HEADER TRANSCRIPTION REPRESSOR 04-JAN-13 2M30 TITLE SOLUTION NMR REFINEMENT OF A METAL ION BOUND PROTEIN USING QUANTUM TITLE 2 MECHANICAL/MOLECULAR MECHANICAL AND MOLECULAR DYNAMICS METHODS COMPND MOL_ID: 1; COMPND 2 MOLECULE: REPRESSOR PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: CZRA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PET3A KEYWDS METAL ION REFINEMENT, TRANSCRIPTION REPRESSOR EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR D.K.CHAKRAVORTY,B.I.WANG,C.I.LEE,A.J.GUERRA,D.P.GIEDROC,K.M.MERZ JR., AUTHOR 2 A.I.ARUNKUMAR,M.PENNELLA,X.KONG REVDAT 3 01-MAY-24 2M30 1 REMARK LINK REVDAT 2 24-JUL-13 2M30 1 JRNL REVDAT 1 08-MAY-13 2M30 0 JRNL AUTH D.K.CHAKRAVORTY,B.WANG,C.W.LEE,A.J.GUERRA,D.P.GIEDROC, JRNL AUTH 2 K.M.MERZ JRNL TITL SOLUTION NMR REFINEMENT OF A METAL ION BOUND PROTEIN USING JRNL TITL 2 METAL ION INCLUSIVE RESTRAINED MOLECULAR DYNAMICS METHODS. JRNL REF J.BIOMOL.NMR V. 56 125 2013 JRNL REFN ISSN 0925-2738 JRNL PMID 23609042 JRNL DOI 10.1007/S10858-013-9729-7 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, AMBER 11 REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), DAVID CASE ET AL. (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 132 NS OF COMBINED NOE AND RDC REMARK 3 CONSTRAINED MOLECULAR DYNAMICS AND QUANTUM MECHANICAL / REMARK 3 MOLECULAR MECHANICAL MOLECULAR DYNAMICS REMARK 4 REMARK 4 2M30 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000103144. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 2 MM [U-100% 13C; U-100% 15N] REMARK 210 CZRA, 2.4 MM ZINC ION, 10 MM [U- REMARK 210 100% 2H] MES, 50 MM SODIUM REMARK 210 CHLORIDE, 95% H2O/5% D2O; 2 MM REMARK 210 [U-2H; U-15N]; [U-13C]-ILE,LEU, REMARK 210 VAL-METHYL CZRA, 2.4 MM ZINC ION, REMARK 210 10 MM [U-100% 2H] MES, 50 MM REMARK 210 SODIUM CHLORIDE, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N TROSY; 2D 1H-13C HMQC; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 C(CO)NH; 3D H(CCO)NH; 3D HNCO; REMARK 210 2D 1H-15N IPAP-HSQC; 3D 1H-15N REMARK 210 NOESY-TROSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, MARS, AMBER 11 REMARK 210 METHOD USED : MOLECULAR DYNAMICS AND QUANTUM REMARK 210 MECHANICAL MOLECULAR MECHANICAL REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1320 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES FROM 1 NS OF REMARK 210 INDEPENDENT QM/MM MD SAMPLING REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: RESIDUAL DIPOLAR COUPLINGS WERE MEASURED IN ANISOTROPIC REMARK 210 ENVIRONMENT USING PHAGE OR GELS. 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3229 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11085 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -95.