HEADER HYDROLASE/SIGNALING PROTEIN 20-FEB-13 3ZO5 TITLE STRUCTURE OF SENP2-LOOP1 IN COMPLEX WITH PRESUMO-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SENTRIN-SPECIFIC PROTEASE 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 363-589; COMPND 5 SYNONYM: AXAM2, SMT3-SPECIFIC ISOPEPTIDASE 2, SMT3IP2, SENTRIN/SUMO- COMPND 6 SPECIFIC PROTEASE SENP2, SENP2 PROTEASE; COMPND 7 EC: 3.4.22.68; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 OTHER_DETAILS: INSERTION OF PPPPAKGG INSTEAD OF F393 AND K394 FROM COMPND 11 THE SENP2 NUMBERING; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: SMALL UBIQUITIN-RELATED MODIFIER 2; COMPND 14 CHAIN: B; COMPND 15 FRAGMENT: RESIDUES 16-95; COMPND 16 SYNONYM: SUMO-2, HSMT3, SMT3 HOMOLOG 2, SUMO-3, SENTRIN-2, UBIQUITIN- COMPND 17 LIKE PROTEIN SMT3A, SMT3A; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET28B; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_VECTOR: PET28B KEYWDS HYDROLASE-SIGNALING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.O.ALEGRE,D.REVERTER REVDAT 4 20-DEC-23 3ZO5 1 REMARK REVDAT 3 02-APR-14 3ZO5 1 JRNL REVDAT 2 05-MAR-14 3ZO5 1 JRNL REVDAT 1 29-JAN-14 3ZO5 0 JRNL AUTH K.O.ALEGRE,D.REVERTER JRNL TITL STRUCTURAL INSIGHTS INTO THE SENP6 LOOP1 STRUCTURE IN JRNL TITL 2 COMPLEX WITH SUMO2. JRNL REF PROTEIN SCI. V. 23 433 2014 JRNL REFN ISSN 0961-8368 JRNL PMID 24424631 JRNL DOI 10.1002/PRO.2425 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 80.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 22034 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1193 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.20 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1527 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.53 REMARK 3 BIN R VALUE (WORKING SET) : 0.3210 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.4680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2550 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 45 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.24000 REMARK 3 B22 (A**2) : -0.24000 REMARK 3 B33 (A**2) : 0.37000 REMARK 3 B12 (A**2) : -0.12000 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): 0.194 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.177 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.130 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.509 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2609 ; 0.020 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3518 ; 2.337 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 309 ; 7.772 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 128 ;37.760 ;24.453 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 492 ;21.563 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;17.749 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 376 ; 0.171 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1963 ; 0.012 ; 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): 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. INSERTION OF PPPPAKGG INSTEAD OF F393 AND K394 FROM REMARK 3 THE SENP2 NUMBERING REMARK 4 REMARK 4 3ZO5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1290055899. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979494 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 : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23228 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 48.