HEADER HYDROLASE 04-MAY-09 3HBK TITLE CRYSTAL STRUCTURE OF PUTATIVE GLYCOSYL HYDROLASE, WAS DOMAIN OF TITLE 2 UNKNOWN FUNCTION (DUF1080) (YP_001302580.1) FROM PARABACTEROIDES TITLE 3 DISTASONIS ATCC 8503 AT 2.36 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE GLYCOSYL HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARABACTEROIDES DISTASONIS ATCC 8503; SOURCE 3 ORGANISM_TAXID: 435591; SOURCE 4 ATCC: 8503; SOURCE 5 GENE: BDI_1195, YP_001302580.1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS YP_001302580.1, PUTATIVE GLYCOSYL HYDROLASE, WAS DOMAIN OF UNKNOWN KEYWDS 2 FUNCTION (DUF1080), STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, UNKNOWN KEYWDS 4 FUNCTION, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 01-FEB-23 3HBK 1 REMARK SEQADV REVDAT 4 24-JUL-19 3HBK 1 REMARK LINK REVDAT 3 25-OCT-17 3HBK 1 REMARK REVDAT 2 13-JUL-11 3HBK 1 VERSN REVDAT 1 26-MAY-09 3HBK 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE GLYCOSYL HYDROLASE, WAS DOMAIN JRNL TITL 2 OF UNKNOWN FUNCTION (DUF1080) (YP_001302580.1) FROM JRNL TITL 3 PARABACTEROIDES DISTASONIS ATCC 8503 AT 2.36 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.36 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 13695 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) : 0.198 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 685 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) : 2.36 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.42 REMARK 3 REFLECTION IN BIN (WORKING SET) : 908 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.75 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 48 REMARK 3 BIN FREE R VALUE : 0.4730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1781 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 77 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 60.81 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.21000 REMARK 3 B22 (A**2) : -0.21000 REMARK 3 B33 (A**2) : 0.42000 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): 0.285 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.226 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.175 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.445 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1885 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1255 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2555 ; 1.651 ; 1.938 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3058 ; 0.994 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 242 ; 3.860 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 93 ;32.272 ;24.946 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 294 ;10.911 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;10.164 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 263 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2160 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 393 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 300 ; 0.175 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1268 ; 0.177 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 872 ; 0.176 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): 918 ; 0.088 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 157 ; 0.197 ; 0.500 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): 3 ; 0.192 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 18 ; 0.134 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.218 ; 0.500 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): 1264 ; 1.479 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 486 ; 0.274 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1840 ; 2.384 