HEADER HYDROLASE/DNA 19-AUG-98 3BAM TITLE RESTRICTION ENDONUCLEASE BAMHI COMPLEX WITH DNA AND TITLE 2 MANGANESE IONS (POST-REACTIVE COMPLEX) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*TP*AP*TP*GP*GP*AP*TP*CP*CP*AP*TP*A)- COMPND 3 3'); COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(*TP*AP*TP*G)-3'); COMPND 8 CHAIN: D; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: DNA (5'-D(P*GP*AP*TP*CP*CP*AP*TP*A)-3'); COMPND 12 CHAIN: E; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: PROTEIN (RESTRICTION ENDONUCLEASE BAMHI); COMPND 16 CHAIN: A, B; COMPND 17 SYNONYM: R. BAMHI; COMPND 18 EC: 3.1.21.4; COMPND 19 ENGINEERED: YES; COMPND 20 OTHER_DETAILS: CRYSTAL GROWN IN THE PRESENCE OF MANGANESE COMPND 21 IONS. SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 SYNTHETIC: YES; SOURCE 7 MOL_ID: 4; SOURCE 8 ORGANISM_SCIENTIFIC: BACILLUS AMYLOLIQUEFACIENS; SOURCE 9 ORGANISM_TAXID: 1390; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, PHOSPHODIESTERASE, COMPLEX (ENDONUCLEASE/DNA), KEYWDS 2 NUCLEASE, PROTEIN/DNA, HYDROLASE/DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.VIADIU,A.K.AGGARWAL REVDAT 4 24-FEB-09 3BAM 1 VERSN REVDAT 3 26-MAY-00 3BAM 1 COMPND REMARK REVDAT 2 22-DEC-99 3BAM 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 13-JAN-99 3BAM 0 JRNL AUTH H.VIADIU,A.K.AGGARWAL JRNL TITL THE ROLE OF METALS IN CATALYSIS BY THE RESTRICTION JRNL TITL 2 ENDONUCLEASE BAMHI. JRNL REF NAT.STRUCT.BIOL. V. 5 910 1998 JRNL REFN ISSN 1072-8368 JRNL PMID 9783752 JRNL DOI 10.1038/2352 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.NEWMAN,T.STRZELECKA,L.F.DORNER,I.SCHILDKRAUT, REMARK 1 AUTH 2 A.K.AGGARWAL REMARK 1 TITL STRUCTURE OF BAM HI ENDONUCLEASE BOUND TO DNA: REMARK 1 TITL 2 PARTIAL FOLDING AND UNFOLDING ON DNA BINDING REMARK 1 REF SCIENCE V. 269 656 1995 REMARK 1 REFN ISSN 0036-8075 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 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) (%) : 72.0 REMARK 3 NUMBER OF REFLECTIONS : 33484 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : R-FREE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1171 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 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 : 3357 REMARK 3 NUCLEIC ACID ATOMS : 466 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 352 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.00 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) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.70 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.70 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 : PARAMCSDX_MOD.PRO REMARK 3 PARAMETER FILE 2 : PARAM_NDBX_HIGH.DNA REMARK 3 PARAMETER FILE 3 : PARAM19.SOL REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE MANGANESE METALS WERE BOUND REMARK 3 ONLY IN ONE ACTIVE SITE OF THE DIMER (THE R-SUBUNIT). REMARK 4 REMARK 4 3BAM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-SEP-98. REMARK 100 THE RCSB ID CODE IS RCSB008063. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 5.