PDB Short entry for 3HCU HEADER SIGNALING PROTEIN/LIGASE 06-MAY-09 3HCU TITLE CRYSTAL STRUCTURE OF TRAF6 IN COMPLEX WITH UBC13 IN THE C2 SPACE GROUP COMPND MOL_ID: 1; COMPND 2 MOLECULE: TNF RECEPTOR-ASSOCIATED FACTOR 6; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: RING AND ZINC FINGER 1: UNP RESIDUES 50-159; COMPND 5 SYNONYM: INTERLEUKIN-1 SIGNAL TRANSDUCER, RING FINGER PROTEIN 85; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 N; COMPND 9 CHAIN: B, D; COMPND 10 FRAGMENT: UBC13; COMPND 11 SYNONYM: UBIQUITIN-PROTEIN LIGASE N, UBIQUITIN CARRIER PROTEIN N, COMPND 12 UBC13, BENDLESS-LIKE UBIQUITIN-CONJUGATING ENZYME; COMPND 13 EC: 6.3.2.19; COMPND 14 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: RNF85, TRAF6; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON-PLUS RIPL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: BLU, UBE2N; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON-PLUS RIPL; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS CROSS-BRACE, BETA-BETA-ALPHA, COILED COIL, CYTOPLASM, METAL-BINDING, KEYWDS 2 UBL CONJUGATION, UBL CONJUGATION PATHWAY, ZINC, ZINC-FINGER, ATP- KEYWDS 3 BINDING, DNA DAMAGE, DNA REPAIR, ISOPEPTIDE BOND, LIGASE, KEYWDS 4 NUCLEOTIDE-BINDING, SIGNALING PROTEIN-LIGASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Q.YIN,S.-C.LIN,B.LAMOTHE,M.LU,Y.-C.LO,G.HURA,L.ZHENG,R.L.RICH, AUTHOR 2 A.D.CAMPOS,D.G.MYSZKA,M.J.LENARDO,B.G.DARNAY,H.WU REVDAT 4 06-SEP-23 3HCU 1 REMARK SEQADV REVDAT 3 01-NOV-17 3HCU 1 REMARK REVDAT 2 08-SEP-09 3HCU 1 JRNL REVDAT 1 26-MAY-09 3HCU 0 JRNL AUTH Q.YIN,S.C.LIN,B.LAMOTHE,M.LU,Y.C.LO,G.HURA,L.ZHENG,R.L.RICH, JRNL AUTH 2 A.D.CAMPOS,D.G.MYSZKA,M.J.LENARDO,B.G.DARNAY,H.WU JRNL TITL E2 INTERACTION AND DIMERIZATION IN THE CRYSTAL STRUCTURE OF JRNL TITL 2 TRAF6. JRNL REF NAT.STRUCT.MOL.BIOL. V. 16 658 2009 JRNL REFN ISSN 1545-9993 JRNL PMID 19465916 JRNL DOI 10.1038/NSMB.1605 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.5 REMARK 3 NUMBER OF REFLECTIONS : 17678 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.256 REMARK 3 FREE R VALUE : 0.333 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1733 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4059 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 33 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 79.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -19.95500 REMARK 3 B22 (A**2) : 31.95500 REMARK 3 B33 (A**2) : -12.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.43900 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.432 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.503 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.844 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.859 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 63.04 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3HCU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000052977. