HEADER HYDROLASE 04-SEP-24 9GNX TITLE HUMAN SENP5 IN COMPLEX WITH SUMO1 (E67D) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SENTRIN-SPECIFIC PROTEASE 5; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SENTRIN/SUMO-SPECIFIC PROTEASE SENP5; COMPND 5 EC: 3.4.22.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: SMALL UBIQUITIN-RELATED MODIFIER 1; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: SUMO-1,GAP-MODIFYING PROTEIN 1,GMP1,SMT3 HOMOLOG 3,SENTRIN, COMPND 11 UBIQUITIN-HOMOLOGY DOMAIN PROTEIN PIC1,UBIQUITIN-LIKE PROTEIN SMT3C, COMPND 12 SMT3C,UBIQUITIN-LIKE PROTEIN UBL1; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SENP5, FKSG45; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS SENP, ULP, SUMO, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.REVERTER,L.SANCHEZ-ALBA,M.MALETIC,M.MULDER REVDAT 1 16-JUL-25 9GNX 0 JRNL AUTH L.SANCHEZ-ALBA,L.YING,M.D.MALETIC,A.DE BOLOS,H.BORRAS-GAS, JRNL AUTH 2 B.LIU,N.VAREJAO,V.AMADOR,M.P.C.MULDER,D.REVERTER JRNL TITL STRUCTURAL BASIS FOR THE HUMAN SENP5'S SUMO ISOFORM JRNL TITL 2 DISCRIMINATION. JRNL REF NAT COMMUN V. 16 4764 2025 JRNL REFN ESSN 2041-1723 JRNL PMID 40404649 JRNL DOI 10.1038/S41467-025-60029-4 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.17.1_3660: ???) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 69.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 27515 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.730 REMARK 3 FREE R VALUE TEST SET COUNT : 1576 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 69.5600 - 4.2300 1.00 2769 169 0.1709 0.2018 REMARK 3 2 4.2200 - 3.3500 1.00 2595 159 0.1764 0.2307 REMARK 3 3 3.3500 - 2.9300 1.00 2557 157 0.2319 0.2782 REMARK 3 4 2.9300 - 2.6600 1.00 2526 154 0.2400 0.3310 REMARK 3 5 2.6600 - 2.4700 1.00 2531 155 0.2452 0.2977 REMARK 3 6 2.4700 - 2.3300 1.00 2483 151 0.2459 0.3127 REMARK 3 7 2.3300 - 2.2100 1.00 2494 153 0.2732 0.3169 REMARK 3 8 2.2100 - 2.1100 1.00 2489 152 0.3133 0.3744 REMARK 3 9 2.1100 - 2.0300 0.99 2448 150 0.3842 0.4244 REMARK 3 10 2.0300 - 1.9600 0.87 2159 124 0.4450 0.4947 REMARK 3 11 1.9600 - 1.9000 0.36 888 52 0.5176 0.5910 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 36.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.012 2244 REMARK 3 ANGLE : 1.480 3018 REMARK 3 CHIRALITY : 0.076 326 REMARK 3 PLANARITY : 0.010 385 REMARK 3 DIHEDRAL : 6.505 287 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 4.1896 -25.9617 -4.2817 REMARK 3 T TENSOR REMARK 3 T11: 0.2944 T22: 0.3661 REMARK 3 T33: 0.4204 T12: 0.0119 REMARK 3 T13: 0.0691 T23: -0.0412 REMARK 3 L TENSOR REMARK 3 L11: 2.4292 L22: 2.9477 REMARK 3 L33: 1.5345 L12: 0.9207 REMARK 3 L13: -0.0446 L23: -0.3962 REMARK 3 S TENSOR REMARK 3 S11: -0.0744 S12: 0.2728 S13: -0.1281 REMARK 3 S21: -0.0855 S22: 0.1271 S23: 0.1180 REMARK 3 S31: 0.0358 S32: -0.0080 S33: -0.0457 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 9GNX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1292141520. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUL-24 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 : 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) : 0.9791 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34776 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 69.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.8 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.77 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M LISO4, 8% PEG2000, 8% PEG500MME, REMARK 280 0.1 M NAACETATE PH 5.