HEADER ANTIVIRAL PROTEIN 30-APR-08 2RP3 TITLE SOLUTION STRUCTURE OF CYANOVIRIN-N DOMAIN B MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYANOVIRIN-N; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CV-N; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC ELLIPSOSPORUM; SOURCE 3 ORGANISM_TAXID: 45916; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET26B KEYWDS CYANOVIRIN-N, HIV-INACTIVATING, GP120, MONOMER, NO 3D DOMAIN- KEYWDS 2 SWAPPING, ANTIVIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR E.MATEI,W.FUREY,A.M.GRONENBORN REVDAT 3 10-NOV-21 2RP3 1 REMARK SEQADV REVDAT 2 24-FEB-09 2RP3 1 VERSN REVDAT 1 19-AUG-08 2RP3 0 JRNL AUTH E.MATEI,W.FUREY,A.M.GRONENBORN JRNL TITL SOLUTION AND CRYSTAL STRUCTURES OF A SUGAR BINDING SITE JRNL TITL 2 MUTANT OF CYANOVIRIN-N: NO EVIDENCE OF DOMAIN SWAPPING JRNL REF STRUCTURE V. 16 1183 2008 JRNL REFN ISSN 0969-2126 JRNL PMID 18682220 JRNL DOI 10.1016/J.STR.2008.05.011 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, CNS REMARK 3 AUTHORS : HERRMANN, GUNTERT, WUTHRICH (CYANA), BRUNGER, REMARK 3 ADAMS, CLORE, DELANO, GROSSE-KUNSTLEVE, JIANG, REMARK 3 KUSZEWSKI, NILGES, PANNU, READ, RICE, SIMONSON, REMARK 3 WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BACKBONE NH DIPOLAR COUPLINGS, REMARK 3 RMS=0.64HZ REMARK 4 REMARK 4 2RP3 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-MAY-08. REMARK 100 THE DEPOSITION ID IS D_1000150113. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : ATM REMARK 210 SAMPLE CONTENTS : 1.5MM [U-100% 15N] CVNMUTDB, REMARK 210 1.5MM [U-100% 13C; U-100% 15N] REMARK 210 CVNMUTDB, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HCCH-TOCSY; 3D 15N- REMARK 210 NOESY HSQC; 13C-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, NMRPIPE, NMRVIEW, REMARK 210 CYANA, TALOS, DYNAMO(NMRPIPE) 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 REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE INITIAL STRUCTURES WERE OBTAINED USING CYANA AUTOMATIC REMARK 210 CALCULATION, BASED ON CHEMICAL SHIFT LISTS FROM SEQUENCE- REMARK 210 SPECIFIC RESONANCE ASSIGNMENT AND NOES FROM 15N AND 13C-EDITED REMARK 210 3D-NOESY SPECTRA. THROUGHOUT ALL CALCULATIONS, 126 BACKBONE REMARK 210 TORSION ANGLE CONSTRAINTS DERIVED FROM TALOS, WERE EMPLOYED. CNS REMARK 210 WAS USED FOR FURTHER REFINEMENT, USING THE DISTANCE AND DIHEDRAL REMARK 210 ANGLE CONSTRAINTS OBTAINED FROM THE FINAL CYCLE OF THE CYANA REMARK 210 CALCULATION, AND SEVERAL ADDITIONAL NOE CONSTRAINTS FROM MANUAL REMARK 210 CHECKING OF THE 3D NOESY DATA. IN TOTAL, 2076 EXPERIMENTAL NOE- REMARK 210 RESTRAINTS (~20 PER RESIDUE) WERE EMPLOYED. FROM NOE-DERIVED REMARK 210 ENSEMBLE OF 50 STRUCTURES THE 20 LOWEST ENERGY STRUCTURES WERE REMARK 210 FURTHER REFINED AGAINST 15N-1H RESIDUAL DIPOLAR COUPLINGS (62) REMARK 210 WITH THE PROGRAM DYNAMO INCLUDED IN THE NMRPIPE PACKAGE. 