HEADER METAL BINDING PROTEIN 04-MAY-16 5JPX TITLE SOLUTION STRUCTURE OF THE TRIM21 B-BOX2 (B2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE TRIM21; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 52 KDA RO PROTEIN,52 KDA RIBONUCLEOPROTEIN AUTOANTIGEN COMPND 5 RO/SS-A,RING FINGER PROTEIN 81,RO(SS-A),SJOEGREN SYNDROME TYPE A COMPND 6 ANTIGEN,SS-A,TRIPARTITE MOTIF-CONTAINING PROTEIN 21; COMPND 7 EC: 6.3.2.-; 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 GENE: TRIM21, RNF81, RO52, SSA1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS B-BOX, METAL BINDING PROTEIN, RING-LIKE FOLD, E3 LIGASE, TRIM KEYWDS 2 PROTEIN, ZINC-BINDING MOTIF, UBIQUITINATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.WALLENHAMMAR,M.ANANDAPADAMANABAN,M.SUNNERHAGEN REVDAT 6 19-JUN-24 5JPX 1 REMARK REVDAT 5 30-OCT-19 5JPX 1 REMARK ATOM REVDAT 4 08-MAY-19 5JPX 1 REMARK REVDAT 3 07-FEB-18 5JPX 1 REMARK REVDAT 2 13-SEP-17 5JPX 1 REMARK REVDAT 1 09-AUG-17 5JPX 0 JRNL AUTH A.WALLENHAMMAR,M.ANANDAPADAMANABAN,A.LEMAK,C.MIRABELLO, JRNL AUTH 2 P.LUNDSTROM,B.WALLNER,M.SUNNERHAGEN JRNL TITL SOLUTION NMR STRUCTURE OF THE TRIM21 B-BOX2 AND JRNL TITL 2 IDENTIFICATION OF RESIDUES INVOLVED IN ITS INTERACTION WITH JRNL TITL 3 THE RING DOMAIN. JRNL REF PLOS ONE V. 12 81551 2017 JRNL REFN ESSN 1932-6203 JRNL PMID 28753623 JRNL DOI 10.1371/JOURNAL.PONE.0181551 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5JPX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1000220298. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 7.5; 7.5 REMARK 210 IONIC STRENGTH : 50MM TRIS, 150MM NACL; 50MM REMARK 210 TRIS, 150MM NACL REMARK 210 PRESSURE : AMBIENT BAR; AMBIENT BAR REMARK 210 SAMPLE CONTENTS : 450 UM [U-13C; U-15N] TRIM21 REMARK 210 BBOX2, 50 MM TRIS, 150 MM SODIUM REMARK 210 CHLORIDE, 10 MM BETA- REMARK 210 MERCAPTOETHANOL, 10 UM ZINC ION, REMARK 210 10 % GLYCEROL, 90% H2O/10% D2O; REMARK 210 450 UM [U-13C; U-15N] TRIM21 REMARK 210 BBOX2, 50 MM DEUTERATED TRIS, REMARK 210 150 MM SODIUM CHLORIDE, 10 MM REMARK 210 BETA-MERCAPTOETHANOL, 10 UM ZINC REMARK 210 ION, 10 % GLYCEROL, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCA; 3D HNCACB; 3D HN(CO)CA; 3D REMARK 210 H(CCO)NH; 3D CBCA(CO)NH; 3D 1H- REMARK 210 15N TOCSY; 3D 1H-15N NOESY; 2D REMARK 210 1H-13C HSQC ALIPHATIC; 2D 1H-13C REMARK 210 HSQC AROMATIC; 3D HCCH-TOCSY; 3D REMARK 210 1H-13C NOESY ALIPHATIC; 3D 1H- REMARK 210 13C NOESY AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, TALOS, SPARKY, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 MODELS 1-20 REMARK 470 RES CSSEQI ATOMS REMARK 470 GLU A 130 O 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 1 LEU A 101 141.39 -170.28 REMARK 500 1 HIS A 123 -81.20 -159.15 REMARK 500 2 GLN A 88 12.66 -142.13 REMARK 500 2 GLU A 90 93.51 -69.68 REMARK 500 2 LEU A 101 138.84 -171.42 REMARK 500 2 HIS A 123 -81.41 -152.71 REMARK 500 2 GLU A 129 79.31 -105.88 REMARK 500 3 THR A 