HEADER NUCLEAR PROTEIN/PROTEIN BINDING 14-NOV-19 6UYU TITLE CRYSTAL STRUCTURE OF K45-ACETYLATED SUMO1 IN COMPLEX WITH TITLE 2 PHOSPHORYLATED PML-SIM COMPND MOL_ID: 1; COMPND 2 MOLECULE: SMALL UBIQUITIN-RELATED MODIFIER 1; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: SUMO-1,GAP-MODIFYING PROTEIN 1,GMP1,SMT3 HOMOLOG 3,SENTRIN, COMPND 5 UBIQUITIN-HOMOLOGY DOMAIN PROTEIN PIC1,UBIQUITIN-LIKE PROTEIN SMT3C, COMPND 6 SMT3C,UBIQUITIN-LIKE PROTEIN UBL1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: PROTEIN PML; COMPND 11 CHAIN: B, D; COMPND 12 SYNONYM: PROMYELOCYTIC LEUKEMIA PROTEIN,RING FINGER PROTEIN 71, COMPND 13 TRIPARTITE MOTIF-CONTAINING PROTEIN 19; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SUMO1, SMT3C, SMT3H3, UBL1, OK/SW-CL.43; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: PML, MYL, PP8675, RNF71, TRIM19; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SUMO1, PML, SUMO INTERACTION MOTIF, PHOSPHOSIM, NUCLEAR PROTEIN- KEYWDS 2 PROTEIN BINDING COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.M.WAHBA,C.GAGNON,X.H.MASCLE,M.LUSSIER-PRICE,L.CAPPADOCIA, AUTHOR 2 K.SAKAGUCHI,J.G.OMICHINSKI REVDAT 7 23-OCT-24 6UYU 1 REMARK REVDAT 6 15-NOV-23 6UYU 1 ATOM REVDAT 5 25-OCT-23 6UYU 1 REMARK REVDAT 4 22-FEB-23 6UYU 1 COMPND REMARK LINK SITE REVDAT 4 2 1 ATOM REVDAT 3 19-FEB-20 6UYU 1 JRNL REVDAT 2 08-JAN-20 6UYU 1 JRNL REVDAT 1 27-NOV-19 6UYU 0 JRNL AUTH X.H.MASCLE,C.GAGNON,H.M.WAHBA,M.LUSSIER-PRICE,L.CAPPADOCIA, JRNL AUTH 2 K.SAKAGUCHI,J.G.OMICHINSKI JRNL TITL ACETYLATION OF SUMO1 ALTERS INTERACTIONS WITH THE SIMS OF JRNL TITL 2 PML AND DAXX IN A PROTEIN-SPECIFIC MANNER. JRNL REF STRUCTURE V. 28 157 2020 JRNL REFN ISSN 0969-2126 JRNL PMID 31879127 JRNL DOI 10.1016/J.STR.2019.11.019 REMARK 2 REMARK 2 RESOLUTION. 1.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14-3260_1496 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 25855 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.740 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 37.0140 - 3.9934 1.00 1930 162 0.1659 0.1589 REMARK 3 2 3.9934 - 3.1702 1.00 1834 154 0.1511 0.1713 REMARK 3 3 3.1702 - 2.7697 1.00 1804 151 0.1718 0.1700 REMARK 3 4 2.7697 - 2.5165 1.00 1812 152 0.1641 0.1885 REMARK 3 5 2.5165 - 2.3362 1.00 1789 150 0.1583 0.1838 REMARK 3 6 2.3362 - 2.1984 1.00 1766 148 0.1493 0.1823 REMARK 3 7 2.1984 - 2.0883 0.99 1780 149 0.1650 0.1965 REMARK 3 8 2.0883 - 1.9974 0.99 1742 146 0.1650 0.2044 REMARK 3 9 1.9974 - 1.9206 0.99 1764 149 0.1700 0.1887 REMARK 3 10 1.9206 - 1.8543 0.99 1754 146 0.1784 0.1968 REMARK 3 11 1.8543 - 1.7963 0.97 1721 144 0.1944 0.2213 REMARK 3 12 1.7963 - 1.7450 0.93 1630 137 0.2241 0.2797 REMARK 3 13 1.7450 - 1.6990 0.79 1403 117 0.2931 0.3364 REMARK 3 14 1.6990 - 1.6580 0.65 1126 95 0.3273 0.3664 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.850 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 0.9255 10.5183 -6.1462 REMARK 3 T TENSOR REMARK 3 T11: 0.1172 T22: 0.1163 REMARK 3 T33: 0.1174 T12: -0.0022 REMARK 3 T13: 0.0063 