HEADER PEPTIDE BINDING PROTEIN 08-FEB-18 6CD8 TITLE COMPLEX OF GID4 FRAGMENT WITH SHORT PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOSE-INDUCED DEGRADATION PROTEIN 4 HOMOLOG; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 124-289; COMPND 5 SYNONYM: VACUOLAR IMPORT AND DEGRADATION PROTEIN 24 HOMOLOG; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TETRAPEPTIDE PSRV; COMPND 9 CHAIN: C, D; COMPND 10 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: GID4, C17ORF39, VID24; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28-MHL; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 OTHER_DETAILS: SYNTHETIC PEPTIDE KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, PEPTIDE KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.DONG,W.TEMPEL,C.BOUNTRA,C.H.ARROWSMITH,A.M.EDWARDS,J.MIN,STRUCTURAL AUTHOR 2 GENOMICS CONSORTIUM (SGC) REVDAT 4 04-OCT-23 6CD8 1 REMARK REVDAT 3 25-APR-18 6CD8 1 JRNL REVDAT 2 18-APR-18 6CD8 1 JRNL REVDAT 1 07-MAR-18 6CD8 0 JRNL AUTH C.DONG,H.ZHANG,L.LI,W.TEMPEL,P.LOPPNAU,J.MIN JRNL TITL MOLECULAR BASIS OF GID4-MEDIATED RECOGNITION OF DEGRONS FOR JRNL TITL 2 THE PRO/N-END RULE PATHWAY. JRNL REF NAT. CHEM. BIOL. V. 14 466 2018 JRNL REFN ESSN 1552-4469 JRNL PMID 29632410 JRNL DOI 10.1038/S41589-018-0036-1 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 45300 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2382 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3245 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE SET COUNT : 177 REMARK 3 BIN FREE R VALUE : 0.3030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2741 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 19 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) : 30.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : 0.21000 REMARK 3 B12 (A**2) : -0.03000 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): 0.095 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.093 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.071 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.129 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2906 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2408 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3955 ; 1.619 ; 1.909 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5579 ; 0.946 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 356 ; 7.135 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 151 ;35.119 ;23.642 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 431 ;11.662 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;16.958 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 397 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3335 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 702 ; 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): 1381 ; 0.826 ; 1.546 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1380 ; 0.824 ; 1.545 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1727 ; 1.303 ; 2.317 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 4 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 