HEADER SIGNALING PROTEIN 29-MAR-07 2EOD TITLE SOLUTION STRUCTURE OF TRAF-TYPE ZINC FINGER DOMAINS (190- 248) FROM TITLE 2 HUMAN TNF RECEPTOR-ASSOCIATED FACTOR 4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TNF RECEPTOR-ASSOCIATED FACTOR 4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ZF-TRAF, UNP RESIDUES 190-248; COMPND 5 SYNONYM: CYSTEINE-RICH DOMAIN ASSOCIATED WITH RING AND TRAF DOMAINS COMPND 6 PROTEIN 1, MALIGNANT 62, RING FINGER PROTEIN 83; COMPND 7 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: TRAF4, CART1, MLN62, RNF83; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P060515-17; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS ZINC BINDING, TNF, TNFR, NF-KB, STRUCTURAL GENOMICS, NPPSFA, NATIONAL KEYWDS 2 PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN KEYWDS 3 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.NAGASHIMA,F.HAYASHI,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 2 INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2EOD 1 REMARK SEQADV REVDAT 2 24-FEB-09 2EOD 1 VERSN REVDAT 1 01-APR-08 2EOD 0 JRNL AUTH T.NAGASHIMA,F.HAYASHI,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF TRAF-TYPE ZINC FINGER DOMAINS (190 - JRNL TITL 2 248) FROM HUMAN TNF RECEPTOR-ASSOCIATED FACTOR 4 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1C, CYANA 2.0.17 REMARK 3 AUTHORS : VARIAN (VNMR), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2EOD COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000026907. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.13MM UNIFORMLY 13C,15N-LABELED REMARK 210 PROTEIN; 20MM TRISHCL; 100MM REMARK 210 NACL; 1MM DTT; 0.02% NAN3; REMARK 210 0.05MM ZNCL2; 1MM IDA; 10% D2O, REMARK 210 90% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20020425, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9822, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, TARGET REMARK 210 FUNCTION 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 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 GLN A 211 -33.51 -34.74 REMARK 500 1 CYS A 214 120.49 -35.34 REMARK 500 1 LEU A 217 127.29 -39.69 REMARK 500 1 GLN A 224 52.43 39.62 REMARK 500 1 VAL A 227 -33.32 -37.03 REMARK 500 1 ALA A 231 146.00 -36.63 REMARK 500 1 CYS A 243 155.54 -45.44 REMARK 500 1 THR A 245 168.49 -44.29 REMARK 500 2 PRO A 194 99.90 -69.72 REMARK 500 2 ILE A 207 -33.44 -33.73 REMARK 500 2 GLN A 211 -36.83 -33.03 REMARK 500 2 CYS A 214 116.05 -33.74 REMARK 500 2 VAL A 227 -37.02 -34.34 REMARK 500 2 ALA A 231 142.21 -39.14 REMARK 500 2 THR A 245 105.46 -38.92 REMARK 500 2 ALA A 246 132.30 -35.16 REMARK 500 3 LYS A 190 122.37 -37.40 REMARK 500 3 TYR A 197 -73.20 -69.52 REMARK 500 3 ILE A 207 -34.04 -34.02 REMARK 500 3 GLN A 211 -34.25 -34.14 REMARK 500 3 CYS A 214 109.96 -34.41 REMARK 500 3 ARG A 216 -31.20 -36.79 REMARK 500 3 VAL A 227 -26.83 -39.28 REMARK 500 3 ALA A 231 143.88 -36.40 REMARK 500 3 ASP A 241 -62.69 -106.78 REMARK 500 4 ILE A 207 -34.00 -33.54 REMARK 500 4 GLN A 211 -36.62 -33.95 REMARK 500 4 CYS A 214 123.72 -33.82 REMARK 500 4 GLN A 224 