87 -154.45 -99.60 REMARK 500 3 LEU A 101 143.67 -170.43 REMARK 500 3 HIS A 120 -80.20 -138.37 REMARK 500 3 ARG A 121 121.23 177.69 REMARK 500 3 ALA A 124 99.17 -168.57 REMARK 500 4 ARG A 98 -178.98 -69.54 REMARK 500 4 LEU A 101 146.76 -170.45 REMARK 500 4 GLU A 129 105.87 -164.88 REMARK 500 5 GLN A 88 -75.02 -79.10 REMARK 500 5 LYS A 119 -158.59 -122.94 REMARK 500 5 ARG A 121 -36.73 -144.90 REMARK 500 5 HIS A 123 -65.91 -146.28 REMARK 500 5 MET A 125 117.62 -163.29 REMARK 500 6 LYS A 119 -55.40 -152.08 REMARK 500 6 HIS A 123 -60.32 -99.08 REMARK 500 7 LEU A 101 143.38 -172.24 REMARK 500 8 HIS A 120 110.54 -165.84 REMARK 500 8 ARG A 121 -55.72 -157.27 REMARK 500 8 ASP A 122 107.57 73.82 REMARK 500 8 HIS A 123 -70.64 84.54 REMARK 500 9 SER A 117 95.75 -68.25 REMARK 500 9 LYS A 119 -82.29 -121.96 REMARK 500 10 GLU A 90 32.74 -96.27 REMARK 500 10 LEU A 101 146.69 -170.35 REMARK 500 10 ARG A 118 79.16 -68.89 REMARK 500 10 HIS A 120 78.96 -65.98 REMARK 500 11 GLN A 88 96.15 -64.41 REMARK 500 11 GLU A 90 94.08 -65.97 REMARK 500 11 HIS A 120 -158.66 -132.92 REMARK 500 11 HIS A 123 -51.42 -160.55 REMARK 500 12 THR A 87 71.62 49.75 REMARK 500 12 GLU A 90 42.80 -142.94 REMARK 500 12 GLU A 129 40.64 -104.35 REMARK 500 13 GLN A 88 76.81 58.75 REMARK 500 13 LEU A 101 121.32 -171.14 REMARK 500 13 SER A 117 -175.09 -68.42 REMARK 500 13 LYS A 119 -70.68 -54.66 REMARK 500 13 HIS A 120 -177.99 -172.90 REMARK 500 13 HIS A 123 -62.89 -95.38 REMARK 500 13 ALA A 124 58.92 -115.59 REMARK 500 13 GLU A 129 56.62 -141.35 REMARK 500 14 GLU A 90 40.91 -90.43 REMARK 500 14 ARG A 121 -79.28 -146.46 REMARK 500 REMARK 500 THIS ENTRY HAS 77 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 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 92 SG REMARK 620 2 HIS A 95 NE2 108.0 REMARK 620 3 CYS A 111 SG 109.6 105.0 REMARK 620 4 CYS A 114 SG 113.6 109.9 110.4 REMARK 620 N 1 2 3 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 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30075 RELATED DB: BMRB DBREF 5JPX A 86 130 UNP P19474 RO52_HUMAN 86 130 SEQRES 1 A 45 GLY THR GLN GLY GLU ARG CYS ALA VAL HIS GLY GLU ARG SEQRES 2 A 45 LEU HIS LEU PHE CYS GLU LYS ASP GLY LYS ALA LEU CYS SEQRES 3 A 45 TRP VAL CYS ALA GLN SER ARG LYS HIS ARG ASP HIS ALA SEQRES 4 A 45 MET VAL PRO LEU GLU GLU HET ZN A 201 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 AA1 CYS A 111 GLN A 116 1 6 SHEET 1 AA1 2 ARG A 91 CYS A 92 0 SHEET 2 AA1 2 GLU A 97 ARG A 98 -1 O GLU A 97 N CYS A 92 SHEET 1 AA2 3 LYS A 108 ALA A 109 0 SHEET 2 AA2 3 PHE A 102 CYS A 103 -1 N CYS A 103 O LYS A 108 SHEET 3 AA2 3 MET A 125 VAL A 126 -1 O VAL A 126 N PHE A 102 LINK SG CYS A 92 ZN ZN A 201 1555 1555 2.35 LINK NE2 HIS A 95 ZN ZN A 201 1555 1555 2.06 LINK SG CYS A 111 ZN ZN A 201 1555 1555 2.32 LINK SG CYS A 114 ZN ZN A 201 1555 1555 2.34 SITE 1 AC1 4 CYS A 92 HIS A 95 CYS A 111 CYS A 114 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1