HEADER HYDROLASE 05-FEB-10 3LPD TITLE CRYSTAL STRUCTURE OF A SUBTILISIN-LIKE PROTEASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACIDIC EXTRACELLULAR SUBTILISIN-LIKE PROTEASE APRV2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 131-469; COMPND 5 EC: 3.4.21.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DICHELOBACTER NODOSUS; SOURCE 3 ORGANISM_TAXID: 246195; SOURCE 4 STRAIN: VCS1703A; SOURCE 5 GENE: APRV2, DNO_1167; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA-GAMI(DE3)LYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS PROTEASE, SUBTILASE, VIRULENCE FACTOR, HYDROLASE, SERINE PROTEASE EXPDTA X-RAY DIFFRACTION AUTHOR C.J.PORTER,W.WONG,J.C.WHISSTOCK,J.I.ROOD,R.M.KENNAN REVDAT 3 01-NOV-23 3LPD 1 REMARK SEQADV LINK REVDAT 2 15-DEC-10 3LPD 1 JRNL REVDAT 1 08-DEC-10 3LPD 0 JRNL AUTH R.M.KENNAN,W.WONG,O.P.DHUNGYEL,X.HAN,D.WONG,D.PARKER, JRNL AUTH 2 C.J.ROSADO,R.H.P.LAW,S.MCGOWAN,S.B.REEVE,V.LEVINA, JRNL AUTH 3 G.A.POWERS,R.N.PIKE,S.P.BOTTOMLEY,A.I.SMITH,I.MARSH, JRNL AUTH 4 R.J.WHITTINGTON,J.C.WHISSTOCK,C.J.PORTER,J.I.ROOD JRNL TITL THE SUBTILISIN-LIKE PROTEASE APRV2 IS REQUIRED FOR VIRULENCE JRNL TITL 2 AND USES A NOVEL DISULPHIDE-TETHERED EXOSITE TO BIND JRNL TITL 3 SUBSTRATES JRNL REF PLOS PATHOG. V. 6 01210 2010 JRNL REFN ISSN 1553-7366 JRNL PMID 21124876 JRNL DOI 10.1371/JOURNAL.PPAT.1001210 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 3 NUMBER OF REFLECTIONS : 15129 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 769 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1037 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 53 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2468 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 78 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : 0.10000 REMARK 3 B33 (A**2) : 0.13000 REMARK 3 B12 (A**2) : 0.17000 REMARK 3 B13 (A**2) : 0.03000 REMARK 3 B23 (A**2) : 0.19000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.312 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.218 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.966 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2522 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3450 ; 1.229 ; 1.924 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 338 ; 6.301 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 110 ;37.664 ;24.818 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 341 ;14.399 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;19.198 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 387 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1984 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1672 ; 0.515 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2661 ; 0.918 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 850 ; 1.444 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 789 ; 2.291 ; 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 81 REMARK 3 ORIGIN FOR THE GROUP (A): 12.4648 -5.0150 -17.8008 REMARK 3 T TENSOR REMARK 3 T11: 0.1059 T22: 0.0638 REMARK 3 T33: 0.0559 T12: 0.0090 REMARK 3 T13: -0.0113 T23: 0.0481 REMARK 3 L