HEADER UNKNOWN FUNCTION 03-JUN-19 6K6L TITLE YGL082W-CATALYTIC DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PSEUDO DEUBIQUITINASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 3 S288C); SOURCE 4 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 5 ORGANISM_TAXID: 559292; SOURCE 6 STRAIN: ATCC 204508 / S288C; SOURCE 7 GENE: YGL082W; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS PSEUDO DEUBIQUITINASE, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR L.N.LU,F.WANG REVDAT 3 22-NOV-23 6K6L 1 REMARK REVDAT 2 15-JAN-20 6K6L 1 JRNL REVDAT 1 03-JUL-19 6K6L 0 JRNL AUTH L.LU,Y.GUO,T.WANG,L.LIANG,S.ZHAO,F.WANG,L.LIU JRNL TITL INACTIVITY OF YGL082W IN VITRO DUE TO IMPAIRMENT OF JRNL TITL 2 CONFORMATIONAL CHANGE IN THE CATALYTIC CENTER LOOP JRNL REF SCI CHINA CHEM 2019 JRNL REFN ESSN 1862-2771 JRNL DOI 10.1007/S11426-019-9623-0 REMARK 2 REMARK 2 RESOLUTION. 1.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.77 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 51556 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2647 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) : 1.77 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3682 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE SET COUNT : 178 REMARK 3 BIN FREE R VALUE : 0.3140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4114 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 372 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.15000 REMARK 3 B22 (A**2) : -0.52000 REMARK 3 B33 (A**2) : 2.31000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.29000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.127 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.828 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4239 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3776 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5745 ; 2.145 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8787 ; 1.237 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 519 ; 8.635 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 220 ;38.385 ;25.273 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 712 ;16.302 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;13.708 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 634 ; 0.165 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4771 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 849 ; 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): 2085 ; 3.551 ; 3.222 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2084 ; 3.537 ; 3.220 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2601 ; 4.746 ; 4.821 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2602 ; 4.747 ; 4.823 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2154 ; 4.947 ; 3.768 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2155 ; 4.946 ; 3.769 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3145 ; 7.114 ; 5.460 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5167 ; 9.487 ;41.383 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5079 ; 9.469 ;41.054 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 REMARK 4 REMARK 4 6K6L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1300012248. