HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 17-JUN-13 4L8N TITLE CRYSTAL STRUCTURE OF A PDZ DOMAIN PROTEIN (BDI_1242) FROM TITLE 2 PARABACTEROIDES DISTASONIS ATCC 8503 AT 2.50 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PDZ DOMAIN PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 21-476; 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_1242; 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 N-TERMINAL AND C-TERMINAL PDZ DOMAINS, DUF4136 DOMAIN, STRUCTURAL KEYWDS 2 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, PSI-BIOLOGY, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 20-NOV-24 4L8N 1 REMARK REVDAT 3 01-FEB-23 4L8N 1 REMARK SEQADV LINK REVDAT 2 15-NOV-17 4L8N 1 REMARK REVDAT 1 26-JUN-13 4L8N 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A PDZ DOMAIN PROTEIN (BDI_1242) FROM JRNL TITL 2 PARABACTEROIDES DISTASONIS ATCC 8503 AT 2.50 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER-TNT 2.10.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SMART,VONRHEIN,WOMACK, REMARK 3 : MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.14 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 21175 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1077 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 11 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.62 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.53 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2797 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2286 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2656 REMARK 3 BIN R VALUE (WORKING SET) : 0.2264 REMARK 3 BIN FREE R VALUE : 0.2685 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.04 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 141 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3575 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 98 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 71.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 75.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.16490 REMARK 3 B22 (A**2) : 5.16490 REMARK 3 B33 (A**2) : -10.32980 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.410 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3676 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4987 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1694 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 99 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 524 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3676 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 4 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 494 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4078 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.08 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.39 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 3.09 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|25 - 476} REMARK 3 ORIGIN FOR THE GROUP (A): -26.7405 5.6661 1.1630 REMARK 3 T TENSOR REMARK 3 T11: -0.1889 T22: -0.0621 REMARK 3 T33: -0.0852 T12: 0.0464 REMARK 3 T13: -0.0159 T23: -0.0993 REMARK 3 L TENSOR REMARK 3 L11: 0.5730 L22: 1.8085 REMARK 3 L33: 1.9204 L12: 0.4920 REMARK 3 L13: 0.4299 L23: 1.4375 REMARK 3 S TENSOR REMARK 3 S11: 0.0489 S12: -0.0377 S13: -0.0802 REMARK 3 S21: 0.2318 S22: -0.1942 S23: 0.1008 REMARK 3 S31: 0.1711 S32: -0.2253 S33: 0.1453 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. A MET-INHIBITION PROTOCOL WAS USED REMARK 3 FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. REMARK 3 THE 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. 