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.908 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40212 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 72.0 REMARK 200 DATA REDUNDANCY : 2.770 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : 0.08400 REMARK 200 FOR THE DATA SET : 8.0900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: 1BHM REMARK 200 REMARK 200 REMARK: CRYSTAL WAS ISOMORPHOUS TO 1BHM. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.3 CATALYSIS OCCURRED IN THE REMARK 280 CRYSTAL AFTER SOAKING MANGANESE ION. THE ACTIVE SITE OF THE R REMARK 280 SUBUNIT CLEAVED THE ORIGINAL D STRAND IN TWO (D AND E) REMARK 280 RESULTING IN A POST-REACTIVE COMPLEX. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 53.20000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 33.80000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.80000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 33.80000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 53.20000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.80000 REMARK 290 SMTRY3 4 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 300 REMARK: REMARK 300 THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT CONTAINS TWO BAMHI REMARK 300 MONOMERS (CHAINS A AND B) BOUND TO A PALINDROMIC 12 BASE REMARK 300 PAIR DNA COMPLEX. 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: PENTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, E, 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 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE C-TERMINALS ARE ASYMMETRICALLY POSITIONED BETWEEN THE REMARK 400 TWO MONOMERS MAKING UP THE COMPLEX. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 DA E 8 REMARK 465 LYS A 207 REMARK 465 ASP A 208 REMARK 465 LYS A 209 REMARK 465 VAL A 210 REMARK 465 GLU A 211 REMARK 465 ASN A 212 REMARK 465 LYS A 213 REMARK 465 VAL B 210 REMARK 465 GLU B 211 REMARK 465 ASN B 212 REMARK 465 LYS B 213 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 101 CG CD OE1 OE2 REMARK 470 ASN B 187 CG OD1 ND2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O4 DT C 1 O HOH C 151 1.92 REMARK 500 N6 DA C 12 N6 DA D 2 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 N6 DA C 2 O HOH D 190 3655 2.16 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 DT C 1 C1' DT C 1 N1 -0.087 REMARK 500 DT C 1 N1 DT C 1 C2 0.067 REMARK 500 DT C 1 C4 DT C 1 C5 0.070 REMARK 500 DT C 1 C6 DT C 1 N1 -0.063 REMARK 500 DA C 2 N1 DA C 2 C2 0.137 REMARK 500 DA C 2 C2 DA C 2 N3 0.105 REMARK 500 DA C 2 C6 DA C 2 N1 -0.158 REMARK 500 DA C 2 C8 DA C 2 N9 -0.071 REMARK 500 DA C 2 N9 DA C 2 C4 0.047 REMARK 500 DA C 2 C6 DA C 2 N6 -0.069 REMARK 500 DT C 7 C4 DT C 7 O4 -0.058 REMARK 500 DG E 1 P DG E 1 OP3 -0.125 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 DT C 1 O4' - C4' - C3' ANGL. DEV. = -2.7 DEGREES REMARK 500 DT C 1 C5' - C4' - O4' ANGL. DEV. = 11.7 DEGREES REMARK 500 DT C 1 C4' - C3' - O3' ANGL. DEV. = -20.2 DEGREES REMARK 500 DT C 1 O4' - C1' - N1 ANGL. DEV. = -9.4 DEGREES REMARK 500 DT C 1 N1 - C2 - O2 ANGL. DEV. = 5.0 DEGREES REMARK 500 DT C 1 N3 - C2 - O2 ANGL. DEV. = -4.5 DEGREES REMARK 500 DT C 1 N3 - C4 - O4 ANGL. DEV. = -5.6 DEGREES