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 101.25333 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 50.62667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 75.94000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 25.31333 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 126.56667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 101.25333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 50.62667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 25.31333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 75.94000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 126.56667 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: 1800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 1.0 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 HIS A 549 REMARK 465 HIS A 550 REMARK 465 HIS A 551 REMARK 465 HIS A 552 REMARK 465 HIS A 553 REMARK 465 HIS A 554 REMARK 465 SER A 555 REMARK 465 SER A 556 REMARK 465 GLY A 557 REMARK 465 LEU A 558 REMARK 465 VAL A 559 REMARK 465 PRO A 560 REMARK 465 ARG A 561 REMARK 465 GLY A 562 REMARK 465 SER A 563 REMARK 465 HIS A 564 REMARK 465 MET A 565 REMARK 465 ALA A 566 REMARK 465 SER A 567 REMARK 465 ASP A 755 REMARK 465 MET B 18 REMARK 465 GLY B 19 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 SG CYS A 713 C2 AYE B 97 2.00 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 OE2 GLU A 644 NH1 ARG A 743 5555 1.81 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 CYS A 672 CB CYS A 672 SG -0.130 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 LEU A 654 CA - CB - CG ANGL. DEV. = -14.3 DEGREES REMARK 500 CYS A 703 C - N - CA ANGL. DEV. = -18.0 DEGREES REMARK 500 CYS A 703 O - C - N ANGL. DEV. = -23.7 DEGREES REMARK 500 CYS B 52 CB - CA - C ANGL. DEV. = -12.0 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 ALA A 699 121.26 -175.12 REMARK 500 CYS A 703 17.27 84.62 REMARK 500 ASP B 30 1.30 -69.01 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 CYS A 703 23.96 REMARK 500 CYS A 713 10.06 REMARK 500 REMARK 500 REMARK: NULL DBREF 9GNX A 568 755 UNP Q96HI0 SENP5_HUMAN 568 755 DBREF 9GNX B 19 96 UNP P63165 SUMO1_HUMAN 19 96 SEQADV 9GNX HIS A 549 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX HIS A 550 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX HIS A 551 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX HIS A 552 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX HIS A 553 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX HIS A 554 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX SER A 555 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX SER A 556 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX GLY A 557 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX LEU A 558 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX VAL A 559 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX PRO A 560 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX ARG A 561 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX GLY A 562 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX SER A 563 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX HIS A 564 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX MET A 565 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX ALA A 566 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX SER A 567 UNP Q96HI0 EXPRESSION TAG SEQADV 9GNX MET B 18 UNP P63165 INITIATING METHIONINE SEQADV 9GNX ASP B 67 UNP P63165 GLU 67 ENGINEERED MUTATION SEQADV 9GNX AYE B 97 UNP P63165 EXPRESSION TAG SEQRES 1 A 207 HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL PRO ARG SEQRES 2 A 207 GLY SER HIS MET ALA SER MET LEU ASP MET ASP ASP LEU SEQRES 3 A 207 ALA THR LEU ASP GLY GLN ASN TRP LEU ASN ASP GLN VAL SEQRES 4 A 207 ILE ASN MET TYR GLY GLU LEU ILE MET ASP ALA VAL PRO SEQRES 5 A 207 ASP LYS VAL HIS PHE PHE ASN SER PHE PHE HIS ARG GLN SEQRES 6 A 207 LEU VAL THR LYS GLY TYR ASN GLY VAL LYS ARG TRP THR SEQRES 7 A 207 LYS LYS VAL ASP LEU PHE LYS LYS SER LEU LEU LEU ILE SEQRES 8 A 207 PRO ILE HIS LEU GLU VAL HIS TRP SER LEU ILE THR VAL SEQRES 9 A 207 THR LEU SER ASN ARG ILE ILE SER PHE TYR ASP SER GLN SEQRES 10 A 207 GLY ILE HIS PHE LYS PHE CYS VAL GLU ASN ILE ARG LYS SEQRES 11 A 207 TYR LEU LEU THR GLU ALA ARG GLU LYS ASN ARG PRO GLU SEQRES 12 A 207 PHE LEU GLN GLY TRP GLN THR ALA VAL THR LYS CYS ILE SEQRES 13 A 207 PRO GLN GLN LYS ASN ASP SER ASP CYS GLY VAL PHE VAL SEQRES 14 A 207 LEU GLN TYR CYS LYS CYS LEU ALA LEU GLU GLN PRO PHE SEQRES 15 A 207 GLN PHE SER GLN GLU ASP MET PRO ARG VAL ARG LYS ARG SEQRES 16 A 207 ILE TYR LYS GLU LEU CYS GLU CYS ARG LEU MET ASP SEQRES 1 B 80 MET GLY GLU TYR ILE LYS LEU LYS VAL ILE GLY GLN ASP SEQRES 2 B 80 SER SER GLU ILE HIS PHE LYS VAL LYS MET THR THR HIS SEQRES 3 B 80 LEU LYS LYS LEU LYS GLU SER TYR CYS GLN ARG GLN GLY SEQRES 4 B 80 VAL PRO MET ASN SER LEU ARG PHE LEU PHE ASP GLY GLN SEQRES 5 B 80 ARG ILE ALA ASP ASN HIS THR PRO LYS GLU LEU GLY MET SEQRES 6 B 80 GLU GLU GLU ASP VAL ILE GLU VAL TYR GLN GLU GLN THR SEQRES 7 B 80 GLY AYE HET AYE B 97 4 HETNAM AYE PROP-2-EN-1-AMINE HETSYN AYE ALLYLAMINE FORMUL 2 AYE C3 H7 N FORMUL 3 HOH *33(H2 O) HELIX 1 AA1 ASP A 570 ALA A 575 1 6 HELIX 2 AA2 THR A 576 ASP A 578 5 3 HELIX 3 AA3 ASP A 585 VAL A 599 1 15 HELIX 4 AA4 PHE A 609 GLY A 618 1 10 HELIX 5 AA5 GLY A 618 LYS A 623 1 6 HELIX 6 AA6 ARG A 624 LYS A 627 5 4 HELIX 7 AA7 ASP A 630 LYS A 634 5 5 HELIX 8 AA8 LYS A 670 LYS A 687 1 18 HELIX 9 AA9 ARG A 689 LEU A 693 5 5 HELIX 10 AB1 ASP A 712 LEU A 726 1 15 HELIX 11 AB2 SER A 733 GLU A 735 5 3 HELIX 12 AB3 ASP A 736 CYS A 751 1 16 HELIX 13 AB4 LEU B 44 GLY B 56 1 13 HELIX 14 AB5 PRO B 58 ASN B 60 5 3 SHEET 1 AA1 2 LEU A 583 ASN A 584 0 SHEET 2 AA1 2 THR B 95 GLY B 96 -1 O GLY B 96 N LEU A 583 SHEET 1 AA2 5 VAL A 603 PHE A 605 0 SHEET 2 AA2 5 LEU A 636 LEU A 643 1 O LEU A 638 N HIS A 604 SHEET 3 AA2 5 HIS A 646 THR A 653 -1 O SER A 648 N ILE A 641 SHEET 4 AA2 5 ILE A 658 TYR A 662 -1 O TYR A 662 N LEU A 649 SHEET 5 AA2 5 GLN A 697 VAL A 700 1 O GLN A 697 N ILE A 659 SHEET 1 AA3 5 GLU B 33 LYS B 39 0 SHEET 2 AA3 5 TYR B 21 ILE B 27 -1 N LEU B 24 O PHE B 36 SHEET 3 AA3 5 ASP B 86 GLN B 92 1 O ILE B 88 N LYS B 25 SHEET 4 AA3 5 LEU B 62 PHE B 66 -1 N LEU B 65 O GLU B 89 SHEET 5 AA3 5 GLN B 69 ARG B 70 -1 O GLN B 69 N PHE B 66 LINK C GLY B 96 N1 AYE B 97 1555 1555 1.53 CRYST1 90.350 90.350 151.880 90.00 90.00 120.00 P 65 2 2 12 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 0.011068 0.006390 0.000000 0.00000 SCALE2 0.000000 0.012780 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006584 0.00000 CONECT 2194 2199 CONECT 2196 2197 2198 CONECT 2197 2196 CONECT 2198 2196 2199 CONECT 2199 2194 2198 MASTER 384 0 1 14 12 0 0 6 2225 2 5 23 END