50.84 37.97 REMARK 500 4 VAL A 227 -38.82 -33.82 REMARK 500 4 ALA A 231 145.28 -35.49 REMARK 500 5 SER A 187 117.52 -160.22 REMARK 500 5 ILE A 207 -27.49 -38.61 REMARK 500 5 GLN A 211 -38.85 -35.20 REMARK 500 5 CYS A 214 107.29 -34.57 REMARK 500 5 ALA A 231 145.32 -35.45 REMARK 500 5 CYS A 243 103.41 -54.62 REMARK 500 5 ASN A 244 47.77 -97.44 REMARK 500 5 LEU A 247 53.68 36.36 REMARK 500 6 PRO A 194 98.03 -69.74 REMARK 500 6 ILE A 207 -38.59 -33.46 REMARK 500 6 GLN A 211 -36.06 -34.36 REMARK 500 6 CYS A 214 102.33 -34.94 REMARK 500 6 GLN A 224 54.99 39.80 REMARK 500 6 ALA A 231 142.20 -37.12 REMARK 500 6 CYS A 243 162.73 -45.91 REMARK 500 7 TYR A 197 -70.49 -84.09 REMARK 500 7 GLN A 211 -38.24 -35.96 REMARK 500 7 CYS A 214 112.33 -34.65 REMARK 500 7 VAL A 227 -27.79 -39.50 REMARK 500 REMARK 500 THIS ENTRY HAS 148 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 300 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 195 SG REMARK 620 2 CYS A 198 SG 105.7 REMARK 620 3 HIS A 210 NE2 110.0 109.4 REMARK 620 4 CYS A 214 SG 113.6 107.8 110.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 400 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 221 SG REMARK 620 2 CYS A 225 SG 113.8 REMARK 620 3 HIS A 238 NE2 112.3 108.8 REMARK 620 4 CYS A 243 SG 105.8 107.7 108.2 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 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 400 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSS001001113.2 RELATED DB: TARGETDB DBREF 2EOD A 190 248 UNP Q9BUZ4 TRAF4_HUMAN 190 248 SEQADV 2EOD GLY A 183 UNP Q9BUZ4 EXPRESSION TAG SEQADV 2EOD SER A 184 UNP Q9BUZ4 EXPRESSION TAG SEQADV 2EOD SER A 185 UNP Q9BUZ4 EXPRESSION TAG SEQADV 2EOD GLY A 186 UNP Q9BUZ4 EXPRESSION TAG SEQADV 2EOD SER A 187 UNP Q9BUZ4 EXPRESSION TAG SEQADV 2EOD SER A 188 UNP Q9BUZ4 EXPRESSION TAG SEQADV 2EOD GLY A 189 UNP Q9BUZ4 EXPRESSION TAG SEQRES 1 A 66 GLY SER SER GLY SER SER GLY LYS ARG THR GLN PRO CYS SEQRES 2 A 66 THR TYR CYS THR LYS GLU PHE VAL PHE ASP THR ILE GLN SEQRES 3 A 66 SER HIS GLN TYR GLN CYS PRO ARG LEU PRO VAL ALA CYS SEQRES 4 A 66 PRO ASN GLN CYS GLY VAL GLY THR VAL ALA ARG GLU ASP SEQRES 5 A 66 LEU PRO GLY HIS LEU LYS ASP SER CYS ASN THR ALA LEU SEQRES 6 A 66 VAL HET ZN A 300 1 HET ZN A 400 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 PHE A 204 CYS A 214 1 11 HELIX 2 2 ASP A 234 ASP A 241 1 8 SHEET 1 A 2 THR A 192 PRO A 194 0 SHEET 2 A 2 GLU A 201 VAL A 203 -1 O PHE A 202 N GLN A 193 SHEET 1 B 2 PRO A 218 ALA A 220 0 SHEET 2 B 2 THR A 229 ALA A 231 -1 O VAL A 230 N VAL A 219 LINK SG CYS A 195 ZN ZN A 300 1555 1555 2.34 LINK SG CYS A 198 ZN ZN A 300 1555 1555 2.30 LINK NE2 HIS A 210 ZN ZN A 300 1555 1555 2.04 LINK SG CYS A 214 ZN ZN A 300 1555 1555 2.26 LINK SG CYS A 221 ZN ZN A 400 1555 1555 2.29 LINK SG CYS A 225 ZN ZN A 400 1555 1555 2.28 LINK NE2 HIS A 238 ZN ZN A 400 1555 1555 2.05 LINK SG CYS A 243 ZN ZN A 400 1555 1555 2.32 SITE 1 AC1 4 PRO A 194 CYS A 195 TYR A 197 CYS A 198 SITE 1 AC2 3 CYS A 221 ASN A 223 CYS A 225 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