HEADER HYDROLASE/DNA 15-DEC-99 1DMU TITLE CRYSTAL STRUCTURE OF THE RESTRICTION ENDONUCLEASE BGLI (E.C.3.1.21.4) TITLE 2 BOUND TO ITS DNA RECOGNITION SEQUENCE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*AP*TP*CP*GP*CP*CP*TP*AP*AP*TP*AP*GP*GP*CP*GP*AP*T)-3'); COMPND 4 CHAIN: F; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: BGLI RESTRICTION ENDONUCLEASE; COMPND 8 CHAIN: A; COMPND 9 EC: 3.1.21.4; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CONTAINS DNA RECOGNITION SEQUENCE OF BGLI; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 6 ORGANISM_TAXID: 1423; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN-DNA COMPLEX, ACTIVE SITE CALCIUM IONS, ALPHA/BETA STRUCTURE, KEYWDS 2 A:A MISMATCH, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.NEWMAN,K.LUNNEN,G.WILSON,J.GRECI,I.SCHILDKRAUT,S.E.V.PHILLIPS REVDAT 6 03-FEB-21 1DMU 1 JRNL REMARK LINK REVDAT 5 24-FEB-09 1DMU 1 VERSN REVDAT 4 01-APR-03 1DMU 1 JRNL REVDAT 3 23-OCT-00 1DMU 1 HELIX SHEET REVDAT 2 07-JAN-00 1DMU 1 HEADER REVDAT 1 18-DEC-99 1DMU 0 JRNL AUTH M.NEWMAN,K.LUNNEN,G.WILSON,J.GRECI,I.SCHILDKRAUT, JRNL AUTH 2 S.E.PHILLIPS JRNL TITL CRYSTAL STRUCTURE OF RESTRICTION ENDONUCLEASE BGLI BOUND TO JRNL TITL 2 ITS INTERRUPTED DNA RECOGNITION SEQUENCE. JRNL REF EMBO J. V. 17 5466 1998 JRNL REFN ISSN 0261-4189 JRNL PMID 9736624 JRNL DOI 10.1093/EMBOJ/17.18.5466 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.D.LUNNEN,G.G.WILSON REMARK 1 TITL METHOD FOR PRODUCING THE BGLI RESTRICTION ENDONUCLEASE AND REMARK 1 TITL 2 METHYLASE REMARK 1 REF PATENT 1994 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.843 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 89.2 REMARK 3 NUMBER OF REFLECTIONS : 17359 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) : 0.177 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1704 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2360 REMARK 3 NUCLEIC ACID ATOMS : 346 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 255 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 TO IMPOSE DOUBLE STRANDED BASE-PAIRING RESTRAINTS ON DNA, TWO REMARK 3 OLIGONUCLEOTIDE REMARK 3 STRANDS WERE INCLUDED IN THE ASYMMETRIC UNIT (RELATED BY REMARK 3 CRYSTALLOGRAPHIC TWO- REMARK 3 FOLD). THESE WERE GIVEN 0.5 OCCUPANCY AND WERE REFINED WITH FORCE REMARK 3 CONSTANTS REMARK 3 FOR VAN DER WAALS AND ELECTROSTATIC INTERACTIONS BETWEEN SYMMETRY REMARK 3 RELATED REMARK 3 MOLECULES SET TO ZERO. B-DNA SUGAR PUCKER RESTRAINTS WERE IMPOSED REMARK 3 ONLY AT THE REMARK 3 BEGINNING OF REFINEMENT. THE FOLLOWING SIDE-CHAINS CANNOT BE REMARK 3 POSITIONED IN THE REMARK 3 ELECTRON DENSITY MAP: GLU7, GLN15, GLU47, GLU102, GLU172, ARG186, REMARK 3 THR224, REMARK 3 LYS225 AND LYS259 REMARK 4 REMARK 4 1DMU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-DEC-99. REMARK 100 THE DEPOSITION ID IS D_1000010218. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-97 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.919 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : CUSTOM-MADE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17679 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.8 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 57.1 REMARK 200 DATA REDUNDANCY IN SHELL : 0.80 REMARK 200 R MERGE FOR SHELL (I) : 0.07800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 7-12% PEG 4000, 75-150MM LI2SO4, 100MM REMARK 280 TRIS-HCL, 1:2 PROTEIN:DNA MOLAR RATIO, PH 8.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.53000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.53000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 39.24000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.80000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.24000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.80000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.53000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.24000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 40.80000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.53000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.24000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 40.80000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: F, 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 117.06000 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 7 CG CD OE1 OE2 REMARK 470 GLN A 15 CG CD OE1 NE2 REMARK 470 GLU A 47 CG CD OE1 OE2 REMARK 470 GLU A 102 CG CD OE1 OE2 REMARK 470 GLU A 172 CG CD OE1 OE2 REMARK 470 ARG A 186 CG CD NE CZ NH1 NH2 REMARK 470 THR A 224 OG1 CG2 REMARK 470 LYS A 225 CG CD CE NZ REMARK 470 LYS A 259 CG CD CE NZ 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 81 109.72 -48.06 REMARK 500 SER A 123 148.19 -170.21 REMARK 500 LYS A 225 114.90 -22.80 REMARK 500 CYS A 248 -66.39 -124.78 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 CA F 9 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT F 1 O3' REMARK 620 2 DA F 2 OP1 54.5 REMARK 620 3 HOH F 11 O 68.1 96.8 REMARK 620 4 ASP A 116 OD1 126.3 73.9 138.9 REMARK 620 5 HOH A 305 O 83.1 132.6 83.9 132.0 REMARK 620 6 HOH A 306 O 78.5 71.8 144.5 71.6 80.5 REMARK 620 7 HOH A 307 O 155.8 145.9 92.1 77.7 81.0 116.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 300 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA F 2 OP1 REMARK 620 2 HOH F 10 O 77.5 REMARK 620 3 ASP A 116 OD1 61.8 138.6 REMARK 620 4 ASP A 116 OD2 105.7 175.4 44.1 REMARK 620 5 ASP A 142 OD1 95.6 83.4 92.8 92.9 REMARK 620 6 ILE A 143 O 156.1 81.0 140.4 96.4 92.0 REMARK 620 7 HOH A 304 O 90.3 83.2 103.3 100.0 163.8 76.