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-AUG-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97912 REMARK 200 MONOCHROMATOR : KOHZU DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18484 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 55.2870 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.39400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: PDB ENTRY 3HCT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16-20% PEG 4000, 0.2M MAGNESIUM REMARK 280 CHLORIDE, PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 65.24650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.69350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 65.24650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 20.69350 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 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 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 MET A 50 REMARK 465 GLU A 51 REMARK 465 GLU A 52 REMARK 465 ILE A 53 REMARK 465 LEU A 160 REMARK 465 GLU A 161 REMARK 465 HIS A 162 REMARK 465 HIS A 163 REMARK 465 HIS A 164 REMARK 465 HIS A 165 REMARK 465 HIS A 166 REMARK 465 HIS A 167 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 MET C 50 REMARK 465 GLU C 51 REMARK 465 GLU C 52 REMARK 465 ILE C 53 REMARK 465 ALA C 158 REMARK 465 LEU C 159 REMARK 465 LEU C 160 REMARK 465 GLU C 161 REMARK 465 HIS C 162 REMARK 465 HIS C 163 REMARK 465 HIS C 164 REMARK 465 HIS C 165 REMARK 465 HIS C 166 REMARK 465 HIS C 167 REMARK 465 GLY D -2 REMARK 465 SER D -1 REMARK 465 HIS D 0 REMARK 465 MET D 1 REMARK 465 ASN D 151 REMARK 465 ILE D 152 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 NZ LYS C 67 NZ LYS C 67 2555 1.70 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 ASP A 100 54.94 -150.26 REMARK 500 ALA A 101 -16.41 -166.66 REMARK 500 HIS A 103 54.78 -92.54 REMARK 500 ASP A 108 13.25 -153.55 REMARK 500 ASN A 109 16.22 58.10 REMARK 500 LEU A 113 129.43 77.12 REMARK 500 GLU A 137 107.64 41.37 REMARK 500 ALA A 158 -132.95 -179.95 REMARK 500 PRO B 5 145.34 -35.51 REMARK 500 GLU B 18 70.56 -117.05 REMARK 500 GLU B 29 3.16 -66.49 REMARK 500 ASN B 31 102.67 -171.77 REMARK 500 ASP B 44 -7.65 72.36 REMARK 500 ILE B 90 -7.89 -56.64 REMARK 500 LYS B 92 -100.99 -106.16 REMARK 500 PRO B 97 -3.08 -58.94 REMARK 500 ALA B 114 96.15 -166.20 REMARK 500 PRO B 117 42.30 -55.69 REMARK 500 ASP B 118 100.37 159.12 REMARK 500 ASP B 119 18.04 -165.08 REMARK 500 PRO B 120 -138.48 -76.17 REMARK 500 ASN B 123 -97.89 -11.30 REMARK 500 ASP B 124 -107.28 -24.44 REMARK 500 VAL B 125 -45.57 -28.95 REMARK 500 THR B 131 -72.86 -73.89 REMARK 500 ASN B 151 55.74 14.38 REMARK 500 ASP C 57 77.07 -107.97 REMARK 500 PRO C 62 163.90 -47.24 REMARK 500 LEU C 64 97.99 99.95 REMARK 500 SER C 66 -2.35 -54.61 REMARK 500 PRO C 71 1.58 -60.56 REMARK 500 LEU C 74 25.56 43.59 REMARK 500 LEU C 77 77.10 -65.72 REMARK 500 GLU C 79 -56.01 80.64 REMARK 500 ALA C 80 96.11 47.72 REMARK 500 GLU C 114 -63.33 -16.86 REMARK 500 GLN C 116 8.46 -156.42 REMARK 500 PHE C 118 -80.79 -124.95 REMARK 500 LEU C 128 26.56 -71.25 REMARK 500 CYS C 134 142.24 -22.25 REMARK 500 ASN C 136 96.04 45.18 REMARK 500 GLU C 137 -91.25 46.38 REMARK 500 CYS C 139 90.03 -67.45 REMARK 500 LEU C 140 77.66 -61.55 REMARK 500 LYS C 142 -162.05 -65.55 REMARK 500 MET C 143 155.43 154.89 REMARK 500 HIS C 147 40.41 -80.33 REMARK 500 LEU C 148 -154.77 -114.21 REMARK 500 GLU C 149 -60.87 53.82 REMARK 500 PRO D 5 146.86 -38.29 REMARK 500 REMARK 500 THIS ENTRY HAS 64 RAMACHANDRAN OUTLIERS. 