REMARK 500 DT C 1 C4 - C5 - C7 ANGL. DEV. = 4.2 DEGREES REMARK 500 DA C 2 C2 - N3 - C4 ANGL. DEV. = -3.4 DEGREES REMARK 500 DA C 2 C5 - C6 - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 DA C 2 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DA C 2 N9 - C4 - C5 ANGL. DEV. = -2.5 DEGREES REMARK 500 DA C 2 N1 - C6 - N6 ANGL. DEV. = -9.0 DEGREES REMARK 500 DA C 2 C8 - N9 - C1' ANGL. DEV. = -23.3 DEGREES REMARK 500 DA C 2 C4 - N9 - C1' ANGL. DEV. = 24.1 DEGREES REMARK 500 DG C 4 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC C 8 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DC E 4 O4' - C1' - N1 ANGL. DEV. = 2.0 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 ASN A 102 117.59 -4.48 REMARK 500 SER A 103 -28.47 98.53 REMARK 500 ASN A 185 -161.43 -160.56 REMARK 500 GLU B 86 -71.68 -65.62 REMARK 500 LYS B 88 51.77 35.64 REMARK 500 ASN B 102 -112.48 54.56 REMARK 500 SER B 199 -64.64 163.29 REMARK 500 LYS B 200 1.97 47.62 REMARK 500 ARG B 201 174.11 41.21 REMARK 500 ASP B 208 131.10 113.71 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 DT C 1 0.27 SIDE_CHAIN REMARK 500 DT D 1 0.07 SIDE_CHAIN 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 MN A 901 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG E 1 OP2 REMARK 620 2 ASP A 94 OD2 130.3 REMARK 620 3 HOH A 902 O 127.3 99.2 REMARK 620 4 PHE A 112 O 86.4 77.0 126.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CTA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CATALYTIC SITE R-SUBUNIT. REMARK 800 SITE_IDENTIFIER: CTB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CATALYTIC SITE L-SUBUNIT. REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 901 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN D 902 DBREF 3BAM A 1 213 UNP P23940 T2BA_BACAM 1 213 DBREF 3BAM B 1 213 UNP P23940 T2BA_BACAM 1 213 DBREF 3BAM C 1 12 PDB 3BAM 3BAM 1 12 DBREF 3BAM D 1 4 PDB 3BAM 3BAM 1 4 DBREF 3BAM E 1 8 PDB 3BAM 3BAM 1 8 SEQRES 1 C 12 DT DA DT DG DG DA DT DC DC DA DT DA SEQRES 1 D 4 DT DA DT DG SEQRES 1 E 8 DG DA DT DC DC DA DT DA SEQRES 1 A 213 MET GLU VAL GLU LYS GLU PHE ILE THR ASP GLU ALA LYS SEQRES 2 A 213 GLU LEU LEU SER LYS ASP LYS LEU ILE GLN GLN ALA TYR SEQRES 3 A 213 ASN GLU VAL LYS THR SER ILE CYS SER PRO ILE TRP PRO SEQRES 4 A 213 ALA THR SER LYS THR PHE THR ILE ASN ASN THR GLU LYS SEQRES 5 A 213 ASN CYS ASN GLY VAL VAL PRO ILE LYS GLU LEU CYS TYR SEQRES 6 A 213 THR LEU LEU GLU ASP THR TYR ASN TRP TYR ARG GLU LYS SEQRES 7 A 213 PRO LEU ASP ILE LEU LYS LEU GLU LYS LYS LYS GLY GLY SEQRES 8 A 213 PRO ILE ASP VAL TYR LYS GLU PHE ILE GLU ASN SER GLU SEQRES 9 A 213 LEU LYS ARG VAL GLY MET GLU PHE GLU THR GLY ASN ILE SEQRES 10 A 213 SER SER ALA HIS ARG SER MET ASN LYS LEU LEU LEU GLY SEQRES 11 A 213 LEU LYS HIS GLY GLU ILE ASP LEU ALA ILE ILE LEU MET SEQRES 12 A 213 PRO ILE LYS GLN LEU ALA TYR TYR LEU THR ASP ARG VAL SEQRES 13 A 213 THR ASN PHE GLU GLU LEU GLU PRO TYR PHE GLU LEU THR SEQRES 14 A 213 GLU GLY GLN PRO PHE ILE PHE ILE GLY PHE ASN ALA GLU SEQRES 15 A 213 ALA TYR ASN SER ASN VAL PRO LEU ILE PRO LYS GLY SER SEQRES 16 A 213 ASP GLY MET SER LYS ARG SER ILE LYS LYS TRP LYS ASP