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.77000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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 2IO0 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 72.75900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.00743 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 34.89033 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 72.75900 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 42.00743 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 34.89033 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 72.75900 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 42.00743 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 34.89033 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 72.75900 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 42.00743 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 34.89033 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 72.75900 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 42.00743 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 34.89033 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 72.75900 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 42.00743 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 34.89033 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 84.01486 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 69.78067 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 84.01486 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 69.78067 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 84.01486 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 69.78067 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 84.01486 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 69.78067 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 84.01486 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 69.78067 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 84.01486 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 69.78067 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: 2300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.2 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 358 REMARK 465 SER A 359 REMARK 465 HIS A 360 REMARK 465 MET A 361 REMARK 465 ALA A 362 REMARK 465 ASP A 363 REMARK 465 ASP A 364 REMARK 465 LEU A 365 REMARK 465 MET B 13 REMARK 465 ALA B 14 REMARK 465 ASN B 15 REMARK 465 GLU B 97 REMARK 465 HIS B 98 REMARK 465 HIS B 99 REMARK 465 HIS B 100 REMARK 465 HIS B 101 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 OE1 GLN A 547 N ASN A 550 2.11 REMARK 500 REMARK 500 REMARK: NULL 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 HIS A 415 CG HIS A 415 CD2 0.086 REMARK 500 ASN A 427 CB ASN A 427 CG -0.148 REMARK 500 TRP A 463 CE2 TRP A 463 CD2 0.078 REMARK 500 SER A 539 CB SER A 539 OG 0.082 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 ASN A 550 N - CA - C ANGL. DEV. = 16.3 DEGREES REMARK 500 ARG A 567 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 567 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG B 61 NE - CZ - NH1 ANGL. DEV. = -3.6 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 TYR A 414 -9.97 68.19 REMARK 500 ASN A 527 28.12 48.00 REMARK 500 ILE A 545 21.43 103.88 REMARK 500 ASP B 26 16.49 -68.55 REMARK 500 GLU B 81 -9.75 83.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 405 0.23 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 INSERTION OF PPPPAKGG INSTEAD OF F393 AND K394 FROM THE REMARK 999 SENP2 NUMBERING DBREF 3ZO5 A 363 392 UNP Q9HC62 SENP2_HUMAN 363 392 DBREF 3ZO5 A 401 595 UNP Q9HC62 SENP2_HUMAN 395 589 DBREF 3ZO5 B 16 95 UNP P61956 SUMO2_HUMAN 16 95 SEQADV 3ZO5 GLY A 358 UNP Q9HC62 EXPRESSION TAG SEQADV 3ZO5 SER A 359 UNP Q9HC62 EXPRESSION TAG SEQADV 3ZO5 HIS A 360 UNP Q9HC62 EXPRESSION TAG SEQADV 3ZO5 MET A 361 UNP Q9HC62 EXPRESSION TAG SEQADV 3ZO5 ALA A 362 UNP Q9HC62 EXPRESSION TAG SEQADV 3ZO5 PRO A 393 UNP Q9HC62 INSERTION SEQADV 3ZO5 PRO A 394 UNP Q9HC62 INSERTION SEQADV 3ZO5 PRO A 395 UNP Q9HC62 INSERTION SEQADV 3ZO5 PRO A 396 UNP Q9HC62 INSERTION SEQADV 3ZO5 ALA A 397 UNP Q9HC62 INSERTION SEQADV 3ZO5 LYS A 398 UNP Q9HC62 INSERTION SEQADV 