123 A 289 REMARK 3 ORIGIN FOR THE GROUP (A): 25.2999 70.7178 0.3820 REMARK 3 T TENSOR REMARK 3 T11: 0.1465 T22: 0.0240 REMARK 3 T33: 0.0050 T12: 0.0424 REMARK 3 T13: -0.0135 T23: -0.0029 REMARK 3 L TENSOR REMARK 3 L11: 2.2766 L22: 2.5936 REMARK 3 L33: 3.0917 L12: -0.2582 REMARK 3 L13: -0.6389 L23: 0.1226 REMARK 3 S TENSOR REMARK 3 S11: 0.0224 S12: 0.1149 S13: 0.0628 REMARK 3 S21: -0.0543 S22: -0.0979 S23: 0.0024 REMARK 3 S31: -0.3075 S32: -0.2027 S33: 0.0754 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 125 B 289 REMARK 3 ORIGIN FOR THE GROUP (A): 59.1813 57.8352 23.4070 REMARK 3 T TENSOR REMARK 3 T11: 0.1131 T22: 0.2173 REMARK 3 T33: 0.0060 T12: -0.0439 REMARK 3 T13: 0.0073 T23: 0.0107 REMARK 3 L TENSOR REMARK 3 L11: 3.4962 L22: 2.0619 REMARK 3 L33: 2.2361 L12: -0.5660 REMARK 3 L13: 0.9937 L23: -0.0300 REMARK 3 S TENSOR REMARK 3 S11: -0.0317 S12: 0.2004 S13: -0.0179 REMARK 3 S21: -0.1627 S22: 0.0095 S23: -0.0808 REMARK 3 S31: -0.0072 S32: 0.2847 S33: 0.0221 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 4 REMARK 3 ORIGIN FOR THE GROUP (A): 37.9847 63.4220 4.5792 REMARK 3 T TENSOR REMARK 3 T11: 0.1512 T22: 0.1421 REMARK 3 T33: 0.1481 T12: 0.0248 REMARK 3 T13: -0.0072 T23: 0.0169 REMARK 3 L TENSOR REMARK 3 L11: 7.8699 L22: 7.6916 REMARK 3 L33: 2.5446 L12: -3.4383 REMARK 3 L13: 1.2171 L23: 1.2148 REMARK 3 S TENSOR REMARK 3 S11: 0.0215 S12: -0.0723 S13: -0.2341 REMARK 3 S21: 0.2041 S22: -0.0117 S23: -0.0456 REMARK 3 S31: 0.2136 S32: 0.2038 S33: -0.0098 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 4 REMARK 3 ORIGIN FOR THE GROUP (A): 48.2963 63.1027 15.3888 REMARK 3 T TENSOR REMARK 3 T11: 0.1645 T22: 0.1711 REMARK 3 T33: 0.1317 T12: -0.0047 REMARK 3 T13: -0.0141 T23: 0.0020 REMARK 3 L TENSOR REMARK 3 L11: 3.9922 L22: 5.9068 REMARK 3 L33: 7.7796 L12: -3.2649 REMARK 3 L13: 2.4420 L23: -4.0634 REMARK 3 S TENSOR REMARK 3 S11: 0.0367 S12: 0.2386 S13: -0.0365 REMARK 3 S21: -0.1586 S22: -0.1728 S23: 0.2100 REMARK 3 S31: -0.0789 S32: 0.0771 S33: 0.1360 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6CD8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-FEB-18. REMARK 100 THE DEPOSITION ID IS D_1000231015. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-AUG-17 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97945 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47911 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 48.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 19.10 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 19.80 REMARK 200 R MERGE FOR SHELL (I) : 1.63800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: EARLY VERSION OF PDB ENTRY 6CCR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG2000 AND 0.1M KSCN, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 193.06200 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 96.53100 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 144.79650 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 48.26550 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 241.32750 