HEADER HYDROLASE 04-FEB-08 2VND TITLE THE N69Q MUTANT OF VIBRIO CHOLERAE ENDONUCLEASE I COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDONUCLEASE I; COMPND 3 CHAIN: A; COMPND 4 EC: 3.1.21.-; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 OTHER_DETAILS: 1 MUTATION \: N69Q SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 3 ORGANISM_TAXID: 666; SOURCE 4 ATCC: 14035; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: TOP10; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: PBADGIII KEYWDS ENDONUCLEASE, ENDONUCLEASE I, SALT ADAPTATION, VIBRIO, NUCLEASE, KEYWDS 2 KINETICS, SECRETED, HYDROLASE, THERMODYNAMIC STABILITY EXPDTA X-RAY DIFFRACTION AUTHOR L.NIIRANEN,B.ALTERMARK,B.O.BRANDSDAL,H.-K.S.LEIROS,R.HELLAND, AUTHOR 2 A.O.SMALAS,N.P.WILLASSEN REVDAT 5 13-DEC-23 2VND 1 LINK REVDAT 4 28-JUN-17 2VND 1 REMARK REVDAT 3 24-FEB-09 2VND 1 VERSN REVDAT 2 06-MAY-08 2VND 1 JRNL REMARK REVDAT 1 12-FEB-08 2VND 0 JRNL AUTH L.NIIRANEN,B.ALTERMARK,B.O.BRANDSDAL,H.-K.S.LEIROS, JRNL AUTH 2 R.HELLAND,A.O.SMALAS,N.P.WILLASSEN JRNL TITL EFFECTS OF SALT ON THE KINETICS AND THERMODYNAMIC STABILITY JRNL TITL 2 OF ENDONUCLEASE I FROM VIBRIO SALMONICIDA AND VIBRIO JRNL TITL 3 CHOLERAE. JRNL REF FEBS J. V. 275 1593 2008 JRNL REFN ISSN 1742-464X JRNL PMID 18312415 JRNL DOI 10.1111/J.1742-4658.2008.06317.X REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0021 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 20905 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 + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1131 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1486 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3780 REMARK 3 BIN FREE R VALUE SET COUNT : 86 REMARK 3 BIN FREE R VALUE : 0.4720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1672 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 223 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.25000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : 0.19000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.129 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.136 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.636 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.910 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1726 ; 0.017 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1216 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2338 ; 1.520 ; 1.905 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2895 ; 0.974 ; 3.006 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 208 ; 6.283 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 97 ;37.361 ;24.227 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 280 ;12.495 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;14.381 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 227 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1983 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 376 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 374 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1331 ; 0.195 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 833 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 839 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 158 ; 0.142 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 15 ; 0.196 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 44 ; 0.286 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.162 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1348 ; 1.171 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1659 ; 1.333 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 836 ; 2.305 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 679 ; 3.191 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2VND COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1290035219. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : RIGAKU R-AXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22098 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 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) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.36000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2G7E REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE, 0.3 M AMMONIUM REMARK 280 ACETATE, 10 MM MAGNESIUM SULPHATE, 26% PEG8000, PH 8.0 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 20.13250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.81950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.20550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.81950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.13250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.20550 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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ASN 70 TO GLN 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 MET A 0 REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 PHE A 3 REMARK 465 ARG A 4 REMARK 465 PHE A 5 REMARK 465 VAL A 6 REMARK 465 THR A 7 REMARK 465 THR A 8 REMARK 465 LEU A 9 REMARK 465 ALA A 10 REMARK 465 ALA A 11 