PDB Short entry for 4BOQ HEADER HYDROLASE 22-MAY-13 4BOQ TITLE STRUCTURE OF OTUD2 OTU DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN THIOESTERASE OTU1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 132-314; COMPND 5 SYNONYM: DUBA-8, HIV-1-INDUCED PROTEASE 7, HIN-7, HSHIN7, OTU COMPND 6 DOMAIN-CONTAINING PROTEIN 2, OTUD2; COMPND 7 EC: 3.4.19.12; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA PLACI KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR T.E.T.MEVISSEN,M.K.HOSPENTHAL,P.P.GEURINK,P.R.ELLIOTT,M.AKUTSU, AUTHOR 2 N.ARNAUDO,R.EKKEBUS,Y.KULATHU,T.WAUER,F.EL OUALID,S.M.V.FREUND, AUTHOR 3 H.OVAA,D.KOMANDER REVDAT 1 17-JUL-13 4BOQ 0 JRNL AUTH T.E.T.MEVISSEN,M.K.HOSPENTHAL,P.P.GEURINK,P.R.ELLIOTT, JRNL AUTH 2 M.AKUTSU,N.ARNAUDO,R.EKKEBUS,Y.KULATHU,T.WAUER,F.EL OUALID, JRNL AUTH 3 S.M.V.FREUND,H.OVAA,D.KOMANDER JRNL TITL OTU DEUBIQUITINASES REVEAL MECHANISMS OF LINKAGE JRNL TITL 2 SPECIFICITY AND ENABLE UBIQUITIN CHAIN RESTRICTION JRNL TITL 3 ANALYSIS. JRNL REF CELL(CAMBRIDGE,MASS.) V. 154 169 2013 JRNL REFN ISSN 0092-8674 JRNL PMID 23827681 JRNL DOI 10.1016/J.CELL.2013.05.046 REMARK 2 REMARK 2 RESOLUTION. 1.47 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT 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) : 1.470 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.727 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.35 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.05 REMARK 3 NUMBER OF REFLECTIONS : 30876 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.1721 REMARK 3 R VALUE (WORKING SET) : 0.1709 REMARK 3 FREE R VALUE : 0.1950 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 1554 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 28.7323 - 3.2680 0.87 2561 104 0.1678 0.1661 REMARK 3 2 3.2680 - 2.5944 0.95 2658 144 0.1530 0.1736 REMARK 3 3 2.5944 - 2.2666 0.96 2646 145 0.1582 0.1931 REMARK 3 4 2.2666 - 2.0595 0.97 2625 169 0.1563 0.1997 REMARK 3 5 2.0595 - 1.9119 0.97 2646 142 0.1522 0.1900 REMARK 3 6 1.9119 - 1.7992 0.98 2702 149 0.1613 0.1958 REMARK 3 7 1.7992 - 1.7091 0.99 2688 140 0.1698 0.2126 REMARK 3 8 1.7091 - 1.6347 1.00 2696 141 0.1871 0.2155 REMARK 3 9 1.6347 - 1.5718 1.00 2713 147 0.2325 0.2567 REMARK 3 10 1.5718 - 1.5175 1.00 2700 133 0.2719 0.2971 REMARK 3 11 1.5175 - 1.4701 0.99 2687 140 0.3124 0.3541 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.405 REMARK 3 B_SOL : 51.266 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.35 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.43 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.49 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.4328 REMARK 3 B22 (A**2) : 2.4328 REMARK 3 B33 (A**2) : -4.8656 REMARK 3 B12 (A**2) : 0.0000 REMARK 3 B13 (A**2) : 0.0000 REMARK 3 B23 (A**2) : 0.0000 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 : 0.020 1520 REMARK 3 ANGLE : 2.065 2084 REMARK 3 CHIRALITY : 0.147 236 REMARK 3 PLANARITY : 0.011 272 REMARK 3 DIHEDRAL : 12.830 580 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 135:169) REMARK 3 ORIGIN FOR THE GROUP (A): 4.8302 44.4455 23.2121 REMARK 3 T TENSOR REMARK 3 T11: 0.0956 T22: 0.0755 REMARK 3 T33: 0.1149 T12: 0.0056 REMARK 3 T13: -0.0078 T23: 0.0176 REMARK 3 L TENSOR REMARK 3 L11: 0.5235 L22: 0.7218 REMARK 