3ZO5 GLY A 399 UNP Q9HC62 INSERTION SEQADV 3ZO5 GLY A 400 UNP Q9HC62 INSERTION SEQADV 3ZO5 SER A 554 UNP Q9HC62 CYS 548 ENGINEERED MUTATION SEQADV 3ZO5 MET B 13 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 ALA B 14 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 ASN B 15 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 LEU B 96 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 GLU B 97 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 HIS B 98 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 HIS B 99 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 HIS B 100 UNP P61956 EXPRESSION TAG SEQADV 3ZO5 HIS B 101 UNP P61956 EXPRESSION TAG SEQRES 1 A 238 GLY SER HIS MET ALA ASP ASP LEU LEU GLU LEU THR GLU SEQRES 2 A 238 ASP MET GLU LYS GLU ILE SER ASN ALA LEU GLY HIS GLY SEQRES 3 A 238 PRO GLN ASP GLU ILE LEU SER SER ALA PRO PRO PRO PRO SEQRES 4 A 238 ALA LYS GLY GLY LEU ARG ILE THR ARG GLY ASP ILE GLN SEQRES 5 A 238 THR LEU LYS ASN TYR HIS TRP LEU ASN ASP GLU VAL ILE SEQRES 6 A 238 ASN PHE TYR MET ASN LEU LEU VAL GLU ARG ASN LYS LYS SEQRES 7 A 238 GLN GLY TYR PRO ALA LEU HIS VAL PHE SER THR PHE PHE SEQRES 8 A 238 TYR PRO LYS LEU LYS SER GLY GLY TYR GLN ALA VAL LYS SEQRES 9 A 238 ARG TRP THR LYS GLY VAL ASN LEU PHE GLU GLN GLU ILE SEQRES 10 A 238 ILE LEU VAL PRO ILE HIS ARG LYS VAL HIS TRP SER LEU SEQRES 11 A 238 VAL VAL ILE ASP LEU ARG LYS LYS CYS LEU LYS TYR LEU SEQRES 12 A 238 ASP SER MET GLY GLN LYS GLY HIS ARG ILE CYS GLU ILE SEQRES 13 A 238 LEU LEU GLN TYR LEU GLN ASP GLU SER LYS THR LYS ARG SEQRES 14 A 238 ASN SER ASP LEU ASN LEU LEU GLU TRP THR HIS HIS SER SEQRES 15 A 238 MET LYS PRO HIS GLU ILE PRO GLN GLN LEU ASN GLY SER SEQRES 16 A 238 ASP SER GLY MET PHE THR CYS LYS TYR ALA ASP TYR ILE SEQRES 17 A 238 SER ARG ASP LYS PRO ILE THR PHE THR GLN HIS GLN MET SEQRES 18 A 238 PRO LEU PHE ARG LYS LYS MET VAL TRP GLU ILE LEU HIS SEQRES 19 A 238 GLN GLN LEU LEU SEQRES 1 B 89 MET ALA ASN ASP HIS ILE ASN LEU LYS VAL ALA GLY GLN SEQRES 2 B 89 ASP GLY SER VAL VAL GLN PHE LYS ILE LYS ARG HIS THR SEQRES 3 B 89 PRO LEU SER LYS LEU MET LYS ALA TYR CYS GLU ARG GLN SEQRES 4 B 89 GLY LEU SER MET ARG GLN ILE ARG PHE ARG PHE ASP GLY SEQRES 5 B 89 GLN PRO ILE ASN GLU THR ASP THR PRO ALA GLN LEU GLU SEQRES 6 B 89 MET GLU ASP GLU ASP THR ILE ASP VAL PHE GLN GLN GLN SEQRES 7 B 89 THR GLY GLY VAL TYR LEU GLU HIS HIS HIS HIS FORMUL 3 HOH *45(H2 O) HELIX 1 1 THR A 369 GLY A 381 1 13 HELIX 2 2 ARG A 405 GLN A 409 1 5 HELIX 3 3 THR A 410 LYS A 412 5 3 HELIX 4 4 ASN A 418 GLY A 437 1 20 HELIX 5 5 PHE A 447 LYS A 461 1 15 HELIX 6 6 ARG A 462 LYS A 465 5 4 HELIX 7 7 ASN A 468 GLN A 472 5 5 HELIX 8 8 GLY A 507 ASN A 527 1 21 HELIX 9 9 ASP A 553 ARG A 567 1 15 HELIX 10 10 THR A 574 HIS A 576 5 3 HELIX 11 11 GLN A 577 GLN A 592 1 16 HELIX 12 12 PRO B 39 GLY B 52 1 14 HELIX 13 13 SER B 54 ARG B 56 5 3 SHEET 1 AA 2 ILE A 388 ALA A 392 0 SHEET 2 AA 2 LEU A 401 THR A 404 -1 O LEU A 401 N ALA A 392 SHEET 1 AB 5 LEU A 441 VAL A 443 0 SHEET 2 AB 5 ILE A 474 HIS A 480 1 O ILE A 474 N HIS A 442 SHEET 3 AB 5 TRP A 485 ASP A 491 -1 O SER A 486 N ILE A 479 SHEET 4 AB 5 CYS A 496 LEU A 500 -1 O CYS A 496 N ASP A 491 SHEET 5 AB 5 THR A 536 SER A 539 1 O THR A 536 N LEU A 497 SHEET 1 BA 5 VAL B 29 LYS B 35 0 SHEET 2 BA 5 HIS B 17 ALA B 23 -1 O ILE B 18 N ILE B 34 SHEET 3 BA 5 ASP B 82 GLN B 88 1 O ASP B 82 N LYS B 21 SHEET 4 BA 5 ILE B 58 PHE B 62 -1 O ARG B 59 N PHE B 87 SHEET 5 BA 5 GLN B 65 PRO B 66 -1 O GLN B 65 N PHE B 62 CISPEP 1 ALA A 392 PRO A 393 0 -14.15 CISPEP 2 PRO A 395 PRO A 396 0 -13.74 CISPEP 3 GLY A 399 GLY A 400 0 25.35 CRYST1 145.518 145.518 104.671 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 0.006872 0.003968 0.000000 0.00000 SCALE2 0.000000 0.007935 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009554 0.00000