. MAGN. RESON. SERIES B 107, 293-297; KUSZEWSKI ET AL. REMARK 210 (1996) J. MAGN. RESON. SERIES B 112, 79-81), AND DIPOLAR REMARK 210 COUPLING (CLORE ET AL. (1998) J. MAGN. RESON. 131, 159-162) REMARK 210 RESTRAINTS, AND A CONFORMATIONAL DATABASE POTENTIAL (KUSZEWSKI REMARK 210 ET AL. (1996) PROTEIN SCI. 5, 1067-1080; KUSZEWSKI ET AL. (1997) REMARK 210 J. MAGN. RESON 125, 171-177). 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 REMARK 500 REMARK: NULL 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 PHE A 4 -18.97 -47.30 REMARK 500 1 SER A 52 12.31 178.78 REMARK 500 1 ASN A 53 62.58 60.01 REMARK 500 2 PHE A 4 -19.96 -48.14 REMARK 500 2 SER A 52 15.59 -179.77 REMARK 500 3 SER A 52 8.46 169.97 REMARK 500 3 ILE A 55 -17.72 -46.24 REMARK 500 4 ASN A 26 31.65 -93.59 REMARK 500 4 SER A 52 15.79 168.04 REMARK 500 5 PHE A 4 -20.00 -48.46 REMARK 500 5 ASN A 26 31.00 -91.15 REMARK 500 5 SER A 52 15.17 161.95 REMARK 500 6 SER A 52 16.07 165.37 REMARK 500 7 SER A 52 12.02 166.18 REMARK 500 8 ASN A 26 30.76 -90.52 REMARK 500 8 SER A 52 13.06 165.15 REMARK 500 9 SER A 52 10.02 168.57 REMARK 500 9 ASN A 53 60.25 60.10 REMARK 500 10 PHE A 4 -19.86 -48.56 REMARK 500 10 SER A 52 15.42 178.43 REMARK 500 11 PHE A 4 -20.00 -49.69 REMARK 500 11 SER A 52 13.24 -179.31 REMARK 500 12 PHE A 4 -19.86 -47.62 REMARK 500 12 SER A 52 16.46 178.58 REMARK 500 13 SER A 52 13.56 179.33 REMARK 500 14 SER A 52 14.04 177.39 REMARK 500 15 SER A 52 12.53 168.55 REMARK 500 16 ASN A 26 30.42 -93.01 REMARK 500 16 SER A 52 13.03 179.27 REMARK 500 16 HIS A 90 -10.18 -140.12 REMARK 500 17 PHE A 4 -19.15 -47.75 REMARK 500 17 SER A 52 12.83 167.37 REMARK 500 18 SER A 52 14.95 165.84 REMARK 500 18 HIS A 90 -10.20 -140.01 REMARK 500 19 ASN A 26 30.70 -94.04 REMARK 500 19 SER A 52 11.71 -178.59 REMARK 500 19 ASN A 53 62.64 60.09 REMARK 500 20 SER A 52 12.55 166.50 REMARK 500 21 ASN A 26 30.10 -91.83 REMARK 500 21 SER A 52 16.10 166.74 REMARK 500 22 ASN A 26 30.38 -95.69 REMARK 500 22 SER A 52 14.25 179.67 REMARK 500 23 SER A 52 12.33 162.53 REMARK 500 24 SER A 52 13.15 166.63 REMARK 500 25 SER A 52 9.24 166.13 REMARK 500 25 ILE A 55 -18.26 -47.70 REMARK 500 26 SER A 52 12.43 173.48 REMARK 500 27 ASN A 26 30.98 -92.89 REMARK 500 27 SER A 52 10.51 166.40 REMARK 500 28 LYS A 3 18.18 80.37 REMARK 500 REMARK 500 THIS ENTRY HAS 72 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2EZN A 1 101 UNP P81180 CVN_NOSEL 1 101 SEQRES 1 A 101 LEU GLY LYS PHE SER GLN THR CYS TYR ASN SER ALA ILE SEQRES 2 A 101 GLN GLY SER VAL LEU THR SER THR CYS GLU ARG THR ASN SEQRES 3 A 101 GLY GLY TYR ASN THR SER SER ILE ASP LEU ASN SER VAL SEQRES 4 A 101 ILE GLU ASN VAL ASP GLY SER LEU LYS TRP GLN PRO SER SEQRES 5 A 101 ASN PHE ILE GLU THR CYS ARG ASN THR GLN LEU ALA GLY SEQRES 6 A 101 SER SER GLU LEU ALA ALA GLU CYS LYS THR ARG ALA GLN SEQRES 7 A 101 GLN PHE VAL SER THR LYS ILE ASN LEU ASP ASP HIS ILE SEQRES 8 A 101 ALA ASN ILE ASP GLY THR LEU LYS TYR GLU HELIX 1 1 PHE A 4 GLN A 6 5 3 HELIX 2 2 LEU A 36 SER A 38 5 3 HELIX 3 3 PHE A 54 GLU A 56 5 3 HELIX 4 4 LEU A 87 ASP A 89 5 3 SHEET 1 A 3 ALA A 12 GLN A 14 0 SHEET 2 A 3 VAL A 17 GLU A 23 -1 N THR A 19 O ALA A 12 SHEET 3 A 3 TYR A 29 ASP A 35 -1 N ILE A 34 O LEU A 18 SHEET 1 B 2 ILE A 40 VAL A 43 0 SHEET 2 B 2 SER A 46 TRP A 49 -1 N LYS A 48 O GLU A 41 SHEET 1 C 3 GLN A 62 ALA A 64 0 SHEET 2 C 3 GLU A 68 LYS A 74 -1 N ALA A 70 O GLN A 62 SHEET 3 C 3 PHE A 80 ASN A 86 -1 N ILE A 85 O LEU A 69 SSBOND 1 CYS A 8 CYS A 22 1555 1555 2.03 SSBOND 2 CYS A 58 CYS A 73 1555 1555 2.02 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