PDB Short entry for 2EP4 HEADER PROTEIN BINDING 29-MAR-07 2EP4 TITLE SOLUTION STRUCTURE OF RING FINGER FROM HUMAN RING FINGER PROTEIN 24 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RING FINGER PROTEIN 24; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ZF-C3HC4; COMPND 5 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: RNF24; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P060828-23; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS ZINC BINDING, UBIQUITIN, E3 ENZYME, STRUCTURAL GENOMICS, NPPSFA, KEYWDS 2 NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, KEYWDS 3 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, PROTEIN KEYWDS 4 BINDING 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 2EP4 1 REMARK SEQADV REVDAT 2 24-FEB-09 2EP4 1 VERSN REVDAT 1 02-OCT-07 2EP4 0 JRNL AUTH T.NAGASHIMA,F.HAYASHI,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF RING FINGER FROM HUMAN RING FINGER JRNL TITL 2 PROTEIN 24 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 2EP4 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000026933. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 20 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.13MM 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 : 900 MHZ; 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 65 105.60 -45.87 REMARK 500 1 LEU A 72 129.48 -34.57 REMARK 500 1 CYS A 78 164.22 -42.50 REMARK 500 1 PRO A 95 3.51 -69.82 REMARK 500 1 LYS A 113 48.45 -75.90 REMARK 500 1 PRO A 116 4.43 -69.79 REMARK 500 1 LEU A 117 -71.16 -110.87 REMARK 500 1 ASN A 119 43.10 73.06 REMARK 500 1 PRO A 131 7.99 -69.70 REMARK 500 2 GLU A 76 97.49 -67.06 REMARK 500 2 PRO A 95 6.09 -69.82 REMARK 500 2 LYS A 113 47.61 -76.70 REMARK 500 2 PRO A 116 4.62 -69.75 REMARK 500 2 LEU A 117 -71.16 -113.86 REMARK 500 2 ASN A 119 47.90 71.11 REMARK 500 2 LEU A 123 -58.04 -132.46 REMARK 500 2 PRO A 131 -177.30 -69.74 REMARK 500 2 SER A 132 159.71 -46.79 REMARK 500 3 LEU A 72 165.46 -47.18 REMARK 500 3 HIS A 75 98.96 -54.40 REMARK 500 3 LEU A 82 55.00 32.39 REMARK 500 3 PRO A 95 4.07 -69.80 REMARK 500 3 ARG A 102 -36.62 -38.68 REMARK 500 3 LYS A 113 47.79 -76.14 REMARK 500 3 PRO A 116 6.43 -69.77 REMARK 500 3 ALA A 126 45.44 -77.74 REMARK 500 4 ASN A 73 115.17 -160.98 REMARK 500 4 LEU A 74 175.47 -55.26 REMARK 500 4 GLU A 76 40.56 -84.89 REMARK 500 4 PRO A 95 3.45 -69.71 REMARK 500 4 ARG A 102 -37.68 -38.58 REMARK 500 4 LYS A 113 45.28 -82.81 REMARK 500 4 PRO A 116 10.56 -69.72 REMARK 500 4 LEU A 117 -67.75 -120.56 REMARK 500 4 LEU A 125 42.90 -82.62 REMARK 500 5 LYS A 70 45.29 37.24 REMARK 500 5 LEU A 74 -63.43 -102.06 REMARK 500 5 GLU A 76 108.63 -31.61 REMARK 500 5 ASP A 84 130.60 -36.88 REMARK 500 5 PRO A 95 5.11 -69.78 REMARK 500 5 LYS A 113 48.77 -75.64 REMARK 500 5 PRO A 116 5.71 -69.74 REMARK 500 5 LEU A 117 -70.80 -111.39 REMARK 500 5 LEU A 123 54.63 32.13 REMARK 500 5 GLN A 124 45.54 -79.08 REMARK 500 5 PRO A 131 3.98 -69.72 REMARK 500 6 SER A 65 114.66 -168.87 REMARK 500 6 GLU A 71 44.02 -103.98 REMARK 500 6 ASP A 84 141.11 -35.67 REMARK 500 6 PRO A 95 4.29 -69.70 REMARK 500 REMARK 500 THIS ENTRY HAS 175 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 78 SG REMARK 620 2 CYS A 81 SG 104.9 REMARK 620 3 HIS A 101 ND1 105.6 105.4 REMARK 620 4 CYS A 104 SG 114.1 106.9 118.7 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 96 SG REMARK 620 2 HIS A 98 ND1 108.7 REMARK 620 3 CYS A 115 SG 101.9 109.0 REMARK 620 4 CYS A 118 SG 105.2 123.8 106.1 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002003774.1 RELATED DB: TARGETDB DBREF 2EP4 A 68 128 UNP Q9Y225 RNF24_HUMAN 68 128 SEQADV 2EP4 GLY A 61 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 SER A 62 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 SER A 63 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 GLY A 64 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 SER A 65 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 SER A 66 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 GLY A 67 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 SER A 129 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 GLY A 130 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 PRO A 131 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 SER A 132 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 SER A 133 UNP Q9Y225 EXPRESSION TAG SEQADV 2EP4 GLY A 134 UNP Q9Y225 EXPRESSION TAG SEQRES 1 A 74 GLY SER SER GLY SER SER GLY LYS VAL LYS GLU LEU ASN SEQRES 2 A 74 LEU HIS GLU LEU CYS ALA VAL CYS LEU GLU ASP PHE LYS SEQRES 3 A 74 PRO ARG ASP GLU LEU GLY ILE CYS PRO CYS LYS HIS ALA SEQRES 4 A 74 PHE HIS ARG LYS CYS LEU ILE LYS TRP LEU GLU VAL ARG SEQRES 5 A 74 LYS VAL CYS PRO LEU CYS ASN MET PRO VAL LEU GLN LEU SEQRES 6 A 74 ALA GLN LEU 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 ARG A 102 ARG A 112 1 11 SHEET 1 A 2 LEU A 91 CYS A 94 0 SHEET 2 A 2 HIS A 98 HIS A 101 -1 O PHE A 100 N GLY A 92 LINK SG CYS A 78 ZN ZN A 200 1555 1555 2.34 LINK SG CYS A 81 ZN ZN A 200 1555 1555 2.35 LINK SG CYS A 96 ZN ZN A 300 1555 1555 2.36 LINK ND1 HIS A 98 ZN ZN A 300 1555 1555 1.96 LINK ND1 HIS A 101 ZN ZN A 200 1555 1555 2.05 LINK SG CYS A 104 ZN ZN A 200 1555 1555 2.25 LINK SG CYS A 115 ZN ZN A 300 1555 1555 2.35 LINK SG CYS A 118 ZN ZN A 300 1555 1555 2.24 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