PDB Short entry for 1QD9 HEADER GENE REGULATION 09-JUL-99 1QD9 TITLE BACILLUS SUBTILIS YABJ COMPND MOL_ID: 1; COMPND 2 MOLECULE: PURINE REGULATORY PROTEIN YABJ; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)/PLYSS KEYWDS PERCHLORIC ACID SOLUBLE PROTEIN, PURINE REGULATION, YJGF/YER057C KEYWDS 2 FAMILY, GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR J.L.SMITH,S.SINHA,P.RAPPU,S.C.LANGE,P.MANTSALA,H.ZALKIN REVDAT 4 14-FEB-24 1QD9 1 REMARK LINK REVDAT 3 24-FEB-09 1QD9 1 VERSN REVDAT 2 19-JUL-05 1QD9 1 DBREF REMARK CONECT REVDAT 1 26-NOV-99 1QD9 0 JRNL AUTH S.SINHA,P.RAPPU,S.C.LANGE,P.MANTSALA,H.ZALKIN,J.L.SMITH JRNL TITL CRYSTAL STRUCTURE OF BACILLUS SUBTILIS YABJ, A PURINE JRNL TITL 2 REGULATORY PROTEIN AND MEMBER OF THE HIGHLY CONSERVED YJGF JRNL TITL 3 FAMILY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 96 13074 1999 JRNL REFN ISSN 0027-8424 JRNL PMID 10557275 JRNL DOI 10.1073/PNAS.96.23.13074 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.5 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2121779.350 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.4 REMARK 3 NUMBER OF REFLECTIONS : 34805 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1759 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.76 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3129 REMARK 3 BIN R VALUE (WORKING SET) : 0.1950 REMARK 3 BIN FREE R VALUE : 0.2340 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 150 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2856 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 474 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.53000 REMARK 3 B22 (A**2) : 1.53000 REMARK 3 B33 (A**2) : -3.06000 REMARK 3 B12 (A**2) : 0.82000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.16 REMARK 3 ESD FROM SIGMAA (A) : 0.10 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.20 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.15 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.600 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.980 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.170 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.770 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.860 ; 10.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 6.240 ; 10.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.46 REMARK 3 BSOL : 86.61 REMARK 3 REMARK 3 NCS MODEL : NONE FOR FINAL REFINEMENT REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PA REMARK 3 PARAMETER FILE 2 : WATER_REP.PARA REMARK 3 PARAMETER FILE 3 : ACY.PAR REMARK 3 PARAMETER FILE 4 : HGLIGS.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ACY.TOP REMARK 3 TOPOLOGY FILE 4 : HGLIGS.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT TARGET EQUALS MAXIMUM REMARK 3 LIKELIHOOD TARGET USING AMPLITUDES AND PHASE PROBABILITY REMARK 3 DISTRIBUTION REMARK 4 REMARK 4 1QD9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000009319. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0095 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 1 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 309290 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 8.700 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.08600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 8.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MULTIPLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: HG MAD REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM PHOSPHATE, PEG 4000, AMMONIUM REMARK 280 SULPHATE, SODIUM ACETATE., PH 4.