HEADER SIGNALING PROTEIN 28-APR-09 3H7P TITLE CRYSTAL STRUCTURE OF K63-LINKED DI-UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: UBIQUITIN; COMPND 8 CHAIN: B; COMPND 9 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: RPS27A, UBA52, UBA80, UBB, UBC, UBCEP1, UBCEP2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRSET; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: RPS27A, UBA52, UBA80, UBB, UBC, UBCEP1, UBCEP2; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET3A KEYWDS UBIQUITIN, ISOPEPTIDE, K63-LINKED, POLYUBIQUITIN, CYTOPLASM, KEYWDS 2 ISOPEPTIDE BOND, NUCLEUS, PHOSPHOPROTEIN, UBL CONJUGATION, SIGNALING KEYWDS 3 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.D.WEEKS,K.C.GRASTY,L.HERNANDEZ-CUEBAS,P.J.LOLL REVDAT 5 21-FEB-24 3H7P 1 REMARK REVDAT 4 13-OCT-21 3H7P 1 REMARK SEQADV LINK REVDAT 3 01-NOV-17 3H7P 1 REMARK REVDAT 2 27-OCT-09 3H7P 1 JRNL REVDAT 1 22-SEP-09 3H7P 0 JRNL AUTH S.D.WEEKS,K.C.GRASTY,L.HERNANDEZ-CUEBAS,P.J.LOLL JRNL TITL CRYSTAL STRUCTURES OF LYS-63-LINKED TRI- AND DI-UBIQUITIN JRNL TITL 2 REVEAL A HIGHLY EXTENDED CHAIN ARCHITECTURE. JRNL REF PROTEINS V. 77 753 2009 JRNL REFN ISSN 0887-3585 JRNL PMID 19731378 JRNL DOI 10.1002/PROT.22568 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 16373 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 827 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 24.2120 - 3.4500 1.00 2765 148 0.1770 0.1990 REMARK 3 2 3.4500 - 2.7400 1.00 2624 132 0.1860 0.2530 REMARK 3 3 2.7400 - 2.3940 1.00 2571 124 0.2040 0.2870 REMARK 3 4 2.3940 - 2.1750 1.00 2558 126 0.2070 0.2470 REMARK 3 5 2.1750 - 2.0190 1.00 2543 138 0.2290 0.2620 REMARK 3 6 2.0190 - 1.9000 1.00 2485 159 0.2490 0.3130 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 : 0.38 REMARK 3 B_SOL : 60.01 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.040 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.010 1213 REMARK 3 ANGLE : 1.158 1632 REMARK 3 CHIRALITY : 0.073 194 REMARK 3 PLANARITY : 0.005 211 REMARK 3 DIHEDRAL : 15.289 479 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 92.7703 106.4968 44.3857 REMARK 3 T TENSOR REMARK 3 T11: 0.2403 T22: 0.2713 REMARK 3 T33: 0.2748 T12: -0.0361 REMARK 3 T13: -0.0692 T23: 0.0337 REMARK 3 L TENSOR REMARK 3 L11: 3.3747 L22: 2.5774 REMARK 3 L33: 2.4442 L12: 0.8080 REMARK 3 L13: 1.9509 L23: -0.6249 REMARK 3 S TENSOR REMARK 3 S11: -0.1494 S12: -0.1435 S13: -0.2086 REMARK 3 S21: -0.3927 S22: 0.2261 S23: 0.3271 REMARK 3 S31: 0.2590 S32: -0.2723 S33: -0.1147 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): 63.9306 81.6106 32.5185 REMARK 3 T TENSOR REMARK 3 T11: 0.2631 T22: 0.2935 REMARK 3 T33: 0.3939 T12: -0.1150 REMARK 3 T13: 0.0276 T23: -0.0149 REMARK 3 L TENSOR REMARK 3 L11: 4.6976 L22: 3.6157 REMARK 3 L33: 2.1536 L12: 0.1299 REMARK 3 L13: 0.3665 L23: 1.3304 REMARK 3 S TENSOR REMARK 3 S11: 0.1443 S12: -0.2052 S13: -0.6547 REMARK 3 S21: 0.1210 S22: 0.1149 S23: -0.3847 REMARK 3 S31: 0.2026 S32: -0.0812 S33: -0.1873 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 3H7P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052796. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL CUT REMARK 200 OPTICS : TOROIDAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16409 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 (%): 56.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M CADMIUM SULFATE, 5% W/V PEG 8000 REMARK 280 AND 0.1 M IMIDAZOLE-CL PH 6.5, AL'S OIL, MICROBATCH UNDER OIL, REMARK 280 TEMPERATURE 291K, PH 5.2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 3 2 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+1/4,X+3/4,-Z+3/4 REMARK 290 14555 -Y+1/4,-X+1/4,-Z+1/4 REMARK 290 15555 Y+3/4,-X+3/4,Z+1/4 REMARK 290 16555 -Y+3/4,X+1/4,Z+3/4 REMARK 290 17555 X+1/4,Z+3/4,-Y+3/4 REMARK 290 18555 -X+3/4,Z+1/4,Y+3/4 REMARK 290 19555 -X+1/4,-Z+1/4,-Y+1/4 REMARK 290 20555 X+3/4,-Z+3/4,Y+1/4 REMARK 290 21555 Z+1/4,Y+3/4,-X+3/4 REMARK 290 22555 Z+3/4,-Y+3/4,X+1/4 REMARK 290 23555 -Z+3/4,Y+1/4,X+3/4 REMARK 290 24555 -Z+1/4,-Y+1/4,-X+1/4 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 