PDB Short entry for 3B76 HEADER LIGASE 30-OCT-07 3B76 TITLE CRYSTAL STRUCTURE OF THE THIRD PDZ DOMAIN OF HUMAN LIGAND-OF-NUMB TITLE 2 PROTEIN-X (LNX1) IN COMPLEX WITH THE C-TERMINAL PEPTIDE FROM THE TITLE 3 COXSACKIEVIRUS AND ADENOVIRUS RECEPTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE LNX; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: THIRD PDZ DOMAIN: RESIDUES 504-594; COMPND 5 SYNONYM: NUMB-BINDING PROTEIN 1, LIGAND OF NUMB-PROTEIN X 1; COMPND 6 EC: 6.3.2.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: LNX1, LNX; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-R3-ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS PDZ, BOUND LIGAND, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, LIGASE, METAL-BINDING, UBL CONJUGATION PATHWAY, KEYWDS 3 ZINC-FINGER, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR E.UGOCHUKWU,N.BURGESS-BROWN,G.BERRIDGE,J.ELKINS,G.BUNKOCZI, AUTHOR 2 A.C.W.PIKE,M.SUNDSTROM,C.H.ARROWSMITH,J.WEIGELT,A.M.EDWARDS, AUTHOR 3 O.GILEADI,F.VON DELFT,D.DOYLE,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 30-AUG-23 3B76 1 REMARK SEQADV LINK REVDAT 4 25-OCT-17 3B76 1 REMARK REVDAT 3 13-JUL-11 3B76 1 VERSN REVDAT 2 24-FEB-09 3B76 1 VERSN REVDAT 1 13-NOV-07 3B76 0 JRNL AUTH E.UGOCHUKWU,N.BURGESS-BROWN,G.BERRIDGE,J.ELKINS,G.BUNKOCZI, JRNL AUTH 2 A.C.W.PIKE,M.SUNDSTROM,C.H.ARROWSMITH,J.WEIGELT,A.M.EDWARDS, JRNL AUTH 3 O.GILEADI,F.VON DELFT,D.DOYLE JRNL TITL CRYSTAL STRUCTURE OF THE THIRD PDZ DOMAIN OF HUMAN JRNL TITL 2 LIGAND-OF-NUMB PROTEIN-X (LNX1) IN COMPLEX WITH THE JRNL TITL 3 C-TERMINAL PEPTIDE FROM THE COXSACKIEVIRUS AND ADENOVIRUS JRNL TITL 4 RECEPTOR. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0040 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 21214 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1144 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1529 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2240 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.3300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1513 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 124 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 20.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.56000 REMARK 3 B22 (A**2) : -0.88000 REMARK 3 B33 (A**2) : 0.32000 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): 0.105 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.102 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.067 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.124 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1546 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1029 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2088 ; 1.404 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2542 ; 1.913 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 201 ; 5.877 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 55 ;40.772 ;24.364 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 279 ;11.648 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ; 9.689 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 253 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1694 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 277 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 240 ; 0.188 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1036 ; 0.196 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 730 ; 0.166 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 857 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 94 ; 0.148 ; 0.200 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): 10 ; 0.207 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.315 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.169 ; 0.200 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): 1001 ; 3.711 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 418 ; 1.566 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1618 ; 5.194 ; 7.