PDB Short entry for 2K2C HEADER METAL BINDING PROTEIN 31-MAR-08 2K2C TITLE SOLUTION NMR STRUCTURE OF N-TERMINAL DOMAIN OF HUMAN PIRH2. NORTHEAST TITLE 2 STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET HT2A COMPND MOL_ID: 1; COMPND 2 MOLECULE: RING FINGER AND CHY ZINC FINGER DOMAIN-CONTAINING PROTEIN COMPND 3 1; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: N-TERMINAL DOMAIN: RESIDUES 1-137; COMPND 6 SYNONYM: ZINC FINGER PROTEIN 363, CH-RICH-INTERACTING MATCH WITH COMPND 7 PLAG1, ANDROGEN RECEPTOR N-TERMINAL-INTERACTING PROTEIN, P53-INDUCED COMPND 8 RING-H2 PROTEIN, HPIRH2, RING FINGER PROTEIN 199; COMPND 9 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: RCHY1, ARNIP, CHIMP, PIRH2, RNF199, ZNF363; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS ZINC-BINDING PROTEIN, CYTOPLASM, METAL-BINDING, NUCLEUS, ZINC-FINGER, KEYWDS 2 METAL BINDING PROTEIN, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 3 INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR B.WU,A.LEMAK,Y.SHENG,M.KARRA,S.SRISAILAM,M.SUNNERHAGEN, AUTHOR 2 C.H.ARROWSMITH,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 5 14-JUN-23 2K2C 1 REMARK REVDAT 4 19-FEB-20 2K2C 1 REMARK SEQADV REVDAT 3 28-APR-09 2K2C 1 JRNL REVDAT 2 24-FEB-09 2K2C 1 VERSN REVDAT 1 15-APR-08 2K2C 0 JRNL AUTH Y.SHENG,R.C.LAISTER,A.LEMAK,B.WU,E.TAI,S.DUAN,J.LUKIN, JRNL AUTH 2 M.SUNNERHAGEN,S.SRISAILAM,M.KARRA,S.BENCHIMOL,C.H.ARROWSMITH JRNL TITL MOLECULAR BASIS OF PIRH2-MEDIATED P53 UBIQUITYLATION. JRNL REF NAT.STRUCT.MOL.BIOL. V. 15 1334 2008 JRNL REFN ISSN 1545-9993 JRNL PMID 19043414 JRNL DOI 10.1038/NSMB.1521 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.3, CNS REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2K2C COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000100587. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 7; 7 REMARK 210 IONIC STRENGTH : 150; 150 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-99% 13C; U-99% 15N] N REMARK 210 -TERMINAL DOMAIN OF HUMAN PIRH2, REMARK 210 50 MM SODIUM PHOSPHATE, 150 MM REMARK 210 POTASSIUM CHLORIDE, 10 UM ZNCL2, REMARK 210 0.8 MM DTT, 90% H2O/10% D2O; 1 REMARK 210 MM [U-99% 13C; U-99% 15N] N- REMARK 210 TERMINAL DOMAIN OF HUMAN PIRH2, REMARK 210 50 MM SODIUM PHOSPHATE, 150 MM REMARK 210 POTASSIUM CHLORIDE, 10 UM ZNCL2, REMARK 210 0.8 MM DTT, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 CBCA(CO)NH; 3D HBHA(CO)NH; 3D REMARK 210 HNCA; 3D C(CO)NH; 3D H(CCO)NH; REMARK 210 3D HCCH-TOCSY; 3D CCH-TOCSY; 2D REMARK 210 1H-13C HSQC; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY; 3D AROMATIC 1H-13C REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.95, ABACUS, CYANA, REMARK 210 AUTOSTRUCTURE 2.1.0 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 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 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 ALA A 3 21.88 -153.00 REMARK 500 1 THR A 4 14.19 -144.99 REMARK 500 1 ARG A 6 -18.78 71.82 REMARK 500 1 CYS A 34 12.34 -150.84 REMARK 500 1 CYS A 65 -26.79 144.68 REMARK 500 1 GLU A 66 12.47 84.40 REMARK 500 1 ALA A 71 98.31 -61.94 REMARK 500 1 CYS A 75 99.48 -69.20 REMARK 500 1 CYS A 87 116.60 -170.26 