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 820 ; 4.258 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 709 ; 5.131 ;11.000 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 : 1 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 39 A 269 REMARK 3 ORIGIN FOR THE GROUP (A): 46.7430 11.3120 73.6260 REMARK 3 T TENSOR REMARK 3 T11: -0.1238 T22: -0.1998 REMARK 3 T33: -0.2080 T12: 0.0130 REMARK 3 T13: -0.0148 T23: 0.0386 REMARK 3 L TENSOR REMARK 3 L11: 4.8605 L22: 1.3649 REMARK 3 L33: 4.5369 L12: -1.2036 REMARK 3 L13: 1.7718 L23: -1.0059 REMARK 3 S TENSOR REMARK 3 S11: -0.0094 S12: 0.0379 S13: 0.0950 REMARK 3 S21: 0.1167 S22: 0.0506 S23: 0.0716 REMARK 3 S31: 0.2296 S32: -0.0312 S33: -0.0412 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED REMARK 3 SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. SULFATE REMARK 3 (SO4) AND ETHYLENE GLYCOL (EDO) HAVE BEEN MODELED FROM REMARK 3 CRYSTALLIZATION/CRYO CONDITIONS. REMARK 4 REMARK 4 3HBK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000052932. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97932,0.97915 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, TOROID REMARK 200 FOCUSING MIRROR 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 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13756 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.360 REMARK 200 RESOLUTION RANGE LOW (A) : 29.336 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.7700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.95100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2000M LI2SO4, 30.0000% PEG-4000, REMARK 280 0.1M TRIS PH 8.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 83.66600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 30.50450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 30.50450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 41.83300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 30.50450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 30.50450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 125.49900 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 30.50450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 30.50450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.83300 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 30.50450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 30.50450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 125.49900 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 83.66600 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 300 REMARK: CRYSTAL PACKING ANALYSIS AND ANALYTICAL SIZE EXCLUSION REMARK 300 CHROMATOGRAPHY SUPPORTS THE ASSIGNMENT OF A MONOMER AS THE REMARK 300 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 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 THR A 26 REMARK 465 GLU A 27 REMARK 465 GLU A 28 REMARK 465 THR A 29 REMARK 465 ALA A 30 REMARK 465 LYS A 31 REMARK 465 VAL A 32 REMARK 465 VAL A 33 REMARK 465 PRO A 34 REMARK 465 MSE A 35 REMARK 465 ALA A 36 REMARK 465 VAL A 37 REMARK 465 ILE A 38 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 A 61 CE NZ REMARK 470 LYS A 71 NZ REMARK 470 LYS A 82 CE NZ REMARK 470 LYS A 90 NZ REMARK 470 GLU A 95 CG CD OE1 OE2 REMARK 470 GLN A 134 CG CD OE1 NE2 REMARK 470 LYS A 136 CG CD CE NZ REMARK 470 GLN A 137 CG CD OE1 NE2 REMARK 470 LYS A 138 CD CE NZ REMARK 470 LYS A 158 CD CE NZ REMARK 470 LYS A 219 CD CE NZ REMARK 470 LYS A 226 CD CE NZ REMARK 470 LYS A 269 CG CD CE NZ 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 47 -33.86 63.88 REMARK 500 SER A 125 -157.03 -150.60 REMARK 500 GLU A 135 158.29 177.90 REMARK 500 TYR A 160 147.53 -175.24 REMARK 500 THR A 162 -34.23 -139.