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B REMARK 3 FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U REMARK 3 FACTORS. 3. MG, MPD, AND EOH MODELED ARE PRESENT IN PROTEIN/CRYO REMARK 3 CONDITIONS. 4. THE MAD PHASES WERE USED AS RESTRAINTS DURING REMARK 3 REFINEMENT. OTHER REFINEMENT REMARKS: 1. A MET-INHIBITION REMARK 3 PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING REMARK 3 PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE REMARK 3 RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER REMARK 3 DUE TO PARTIAL S-MET INCORPORATION. 2. ATOM RECORD CONTAINS SUM REMARK 3 OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS REMARK 3 AND RESIDUAL U FACTORS. 3. MG, MPD, AND EOH MODELED ARE PRESENT REMARK 3 IN PROTEIN/CRYO CONDITIONS. 4. THE MAD PHASES WERE USED AS REMARK 3 RESTRAINTS DURING REFINEMENT. REMARK 4 REMARK 4 4L8N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000080319. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97882,0.91837 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING); REMARK 200 SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE JULY 4, 2012 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21215 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 48.138 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.550 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.66 REMARK 200 R MERGE FOR SHELL (I) : 1.14700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.580 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD 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 (%): 56.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 42.00% ETHANOL, 0.0500M MAGNESIUM REMARK 280 CHLORIDE, 0.1M TRIS PH 8.0, NANODROP, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 32.09233 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 64.18467 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 64.18467 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 32.09233 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL 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 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 32.09233 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 MG MG A 503 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 683 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 696 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 697 LIES ON A SPECIAL POSITION. 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 ALA A 21 REMARK 465 GLN A 22 REMARK 465 ASN A 23 REMARK 465 ARG A 24 REMARK 465 LYS A 224 REMARK 465 VAL A 225 REMARK 465 LEU A 226 REMARK 465 VAL A 227 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 ASN A 25 CG OD1 ND2 REMARK 470 LYS A 215 CG CD CE NZ REMARK 470 ASN A 218 CG OD1 ND2 REMARK 470 ASN A 223 CG OD1 ND2 REMARK 470 GLU A 228 CG CD OE1 OE2 REMARK 470 LYS A 229 CG CD CE NZ REMARK 470 GLU A 230 CG CD OE1 OE2 REMARK 470 TYR A 250 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 346 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 358 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 453 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 THR A 171 130.55 -39.55 REMARK 500 PRO A 246 43.60 -78.45 REMARK 500 ASP A 336 -71.00 -96.44 REMARK 500 ASN A 347 57.67 -118.36 REMARK 500 LEU A 427 73.30 40.26 REMARK 500 ILE A 440 -54.29 -123.18 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 