REMARK 500 1 LYS A 97 59.69 -118.45 REMARK 500 1 ILE A 110 103.68 -51.13 REMARK 500 1 LYS A 121 70.75 64.24 REMARK 500 1 CYS A 122 -39.80 -175.14 REMARK 500 1 ARG A 133 89.62 -69.13 REMARK 500 1 CYS A 136 35.45 -82.85 REMARK 500 2 ASP A 8 155.24 64.54 REMARK 500 2 GLU A 14 84.68 -151.56 REMARK 500 2 ASP A 35 19.42 57.31 REMARK 500 2 CYS A 65 5.83 -154.29 REMARK 500 2 ALA A 71 98.49 -68.93 REMARK 500 2 CYS A 78 19.24 -151.94 REMARK 500 2 LYS A 97 42.91 -102.74 REMARK 500 2 CYS A 122 -26.78 168.48 REMARK 500 3 ALA A 2 12.50 -166.01 REMARK 500 3 GLU A 7 103.24 64.02 REMARK 500 3 GLU A 13 80.65 59.83 REMARK 500 3 CYS A 34 3.27 -150.04 REMARK 500 3 ASP A 35 16.97 56.73 REMARK 500 3 ASN A 64 -55.47 -167.29 REMARK 500 3 ALA A 71 103.14 -57.38 REMARK 500 3 CYS A 87 110.51 -165.78 REMARK 500 3 LYS A 121 40.26 -89.28 REMARK 500 3 CYS A 122 -18.46 -150.36 REMARK 500 3 ASN A 123 -15.73 76.97 REMARK 500 4 GLU A 7 17.68 -157.94 REMARK 500 4 CYS A 34 15.01 -151.40 REMARK 500 4 CYS A 65 -7.74 137.23 REMARK 500 4 ALA A 71 92.49 -66.03 REMARK 500 4 CYS A 78 24.54 -150.72 REMARK 500 4 ASN A 123 13.31 -63.63 REMARK 500 5 THR A 4 88.29 -69.53 REMARK 500 5 ASP A 8 79.22 60.68 REMARK 500 5 ARG A 18 149.39 178.28 REMARK 500 5 ASP A 35 16.81 56.22 REMARK 500 5 CYS A 65 -6.97 133.89 REMARK 500 5 CYS A 78 15.77 -159.51 REMARK 500 5 CYS A 87 113.86 -166.95 REMARK 500 5 LYS A 97 58.43 -109.91 REMARK 500 5 CYS A 122 108.25 71.74 REMARK 500 5 GLN A 131 -82.34 50.62 REMARK 500 REMARK 500 THIS ENTRY HAS 138 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 139 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 20 SG REMARK 620 2 HIS A 22 ND1 107.1 REMARK 620 3 CYS A 40 SG 111.6 107.3 REMARK 620 4 CYS A 43 SG 111.9 107.0 111.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 138 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 33 SG REMARK 620 2 CYS A 34 SG 111.3 REMARK 620 3 HIS A 44 NE2 107.8 110.7 REMARK 620 4 HIS A 50 NE2 105.5 110.9 110.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 140 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 62 SG REMARK 620 2 CYS A 65 SG 105.3 REMARK 620 3 CYS A 75 SG 102.7 115.0 REMARK 620 4 CYS A 78 SG 112.9 112.3 108.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 141 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 87 SG REMARK 620 2 CYS A 90 SG 107.8 REMARK 620 3 HIS A 101 ND1 108.6 108.3 REMARK 620 4 CYS A 108 SG 107.3 109.3 115.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 142 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 102 SG REMARK 620 2 CYS A 105 SG 109.4 REMARK 620 3 HIS A 118 ND1 107.3 108.3 REMARK 620 4 CYS A 125 SG 109.5 113.1 109.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 143 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 119 SG REMARK 620 2 CYS A 122 SG 108.6 REMARK 620 3 HIS A 134 ND1 107.0 107.6 REMARK 620 4 CYS A 136 SG 113.3 111.7 108.4 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 138 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 139 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 140 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 141 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 143 