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 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 70 SG REMARK 620 2 CYS A 73 SG 101.6 REMARK 620 3 CYS A 90 SG 110.3 106.1 REMARK 620 4 CYS A 93 SG 110.4 108.0 118.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 85 SG REMARK 620 2 HIS A 87 ND1 102.6 REMARK 620 3 CYS A 105 SG 99.0 113.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 303 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 134 SG REMARK 620 2 CYS A 139 SG 110.8 REMARK 620 3 HIS A 151 NE2 98.7 111.1 REMARK 620 4 CYS A 155 SG 105.6 116.1 113.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 304 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 70 SG REMARK 620 2 CYS C 73 SG 106.6 REMARK 620 3 CYS C 90 SG 70.1 133.8 REMARK 620 4 CYS C 93 SG 69.0 63.6 73.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 305 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 85 SG REMARK 620 2 CYS C 105 SG 105.9 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HCS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF TRAF6 REMARK 900 RELATED ID: 3HCT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRAF6 IN COMPLEX WITH UBC13 IN THE P1 SPACE REMARK 900 GROUP DBREF 3HCU A 50 159 UNP Q9Y4K3 TRAF6_HUMAN 50 159 DBREF 3HCU B 1 152 UNP P61088 UBE2N_HUMAN 1 152 DBREF 3HCU C 50 159 UNP Q9Y4K3 TRAF6_HUMAN 50 159 DBREF 3HCU D 1 152 UNP P61088 UBE2N_HUMAN 1 152 SEQADV 3HCU LEU A 160 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU GLU A 161 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS A 162 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS A 163 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS A 164 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS A 165 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS A 166 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS A 167 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU GLY B -2 UNP P61088 EXPRESSION TAG SEQADV 3HCU SER B -1 UNP P61088 EXPRESSION TAG SEQADV 3HCU HIS B 0 UNP P61088 EXPRESSION TAG SEQADV 3HCU LEU C 160 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU GLU C 161 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS C 162 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS C 163 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS C 164 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS C 165 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS C 166 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU HIS C 167 UNP Q9Y4K3 EXPRESSION TAG SEQADV 3HCU GLY D -2 UNP P61088 EXPRESSION TAG SEQADV 3HCU SER D -1 UNP P61088 EXPRESSION TAG SEQADV 3HCU HIS D 0 UNP P61088 