TENSOR REMARK 3 L11: 2.6741 L22: 1.1679 REMARK 3 L33: 0.7173 L12: 0.6269 REMARK 3 L13: 0.0337 L23: 0.4580 REMARK 3 S TENSOR REMARK 3 S11: -0.1032 S12: 0.2972 S13: 0.2578 REMARK 3 S21: -0.0649 S22: 0.1040 S23: 0.0606 REMARK 3 S31: -0.0368 S32: -0.0675 S33: -0.0008 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 82 A 103 REMARK 3 ORIGIN FOR THE GROUP (A): 8.2089 -30.5942 -19.7678 REMARK 3 T TENSOR REMARK 3 T11: 0.0970 T22: 0.0847 REMARK 3 T33: 0.0968 T12: -0.0281 REMARK 3 T13: 0.0114 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 1.1501 L22: 32.9058 REMARK 3 L33: 2.2778 L12: 3.3340 REMARK 3 L13: -1.3001 L23: -8.0948 REMARK 3 S TENSOR REMARK 3 S11: -0.2259 S12: -0.0500 S13: -0.1889 REMARK 3 S21: -0.3653 S22: 0.1334 S23: 0.0077 REMARK 3 S31: 0.2043 S32: -0.0109 S33: 0.0925 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 104 A 221 REMARK 3 ORIGIN FOR THE GROUP (A): 21.9577 -10.7301 -12.9969 REMARK 3 T TENSOR REMARK 3 T11: 0.1227 T22: 0.0475 REMARK 3 T33: 0.0678 T12: 0.0207 REMARK 3 T13: -0.0021 T23: 0.0253 REMARK 3 L TENSOR REMARK 3 L11: 3.0627 L22: 1.0695 REMARK 3 L33: 0.6791 L12: 0.7856 REMARK 3 L13: -0.0353 L23: 0.0086 REMARK 3 S TENSOR REMARK 3 S11: -0.0081 S12: 0.0315 S13: -0.1996 REMARK 3 S21: -0.0154 S22: 0.0017 S23: -0.1067 REMARK 3 S31: 0.0557 S32: 0.0748 S33: 0.0064 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 222 A 340 REMARK 3 ORIGIN FOR THE GROUP (A): 12.3753 -5.7192 -4.3294 REMARK 3 T TENSOR REMARK 3 T11: 0.1091 T22: 0.1195 REMARK 3 T33: 0.0822 T12: 0.0104 REMARK 3 T13: 0.0178 T23: -0.0148 REMARK 3 L TENSOR REMARK 3 L11: 2.6444 L22: 1.4718 REMARK 3 L33: 1.0483 L12: 1.0562 REMARK 3 L13: 0.1113 L23: 0.3750 REMARK 3 S TENSOR REMARK 3 S11: 0.1646 S12: -0.3503 S13: 0.2299 REMARK 3 S21: 0.1419 S22: -0.1351 S23: 0.0752 REMARK 3 S31: -0.0354 S32: -0.0409 S33: -0.0295 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 3LPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057563. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.542 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.9 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15131 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 24.108 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.6 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09200 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.56000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: PDB ENTRY 3LPC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM ACETATE, SODIUM CACODYLATE, PEG REMARK 280 8000, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 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: PISA 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 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 9 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 17 CD NE CZ NH1 NH2 REMARK 470 LYS A 24 CG CD CE NZ REMARK 470 ARG A 48 NE CZ NH1 NH2 REMARK 470 ARG A 96 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 97 CG CD CE NZ REMARK 470 ARG A 120 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 145 OD1 OD2 REMARK 470 ARG A 232 NE CZ NH1 NH2 REMARK 