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 GLU A 3 REMARK 465 GLN A 4 REMARK 465 TYR A 5 REMARK 465 SER A 6 REMARK 465 GLU A 7 REMARK 465 ILE A 8 REMARK 465 SER A 104 REMARK 465 GLY A 105 REMARK 465 LEU A 106 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLU B 3 REMARK 465 GLN B 4 REMARK 465 TYR B 5 REMARK 465 SER B 6 REMARK 465 GLU B 7 REMARK 465 ILE B 8 REMARK 465 SER B 104 REMARK 465 GLY B 105 REMARK 465 LEU B 106 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 O ILE A 85 HG1 THR A 89 1.41 REMARK 500 HG1 THR B 10 OE1 GLU B 14 1.46 REMARK 500 O ILE B 85 HG1 THR B 89 1.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 1 SER A 38 CB SER A 38 OG 0.097 REMARK 500 1 HIS B 97 CG HIS B 97 CD2 0.055 REMARK 500 2 GLU A 39 CD GLU A 39 OE1 -0.071 REMARK 500 2 SER A 77 CB SER A 77 OG -0.087 REMARK 500 2 HIS B 44 CG HIS B 44 CD2 0.056 REMARK 500 3 ARG A 30 CZ ARG A 30 NH1 -0.120 REMARK 500 3 HIS A 97 CG HIS A 97 CD2 0.077 REMARK 500 3 HIS B 86 CG HIS B 86 CD2 0.058 REMARK 500 3 HIS B 97 CG HIS B 97 CD2 0.075 REMARK 500 4 TYR A 80 CZ TYR A 80 CE2 0.085 REMARK 500 4 HIS A 86 CG HIS A 86 CD2 0.059 REMARK 500 4 HIS A 100 CG HIS A 100 CD2 0.056 REMARK 500 4 HIS B 100 CG HIS B 100 CD2 0.063 REMARK 500 5 ARG A 15 CZ ARG A 15 NH1 -0.095 REMARK 500 5 HIS A 97 CG HIS A 97 CD2 0.076 REMARK 500 6 SER B 46 CB SER B 46 OG -0.109 REMARK 500 6 HIS B 97 CG HIS B 97 CD2 0.063 REMARK 500 7 SER A 46 CB SER A 46 OG -0.104 REMARK 500 7 HIS B 100 CG HIS B 100 CD2 0.054 REMARK 500 8 GLY A 24 CA GLY A 24 C 0.104 REMARK 500 8 SER A 41 N SER A 41 CA 0.128 REMARK 500 9 GLU A 18 CG GLU A 18 CD 0.096 REMARK 500 9 ARG A 73 CZ ARG A 73 NH1 -0.082 REMARK 500 9 TYR B 26 CE1 TYR B 26 CZ 0.088 REMARK 500 9 HIS B 97 CG HIS B 97 CD2 0.057 REMARK 500 10 HIS B 100 CG HIS B 100 CD2 0.068 REMARK 500 10 GLU B 103 CG GLU B 103 CD 0.109 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 ARG A 15 NE - CZ - NH1 ANGL. DEV. = 6.7 DEGREES REMARK 500 1 ARG A 15 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 1 ILE A 19 CA - CB - CG1 ANGL. DEV. = 13.8 DEGREES REMARK 500 1 PHE A 20 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 1 ASP A 25 CB - CG - OD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 1 ARG A 28 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 1 ARG A 28 NE - CZ - NH2 ANGL. DEV. = -5.9 DEGREES REMARK 500 1 ARG A 30 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 1 VAL A 42 CG1 - CB - CG2 ANGL. DEV. = -10.8 DEGREES REMARK 500 1 VAL A 56 CA - CB - CG1 ANGL. DEV. = -9.5 DEGREES REMARK 500 1 ASP A 84 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 1 TYR B 26 CB - CG - CD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 1 ARG B 30 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 1 ARG B 30 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 1 LEU B 49 CB - CG - CD2 ANGL. DEV. = -10.8 DEGREES REMARK 500 1 ARG B 73 CD - NE - CZ ANGL. DEV. = 10.8 DEGREES REMARK 500 1 ARG B 73 NE - CZ - NH1 ANGL. DEV. = 5.1 DEGREES REMARK 500 1 ARG B 73 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 1 ASP B 84 CB - CG - OD1 ANGL. DEV. = 8.9 DEGREES REMARK 500 1 PRO B 101 N - CA - CB ANGL. DEV. = 8.2 DEGREES REMARK 500 2 ASP A 11 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 2 ARG A 15 NE - CZ - NH1 ANGL. DEV. = 8.4 DEGREES REMARK 500 2 ASP A 25 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 2 ARG A 28 CD - NE - CZ ANGL. DEV. = 12.0 DEGREES REMARK 500 2 ARG A 30 CD - NE - CZ ANGL. DEV. = 9.7 DEGREES REMARK 500 2 ARG A 30 NH1 - CZ - NH2 ANGL. DEV. = -7.7 DEGREES REMARK 500 2 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 7.7 DEGREES REMARK 500 2 VAL A 56 O - C - N ANGL. DEV. = -9.9 DEGREES REMARK 500 2 ASP A 84 CB - CG - OD1 ANGL. DEV. = 8.0 DEGREES REMARK 500 2 ARG B 15 NE - CZ - NH1 ANGL. DEV. = 8.2 DEGREES REMARK 500 2 ARG B 15 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 2 TYR B 26 CZ - CE2 - CD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 2 ARG B 28 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 2 ARG B 30 NE - CZ - NH1 ANGL. DEV. = 9.2 DEGREES REMARK 500 2 ARG B 30 NE - CZ - NH2 ANGL. DEV. = -8.0 DEGREES REMARK 500 2 VAL B 37 CA - CB - CG2 ANGL. DEV. = 9.5 DEGREES REMARK 500 2 GLU B 39 OE1 - CD - OE2 ANGL. DEV. = -8.8 DEGREES REMARK 500 2 ALA B 40 CB - CA - C ANGL. DEV. = 11.5 DEGREES REMARK 500 2 ARG B 73 NE - CZ - NH1 ANGL. DEV. = 5.4 DEGREES REMARK 500 2 TYR B 80 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 2 TYR B 80 CG - CD1 - CE1 ANGL. DEV. = -4.8 DEGREES REMARK 500 2 ASP B 84 CB - CG - OD1 ANGL. DEV. = 9.2 DEGREES REMARK 500 2 ASP B 84 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 3 ARG A 15 NH1 - CZ - NH2 ANGL. DEV. = -8.2 DEGREES REMARK 500 3 ARG A 15 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 3 ARG A 15 NE - CZ - NH2 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 ALA A 22 CB - CA - C ANGL. DEV. = -9.8 DEGREES REMARK 500 3 ARG A 28 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 3 ARG A 30 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 192 ANGLE DEVIATIONS. 