HEADER HYDROLASE/DNA 25-MAR-03 1OUP TITLE CRYSTAL STRUCTURE OF THE PERIPLASMIC ENDONUCLEASE VVN COMPLEXED WITH TITLE 2 OCTAMER DOUBLE STRANDED DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3'; COMPND 3 CHAIN: C, D, F; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*GP*CP*GP*AP*TP*C)-3'; COMPND 7 CHAIN: E; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: 5'-D(P*GP*C)-3'; COMPND 11 CHAIN: G; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: NUCLEASE; COMPND 15 CHAIN: A, B; COMPND 16 FRAGMENT: RESIDUES 19-231; COMPND 17 SYNONYM: VVN NUCLEASE; COMPND 18 EC: 3.1.-.-; COMPND 19 ENGINEERED: YES; COMPND 20 MUTATION: YES 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: VIBRIO VULNIFICUS; SOURCE 9 ORGANISM_TAXID: 672; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: B834(DE3); SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PTYB2 KEYWDS NON-SPECIFIC ENDONUCLEASE, BETA-BETA-ALPHA METAL MOTIF, HYDROLASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.S.YUAN,C.-L.LI REVDAT 5 11-OCT-17 1OUP 1 REMARK REVDAT 4 24-FEB-09 1OUP 1 VERSN REVDAT 3 14-SEP-04 1OUP 1 REMARK REVDAT 2 03-FEB-04 1OUP 1 AUTHOR REVDAT 1 05-AUG-03 1OUP 0 JRNL AUTH C.-L.LI,L.-I.HOR,Z.-F.CHANG,L.-C.TSAI,W.-Z.YANG,H.S.YUAN JRNL TITL DNA BINDING AND CLEAVAGE BY THE PERIPLASMIC NUCLEASE VVN: A JRNL TITL 2 NOVEL STRUCTURE WITH A KNOWN ACTIVE SITE. JRNL REF EMBO J. V. 22 4014 2003 JRNL REFN ISSN 0261-4189 JRNL PMID 12881435 JRNL DOI 10.1093/EMBOJ/CDG377 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 20729 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) : 0.191 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1616 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.44 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3025 REMARK 3 BIN R VALUE (WORKING SET) : 0.2010 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 264 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3450 REMARK 3 NUCLEIC ACID ATOMS : 645 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 328 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.45000 REMARK 3 B22 (A**2) : -0.99000 REMARK 3 B33 (A**2) : -5.47000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.92000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : 0.17 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) : 0.35 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.22 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.140 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) : 1.450 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.290 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.090 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.040 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.33 REMARK 3 BSOL : 41.72 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA-VVN.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1OUP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-MAR-03. REMARK 100 THE DEPOSITION ID IS D_1000018682. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL12B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9065 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21165 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07300 REMARK 200 FOR THE DATA SET : 20.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.28200 REMARK 200 FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: SEMET-VVN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, CALCIUM ACETATE, PH 7.3, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 25.05500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TWO PROTEIN/DNA COMPLEXES PER ASYMMETRY UINT. CHAINS A,E,F REMARK 300 ARE ENZYME/PRODUCT COMPLEX. CHAINS B,C,D ARE ENZYME/SUBSTRATE REMARK 300 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, G, 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 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 GLN B 229 REMARK 465 THR B 230 REMARK 465 GLN B 231 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 DG G 7 P DG G 7 OP3 -0.086 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 ARG B 172 NE - CZ - NH2 ANGL. DEV. = -3.7 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 LYS A 68 5.30 -168.12 REMARK 500 ASN A 105 -89.63 -110.39 REMARK 500 ASP A 106 114.21 -31.70 REMARK 500 SER A 131 -138.31 42.59 REMARK 500 ASP A 142 61.75 -153.24 REMARK 500 SER A 145 -169.73 -127.61 REMARK 500 TRP B 50 82.57 -69.12 REMARK 500 LEU B 59 -19.08 -48.81 REMARK 500 LYS B 68 -47.31 -147.65 REMARK 500 LYS B 104 -38.40 -175.98 REMARK 500 SER B 131 -129.59 51.36 REMARK 500 TRP B 138 -177.21 -175.17 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 DA E 4 0.06 SIDE CHAIN REMARK 500 DT E 5 0.07 SIDE CHAIN REMARK 500 DG G 7 0.05 SIDE CHAIN REMARK 500 DG F 11 0.05 SIDE CHAIN REMARK 500 DT F 13 0.06 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 CA A 300 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 79 OE1 REMARK 620 2 HOH A 719 O 79.5 REMARK 620 3 HOH A 420 O 115.5 99.5 REMARK 620 4 DG G 7 OP3 158.3 92.1 85.5 REMARK 620 5 ASN A 127 OD1 93.6 172.0 87.1 92.9 REMARK 620 6 HOH G 720 O 84.0 84.4 160.4 75.2 90.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 300 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 79 OE1 REMARK 620 2 ASN B 127 OD1 75.2 REMARK 620 3 HOH C 461 O 93.5 87.9 REMARK 620 4 HOH B 718 O 88.9 161.7 84.0 REMARK 620 5 HOH B 443 O 102.3 84.1 159.9 108.5 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 CA A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OUO RELATED DB: PDB REMARK 900 1OUO CONTAINS THE SAME PROTEIN COMPLEXED WITH MG DBREF 1OUP A 19 231 UNP Q8DCA6 Q8DCA6_VIBVU 19 231 DBREF 1OUP B 19 231 UNP Q8DCA6 Q8DCA6_VIBVU 19 231 DBREF 1OUP C 1 8 PDB 1OUP 1OUP 1 8 DBREF 1OUP D 9 16 PDB 1OUP 1OUP 9 16 DBREF 1OUP E 1 6 PDB 1OUP 1OUP 1 6 DBREF 1OUP G 7 8 PDB 1OUP 1OUP 7 8 DBREF 1OUP F 9 16 PDB 