HEADER HYDROLASE 08-AUG-11 3TC8 TITLE CRYSTAL STRUCTURE OF A ZN-DEPENDENT EXOPEPTIDASE (BDI_3547) FROM TITLE 2 PARABACTEROIDES DISTASONIS ATCC 8503 AT 1.06 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUCINE AMINOPEPTIDASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 22-329; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARABACTEROIDES DISTASONIS; SOURCE 3 ORGANISM_TAXID: 435591; SOURCE 4 STRAIN: ATCC 8503 / DSM 20701 / NCTC 11152; SOURCE 5 GENE: BDI_3547; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: PB1; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS PHOSPHORYLASE/HYDROLASE-LIKE, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI- KEYWDS 3 BIOLOGY, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 01-FEB-23 3TC8 1 REMARK SEQADV LINK REVDAT 3 08-NOV-17 3TC8 1 REMARK REVDAT 2 24-DEC-14 3TC8 1 TITLE REVDAT 1 24-AUG-11 3TC8 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A HYPOTHETICAL ZN-DEPENDENT JRNL TITL 2 EXOPEPTIDASE (BDI_3547) FROM PARABACTEROIDES DISTASONIS ATCC JRNL TITL 3 8503 AT 1.06 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.06 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.38 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 3 NUMBER OF REFLECTIONS : 252112 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) : 0.113 REMARK 3 R VALUE (WORKING SET) : 0.112 REMARK 3 FREE R VALUE : 0.132 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 12723 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) : 1.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.09 REMARK 3 REFLECTION IN BIN (WORKING SET) : 16914 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2270 REMARK 3 BIN FREE R VALUE SET COUNT : 881 REMARK 3 BIN FREE R VALUE : 0.2380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4557 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 1058 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : -0.51000 REMARK 3 B33 (A**2) : 0.41000 REMARK 3 B12 (A**2) : -0.06000 REMARK 3 B13 (A**2) : -0.49000 REMARK 3 B23 (A**2) : 0.10000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.022 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.023 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.016 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.727 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.987 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.982 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4993 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3381 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6851 ; 1.652 ; 1.943 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8267 ; 0.959 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 668 ; 5.720 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 261 ;37.490 ;24.559 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 793 ;11.900 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;22.505 