HEADER NUCLEAR PROTEIN/PROTEIN BINDING 14-NOV-19 6UYS TITLE CRYSTAL STRUCTURE OF K37-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 ENGINEERED: YES; COMPND 13 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 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: PML, MYL, PP8675, RNF71, TRIM19; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID 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 6 15-NOV-23 6UYS 1 ATOM REVDAT 5 25-OCT-23 6UYS 1 REMARK REVDAT 4 22-FEB-23 6UYS 1 COMPND SOURCE REMARK DBREF REVDAT 4 2 1 SEQADV LINK SITE ATOM REVDAT 3 19-FEB-20 6UYS 1 JRNL REVDAT 2 08-JAN-20 6UYS 1 JRNL REVDAT 1 27-NOV-19 6UYS 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. 1.59 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) : 1.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.96 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 29500 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.202 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.830 REMARK 3 FREE R VALUE TEST SET COUNT : 2014 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 33.9630 - 3.8257 1.00 2128 159 0.1778 0.1888 REMARK 3 2 3.8257 - 3.0372 1.00 2040 146 0.1610 0.1837 REMARK 3 3 3.0372 - 2.6534 1.00 2011 149 0.1752 0.2191 REMARK 3 4 2.6534 - 2.4109 1.00 1956 145 0.1574 0.1921 REMARK 3 5 2.4109 - 2.2381 0.99 1961 146 0.1549 0.1765 REMARK 3 6 2.2381 - 2.1062 0.99 1970 138 0.1562 0.1958 REMARK 3 7 2.1062 - 2.0007 0.99 1918 141 0.1630 0.2027 REMARK 3 8 2.0007 - 1.9136 1.00 1957 139 0.1667 0.2158 REMARK 3 9 1.9136 - 1.8400 1.00 1947 143 0.1754 0.2040 REMARK 3 10 1.8400 - 1.7765 1.00 1955 143 0.1902 0.2494 REMARK 3 11 1.7765 - 1.7209 1.00 1943 142 0.1983 0.2396 REMARK 3 12 1.7209 - 1.6717 0.99 1907 142 0.2330 0.2437 REMARK 3 13 1.6717 - 1.6277 1.00 1941 146 0.2517 0.2944 REMARK 3 14 1.6277 - 1.5880 0.96 1852 135 0.2685 0.3078 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.750 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.45 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): 3.6114 11.6757 28.8685 REMARK 3 T TENSOR REMARK 3 T11: 0.1656 T22: 0.1548 REMARK 3 T33: 0.1630 T12: -0.0050 REMARK 3 T13: 0.0438 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 1.4239 L22: 2.5646 REMARK 3 L33: 2.6374 L12: -0.0366 REMARK 3 L13: -0.8525 L23: -0.0685 REMARK 3 S TENSOR REMARK 3 S11: -0.0557 S12: 0.0224 S13: -0.0109 REMARK 3 S21: -0.0002 S22: -0.0005 S23: -0.0393 REMARK 3 S31: 0.1433 S32: 0.0003 S33: 0.0001 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -1.8923 21.5750 27.0996 REMARK 3 T TENSOR REMARK 3 T11: 0.3238 T22: 0.2252 REMARK 3 T33: 0.2838 T12: 0.0110 REMARK 3 T13: 0.0590 T23: 0.0101 REMARK 3 L TENSOR REMARK 3 L11: 0.8622 L22: 0.7777 REMARK 3 L33: 0.6052 L12: -0.3818 REMARK 3 L13: 0.2444 L23: 0.3914 REMARK 3 S TENSOR REMARK 3 S11: 0.3454 S12: 0.1322 S13: 0.4623 REMARK 3 S21: -0.0078 S22: 0.0610 S23: 0.2330 REMARK 3 S31: -0.3156 S32: -0.2421 S33: 0.0075 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): 12.3951 23.0852 5.5382 REMARK 3 T TENSOR REMARK 3 T11: 0.1481 T22: 0.1693 REMARK 3 T33: 0.1493 T12: -0.0006 REMARK 3 T13: 0.0097 T23: 0.0100 REMARK 3 L TENSOR REMARK 3 L11: 2.5671 L22: 1.9989 REMARK 3 L33: 2.7472 L12: 0.9000 REMARK 3 L13: -0.5798 L23: -1.0273 REMARK 3 S TENSOR REMARK 3 S11: -0.0587 S12: 0.0039 S13: 0.0477 REMARK 3 S21: 0.0187 S22: -0.0203 S23: -0.0085 REMARK 3 S31: 0.1909 S32: 0.0245 S33: -0.0015 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): 21.4066 20.2497 0.0483 REMARK 3 T TENSOR REMARK 3 T11: 0.3078 T22: 0.2971 REMARK 3 T33: 0.3838 T12: 0.0310 REMARK 3 T13: 0.0226 T23: 0.0511 REMARK 3 L TENSOR REMARK 3 L11: 1.0924 L22: 0.5422 REMARK 3 L33: 0.4086 L12: 0.1548 REMARK 3 L13: -0.2644 L23: 0.3071 REMARK 3 S TENSOR REMARK 3 S11: -0.1329 S12: 0.2246 S13: 0.0109 REMARK 3 S21: 0.1253 S22: -0.4495 S23: -0.5845 REMARK 3 S31: 0.1600 S32: 0.6845 S33: 0.0025 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 6UYS 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_1000244132. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAR-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 : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97680 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29508 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.588 REMARK 200 RESOLUTION RANGE LOW (A) : 33.963 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.7800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.65 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 (%): 40.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 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 19.14700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.03050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.25650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.03050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.14700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 19.25650 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: 1180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 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: 1150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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 A 19 REMARK 465 THR A 95 REMARK 465 GLY A 96 REMARK 465 GLY A 97 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 6 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 O HOH A 158 O HOH A 167 1.91 REMARK 500 O HOH A 156 O HOH A 175 1.94 REMARK 500 OE2 GLU C 93 O HOH C 101 1.97 REMARK 500 O HOH A 157 O HOH A 159 2.01 REMARK 500 O1P SEP B 15 O HOH B 101 2.04 REMARK 500 OE2 GLU C 20 O HOH C 102 2.06 REMARK 500 O HOH A 108 O HOH A 169 2.10 REMARK 500 O HOH B 111 O HOH B 115 2.10 REMARK 500 O HOH A 144 O HOH A 169 2.11 REMARK 500 O1P SEP B 17 O HOH B 102 2.12 REMARK 500 O HOH A 157 O HOH A 182 2.17 REMARK 500 O HOH A 157 O HOH C 105 2.18 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 C 104 O HOH C 106 4455 2.01 REMARK 500 O HOH B 102 O HOH D 201 4465 2.09 REMARK 500 O HOH C 106 O HOH C 118 4555 2.15 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 D 16 CA - C - N ANGL. DEV. = -25.7 DEGREES REMARK 500 SEP D 16 O - C - N ANGL. DEV. = 24.8 DEGREES 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 SEP D 16 SEP D 17 -145.61 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 6UYS A 17 97 UNP P63165 SUMO1_HUMAN 17 97 DBREF 6UYS B 1 29 PDB 6UYS 6UYS 1 29 DBREF 6UYS C 17 97 UNP P63165 SUMO1_HUMAN 17 97 DBREF 6UYS D 1 29 PDB 6UYS 6UYS 1 29 SEQADV 6UYS GLY A 15 UNP P63165 EXPRESSION TAG SEQADV 6UYS SER A 16 UNP P63165 EXPRESSION TAG SEQADV 6UYS ALA A 52 UNP P63165 CYS 52 ENGINEERED MUTATION SEQADV 6UYS GLY C 15 UNP P63165 EXPRESSION TAG SEQADV 6UYS SER C 16 UNP P63165 EXPRESSION TAG SEQADV 6UYS ALA C 52 UNP P63165 CYS 52 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 ALY VAL LYS MET SEQRES 3 A 83 THR THR HIS LEU LYS 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 ALY VAL LYS MET SEQRES 3 C 83 THR THR HIS LEU LYS 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 6UYS ALY A 37 LYS MODIFIED RESIDUE MODRES 6UYS ALY C 37 LYS MODIFIED RESIDUE HET ALY A 37 25 HET SEP B 15 14 HET SEP B 16 14 HET SEP B 17 13 HET ALY C 37 26 HET SEP D 15 14 HET SEP D 16 14 HET SEP D 17 13 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 *198(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 ILE A 27 O ILE A 88 SHEET 5 AA1 6 GLU A 33 LYS A 39 -1 O PHE A 36 N LEU A 24 SHEET 6 AA1 6 VAL B 11 VAL B 13 1 O VAL B 12 N ALY A 37 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 PHE A 36 N ALY A 37 1555 1555 1.32 LINK C ALY A 37 N VAL A 38 1555 1555 1.34 LINK C ILE B 14 N SEP B 15 1555 1555 1.34 LINK C SEP B 15 N SEP B 16 1555 1555 1.32 LINK C SEP B 16 N SEP B 17 1555 1555 1.33 LINK C SEP B 17 N GLU B 18 1555 1555 1.32 LINK C PHE C 36 N ALY C 37 1555 1555 1.33 LINK C ALY C 37 N VAL C 38 1555 1555 1.35 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 38.294 38.513 144.061 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 0.026114 0.000000 0.000000 0.00000 SCALE2 0.000000 0.025965 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006942 0.00000