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-DEC-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 130 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54216 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.770 REMARK 200 RESOLUTION RANGE LOW (A) : 66.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.77 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: 5JKN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M CALCIUM ACETATE HYDRATE, 0.1 M REMARK 280 SODIUM CACODYLATE TRIHYDRATE PH 6.5, 18% W/V POLYETHYLENE GLYCOL REMARK 280 8000, EVAPORATION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 35.32000 REMARK 290 SMTRY3 2 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL 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 GLY A -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 THR A 0 REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 ASN A 78 REMARK 465 GLY A 79 REMARK 465 THR A 80 REMARK 465 ASP A 81 REMARK 465 VAL A 82 REMARK 465 ASP A 83 REMARK 465 GLU A 268 REMARK 465 ARG A 269 REMARK 465 THR A 270 REMARK 465 GLU A 271 REMARK 465 THR A 272 REMARK 465 THR A 273 REMARK 465 ALA A 274 REMARK 465 THR A 275 REMARK 465 GLY A 276 REMARK 465 GLN A 277 REMARK 465 ASN A 278 REMARK 465 GLU A 279 REMARK 465 GLY B -3 REMARK 465 PRO B -2 REMARK 465 GLY B -1 REMARK 465 THR B 0 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 SER B 266 REMARK 465 LEU B 267 REMARK 465 GLU B 268 REMARK 465 ARG B 269 REMARK 465 THR B 270 REMARK 465 GLU B 271 REMARK 465 THR B 272 REMARK 465 THR B 273 REMARK 465 ALA B 274 REMARK 465 THR B 275 REMARK 465 GLY B 276 REMARK 465 GLN B 277 REMARK 465 ASN B 278 REMARK 465 GLU B 279 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 THR A 15 CG2 REMARK 470 TYR A 46 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 58 CG CD OE1 OE2 REMARK 470 THR A 59 OG1 CG2 REMARK 470 THR A 61 CG2 REMARK 470 GLN A 67 CG CD OE1 NE2 REMARK 470 THR A 68 CG2 REMARK 470 ASP A 71 CG OD1 OD2 REMARK 470 VAL A 74 CG1 CG2 REMARK 470 GLU A 171 CG CD OE1 OE2 REMARK 470 SER A 182 OG REMARK 470 THR A 197 CG2 REMARK 470 ARG A 200 CG CD NE CZ NH1 NH2 REMARK 470 THR B 15 CG2 REMARK 470 GLN B 25 CG CD OE1 NE2 REMARK 470 THR B 59 CG2 REMARK 470 THR B 61 CG2 REMARK 470 GLN B 67 CG CD OE1 NE2 REMARK 470 THR B 68 CG2 REMARK 470 ASP B 71 CG OD1 OD2 REMARK 470 VAL B 74 CG1 CG2 REMARK 470 GLN B 75 CG CD OE1 NE2 REMARK 470 ASP B 83 CG OD1 OD2 REMARK 470 THR B 197 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 THR A 4 N THR A 4 CA -0.137 REMARK 500 CYS A 28 CB CYS A 28 SG -0.111 REMARK 500 CYS B 28 CB CYS B 28 SG -0.117 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 THR A 4 N - CA - C ANGL. DEV. = -19.3 DEGREES REMARK 500 LEU A 62 CB - CG - CD1 ANGL. DEV. = -11.1 DEGREES REMARK 500 LEU A 191 CB - CG - CD2 ANGL. DEV. = 12.6 DEGREES REMARK 500 ARG A 237 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 237 NE - CZ - NH2 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG B 55 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG B 55 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 