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 559 ; 7.164 ; 9.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 470 ;10.020 ;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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 402 A 502 5 REMARK 3 1 B 402 B 502 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 592 ; 0.70 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 B (A): 633 ; 1.15 ; 5.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 592 ; 2.97 ; 2.00 REMARK 3 LOOSE THERMAL 1 B (A**2): 633 ; 3.44 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 402 A 502 REMARK 3 ORIGIN FOR THE GROUP (A): 6.6160 13.8179 14.0596 REMARK 3 T TENSOR REMARK 3 T11: -0.0118 T22: -0.0431 REMARK 3 T33: -0.0459 T12: 0.0061 REMARK 3 T13: 0.0136 T23: -0.0007 REMARK 3 L TENSOR REMARK 3 L11: 0.7420 L22: 1.5999 REMARK 3 L33: 0.6760 L12: -0.0921 REMARK 3 L13: -0.2055 L23: -0.0270 REMARK 3 S TENSOR REMARK 3 S11: 0.0358 S12: 0.0660 S13: 0.0180 REMARK 3 S21: -0.1887 S22: 0.0160 S23: -0.0556 REMARK 3 S31: 0.0023 S32: 0.0640 S33: -0.0519 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 : B 401 B 502 REMARK 3 ORIGIN FOR THE GROUP (A): -5.6220 8.5963 29.6785 REMARK 3 T TENSOR REMARK 3 T11: -0.0386 T22: -0.0481 REMARK 3 T33: -0.0327 T12: 0.0041 REMARK 3 T13: -0.0075 T23: -0.0162 REMARK 3 L TENSOR REMARK 3 L11: 1.3140 L22: 0.4896 REMARK 3 L33: 1.8422 L12: 0.3064 REMARK 3 L13: -0.9489 L23: 0.1707 REMARK 3 S TENSOR REMARK 3 S11: -0.0102 S12: -0.0431 S13: -0.0461 REMARK 3 S21: -0.0479 S22: -0.0355 S23: 0.0400 REMARK 3 S31: -0.0581 S32: -0.0197 S33: 0.0457 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3B76 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000045163. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99975 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22359 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 33.710 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : 0.09400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 0.84400 REMARK 200 R SYM FOR SHELL (I) : 0.84400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRIES 2AWW, 2BYG, 2AWX, 2AWU, 2G2L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.53M POTASSIUM PHOSPHATE, 0.27M REMARK 280 SODIUM PHOSPHATE, 1% PEG 3350, PH 7.4, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-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 SMTRY1 2 -1.000000 0.000000 0.000000 24.89100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.87050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.22450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 36.87050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.89100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.22450 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3050 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A 385 REMARK 465 HIS A 386 REMARK 465 HIS A 387 REMARK 465 HIS A 388 REMARK 465 HIS A 389 REMARK 465 HIS A 390 REMARK 465 HIS A 391 REMARK 465 SER A 392 REMARK 465 SER A 393 REMARK 465 GLY A 394 REMARK 465 VAL A 395 REMARK 465 ASP A 396 REMARK 465 LEU A 397 REMARK 465 GLY A 398 REMARK 465 THR A 399 REMARK 465 GLU A 400 REMARK 465 ASN A 401 REMARK 465 MET B 385 REMARK 465 HIS B 386 REMARK 465 HIS B 387 REMARK 465 HIS B 388 REMARK 465 HIS B 389 REMARK 465 HIS B 390 REMARK 465 HIS B 391 REMARK 465 SER B 392 REMARK 465 SER B 393 REMARK 465 GLY B 394 REMARK 465 VAL B 395 REMARK 465 ASP B 396 REMARK 465 LEU B 397 REMARK 465 GLY B 398 REMARK 465 THR B 399 REMARK 465 GLU B 400 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 GLN A 415 CD OE1 NE2 REMARK 470 LYS A 492 NZ REMARK 470 ASN B 401 CG OD1 ND2 REMARK 470 ARG B 433 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 434 CG CD OE1 OE2 