PDB Short entry for 5HML HEADER HYDROLASE 16-JAN-16 5HML TITLE CRYSTAL STRUCTURE OF T5 D15 PROTEIN CO-CRYSTALLIZED WITH METAL IONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXODEOXYRIBONUCLEASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 20-291; COMPND 5 SYNONYM: 5'-EXONUCLEASE,T5FEN, T5 FLAP ENDONUCLEASE; COMPND 6 EC: 3.1.11.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: STRUCTURE DERIVED FROM RECOMBINANT PROTEIN COMPND 10 CORRESPONDING TO RESIDUES 20 - 291 (KNOWN AS DELTA19 AND HAD A D153K COMPND 11 MUTATION COMPARED TO WT. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA PHAGE T5; SOURCE 3 ORGANISM_TAXID: 10726; SOURCE 4 GENE: D15; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M72; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PJONEX4 KEYWDS METAL ION COMPLEX, FLAP ENDONUCLEASE, ALTERNATIVE CONFORMATIONS, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.S.FLEMMING,M.FENG,S.E.SEDELNIKOVA,J.ZHANG,J.B.RAFFERTY,J.R.SAYERS, AUTHOR 2 P.J.ARTYMIUK REVDAT 5 10-JAN-24 5HML 1 LINK REVDAT 4 20-JUL-16 5HML 1 JRNL REVDAT 3 22-JUN-16 5HML 1 JRNL REVDAT 2 08-JUN-16 5HML 1 JRNL REVDAT 1 01-JUN-16 5HML 0 JRNL AUTH F.A.ALMALKI,C.S.FLEMMING,J.ZHANG,M.FENG,S.E.SEDELNIKOVA, JRNL AUTH 2 T.CESKA,J.B.RAFFERTY,J.R.SAYERS,P.J.ARTYMIUK JRNL TITL DIRECT OBSERVATION OF DNA THREADING IN FLAP ENDONUCLEASE JRNL TITL 2 COMPLEXES. JRNL REF NAT.STRUCT.MOL.BIOL. V. 23 640 2016 JRNL REFN ESSN 1545-9985 JRNL PMID 27273516 JRNL DOI 10.1038/NSMB.3241 REMARK 2 REMARK 2 RESOLUTION. 1.48 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.48 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 3 NUMBER OF REFLECTIONS : 83074 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) : 0.143 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4367 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) : 1.48 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.52 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6037 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.2710 REMARK 3 BIN FREE R VALUE SET COUNT : 342 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4379 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 559 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.04000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.08000 REMARK 3 B12 (A**2) : 0.15000 REMARK 3 B13 (A**2) : -0.25000 REMARK 3 B23 (A**2) : -0.02000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.079 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.074 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.215 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4560 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4350 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6160 ; 1.324 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10012 ; 1.007 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 556 ; 5.014 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 228 ;32.477 ;24.211 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 816 ;11.796 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;15.702 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 678 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5157 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1076 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2200 ; 3.928 ; 1.566 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2199 ; 3.921 ; 1.565 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2758 ; 4.333 ; 2.358 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 8910 ; 2.194 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 162 ;36.872 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 9233 ;15.263 ; 5.000 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 : 1.20 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5HML COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000217276. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5-8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 87441 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.482 REMARK 200 RESOLUTION RANGE LOW (A) : 54.602 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.48 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.49100 REMARK 200 R SYM FOR SHELL (I) : 0.49100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1UT5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BIS-TRIS PROPANE, PEG 3350, MGCL2, REMARK 280 NAI, PH 8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 280K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 A 291 REMARK 465 GLN B 291 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 ARG A 20 CD NE CZ NH1 NH2 REMARK 470 ARG B 20 CG CD NE CZ NH1 NH2 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 ASP A 201 110.59 -162.16 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 B 697 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH B 698 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH B 699 DISTANCE = 6.48 ANGSTROMS REMARK 525 HOH B 700 DISTANCE = 6.74 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 A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 155 OD2 REMARK 620 2 ASP A 204 OD2 178.8 REMARK 620 3 HOH A 403 O 92.0 88.4 REMARK 620 4 HOH A 484 O 88.2 90.7 91.2 REMARK 620 5 HOH A 529 O 88.3 91.4 175.2 93.6 REMARK 620 6 HOH A 552 O 89.1 92.0 85.1 175.3 90.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 87 OD1 REMARK 620 2 HOH B 416 O 90.2 REMARK 620 3 HOH B 431 O 90.2 177.6 REMARK 620 4 HOH B 470 O 90.4 102.8 79.6 REMARK 620 5 HOH B 512 O 81.0 85.1 92.6 168.4 REMARK 620 6 HOH B 670 O 172.9 88.8 90.5 96.7 91.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 155 OD2 REMARK 620 2 ASP B 204 OD2 163.1 REMARK 620 3 HOH B 408 O 80.9 86.9 REMARK 620 4 HOH B 447 O 88.0 78.9 83.3 REMARK 620 5 HOH B 597 O 94.3 97.7 175.2 96.5 REMARK 620 6 HOH B 616 O 93.9 97.6 88.6 171.3 91.8 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 MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B3P B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD B 313 DBREF 5HML A 20 291 UNP P06229 EXO5_BPT5 20 291 DBREF 5HML B 20 291 UNP P06229 EXO5_BPT5 20 291 SEQADV 5HML LYS A 153 UNP P06229 ASP 153 ENGINEERED MUTATION SEQADV 5HML LYS B 153 UNP P06229 ASP 153 ENGINEERED MUTATION SEQRES 1 A 272 ARG ASN LEU MET ILE VAL ASP GLY THR ASN LEU GLY PHE SEQRES 2 A 272 ARG PHE LYS HIS ASN ASN SER LYS LYS PRO PHE ALA SER SEQRES 3 A 272 SER TYR VAL SER THR ILE GLN SER LEU ALA LYS SER TYR SEQRES 4 A 272 SER ALA ARG THR THR ILE VAL LEU GLY ASP LYS GLY LYS SEQRES 5 A 272 SER VAL PHE ARG LEU GLU HIS LEU PRO GLU TYR LYS GLY SEQRES 6 A 272 ASN ARG ASP GLU LYS TYR ALA GLN ARG THR GLU GLU GLU SEQRES 7 A 272 LYS ALA LEU ASP GLU GLN PHE PHE GLU TYR LEU LYS ASP SEQRES 8 A 272 ALA PHE GLU LEU CYS LYS THR THR PHE PRO THR PHE THR SEQRES 9 A 272 ILE ARG GLY VAL GLU ALA ASP ASP MET ALA ALA TYR ILE SEQRES 10 A 272 VAL LYS LEU ILE GLY HIS LEU