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 1.9005 L22: 2.1961 REMARK 3 L33: 1.5586 L12: 0.8266 REMARK 3 L13: 0.4833 L23: 0.3014 REMARK 3 S TENSOR REMARK 3 S11: -0.0642 S12: 0.0627 S13: -0.1173 REMARK 3 S21: -0.1448 S22: 0.0879 S23: -0.0430 REMARK 3 S31: 0.0487 S32: 0.0542 S33: 0.0084 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): 9.5321 17.4898 -7.5670 REMARK 3 T TENSOR REMARK 3 T11: 0.1674 T22: 0.2379 REMARK 3 T33: 0.2509 T12: 0.0007 REMARK 3 T13: 0.0310 T23: -0.0324 REMARK 3 L TENSOR REMARK 3 L11: 1.7003 L22: 1.1895 REMARK 3 L33: 1.1900 L12: 0.4538 REMARK 3 L13: 0.3394 L23: -0.8490 REMARK 3 S TENSOR REMARK 3 S11: -0.1136 S12: 0.1747 S13: -0.2844 REMARK 3 S21: -0.2305 S22: 0.1521 S23: -0.2047 REMARK 3 S31: 0.0091 S32: 0.3476 S33: -0.0126 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): 2.3576 -17.3315 -8.0280 REMARK 3 T TENSOR REMARK 3 T11: 0.1326 T22: 0.1401 REMARK 3 T33: 0.1297 T12: 0.0177 REMARK 3 T13: 0.0073 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 2.6895 L22: 2.1025 REMARK 3 L33: 1.9405 L12: 0.1213 REMARK 3 L13: -0.1710 L23: 0.2072 REMARK 3 S TENSOR REMARK 3 S11: 0.0549 S12: 0.2180 S13: -0.0620 REMARK 3 S21: -0.1345 S22: -0.0273 S23: 0.0276 REMARK 3 S31: -0.0016 S32: -0.0648 S33: 0.0002 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): 11.4803 -10.8262 -7.4672 REMARK 3 T TENSOR REMARK 3 T11: 0.2126 T22: 0.2419 REMARK 3 T33: 0.2252 T12: -0.0231 REMARK 3 T13: 0.0461 T23: 0.0058 REMARK 3 L TENSOR REMARK 3 L11: 0.8717 L22: 1.3648 REMARK 3 L33: 0.3194 L12: -0.0835 REMARK 3 L13: 0.4010 L23: -0.4666 REMARK 3 S TENSOR REMARK 3 S11: -0.0897 S12: 0.2742 S13: 0.2480 REMARK 3 S21: -0.4672 S22: 0.0393 S23: -0.2513 REMARK 3 S31: 0.0299 S32: 0.1647 S33: -0.0214 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6UYU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-NOV-19. REMARK 100 THE DEPOSITION ID IS D_1000244134. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-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 : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25859 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.658 REMARK 200 RESOLUTION RANGE LOW (A) : 37.014 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.6800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.66 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 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: 4WJN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM SODIUM CACODYLATE PH6.5, 16% REMARK 280 PEG3350, 10MM CALCIUM CHLORIDE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 19.26800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.68900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.56800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.68900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.26800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.56800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 1150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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 