PDB Short entry for 3R68 HEADER SIGNALING PROTEIN 21-MAR-11 3R68 TITLE MOLECULAR ANALYSIS OF THE PDZ3 DOMAIN OF PDZK1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NA(+)/H(+) EXCHANGE REGULATORY COFACTOR NHE-RF3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PDZ3 (UNP RESIDUES 237-323); COMPND 5 SYNONYM: NHERF-3, CFTR-ASSOCIATED PROTEIN OF 70 KDA, NA(+)/H(+) COMPND 6 EXCHANGER REGULATORY FACTOR 3, NA/PI COTRANSPORTER C-TERMINAL- COMPND 7 ASSOCIATED PROTEIN 1, NAPI-CAP1, PDZ DOMAIN-CONTAINING PROTEIN 1, COMPND 8 SODIUM-HYDROGEN EXCHANGER REGULATORY FACTOR 3; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CAP70, NHERF3, PDZK1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-4T-3 KEYWDS PDZ DOMAIN, ADAPTOR PROTEIN, SR-BI, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR O.KOCHER,G.BIRRANE,M.KRIEGER REVDAT 3 27-JUL-11 3R68 1 JRNL REVDAT 2 08-JUN-11 3R68 1 JRNL REVDAT 1 18-MAY-11 3R68 0 JRNL AUTH O.KOCHER,G.BIRRANE,A.YESILALTAY,S.SHECHTER,R.PAL,K.DANIELS, JRNL AUTH 2 M.KRIEGER JRNL TITL IDENTIFICATION OF THE PDZ3 DOMAIN OF THE ADAPTOR PROTEIN JRNL TITL 2 PDZK1 AS A SECOND, PHYSIOLOGICALLY FUNCTIONAL BINDING SITE JRNL TITL 3 FOR THE C TERMINUS OF THE HIGH DENSITY LIPOPROTEIN RECEPTOR JRNL TITL 4 SCAVENGER RECEPTOR CLASS B TYPE I. JRNL REF J.BIOL.CHEM. V. 286 25171 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21602281 JRNL DOI 10.1074/JBC.M111.242362 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 22255 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) : 0.132 REMARK 3 R VALUE (WORKING SET) : 0.131 REMARK 3 FREE R VALUE : 0.157 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1162 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1592 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.1370 REMARK 3 BIN FREE R VALUE SET COUNT : 86 REMARK 3 BIN FREE R VALUE : 0.1690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 632 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 116 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.05000 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): 0.041 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.040 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.018 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.880 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 726 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 513 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 986 ; 1.607 ; 1.992 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1270 ; 1.129 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 104 ; 6.105 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 33 ;37.181 ;24.848 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 140 ;13.797 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ; 9.880 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 110 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 827 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 131 ; 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): 458 ; 1.800 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 188 ; 0.539 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 739 ; 2.646 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 268 ; 3.383 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 237 ; 5.247 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 1239 ; 1.449 ; 3.000 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 : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3R68 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAR-11. REMARK 100 THE RCSB ID CODE IS RCSB064540. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JAN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28919 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.200 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.22 REMARK 200 COMPLETENESS FOR SHELL (%) : 69.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.06900 REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M ZINC ACETATE, 0.1M SODIUM REMARK 280 CACODYLATE, PH 6.2, 15% (W/V) PEG 3350, 10% ETHYLENE GLYCOL, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 18.82950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 34.95500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 34.95500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.24425 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 34.95500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 34.95500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 9.41475 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 34.95500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.95500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.24425 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 34.95500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.95500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 9.41475 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 18.82950 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -412.0 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 37.65900 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 NH2 ARG A 309 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 236 REMARK 465 PRO A 261 REMARK 465 GLU A 262 REMARK 465 LEU A 324 REMARK 465 GLU A 325 REMARK 465 ARG A 326 REMARK 465 PRO A 327 REMARK 465 HIS A 328 REMARK 465 ARG A 329 