HEADER METAL BINDING PROTEIN 16-JUN-10 3NIN TITLE THE STRUCTURE OF UBR BOX (RLGES) COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE UBR1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UBR-TYPE DOMAIN, RESIDUES 115-194; COMPND 5 SYNONYM: N-RECOGNIN-1, N-END-RECOGNIZING PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: UBR BOX; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PEPTIDE RLGES; COMPND 10 CHAIN: D, E; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: CHEMICAL SYNTHESIS KEYWDS E3 UBIQUITIN LIGASE, UBR BOX, ZINC-BINDING PROTEIN, N-END RULE, KEYWDS 2 LIGASE, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR W.S.CHOI,B.-C.JEONG,M.-R.LEE,H.K.SONG REVDAT 5 01-NOV-23 3NIN 1 REMARK SEQADV LINK REVDAT 4 08-NOV-17 3NIN 1 REMARK REVDAT 3 13-OCT-10 3NIN 1 JRNL REVDAT 2 22-SEP-10 3NIN 1 JRNL REVDAT 1 15-SEP-10 3NIN 0 JRNL AUTH W.S.CHOI,B.-C.JEONG,Y.J.JOO,M.-R.LEE,J.KIM,M.J.ECK,H.K.SONG JRNL TITL STRUCTURAL BASIS FOR THE RECOGNITION OF N-END RULE JRNL TITL 2 SUBSTRATES BY THE UBR BOX OF UBIQUITIN LIGASES JRNL REF NAT.STRUCT.MOL.BIOL. V. 17 1175 2010 JRNL REFN ISSN 1545-9993 JRNL PMID 20835240 JRNL DOI 10.1038/NSMB.1907 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 11968 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 572 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 832 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 45 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1311 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 41 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.11000 REMARK 3 B22 (A**2) : 0.11000 REMARK 3 B33 (A**2) : -0.16000 REMARK 3 B12 (A**2) : 0.05000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.201 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.198 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.795 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1344 ; 0.008 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1812 ; 1.000 ; 1.918 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 163 ; 5.140 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;28.443 ;24.085 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 222 ;15.518 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;12.719 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 187 ; 0.064 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1054 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 827 ; 0.366 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1330 ; 0.728 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 517 ; 0.941 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 482 ; 1.342 ; 4.500 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 : 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 115 A 194 REMARK 3 ORIGIN FOR THE GROUP (A): 14.4550 -17.1600 -1.6230 REMARK 3 T TENSOR REMARK 3 T11: 0.0554 T22: 0.8435 REMARK 3 T33: 0.2938 T12: 0.0999 REMARK 3 T13: 0.0651 T23: 0.0927 REMARK 3 L TENSOR REMARK 3 L11: 5.4344 L22: 2.7188 REMARK 3 L33: 3.1248 L12: 1.8276 REMARK 3 L13: 0.6996 L23: -0.3267 REMARK 3 S TENSOR REMARK 3 S11: 0.0951 S12: 0.8784 S13: 0.2005 REMARK 3 S21: -0.1279 S22: 0.0430 S23: -0.1090 REMARK 3 S31: 0.0018 S32: -0.2132 S33: -0.1382 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 115 B 194 REMARK 3 ORIGIN FOR THE GROUP (A): 37.4970 -21.7800 0.9870 REMARK 3 T TENSOR REMARK 3 T11: 0.0513 T22: 0.7581 REMARK 3 T33: 0.2672 T12: 0.0343 REMARK 3 T13: -0.0203 T23: 0.0538 REMARK 3 L TENSOR REMARK 3 L11: 9.5902 L22: 2.3286 REMARK 3 L33: 3.0009 L12: -2.2930 REMARK 3 L13: 0.3993 L23: -1.3554 REMARK 3 S TENSOR REMARK 3 S11: 0.2758 S12: 0.4209 S13: -0.0943 REMARK 3 S21: -0.0121 S22: -0.2090 S23: 0.0552 REMARK 3 S31: 0.1137 S32: 0.2029 S33: -0.0668 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 U VALUES REMARK 4 REMARK 4 3NIN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000059876. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-FEB-10 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 : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11997 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.49000 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3NIS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.04M SODIUM CACODYLATE TRIHYDRATE PH REMARK 280 6.0, 0.04M MAGNESIUM ACETATE TETRAHYDRATE, 30%(V/V) MPD, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K, PH 8.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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 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 58.36467 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 29.18233 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 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: 670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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 113 REMARK 465 SER A 114 REMARK 465 GLY B 113 REMARK 465 SER B 114 REMARK 465 SER D 5 REMARK 465 GLU E 4 REMARK 465 SER E 5 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 O HOH A 18 O HOH A 33 2.09 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 HIS B 118 43.51 -142.74 REMARK 500 PHE B 170 41.99 -84.77 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 1 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 123 SG REMARK 620 2 CYS A 148 SG 126.9 REMARK 620 3 CYS A 151 SG 102.9 97.8 REMARK 620 4 CYS A 175 SG 102.3 114.6 111.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 2 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 118 NE2 REMARK 620 2 CYS A 151 SG 113.0 REMARK 620 3 CYS A 177 SG 94.1 112.6 REMARK 620 4 CYS A 189 SG 110.4 115.8 108.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 3 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 136 SG REMARK 620 2 CYS A 139 SG 113.2 REMARK 620 3 HIS A 157 ND1 116.2 99.4 REMARK 620 4 HIS A 160 ND1 111.2 99.0 115.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 1 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 123 SG REMARK 620 2 CYS B 148 SG 123.5 REMARK 620 3 CYS B 151 SG 99.9 104.4 REMARK 620 4 CYS B 175 SG 105.3 114.8 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 2 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 118 NE2 REMARK 620 2 CYS B 151 SG 110.0 REMARK 620 3 CYS B 177 SG 100.8 108.6 REMARK 620 4 CYS B 189 SG 97.4 127.1 109.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 3 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 136 SG REMARK 620 2 CYS B 139 SG 116.3 REMARK 620 3 HIS B 157 ND1 115.3 100.9 REMARK 620 4 HIS B 160 ND1 100.3 98.3 125.4 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 ZN A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NIH RELATED DB: PDB REMARK 900 UBR BOX (RIAAA) REMARK 900 RELATED ID: 3NII RELATED DB: PDB REMARK 900 UBR BOX (KIAA) REMARK 900 RELATED ID: 3NIJ RELATED DB: PDB REMARK 900 UBR BOX (HIAA) REMARK 900 RELATED ID: 3NIK RELATED DB: PDB REMARK 900 UBR BOX (REAA) REMARK 900 RELATED ID: 3NIL RELATED DB: PDB REMARK 900 UBR BOX (RDAA) REMARK 900 RELATED ID: 3NIM RELATED DB: PDB REMARK 900 UBR BOX (RRAA) REMARK 900 RELATED ID: 3NIS RELATED DB: PDB REMARK 900 UBR BOX (NATIVE2) REMARK 900 RELATED ID: 3NIT RELATED