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 719 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5811 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1053 ; 0.001 ; 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): 3045 ; 1.693 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1232 ; 0.761 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4938 ; 2.389 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1948 ; 3.076 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1867 ; 4.417 ; 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): 8374 ; 1.495 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 1083 ; 9.787 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 8211 ; 4.035 ; 3.000 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 : BABINET MODEL WITH 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. 3. X-RAY FLUORESCENCE EXCITATION AND WAVELENGTH REMARK 3 SCANS AND ANOMALOUS DIFFERENCE FOURIERS SUPPORT THE MODELING OF REMARK 3 ZINC (ZN) IONS. 4. OCCUPANCIES OF ZN ATOMS WERE REFINED BY REMARK 3 PHENIX. 5. 1,2-ETHANEDIOL (EDO) MOLECULES FROM THE REMARK 3 CRYOPROTECTION SOLUTION ARE MODELED. REMARK 4 REMARK 4 3TC8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000067302. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97907, REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : VERTICAL FOCUSING MIRROR; DOUBLE REMARK 200 CRYSTAL SI(111) MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE DECEMBER 6, 2010 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 252314 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.060 REMARK 200 RESOLUTION RANGE LOW (A) : 25.382 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.7100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.88100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHARP, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BICINE PH 9, 30% POLYETHYLENE REMARK 280 GLYCOL 6000, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 300 REMARK: CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A REMARK 300 MONOMER AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 GLY A 0 REMARK 465 LYS A 22 REMARK 465 GLU A 23 REMARK 465 THR A 24 REMARK 465 GLY A 25 REMARK 465 ASN A 26 REMARK 465 MSE A 27 REMARK 465 PRO A 28 REMARK 465 GLU A 29 REMARK 465 ILE A 30 REMARK 465 LYS A 31 REMARK 465 LYS A 32 REMARK 465 GLN A 33 REMARK 465 PRO A 34 REMARK 465 ILE A 35 REMARK 465 ALA A 36 REMARK 465 GLY B 0 REMARK 465 LYS B 22 REMARK 465 GLU B 23 REMARK 465 THR B 24 REMARK 465 GLY B 25 REMARK 465 ASN B 26 REMARK 465 MSE B 27 REMARK 465 PRO B 28 REMARK 465 GLU B 29 REMARK 465 ILE B 30 REMARK 465 LYS B 31 REMARK 465 LYS B 32 REMARK 465 GLN B 33 REMARK 465 PRO B 34 REMARK 465 ILE B 35 REMARK 465 ALA B 36 REMARK 465 SER B 37 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 LYS B 293 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 OE2 GLU A 77 O HOH A 1365 2.16 REMARK 500 O HOH A 