GLN B 86 C - N - CA ANGL. DEV. = 22.3 DEGREES REMARK 500 MET B 148 CG - SD - CE ANGL. DEV. = -10.1 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 THR A 4 105.92 82.29 REMARK 500 ASN A 23 -140.20 -106.33 REMARK 500 GLU A 58 72.77 -111.59 REMARK 500 THR A 59 -178.37 77.71 REMARK 500 VAL A 60 85.58 64.82 REMARK 500 GLN A 75 82.13 -63.30 REMARK 500 ASN A 76 125.54 159.87 REMARK 500 THR B 4 122.42 75.08 REMARK 500 ASN B 23 -146.57 -76.04 REMARK 500 THR B 59 -176.93 77.09 REMARK 500 VAL B 60 93.15 65.05 REMARK 500 ASN B 76 44.26 -100.05 REMARK 500 ASN B 78 -7.86 79.84 REMARK 500 GLN B 85 15.77 -59.77 REMARK 500 ASN B 134 -138.48 -85.60 REMARK 500 ASN B 164 158.16 66.82 REMARK 500 GLN B 166 72.17 -115.13 REMARK 500 ASN B 169 34.45 -95.73 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 ALA B 165 GLN B 166 146.08 REMARK 500 REMARK 500 REMARK: NULL DBREF 6K6L A 1 279 UNP P53155 YGI2_YEAST 1 279 DBREF 6K6L B 1 279 UNP P53155 YGI2_YEAST 1 279 SEQADV 6K6L GLY A -3 UNP P53155 EXPRESSION TAG SEQADV 6K6L PRO A -2 UNP P53155 EXPRESSION TAG SEQADV 6K6L GLY A -1 UNP P53155 EXPRESSION TAG SEQADV 6K6L THR A 0 UNP P53155 EXPRESSION TAG SEQADV 6K6L GLY B -3 UNP P53155 EXPRESSION TAG SEQADV 6K6L PRO B -2 UNP P53155 EXPRESSION TAG SEQADV 6K6L GLY B -1 UNP P53155 EXPRESSION TAG SEQADV 6K6L THR B 0 UNP P53155 EXPRESSION TAG SEQRES 1 A 283 GLY PRO GLY THR MET ASP VAL THR PHE LEU THR LYS ASN SEQRES 2 A 283 VAL GLN ILE ASN GLY THR GLN PHE LYS ILE LEU LEU GLN SEQRES 3 A 283 ASN GLY GLN GLY GLU CYS ALA LEU ILE ALA LEU ALA ASN SEQRES 4 A 283 VAL LEU LEU ILE SER PRO ALA HIS ALA ARG TYR ALA GLN SEQRES 5 A 283 GLU ILE SER ARG LEU VAL ARG GLY LYS GLU THR VAL THR SEQRES 6 A 283 LEU ASN GLU LEU VAL GLN THR LEU ALA ASP MET GLY VAL SEQRES 7 A 283 GLN ASN PRO ASN GLY THR ASP VAL ASP LYS GLN GLN LEU SEQRES 8 A 283 LEU GLN ILE LEU PRO GLN LEU TYR SER GLY LEU ASN ILE SEQRES 9 A 283 ASN PRO GLU PHE ASN GLY SER PHE GLU ASP GLY VAL GLU SEQRES 10 A 283 MET SER ILE PHE ARG LEU TYR ASN VAL GLY ILE VAL HIS SEQRES 11 A 283 GLY TRP ILE ILE ASP GLY ASP ASN ASP PRO ASN SER TYR SEQRES 12 A 283 GLU HIS VAL SER LYS TYR SER TYR MET GLY ALA GLN LYS SEQRES 13 A 283 VAL LEU VAL GLN SER TYR GLU ILE GLN LYS ASN ASN ALA SEQRES 14 A 283 GLN PHE GLU ASN SER GLU GLN ILE GLN SER ASP ALA PRO SEQRES 15 A 283 TYR LEU LYS SER PHE LEU ALA ARG SER ALA THR GLN LEU SEQRES 16 A 283 THR GLU TYR GLY LEU THR HIS LEU ARG GLU ILE LEU VAL SEQRES 17 A 283 GLU ARG SER TYR ALA VAL LEU PHE ARG ASN ASP HIS PHE SEQRES 18 A 283 CYS THR LEU TYR LYS ASN ASN GLY GLU LEU PHE THR LEU SEQRES 19 A 283 VAL THR ASP PRO THR TYR ARG ASN ARG LYS ASP ILE ASN SEQRES 20 A 283 TRP GLN SER LEU LYS SER VAL ASN GLY SER GLN ASP SER SEQRES 21 A 283 TYR TYR THR GLY ASN PHE ILE PRO THR SER LEU GLU ARG SEQRES 22 A 283 THR GLU THR THR ALA THR GLY GLN ASN GLU SEQRES 1 B 283 GLY PRO GLY THR MET ASP VAL THR PHE LEU THR LYS ASN SEQRES 2 B 283 VAL GLN ILE ASN GLY THR GLN PHE LYS ILE LEU LEU GLN SEQRES 3 B 283 ASN GLY GLN GLY GLU CYS ALA LEU ILE ALA LEU ALA ASN SEQRES 4 B 283 VAL LEU LEU ILE SER PRO ALA HIS ALA ARG TYR ALA GLN SEQRES 5 B 283 GLU ILE SER ARG LEU VAL ARG GLY LYS GLU