EXPRESSION TAG SEQRES 1 A 118 MET GLU GLU ILE GLN GLY TYR ASP VAL GLU PHE ASP PRO SEQRES 2 A 118 PRO LEU GLU SER LYS TYR GLU CYS PRO ILE CYS LEU MET SEQRES 3 A 118 ALA LEU ARG GLU ALA VAL GLN THR PRO CYS GLY HIS ARG SEQRES 4 A 118 PHE CYS LYS ALA CYS ILE ILE LYS SER ILE ARG ASP ALA SEQRES 5 A 118 GLY HIS LYS CYS PRO VAL ASP ASN GLU ILE LEU LEU GLU SEQRES 6 A 118 ASN GLN LEU PHE PRO ASP ASN PHE ALA LYS ARG GLU ILE SEQRES 7 A 118 LEU SER LEU MET VAL LYS CYS PRO ASN GLU GLY CYS LEU SEQRES 8 A 118 HIS LYS MET GLU LEU ARG HIS LEU GLU ASP HIS GLN ALA SEQRES 9 A 118 HIS CYS GLU PHE ALA LEU LEU GLU HIS HIS HIS HIS HIS SEQRES 10 A 118 HIS SEQRES 1 B 155 GLY SER HIS MET ALA GLY LEU PRO ARG ARG ILE ILE LYS SEQRES 2 B 155 GLU THR GLN ARG LEU LEU ALA GLU PRO VAL PRO GLY ILE SEQRES 3 B 155 LYS ALA GLU PRO ASP GLU SER ASN ALA ARG TYR PHE HIS SEQRES 4 B 155 VAL VAL ILE ALA GLY PRO GLN ASP SER PRO PHE GLU GLY SEQRES 5 B 155 GLY THR PHE LYS LEU GLU LEU PHE LEU PRO GLU GLU TYR SEQRES 6 B 155 PRO MET ALA ALA PRO LYS VAL ARG PHE MET THR LYS ILE SEQRES 7 B 155 TYR HIS PRO ASN VAL ASP LYS LEU GLY ARG ILE CYS LEU SEQRES 8 B 155 ASP ILE LEU LYS ASP LYS TRP SER PRO ALA LEU GLN ILE SEQRES 9 B 155 ARG THR VAL LEU LEU SER ILE GLN ALA LEU LEU SER ALA SEQRES 10 B 155 PRO ASN PRO ASP ASP PRO LEU ALA ASN ASP VAL ALA GLU SEQRES 11 B 155 GLN TRP LYS THR ASN GLU ALA GLN ALA ILE GLU THR ALA SEQRES 12 B 155 ARG ALA TRP THR ARG LEU TYR ALA MET ASN ASN ILE SEQRES 1 C 118 MET GLU GLU ILE GLN GLY TYR ASP VAL GLU PHE ASP PRO SEQRES 2 C 118 PRO LEU GLU SER LYS TYR GLU CYS PRO ILE CYS LEU MET SEQRES 3 C 118 ALA LEU ARG GLU ALA VAL GLN THR PRO CYS GLY HIS ARG SEQRES 4 C 118 PHE CYS LYS ALA CYS ILE ILE LYS SER ILE ARG ASP ALA SEQRES 5 C 118 GLY HIS LYS CYS PRO VAL ASP ASN GLU ILE LEU LEU GLU SEQRES 6 C 118 ASN GLN LEU PHE PRO ASP ASN PHE ALA LYS ARG GLU ILE SEQRES 7 C 118 LEU SER LEU MET VAL LYS CYS PRO ASN GLU GLY CYS LEU SEQRES 8 C 118 HIS LYS MET GLU LEU ARG HIS LEU GLU ASP HIS GLN ALA SEQRES 9 C 118 HIS CYS GLU PHE ALA LEU LEU GLU HIS HIS HIS HIS HIS SEQRES 10 C 118 HIS SEQRES 1 D 155 GLY SER HIS MET ALA GLY LEU PRO ARG ARG ILE ILE LYS SEQRES 2 D 155 GLU THR GLN ARG LEU LEU ALA GLU PRO VAL PRO GLY ILE SEQRES 3 D 155 LYS ALA GLU PRO ASP GLU SER ASN ALA ARG TYR PHE HIS SEQRES 4 D 155 VAL VAL ILE ALA GLY PRO GLN ASP SER PRO PHE GLU GLY SEQRES 5 D 155 GLY THR PHE LYS LEU GLU LEU PHE LEU PRO GLU GLU TYR SEQRES 6 D 155 PRO MET ALA ALA PRO LYS VAL ARG PHE MET THR LYS ILE SEQRES 7 D 155 TYR HIS PRO ASN VAL ASP LYS LEU GLY ARG ILE CYS LEU SEQRES 8 D 155 ASP ILE LEU LYS ASP LYS TRP SER PRO ALA LEU GLN ILE SEQRES 9 D 155 ARG THR VAL LEU LEU SER ILE GLN ALA LEU LEU SER ALA SEQRES 10 D 155 PRO ASN PRO ASP ASP PRO LEU ALA ASN ASP VAL ALA GLU SEQRES 11 D 155 GLN TRP LYS THR ASN GLU ALA GLN ALA ILE GLU THR ALA SEQRES 12 D 155 ARG ALA TRP THR ARG LEU TYR ALA MET ASN ASN ILE HET ZN A 301 1 HET ZN A 302 1 HET ZN A 303 1 HET ZN C 304 1 HET ZN C 305 1 HET ZN C 306 1 HETNAM ZN ZINC ION FORMUL 5 ZN 6(ZN 2+) FORMUL 11 HOH *33(H2 O) HELIX 