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: 1180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 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 15 REMARK 465 SER A 16 REMARK 465 LYS A 17 REMARK 465 GLU A 18 REMARK 465 GLY B 1 REMARK 465 SER B 2 REMARK 465 GLY B 3 REMARK 465 ALA B 4 REMARK 465 GLY B 5 REMARK 465 GLU B 18 REMARK 465 ASP B 19 REMARK 465 SEP B 20 REMARK 465 ASP B 21 REMARK 465 ALA B 22 REMARK 465 GLU B 23 REMARK 465 ASN B 24 REMARK 465 SER B 25 REMARK 465 SER B 26 REMARK 465 SER B 27 REMARK 465 ARG B 28 REMARK 465 TYR B 29 REMARK 465 GLY C 15 REMARK 465 SER C 16 REMARK 465 LYS C 17 REMARK 465 GLU C 18 REMARK 465 THR C 95 REMARK 465 GLY C 96 REMARK 465 GLY C 97 REMARK 465 GLY D 1 REMARK 465 SER D 2 REMARK 465 GLY D 3 REMARK 465 ALA D 4 REMARK 465 GLY D 5 REMARK 465 GLU D 6 REMARK 465 GLU D 18 REMARK 465 ASP D 19 REMARK 465 SEP D 20 REMARK 465 ASP D 21 REMARK 465 ALA D 22 REMARK 465 GLU D 23 REMARK 465 ASN D 24 REMARK 465 SER D 25 REMARK 465 SER D 26 REMARK 465 SER D 27 REMARK 465 ARG D 28 REMARK 465 TYR D 29 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 C SEP B 16 H SEP B 17 1.44 REMARK 500 O HOH C 172 O HOH C 175 1.83 REMARK 500 O HOH C 115 O HOH C 146 1.83 REMARK 500 O GLU A 20 O HOH A 101 1.92 REMARK 500 OE1 GLU C 49 O HOH C 101 1.95 REMARK 500 O HOH C 102 O HOH C 103 1.96 REMARK 500 O HOH C 140 O HOH C 171 1.99 REMARK 500 O HOH A 102 O HOH A 109 2.02 REMARK 500 O HOH C 132 O HOH C 160 2.03 REMARK 500 OG SER A 31 O HOH A 102 2.17 REMARK 500 O HOH B 211 O HOH B 214 2.18 REMARK 500 OG SER C 31 O HOH C 102 2.19 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 O HOH A 103 O HOH A 137 4555 1.94 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 SEP B 16 O - C - N ANGL. DEV. = -16.1 DEGREES REMARK 500 ARG C 63 NE - CZ - NH2 ANGL. DEV. = -3.2 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 SEP B 16 -150.45 -79.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SEP B 16 -20.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4WJQ RELATED DB: PDB REMARK 900 RELATED ID: 4WJP RELATED DB: PDB REMARK 900 RELATED ID: 4WJO RELATED DB: PDB REMARK 900 RELATED ID: 4WJN RELATED DB: PDB DBREF 6UYU A 17 97 UNP P63165 SUMO1_HUMAN 17 97 DBREF 6UYU B 2 29 UNP P29590 PML_HUMAN 547 574 DBREF 6UYU C 17 97 UNP P63165 SUMO1_HUMAN 17 97 DBREF 6UYU D 2 29 UNP P29590 PML_HUMAN 547 574 SEQADV 6UYU GLY A 15 UNP P63165 EXPRESSION TAG SEQADV 6UYU SER A 16 UNP P63165 EXPRESSION TAG SEQADV 6UYU ALA A 52 UNP P63165 CYS 52 ENGINEERED MUTATION SEQADV 6UYU GLY B 1 UNP P29590 EXPRESSION TAG SEQADV 6UYU TYR B 29 UNP P29590 GLU 574 ENGINEERED MUTATION SEQADV 6UYU GLY C 15 UNP P63165 EXPRESSION TAG SEQADV 6UYU SER C 16 UNP P63165 EXPRESSION TAG SEQADV 6UYU ALA C 52 UNP P63165 CYS 52 ENGINEERED MUTATION SEQADV 6UYU GLY D 1 UNP P29590 EXPRESSION TAG SEQADV 6UYU TYR D 29 UNP P29590 GLU 574 ENGINEERED MUTATION SEQRES 1 A 83 GLY SER LYS GLU GLY GLU TYR ILE LYS LEU LYS VAL ILE SEQRES 2 A 83 GLY GLN ASP SER SER GLU ILE HIS PHE LYS VAL LYS MET SEQRES 3 A 83 THR THR HIS LEU