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 77 O REMARK 620 2 HOH A 374 O 129.8 REMARK 620 3 HOH A 382 O 75.3 145.7 REMARK 620 4 HOH A 383 O 146.7 83.2 77.7 REMARK 620 5 HOH A 384 O 96.0 106.8 90.6 65.1 REMARK 620 6 HOH A 385 O 92.7 77.5 78.3 100.5 163.7 REMARK 620 7 HOH A 386 O 68.2 61.5 135.2 144.3 117.7 78.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 99 O REMARK 620 2 ARG A 101 O 101.0 REMARK 620 3 ILE A 104 O 93.2 98.9 REMARK 620 4 HOH A 397 O 92.6 103.7 155.1 REMARK 620 5 HOH A 425 O 151.8 106.8 87.0 76.6 REMARK 620 6 HOH A 426 O 74.3 170.6 89.5 68.8 77.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA F 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 303 DBREF 1DMU A 1 299 UNP O68557 T2B1_BACSU 1 299 DBREF 1DMU F -8 8 PDB 1DMU 1DMU -8 8 SEQRES 1 F 17 DA DT DC DG DC DC DT DA DA DT DA DG DG SEQRES 2 F 17 DC DG DA DT SEQRES 1 A 299 MET TYR ASN LEU HIS ARG GLU LYS ILE PHE MET SER TYR SEQRES 2 A 299 ASN GLN ASN LYS GLN TYR LEU GLU ASP ASN PRO GLU ILE SEQRES 3 A 299 GLN GLU LYS ILE GLU LEU TYR GLY LEU ASN LEU LEU ASN SEQRES 4 A 299 GLU VAL ILE SER ASP ASN GLU GLU GLU ILE ARG ALA ASP SEQRES 5 A 299 TYR ASN GLU ALA ASN PHE LEU HIS PRO PHE TRP MET ASN SEQRES 6 A 299 TYR PRO PRO LEU ASP ARG GLY LYS MET PRO LYS GLY ASP SEQRES 7 A 299 GLN ILE PRO TRP ILE GLU VAL GLY GLU LYS ALA VAL GLY SEQRES 8 A 299 SER LYS LEU THR ARG LEU VAL SER GLN ARG GLU ASP ILE SEQRES 9 A 299 THR VAL ARG GLU ILE GLY LEU PRO THR GLY PRO ASP GLU SEQRES 10 A 299 ARG TYR LEU LEU THR SER PRO THR ILE TYR SER LEU THR SEQRES 11 A 299 ASN GLY PHE THR ASP SER ILE MET MET PHE VAL ASP ILE SEQRES 12 A 299 LYS SER VAL GLY PRO ARG ASP SER ASP TYR ASP LEU VAL SEQRES 13 A 299 LEU SER PRO ASN GLN VAL SER GLY ASN GLY ASP TRP ALA SEQRES 14 A 299 GLN LEU GLU GLY GLY ILE GLN ASN ASN GLN GLN THR ILE SEQRES 15 A 299 GLN GLY PRO ARG SER SER GLN ILE PHE LEU PRO THR ILE SEQRES 16 A 299 PRO PRO LEU TYR ILE LEU SER ASP GLY THR ILE ALA PRO SEQRES 17 A 299 VAL VAL HIS LEU PHE ILE LYS PRO ILE TYR ALA MET ARG SEQRES 18 A 299 SER LEU THR LYS GLY ASP THR GLY GLN SER LEU TYR LYS SEQRES 19 A 299 ILE LYS LEU ALA SER VAL PRO ASN GLY LEU GLY LEU PHE SEQRES 20 A 299 CYS ASN PRO GLY TYR ALA PHE ASP SER ALA TYR LYS PHE SEQRES 21 A 299 LEU PHE ARG PRO GLY LYS ASP ASP ARG THR LYS SER LEU SEQRES 22 A 299 LEU GLN LYS ARG VAL ARG VAL ASP LEU ARG VAL LEU ASP SEQRES 23 A 299 LYS ILE GLY PRO ARG VAL MET THR ILE ASP MET ASP LYS MODRES 1DMU CYS A 248 CYS S-S BOND TO SEO HET CA F 9 1 HET CA A 300 1 HET CA A 301 1 HET CA A 302 1 HET BME A 303 4 HETNAM CA CALCIUM ION HETNAM BME BETA-MERCAPTOETHANOL FORMUL 3 CA 4(CA 2+) FORMUL 7 BME C2 H6 O S FORMUL 8 HOH *255(H2 O) HELIX 1 1 HIS A 5 ASN A 23 1 19 HELIX 2 2 ASN A 23 ASN A 45 1 23 HELIX 3 3 ASN A 45 LEU A 59 1 15 HELIX 4 4 LEU A 59 MET A 64 1 6 HELIX 5 5 TRP A 82 VAL A 90 1 9 HELIX 6 6 VAL A 90 GLN A 100 1 11 HELIX 7 7 SER A 123 THR A 130 1 8 HELIX 8 8 SER A 158 VAL A 162 5 5 HELIX 9 9 SER A 222 THR A 224 5 3 HELIX 10 10 ASN A 242 