470 ASP A 308 CG OD1 OD2 REMARK 470 ASN A 318 CG OD1 ND2 REMARK 470 ARG A 320 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 41 -152.62 -166.71 REMARK 500 ALA A 114 48.42 -149.49 REMARK 500 ARG A 120 -52.39 71.78 REMARK 500 SER A 141 -3.72 93.66 REMARK 500 ARG A 263 -76.90 -117.48 REMARK 500 LEU A 321 141.57 69.45 REMARK 500 LEU A 325 43.06 -143.94 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 1 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 5 OD1 REMARK 620 2 ASP A 49 OD1 152.6 REMARK 620 3 ASP A 49 OD2 152.9 53.0 REMARK 620 4 VAL A 116 O 94.5 86.0 97.3 REMARK 620 5 ASN A 119 OD1 72.1 81.1 133.9 80.7 REMARK 620 6 ILE A 121 O 88.0 84.9 86.9 164.8 85.9 REMARK 620 7 VAL A 123 O 78.6 128.0 79.9 79.0 142.6 116.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 341 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 59 OD2 REMARK 620 2 ASP A 69 OD2 94.1 REMARK 620 3 ASP A 74 OD2 113.1 107.5 REMARK 620 4 ASP A 74 OD1 78.2 77.4 48.8 REMARK 620 5 ASP A 76 O 94.2 169.3 75.3 111.0 REMARK 620 6 HOH A 405 O 96.2 89.8 144.0 165.5 82.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 342 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 69 OD1 REMARK 620 2 ASP A 69 OD2 45.8 REMARK 620 3 ASP A 71 OD1 87.0 88.7 REMARK 620 4 ASP A 71 O 77.7 122.8 78.7 REMARK 620 5 GLY A 72 O 157.2 156.0 87.4 79.5 REMARK 620 6 ASP A 74 OD1 114.2 68.4 91.5 164.3 88.0 REMARK 620 7 HOH A 374 O 104.4 106.1 165.1 94.2 78.3 92.4 REMARK 620 N 1 2 3 4 5 6 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 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 341 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 342 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LPA RELATED DB: PDB REMARK 900 RELATED ID: 3LPC RELATED DB: PDB DBREF 3LPD A 2 340 UNP A5EXI3 A5EXI3_DICNV 131 469 SEQADV 3LPD SER A 141 UNP A5EXI3 CYS 270 ENGINEERED MUTATION SEQRES 1 A 339 ALA PRO ASN ASP GLN HIS TYR ARG GLU GLN TRP HIS TYR SEQRES 2 A 339 PHE ASP ARG TYR GLY VAL LYS ALA ASP LYS VAL TRP ASP SEQRES 3 A 339 MET GLY PHE THR GLY GLN ASN VAL VAL VAL ALA VAL VAL SEQRES 4 A 339 ASP THR GLY ILE LEU HIS HIS ARG ASP LEU ASN ALA ASN SEQRES 5 A 339 VAL LEU PRO GLY TYR ASP PHE ILE SER ASN SER GLN ILE SEQRES 6 A 339 SER LEU ASP GLY ASP GLY ARG ASP ALA ASP PRO PHE ASP SEQRES 7 A 339 GLU GLY ASP TRP PHE ASP ASN TRP ALA CYS GLY GLY TYR SEQRES 8 A 339 PRO ASP PRO ARG LYS GLU ARG SER ASP SER SER TRP HIS SEQRES 9 A 339 GLY SER HIS VAL ALA GLY THR ILE ALA ALA VAL THR ASN SEQRES 10 A 339 ASN ARG ILE GLY VAL ALA GLY VAL ALA TYR GLY ALA LYS SEQRES 11 A 339 VAL VAL PRO VAL ARG ALA LEU GLY ARG SER GLY GLY TYR SEQRES 12 A 339 ASP SER ASP ILE SER ASP GLY LEU TYR TRP ALA ALA GLY SEQRES 13 A 339 GLY ARG ILE ALA GLY ILE PRO GLU ASN ARG ASN PRO ALA SEQRES 14 A 339 LYS VAL ILE ASN MET SER LEU GLY SER ASP GLY GLN CYS SEQRES 15 A 339 SER TYR ASN ALA GLN THR MET ILE ASP ARG ALA THR ARG SEQRES 16 A 339 LEU GLY ALA LEU VAL VAL VAL ALA ALA GLY ASN GLU ASN SEQRES 17 A 339 GLN ASN ALA SER ASN THR TRP PRO THR SER CYS ASN ASN SEQRES 18 A 339 VAL LEU SER VAL GLY ALA THR THR SER ARG GLY ILE ARG SEQRES 19 A 339 