3 L33: 3.7130 L12: 0.2346 REMARK 3 L13: -0.8411 L23: -0.0620 REMARK 3 S TENSOR REMARK 3 S11: 0.0428 S12: -0.0532 S13: -0.0996 REMARK 3 S21: 0.0531 S22: -0.1212 S23: -0.0704 REMARK 3 S31: 0.1606 S32: 0.0898 S33: 0.1124 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 170:191) REMARK 3 ORIGIN FOR THE GROUP (A): 4.7227 45.5018 -0.5157 REMARK 3 T TENSOR REMARK 3 T11: 0.2560 T22: 0.1517 REMARK 3 T33: 0.1490 T12: 0.0336 REMARK 3 T13: -0.0089 T23: -0.0326 REMARK 3 L TENSOR REMARK 3 L11: 0.6714 L22: 3.1287 REMARK 3 L33: 3.7510 L12: -0.7129 REMARK 3 L13: -0.4594 L23: -2.2324 REMARK 3 S TENSOR REMARK 3 S11: 0.0955 S12: 0.1843 S13: -0.0743 REMARK 3 S21: -0.5684 S22: -0.2476 S23: -0.0049 REMARK 3 S31: 0.3541 S32: -0.1041 S33: 0.0772 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 192:291) REMARK 3 ORIGIN FOR THE GROUP (A): 0.9786 53.4543 8.1367 REMARK 3 T TENSOR REMARK 3 T11: 0.1288 T22: 0.1048 REMARK 3 T33: 0.1225 T12: 0.0499 REMARK 3 T13: -0.0085 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 0.7802 L22: 1.8299 REMARK 3 L33: 2.7324 L12: -0.4332 REMARK 3 L13: -0.3183 L23: -0.1403 REMARK 3 S TENSOR REMARK 3 S11: 0.1100 S12: 0.1267 S13: 0.0665 REMARK 3 S21: -0.2190 S22: -0.0691 S23: 0.0342 REMARK 3 S31: -0.2230 S32: -0.2205 S33: -0.0297 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 292:309) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2708 56.3464 25.8232 REMARK 3 T TENSOR REMARK 3 T11: 0.2284 T22: 0.1620 REMARK 3 T33: 0.1700 T12: -0.0230 REMARK 3 T13: -0.0130 T23: -0.0071 REMARK 3 L TENSOR REMARK 3 L11: 3.6157 L22: 3.2700 REMARK 3 L33: 2.5837 L12: 3.0476 REMARK 3 L13: -2.8758 L23: -2.1367 REMARK 3 S TENSOR REMARK 3 S11: 0.1151 S12: -0.4186 S13: -0.0845 REMARK 3 S21: 0.2516 S22: -0.1918 S23: -0.3125 REMARK 3 S31: -0.3211 S32: 0.4243 S33: 0.0555 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 4BOQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-MAY-13. REMARK 100 THE PDBE ID CODE IS EBI-56958. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 287 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97920 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30915 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.47 REMARK 200 RESOLUTION RANGE LOW (A) : 33.32 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 4.2 REMARK 200 R MERGE (I) : 0.07 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.50 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.1 REMARK 200 R MERGE FOR SHELL (I) : 0.62 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.00 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: PDB ENTRY 3BY4 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.8M SODIUM PHOSPHATE MONOBASIC REMARK 280 MONOHYDRATE, 0.1 M TRIS PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 28.72667 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 57.45333 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 57.45333 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 28.72667 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: 5510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 105.08352 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 57.45333 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2047 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2060 LIES ON A SPECIAL POSITION. 