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 258 OE2 REMARK 620 2 GLU A 258 OE1 49.8 REMARK 620 3 HOH A 683 O 76.9 125.0 REMARK 620 4 HOH A 698 O 81.5 77.3 111.1 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: JCSG-394759 RELATED DB: TARGETTRACK REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT (21-476) 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 THE TARGET SEQUENCE. DBREF 4L8N A 21 476 UNP A6LBD9 A6LBD9_PARD8 21 476 SEQADV 4L8N GLY A 0 UNP A6LBD9 EXPRESSION TAG SEQRES 1 A 457 GLY ALA GLN ASN ARG ASN THR SER ILE CYS ARG LEU GLY SEQRES 2 A 457 PHE THR TYR ASP ILE SER GLN SER LYS ASN TRP GLY ASN SEQRES 3 A 457 ASN LYS PRO VAL ILE LYS SER ILE ILE PRO TYR SER SER SEQRES 4 A 457 ALA GLU GLN ALA GLY ILE LYS LYS TYR ASP VAL ILE GLU SEQRES 5 A 457 GLU ILE ASN GLY VAL PRO VAL THR GLU VAL SER VAL ASP SEQRES 6 A 457 GLU ILE PRO GLN LEU LEU ASN PRO ALA GLY ARG ASN ASP SEQRES 7 A 457 VAL LEU LEU THR ILE SER ASN LEU SER SER PRO SER LYS SEQRES 8 A 457 GLN VAL LEU VAL LYS LYS ASP CYS LYS LYS SER ASN ALA SEQRES 9 A 457 ILE THR GLU ASP GLN LEU ALA SER ALA TYR ALA MSE TYR SEQRES 10 A 457 SER LEU GLU THR THR ASN GLU GLN GLU PHE VAL CYS PRO SEQRES 11 A 457 PHE LYS THR THR VAL THR SER ASP GLY VAL ASP PHE GLY SEQRES 12 A 457 ASN PHE LYS THR PHE ALA PHE SER THR ILE ASP GLU ASN SEQRES 13 A 457 ASN ARG LYS LEU GLU THR VAL ILE ASN GLU CYS ILE GLU SEQRES 14 A 457 ASN GLU LEU THR LYS LYS GLY LEU THR VAL ASP ILE ALA SEQRES 15 A 457 LYS PRO ASP LEU LEU ILE GLN THR PHE TYR PHE PHE ASP SEQRES 16 A 457 LYS ASN PRO ASN TYR LEU GLY ALA ASN LYS VAL LEU VAL SEQRES 17 A 457 GLU LYS GLU PRO THR TYR ARG TYR ASN PHE SER HIS SER SEQRES 18 A 457 LYS MSE GLU LYS PHE PRO PHE LEU ASN TYR ALA ALA ALA SEQRES 19 A 457 GLU ALA GLU ALA GLU TYR LEU LEU GLN PHE GLY ILE ARG SEQRES 20 A 457 ILE ILE ASP GLN LYS ASP ILE PRO GLY ARG VAL LEU TRP SEQRES 21 A 457 GLU CYS GLU ALA ASN GLU LEU LEU GLU ASP SER TYR ARG SEQRES 22 A 457 LEU ASP GLU TYR ALA ARG VAL HIS VAL PRO LEU MSE CYS SEQRES 23 A 457 MSE GLN TYR PRO TYR THR LYS TYR GLY ARG ASN VAL PRO SEQRES 24 A 457 PHE LYS VAL SER LYS LYS THR TYR ASN TYR THR GLY ILE SEQRES 25 A 457 SER TYR ASP ILE ASP LYS LEU ASP GLN VAL VAL ASP VAL SEQRES 26 A 457 ASP ARG ASN SER PRO ALA TYR ALA ALA GLY ILE ARG PRO SEQRES 27 A 457 ARG ASP ILE ILE GLU LYS ILE GLY ARG HIS LYS MSE ASP SEQRES 28 A 457 HIS SER ALA GLU GLU PHE SER SER ALA TYR LYS ARG PHE SEQRES 29 A 457 ILE THR ASN THR MSE GLN TYR ARG ASP PRO LYS THR MSE SEQRES 30 A 457 PHE THR ASP ALA ASN GLY PHE LYS TYR CYS MSE PHE TRP SEQRES 31 A 457 ASP VAL PHE LYS TYR PRO GLN ILE ALA ASP ALA SER GLN SEQRES 32 A 457 SER SER ASP TYR LEU PRO ALA PHE SER TYR LEU TYR TYR SEQRES 33 A 457 PHE ALA PRO TYR ILE ASN PRO SER GLY ASN ASN ALA CYS SEQRES 34 A 457 THR PHE ASN ILE LYS ARG GLY LYS THR LYS LEU GLU VAL SEQRES 35 A 457 ILE ILE ARG PRO THR ILE ARG SER GLU VAL THR VAL GLU SEQRES 36 A 457 ILE LYS MODRES 4L8N MSE A 135 MET SELENOMETHIONINE MODRES 4L8N MSE A 242 MET SELENOMETHIONINE MODRES 4L8N MSE A 304 MET SELENOMETHIONINE MODRES 4L8N MSE A 306 MET SELENOMETHIONINE MODRES 4L8N MSE A 369 MET SELENOMETHIONINE MODRES 4L8N MSE A 388 MET SELENOMETHIONINE MODRES 4L8N MSE A 396 MET SELENOMETHIONINE MODRES 4L8N MSE A 407 MET SELENOMETHIONINE HET MSE A 135 8 HET MSE A 242 8 HET MSE A 304 8 HET MSE A 306 8 HET MSE A 369 8 HET MSE A 388 8 HET MSE A 396 8 HET MSE A 407 8 HET EOH A 501 3 HET MPD A 502 8 HET MG A 503 1 HETNAM MSE SELENOMETHIONINE HETNAM EOH ETHANOL HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MG MAGNESIUM ION FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 EOH C2 H6 O FORMUL 3 MPD C6 H14 O2 FORMUL 4 MG MG 2+ FORMUL 5 HOH *98(H2 O) HELIX 1 1 SER A 57 GLY A 63 1 7 HELIX 2 2 THR A 79 VAL A 81 5 3 HELIX 3 3 SER A 82 ASP A 84 5 3 HELIX 4 4 GLU A 85 ASN A 91 1 7 HELIX 5 5 THR A 125 TYR A 133 1 9 HELIX 6 6 ALA A 134 SER A 137 5 4 HELIX 7 7 ASP A 160 PHE A 164 5 5 HELIX 8 8 ASP A 173 ASN A 175 5 3 HELIX 9 9 ASN A 176 GLY A 195 1 20 HELIX 10 10 TYR A 250 GLU A 256 1 7 HELIX 11 11 ARG A 292 CYS A 305 1 14 HELIX 12 12 MSE A 306 TYR A 308 5 3 HELIX 13 13 SER A 348 ALA A 353 1 6 HELIX 14 14 SER A 372 THR A 387 1 16 HELIX 15 15 MSE A 388 ARG A 391 5 4 HELIX 16 16 ASP A 392 MSE A 396 5 5 HELIX 17 17 ASP A 410 PHE A 412 5 3 HELIX 18 18 LYS A 413 GLN A 422 1 10 HELIX 19 19 SER A 423 LEU A 427 5 5 HELIX 20 20 PRO A 428 TYR A 435 5 8 SHEET 1 A 2 SER A 27 ARG A 30 0 SHEET 2 A 2 ASP A 117 LYS A 120 -1 O LYS A 119 N ILE A 28 SHEET 1 B 2 PHE A 33 ILE A 37 0 SHEET 2 B 2 PRO A 48 ILE A 53 -1 O SER A 52 N THR A 34 SHEET 1 C 4 VAL A 76 PRO A 77 0 SHEET 2 C 4 VAL A 69 ILE A 73 -1 N ILE A 73 O VAL A 76 SHEET 3 C 4 ASP A 97 SER A 103 -1 O SER A 103 N VAL A 69 SHEET 4 C 4 LYS A 110 LYS A 115 -1 O VAL A 112 N LEU A 100 SHEET 1 D 3 ALA A 123 ILE A 124 0 SHEET 2 D 3 ILE A 331 ASP A 334 -1 O TYR A 333 N ILE A 124 SHEET 3 D 3 VAL A 341 VAL A 344 -1 O VAL A 342 N SER A 332 SHEET 1 E 3 ASN A 142 CYS A 148 0 SHEET 2 E 3 VAL A 317 TYR A 328 -1 O PHE A 319 N PHE A 146 SHEET 3 E 3 THR A 466 ILE A 475 -1 O THR A 466 N TYR A 328 SHEET 1 F 6 PHE A 150 VAL A 154 0 SHEET 2 F 6 VAL A 277 LEU A 287 -1 O GLU A 282 N LYS A 151 SHEET 3 F 6 TYR A 259 ASP A 269 -1 N PHE A 263 O ALA A 283 SHEET 4 F 6 LEU A 205 LYS A 215 -1 N ASP A 214 O LEU A 260 SHEET 5 F 6 THR A 166 PHE A 169 1 N ALA A 168 O ILE A 207 SHEET 6 F 6 THR A 197 VAL A 198 1 O THR A 197 N PHE A 167 SHEET 1 G 2 GLU A 230 ASN A 236 0 SHEET 2 G 2 LYS A 241 ASN A 249 -1 O LYS A 241 N ASN A 236 SHEET 1 H 4 HIS A 367 LYS A 368 0 SHEET 2 H 4 ILE A 360 ILE A 364 -1 N ILE A 364 O HIS A 367 SHEET 3 H 4 CYS A 448 ARG A 454 -1 O ASN A 451 N GLU A 362 SHEET 4 H 4 THR A 457 ILE A 463 -1 O ILE A 463 N CYS A 448 LINK C ALA A 134 N MSE A 135 1555 1555 1.33 LINK C MSE A 135 N TYR A 136 1555 1555 1.34 LINK C LYS A 241 N MSE A 242 1555 1555 1.35 LINK C MSE A 242 N GLU A 243 1555 1555 1.33 LINK C LEU A 303 N MSE A 304 1555 1555 1.35 LINK C MSE A 304 N CYS A 305 1555 1555 1.34 LINK C CYS A 305 N MSE A 306 1555 1555 1.35 LINK C MSE A 306 N GLN A 307 1555 1555 1.36 LINK C LYS A 368 N MSE A 369 1555 1555 1.34 LINK C MSE A 369 N ASP A 370 1555 1555 1.36 LINK C THR A 387 N MSE A 388 1555 1555 1.36 LINK C MSE A 388 N GLN A 389 1555 1555 1.34 LINK C THR A 395 N MSE A 396 1555 1555 1.37 LINK C MSE A 396 N PHE A 397 1555 1555 1.34 LINK C CYS A 406 N MSE A 407 1555 1555 1.33 LINK C MSE A 407 N PHE A 408 1555 1555 1.34 LINK OE2 GLU A 258 MG MG A 503 1555 1555 2.51 LINK OE1 GLU A 258 MG MG A 503 1555 1555 2.71 LINK MG MG A 503 O HOH A 683 1555 1555 1.95 LINK MG MG A 503 O HOH A 698 1555 1555 1.95 CISPEP 1 TYR A 308 PRO A 309 0 5.33 SITE 1 AC1 1 MSE A 388 SITE 1 AC2 4 TYR A 133 ALA A 373 TYR A 380 HOH A 675 SITE 1 AC3 4 GLU A 258 ASP A 289 HOH A 683 HOH A 698 CRYST1 104.093 104.093 96.277 90.00 90.00 120.00 P 31 2 1 6 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 0.009607 0.005546 0.000000 0.00000 SCALE2 0.000000 0.011093 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010387 0.00000