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 136.64000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 68.32000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 102.48000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 34.16000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 170.80000 REMARK 290 REMARK 290 REMARK: NULL 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 300 REMARK: THE MODEL INCLUDES RESIDUES 2 - 125 IN EACH SUBUNIT. REMARK 300 N-TERMINAL SEQUENCE ANALYSIS INDICATED THAT MET1 WAS NOT REMARK 300 PRESENT IN THE PURIFIED PROTEIN USED FOR CRYSTALLIZATION. REMARK 300 REMARK 300 YABJ IS A TRIMER. SUBUNITS IN THE TRIMER ARE RELATED BY REMARK 300 NCS THREE-FOLD ROTATIONAL SYMMETRY. THE ASYMMETRIC UNIT REMARK 300 CONTAINS ONE TRIMER OF YABJ. 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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: 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 VAL B 42 N - CA - C ANGL. DEV. = -17.7 DEGREES REMARK 500 VAL B 42 N - CA - C ANGL. DEV. = 17.1 DEGREES 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 PRO A 16 49.84 -77.93 REMARK 500 ASN A 24 -125.56 56.78 REMARK 500 PRO A 34 33.25 -66.71 REMARK 500 ASP A 45 -168.10 -78.54 REMARK 500 PHE A 95 64.58 -117.62 REMARK 500 ASN B 24 -124.96 54.78 REMARK 500 PRO B 34 40.56 -69.33 REMARK 500 VAL B 42 -8.35 -52.47 REMARK 500 ASN B 43 115.72 43.99 REMARK 500 ASP B 45 -169.94 -74.21 REMARK 500 PHE B 95 73.09 -110.78 REMARK 500 ASP B 96 -71.00 -85.56 REMARK 500 PRO C 16 46.06 -76.98 REMARK 500 ASN C 24 -126.80 54.64 REMARK 500 PRO C 34 48.79 -71.52 REMARK 500 PHE C 95 51.95 -117.81 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 HG A 126 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 81 SD REMARK 620 2 CYS A 104 O 104.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 EMC B 500 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 104 SG REMARK 620 2 EMC B 500 C1 174.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 EMC B 500 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 104 SG REMARK 620 2 EMC B 500 C1 175.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 EMC C 501 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 104 SG REMARK 620 2 EMC C 501 C1 174.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 EMC C 501 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 104 SG REMARK 620 2 EMC C 501 C1 177.6 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HG A 126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EMC B 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EMC C 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY C 507 DBREF 1QD9 A 2 125 UNP P37552 YABJ_BACSU 2 125 DBREF 1QD9 B 2 125 UNP P37552 YABJ_BACSU 2 125 DBREF 1QD9 C 2 125 UNP P37552 YABJ_BACSU 2 125 SEQRES 1 A 124 THR LYS ALA VAL HIS THR LYS HIS ALA PRO ALA ALA ILE SEQRES 2 A 124 GLY PRO TYR SER GLN GLY ILE ILE VAL ASN ASN MET PHE SEQRES 3 A 124 TYR SER SER GLY GLN ILE PRO LEU THR PRO SER GLY GLU SEQRES 4 A 124 MET VAL ASN GLY ASP ILE LYS GLU GLN THR HIS GLN VAL SEQRES 5 A 124 PHE SER ASN LEU LYS ALA VAL LEU GLU GLU ALA GLY ALA SEQRES 6 A 124 SER PHE GLU THR VAL VAL LYS ALA THR VAL PHE ILE ALA SEQRES 7 A 124 ASP MET GLU GLN PHE ALA GLU VAL ASN GLU VAL TYR GLY SEQRES 8 A 124 GLN TYR PHE ASP THR HIS LYS PRO ALA ARG SER CYS VAL SEQRES 9 A 124 GLU VAL ALA ARG LEU PRO LYS ASP ALA LEU VAL GLU ILE SEQRES 10 A 124 GLU VAL ILE ALA LEU VAL LYS SEQRES 1 B 124 THR LYS ALA VAL HIS THR LYS HIS ALA PRO ALA ALA ILE SEQRES 2 B 124 GLY PRO TYR SER GLN GLY ILE ILE VAL ASN ASN MET PHE SEQRES 3 B 124 TYR SER SER GLY GLN ILE PRO LEU THR PRO SER GLY GLU SEQRES 4 B 124 MET VAL ASN GLY ASP ILE LYS GLU GLN THR HIS GLN VAL SEQRES 5 B 124 PHE SER ASN LEU LYS ALA VAL LEU GLU GLU ALA GLY