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 1 LYS A 3 40.91 38.95 REMARK 500 1 SER A 16 28.73 -157.08 REMARK 500 1 ASN A 26 -61.97 -104.53 REMARK 500 1 VAL A 39 11.09 -142.22 REMARK 500 1 GLN A 50 58.98 35.30 REMARK 500 1 SER A 66 -44.20 168.76 REMARK 500 1 HIS A 90 -43.35 -154.81 REMARK 500 2 LYS A 3 60.49 37.65 REMARK 500 2 GLN A 14 89.65 -156.46 REMARK 500 2 SER A 16 21.82 -161.46 REMARK 500 2 VAL A 39 11.43 -142.81 REMARK 500 2 TRP A 49 -170.42 -66.86 REMARK 500 2 GLN A 50 61.77 34.19 REMARK 500 2 SER A 66 -40.25 164.51 REMARK 500 2 HIS A 90 -39.49 -142.58 REMARK 500 3 LYS A 3 44.11 38.36 REMARK 500 3 GLN A 14 88.73 -153.30 REMARK 500 3 SER A 16 27.05 -159.40 REMARK 500 3 VAL A 39 11.47 -143.07 REMARK 500 3 GLN A 50 63.23 28.47 REMARK 500 3 SER A 66 -40.42 161.21 REMARK 500 3 HIS A 90 -42.24 -148.63 REMARK 500 4 LYS A 3 44.84 38.29 REMARK 500 4 SER A 16 34.33 -156.23 REMARK 500 4 ASN A 26 -60.76 -103.84 REMARK 500 4 VAL A 39 11.31 -141.98 REMARK 500 4 GLN A 50 66.51 34.00 REMARK 500 4 SER A 66 -42.82 169.74 REMARK 500 4 HIS A 90 -44.28 -145.66 REMARK 500 4 ASP A 95 29.59 46.02 REMARK 500 5 GLN A 14 87.44 -156.33 REMARK 500 5 SER A 16 27.55 -166.18 REMARK 500 5 VAL A 39 12.17 -143.64 REMARK 500 5 GLN A 50 64.01 34.99 REMARK 500 5 SER A 66 -43.85 -179.72 REMARK 500 5 HIS A 90 -40.67 -142.53 REMARK 500 6 LYS A 3 40.39 39.39 REMARK 500 6 SER A 16 29.68 -154.34 REMARK 500 6 TRP A 49 -165.36 -79.61 REMARK 500 6 GLN A 50 65.40 26.23 REMARK 500 6 SER A 66 -39.46 162.12 REMARK 500 6 HIS A 90 -42.61 -151.06 REMARK 500 7 LYS A 3 73.00 38.22 REMARK 500 7 SER A 16 30.04 -156.95 REMARK 500 7 VAL A 39 11.72 -141.04 REMARK 500 7 TRP A 49 -170.08 -67.19 REMARK 500 7 GLN A 50 60.12 33.47 REMARK 500 7 SER A 66 -44.70 167.53 REMARK 500 7 HIS A 90 -35.59 -130.04 REMARK 500 8 LYS A 3 43.99 38.41 REMARK 500 REMARK 500 THIS ENTRY HAS 144 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2EZM RELATED DB: PDB REMARK 900 SOLUTION MONOMERIC NMR STRUCTURE OF WILD TYPE CYANOVIRIN DBREF 2RP3 A 1 101 UNP P81180 CVN_NOSEL 1 101 SEQADV 2RP3 ALA A 41 UNP P81180 GLU 41 ENGINEERED MUTATION SEQADV 2RP3 ALA A 42 UNP P81180 ASN 42 ENGINEERED MUTATION SEQADV 2RP3 GLY A 51 UNP P81180 PRO 51 ENGINEERED MUTATION SEQADV 2RP3 ALA A 57 UNP P81180 THR 57 ENGINEERED MUTATION SEQADV 2RP3 ALA A 76 UNP P81180 ARG 76 ENGINEERED MUTATION SEQADV 2RP3 GLY A 78 UNP P81180 GLN 78 ENGINEERED MUTATION 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 ALA ALA VAL ASP GLY SER LEU LYS TRP GLN GLY SER SEQRES 5 A 101 ASN PHE ILE GLU ALA CYS ARG ASN THR GLN LEU ALA GLY SEQRES 6 A 101 SER SER GLU LEU ALA ALA GLU CYS LYS THR ALA ALA GLY 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 LYS A 3 GLN A 6 5 4 HELIX 2 2 ASN A 37 VAL A 39 5 3 HELIX 3 3 PHE A 54 GLU A 56 5 3 SHEET 1 A 3 CYS A 8 ILE A 13 0 SHEET 2 A 3 VAL A 17 GLU A 23 -1 O THR A 21 N TYR A 9 SHEET 3 A 3 TYR A 29 ASP A 35 -1 O ASN A 30 N CYS A 22 SHEET 1 B 2 ALA A 41 ALA A 42 0 SHEET 2 B 2 LEU A 47 LYS A 48 -1 O LYS A 48 N ALA A 41 SHEET 1 C 3 CYS A 58 ALA A 64 0 SHEET 2 C 3 GLU A 68 LYS A 74 -1 O GLU A 72 N ARG A 59 SHEET 3 C 3 PHE A 80 ASN A 86 -1 O THR A 83 N ALA A 71 SHEET 1 D 2 ILE A 91 ILE A 94 0 SHEET 2 D 2 THR A 97 TYR A 100 -1 O THR A 97 N ILE A 94 SSBOND 1 CYS A 8 CYS A 22 1555 1555 2.02 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