52.76500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.76500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.76500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.76500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 52.76500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.76500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 52.76500 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 52.76500 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 52.76500 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 52.76500 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 52.76500 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 52.76500 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 52.76500 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 52.76500 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 52.76500 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 52.76500 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 52.76500 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 52.76500 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 26.38250 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 79.14750 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 79.14750 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 26.38250 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 26.38250 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 26.38250 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 79.14750 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 79.14750 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 26.38250 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 79.14750 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 26.38250 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 79.14750 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 26.38250 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 79.14750 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 79.14750 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 79.14750 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 26.38250 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 79.14750 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 26.38250 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 26.38250 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 26.38250 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 79.14750 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 79.14750 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 26.38250 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 26.38250 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 79.14750 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 79.14750 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 79.14750 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 79.14750 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 26.38250 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 79.14750 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 26.38250 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 79.14750 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 26.38250 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 26.38250 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 26.38250 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 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 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 A 136 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 GLY A 76 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 LEU A 73 109.07 -39.20 REMARK 500 ARG A 74 94.52 -61.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 77 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 1 N REMARK 620 2 GLU A 16 OE1 119.2 REMARK 620 3 GLU A 16 OE2 95.8 51.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 78 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 18 OE1 REMARK 620 2 GLU A 18 OE2 53.2 REMARK 620 3 HOH A 82 O 112.0 107.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 79 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 24 OE1 REMARK 620 2 GLU A 24 OE2 52.0 REMARK 620 3 ASP A 52 OD2 91.4 93.4 REMARK 620 4 HOH A 125 O 140.1 89.3 80.