REMARK 465 SER A 12 REMARK 465 LEU A 13 REMARK 465 PRO A 14 REMARK 465 LEU A 15 REMARK 465 LEU A 16 REMARK 465 THR A 17 REMARK 465 PHE A 18 REMARK 465 ALA A 19 REMARK 465 ALA A 20 REMARK 465 PRO A 21 REMARK 465 ILE A 22 REMARK 465 SER A 23 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 30 OE2 REMARK 470 LYS A 33 NZ REMARK 470 ARG A 36 NE REMARK 470 LYS A 53 CG CD CE NZ REMARK 470 LYS A 54 NZ REMARK 470 GLN A 92 CD OE1 NE2 REMARK 470 ARG A 184 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 191 CD OE1 NE2 REMARK 470 LYS A 212 NZ REMARK 470 LYS A 215 CG CD CE NZ 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 N PHE A 24 O HOH A 2001 2.10 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 A 209 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 209 NE - CZ - NH2 ANGL. DEV. = -3.1 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 HIS A 38 71.86 -153.22 REMARK 500 LYS A 68 -53.44 -163.70 REMARK 500 SER A 131 -128.96 55.03 REMARK 500 ASP A 142 55.12 -151.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2007 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A2010 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A2089 DISTANCE = 6.27 ANGSTROMS 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 MG A1232 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 79 OE1 REMARK 620 2 ASN A 127 OD1 85.6 REMARK 620 3 HOH A2075 O 92.2 91.2 REMARK 620 4 HOH A2076 O 80.3 164.7 95.3 REMARK 620 5 HOH A2118 O 168.3 100.5 77.9 94.4 REMARK 620 6 HOH A2119 O 95.1 86.6 172.1 88.8 95.1 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 CL A1231 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1232 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2G7F RELATED DB: PDB REMARK 900 THE 1.6 A CRYSTAL STRUCTURE OF VIBRIO CHOLERAEEXTRACELLULAR REMARK 900 ENDONUCLEASE I REMARK 900 RELATED ID: 2G7E RELATED DB: PDB REMARK 900 THE 1.6 A CRYSTAL STRUCTURE OF VIBRIO CHOLERAEEXTRACELLULAR REMARK 900 ENDONUCLEASE I REMARK 999 REMARK 999 SEQUENCE REMARK 999 AND ALSO UNIPROTKB TREMBL ENTRY Q2XSK9 DBREF 2VND A 0 230 UNP Q2XSK9 Q2XSK9_VIBCH 1 231 SEQADV 2VND GLN A 69 UNP Q2XSK9 ASN 70 ENGINEERED MUTATION SEQRES 1 A 231 MET MET ILE PHE ARG PHE VAL THR THR LEU ALA ALA SER SEQRES 2 A 231 LEU PRO LEU LEU THR PHE ALA ALA PRO ILE SER PHE SER SEQRES 3 A 231 HIS ALA LYS ASN GLU ALA VAL LYS ILE TYR ARG ASP HIS SEQRES 4 A 231 PRO VAL SER PHE TYR CYS GLY CYS GLU ILE ARG TRP GLN SEQRES 5 A 231 GLY LYS LYS GLY ILE PRO ASP LEU GLU SER CYS GLY TYR SEQRES 6 A 231 GLN VAL ARG LYS GLN GLU ASN ARG ALA SER ARG ILE GLU SEQRES 7 A 231 TRP GLU HIS VAL VAL PRO ALA TRP GLN PHE GLY HIS GLN SEQRES 8 A 231 LEU GLN CYS TRP GLN GLN GLY GLY ARG LYS ASN CYS THR SEQRES 9 A 231 ARG THR SER PRO GLU PHE ASN GLN MET GLU ALA ASP LEU SEQRES 10 A 231 HIS ASN LEU THR PRO ALA ILE GLY GLU VAL ASN GLY ASN SEQRES 11 A 231 ARG SER ASN PHE SER PHE SER GLN TRP ASN GLY ILE ASP SEQRES 12 A 231 GLY VAL THR TYR GLY GLN CYS GLU MET GLN VAL ASN PHE SEQRES 13 A 231 LYS GLU ARG THR ALA MET PRO PRO GLU ARG ALA ARG GLY SEQRES 14 A 231 ALA ILE ALA ARG THR TYR LEU TYR MET SER GLU GLN TYR SEQRES 15 A 231 GLY LEU ARG LEU SER LYS ALA GLN ASN GLN LEU MET GLN SEQRES 16 A 231 ALA TRP ASN ASN GLN TYR PRO VAL SER GLU TRP GLU CYS SEQRES 17 A 231 VAL ARG ASP GLN LYS ILE GLU LYS VAL GLN GLY ASN SER SEQRES 18 A 231 ASN ARG PHE VAL ARG GLU GLN CYS PRO ASN HET CL A1231 1 HET MG A1232 1 HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION FORMUL 2 CL CL 1- FORMUL 3 MG MG 2+ FORMUL 4 HOH *223(H2 O) HELIX 1 1 PHE A 24 ARG A 36 1 13 HELIX 2 2 LEU A 59 GLY A 63 5 5 HELIX 3 3 GLN A 69 SER A 74 1 6 HELIX 4 4 PRO A 83 HIS A 89 1 7 HELIX 5 5 LEU A 91 ASP A 115 1 25 HELIX 6 6 GLY A 124 SER A 131 1 8 HELIX 7 7 PRO A 163 GLY A 182 1 20 HELIX 8 8 SER A 186 TYR A 200 1 15 HELIX 9 9 SER A 203 GLY A 218 1 16 HELIX 10 10 ASN A 221 GLU A 226 1 6 SHEET 1 AA 2 GLU A 47 GLN A 51 0 SHEET 2 AA 2 LYS A 54 ASP A 58 -1 O LYS A 54 N GLN A 51 SHEET 1 AB 2 ILE A 76 HIS A 80 0 SHEET 2 AB 2 LEU A 119 ILE A 123 -1 O THR A 120 N GLU A 79 SHEET 1 AC 4 SER A 134 PHE A 135 0 SHEET 2 AC 4 THR A 159 MET A 161 1 N ALA A 160 O SER A 134 SHEET 3 AC 4 CYS A 149 ASN A 154 -1 O GLN A 152 N MET A 161 SHEET 4 AC 4 VAL A 144 TYR A 146 -1 O VAL A 144 N VAL A 153 SSBOND 1 CYS A 44 CYS A 149 1555 1555 2.05 SSBOND 2 CYS A 46 CYS A 62 1555 1555 1.99 SSBOND 3 CYS A 93 CYS A 102 1555 1555 2.08 SSBOND 4 CYS A 207 CYS A 228 1555 1555 2.00 LINK OE1 GLU A 79 MG MG A1232 1555 1555 2.02 LINK OD1 ASN A 127 MG MG A1232 1555 1555 2.14 LINK MG MG A1232 O HOH A2075 1555 1555 2.26 LINK MG MG A1232 O HOH A2076 1555 1555 2.58 LINK MG MG A1232 O HOH A2118 1555 1555 2.19 LINK MG MG A1232 O HOH A2119 1555 1555 1.86 SITE 1 AC1 4 SER A 41 TYR A 43 CYS A 44 ILE A 123 SITE 1 AC2 6 GLU A 79 ASN A 127 HOH A2075 HOH A2076 SITE 2 AC2 6 HOH A2118 HOH A2119 CRYST1 40.265 64.411 75.639 90.00 90.00 90.00 P 21 21 21 4 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 0.024835 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015525 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013221 0.00000