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 THR A 10 -36.83 -148.50 REMARK 500 1 ASP A 11 -40.16 56.70 REMARK 500 1 THR A 12 -18.25 -150.04 REMARK 500 1 ALA A 22 -14.03 -168.69 REMARK 500 1 LEU A 23 -131.83 -104.96 REMARK 500 1 TYR A 26 -75.73 -81.83 REMARK 500 1 ARG A 28 -41.26 -22.60 REMARK 500 1 GLU A 33 -64.82 -22.20 REMARK 500 1 VAL A 37 -39.07 -130.56 REMARK 500 1 VAL A 42 -64.30 -8.73 REMARK 500 1 LEU A 51 -152.46 -108.85 REMARK 500 1 SER A 57 6.88 -60.57 REMARK 500 1 ILE A 95 11.75 -67.37 REMARK 500 1 THR B 10 -19.79 -147.21 REMARK 500 1 ASP B 11 -53.79 63.77 REMARK 500 1 THR B 12 -71.72 -95.58 REMARK 500 1 GLU B 14 0.89 -69.61 REMARK 500 1 GLU B 33 -70.88 -5.01 REMARK 500 1 VAL B 42 -58.25 -19.12 REMARK 500 1 SER B 57 -5.18 -51.37 REMARK 500 1 GLN B 74 107.44 -161.27 REMARK 500 1 GLN B 76 24.23 -140.05 REMARK 500 1 LYS B 102 112.83 -167.83 REMARK 500 2 THR A 10 -19.20 -147.03 REMARK 500 2 ASP A 11 -38.76 46.11 REMARK 500 2 THR A 12 -20.57 -151.12 REMARK 500 2 LYS A 21 43.91 -57.17 REMARK 500 2 ALA A 22 -8.18 -166.17 REMARK 500 2 LEU A 23 -127.76 -107.54 REMARK 500 2 TYR A 26 -65.74 -91.52 REMARK 500 2 ARG A 28 -54.82 -12.91 REMARK 500 2 GLU A 33 -37.21 -30.63 REMARK 500 2 VAL A 42 -59.80 -18.06 REMARK 500 2 LEU A 51 -132.16 -119.45 REMARK 500 2 SER A 57 6.39 -63.04 REMARK 500 2 ILE A 95 -7.43 -52.34 REMARK 500 2 HIS A 100 57.29 -149.03 REMARK 500 2 ASP B 11 -19.15 49.98 REMARK 500 2 THR B 12 -66.39 -140.79 REMARK 500 2 GLU B 14 20.42 -65.48 REMARK 500 2 ARG B 15 -15.44 -144.49 REMARK 500 2 VAL B 42 -46.88 -9.22 REMARK 500 2 SER B 46 1.65 -56.83 REMARK 500 2 SER B 57 12.31 -63.83 REMARK 500 2 HIS B 67 11.28 54.83 REMARK 500 3 THR A 10 -35.23 -145.79 REMARK 500 3 ASP A 11 -38.58 57.81 REMARK 500 3 THR A 12 -33.36 -164.73 REMARK 500 3 LYS A 21 54.21 -61.51 REMARK 500 3 ALA A 22 -8.86 -174.62 REMARK 500 REMARK 500 THIS ENTRY HAS 213 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 MET A 32 GLU A 33 1 144.63 REMARK 500 MET B 32 GLU B 33 1 130.35 REMARK 500 PHE A 20 LYS A 21 2 148.91 REMARK 500 MET A 32 GLU A 33 2 138.36 REMARK 500 MET B 32 GLU B 33 2 143.01 REMARK 500 PHE A 20 LYS A 21 3 144.28 REMARK 500 MET A 32 GLU A 33 3 148.59 REMARK 500 MET B 32 GLU B 33 3 135.02 REMARK 500 ASP B 83 ASP B 84 3 141.81 REMARK 500 PHE A 20 LYS A 21 4 146.93 REMARK 500 MET A 32 GLU A 33 4 139.93 REMARK 500 MET B 32 GLU B 33 4 140.28 REMARK 500 ASP B 83 ASP B 84 4 141.85 REMARK 500 HIS A 100 PRO A 101 5 -147.27 REMARK 500 MET B 32 GLU B 33 5 140.35 REMARK 500 PHE A 20 LYS A 21 6 141.27 REMARK 500 MET A 32 GLU A 33 6 144.11 REMARK 500 MET B 32 GLU B 33 6 141.64 REMARK 500 SER B 81 LEU B 82 6 143.09 REMARK 500 MET A 32 GLU A 33 7 135.28 REMARK 500 MET B 32 GLU B 33 7 141.89 REMARK 500 MET A 32 GLU A 33 8 141.32 REMARK 500 MET B 32 GLU B 33 8 135.63 REMARK 500 SER B 81 LEU B 82 8 147.58 REMARK 500 PHE A 20 LYS A 21 9 147.09 REMARK 500 MET A 32 GLU A 33 9 145.29 REMARK 500 