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 193.06200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 96.53100 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 48.26550 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 144.79650 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 241.32750 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 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 HOH A 453 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 B 123 REMARK 465 SER B 124 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 GLY A 123 N REMARK 470 SER A 124 OG REMARK 470 SER A 126 OG REMARK 470 LYS A 133 NZ REMARK 470 LYS A 135 CD CE NZ REMARK 470 GLU A 166 CG CD OE1 OE2 REMARK 470 LYS A 182 CD CE NZ REMARK 470 LYS A 183 CE NZ REMARK 470 LYS A 213 CD CE NZ REMARK 470 SER A 217 OG REMARK 470 ASP A 218 CG OD1 OD2 REMARK 470 LYS A 226 CG CD CE NZ REMARK 470 ASP A 243 OD1 OD2 REMARK 470 LYS A 247 NZ REMARK 470 ASP A 248 CG OD1 OD2 REMARK 470 ILE A 249 CD1 REMARK 470 ARG B 129 NE CZ NH1 NH2 REMARK 470 LYS B 133 CG CD CE NZ REMARK 470 LYS B 135 CG CD CE NZ REMARK 470 LYS B 162 CD CE NZ REMARK 470 LYS B 182 CD CE NZ REMARK 470 ASP B 196 CG OD1 OD2 REMARK 470 LYS B 204 CE NZ REMARK 470 TYR B 209 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 213 CG CD CE NZ REMARK 470 ASP B 219 CG OD1 OD2 REMARK 470 GLU B 223 CG CD OE1 OE2 REMARK 470 ILE B 246 CD1 REMARK 470 LYS B 247 CG CD CE NZ REMARK 470 ILE B 249 CG1 CG2 CD1 REMARK 470 ARG B 276 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 289 CG1 CG2 REMARK 470 ARG D 3 NE CZ NH1 NH2 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 234 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG B 234 NE - CZ - NH1 ANGL. DEV. = -3.5 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 SER A 124 117.07 -32.49 REMARK 500 SER B 181 -178.48 -172.05 REMARK 500 LYS B 190 -178.57 -171.12 REMARK 500 REMARK 500 REMARK: NULL DBREF 6CD8 A 124 289 UNP Q8IVV7 GID4_HUMAN 124 289 DBREF 6CD8 B 124 289 UNP Q8IVV7 GID4_HUMAN 124 289 DBREF 6CD8 C 1 4 PDB 6CD8 6CD8 1 4 DBREF 6CD8 D 1 4 PDB 6CD8 6CD8 1 4 SEQADV 6CD8 GLY A 123 UNP Q8IVV7 EXPRESSION TAG SEQADV 6CD8 GLY B 123 UNP Q8IVV7 EXPRESSION TAG SEQRES 1 A 167 GLY SER GLY SER LYS PHE ARG GLY HIS GLN LYS SER LYS SEQRES 2 A 167 GLY ASN SER TYR ASP VAL GLU VAL VAL LEU GLN HIS VAL SEQRES 3 A 167 ASP THR GLY ASN SER TYR LEU CYS GLY TYR LEU LYS ILE SEQRES 4 A 167 LYS GLY LEU THR GLU GLU TYR PRO THR LEU THR THR PHE SEQRES 5 A 167 PHE GLU GLY GLU ILE ILE SER LYS LYS HIS PRO PHE LEU SEQRES 6 A 167 THR ARG LYS TRP ASP ALA ASP GLU ASP VAL ASP ARG LYS SEQRES 7 A 167 HIS TRP GLY LYS PHE LEU ALA PHE TYR GLN TYR ALA LYS SEQRES 8 A 167 SER PHE ASN SER ASP ASP PHE ASP TYR GLU GLU LEU LYS SEQRES 9 A 167 ASN GLY ASP TYR VAL PHE MET ARG TRP LYS GLU GLN PHE SEQRES 10 A 167 LEU VAL PRO ASP HIS THR ILE LYS ASP ILE SER GLY ALA SEQRES 11 A 167 SER PHE ALA GLY PHE TYR TYR ILE CYS PHE GLN LYS SER SEQRES 12 A 167 ALA ALA SER ILE GLU GLY TYR TYR TYR HIS ARG SER SER SEQRES 13 A 167 GLU TRP TYR GLN SER LEU ASN LEU THR HIS VAL SEQRES 1 B 167 GLY SER GLY