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 394752 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 SEQUENCE SEQUENCE THIS CONSTRUCT (RESIDUE 29-268) WAS EXPRESSED REMARK 999 WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED REMARK 999 WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET REMARK 999 SEQUENCE. DBREF 3HBK A 26 269 UNP A6LB94 A6LB94_PARD8 26 269 SEQADV 3HBK GLY A 0 UNP A6LB94 EXPRESSION TAG SEQRES 1 A 245 GLY THR GLU GLU THR ALA LYS VAL VAL PRO MSE ALA VAL SEQRES 2 A 245 ILE THR PRO ALA ILE ASN GLN LEU THR ASP GLN GLU LYS SEQRES 3 A 245 ALA GLU GLY TRP ALA LEU LEU PHE ASP GLY LYS THR THR SEQRES 4 A 245 LYS GLY TRP ARG GLY ALA HIS LYS ASP ALA PHE PRO ASP SEQRES 5 A 245 HIS GLY TRP MSE VAL LYS ASP GLY GLU LEU ILE VAL GLN SEQRES 6 A 245 LYS SER ASP GLY SER GLU SER THR ASN GLY GLY ASP ILE SEQRES 7 A 245 VAL THR GLU GLY GLU TYR SER ALA PHE GLU PHE SER VAL SEQRES 8 A 245 ASP PHE LYS ILE THR GLU GLY ALA ASN SER GLY ILE LYS SEQRES 9 A 245 TYR PHE VAL THR GLU GLN GLU LYS GLN LYS GLY SER ALA SEQRES 10 A 245 TYR GLY LEU GLU PHE GLN LEU LEU ASP ASP ALA LYS HIS SEQRES 11 A 245 PRO ASP ALA LYS LEU TYR THR THR PHE PRO GLY SER ARG SEQRES 12 A 245 THR LEU GLY SER LEU TYR ASP LEU LYS LYS SER GLU ASN SEQRES 13 A 245 ILE HIS PHE ASN GLY VAL GLY GLU TRP ASN THR ALA VAL SEQRES 14 A 245 VAL LYS VAL PHE PRO ASN ASN HIS VAL GLU HIS TRP LEU SEQRES 15 A 245 ASN GLY VAL LYS VAL LEU GLU TYR GLU ARG GLY SER LYS SEQRES 16 A 245 GLU PHE ARG ASP LEU VAL LYS GLY SER LYS TYR ALA ASP SEQRES 17 A 245 PRO SER TYR ASN ALA GLY GLY ALA PHE GLY GLU ALA PRO SEQRES 18 A 245 LYS GLY HIS ILE LEU LEU GLN ASP HIS GLY ASP GLU VAL SEQRES 19 A 245 ALA PHE ARG ASN ILE LYS VAL LYS GLU LEU LYS MODRES 3HBK MSE A 80 MET SELENOMETHIONINE HET MSE A 80 13 HET SO4 A 1 5 HET SO4 A 2 5 HET EDO A 3 4 HET EDO A 4 4 HET EDO A 5 4 HET EDO A 6 4 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE C5 H11 N O2 SE FORMUL 2 SO4 2(O4 S 2-) FORMUL 4 EDO 4(C2 H6 O2) FORMUL 8 HOH *77(H2 O) HELIX 1 1 ASP A 47 GLU A 52 1 6 HELIX 2 2 SER A 94 ASN A 98 5 5 HELIX 3 3 SER A 218 GLY A 227 1 10 HELIX 4 4 SER A 228 ASN A 236 5 9 SHEET 1 A 4 TRP A 54 LEU A 56 0 SHEET 2 A 4 VAL A 258 GLU A 267 -1 O VAL A 265 N ALA A 55 SHEET 3 A 4 GLU A 85 VAL A 88 -1 N VAL A 88 O VAL A 258 SHEET 4 A 4 TRP A 79 LYS A 82 -1 N MSE A 80 O ILE A 87 SHEET 1 B 6 TRP A 54 LEU A 56 0 SHEET 2 B 6 VAL A 258 GLU A 267 -1 O VAL A 265 N ALA A 55 SHEET 3 B 6 PHE A 111 ILE A 119 -1 N ASP A 116 O ARG A 261 SHEET 4 B 6 TRP A 189 VAL A 196 -1 O VAL A 194 N PHE A 113 SHEET 5 B 6 HIS A 201 LEU A 206 -1 O GLU A 203 N LYS A 195 SHEET 6 B 6 VAL A 209 GLU A 215 -1 O TYR A 214 N VAL A 202 SHEET 1 C 5 TRP A 66 GLY A 68 0 SHEET 2 C 5 ILE A 102 THR A 104 -1 O VAL A 103 N ARG A 67 SHEET 3 C 5 HIS A 248 LEU A 251 -1 O LEU A 251 N ILE A 102 SHEET 4 C 5 ASN A 124 VAL A 131 -1 N VAL A 131 O HIS A 248 SHEET 5 C 5 LEU A 144 LEU A 149 -1 O PHE A 146 N ILE A 127 LINK C TRP A 79 N MSE A 80 1555 1555 1.33 LINK C MSE A 80 N VAL A 81 1555 1555 1.33 SITE 1 AC1 4 ASN A 200 ARG A 216 GLU A 243 HOH A 328 SITE 1 AC2 6 LYS A 128 TYR A 142 LYS A 229 TYR A 230 SITE 2 AC2 6 TYR A 235 HOH A 272 SITE 1 AC3 6 ASN A 124 SER A 125 GLU A 145 GLN A 147 SITE 2 AC3 6 TYR A 173 GLN A 252 SITE 1 AC4 3 LYS A 71 ASP A 72 ALA A 73 SITE 1 AC5 1 ASN A 199 SITE 1 AC6 3 HIS A 201 GLU A 215 HOH A 309 CRYST1 61.009 61.009 167.332 90.00 90.00 90.00 P 41 21 2 8 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 0.016391 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016391 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005976 0.00000