1 1 GLU A 65 GLU A 69 5 5 HELIX 2 2 LYS A 91 ASP A 100 1 10 HELIX 3 3 LEU A 113 LEU A 117 5 5 HELIX 4 4 ASP A 120 LEU A 128 1 9 HELIX 5 5 LEU A 145 ALA A 153 1 9 HELIX 6 6 PRO B 5 GLU B 18 1 14 HELIX 7 7 LEU B 88 LYS B 92 5 5 HELIX 8 8 GLN B 100 ALA B 114 1 15 HELIX 9 9 ALA B 122 ASN B 132 1 11 HELIX 10 10 ASN B 132 ALA B 148 1 17 HELIX 11 11 CYS C 90 ALA C 101 1 12 HELIX 12 12 ASP C 120 LEU C 128 1 9 HELIX 13 13 GLU C 144 LEU C 148 5 5 HELIX 14 14 GLU C 149 HIS C 154 1 6 HELIX 15 15 PRO D 5 GLU D 18 1 14 HELIX 16 16 LEU D 88 LYS D 92 5 5 HELIX 17 17 GLN D 100 ALA D 114 1 15 HELIX 18 18 ALA D 122 ASN D 132 1 11 HELIX 19 19 ASN D 132 ALA D 148 1 17 SHEET 1 A 3 ARG A 88 CYS A 90 0 SHEET 2 A 3 ALA A 80 GLN A 82 -1 N VAL A 81 O PHE A 89 SHEET 3 A 3 PHE A 118 PRO A 119 -1 O PHE A 118 N GLN A 82 SHEET 1 B 2 MET A 131 LYS A 133 0 SHEET 2 B 2 LYS A 142 GLU A 144 -1 O MET A 143 N VAL A 132 SHEET 1 C 4 ILE B 23 ASP B 28 0 SHEET 2 C 4 ASN B 31 ALA B 40 -1 O HIS B 36 N GLU B 26 SHEET 3 C 4 THR B 51 PHE B 57 -1 O LEU B 54 N VAL B 37 SHEET 4 C 4 LYS B 68 PHE B 71 -1 O LYS B 68 N PHE B 57 SHEET 1 D 2 VAL C 81 GLN C 82 0 SHEET 2 D 2 ARG C 88 PHE C 89 -1 O PHE C 89 N VAL C 81 SHEET 1 E 4 ILE D 23 ASP D 28 0 SHEET 2 E 4 ASN D 31 ALA D 40 -1 O HIS D 36 N GLU D 26 SHEET 3 E 4 THR D 51 PHE D 57 -1 O LEU D 54 N VAL D 37 SHEET 4 E 4 LYS D 68 PHE D 71 -1 O LYS D 68 N PHE D 57 SSBOND 1 CYS C 73 CYS C 93 1555 1555 2.86 LINK SG CYS A 70 ZN ZN A 301 1555 1555 2.34 LINK SG CYS A 73 ZN ZN A 301 1555 1555 2.51 LINK SG CYS A 85 ZN ZN A 302 1555 1555 2.37 LINK ND1 HIS A 87 ZN ZN A 302 1555 1555 2.29 LINK SG CYS A 90 ZN ZN A 301 1555 1555 2.30 LINK SG CYS A 93 ZN ZN A 301 1555 1555 2.42 LINK SG CYS A 105 ZN ZN A 302 1555 1555 2.52 LINK SG CYS A 134 ZN ZN A 303 1555 1555 2.40 LINK SG CYS A 139 ZN ZN A 303 1555 1555 2.58 LINK NE2 HIS A 151 ZN ZN A 303 1555 1555 2.37 LINK SG CYS A 155 ZN ZN A 303 1555 1555 2.45 LINK SG CYS C 70 ZN ZN C 304 1555 1555 2.71 LINK SG CYS C 73 ZN ZN C 304 1555 1555 2.77 LINK SG CYS C 85 ZN ZN C 305 1555 1555 2.84 LINK SG CYS C 90 ZN ZN C 304 1555 1555 2.66 LINK SG CYS C 93 ZN ZN C 304 1555 1555 2.65 LINK SG CYS C 105 ZN ZN C 305 1555 1555 2.54 LINK SG CYS C 139 ZN ZN C 306 1555 1555 2.58 CISPEP 1 ASP A 61 PRO A 62 0 0.00 CISPEP 2 TYR B 62 PRO B 63 0 0.27 CISPEP 3 ASP B 119 PRO B 120 0 -0.10 CISPEP 4 ASP C 61 PRO C 62 0 0.04 CISPEP 5 PHE C 118 PRO C 119 0 0.02 CISPEP 6 TYR D 62 PRO D 63 0 0.04 CISPEP 7 ASP D 119 PRO D 120 0 -0.35 SITE 1 AC1 4 CYS A 70 CYS A 73 CYS A 90 CYS A 93 SITE 1 AC2 4 CYS A 85 HIS A 87 CYS A 105 ASP A 108 SITE 1 AC3 4 CYS A 134 CYS A 139 HIS A 151 CYS A 155 SITE 1 AC4 5 GLY C 55 CYS C 70 CYS C 73 CYS C 90 SITE 2 AC4 5 CYS C 93 SITE 1 AC5 4 CYS C 85 HIS C 87 CYS C 105 ASP C 108 SITE 1 AC6 3 CYS C 134 CYS C 139 CYS C 155 CRYST1 130.493 41.387 123.745 90.00 116.20 90.00 C 1 2 1 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 0.007663 0.000000 0.003771 0.00000 SCALE2 0.000000 0.024162 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009006 0.00000