ALA SEQRES 6 B 124 SER PHE GLU THR VAL VAL LYS ALA THR VAL PHE ILE ALA SEQRES 7 B 124 ASP MET GLU GLN PHE ALA GLU VAL ASN GLU VAL TYR GLY SEQRES 8 B 124 GLN TYR PHE ASP THR HIS LYS PRO ALA ARG SER CYS VAL SEQRES 9 B 124 GLU VAL ALA ARG LEU PRO LYS ASP ALA LEU VAL GLU ILE SEQRES 10 B 124 GLU VAL ILE ALA LEU VAL LYS SEQRES 1 C 124 THR LYS ALA VAL HIS THR LYS HIS ALA PRO ALA ALA ILE SEQRES 2 C 124 GLY PRO TYR SER GLN GLY ILE ILE VAL ASN ASN MET PHE SEQRES 3 C 124 TYR SER SER GLY GLN ILE PRO LEU THR PRO SER GLY GLU SEQRES 4 C 124 MET VAL ASN GLY ASP ILE LYS GLU GLN THR HIS GLN VAL SEQRES 5 C 124 PHE SER ASN LEU LYS ALA VAL LEU GLU GLU ALA GLY ALA SEQRES 6 C 124 SER PHE GLU THR VAL VAL LYS ALA THR VAL PHE ILE ALA SEQRES 7 C 124 ASP MET GLU GLN PHE ALA GLU VAL ASN GLU VAL TYR GLY SEQRES 8 C 124 GLN TYR PHE ASP THR HIS LYS PRO ALA ARG SER CYS VAL SEQRES 9 C 124 GLU VAL ALA ARG LEU PRO LYS ASP ALA LEU VAL GLU ILE SEQRES 10 C 124 GLU VAL ILE ALA LEU VAL LYS HET HG A 126 2 HET ACY A 503 4 HET ACY A 505 4 HET EMC B 500 6 HET ACY B 502 4 HET ACY B 504 4 HET ACY B 506 4 HET EMC C 501 6 HET ACY C 507 4 HETNAM HG MERCURY (II) ION HETNAM ACY ACETIC ACID HETNAM EMC ETHYL MERCURY ION FORMUL 4 HG HG 2+ FORMUL 5 ACY 6(C2 H4 O2) FORMUL 7 EMC 2(C2 H5 HG 1+) FORMUL 13 HOH *474(H2 O) HELIX 1 1 ILE A 46 ALA A 64 1 19 HELIX 2 2 GLN A 83 PHE A 95 1 13 HELIX 3 3 ILE B 46 GLY B 65 1 20 HELIX 4 4 GLN B 83 PHE B 95 1 13 HELIX 5 5 ILE C 46 ALA C 64 1 19 HELIX 6 6 GLN C 83 PHE C 95 1 13 SHEET 1 A 6 LYS A 3 VAL A 5 0 SHEET 2 A 6 GLN A 19 VAL A 23 -1 O GLY A 20 N VAL A 5 SHEET 3 A 6 MET A 26 SER A 30 -1 N MET A 26 O VAL A 23 SHEET 4 A 6 LEU A 115 VAL A 124 -1 O VAL A 120 N SER A 29 SHEET 5 A 6 VAL A 72 ALA A 79 -1 N VAL A 72 O ILE A 121 SHEET 6 A 6 ALA A 101 GLU A 106 1 N ALA A 101 O VAL A 72 SHEET 1 B 6 LYS B 3 VAL B 5 0 SHEET 2 B 6 GLN B 19 VAL B 23 -1 O GLY B 20 N VAL B 5 SHEET 3 B 6 MET B 26 SER B 30 -1 N MET B 26 O VAL B 23 SHEET 4 B 6 LEU B 115 VAL B 124 -1 O VAL B 120 N SER B 29 SHEET 5 B 6 VAL B 72 ALA B 79 -1 N VAL B 72 O ILE B 121 SHEET 6 B 6 ALA B 101 GLU B 106 1 N ALA B 101 O VAL B 72 SHEET 1 C 6 LYS C 3 VAL C 5 0 SHEET 2 C 6 GLN C 19 VAL C 23 -1 O GLY C 20 N VAL C 5 SHEET 3 C 6 MET C 26 SER C 30 -1 N MET C 26 O VAL C 23 SHEET 4 C 6 LEU C 115 VAL C 124 -1 O VAL C 120 N SER C 29 SHEET 5 C 6 VAL C 72 ALA C 79 -1 N VAL C 72 O ILE C 121 SHEET 6 C 6 ALA C 101 GLU C 106 1 N ALA C 101 O VAL C 72 LINK SD AMET A 81 HG A HG A 126 1555 1555 3.11 LINK O CYS A 104 HG A HG A 126 1555 1555 3.48 LINK SG ACYS B 104 HG AEMC B 500 1555 1555 2.28 LINK SG BCYS B 104 HG BEMC B 500 1555 1555 2.36 LINK SG BCYS C 104 HG BEMC C 501 1555 1555 2.36 LINK SG ACYS C 104 HG AEMC C 501 1555 1555 2.35 SITE 1 AC1 5 ILE A 78 MET A 81 PHE A 84 CYS A 104 SITE 2 AC1 5 VAL A 105 SITE 1 AC2 4 PHE B 84 VAL B 87 ARG B 102 CYS B 104 SITE 1 AC3 6 VAL C 76 PHE C 84 VAL C 87 ASN C 88 SITE 2 AC3 6 ARG C 102 CYS C 104 SITE 1 AC4 7 HIS A 9 SER A 55 ALA A 59 HOH A 523 SITE 2 AC4 7 HIS B 51 HOH B 580 HOH B 627 SITE 1 AC5 3 GLN A 93 TYR A 94 HOH A 667 SITE 1 AC6 5 THR B 2 VAL B 23 ASN B 24 HOH B 550 SITE 2 AC6 5 HOH B 588 SITE 1 AC7 5 THR A 2 VAL A 23 ASN A 24 HOH A 514 SITE 2 AC7 5 HOH A 578 SITE 1 AC8 4 LYS B 8 HIS B 9 PRO B 37 HOH B 616 SITE 1 AC9 4 ALA C 66 SER C 67 THR C 70 HOH C 614 CRYST1 53.350 53.350 204.960 90.00 90.00 120.00 P 65 18 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 0.018744 0.010822 0.000000 0.00000 SCALE2 0.000000 0.021644 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004879 0.00000 MTRIX1 1 0.063100 -0.435300 0.898100 -29.45430 1 MTRIX2 1 0.860300 -0.432300 -0.270000 18.49800 1 MTRIX3 1 0.505800 -0.789700 0.347200 18.39620 1