1OUP 1OUP 9 16 SEQADV 1OUP ALA A 80 UNP Q8DCA6 HIS 80 ENGINEERED SEQADV 1OUP PRO A 163 UNP Q8DCA6 GLN 163 SEE REMARK 999 SEQADV 1OUP ASP A 164 UNP Q8DCA6 THR 164 SEE REMARK 999 SEQADV 1OUP ARG A 165 UNP Q8DCA6 GLU 165 SEE REMARK 999 SEQADV 1OUP ALA A 166 UNP Q8DCA6 LEU 166 SEE REMARK 999 SEQADV 1OUP ALA B 80 UNP Q8DCA6 HIS 80 ENGINEERED SEQADV 1OUP PRO B 163 UNP Q8DCA6 GLN 163 SEE REMARK 999 SEQADV 1OUP ASP B 164 UNP Q8DCA6 THR 164 SEE REMARK 999 SEQADV 1OUP ARG B 165 UNP Q8DCA6 GLU 165 SEE REMARK 999 SEQADV 1OUP ALA B 166 UNP Q8DCA6 LEU 166 SEE REMARK 999 SEQRES 1 C 8 DG DC DG DA DT DC DG DC SEQRES 1 D 8 DG DC DG DA DT DC DG DC SEQRES 1 E 6 DG DC DG DA DT DC SEQRES 1 G 2 DG DC SEQRES 1 F 8 DG DC DG DA DT DC DG DC SEQRES 1 A 213 ALA PRO PRO SER SER PHE SER ALA ALA LYS GLN GLN ALA SEQRES 2 A 213 VAL LYS ILE TYR GLN ASP HIS PRO ILE SER PHE TYR CYS SEQRES 3 A 213 GLY CYS ASP ILE GLU TRP GLN GLY LYS LYS GLY ILE PRO SEQRES 4 A 213 ASN LEU GLU THR CYS GLY TYR GLN VAL ARG LYS GLN GLN SEQRES 5 A 213 THR ARG ALA SER ARG ILE GLU TRP GLU ALA VAL VAL PRO SEQRES 6 A 213 ALA TRP GLN PHE GLY HIS HIS ARG GLN CYS TRP GLN LYS SEQRES 7 A 213 GLY GLY ARG LYS ASN CYS SER LYS ASN ASP GLN GLN PHE SEQRES 8 A 213 ARG LEU MET GLU ALA ASP LEU HIS ASN LEU THR PRO ALA SEQRES 9 A 213 ILE GLY GLU VAL ASN GLY ASP ARG SER ASN PHE ASN PHE SEQRES 10 A 213 SER GLN TRP ASN GLY VAL ASP GLY VAL SER TYR GLY ARG SEQRES 11 A 213 CYS GLU MET GLN VAL ASN PHE LYS GLN ARG LYS VAL MET SEQRES 12 A 213 PRO PRO ASP ARG ALA ARG GLY SER ILE ALA ARG THR TYR SEQRES 13 A 213 LEU TYR MET SER GLN GLU TYR GLY PHE GLN LEU SER LYS SEQRES 14 A 213 GLN GLN GLN GLN LEU MET GLN ALA TRP ASN LYS SER TYR SEQRES 15 A 213 PRO VAL ASP GLU TRP GLU CYS THR ARG ASP ASP ARG ILE SEQRES 16 A 213 ALA LYS ILE GLN GLY ASN HIS ASN PRO PHE VAL GLN GLN SEQRES 17 A 213 SER CYS GLN THR GLN SEQRES 1 B 213 ALA PRO PRO SER SER PHE SER ALA ALA LYS GLN GLN ALA SEQRES 2 B 213 VAL LYS ILE TYR GLN ASP HIS PRO ILE SER PHE TYR CYS SEQRES 3 B 213 GLY CYS ASP ILE GLU TRP GLN GLY LYS LYS GLY ILE PRO SEQRES 4 B 213 ASN LEU GLU THR CYS GLY TYR GLN VAL ARG LYS GLN GLN SEQRES 5 B 213 THR ARG ALA SER ARG ILE GLU TRP GLU ALA VAL VAL PRO SEQRES 6 B 213 ALA TRP GLN PHE GLY HIS HIS ARG GLN CYS TRP GLN LYS SEQRES 7 B 213 GLY GLY ARG LYS ASN CYS SER LYS ASN ASP GLN GLN PHE SEQRES 8 B 213 ARG LEU MET GLU ALA ASP LEU HIS ASN LEU THR PRO ALA SEQRES 9 B 213 ILE GLY GLU VAL ASN GLY ASP ARG SER ASN PHE ASN PHE SEQRES 10 B 213 SER GLN TRP ASN GLY VAL ASP GLY VAL SER TYR GLY ARG SEQRES 11 B 213 CYS GLU MET GLN VAL ASN PHE LYS GLN ARG LYS VAL MET SEQRES 12 B 213 PRO PRO ASP ARG ALA ARG GLY SER ILE ALA ARG THR TYR SEQRES 13 B 213 LEU TYR MET SER GLN GLU TYR GLY PHE GLN LEU SER LYS SEQRES 14 B 213 GLN GLN GLN GLN LEU MET GLN ALA TRP ASN LYS SER TYR SEQRES 15 B 213 PRO VAL ASP GLU TRP GLU CYS THR ARG ASP ASP ARG ILE SEQRES 16 B 213 ALA LYS ILE GLN GLY ASN HIS ASN PRO PHE VAL GLN GLN