HEADER TRANSFERASE 26-APR-20 6YUC TITLE CRYSTAL STRUCTURE OF UBA4-URM1 FROM CHAETOMIUM THERMOPHILUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENYLYLTRANSFERASE AND SULFURTRANSFERASE UBA4; COMPND 3 CHAIN: D; COMPND 4 EC: 2.7.7.80,2.8.1.11; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: UBIQUITIN-RELATED MODIFIER 1; COMPND 8 CHAIN: G; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHAETOMIUM THERMOPHILUM; SOURCE 3 ORGANISM_TAXID: 209285; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: CHAETOMIUM THERMOPHILUM; SOURCE 8 ORGANISM_TAXID: 209285; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UBIQUITIN-LIKE PROTEIN ACTIVATOR 4, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.GRUDNIK,M.PABIS,K.ETHIRAJU RAVICHANDRAN,S.GLATT REVDAT 4 01-MAY-24 6YUC 1 REMARK REVDAT 3 14-OCT-20 6YUC 1 JRNL REVDAT 2 30-SEP-20 6YUC 1 JRNL REVDAT 1 22-JUL-20 6YUC 0 JRNL AUTH M.PABIS,M.TERMATHE,K.E.RAVICHANDRAN,S.D.KIENAST, JRNL AUTH 2 R.KRUTYHOLOWA,M.SOKOLOWSKI,U.JANKOWSKA,P.GRUDNIK,S.A.LEIDEL, JRNL AUTH 3 S.GLATT JRNL TITL MOLECULAR BASIS FOR THE BIFUNCTIONAL UBA4-URM1 SULFUR-RELAY JRNL TITL 2 SYSTEM IN TRNA THIOLATION AND UBIQUITIN-LIKE CONJUGATION. JRNL REF EMBO J. V. 39 05087 2020 JRNL REFN ESSN 1460-2075 JRNL PMID 32901956 JRNL DOI 10.15252/EMBJ.2020105087 REMARK 2 REMARK 2 RESOLUTION. 3.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 3.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 77.6 REMARK 3 NUMBER OF REFLECTIONS : 10082 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 503 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) : 3.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.23 REMARK 3 REFLECTION IN BIN (WORKING SET) : 164 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 18.77 REMARK 3 BIN R VALUE (WORKING SET) : 1.2990 REMARK 3 BIN FREE R VALUE SET COUNT : 13 REMARK 3 BIN FREE R VALUE : 0.8900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2879 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 166.8 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 142.7 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.01000 REMARK 3 B22 (A**2) : 1.01000 REMARK 3 B33 (A**2) : -3.27000 REMARK 3 B12 (A**2) : 0.50000 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): 0.503 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.452 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 28.309 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2937 ; 0.007 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2784 ; 0.002 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3990 ; 1.525 ; 1.643 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6487 ; 1.130 ; 1.572 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 399 ;21.522 ; 5.551 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;36.577 ;24.513 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 475 ;21.301 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;20.482 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 397 ; 0.021 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3747 ; 0.000 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 515 ; 0.000 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6YUC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292108240. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAY-19 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 : ELETTRA REMARK 200 BEAMLINE : 11.2C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13003 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.150 REMARK 200 RESOLUTION RANGE LOW (A) : 42.870 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : 0.06226 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.8500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.26 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 5.44700 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: D_1292108208 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.5 AND 20 % (W/V) PEG REMARK 280 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 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 