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 ALA A 132 REMARK 465 PHE A 133 REMARK 465 THR A 134 REMARK 465 PHE A 310 REMARK 465 THR A 311 REMARK 465 ASP A 312 REMARK 465 VAL A 313 REMARK 465 ASN A 314 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 LYS A 135 CG CD CE NZ 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 ILE A 266 -51.02 -131.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ARG A 136 24.1 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1313 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4BOP RELATED DB: PDB REMARK 900 STRUCTURE OF OTUD1 OTU DOMAIN DBREF 4BOQ A 132 314 UNP Q5VVQ6 OTU1_HUMAN 132 314 SEQRES 1 A 183 ALA PHE THR LYS ARG GLY ALA SER SER TYR VAL ARG GLU SEQRES 2 A 183 THR LEU PRO VAL LEU THR ARG THR VAL VAL PRO ALA ASP SEQRES 3 A 183 ASN SER CYS LEU PHE THR SER VAL TYR TYR VAL VAL GLU SEQRES 4 A 183 GLY GLY VAL LEU ASN PRO ALA CYS ALA PRO GLU MET ARG SEQRES 5 A 183 ARG LEU ILE ALA GLN ILE VAL ALA SER ASP PRO ASP PHE SEQRES 6 A 183 TYR SER GLU ALA ILE LEU GLY LYS THR ASN GLN GLU TYR SEQRES 7 A 183 CYS ASP TRP ILE LYS ARG ASP ASP THR TRP GLY GLY ALA SEQRES 8 A 183 ILE GLU ILE SER ILE LEU SER LYS PHE TYR GLN CYS GLU SEQRES 9 A 183 ILE CYS VAL VAL ASP THR GLN THR VAL ARG ILE ASP ARG SEQRES 10 A 183 PHE GLY GLU ASP ALA GLY TYR THR LYS ARG VAL LEU LEU SEQRES 11 A 183 ILE TYR ASP GLY ILE HIS TYR ASP PRO LEU GLN ARG ASN SEQRES 12 A 183 PHE PRO ASP PRO ASP THR PRO PRO LEU THR ILE PHE SER SEQRES 13 A 183 SER ASN ASP ASP ILE VAL LEU VAL GLN ALA LEU GLU LEU SEQRES 14 A 183 ALA ASP GLU ALA ARG ARG ARG ARG GLN PHE THR ASP VAL SEQRES 15 A 183 ASN HET GOL A1310 6 HET GOL A1311 6 HET GOL A1312 6 HET GOL A1313 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 4(C3 H8 O3) FORMUL 3 HOH *130(H2 O) HELIX 1 1 GLY A 137 TYR A 141 5 5 HELIX 2 2 SER A 159 GLU A 170 1 12 HELIX 3 3 CYS A 178 ASP A 193 1 16 HELIX 4 4 SER A 198 GLY A 203 1 6 HELIX 5 5 THR A 205 LYS A 214 1 10 HELIX 6 6 GLY A 221 GLN A 233 1 13 HELIX 7 7 ASP A 291 GLN A 309 1 19 SHEET 1 AA 4 VAL A 148 ARG A 151 0 SHEET 2 AA 4 TYR A 268 ASN A 274 -1 O GLN A 272 N THR A 150 SHEET 3 AA 4 LYS A 257 TYR A 263 -1 O LEU A 260 N LEU A 271 SHEET 4 AA 4 PHE A 286 SER A 287 -1 O PHE A 286 N ARG A 258 SHEET 1 AB 5 VAL A 148 ARG A 151 0 SHEET 2 AB 5 TYR A 268 ASN A 274 -1 O GLN A 272 N THR A 150 SHEET 3 AB 5 LYS A 257 TYR A 263 -1 O LEU A 260 N LEU A 271 SHEET 4 AB 5 GLU A 235 ASP A 240 1 O GLU A 235 N VAL A 259 SHEET 5 AB 5 ARG A 245 PHE A 249 -1 O ARG A 245 N ASP A 240 SHEET 1 AC 2 PHE A 286 SER A 287 0 SHEET 2 AC 2 LYS A 257 TYR A 263 -1 O ARG A 258 N PHE A 286 SITE 1 AC1 7 GLU A 235 ARG A 248 GLY A 250 GLU A 251 SITE 2 AC1 7 GLY A 254 TYR A 255 SER A 288 SITE 1 AC2 7 ARG A 273 LEU A 283 PHE A 286 SER A 287 SITE 2 AC2 7 ASP A 290 HOH A2111 HOH A2129 SITE 1 AC3 8 PRO A 147 ALA A 177 ARG A 273 ILE A 292 SITE 2 AC3 8 HOH A2010 HOH A2111 HOH A2121 HOH A2130 SITE 1 AC4 7 LYS A 135 TRP A 212 GLY A 221 ALA A 222 SITE 2 AC4 7 ILE A 223 GLU A 224 HOH A2062 CRYST1 60.670 60.670 86.180 90.00 90.00 120.00 P 31 2 1 6 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 0.016483 0.009516 0.000000 0.00000 SCALE2 0.000000 0.019032 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011604 0.00000