928 O HOH A 1335 2.19 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 278 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 278 NE - CZ - NH2 ANGL. DEV. = -3.9 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 63 -6.38 86.77 REMARK 500 ALA A 239 41.32 -156.81 REMARK 500 ASN A 328 20.89 -149.76 REMARK 500 ASN B 63 -9.09 90.58 REMARK 500 ALA B 239 39.70 -157.58 REMARK 500 ASN B 328 20.96 -151.56 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 ARG B 103 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 ZN A 350 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 147 OD2 REMARK 620 2 ASP A 180 OD2 109.0 REMARK 620 3 ASP A 180 OD1 163.7 55.5 REMARK 620 4 HIS A 301 NE2 104.6 97.3 83.9 REMARK 620 5 EDO A 401 O2 86.6 148.3 104.8 105.3 REMARK 620 6 HOH A1247 O 98.7 88.2 77.4 152.8 61.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 350 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 147 OD2 REMARK 620 2 ASP B 180 OD2 109.5 REMARK 620 3 ASP B 180 OD1 164.5 55.7 REMARK 620 4 HIS B 301 NE2 105.3 96.6 82.5 REMARK 620 5 EDO B 400 O2 86.8 145.8 103.7 108.2 REMARK 620 6 HOH B1383 O 97.7 88.0 78.5 153.4 59.4 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 ZN A 350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 393088 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY RESIDUES 22-329 OF THE TARGET REMARK 999 SEQUENCE. DBREF 3TC8 A 22 329 UNP A6LHT4 A6LHT4_PARD8 22 329 DBREF 3TC8 B 22 329 UNP A6LHT4 A6LHT4_PARD8 22 329 SEQADV 3TC8 GLY A 0 UNP A6LHT4 EXPRESSION TAG SEQADV 3TC8 GLY B 0 UNP A6LHT4 EXPRESSION TAG SEQRES 1 A 309 GLY LYS GLU THR GLY ASN MSE PRO GLU ILE LYS LYS GLN SEQRES 2 A 309 PRO ILE ALA SER ALA VAL PRO ASP PHE ASN ALA ASP SER SEQRES 3 A 309 ALA TYR ALA TYR VAL ALA ASN GLN VAL ALA PHE GLY PRO SEQRES 4 A 309 ARG VAL PRO ASN THR ALA ALA HIS LYS ALA CYS GLY ASP SEQRES 5 A 309 TYR LEU ALA SER GLU LEU LYS ARG PHE GLY ALA LYS VAL SEQRES 6 A 309 TYR GLN GLN GLU ALA ILE LEU THR ALA TYR ASP GLY THR SEQRES 7 A 309 LYS LEU GLU ALA ARG ASN ILE ILE GLY SER PHE ASP PRO SEQRES 8 A 309 GLU ASN SER LYS ARG VAL LEU LEU PHE ALA HIS TRP ASP SEQRES 9 A 309 SER ARG PRO TYR SER ASP HIS ASP PRO ASP PRO SER LYS SEQRES 10 A 309 HIS ARG THR PRO LEU ASP GLY ALA ASP ASP GLY GLY SER SEQRES 11 A 309 GLY VAL GLY ALA LEU LEU GLU ILE ALA ARG GLN ILE GLY SEQRES 12 A 309 GLN LYS ALA PRO GLY ILE GLY ILE ASP ILE ILE PHE PHE SEQRES 13 A 309 ASP ALA GLU ASP TYR GLY THR PRO GLU PHE VAL THR ASP SEQRES 14 A 309 TYR THR PRO ASP SER TRP CYS LEU GLY THR GLN PHE TRP SEQRES 15 A 309 ALA LYS ASN PRO HIS VAL PRO ASN TYR THR ALA GLU TYR SEQRES 16 A 309 GLY ILE LEU LEU ASP MSE VAL GLY GLY LYS ASN ALA THR SEQRES 17 A 309 PHE PHE LYS GLU GLN GLN SER LEU ARG ALA ALA ALA PRO SEQRES 18 A 309 ILE VAL GLU MSE VAL TRP SER ALA ALA ARG ASP LEU GLY SEQRES 19 A 309 TYR GLY LYS TYR PHE ILE ASN ALA ALA GLY GLY ALA ILE SEQRES 20 A 309 THR ASP ASP HIS GLN TYR VAL ILE SER GLY ARG ASN ILE SEQRES 21 A 