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 80 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 64 OE2 REMARK 620 2 HOH A 121 O 102.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD B 77 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET B 1 N REMARK 620 2 GLU B 16 OE2 88.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD B 79 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 24 OE1 REMARK 620 2 ASP B 52 OD2 107.7 REMARK 620 3 HOH B 83 O 119.7 78.9 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 77 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 78 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 79 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 80 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD B 77 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD B 78 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD B 79 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3H7S RELATED DB: PDB DBREF 3H7P A 1 76 UNP P62988 UBIQ_HUMAN 1 76 DBREF 3H7P B 1 76 UNP P62988 UBIQ_HUMAN 1 76 SEQADV 3H7P ARG A 63 UNP P62988 LYS 63 ENGINEERED MUTATION SEQRES 1 A 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 A 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 A 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 A 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 A 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN ARG GLU SER SEQRES 6 A 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 B 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 B 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 B 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 B 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 B 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 B 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY HET CD A 77 1 HET CD A 78 2 HET CD A 79 1 HET CD A 80 2 HET CD B 77 1 HET CD B 78 2 HET CD B 79 1 HETNAM CD CADMIUM ION FORMUL 3 CD 7(CD 2+) FORMUL 10 HOH *107(H2 O) HELIX 1 1 THR A 22 GLY A 35 1 14 HELIX 2 2 PRO A 37 ASP A 39 5 3 HELIX 3 3 LEU A 56 ASN A 60 5 5 HELIX 4 4 THR B 22 GLY B 35 1 14 HELIX 5 5 PRO B 37 ASP B 39 5 3 HELIX 6 6 LEU B 56 ASN B 60 5 5 SHEET 1 A 5 THR A 12 GLU A 16 0 SHEET 2 A 5 GLN A 2 LYS A 6 -1 N ILE A 3 O LEU A 15 SHEET 3 A 5 THR A 66 LEU A 71 1 O LEU A 67 N PHE A 4 SHEET 4 A 5 GLN A 41 PHE A 45 -1 N ARG A 42 O VAL A 70 SHEET 5 A 5 LYS A 48 GLN A 49 -1 O LYS A 48 N PHE A 45 SHEET 1 B 5 THR B 12 GLU B 16 0 SHEET 2 B 5 GLN B 2 LYS B 6 -1 N ILE B 3 O LEU B 15 SHEET 3 B 5 THR B 66 LEU B 71 1 O LEU B 67 N PHE B 4 SHEET 4 B 5 GLN B 41 PHE B 45 -1 N ARG B 42 O VAL B 70 SHEET 5 B 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 LINK N MET A 1 CD CD A 77 1555 1555 1.96 LINK OE1 GLU A 16 CD CD A 77 1555 1555 2.57 LINK OE2 GLU A 16 CD CD A 77 1555 1555 2.58 LINK OE1 GLU A 18 CD A CD A 78 1555 1555 2.54 LINK OE1 GLU A 18 CD B CD A 78 1555 1555 2.44 LINK OE2 GLU A 18 CD B CD A 78 1555 1555 2.48 LINK OE1 GLU A 24 CD CD A 79 1555 1555 2.49 LINK OE2 GLU A 24 CD CD A 79 1555 1555 2.59 LINK OD2 ASP A 52 CD CD A 79 1555 1555 2.32 LINK OE1 GLU A 64 CD A CD A 80 1555 1555 2.48 LINK OE2 GLU A 64 CD B CD A 80 1555 1555 2.24 LINK CD B CD A 78 O HOH A 82 1555 1555 2.34 LINK CD CD A 79 O HOH A 125 1555 1555 2.52 LINK CD B CD A 80 O HOH A 121 1555 1555 2.47 LINK N MET B 1 CD CD B 77 1555 1555 2.45 LINK OE2 GLU B 16 CD CD B 77 1555 1555 2.52 LINK OD1 ASP B 21 CD B CD B 78 1555 1555 2.33 LINK OD1 ASP B 21 CD A CD B 78 1555 1555 2.31 LINK OE1 GLU B 24 CD CD B 79 1555 1555 2.59 LINK OD2 ASP B 52 CD CD B 79 1555 1555 2.47 LINK CD CD B 79 O HOH B 83 1555 1555 2.25 SITE 1 AC1 4 MET A 1 GLU A 16 ASP A 32 GLY B 76 SITE 1 AC2 4 GLU A 18 ASP A 21 HOH A 82 HOH A 136 SITE 1 AC3 4 GLU A 24 ASP A 52 HOH A 88 HOH A 125 SITE 1 AC4 6 GLU A 64 HIS A 68 HOH A 112 HOH A 116 SITE 2 AC4 6 HOH A 121 HOH A 137 SITE 1 AC5 3 MET B 1 GLU B 16 ASP B 32 SITE 1 AC6 2 GLU B 18 ASP B 21 SITE 1 AC7 3 GLU B 24 ASP B 52 HOH B 83 CRYST1 105.530 105.530 105.530 90.00 90.00 90.00 P 43 3 2 24 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 0.009476 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009476 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009476 0.00000