ALY LYS LEU LYS GLU SER TYR ALA GLN SEQRES 4 A 83 ARG GLN GLY VAL PRO MET ASN SER LEU ARG PHE LEU PHE SEQRES 5 A 83 GLU GLY GLN ARG ILE ALA ASP ASN HIS THR PRO LYS GLU SEQRES 6 A 83 LEU GLY MET GLU GLU GLU ASP VAL ILE GLU VAL TYR GLN SEQRES 7 A 83 GLU GLN THR GLY GLY SEQRES 1 B 29 GLY SER GLY ALA GLY GLU ALA GLU GLU ARG VAL VAL VAL SEQRES 2 B 29 ILE SEP SEP SEP GLU ASP SEP ASP ALA GLU ASN SER SER SEQRES 3 B 29 SER ARG TYR SEQRES 1 C 83 GLY SER LYS GLU GLY GLU TYR ILE LYS LEU LYS VAL ILE SEQRES 2 C 83 GLY GLN ASP SER SER GLU ILE HIS PHE LYS VAL LYS MET SEQRES 3 C 83 THR THR HIS LEU ALY LYS LEU LYS GLU SER TYR ALA GLN SEQRES 4 C 83 ARG GLN GLY VAL PRO MET ASN SER LEU ARG PHE LEU PHE SEQRES 5 C 83 GLU GLY GLN ARG ILE ALA ASP ASN HIS THR PRO LYS GLU SEQRES 6 C 83 LEU GLY MET GLU GLU GLU ASP VAL ILE GLU VAL TYR GLN SEQRES 7 C 83 GLU GLN THR GLY GLY SEQRES 1 D 29 GLY SER GLY ALA GLY GLU ALA GLU GLU ARG VAL VAL VAL SEQRES 2 D 29 ILE SEP SEP SEP GLU ASP SEP ASP ALA GLU ASN SER SER SEQRES 3 D 29 SER ARG TYR MODRES 6UYU ALY A 45 LYS MODIFIED RESIDUE MODRES 6UYU SEP B 15 SER MODIFIED RESIDUE MODRES 6UYU SEP B 16 SER MODIFIED RESIDUE MODRES 6UYU ALY C 45 LYS MODIFIED RESIDUE MODRES 6UYU SEP D 15 SER MODIFIED RESIDUE MODRES 6UYU SEP D 16 SER MODIFIED RESIDUE HET ALY A 45 26 HET SEP B 15 13 HET SEP B 16 14 HET SEP B 17 14 HET ALY C 45 26 HET SEP D 15 14 HET SEP D 16 14 HET SEP D 17 14 HETNAM ALY N(6)-ACETYLLYSINE HETNAM SEP PHOSPHOSERINE HETSYN SEP PHOSPHONOSERINE FORMUL 1 ALY 2(C8 H16 N2 O3) FORMUL 2 SEP 6(C3 H8 N O6 P) FORMUL 5 HOH *206(H2 O) HELIX 1 AA1 LEU A 44 GLY A 56 1 13 HELIX 2 AA2 PRO A 58 ASN A 60 5 3 HELIX 3 AA3 THR A 76 GLY A 81 1 6 HELIX 4 AA4 LEU C 44 GLY C 56 1 13 HELIX 5 AA5 PRO C 58 ASN C 60 5 3 HELIX 6 AA6 THR C 76 GLY C 81 1 6 SHEET 1 AA1 6 GLN A 69 ARG A 70 0 SHEET 2 AA1 6 LEU A 62 PHE A 66 -1 N PHE A 66 O GLN A 69 SHEET 3 AA1 6 VAL A 87 GLN A 92 -1 O GLU A 89 N LEU A 65 SHEET 4 AA1 6 TYR A 21 ILE A 27 1 N LYS A 25 O ILE A 88 SHEET 5 AA1 6 GLU A 33 LYS A 39 -1 O VAL A 38 N ILE A 22 SHEET 6 AA1 6 VAL B 11 VAL B 13 1 O VAL B 12 N HIS A 35 SHEET 1 AA2 6 GLN C 69 ARG C 70 0 SHEET 2 AA2 6 LEU C 62 PHE C 66 -1 N PHE C 66 O GLN C 69 SHEET 3 AA2 6 VAL C 87 GLN C 92 -1 O GLU C 89 N LEU C 65 SHEET 4 AA2 6 TYR C 21 ILE C 27 1 N LYS C 25 O ILE C 88 SHEET 5 AA2 6 GLU C 33 LYS C 39 -1 O PHE C 36 N LEU C 24 SHEET 6 AA2 6 VAL D 11 VAL D 13 1 O VAL D 12 N HIS C 35 LINK C LEU A 44 N ALY A 45 1555 1555 1.33 LINK C ALY A 45 N LYS A 46 1555 1555 1.33 LINK C ILE B 14 N SEP B 15 1555 1555 1.32 LINK C SEP B 15 N SEP B 16 1555 1555 1.33 LINK C SEP B 16 N SEP B 17 1555 1555 1.43 LINK C LEU C 44 N ALY C 45 1555 1555 1.32 LINK C ALY C 45 N LYS C 46 1555 1555 1.34 LINK C ILE D 14 N SEP D 15 1555 1555 1.32 LINK C SEP D 15 N SEP D 16 1555 1555 1.33 LINK C SEP D 16 N SEP D 17 1555 1555 1.43 CRYST1 38.536 63.136 91.378 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 0.025950 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015839 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010944 