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HT2A RELATED DB: TARGETDB REMARK 900 RELATED ID: 15700 RELATED DB: BMRB REMARK 900 RELATED ID: 2K2D RELATED DB: PDB REMARK 900 SOLUTION NMR STRUCTURE OF C-TERMINAL DOMAIN OF HUMAN PIRH2, NESG REMARK 900 TARGET HT2C DBREF 2K2C A 1 137 UNP Q96PM5 ZN363_HUMAN 1 137 SEQADV 2K2C THR A 11 UNP Q96PM5 SER 11 VARIANT SEQADV 2K2C GLU A 13 UNP Q96PM5 GLN 13 VARIANT SEQRES 1 A 137 MET ALA ALA THR ALA ARG GLU ASP GLY ALA THR GLY GLU SEQRES 2 A 137 GLU ARG GLY GLN ARG GLY CYS GLU HIS TYR ASP ARG GLY SEQRES 3 A 137 CYS LEU LEU LYS ALA PRO CYS CYS ASP LYS LEU TYR THR SEQRES 4 A 137 CYS ARG LEU CYS HIS ASP ASN ASN GLU ASP HIS GLN LEU SEQRES 5 A 137 ASP ARG PHE LYS VAL LYS GLU VAL GLN CYS ILE ASN CYS SEQRES 6 A 137 GLU LYS ILE GLN HIS ALA GLN GLN THR CYS GLU GLU CYS SEQRES 7 A 137 SER THR LEU PHE GLY GLU TYR TYR CYS ASP ILE CYS HIS SEQRES 8 A 137 LEU PHE ASP LYS ASP LYS LYS GLN TYR HIS CYS GLU ASN SEQRES 9 A 137 CYS GLY ILE CYS ARG ILE GLY PRO LYS GLU ASP PHE PHE SEQRES 10 A 137 HIS CYS LEU LYS CYS ASN LEU CYS LEU ALA MET ASN LEU SEQRES 11 A 137 GLN GLY ARG HIS LYS CYS ILE HET ZN A 138 1 HET ZN A 139 1 HET ZN A 140 1 HET ZN A 141 1 HET ZN A 142 1 HET ZN A 143 1 HETNAM ZN ZINC ION FORMUL 2 ZN 6(ZN 2+) HELIX 1 1 CYS A 40 GLU A 48 1 9 SHEET 1 A 4 LEU A 37 TYR A 38 0 SHEET 2 A 4 CYS A 27 LYS A 30 -1 N LEU A 29 O TYR A 38 SHEET 3 A 4 GLU A 59 CYS A 62 -1 O GLN A 61 N LEU A 28 SHEET 4 A 4 ILE A 68 HIS A 70 -1 O GLN A 69 N VAL A 60 SHEET 1 B 2 TYR A 85 CYS A 87 0 SHEET 2 B 2 LEU A 92 ASP A 94 -1 O ASP A 94 N TYR A 85 SHEET 1 C 2 TYR A 100 CYS A 102 0 SHEET 2 C 2 ILE A 107 ARG A 109 -1 O ILE A 107 N CYS A 102 SHEET 1 D 2 PHE A 116 CYS A 119 0 SHEET 2 D 2 LEU A 124 ALA A 127 -1 O LEU A 126 N PHE A 117 LINK SG CYS A 20 ZN ZN A 139 1555 1555 2.36 LINK ND1 HIS A 22 ZN ZN A 139 1555 1555 2.09 LINK SG CYS A 33 ZN ZN A 138 1555 1555 2.33 LINK SG CYS A 34 ZN ZN A 138 1555 1555 2.36 LINK SG CYS A 40 ZN ZN A 139 1555 1555 2.35 LINK SG CYS A 43 ZN ZN A 139 1555 1555 2.36 LINK NE2 HIS A 44 ZN ZN A 138 1555 1555 2.09 LINK NE2 HIS A 50 ZN ZN A 138 1555 1555 2.08 LINK SG CYS A 62 ZN ZN A 140 1555 1555 2.32 LINK SG CYS A 65 ZN ZN A 140 1555 1555 2.36 LINK SG CYS A 75 ZN ZN A 140 1555 1555 2.34 LINK SG CYS A 78 ZN ZN A 140 1555 1555 2.36 LINK SG CYS A 87 ZN ZN A 141 1555 1555 2.30 LINK SG CYS A 90 ZN ZN A 141 1555 1555 2.33 LINK ND1 HIS A 101 ZN ZN A 141 1555 1555 2.13 LINK SG CYS A 102 ZN ZN A 142 1555 1555 2.32 LINK SG CYS A 105 ZN ZN A 142 1555 1555 2.34 LINK SG CYS A 108 ZN ZN A 141 1555 1555 2.36 LINK ND1 HIS A 118 ZN ZN A 142 1555 1555 2.09 LINK SG CYS A 119 ZN ZN A 143 1555 1555 2.37 LINK SG CYS A 122 ZN ZN A 143 1555 1555 2.34 LINK SG CYS A 125 ZN ZN A 142 1555 1555 2.35 LINK ND1 HIS A 134 ZN ZN A 143 1555 1555 2.09 LINK SG CYS A 136 ZN ZN A 143 1555 1555 2.39 SITE 1 AC1 4 ALA A 31 CYS A 33 CYS A 34 HIS A 44 SITE 1 AC2 3 CYS A 20 GLU A 21 HIS A 22 SITE 1 AC3 4 CYS A 62 ASN A 64 CYS A 65 LYS A 67 SITE 1 AC4 4 CYS A 87 ILE A 89 CYS A 90 HIS A 101 SITE 1 AC5 3 CYS A 102 ASN A 104 CYS A 105 SITE 1 AC6 4 CYS A 119 LYS A 121 LEU A 126 HIS A 134 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