309 PRO SER ILE ASP ILE ILE ASN TYR ASP PRO GLU SER LYS SEQRES 22 A 309 THR GLY PHE ALA SER TYR TRP HIS THR GLN LYS ASP ASN SEQRES 23 A 309 MSE GLU ASN ILE ASP ARG GLU THR LEU LYS ALA ALA GLY SEQRES 24 A 309 GLN THR VAL LEU GLU VAL ILE TYR ASN ARG SEQRES 1 B 309 GLY LYS GLU THR GLY ASN MSE PRO GLU ILE LYS LYS GLN SEQRES 2 B 309 PRO ILE ALA SER ALA VAL PRO ASP PHE ASN ALA ASP SER SEQRES 3 B 309 ALA TYR ALA TYR VAL ALA ASN GLN VAL ALA PHE GLY PRO SEQRES 4 B 309 ARG VAL PRO ASN THR ALA ALA HIS LYS ALA CYS GLY ASP SEQRES 5 B 309 TYR LEU ALA SER GLU LEU LYS ARG PHE GLY ALA LYS VAL SEQRES 6 B 309 TYR GLN GLN GLU ALA ILE LEU THR ALA TYR ASP GLY THR SEQRES 7 B 309 LYS LEU GLU ALA ARG ASN ILE ILE GLY SER PHE ASP PRO SEQRES 8 B 309 GLU ASN SER LYS ARG VAL LEU LEU PHE ALA HIS TRP ASP SEQRES 9 B 309 SER ARG PRO TYR SER ASP HIS ASP PRO ASP PRO SER LYS SEQRES 10 B 309 HIS ARG THR PRO LEU ASP GLY ALA ASP ASP GLY GLY SER SEQRES 11 B 309 GLY VAL GLY ALA LEU LEU GLU ILE ALA ARG GLN ILE GLY SEQRES 12 B 309 GLN LYS ALA PRO GLY ILE GLY ILE ASP ILE ILE PHE PHE SEQRES 13 B 309 ASP ALA GLU ASP TYR GLY THR PRO GLU PHE VAL THR ASP SEQRES 14 B 309 TYR THR PRO ASP SER TRP CYS LEU GLY THR GLN PHE TRP SEQRES 15 B 309 ALA LYS ASN PRO HIS VAL PRO ASN TYR THR ALA GLU TYR SEQRES 16 B 309 GLY ILE LEU LEU ASP MSE VAL GLY GLY LYS ASN ALA THR SEQRES 17 B 309 PHE PHE LYS GLU GLN GLN SER LEU ARG ALA ALA ALA PRO SEQRES 18 B 309 ILE VAL GLU MSE VAL TRP SER ALA ALA ARG ASP LEU GLY SEQRES 19 B 309 TYR GLY LYS TYR PHE ILE ASN ALA ALA GLY GLY ALA ILE SEQRES 20 B 309 THR ASP ASP HIS GLN TYR VAL ILE SER GLY ARG ASN ILE SEQRES 21 B 309 PRO SER ILE ASP ILE ILE ASN TYR ASP PRO GLU SER LYS SEQRES 22 B 309 THR GLY PHE ALA SER TYR TRP HIS THR GLN LYS ASP ASN SEQRES 23 B 309 MSE GLU ASN ILE ASP ARG GLU THR LEU LYS ALA ALA GLY SEQRES 24 B 309 GLN THR VAL LEU GLU VAL ILE TYR ASN ARG MODRES 3TC8 MSE A 221 MET SELENOMETHIONINE MODRES 3TC8 MSE A 245 MET SELENOMETHIONINE MODRES 3TC8 MSE A 307 MET SELENOMETHIONINE MODRES 3TC8 MSE B 221 MET SELENOMETHIONINE MODRES 3TC8 MSE B 245 MET SELENOMETHIONINE MODRES 3TC8 MSE B 307 MET SELENOMETHIONINE HET MSE A 221 8 HET MSE A 245 8 HET MSE A 307 8 HET MSE B 221 8 HET MSE B 245 8 HET MSE B 307 8 HET ZN A 350 1 HET EDO A 401 4 HET EDO A 404 4 HET ZN B 350 1 HET EDO B 400 4 HET EDO B 402 4 HET EDO B 403 4 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 3 ZN 2(ZN 2+) FORMUL 4 EDO 5(C2 H6 O2) FORMUL 10 HOH *1058(H2 O) HELIX 1 1 ASN A 43 PHE A 57 1 15 HELIX 2 2 THR A 64 PHE A 81 1 18 HELIX 3 3 ASP A 134 HIS A 138 5 5 HELIX 4 4 GLY A 148 LYS A 165 1 18 HELIX 5 5 CYS A 196 ASN A 205 1 10 HELIX 6 6 GLU A 232 GLY A 254 1 23 HELIX 7 7 ASP A 269 ASN A 279 1 11 HELIX 8 8 ASN A 306 ILE A 310 5 5 HELIX 9 9 ASP A 311 ARG A 329 1 19 HELIX 10 10 ASN B 43 PHE B 57 1 15 HELIX 11 11 THR B 64 PHE B 81 1 18 HELIX 12 12 ASP B 134 HIS B 138 5 5 HELIX 13 13 GLY B 148 LYS B 165 1 18 HELIX 14 14 CYS B 196 ASN B 205 1 10 