MET B 32 GLU B 33 9 139.80 REMARK 500 MET A 32 GLU A 33 10 149.71 REMARK 500 ARG B 15 VAL B 16 10 149.92 REMARK 500 LYS B 70 ALA B 71 10 149.46 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 1 ARG A 28 0.11 SIDE CHAIN REMARK 500 1 TYR A 80 0.08 SIDE CHAIN REMARK 500 1 GLN B 76 0.08 SIDE CHAIN REMARK 500 2 ARG A 30 0.09 SIDE CHAIN REMARK 500 2 HIS A 67 0.08 SIDE CHAIN REMARK 500 2 TYR A 80 0.07 SIDE CHAIN REMARK 500 2 ASP A 83 0.07 SIDE CHAIN REMARK 500 2 HIS A 97 0.08 SIDE CHAIN REMARK 500 2 ARG B 15 0.14 SIDE CHAIN REMARK 500 2 HIS B 67 0.11 SIDE CHAIN REMARK 500 3 ARG B 15 0.15 SIDE CHAIN REMARK 500 3 TYR B 26 0.08 SIDE CHAIN REMARK 500 4 HIS A 47 0.07 SIDE CHAIN REMARK 500 4 TYR A 80 0.15 SIDE CHAIN REMARK 500 4 TYR B 80 0.12 SIDE CHAIN REMARK 500 4 HIS B 100 0.08 SIDE CHAIN REMARK 500 5 HIS B 67 0.10 SIDE CHAIN REMARK 500 5 ARG B 73 0.09 SIDE CHAIN REMARK 500 6 ARG A 28 0.10 SIDE CHAIN REMARK 500 6 TYR A 80 0.11 SIDE CHAIN REMARK 500 6 HIS A 97 0.10 SIDE CHAIN REMARK 500 7 ARG A 15 0.10 SIDE CHAIN REMARK 500 7 TYR A 80 0.09 SIDE CHAIN REMARK 500 7 ARG B 28 0.15 SIDE CHAIN REMARK 500 8 HIS A 47 0.12 SIDE CHAIN REMARK 500 8 TYR A 80 0.08 SIDE CHAIN REMARK 500 8 TYR B 26 0.07 SIDE CHAIN REMARK 500 8 ARG B 73 0.11 SIDE CHAIN REMARK 500 9 ARG A 30 0.09 SIDE CHAIN REMARK 500 9 HIS A 67 0.08 SIDE CHAIN REMARK 500 9 TYR A 80 0.08 SIDE CHAIN REMARK 500 9 TYR B 80 0.08 SIDE CHAIN REMARK 500 10 PHE A 20 0.07 SIDE CHAIN REMARK 500 10 ARG A 30 0.10 SIDE CHAIN REMARK 500 10 TYR B 26 0.08 SIDE CHAIN REMARK 500 10 ARG B 28 0.09 SIDE CHAIN REMARK 500 10 HIS B 86 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 1 GLU B 39 -10.67 REMARK 500 2 VAL A 56 -11.34 REMARK 500 2 VAL B 56 -13.56 REMARK 500 3 VAL B 56 -11.15 REMARK 500 4 ASN A 55 -10.30 REMARK 500 4 ALA B 94 -10.37 REMARK 500 6 SER A 46 -10.58 REMARK 500 6 GLN A 48 -11.91 REMARK 500 6 SER B 81 -10.75 REMARK 500 7 THR B 12 -11.86 REMARK 500 9 VAL B 56 -11.10 REMARK 500 10 ARG B 28 -11.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 84 OD2 REMARK 620 2 ASP A 84 OD1 54.9 REMARK 620 3 HIS A 86 ND1 104.5 79.6 REMARK 620 4 HIS B 97 ND1 100.1 73.8 122.5 REMARK 620 5 HIS B 100 NE2 100.1 155.0 110.0 115.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 97 ND1 REMARK 620 2 HIS A 100 NE2 103.4 REMARK 620 3 ASP B 84 OD2 108.2 91.9 REMARK 620 4 ASP B 84 OD1 77.6 146.2 57.0 REMARK 620 5 HIS B 86 ND1 130.6 116.5 98.7 84.