TYR ASP HIS VAL TRP LEU SEQRES 11 A 272 ILE SER THR LYS GLY ASP TRP ASP THR LEU LEU THR ASP SEQRES 12 A 272 LYS VAL SER ARG PHE SER PHE THR THR ARG ARG GLU TYR SEQRES 13 A 272 HIS LEU ARG ASP MET TYR GLU HIS HIS ASN VAL ASP ASP SEQRES 14 A 272 VAL GLU GLN PHE ILE SER LEU LYS ALA ILE MET GLY ASP SEQRES 15 A 272 LEU GLY ASP ASN ILE ARG GLY VAL GLU GLY ILE GLY ALA SEQRES 16 A 272 LYS ARG GLY TYR ASN ILE ILE ARG GLU PHE GLY ASN VAL SEQRES 17 A 272 LEU ASP ILE ILE ASP GLN LEU PRO LEU PRO GLY LYS GLN SEQRES 18 A 272 LYS TYR ILE GLN ASN LEU ASN ALA SER GLU GLU LEU LEU SEQRES 19 A 272 PHE ARG ASN LEU ILE LEU VAL ASP LEU PRO THR TYR CYS SEQRES 20 A 272 VAL ASP ALA ILE ALA ALA VAL GLY GLN ASP VAL LEU ASP SEQRES 21 A 272 LYS PHE THR LYS ASP ILE LEU GLU ILE ALA GLU GLN SEQRES 1 B 272 ARG ASN LEU MET ILE VAL ASP GLY THR ASN LEU GLY PHE SEQRES 2 B 272 ARG PHE LYS HIS ASN ASN SER LYS LYS PRO PHE ALA SER SEQRES 3 B 272 SER TYR VAL SER THR ILE GLN SER LEU ALA LYS SER TYR SEQRES 4 B 272 SER ALA ARG THR THR ILE VAL LEU GLY ASP LYS GLY LYS SEQRES 5 B 272 SER VAL PHE ARG LEU GLU HIS LEU PRO GLU TYR LYS GLY SEQRES 6 B 272 ASN ARG ASP GLU LYS TYR ALA GLN ARG THR GLU GLU GLU SEQRES 7 B 272 LYS ALA LEU ASP GLU GLN PHE PHE GLU TYR LEU LYS ASP SEQRES 8 B 272 ALA PHE GLU LEU CYS LYS THR THR PHE PRO THR PHE THR SEQRES 9 B 272 ILE ARG GLY VAL GLU ALA ASP ASP MET ALA ALA TYR ILE SEQRES 10 B 272 VAL LYS LEU ILE GLY HIS LEU TYR ASP HIS VAL TRP LEU SEQRES 11 B 272 ILE SER THR LYS GLY ASP TRP ASP THR LEU LEU THR ASP SEQRES 12 B 272 LYS VAL SER ARG PHE SER PHE THR THR ARG ARG GLU TYR SEQRES 13 B 272 HIS LEU ARG ASP MET TYR GLU HIS HIS ASN VAL ASP ASP SEQRES 14 B 272 VAL GLU GLN PHE ILE SER LEU LYS ALA ILE MET GLY ASP SEQRES 15 B 272 LEU GLY ASP ASN ILE ARG GLY VAL GLU GLY ILE GLY ALA SEQRES 16 B 272 LYS ARG GLY TYR ASN ILE ILE ARG GLU PHE GLY ASN VAL SEQRES 17 B 272 LEU ASP ILE ILE ASP GLN LEU PRO LEU PRO GLY LYS GLN SEQRES 18 B 272 LYS TYR ILE GLN ASN LEU ASN ALA SER GLU GLU LEU LEU SEQRES 19 B 272 PHE ARG ASN LEU ILE LEU VAL ASP LEU PRO THR TYR CYS SEQRES 20 B 272 VAL ASP ALA ILE ALA ALA VAL GLY GLN ASP VAL LEU ASP SEQRES 21 B 272 LYS PHE THR LYS ASP ILE LEU GLU ILE ALA GLU GLN HET MG A 301 1 HET CL A 302 1 HET CL A 303 1 HET CL A 304 1 HET EDO A 305 4 HET EDO A 306 4 HET B3P B 301 19 HET MG B 302 1 HET MG B 303 1 HET CL B 304 1 HET CL B 305 1 HET CL B 306 1 HET CL B 307 1 HET CL B 308 1 HET CL B 309 1 HET CL B 310 2 HET CL B 311 1 HET CL B 312 1 HET IOD B 313 2 HET IOD B 314 1 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM B3P 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)- HETNAM 2 B3P PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM IOD IODIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 MG 3(MG 2+) FORMUL 4 CL 12(CL 1-) FORMUL 7 EDO 2(C2 H6 O2) FORMUL 9 B3P C11 H26 N2 O6 FORMUL 21 IOD 2(I 1-) FORMUL 23 HOH *559(H2 O) HELIX 1 AA1 GLY A 27 PHE A 32 1 6 HELIX 2 AA2 PHE A 34 LYS A 41 1 8 HELIX 3 AA3 PHE A 43 TYR A 58 1 16 HELIX 4 AA4 SER A 72 LEU A 79 1 8 HELIX 5 AA5 LYS A 83 GLN A 92 1 10 HELIX 6 AA6 THR A 94 PHE A 119 1 26 HELIX 7 AA7 GLU A 128 GLY A 141 1 14 HELIX 8 AA8 HIS A 142 TYR A 144 5 3 HELIX 9 AA9 LYS A 153 LEU A 160 5 8 HELIX 10 AB1 HIS A 176 ARG A 178 5 3 HELIX 11 AB2 ASP A 179 ASN A 185 1 7 HELIX 12 AB3 ASP A 188 GLY A 200 1 13 HELIX 13 AB4 ASP A 201 ASN A 205 5 5 HELIX 14 AB5 GLY A 213 GLY A 225 1 13 HELIX 15 AB6 ASN A 226 LEU A 234 1 9 HELIX 16 AB7 GLN A 240 ALA A 