DB: PDB REMARK 900 UBR BOX (NATIVE1) DBREF 3NIN A 115 194 UNP P19812 UBR1_YEAST 115 194 DBREF 3NIN B 115 194 UNP P19812 UBR1_YEAST 115 194 DBREF 3NIN D 1 5 PDB 3NIN 3NIN 1 5 DBREF 3NIN E 1 5 PDB 3NIN 3NIN 1 5 SEQADV 3NIN GLY A 113 UNP P19812 EXPRESSION TAG SEQADV 3NIN SER A 114 UNP P19812 EXPRESSION TAG SEQADV 3NIN GLY B 113 UNP P19812 EXPRESSION TAG SEQADV 3NIN SER B 114 UNP P19812 EXPRESSION TAG SEQRES 1 A 82 GLY SER VAL HIS LYS HIS THR GLY ARG ASN CYS GLY ARG SEQRES 2 A 82 LYS PHE LYS ILE GLY GLU PRO LEU TYR ARG CYS HIS GLU SEQRES 3 A 82 CYS GLY CYS ASP ASP THR CYS VAL LEU CYS ILE HIS CYS SEQRES 4 A 82 PHE ASN PRO LYS ASP HIS VAL ASN HIS HIS VAL CYS THR SEQRES 5 A 82 ASP ILE CYS THR GLU PHE THR SER GLY ILE CYS ASP CYS SEQRES 6 A 82 GLY ASP GLU GLU ALA TRP ASN SER PRO LEU HIS CYS LYS SEQRES 7 A 82 ALA GLU GLU GLN SEQRES 1 B 82 GLY SER VAL HIS LYS HIS THR GLY ARG ASN CYS GLY ARG SEQRES 2 B 82 LYS PHE LYS ILE GLY GLU PRO LEU TYR ARG CYS HIS GLU SEQRES 3 B 82 CYS GLY CYS ASP ASP THR CYS VAL LEU CYS ILE HIS CYS SEQRES 4 B 82 PHE ASN PRO LYS ASP HIS VAL ASN HIS HIS VAL CYS THR SEQRES 5 B 82 ASP ILE CYS THR GLU PHE THR SER GLY ILE CYS ASP CYS SEQRES 6 B 82 GLY ASP GLU GLU ALA TRP ASN SER PRO LEU HIS CYS LYS SEQRES 7 B 82 ALA GLU GLU GLN SEQRES 1 D 5 ARG LEU GLY GLU SER SEQRES 1 E 5 ARG LEU GLY GLU SER HET ZN A 1 1 HET ZN A 2 1 HET ZN A 3 1 HET ZN B 1 1 HET ZN B 2 1 HET ZN B 3 1 HETNAM ZN ZINC ION FORMUL 5 ZN 6(ZN 2+) FORMUL 11 HOH *41(H2 O) HELIX 1 1 ASN A 153 HIS A 157 5 5 HELIX 2 2 ASP A 179 TRP A 183 5 5 HELIX 3 3 CYS A 189 GLU A 193 5 5 HELIX 4 4 ASN B 153 VAL B 158 5 6 HELIX 5 5 ASP B 179 TRP B 183 5 5 HELIX 6 6 CYS B 189 GLU B 193 5 5 SHEET 1 A 2 PRO A 132 CYS A 136 0 SHEET 2 A 2 VAL A 162 ILE A 166 -1 O ASP A 165 N LEU A 133 SHEET 1 B 2 SER A 172 GLY A 173 0 SHEET 2 B 2 LEU D 2 GLY D 3 -1 O GLY D 3 N SER A 172 SHEET 1 C 2 PRO B 132 CYS B 136 0 SHEET 2 C 2 VAL B 162 ILE B 166 -1 O CYS B 163 N ARG B 135 SSBOND 1 CYS A 163 CYS B 163 1555 1555 2.04 LINK ZN ZN A 1 SG CYS A 123 1555 1555 2.42 LINK ZN ZN A 1 SG CYS A 148 1555 1555 2.34 LINK ZN ZN A 1 SG CYS A 151 1555 1555 2.48 LINK ZN ZN A 1 SG CYS A 175 1555 1555 2.20 LINK ZN ZN A 2 NE2 HIS A 118 1555 1555 2.28 LINK ZN ZN A 2 SG CYS A 151 1555 1555 2.28 LINK ZN ZN A 2 SG CYS A 177 1555 1555 2.09 LINK ZN ZN A 2 SG CYS A 189 1555 1555 2.39 LINK ZN ZN A 3 SG CYS A 136 1555 1555 2.07 LINK ZN ZN A 3 SG CYS A 139 1555 1555 2.60 LINK ZN ZN A 3 ND1 HIS A 157 1555 1555 1.96 LINK ZN ZN A 3 ND1 HIS A 160 1555 1555 2.23 LINK ZN ZN B 1 SG CYS B 123 1555 1555 2.34 LINK ZN ZN B 1 SG CYS B 148 1555 1555 2.43 LINK ZN ZN B 1 SG CYS B 151 1555 1555 2.10 LINK ZN ZN B 1 SG CYS B 175 1555 1555 2.29 LINK ZN ZN B 2 NE2 HIS B 118 1555 1555 2.18 LINK ZN ZN B 2 SG CYS B 151 1555 1555 2.36 LINK ZN ZN B 2 SG CYS B 177 1555 1555 2.24 LINK ZN ZN B 2 SG CYS B 189 1555 1555 2.31 LINK ZN ZN B 3 SG CYS B 136 1555 1555 1.96 LINK ZN ZN B 3 SG CYS B 139 1555 1555 2.55 LINK ZN ZN B 3 ND1 HIS B 157 1555 1555 2.04 LINK ZN ZN B 3 ND1 HIS B 160 1555 1555 2.23 SITE 1 AC1 4 CYS A 123 CYS A 148 CYS A 151 CYS A 175 SITE 1 AC2 4 HIS A 118 CYS A 151 CYS A 177 CYS A 189 SITE 1 AC3 4 CYS A 136 CYS A 139 HIS A 157 HIS A 160 SITE 1 AC4 4 CYS B 123 CYS B 148 CYS B 151 CYS B 175 SITE 1 AC5 4 HIS B 118 CYS B 151 CYS B 177 CYS B 189 SITE 1 AC6 4 CYS B 136 CYS B 139 HIS B 157 HIS B 160 CRYST1 45.772 45.772 87.547 90.00 90.00 120.00 P 32 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 0.021847 0.012614 0.000000 0.00000 SCALE2 0.000000 0.025227 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011422 0.00000