PDB Short entry for 2ENV HEADER TRANSCRIPTION 28-MAR-07 2ENV TITLE SOLUTION STRUCTURE OF THE C4-TYPE ZINC FINGER DOMAIN FROM HUMAN TITLE 2 PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR DELTA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR DELTA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ZF-C4; COMPND 5 SYNONYM: PPAR-DELTA, PPAR-BETA, NUCLEAR HORMONE RECEPTOR 1, NUC1, COMPND 6 NUCI; 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: PPARD, NR1C2, PPARB; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P051212-04; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS ZINC BINDING, PPAR DELTA, PPAR BETA, RXR, NR, NUCLEAR RECEPTOR, KEYWDS 2 PROSTAGLANDIN, INSULIN SENSITIVITY, STRUCTURAL GENOMICS, NPPSFA, KEYWDS 3 NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, KEYWDS 4 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.NAGASHIMA,F.HAYASHI,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 2 INITIATIVE (RSGI) REVDAT 3 09-SEP-20 2ENV 1 TITLE JRNL REMARK SEQADV REVDAT 2 24-FEB-09 2ENV 1 VERSN REVDAT 1 08-APR-08 2ENV 0 JRNL AUTH T.NAGASHIMA,F.HAYASHI,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE C4-TYPE ZINC FINGER DOMAIN FROM JRNL TITL 2 HUMAN PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR DELTA 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 2ENV COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000026889. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.19MM UNIFORMLY 13C, 15N REMARK 210 -LABELED PROTEIN; 20MM TRISHCL, REMARK 210 100MM 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 SER A 66 42.09 34.68 REMARK 500 1 ASP A 79 150.47 -45.06 REMARK 500 1 LYS A 80 133.63 -36.16 REMARK 500 1 PHE A 98 -71.51 -48.89 REMARK 500 1 ARG A 113 -30.27 -38.56 REMARK 500 1 CYS A 115 169.71 -45.41 REMARK 500 1 ASN A 123 48.98 -79.71 REMARK 500 1 LYS A 124 -64.65 -96.31 REMARK 500 1 ASN A 141 39.58 -85.45 REMARK 500 1 SER A 151 108.04 -41.32 REMARK 500 2 SER A 67 41.75 -101.20 REMARK 500 2 ASP A 79 173.18 -49.45 REMARK 500 2 ALA A 81 176.10 -59.89 REMARK 500 2 HIS A 89 96.33 -56.64 REMARK 500 2 SER A 114 39.77 72.80 REMARK 500 2 CYS A 115 149.01 -37.04 REMARK 500 2 ASN A 123 39.84 -88.89 REMARK 500 2 ASN A 141 44.54 -79.58 REMARK 500 2 PRO A 149 88.67 -69.83 REMARK 500 3 CYS A 74 145.30 -37.99 REMARK 500 3 ASP A 79 174.73 -51.19 REMARK 500 3 ALA A 81 178.60 -54.98 REMARK 500 3 HIS A 89 96.53 -64.83 REMARK 500 3 CYS A 115 154.05 -37.51 REMARK 500 3 ASN A 121 53.35 -118.99 REMARK 500 3 TYR A 127 -70.30 -44.88 REMARK 500 3 HIS A 140 42.93 -85.04 REMARK 500 3 ALA A 142 -38.05 -39.53 REMARK 500 3 SER A 147 -48.41 -133.01 REMARK 500 3 PRO A 149 2.38 -69.84 REMARK 500 4 SER A 69 44.32 -82.87 REMARK 500 4 ASP A 79 154.30 -41.95 REMARK 500 4 LYS A 80 143.06 -34.00 REMARK 500 4 HIS A 89 97.50 -68.54 REMARK 500 4 ILE A 117 90.02 -64.26 REMARK 500 4 ASN A 123 45.33 -94.99 REMARK 500 4 LYS A 124 -62.38 -95.18 REMARK 500 4 