REMARK 470 LYS B 497 CG CD CE NZ REMARK 470 GLU B 498 CG CD OE1 OE2 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 OH TYR A 403 O HOH A 91 2.18 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 GLU A 498 -128.62 75.10 REMARK 500 ARG B 433 -125.44 54.37 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 NA A 601 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 115 O REMARK 620 2 HOH A 136 O 99.3 REMARK 620 3 ALA A 430 O 83.9 176.8 REMARK 620 4 HIS A 432 O 80.1 93.2 87.3 REMARK 620 5 TRP A 435 O 154.4 84.1 93.0 74.4 REMARK 620 6 ASP A 436 OD1 134.9 79.9 97.9 144.9 70.7 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 NA A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AWW RELATED DB: PDB REMARK 900 SYNAPSE ASSOCIATED PROTEIN 97 PDZ2 DOMAIN VARIANT C378G WITH C- REMARK 900 TERMINAL GLUR-A PEPTIDE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS IS A C-TERMINAL PEPTIDE FROM THE COXSACKIEVIRUS REMARK 999 AND ADENOVIRUS RECEPTOR. DBREF 3B76 A 408 498 UNP Q8TBB1 LNX1_HUMAN 504 594 DBREF 3B76 B 408 498 UNP Q8TBB1 LNX1_HUMAN 504 594 SEQADV 3B76 MET A 385 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS A 386 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS A 387 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS A 388 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS A 389 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS A 390 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS A 391 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 SER A 392 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 SER A 393 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLY A 394 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 VAL A 395 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 ASP A 396 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 LEU A 397 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLY A 398 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 THR A 399 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLU A 400 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 ASN A 401 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 LEU A 402 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 TYR A 403 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 PHE A 404 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLN A 405 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 SER A 406 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 MET A 407 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLY A 499 UNP Q8TBB1 SEE REMARK 999 SEQADV 3B76 SER A 500 UNP Q8TBB1 SEE REMARK 999 SEQADV 3B76 ILE A 501 UNP Q8TBB1 SEE REMARK 999 SEQADV 3B76 VAL A 502 UNP Q8TBB1 SEE REMARK 999 SEQADV 3B76 MET B 385 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS B 386 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS B 387 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS B 388 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS B 389 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS B 390 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 HIS B 391 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 SER B 392 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 SER B 393 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLY B 394 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 VAL B 395 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 ASP B 396 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 LEU B 397 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLY B 398 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 THR B 399 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLU B 400 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 ASN B 401 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 LEU B 402 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 