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 98.86750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 57.08118 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 33.18867 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 98.86750 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 57.08118 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 33.18867 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 98.86750 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 57.08118 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 33.18867 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 98.86750 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 57.08118 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 33.18867 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 98.86750 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 57.08118 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 33.18867 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 98.86750 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 57.08118 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 33.18867 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 114.16236 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 66.37733 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 114.16236 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 66.37733 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 114.16236 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 66.37733 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 114.16236 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 66.37733 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 114.16236 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 66.37733 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 114.16236 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 66.37733 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -57.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, G 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 99.56600 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 THR D 72 REMARK 465 SER D 73 REMARK 465 ASN D 74 REMARK 465 LEU D 75 REMARK 465 HIS D 76 REMARK 465 ARG D 77 REMARK 465 GLN D 78 REMARK 465 VAL D 79 REMARK 465 ALA D 80 REMARK 465 HIS D 81 REMARK 465 ALA D 82 REMARK 465 THR D 83 REMARK 465 LYS D 84 REMARK 465 ARG D 85 REMARK 465 VAL D 86 REMARK 465 GLU D 237 REMARK 465 ARG G 63 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 D 6 CG CD CE NZ REMARK 470 LYS D 10 CG CD CE NZ REMARK 470 LYS D 27 CG CD CE NZ REMARK 470 LYS D 191 CG CD CE NZ REMARK 470 LYS D 192 CG CD CE NZ REMARK 470 GLU D 240 CG CD OE1 OE2 REMARK 470 LYS G 38 CG CD CE NZ REMARK 470 GLU G 41 CG CD OE1 OE2 REMARK 470 ARG G 74 CG CD NE CZ NH1 NH2 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 NZ LYS D 202 O GLY G 111 1.10 REMARK 500 NZ LYS D 202 C GLY G 111 1.27 REMARK 500 O TYR D 186 O CYS D 189 1.61 REMARK 500 OH TYR D 140 O PRO D 193 1.74 REMARK 500 CE LYS D 202 C GLY G 111 1.82 REMARK 500 O LEU D 31 ND2 ASN D 35 2.07 REMARK 500 NH1 ARG D 139 O ALA D 156 2.11 REMARK 500 O THR G 64 O VAL G 68 2.13 REMARK 500 O ILE G 47 CD1 ILE G 51 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 OG SER D 229 O LEU D 259 4556 2.08 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 ASP D 134 -4.84 81.70 REMARK 500 GLN D 160 -127.59 49.87 REMARK 500 VAL D 177 81.75 -67.88 REMARK 500 ILE D 207 126.24 -171.96 REMARK 500 PRO D 234 152.63 -49.96 REMARK 500 GLN D 249 72.74 -115.84 REMARK 500 TYR D 266 34.87 -92.35 REMARK 500 THR D 288 31.95 -97.42 REMARK 500 PHE G 25 44.22 -102.07 REMARK 500 ASN G 27 15.64 57.59 REMARK 500 ASP G 61 154.64 175.95 REMARK 500 GLU G 91 71.38 52.79 REMARK 500 ALA G 93 45.03 -147.21 REMARK 500 ASN G 99 28.09 -144.