THR VAL THR SEQRES 6 B 283 LEU ASN GLU LEU VAL GLN THR LEU ALA ASP MET GLY VAL SEQRES 7 B 283 GLN ASN PRO ASN GLY THR ASP VAL ASP LYS GLN GLN LEU SEQRES 8 B 283 LEU GLN ILE LEU PRO GLN LEU TYR SER GLY LEU ASN ILE SEQRES 9 B 283 ASN PRO GLU PHE ASN GLY SER PHE GLU ASP GLY VAL GLU SEQRES 10 B 283 MET SER ILE PHE ARG LEU TYR ASN VAL GLY ILE VAL HIS SEQRES 11 B 283 GLY TRP ILE ILE ASP GLY ASP ASN ASP PRO ASN SER TYR SEQRES 12 B 283 GLU HIS VAL SER LYS TYR SER TYR MET GLY ALA GLN LYS SEQRES 13 B 283 VAL LEU VAL GLN SER TYR GLU ILE GLN LYS ASN ASN ALA SEQRES 14 B 283 GLN PHE GLU ASN SER GLU GLN ILE GLN SER ASP ALA PRO SEQRES 15 B 283 TYR LEU LYS SER PHE LEU ALA ARG SER ALA THR GLN LEU SEQRES 16 B 283 THR GLU TYR GLY LEU THR HIS LEU ARG GLU ILE LEU VAL SEQRES 17 B 283 GLU ARG SER TYR ALA VAL LEU PHE ARG ASN ASP HIS PHE SEQRES 18 B 283 CYS THR LEU TYR LYS ASN ASN GLY GLU LEU PHE THR LEU SEQRES 19 B 283 VAL THR ASP PRO THR TYR ARG ASN ARG LYS ASP ILE ASN SEQRES 20 B 283 TRP GLN SER LEU LYS SER VAL ASN GLY SER GLN ASP SER SEQRES 21 B 283 TYR TYR THR GLY ASN PHE ILE PRO THR SER LEU GLU ARG SEQRES 22 B 283 THR GLU THR THR ALA THR GLY GLN ASN GLU FORMUL 3 HOH *372(H2 O) HELIX 1 AA1 CYS A 28 SER A 40 1 13 HELIX 2 AA2 PRO A 41 ALA A 44 5 4 HELIX 3 AA3 ALA A 47 GLY A 56 1 10 HELIX 4 AA4 LEU A 62 GLN A 75 1 14 HELIX 5 AA5 GLN A 86 LEU A 91 1 6 HELIX 6 AA6 PRO A 92 GLY A 97 1 6 HELIX 7 AA7 GLY A 111 TYR A 120 1 10 HELIX 8 AA8 ASP A 135 SER A 143 1 9 HELIX 9 AA9 SER A 146 ASN A 164 1 19 HELIX 10 AB1 ASN A 169 SER A 187 1 19 HELIX 11 AB2 THR A 192 LEU A 203 1 12 HELIX 12 AB3 ASP A 233 ARG A 237 5 5 HELIX 13 AB4 CYS B 28 SER B 40 1 13 HELIX 14 AB5 PRO B 41 ALA B 44 5 4 HELIX 15 AB6 ALA B 47 GLY B 56 1 10 HELIX 16 AB7 LEU B 62 ASN B 76 1 15 HELIX 17 AB8 GLN B 86 LEU B 91 1 6 HELIX 18 AB9 PRO B 92 GLY B 97 1 6 HELIX 19 AC1 GLY B 111 TYR B 120 1 10 HELIX 20 AC2 ASP B 135 SER B 143 1 9 HELIX 21 AC3 SER B 146 ASN B 164 1 19 HELIX 22 AC4 ASN B 169 SER B 187 1 19 HELIX 23 AC5 THR B 192 LEU B 203 1 12 HELIX 24 AC6 ASP B 233 ARG B 237 5 5 SHEET 1 AA1 2 THR A 7 ILE A 12 0 SHEET 2 AA1 2 THR A 15 LEU A 20 -1 O PHE A 17 N VAL A 10 SHEET 1 AA2 6 GLY A 123 HIS A 126 0 SHEET 2 AA2 6 TYR A 208 ARG A 213 1 O VAL A 210 N GLY A 123 SHEET 3 AA2 6 HIS A 216 ASN A 223 -1 O LEU A 220 N ALA A 209 SHEET 4 AA2 6 GLU A 226 LEU A 230 -1 O LEU A 230 N THR A 219 SHEET 5 AA2 6 TRP A 244 SER A 246 -1 O GLN A 245 N THR A 229 SHEET 6 AA2 6 TYR A 257 TYR A 258 -1 O TYR A 258 N TRP A 244 SHEET 1 AA3 2 THR B 7 ILE B 12 0 SHEET 2 AA3 2 THR B 15 LEU B 20 -1 O PHE B 17 N VAL B 10 SHEET 1 AA4 6 GLY B 123 HIS B 126 0 SHEET 2 AA4 6 TYR B 208 ARG B 213 1 O VAL B 210 N VAL B 125 SHEET 3 AA4 6 HIS B 216 ASN B 223 -1 O LEU B 220 N ALA B 209 SHEET 4 AA4 6 GLU B 226 LEU B 230 -1 O LEU B 230 N THR B 219 SHEET 5 AA4 6 TRP B 244 SER B 246 -1 O GLN B 245 N THR B 229 SHEET 6 AA4 6 TYR B 257 TYR B 258 -1 O TYR B 258 N TRP B 244 CRYST1 60.940 70.640 68.380 90.00 102.54 90.00 P 1 21 1 4 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 0.016410 0.000000 0.003650 0.00000 SCALE2 0.000000 0.014156 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014982 0.00000