TYR B 403 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 PHE B 404 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLN B 405 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 SER B 406 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 MET B 407 UNP Q8TBB1 EXPRESSION TAG SEQADV 3B76 GLY B 499 UNP Q8TBB1 SEE REMARK 999 SEQADV 3B76 SER B 500 UNP Q8TBB1 SEE REMARK 999 SEQADV 3B76 ILE B 501 UNP Q8TBB1 SEE REMARK 999 SEQADV 3B76 VAL B 502 UNP Q8TBB1 SEE REMARK 999 SEQRES 1 A 118 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 118 GLY THR GLU ASN LEU TYR PHE GLN SER MET HIS GLU LYS SEQRES 3 A 118 VAL VAL ASN ILE GLN LYS ASP PRO GLY GLU SER LEU GLY SEQRES 4 A 118 MET THR VAL ALA GLY GLY ALA SER HIS ARG GLU TRP ASP SEQRES 5 A 118 LEU PRO ILE TYR VAL ILE SER VAL GLU PRO GLY GLY VAL SEQRES 6 A 118 ILE SER ARG ASP GLY ARG ILE LYS THR GLY ASP ILE LEU SEQRES 7 A 118 LEU ASN VAL ASP GLY VAL GLU LEU THR GLU VAL SER ARG SEQRES 8 A 118 SER GLU ALA VAL ALA LEU LEU LYS ARG THR SER SER SER SEQRES 9 A 118 ILE VAL LEU LYS ALA LEU GLU VAL LYS GLU GLY SER ILE SEQRES 10 A 118 VAL SEQRES 1 B 118 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 B 118 GLY THR GLU ASN LEU TYR PHE GLN SER MET HIS GLU LYS SEQRES 3 B 118 VAL VAL ASN ILE GLN LYS ASP PRO GLY GLU SER LEU GLY SEQRES 4 B 118 MET THR VAL ALA GLY GLY ALA SER HIS ARG GLU TRP ASP SEQRES 5 B 118 LEU PRO ILE TYR VAL ILE SER VAL GLU PRO GLY GLY VAL SEQRES 6 B 118 ILE SER ARG ASP GLY ARG ILE LYS THR GLY ASP ILE LEU SEQRES 7 B 118 LEU ASN VAL ASP GLY VAL GLU LEU THR GLU VAL SER ARG SEQRES 8 B 118 SER GLU ALA VAL ALA LEU LEU LYS ARG THR SER SER SER SEQRES 9 B 118 ILE VAL LEU LYS ALA LEU GLU VAL LYS GLU GLY SER ILE SEQRES 10 B 118 VAL HET NA A 601 1 HET EDO B 601 4 HET EDO B 602 4 HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NA NA 1+ FORMUL 4 EDO 2(C2 H6 O2) FORMUL 6 HOH *124(H2 O) HELIX 1 1 GLY A 448 GLY A 454 1 7 HELIX 2 2 THR A 471 VAL A 473 5 3 HELIX 3 3 SER A 474 ARG A 484 1 11 HELIX 4 4 GLY B 448 GLY B 454 1 7 HELIX 5 5 THR B 471 VAL B 473 5 3 HELIX 6 6 SER B 474 ARG B 484 1 11 SHEET 1 A 4 GLN A 405 GLN A 415 0 SHEET 2 A 4 SER A 488 GLU A 498 -1 O LEU A 491 N VAL A 412 SHEET 3 A 4 ILE A 461 VAL A 465 -1 N LEU A 463 O LYS A 492 SHEET 4 A 4 VAL A 468 GLU A 469 -1 O VAL A 468 N VAL A 465 SHEET 1 B 6 GLN A 405 GLN A 415 0 SHEET 2 B 6 SER A 488 GLU A 498 -1 O LEU A 491 N VAL A 412 SHEET 3 B 6 ILE A 461 VAL A 465 -1 N LEU A 463 O LYS A 492 SHEET 4 B 6 ILE A 439 VAL A 444 -1 N ILE A 439 O LEU A 462 SHEET 5 B 6 MET A 424 GLY A 428 -1 N ALA A 427 O TYR A 440 SHEET 6 B 6 SER B 500 VAL B 502 -1 O VAL B 502 N MET A 424 SHEET 1 C 3 SER A 500 VAL A 502 0 SHEET 2 C 3 MET B 424 ALA B 427 -1 O MET B 424 N VAL A 502 SHEET 3 C 3 TYR B 440 VAL B 444 -1 O TYR B 440 N ALA B 427 SHEET 1 D 4 SER B 406 GLN B 415 0 SHEET 2 D 4 SER B 488 GLU B 498 -1 O LEU B 491 N VAL B 412 SHEET 3 D 4 ILE B 461 VAL B 465 -1 N ILE B 461 O LEU B 494 SHEET 4 D 4 VAL B 468 GLU B 469 -1 O VAL B 468 N VAL B 465 SHEET 1 E 2 ALA B 430 HIS B 432 0 SHEET 2 E 2 TRP B 435 LEU B 437 -1 O TRP B 435 N HIS B 432 LINK O HOH A 115 NA NA A 601 1555 1555 2.76 LINK O HOH A 136 NA NA A 601 1555 1555 2.79 LINK O ALA A 430 NA NA A 601 1555 1555 2.82 LINK O HIS A 432 NA NA A 601 1555 1555 2.59 LINK O TRP A 435 NA NA A 601 1555 1555 2.66 LINK OD1 ASP A 436 NA NA A 601 1555 1555 2.74 SITE 1 AC1 6 HOH A 115 HOH A 136 ALA A 430 HIS A 432 SITE 2 AC1 6 TRP A 435 ASP A 436 SITE 1 AC2 6 HOH B 33 HOH B 140 PRO B 438 ILE B 439 SITE 2 AC2 6 LEU B 462 THR B 471 SITE 1 AC3 4 HOH A 25 LYS A 497 SER B 486 SER B 487 CRYST1 49.782 58.449 73.741 90.00 90.00 90.00 P 21 21 21 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 0.020087 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017109 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013561 0.00000