ALA SER PHE SER ASN TYR GLY VAL ASP VAL ASP LEU ALA SEQRES 20 A 339 ALA PRO GLY GLN ASP ILE LEU SER THR VAL ASP SER GLY SEQRES 21 A 339 THR ARG ARG PRO VAL SER ASP ALA TYR SER PHE MET ALA SEQRES 22 A 339 GLY THR SER MET ALA THR PRO HIS VAL SER GLY VAL ALA SEQRES 23 A 339 ALA LEU VAL ILE SER ALA ALA ASN SER VAL ASN LYS ASN SEQRES 24 A 339 LEU THR PRO ALA GLU LEU LYS ASP VAL LEU VAL SER THR SEQRES 25 A 339 THR SER PRO PHE ASN GLY ARG LEU ASP ARG ALA LEU GLY SEQRES 26 A 339 SER GLY ILE VAL ASP ALA GLU ALA ALA VAL ASN SER VAL SEQRES 27 A 339 LEU HET CA A 1 1 HET CA A 341 1 HET CA A 342 1 HETNAM CA CALCIUM ION FORMUL 2 CA 3(CA 2+) FORMUL 5 HOH *78(H2 O) HELIX 1 1 HIS A 7 GLU A 10 5 4 HELIX 2 2 GLN A 11 ASP A 16 1 6 HELIX 3 3 LYS A 21 ASP A 27 1 7 HELIX 4 4 LEU A 50 VAL A 54 5 5 HELIX 5 5 ASN A 63 LEU A 68 1 6 HELIX 6 6 ASP A 94 GLU A 98 5 5 HELIX 7 7 TRP A 104 ALA A 115 1 12 HELIX 8 8 TYR A 144 ALA A 156 1 13 HELIX 9 9 SER A 184 LEU A 197 1 14 HELIX 10 10 ASN A 211 SER A 213 5 3 HELIX 11 11 GLY A 275 VAL A 297 1 23 HELIX 12 12 THR A 302 THR A 313 1 12 HELIX 13 13 ASP A 331 LEU A 340 1 10 SHEET 1 A 7 TYR A 58 ASP A 59 0 SHEET 2 A 7 LYS A 131 ARG A 136 1 O PRO A 134 N TYR A 58 SHEET 3 A 7 VAL A 36 ASP A 41 1 N VAL A 39 O VAL A 135 SHEET 4 A 7 VAL A 172 MET A 175 1 O ASN A 174 N ALA A 38 SHEET 5 A 7 LEU A 200 ALA A 204 1 O VAL A 202 N MET A 175 SHEET 6 A 7 LEU A 224 THR A 229 1 O LEU A 224 N VAL A 201 SHEET 7 A 7 LEU A 247 PRO A 250 1 O LEU A 247 N GLY A 227 SHEET 1 B 2 SER A 179 ASP A 180 0 SHEET 2 B 2 THR A 215 TRP A 216 -1 O TRP A 216 N SER A 179 SHEET 1 C 2 ILE A 254 ASP A 259 0 SHEET 2 C 2 ASP A 268 MET A 273 -1 O ALA A 269 N VAL A 258 SSBOND 1 CYS A 183 CYS A 220 1555 1555 2.04 LINK CA CA A 1 OD1 ASP A 5 1555 1555 2.17 LINK CA CA A 1 OD1 ASP A 49 1555 1555 2.41 LINK CA CA A 1 OD2 ASP A 49 1555 1555 2.55 LINK CA CA A 1 O VAL A 116 1555 1555 2.26 LINK CA CA A 1 OD1 ASN A 119 1555 1555 2.53 LINK CA CA A 1 O ILE A 121 1555 1555 2.40 LINK CA CA A 1 O VAL A 123 1555 1555 2.54 LINK OD2 ASP A 59 CA CA A 341 1555 1555 2.67 LINK OD2 ASP A 69 CA CA A 341 1555 1555 2.25 LINK OD1 ASP A 69 CA CA A 342 1555 1555 2.59 LINK OD2 ASP A 69 CA CA A 342 1555 1555 2.98 LINK OD1 ASP A 71 CA CA A 342 1555 1555 2.39 LINK O ASP A 71 CA CA A 342 1555 1555 2.41 LINK O GLY A 72 CA CA A 342 1555 1555 2.21 LINK OD2 ASP A 74 CA CA A 341 1555 1555 2.65 LINK OD1 ASP A 74 CA CA A 341 1555 1555 2.68 LINK OD1 ASP A 74 CA CA A 342 1555 1555 2.48 LINK O ASP A 76 CA CA A 341 1555 1555 2.25 LINK CA CA A 341 O HOH A 405 1555 1555 2.32 LINK CA CA A 342 O HOH A 374 1555 1555 2.38 CISPEP 1 TYR A 92 PRO A 93 0 10.56 CISPEP 2 TRP A 216 PRO A 217 0 8.20 SITE 1 AC1 6 ASP A 5 ASP A 49 VAL A 116 ASN A 119 SITE 2 AC1 6 ILE A 121 VAL A 123 SITE 1 AC2 5 ASP A 59 ASP A 69 ASP A 74 ASP A 76 SITE 2 AC2 5 HOH A 405 SITE 1 AC3 5 ASP A 69 ASP A 71 GLY A 72 ASP A 74 SITE 2 AC3 5 HOH A 374 CRYST1 42.936 45.655 47.248 98.00 115.13 113.41 P 1 1 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 0.023290 0.010084 0.015786 0.00000 SCALE2 0.000000 0.023868 0.009524 0.00000 SCALE3 0.000000 0.000000 0.025170 0.00000