CYS A 248 1 7 HELIX 11 11 GLY A 251 ASP A 255 5 5 HELIX 12 12 ASP A 255 LYS A 259 5 5 HELIX 13 13 LEU A 282 ASP A 286 1 5 SHEET 1 A 6 VAL A 292 ASP A 296 0 SHEET 2 A 6 GLN A 230 VAL A 240 -1 O ILE A 235 N ILE A 295 SHEET 3 A 6 ILE A 206 MET A 220 -1 O HIS A 211 N VAL A 240 SHEET 4 A 6 SER A 136 ILE A 143 1 N SER A 136 O ILE A 206 SHEET 5 A 6 GLU A 117 THR A 122 -1 N GLU A 117 O VAL A 141 SHEET 6 A 6 THR A 105 ARG A 107 -1 O THR A 105 N THR A 122 SHEET 1 A1 4 VAL A 292 ASP A 296 0 SHEET 2 A1 4 GLN A 230 VAL A 240 -1 O ILE A 235 N ILE A 295 SHEET 3 A1 4 ILE A 206 MET A 220 -1 O HIS A 211 N VAL A 240 SHEET 4 A1 4 LEU A 198 ILE A 200 -1 O TYR A 199 N ALA A 207 SHEET 1 B 3 ASP A 154 LEU A 157 0 SHEET 2 B 3 VAL A 278 ASP A 281 -1 O VAL A 278 N LEU A 157 SHEET 3 B 3 PHE A 262 PRO A 264 -1 O ARG A 263 N ARG A 279 SHEET 1 C 2 GLN A 180 GLN A 183 0 SHEET 2 C 2 SER A 188 PHE A 191 -1 O GLN A 189 N ILE A 182 LINK SG CYS A 248 S2 BME A 303 1555 1555 2.05 LINK O3' DT F 1 CA CA F 9 1555 1555 2.83 LINK OP1 DA F 2 CA CA F 9 1555 1555 2.52 LINK OP1 DA F 2 CA CA A 300 1555 1555 2.34 LINK CA CA F 9 O HOH F 11 1555 1555 2.44 LINK CA CA F 9 OD1 ASP A 116 1555 1555 2.31 LINK CA CA F 9 O HOH A 305 1555 1555 2.62 LINK CA CA F 9 O HOH A 306 1555 1555 2.56 LINK CA CA F 9 O HOH A 307 1555 1555 2.43 LINK O HOH F 10 CA CA A 300 1555 1555 2.83 LINK O GLY A 77 CA CA A 301 1555 1555 2.48 LINK O SER A 99 CA CA A 302 1555 1555 2.45 LINK O ARG A 101 CA CA A 302 1555 1555 2.22 LINK O ILE A 104 CA CA A 302 1555 1555 2.41 LINK OD1 ASP A 116 CA CA A 300 1555 1555 3.15 LINK OD2 ASP A 116 CA CA A 300 1555 1555 2.28 LINK OD1 ASP A 142 CA CA A 300 1555 1555 2.46 LINK O ILE A 143 CA CA A 300 1555 1555 2.38 LINK CA CA A 300 O HOH A 304 1555 1555 2.47 LINK CA CA A 301 O HOH A 374 1555 1555 2.65 LINK CA CA A 301 O HOH A 382 1555 1555 2.63 LINK CA CA A 301 O HOH A 383 1555 1555 2.61 LINK CA CA A 301 O HOH A 384 1555 1555 2.59 LINK CA CA A 301 O HOH A 385 1555 1555 2.59 LINK CA CA A 301 O HOH A 386 1555 1555 2.39 LINK CA CA A 302 O HOH A 397 1555 1555 2.50 LINK CA CA A 302 O HOH A 425 1555 1555 2.72 LINK CA CA A 302 O HOH A 426 1555 1555 2.58 CISPEP 1 ASN A 249 PRO A 250 0 0.92 SITE 1 AC1 6 ASP A 116 ASP A 142 ILE A 143 HOH A 304 SITE 2 AC1 6 DA F 2 HOH F 10 SITE 1 AC2 7 ASP A 116 HOH A 305 HOH A 306 HOH A 307 SITE 2 AC2 7 DT F 1 DA F 2 HOH F 11 SITE 1 AC3 7 GLY A 77 HOH A 374 HOH A 382 HOH A 383 SITE 2 AC3 7 HOH A 384 HOH A 385 HOH A 386 SITE 1 AC4 7 SER A 99 ARG A 101 GLU A 102 ILE A 104 SITE 2 AC4 7 HOH A 397 HOH A 425 HOH A 426 SITE 1 AC5 5 GLU A 21 ASN A 165 ASP A 167 PHE A 247 SITE 2 AC5 5 CYS A 248 CRYST1 78.480 81.600 117.060 90.00 90.00 90.00 C 2 2 21 8 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 0.012742 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012255 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008543 0.00000