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1R1V RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ZN-BOUND FORM OF THIS REPRESSOR REMARK 900 RELATED ID: 1R1U RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE APO-FORM OF THIS REPRESSOR REMARK 900 RELATED ID: 2KJB RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THIS REPRESSOR IN THE DNA BOUND STATE REMARK 900 RELATED ID: 2KJC RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THIS REPRESSOR IN THE ZN-BOUND STATE REMARK 900 RELATED ID: 7376 RELATED DB: BMRB DBREF 2M30 A 1 106 UNP Q7A4C3 Q7A4C3_STAAN 1 106 DBREF 2M30 B 1 106 UNP Q7A4C3 Q7A4C3_STAAN 1 106 SEQRES 1 A 106 MET SER GLU GLN TYR SER GLU ILE ASN THR ASP THR LEU SEQRES 2 A 106 GLU ARG VAL THR GLU ILE PHE LYS ALA LEU GLY ASP TYR SEQRES 3 A 106 ASN ARG ILE ARG ILE MET GLU LEU LEU SER VAL SER GLU SEQRES 4 A 106 ALA SER VAL GLY HIS ILE SER HIS GLN LEU ASN LEU SER SEQRES 5 A 106 GLN SER ASN VAL SER HIS GLN LEU LYS LEU LEU LYS SER SEQRES 6 A 106 VAL HIS LEU VAL LYS ALA LYS ARG GLN GLY GLN SER MET SEQRES 7 A 106 ILE TYR SER LEU ASP ASP ILE HIS VAL ALA THR MET LEU SEQRES 8 A 106 LYS GLN ALA ILE HIS HIS ALA ASN HIS PRO LYS GLU SER SEQRES 9 A 106 GLY LEU SEQRES 1 B 106 MET SER GLU GLN TYR SER GLU ILE ASN THR ASP THR LEU SEQRES 2 B 106 GLU ARG VAL THR GLU ILE PHE LYS ALA LEU GLY ASP TYR SEQRES 3 B 106 ASN ARG ILE ARG ILE MET GLU LEU LEU SER VAL SER GLU SEQRES 4 B 106 ALA SER VAL GLY HIS ILE SER HIS GLN LEU ASN LEU SER SEQRES 5 B 106 GLN SER ASN VAL SER HIS GLN LEU LYS LEU LEU LYS SER SEQRES 6 B 106 VAL HIS LEU VAL LYS ALA LYS ARG GLN GLY GLN SER MET SEQRES 7 B 106 ILE TYR SER LEU ASP ASP ILE HIS VAL ALA THR MET LEU SEQRES 8 B 106 LYS GLN ALA ILE HIS HIS ALA ASN HIS PRO LYS GLU SER SEQRES 9 B 106 GLY LEU HET ZN A 201 1 HET ZN B 201 1 HETNAM ZN ZINC ION FORMUL 3 ZN 2(ZN 2+) HELIX 1 1 THR A 12 LYS A 21 1 10 HELIX 2 2 TYR A 26 SER A 36 1 11 HELIX 3 3 SER A 41 LEU A 49 1 9 HELIX 4 4 SER A 52 VAL A 66 1 15 HELIX 5 5 ASP A 84 ALA A 98 1 15 HELIX 6 6 THR B 12 LEU B 23 1 12 HELIX 7 7 ASP B 25 SER B 36 1 12 HELIX 8 8 SER B 41 LEU B 49 1 9 HELIX 9 9 SER B 52 VAL B 66 1 15 HELIX 10 10 ASP B 84 ALA B 98 1 15 SHEET 1 A 2 VAL A 69 GLN A 74 0 SHEET 2 A 2 SER A 77 LEU A 82 -1 O SER A 77 N GLN A 74 SHEET 1 B 2 VAL B 69 GLN B 74 0 SHEET 2 B 2 SER B 77 LEU B 82 -1 O SER B 81 N LYS B 70 LINK OD2 ASP A 84 ZN ZN B 201 1555 1555 2.09 LINK OD1 ASP A 84 ZN ZN B 201 1555 1555 2.68 LINK ND1 HIS A 86 ZN ZN B 201 1555 1555 1.93 LINK ND1 HIS A 97 ZN ZN A 201 1555 1555 1.98 LINK NE2 HIS A 100 ZN ZN A 201 1555 1555 2.03 LINK ZN ZN A 201 OD2 ASP B 84 1555 1555 2.14 LINK ZN ZN A 201 OD1 ASP B 84 1555 1555 2.51 LINK ZN ZN A 201 ND1 HIS B 86 1555 1555 1.91 LINK ND1 HIS B 97 ZN ZN B 201 1555 1555 1.98 LINK NE2 HIS B 100 ZN ZN B 201 1555 1555 1.94 SITE 1 AC1 4 HIS A 97 HIS A 100 ASP B 84 HIS B 86 SITE 1 AC2 4 ASP A 84 HIS A 86 HIS B 97 HIS B 100 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