HELIX 15 15 GLU B 232 GLY B 254 1 23 HELIX 16 16 ASP B 269 ASN B 279 1 11 HELIX 17 17 ASN B 306 ILE B 310 5 5 HELIX 18 18 ASP B 311 ARG B 329 1 19 SHEET 1 A 6 LYS A 84 THR A 93 0 SHEET 2 A 6 LYS A 99 PHE A 109 -1 O LEU A 100 N LEU A 92 SHEET 3 A 6 GLY A 170 PHE A 176 -1 O ILE A 171 N PHE A 109 SHEET 4 A 6 ARG A 116 HIS A 122 1 N LEU A 119 O ASP A 172 SHEET 5 A 6 TYR A 215 ASP A 220 1 O ILE A 217 N PHE A 120 SHEET 6 A 6 SER A 282 ILE A 286 1 O ILE A 283 N LEU A 218 SHEET 1 B 2 PHE A 229 LYS A 231 0 SHEET 2 B 2 PHE A 259 ALA A 263 1 O ALA A 262 N LYS A 231 SHEET 1 C 6 LYS B 84 THR B 93 0 SHEET 2 C 6 LYS B 99 PHE B 109 -1 O LEU B 100 N LEU B 92 SHEET 3 C 6 GLY B 170 PHE B 176 -1 O ILE B 171 N PHE B 109 SHEET 4 C 6 ARG B 116 HIS B 122 1 N LEU B 119 O ASP B 172 SHEET 5 C 6 TYR B 215 ASP B 220 1 O ILE B 217 N PHE B 120 SHEET 6 C 6 SER B 282 ILE B 286 1 O ILE B 283 N LEU B 218 SHEET 1 D 2 PHE B 229 LYS B 231 0 SHEET 2 D 2 PHE B 259 ALA B 263 1 O ALA B 262 N LYS B 231 LINK C ASP A 220 N MSE A 221 1555 1555 1.32 LINK C MSE A 221 N VAL A 222 1555 1555 1.32 LINK C GLU A 244 N MSE A 245 1555 1555 1.32 LINK C MSE A 245 N VAL A 246 1555 1555 1.33 LINK C ASN A 306 N MSE A 307 1555 1555 1.31 LINK C MSE A 307 N GLU A 308 1555 1555 1.33 LINK C ASP B 220 N MSE B 221 1555 1555 1.33 LINK C MSE B 221 N VAL B 222 1555 1555 1.33 LINK C GLU B 244 N MSE B 245 1555 1555 1.33 LINK C MSE B 245 N VAL B 246 1555 1555 1.32 LINK C ASN B 306 N MSE B 307 1555 1555 1.32 LINK C MSE B 307 N GLU B 308 1555 1555 1.33 LINK OD2 ASP A 147 ZN ZN A 350 1555 1555 1.99 LINK OD2 ASP A 180 ZN ZN A 350 1555 1555 1.88 LINK OD1 ASP A 180 ZN ZN A 350 1555 1555 2.52 LINK NE2 HIS A 301 ZN ZN A 350 1555 1555 2.08 LINK ZN ZN A 350 O2 EDO A 401 1555 1555 2.19 LINK ZN ZN A 350 O AHOH A1247 1555 1555 2.16 LINK OD2 ASP B 147 ZN ZN B 350 1555 1555 1.99 LINK OD2 ASP B 180 ZN ZN B 350 1555 1555 1.83 LINK OD1 ASP B 180 ZN ZN B 350 1555 1555 2.54 LINK NE2 HIS B 301 ZN ZN B 350 1555 1555 2.09 LINK ZN ZN B 350 O2 EDO B 400 1555 1555 2.16 LINK ZN ZN B 350 O AHOH B1383 1555 1555 2.18 SITE 1 AC1 6 ASP A 147 ASP A 180 HIS A 301 EDO A 401 SITE 2 AC1 6 HOH A1062 HOH A1247 SITE 1 AC2 8 ASP A 147 GLU A 179 ASP A 220 TRP A 300 SITE 2 AC2 8 HIS A 301 ZN A 350 HOH A1062 HOH A1247 SITE 1 AC3 4 HIS A 138 ARG A 139 HOH A 441 HOH A1033 SITE 1 AC4 7 ASP B 147 ASP B 180 TRP B 300 HIS B 301 SITE 2 AC4 7 EDO B 400 HOH B1301 HOH B1383 SITE 1 AC5 10 ASP B 147 GLU B 179 ASP B 220 MSE B 221 SITE 2 AC5 10 THR B 268 TRP B 300 HIS B 301 ZN B 350 SITE 3 AC5 10 HOH B1301 HOH B1383 SITE 1 AC6 9 HIS B 131 GLU B 185 TRP B 195 TRP B 300 SITE 2 AC6 9 HOH B 531 HOH B1092 HOH B1188 HOH B1205 SITE 3 AC6 9 HOH B1353 SITE 1 AC7 4 HIS B 138 ARG B 139 HOH B 575 HOH B1265 CRYST1 44.662 51.277 72.985 105.74 99.92 97.46 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 0.022390 0.002932 0.005028 0.00000 SCALE2 0.000000 0.019668 0.006198 0.00000 SCALE3 0.000000 0.000000 0.014584 0.00000