ILE A 143 102.95 -33.79 REMARK 500 5 CYS A 115 152.78 -37.12 REMARK 500 5 ASN A 123 47.80 -100.38 REMARK 500 5 TYR A 127 -71.14 -45.82 REMARK 500 5 MET A 138 126.88 -34.16 REMARK 500 6 SER A 67 42.68 -83.21 REMARK 500 6 VAL A 76 -71.56 -69.19 REMARK 500 6 ASP A 79 158.44 -39.75 REMARK 500 6 CYS A 115 146.51 -37.90 REMARK 500 6 ASN A 123 47.28 -85.22 REMARK 500 6 LYS A 124 -62.22 -99.96 REMARK 500 7 VAL A 76 -71.50 -62.60 REMARK 500 7 ASP A 79 157.75 -42.00 REMARK 500 REMARK 500 THIS ENTRY HAS 167 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 200 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 74 SG REMARK 620 2 CYS A 77 SG 108.8 REMARK 620 3 CYS A 91 SG 117.7 111.9 REMARK 620 4 CYS A 94 SG 109.1 103.3 105.0 REMARK 620 N 1 2 3 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 111 SG REMARK 620 2 CYS A 115 SG 105.3 REMARK 620 3 CYS A 125 SG 113.1 108.8 REMARK 620 4 CYS A 128 SG 112.6 108.8 108.2 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 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002005357.1 RELATED DB: TARGETDB DBREF 2ENV A 72 146 UNP Q03181 PPARD_HUMAN 72 146 SEQADV 2ENV GLY A 65 UNP Q03181 EXPRESSION TAG SEQADV 2ENV SER A 66 UNP Q03181 EXPRESSION TAG SEQADV 2ENV SER A 67 UNP Q03181 EXPRESSION TAG SEQADV 2ENV GLY A 68 UNP Q03181 EXPRESSION TAG SEQADV 2ENV SER A 69 UNP Q03181 EXPRESSION TAG SEQADV 2ENV SER A 70 UNP Q03181 EXPRESSION TAG SEQADV 2ENV GLY A 71 UNP Q03181 EXPRESSION TAG SEQADV 2ENV SER A 147 UNP Q03181 EXPRESSION TAG SEQADV 2ENV GLY A 148 UNP Q03181 EXPRESSION TAG SEQADV 2ENV PRO A 149 UNP Q03181 EXPRESSION TAG SEQADV 2ENV SER A 150 UNP Q03181 EXPRESSION TAG SEQADV 2ENV SER A 151 UNP Q03181 EXPRESSION TAG SEQADV 2ENV GLY A 152 UNP Q03181 EXPRESSION TAG SEQRES 1 A 88 GLY SER SER GLY SER SER GLY MET GLU CYS ARG VAL CYS SEQRES 2 A 88 GLY ASP LYS ALA SER GLY PHE HIS TYR GLY VAL HIS ALA SEQRES 3 A 88 CYS GLU GLY CYS LYS GLY PHE PHE ARG ARG THR ILE ARG SEQRES 4 A 88 MET LYS LEU GLU TYR GLU LYS CYS GLU ARG SER CYS LYS SEQRES 5 A 88 ILE GLN LYS LYS ASN ARG ASN LYS CYS GLN TYR CYS ARG SEQRES 6 A 88 PHE GLN LYS CYS LEU ALA LEU GLY MET SER HIS ASN ALA SEQRES 7 A 88 ILE ARG PHE GLY SER GLY PRO SER SER GLY HET ZN A 200 1 HET ZN A 300 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 CYS A 91 MET A 104 1 14 HELIX 2 2 GLN A 126 GLY A 137 1 12 SHEET 1 A 2 GLY A 83 HIS A 85 0 SHEET 2 A 2 VAL A 88 ALA A 90 -1 O VAL A 88 N HIS A 85 LINK SG CYS A 74 ZN ZN A 200 1555 1555 2.25 LINK SG CYS A 77 ZN ZN A 200 1555 1555 2.32 LINK SG CYS A 91 ZN ZN A 200 1555 1555 2.25 LINK SG CYS A 94 ZN ZN A 200 1555 1555 2.35 LINK SG CYS A 111 ZN ZN A 300 1555 1555 2.28 LINK SG CYS A 115 ZN ZN A 300 1555 1555 2.32 LINK SG CYS A 125 ZN ZN A 300 1555 1555 2.29 LINK SG CYS A 128 ZN ZN A 300 1555 1555 2.26 SITE 1 AC1 2 CYS A 74 CYS A 77 SITE 1 AC2 5 LYS A 110 CYS A 111 ARG A 113 CYS A 115 SITE 2 AC2 5 CYS A 125 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