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO D 193 PRO D 194 82.25 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 D 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 185 SG REMARK 620 2 CYS D 188 SG 100.6 REMARK 620 3 CYS D 280 SG 110.5 129.8 REMARK 620 4 CYS D 283 SG 107.5 77.4 125.5 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 D 401 DBREF 6YUC D 4 304 UNP G0SC54 G0SC54_CHATD 4 304 DBREF 6YUC G 11 111 UNP G0SE11 G0SE11_CHATD 10 110 SEQADV 6YUC LYS D 202 UNP G0SC54 CYS 202 CONFLICT SEQRES 1 D 301 THR GLN LYS SER LEU SER LYS GLU GLU ILE GLU ARG TYR SEQRES 2 D 301 SER ARG GLN MET ILE VAL PRO GLY MET GLY LYS GLU GLY SEQRES 3 D 301 GLN LEU ARG LEU MET ASN ALA LYS VAL LEU ILE ILE GLY SEQRES 4 D 301 ALA GLY GLY LEU GLY CYS PRO ALA ALA GLN TYR LEU ALA SEQRES 5 D 301 GLY ALA GLY VAL GLY THR ILE GLY ILE VAL ASP GLY ASP SEQRES 6 D 301 SER VAL GLU THR SER ASN LEU HIS ARG GLN VAL ALA HIS SEQRES 7 D 301 ALA THR LYS ARG VAL GLY MET LEU LYS VAL ASP SER LEU SEQRES 8 D 301 ILE THR HIS LEU ILE GLU ILE ASN PRO LEU PRO VAL TYR SEQRES 9 D 301 VAL PRO TYR ARG PHE ASP LEU THR PRO GLN ASN ALA ALA SEQRES 10 D 301 GLN ILE ILE LYS PRO TRP ASP VAL ILE LEU ASP CYS THR SEQRES 11 D 301 ASP ASN PRO ALA THR ARG TYR LEU ILE SER ASP VAL CYS SEQRES 12 D 301 VAL LEU LEU GLY LYS PRO LEU VAL SER ALA ALA SER VAL SEQRES 13 D 301 GLN LYS SER GLY GLN LEU ILE VAL LEU ASN CYS PRO PRO SEQRES 14 D 301 THR PRO GLN GLY VAL VAL ASN LYS LYS ALA ALA PRO CYS SEQRES 15 D 301 TYR ARG CYS CYS PHE LYS LYS PRO PRO PRO PRO SER ALA SEQRES 16 D 301 GLN THR SER LYS GLY GLU ALA GLY ILE MET GLY PRO VAL SEQRES 17 D 301 VAL GLY MET MET GLY VAL ALA GLN ALA GLY GLU ALA ILE SEQRES 18 D 301 LYS ILE LEU VAL SER GLN LEU HIS MET PRO PRO LYS GLU SEQRES 19 D 301 GLY GLU GLU VAL SER PRO GLU LYS ASN LEU VAL GLN PRO SEQRES 20 D 301 THR LEU LEU ILE TYR THR TYR ASP LEU ASN SER ALA ILE SEQRES 21 D 301 GLY PRO TYR SER PHE ARG ALA LEU LYS MET GLY GLY ARG SEQRES 22 D 301 LYS LYS ASP CYS PHE ALA CYS GLY GLU ASN SER THR LEU SEQRES 23 D 301 THR LEU ASP GLY ILE LYS SER GLY ASN PRO ASN TYR VAL SEQRES 24 D 301 GLN PHE SEQRES 1 G 101 ILE PRO ILE THR VAL ASP PHE SER GLY GLY LEU GLU MET SEQRES 2 G 101 LEU PHE ASP ASN GLN ARG ARG HIS SER ILE SER LEU PRO SEQRES 3 G 101 ALA LYS ASP THR GLU GLY LYS PRO VAL THR ILE ALA PHE SEQRES 4 G 101 LEU ILE ASP TYR ILE CYS LYS LYS LEU MET LYS ASP PRO SEQRES 5 G 101 ARG THR ASP LEU PHE VAL LEU ASP ASN HIS ILE ARG PRO SEQRES 6 G 101 GLY ILE LEU VAL LEU ILE ASN ASP ALA ASP TRP GLU LEU SEQRES 7 G 101 GLU GLY GLU GLU ALA TYR GLU ILE GLN PRO ASN ASP ASN SEQRES 8 G 101 ILE LEU PHE VAL SER THR LEU HIS GLY GLY HET ZN D 401 1 HETNAM ZN ZINC ION FORMUL 3 ZN ZN 2+ HELIX 1 AA1 SER D 9 ILE D 21 1 13 HELIX 2 AA2 GLY D 26 ALA D 36 1 11 HELIX 3 AA3 LEU D 46 GLY D 58 1 13 HELIX 4 AA4 LEU D 89 ASN D 102 1 14 HELIX 5 AA5 THR D 115 LYS D 124 1 10 HELIX 6 AA6 ASN D 135 GLY D 150 1 16 HELIX 7 AA7 SER D 201 GLY D 206 1 6 HELIX 8 AA8 MET D 208 SER D 229 1 22 HELIX 9 AA9 THR D 290 GLY D 297 1 8 HELIX 10 AB1 LEU G 21 ASP G 26 5 6 HELIX 11 AB2 THR G 46 LEU G 58 1 13 SHEET 1 AA1 8 VAL D 106 TYR D 110 0 SHEET 2 AA1 8 THR D 61 VAL D 65 1 N ILE D 64 O TYR D 110 SHEET 3 AA1 8 LYS D 37 ILE D 41 1 N VAL D 38 O GLY D 63 SHEET 4 AA1 8 VAL D 128 ASP D 131 1 O LEU D 130 N LEU D 39 SHEET 5 AA1 8 LEU D 153 VAL D 159 1 O VAL D 154 N ILE D 129 SHEET 6 AA1 8 SER D 162 LEU D 168 -1 O LEU D 168 N LEU D 153 SHEET 7 AA1 8 THR D 251 THR D 256 -1 O TYR D 255 N GLY D 163 SHEET 8 AA1 8 PHE D 268 LYS D 272 -1 O ARG D 269 N ILE D 254 SHEET 1 AA2 4 HIS G 31 SER G 34 0 SHEET 2 AA2 4 PRO G 12 SER G 18 -1 N VAL G 15 O HIS G 31 SHEET 3 AA2 4 ASN G 101 SER G 106 1 O ILE G 102 N ASP G 16 SHEET 4 AA2 4 ILE G 77 ILE G 81 -1 N LEU G 78 O VAL G 105 SHEET 1 AA3 2 VAL G 68 LEU G 69 0 SHEET 2 AA3 2 HIS G 72 ILE G 73 -1 O HIS G 72 N LEU G 69 SSBOND 1 CYS D 188 CYS D 283 1555 1555 2.87 LINK SG CYS D 185 ZN ZN D 401 1555 1555 2.33 LINK SG CYS D 188 ZN ZN D 401 1555 1555 2.29 LINK SG CYS D 280 ZN ZN D 401 1555 1555 2.23 LINK SG CYS D 283 ZN ZN D 401 1555 1555 2.30 CISPEP 1 CYS D 170 PRO D 171 0 -10.54 SITE 1 AC1 4 CYS D 185 CYS D 188 CYS D 280 CYS D 283 CRYST1 197.735 197.735 99.566 90.00 90.00 120.00 H 3 2 18 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 0.005057 0.002920 0.000000 0.00000 SCALE2 0.000000 0.005840 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010044 0.00000