SEQRES 17 B 213 SER CYS GLN THR GLN HET CA A 300 1 HET CA B 300 1 HETNAM CA CALCIUM ION FORMUL 8 CA 2(CA 2+) FORMUL 10 HOH *328(H2 O) HELIX 1 1 SER A 23 TYR A 35 1 13 HELIX 2 2 GLN A 69 SER A 74 1 6 HELIX 3 3 PRO A 83 HIS A 89 1 7 HELIX 4 4 ARG A 91 ASN A 105 1 15 HELIX 5 5 ASP A 106 GLU A 113 1 8 HELIX 6 6 ALA A 114 HIS A 117 5 4 HELIX 7 7 GLY A 124 SER A 131 1 8 HELIX 8 8 PRO A 163 GLY A 182 1 20 HELIX 9 9 SER A 186 TYR A 200 1 15 HELIX 10 10 ASP A 203 GLY A 218 1 16 HELIX 11 11 ASN A 221 GLN A 229 1 9 HELIX 12 12 SER B 23 TYR B 35 1 13 HELIX 13 13 GLN B 69 SER B 74 1 6 HELIX 14 14 PRO B 83 HIS B 89 1 7 HELIX 15 15 ARG B 91 ASP B 106 1 16 HELIX 16 16 ASP B 106 ASP B 115 1 10 HELIX 17 17 GLY B 124 SER B 131 1 8 HELIX 18 18 PRO B 163 GLY B 182 1 20 HELIX 19 19 SER B 186 TYR B 200 1 15 HELIX 20 20 ASP B 203 GLY B 218 1 16 HELIX 21 21 ASN B 221 GLN B 226 1 6 SHEET 1 A 2 ILE A 48 GLN A 51 0 SHEET 2 A 2 LYS A 54 PRO A 57 -1 O LYS A 54 N GLN A 51 SHEET 1 B 2 ILE A 76 ALA A 80 0 SHEET 2 B 2 LEU A 119 ILE A 123 -1 O THR A 120 N GLU A 79 SHEET 1 C 4 ASN A 134 PHE A 135 0 SHEET 2 C 4 LYS A 159 MET A 161 1 O VAL A 160 N ASN A 134 SHEET 3 C 4 CYS A 149 ASN A 154 -1 N ASN A 154 O LYS A 159 SHEET 4 C 4 VAL A 144 TYR A 146 -1 N VAL A 144 O VAL A 153 SHEET 1 D 2 ILE B 48 GLU B 49 0 SHEET 2 D 2 ILE B 56 PRO B 57 -1 O ILE B 56 N GLU B 49 SHEET 1 E 2 ILE B 76 ALA B 80 0 SHEET 2 E 2 LEU B 119 ILE B 123 -1 O THR B 120 N GLU B 79 SHEET 1 F 4 ASN B 134 PHE B 135 0 SHEET 2 F 4 LYS B 159 MET B 161 1 O VAL B 160 N ASN B 134 SHEET 3 F 4 CYS B 149 ASN B 154 -1 N GLN B 152 O MET B 161 SHEET 4 F 4 VAL B 144 TYR B 146 -1 N VAL B 144 O VAL B 153 SSBOND 1 CYS A 44 CYS A 149 1555 1555 2.04 SSBOND 2 CYS A 46 CYS A 62 1555 1555 2.04 SSBOND 3 CYS A 93 CYS A 102 1555 1555 2.04 SSBOND 4 CYS A 207 CYS A 228 1555 1555 2.02 SSBOND 5 CYS B 44 CYS B 149 1555 1555 2.04 SSBOND 6 CYS B 46 CYS B 62 1555 1555 2.03 SSBOND 7 CYS B 93 CYS B 102 1555 1555 2.04 SSBOND 8 CYS B 207 CYS B 228 1555 1555 2.03 LINK CA CA A 300 OE1 GLU A 79 1555 1555 2.07 LINK CA CA B 300 OE1 GLU B 79 1555 1555 2.25 LINK CA CA A 300 O HOH A 719 1555 1555 2.34 LINK CA CA A 300 O HOH A 420 1555 1555 2.57 LINK CA CA A 300 OP3 DG G 7 1555 1555 2.21 LINK CA CA A 300 OD1 ASN A 127 1555 1555 2.33 LINK CA CA A 300 O HOH G 720 1555 1555 2.07 LINK CA CA B 300 OD1 ASN B 127 1555 1555 2.36 LINK CA CA B 300 O HOH C 461 1555 1555 2.53 LINK CA CA B 300 O HOH B 718 1555 1555 2.53 LINK CA CA B 300 O HOH B 443 1555 1555 2.42 SITE 1 AC1 6 GLU A 79 ASN A 127 HOH A 420 HOH A 719 SITE 2 AC1 6 DG G 7 HOH G 720 SITE 1 AC2 6 GLU B 79 ASN B 127 HOH B 443 HOH B 718 SITE 2 AC2 6 DG C 7 HOH C 461 CRYST1 53.740 50.110 89.610 90.00 97.53 90.00 P 1 21 1 6 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 0.018609 0.000000 0.002459 0.00000 SCALE2 0.000000 0.019955 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011257 0.00000 MASTER 353 0 2 21 16 0 4 6 0 0 0 39 END