SEQRES 17 A 213 LYS VAL GLU ASN LYS SEQRES 1 B 213 MET GLU VAL GLU LYS GLU PHE ILE THR ASP GLU ALA LYS SEQRES 2 B 213 GLU LEU LEU SER LYS ASP LYS LEU ILE GLN GLN ALA TYR SEQRES 3 B 213 ASN GLU VAL LYS THR SER ILE CYS SER PRO ILE TRP PRO SEQRES 4 B 213 ALA THR SER LYS THR PHE THR ILE ASN ASN THR GLU LYS SEQRES 5 B 213 ASN CYS ASN GLY VAL VAL PRO ILE LYS GLU LEU CYS TYR SEQRES 6 B 213 THR LEU LEU GLU ASP THR TYR ASN TRP TYR ARG GLU LYS SEQRES 7 B 213 PRO LEU ASP ILE LEU LYS LEU GLU LYS LYS LYS GLY GLY SEQRES 8 B 213 PRO ILE ASP VAL TYR LYS GLU PHE ILE GLU ASN SER GLU SEQRES 9 B 213 LEU LYS ARG VAL GLY MET GLU PHE GLU THR GLY ASN ILE SEQRES 10 B 213 SER SER ALA HIS ARG SER MET ASN LYS LEU LEU LEU GLY SEQRES 11 B 213 LEU LYS HIS GLY GLU ILE ASP LEU ALA ILE ILE LEU MET SEQRES 12 B 213 PRO ILE LYS GLN LEU ALA TYR TYR LEU THR ASP ARG VAL SEQRES 13 B 213 THR ASN PHE GLU GLU LEU GLU PRO TYR PHE GLU LEU THR SEQRES 14 B 213 GLU GLY GLN PRO PHE ILE PHE ILE GLY PHE ASN ALA GLU SEQRES 15 B 213 ALA TYR ASN SER ASN VAL PRO LEU ILE PRO LYS GLY SER SEQRES 16 B 213 ASP GLY MET SER LYS ARG SER ILE LYS LYS TRP LYS ASP SEQRES 17 B 213 LYS VAL GLU ASN LYS HET MN A 901 1 HET MN D 902 1 HETNAM MN MANGANESE (II) ION FORMUL 6 MN 2(MN 2+) FORMUL 8 HOH *352(H2 O) HELIX 1 1 ASP A 10 LYS A 18 1 9 HELIX 2 2 LYS A 20 SER A 35 1 16 HELIX 3 3 VAL A 58 ASP A 70 5 13 HELIX 4 4 ASP A 81 LYS A 84 1 4 HELIX 5 5 ILE A 117 LYS A 132 1 16 HELIX 6 6 LYS A 146 TYR A 151 1 6 HELIX 7 7 PHE A 159 THR A 169 1 11 HELIX 8 8 ASP B 10 LYS B 18 1 9 HELIX 9 9 LYS B 20 SER B 35 1 16 HELIX 10 10 VAL B 58 ASP B 70 1 13 HELIX 11 11 ASP B 81 LYS B 84 1 4 HELIX 12 12 ILE B 117 LYS B 132 1 16 HELIX 13 13 LYS B 146 TYR B 151 1 6 HELIX 14 14 PHE B 159 THR B 169 1 11 HELIX 15 15 GLY B 194 GLY B 197 5 4 SHEET 1 A 2 THR A 46 ASN A 48 0 SHEET 2 A 2 ALA A 183 ASN A 185 1 N ALA A 183 O ILE A 47 SHEET 1 B 5 VAL A 95 GLU A 101 0 SHEET 2 B 5 GLU A 104 GLU A 113 -1 N MET A 110 O VAL A 95 SHEET 3 B 5 LEU A 138 PRO A 144 1 N LEU A 138 O GLY A 109 SHEET 4 B 5 PHE A 174 ASN A 180 1 N ILE A 175 O ALA A 139 SHEET 5 B 5 GLU A 2 ILE A 8 -1 N PHE A 7 O PHE A 176 SHEET 1 C 5 VAL B 95 GLU B 101 0 SHEET 2 C 5 GLU B 104 GLU B 113 -1 N MET B 110 O VAL B 95 SHEET 3 C 5 LEU B 138 PRO B 144 1 N LEU B 138 O GLY B 109 SHEET 4 C 5 PHE B 174 ASN B 180 1 N ILE B 175 O ALA B 139 SHEET 5 C 5 GLU B 2 ILE B 8 -1 N PHE B 7 O PHE B 176 LINK OP2 DG E 1 MN MN A 901 1555 1555 2.31 LINK OD2 ASP A 94 MN MN A 901 1555 1555 2.47 LINK MN MN A 901 O HOH A 902 1555 1555 2.47 LINK MN MN A 901 O PHE A 112 1555 1555 2.54 CISPEP 1 TRP A 38 PRO A 39 0 -0.72 CISPEP 2 TRP B 38 PRO B 39 0 -0.38 SITE 1 CTA 4 GLU A 77 ASP A 94 GLU A 111 GLU A 113 SITE 1 CTB 4 GLU B 77 ASP B 94 GLU B 111 GLU B 113 SITE 1 AC1 4 ASP A 94 PHE A 112 HOH A 902 DG E 1 SITE 1 AC2 5 PRO A 92 ASP A 94 GLU A 111 HOH A 903 SITE 2 AC2 5 DG D 4 CRYST1 106.400 79.600 67.600 90.00 90.00 90.00 P 21 21 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 0.009398 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012563 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014793 0.00000 MASTER 419 0 2 15 12 0 5 6 0 0 0 37 END