248 1 9 HELIX 17 AB8 SER A 249 ASP A 261 1 13 HELIX 18 AB9 ASP A 261 ALA A 272 1 12 HELIX 19 AC1 GLY A 274 GLU A 290 1 17 HELIX 20 AC2 GLY B 27 HIS B 36 1 10 HELIX 21 AC3 PHE B 43 TYR B 58 1 16 HELIX 22 AC4 SER B 72 LEU B 79 1 8 HELIX 23 AC5 THR B 94 THR B 117 1 24 HELIX 24 AC6 GLU B 128 GLY B 141 1 14 HELIX 25 AC7 HIS B 142 TYR B 144 5 3 HELIX 26 AC8 LYS B 153 LEU B 160 5 8 HELIX 27 AC9 HIS B 176 ARG B 178 5 3 HELIX 28 AD1 ASP B 179 ASN B 185 1 7 HELIX 29 AD2 ASP B 188 GLY B 200 1 13 HELIX 30 AD3 GLY B 213 GLY B 225 1 13 HELIX 31 AD4 ASN B 226 LEU B 234 1 9 HELIX 32 AD5 GLN B 240 ALA B 248 1 9 HELIX 33 AD6 SER B 249 ASP B 261 1 13 HELIX 34 AD7 ASP B 261 ALA B 272 1 12 HELIX 35 AD8 GLY B 274 GLU B 290 1 17 SHEET 1 AA1 6 THR A 121 PHE A 122 0 SHEET 2 AA1 6 ALA A 60 LEU A 66 1 N VAL A 65 O PHE A 122 SHEET 3 AA1 6 ASN A 21 ASP A 26 1 N VAL A 25 O ILE A 64 SHEET 4 AA1 6 VAL A 147 ILE A 150 1 O TRP A 148 N LEU A 22 SHEET 5 AA1 6 VAL A 164 PHE A 167 1 O PHE A 167 N LEU A 149 SHEET 6 AA1 6 GLU A 174 TYR A 175 -1 O TYR A 175 N ARG A 166 SHEET 1 AA2 6 THR B 121 THR B 123 0 SHEET 2 AA2 6 ALA B 60 GLY B 67 1 N VAL B 65 O PHE B 122 SHEET 3 AA2 6 ASN B 21 ASP B 26 1 N VAL B 25 O ILE B 64 SHEET 4 AA2 6 VAL B 147 ILE B 150 1 O TRP B 148 N LEU B 22 SHEET 5 AA2 6 VAL B 164 PHE B 167 1 O SER B 165 N LEU B 149 SHEET 6 AA2 6 GLU B 174 TYR B 175 -1 O TYR B 175 N ARG B 166 LINK OD2 ASP A 155 MG MG A 301 1555 1555 2.08 LINK OD2 ASP A 204 MG MG A 301 1555 1555 1.99 LINK MG MG A 301 O HOH A 403 1555 1555 2.05 LINK MG MG A 301 O HOH A 484 1555 1555 2.10 LINK MG MG A 301 O HOH A 529 1555 1555 2.04 LINK MG MG A 301 O HOH A 552 1555 1555 2.11 LINK OD1 ASP B 87 MG MG B 303 1555 1555 2.21 LINK OD2 ASP B 155 MG MG B 302 1555 1555 2.21 LINK OD2 ASP B 204 MG MG B 302 1555 1555 2.17 LINK MG MG B 302 O HOH B 408 1555 1555 2.16 LINK MG MG B 302 O HOH B 447 1555 1555 2.10 LINK MG MG B 302 O HOH B 597 1555 1555 2.08 LINK MG MG B 302 O HOH B 616 1555 1555 2.07 LINK MG MG B 303 O HOH B 416 1555 1555 2.12 LINK MG MG B 303 O HOH B 431 1555 1555 1.99 LINK MG MG B 303 O HOH B 470 1555 1555 2.26 LINK MG MG B 303 O HOH B 512 1555 1555 2.12 LINK MG MG B 303 O HOH B 670 1555 1555 2.09 CISPEP 1 LEU A 234 PRO A 235 0 -0.84 CISPEP 2 LEU B 234 PRO B 235 0 -4.11 SITE 1 AC1 6 ASP A 155 ASP A 204 HOH A 403 HOH A 484 SITE 2 AC1 6 HOH A 529 HOH A 552 SITE 1 AC2 1 GLU A 210 SITE 1 AC3 2 GLY A 213 ARG A 216 SITE 1 AC4 1 ARG A 93 SITE 1 AC5 4 ARG A 33 ASN A 38 SER A 46 THR A 50 SITE 1 AC6 3 ARG A 216 LYS A 241 TYR A 242 SITE 1 AC7 12 TYR A 90 ALA A 91 GLN A 92 ARG A 93 SITE 2 AC7 12 GLU A 95 HOH A 518 GLU B 182 HIS B 183 SITE 3 AC7 12 ASN B 185 ALA B 214 HOH B 562 HOH B 576 SITE 1 AC8 6 ASP B 155 ASP B 204 HOH B 408 HOH B 447 SITE 2 AC8 6 HOH B 597 HOH B 616 SITE 1 AC9 6 ASP B 87 HOH B 416 HOH B 431 HOH B 470 SITE 2 AC9 6 HOH B 512 HOH B 670 SITE 1 AD1 4 HOH A 614 GLY B 213 ARG B 216 HOH B 656 SITE 1 AD2 1 PHE B 169 SITE 1 AD3 3 LYS B 239 HOH B 584 HOH B 664 SITE 1 AD4 1 HIS B 36 SITE 1 AD5 1 ASN B 38 SITE 1 AD6 2 SER B 45 HOH B 682 SITE 1 AD7 2 LYS B 40 PHE B 104 SITE 1 AD8 1 HOH B 666 SITE 1 AD9 6 SER B 151 THR B 152 PHE B 167 SER B 168 SITE 2 AD9 6 PHE B 169 HOH B 493 SITE 1 AE1 3 ARG A 222 LYS B 71 HOH B 564 CRYST1 47.380 58.380 59.720 66.53 79.48 73.71 P 1 2 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 0.021106 -0.006168 -0.001776 0.00000 SCALE2 0.000000 0.017846 -0.007057 0.00000 SCALE3 0.000000 0.000000 0.018314 0.00000