SER LYS PHE ARG GLY HIS GLN LYS SER LYS SEQRES 2 B 167 GLY ASN SER TYR ASP VAL GLU VAL VAL LEU GLN HIS VAL SEQRES 3 B 167 ASP THR GLY ASN SER TYR LEU CYS GLY TYR LEU LYS ILE SEQRES 4 B 167 LYS GLY LEU THR GLU GLU TYR PRO THR LEU THR THR PHE SEQRES 5 B 167 PHE GLU GLY GLU ILE ILE SER LYS LYS HIS PRO PHE LEU SEQRES 6 B 167 THR ARG LYS TRP ASP ALA ASP GLU ASP VAL ASP ARG LYS SEQRES 7 B 167 HIS TRP GLY LYS PHE LEU ALA PHE TYR GLN TYR ALA LYS SEQRES 8 B 167 SER PHE ASN SER ASP ASP PHE ASP TYR GLU GLU LEU LYS SEQRES 9 B 167 ASN GLY ASP TYR VAL PHE MET ARG TRP LYS GLU GLN PHE SEQRES 10 B 167 LEU VAL PRO ASP HIS THR ILE LYS ASP ILE SER GLY ALA SEQRES 11 B 167 SER PHE ALA GLY PHE TYR TYR ILE CYS PHE GLN LYS SER SEQRES 12 B 167 ALA ALA SER ILE GLU GLY TYR TYR TYR HIS ARG SER SER SEQRES 13 B 167 GLU TRP TYR GLN SER LEU ASN LEU THR HIS VAL SEQRES 1 C 4 PRO SER ARG VAL SEQRES 1 D 4 PRO SER ARG VAL HET UNX A 301 1 HET UNX A 302 1 HET UNX A 303 1 HET UNX A 304 1 HET UNX A 305 1 HET UNX A 306 1 HET UNX A 307 1 HET UNX A 308 1 HET UNX A 309 1 HET UNX A 310 1 HET UNX A 311 1 HET UNX B 301 1 HET UNX B 302 1 HET UNX B 303 1 HET UNX B 304 1 HET UNX B 305 1 HET UNX B 306 1 HET UNX B 307 1 HET UNX B 308 1 HETNAM UNX UNKNOWN ATOM OR ION FORMUL 5 UNX 19(X) FORMUL 24 HOH *116(H2 O) HELIX 1 AA1 THR A 150 ASN A 152 5 3 HELIX 2 AA2 ASP A 194 GLY A 203 1 10 HELIX 3 AA3 LYS A 204 ALA A 212 5 9 HELIX 4 AA4 ASP A 221 LYS A 226 5 6 HELIX 5 AA5 ASP B 194 GLY B 203 1 10 HELIX 6 AA6 LYS B 204 ALA B 212 5 9 HELIX 7 AA7 ASP B 221 GLY B 228 1 8 SHEET 1 AA1 9 LYS A 127 LYS A 133 0 SHEET 2 AA1 9 SER A 138 ASP A 149 -1 O VAL A 143 N PHE A 128 SHEET 3 AA1 9 TYR A 154 LYS A 162 -1 O LYS A 160 N GLU A 142 SHEET 4 AA1 9 THR A 170 ILE A 179 -1 O GLY A 177 N LEU A 155 SHEET 5 AA1 9 TYR A 230 LEU A 240 -1 O GLN A 238 N PHE A 174 SHEET 6 AA1 9 PHE A 257 GLN A 263 -1 O TYR A 258 N TRP A 235 SHEET 7 AA1 9 SER A 268 TYR A 274 -1 O SER A 268 N GLN A 263 SHEET 8 AA1 9 SER A 283 HIS A 288 -1 O LEU A 286 N ILE A 269 SHEET 9 AA1 9 LYS A 127 LYS A 133 -1 N ARG A 129 O THR A 287 SHEET 1 AA2 2 ALA A 252 SER A 253 0 SHEET 2 AA2 2 SER C 2 ARG C 3 -1 O SER C 2 N SER A 253 SHEET 1 AA3 9 LYS B 127 LYS B 133 0 SHEET 2 AA3 9 SER B 138 ASP B 149 -1 O VAL B 143 N PHE B 128 SHEET 3 AA3 9 TYR B 154 LYS B 162 -1 O TYR B 154 N ASP B 149 SHEET 4 AA3 9 THR B 170 ILE B 179 -1 O GLY B 177 N LEU B 155 SHEET 5 AA3 9 TYR B 230 LEU B 240 -1 O GLN B 238 N PHE B 174 SHEET 6 AA3 9 PHE B 257 GLN B 263 -1 O PHE B 262 N VAL B 231 SHEET 7 AA3 9 SER B 268 TYR B 274 -1 O GLU B 270 N CYS B 261 SHEET 8 AA3 9 SER B 283 HIS B 288 -1 O LEU B 286 N ILE B 269 SHEET 9 AA3 9 LYS B 127 LYS B 133 -1 N ARG B 129 O THR B 287 SHEET 1 AA4 2 ALA B 252 SER B 253 0 SHEET 2 AA4 2 SER D 2 ARG D 3 -1 O SER D 2 N SER B 253 CISPEP 1 VAL A 241 PRO A 242 0 7.28 CISPEP 2 VAL B 241 PRO B 242 0 15.14 CRYST1 63.941 63.941 289.593 90.00 90.00 120.00 P 65 2 2 24 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 0.015639 0.009029 0.000000 0.00000 SCALE2 0.000000 0.018059 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003453 0.00000