REMARK 465 ASP A 330 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 264 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 ZN ZN A 6 O HOH A 108 1.64 REMARK 500 ZN ZN A 6 O HOH A 40 1.67 REMARK 500 OD2 ASP A 270 OXT ACT A 1 2.04 REMARK 500 O HOH A 49 O HOH A 149 2.04 REMARK 500 NE ARG A 258 O HOH A 117 2.13 REMARK 500 O HOH A 120 O HOH A 146 2.15 REMARK 500 NE ARG A 258 O HOH A 74 2.15 REMARK 500 CD ARG A 258 O HOH A 117 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 C ACT A 1 OXT ACT A 1 7556 1.85 REMARK 500 OD2 ASP A 270 O HOH A 117 7556 2.18 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 309 NE - CZ - NH2 ANGL. DEV. = -3.3 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 LYS A 264 -113.98 -97.85 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 7 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 40 O REMARK 620 2 HOH A 109 O 102.4 REMARK 620 3 HIS A 301 NE2 103.9 120.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 5 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 108 O REMARK 620 2 ASP A 302 OD1 105.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 14 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 306 OE2 REMARK 620 2 GLU A 306 OE1 49.1 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT 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 ZN A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 10 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 11 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 12 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 13 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 14 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3R69 RELATED DB: PDB REMARK 900 STRUCTURE OF PDZK1 PDZ3 BOUND TO THE HDL-RECEPTOR SR-BI REMARK 900 DOMAIN REMARK 900 RELATED ID: 2D90 RELATED DB: PDB REMARK 900 STRUCTURE OF THE SAME PROTEIN SOLVED BY NMR SPECTROSCOPY DBREF 3R68 A 238 323 UNP Q9JIL4 NHRF3_MOUSE 238 323 SEQADV 3R68 GLY A 236 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 SER A 237 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 LEU A 324 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 GLU A 325 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 ARG A 326 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 PRO A 327 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 HIS A 328 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 ARG A 329 UNP Q9JIL4 EXPRESSION TAG SEQADV 3R68 ASP A 330 UNP Q9JIL4 EXPRESSION TAG SEQRES 1 A 95 GLY SER PRO HIS GLN PRO ARG VAL VAL VAL ILE LYS LYS SEQRES 2 A 95 GLY SER ASN GLY TYR GLY PHE TYR LEU ARG ALA GLY PRO SEQRES 3 A 95 GLU GLN LYS GLY GLN ILE ILE LYS ASP ILE GLU PRO GLY SEQRES 4 A 95 SER PRO ALA GLU ALA ALA GLY LEU LYS ASN ASN ASP LEU SEQRES 5 A 95 VAL VAL ALA VAL ASN GLY LYS SER VAL GLU ALA LEU ASP SEQRES 6 A 95 HIS ASP GLY VAL VAL GLU MET ILE ARG LYS GLY GLY ASP SEQRES 7 A 95 GLN THR THR LEU LEU VAL LEU ASP LYS GLU LEU GLU ARG SEQRES 8 A 95 PRO HIS ARG ASP HET ACT A 1 4 HET ACT A 2 4 HET EDO A 3 4 HET ZN A 4 1 HET ZN A 5 1 HET ZN A 6 1 HET ZN A 7 1 HET CL A 8 1 HET CL A 9 1 HET CL A 10 1 HET CL A 11 1 HET CA A 12 1 HET CL A 13 1 HET CA A 14 1 HETNAM ACT ACETATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM CA CALCIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ACT 2(C2 H3 O2 1-) FORMUL 4 EDO C2 H6 O2 FORMUL 5 ZN 4(ZN 2+) FORMUL 9 CL 5(CL 1-) FORMUL 13 CA 2(CA 2+) FORMUL 16 HOH *116(H2 O) HELIX 1 1 SER A 275 GLY A 281 1 7 HELIX 2 2 ASP A 300 LYS A 310 1 11 SHEET 1 A 4 ARG A 242 LYS A 247 0 SHEET 2 A 4 GLN A 314 ASP A 321 -1 O LEU A 317 N VAL A 244 SHEET 3 A 4 ASP A 286 VAL A 291 -1 N LEU A 287 O LEU A 320 SHEET 4 A 4 LYS A 294 SER A 295 -1 O LYS A 294 N VAL A 291 SHEET 1 B 2 TYR A 256 ALA A 259 0 SHEET 2 B 2 GLN A 266 LYS A 269 -1 O ILE A 267 N ARG A 258 LINK ZN ZN A 6 O HOH A 34 1555 1555 1.91 LINK ZN ZN A 7 O HOH A 40 1555 1555 1.96 LINK ZN ZN A 5 O HOH A 108 1555 1555 1.96 LINK OE2 GLU A 297 ZN ZN A 4 1555 1555 1.97 LINK OE2 GLU A 306 CA CA A 14 1555 1555 1.98 LINK OD1 ASP A 302 ZN ZN A 5 1555 1555 2.02 LINK ZN ZN A 7 O HOH A 109 1555 1555 2.02 LINK NE2 HIS A 301 ZN ZN A 7 1555 1555 2.06 LINK OE1 GLU A 306 CA CA A 14 1555 1555 2.89 SITE 1 AC1 4 HOH A 117 HOH A 137 LYS A 269 ASP A 270 SITE 1 AC2 10 ZN A 4 HOH A 24 HOH A 69 HIS A 239 SITE 2 AC2 10 PRO A 241 ARG A 242 LYS A 283 VAL A 289 SITE 3 AC2 10 GLU A 297 ASP A 321 SITE 1 AC3 9 CL A 9 HOH A 92 HOH A 108 ASN A 251 SITE 2 AC3 9 GLY A 252 TYR A 253 GLY A 254 PHE A 255 SITE 3 AC3 9 TYR A 256 SITE 1 AC4 4 ACT A 2 HIS A 239 GLU A 297 ASP A 321 SITE 1 AC5 5 ZN A 6 CL A 8 CL A 9 HOH A 108 SITE 2 AC5 5 ASP A 302 SITE 1 AC6 6 ZN A 5 ZN A 7 HOH A 29 HOH A 34 SITE 2 AC6 6 HOH A 40 HOH A 108 SITE 1 AC7 5 ZN A 6 CL A 10 HOH A 40 HOH A 109 SITE 2 AC7 5 HIS A 301 SITE 1 AC8 4 ZN A 5 LYS A 248 ASP A 302 ARG A 309 SITE 1 AC9 5 EDO A 3 ZN A 5 GLY A 252 TYR A 253 SITE 2 AC9 5 ASP A 302 SITE 1 BC1 4 ZN A 7 LEU A 257 ARG A 258 HIS A 301 SITE 1 BC2 3 CL A 13 CA A 14 GLU A 306 SITE 1 BC3 2 CA A 14 ARG A 309 SITE 1 BC4 3 CL A 11 CA A 14 GLU A 306 SITE 1 BC5 4 CL A 11 CA A 12 CL A 13 GLU A 306 CRYST1 69.910 69.910 37.659 90.00 90.00 90.00 P 43 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 0.014304 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014304 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026554 0.00000