0.00000 CONECT 427 453 CONECT 444 445 CONECT 445 444 446 447 CONECT 446 445 456 457 458 CONECT 447 445 448 459 CONECT 448 447 449 460 461 CONECT 449 448 450 462 463 CONECT 450 449 451 464 465 CONECT 451 450 452 466 467 CONECT 452 451 453 454 468 CONECT 453 427 452 469 CONECT 454 452 455 470 CONECT 455 454 CONECT 456 446 CONECT 457 446 CONECT 458 446 CONECT 459 447 CONECT 460 448 CONECT 461 448 CONECT 462 449 CONECT 463 449 CONECT 464 450 CONECT 465 450 CONECT 466 451 CONECT 467 451 CONECT 468 452 CONECT 469 453 CONECT 470 454 CONECT 1435 1452 CONECT 1452 1435 1453 CONECT 1453 1452 1454 1456 1462 CONECT 1454 1453 1455 1463 1464 CONECT 1455 1454 1458 CONECT 1456 1453 1457 1465 CONECT 1457 1456 CONECT 1458 1455 1459 1460 1461 CONECT 1459 1458 CONECT 1460 1458 CONECT 1461 1458 CONECT 1462 1453 CONECT 1463 1454 CONECT 1464 1454 CONECT 1465 1456 1466 1475 CONECT 1466 1465 1467 1469 1476 CONECT 1467 1466 1468 1477 1478 CONECT 1468 1467 1471 CONECT 1469 1466 1470 1479 CONECT 1470 1469 CONECT 1471 1468 1472 1473 1474 CONECT 1472 1471 CONECT 1473 1471 CONECT 1474 1471 CONECT 1475 1465 CONECT 1476 1466 CONECT 1477 1467 CONECT 1478 1467 CONECT 1479 1469 1480 1489 CONECT 1480 1479 1481 1483 1490 CONECT 1481 1480 1482 1491 1492 CONECT 1482 1481 1485 CONECT 1483 1480 1484 CONECT 1484 1483 CONECT 1485 1482 1486 1487 1488 CONECT 1486 1485 CONECT 1487 1485 CONECT 1488 1485 CONECT 1489 1479 CONECT 1490 1480 CONECT 1491 1481 CONECT 1492 1481 CONECT 1906 1932 CONECT 1923 1924 CONECT 1924 1923 1925 1926 CONECT 1925 1924 1935 1936 1937 CONECT 1926 1924 1927 1938 CONECT 1927 1926 1928 1939 1940 CONECT 1928 1927 1929 1941 1942 CONECT 1929 1928 1930 1943 1944 CONECT 1930 1929 1931 1945 1946 CONECT 1931 1930 1932 1933 1947 CONECT 1932 1906 1931 1948 CONECT 1933 1931 1934 1949 CONECT 1934 1933 CONECT 1935 1925 CONECT 1936 1925 CONECT 1937 1925 CONECT 1938 1926 CONECT 1939 1927 CONECT 1940 1927 CONECT 1941 1928 CONECT 1942 1928 CONECT 1943 1929 CONECT 1944 1929 CONECT 1945 1930 CONECT 1946 1930 CONECT 1947 1931 CONECT 1948 1932 CONECT 1949 1933 CONECT 2858 2875 CONECT 2875 2858 2876 2885 CONECT 2876 2875 2877 2879 2886 CONECT 2877 2876 2878 2887 2888 CONECT 2878 2877 2881 CONECT 2879 2876 2880 2889 CONECT 2880 2879 CONECT 2881 2878 2882 2883 2884 CONECT 2882 2881 CONECT 2883 2881 CONECT 2884 2881 CONECT 2885 2875 CONECT 2886 2876 CONECT 2887 2877 CONECT 2888 2877 CONECT 2889 2879 2890 2899 CONECT 2890 2889 2891 2893 2900 CONECT 2891 2890 2892 2901 2902 CONECT 2892 2891 2895 CONECT 2893 2890 2894 2903 CONECT 2894 2893 CONECT 2895 2892 2896 2897 2898 CONECT 2896 2895 CONECT 2897 2895 CONECT 2898 2895 CONECT 2899 2889 CONECT 2900 2890 CONECT 2901 2891 CONECT 2902 2891 CONECT 2903 2893 2904 2913 CONECT 2904 2903 2905 2907 2914 CONECT 2905 2904 2906 2915 2916 CONECT 2906 2905 2909 CONECT 2907 2904 2908 CONECT 2908 2907 CONECT 2909 2906 2910 2911 2912 CONECT 2910 2909 CONECT 2911 2909 CONECT 2912 2909 CONECT 2913 2903 CONECT 2914 2904 CONECT 2915 2905 CONECT 2916 2905 MASTER 429 0 8 6 12 0 0 6 1670 4 141 20 END