HEADER TRANSCRIPTION 14-MAY-08 2RPC TITLE SOLUTION STRUCTURE OF THE TANDEM ZF-C2H2 DOMAINS FROM THE HUMAN ZINC TITLE 2 FINGER PROTEIN ZIC 3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZINC FINGER PROTEIN ZIC 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C2H2 DOMAINS, UNP RESIDUES 245-386; COMPND 5 SYNONYM: ZINC FINGER PROTEIN OF THE CEREBELLUM 3; COMPND 6 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: ZIC3; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYSTEM; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: P071029-02 KEYWDS ZF-C2H2, ZINC FINGER PROTEIN OF THE CEREBELLUM 3, ZIC3, DISEASE KEYWDS 2 MUTATION, DNA-BINDING, METAL-BINDING, NUCLEUS, POLYMORPHISM, KEYWDS 3 TRANSCRIPTION, TRANSCRIPTION REGULATION, ZINC, ZINC-FINGER, KEYWDS 4 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 5 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 6 INITIATIVE, RSGI EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.TOMIZAWA,T.KIGAWA,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 2 INITIATIVE (RSGI) REVDAT 2 16-MAR-22 2RPC 1 REMARK SEQADV REVDAT 1 31-MAR-09 2RPC 0 JRNL AUTH M.HATAYAMA,T.TOMIZAWA,K.SAKAI-KATO,P.BOUVAGNET,S.KOSE, JRNL AUTH 2 N.IMAMOTO,S.YOKOYAMA,N.UTSUNOMIYA-TATE,K.MIKOSHIBA,T.KIGAWA, JRNL AUTH 3 J.ARUGA JRNL TITL FUNCTIONAL AND STRUCTURAL BASIS OF THE NUCLEAR LOCALIZATION JRNL TITL 2 SIGNAL IN THE ZIC3 ZINC FINGER DOMAIN JRNL REF HUM.MOL.GENET. V. 17 3459 2008 JRNL REFN ISSN 0964-6906 JRNL PMID 18716025 JRNL DOI 10.1093/HMG/DDN239 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, CYANA REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), GUNTERT, MUMENTHALER AND REMARK 3 WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RPC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-MAY-08. REMARK 100 THE DEPOSITION ID IS D_1000150122. 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 : 120 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.57MM [U-13C; U-15N] ZINC REMARK 210 FINGER PROTEIN ZIC 3; 20MM [U-2H] REMARK 210 TRIS; 100MM SODIUM CHLORIDE; REMARK 210 1MM [U-2H] DTT; 0.02 % SODIUM REMARK 210 AZIDE; 0.05MM ZNCL2; 1MM IDA; 10% REMARK 210 [U-2H] D2O; 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW, KUJIRA, CYANA 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 : TARGET 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 PRO A 9 -163.66 -69.80 REMARK 500 1 LYS A 28 125.43 -32.92 REMARK 500 1 HIS A 49 -71.77 -140.41 REMARK 500 1 PRO A 53 2.24 -69.80 REMARK 500 1 ASN A 56 -74.09 -78.13 REMARK 500 1 GLU A 64 32.99 -159.31 REMARK 500 1 ILE A 82 -18.99 -49.38 REMARK 500 1 PRO A 92 -163.89 -69.72 REMARK 500 1 PRO A 94 3.20 -69.76 REMARK 500 1 CYS A 98 -42.95 -132.73 REMARK 500 1 CYS A 123 126.09 -38.41 REMARK 500 1 THR A 146 -32.34 -34.70 REMARK 500 2 SER A 3 114.54 -160.64 REMARK 500 2 PRO A 9 -164.09 -69.77 REMARK 500 2 LYS A 28 108.57 -46.71 REMARK 500 2 CYS A 31 101.13 -49.99 REMARK 500 2 HIS A 49 -73.72 -142.47 REMARK 500 2 ASN A 56 -76.69 -84.28 REMARK 500 2 GLU A 64 33.71 -158.74 REMARK 500 2 LYS A 70 104.69 -39.28 REMARK 500 2 THR A 86 -77.61 -85.59 REMARK 500 2 PRO A 92 -164.45 -69.74 REMARK 500 2 PRO A 94 3.48 -69.76 REMARK 500 2 CYS A 98 -58.90 -134.61 REMARK 500 2 SER A 154 95.18 -36.17 REMARK 500 3 GLU A 21 -72.52 -55.45 REMARK 500 3 ALA A 22 41.69 -85.49 REMARK 500 3 LYS A 28 108.32 -47.16 REMARK 500 3 HIS A 49 -73.80 -142.88 REMARK 500 3 ASN A 56 -67.99 -99.89 REMARK 500 3 GLU A 64 33.24 -158.79 REMARK 500 3 SER A 71 170.33 -47.05 REMARK 500 3 PRO A 92 -163.83 -69.83 REMARK 500 3 PRO A 94 2.99 -69.77 REMARK 500 3 CYS A 98 -44.02 -133.76 REMARK 500 3 ARG A 131 118.27 -164.30 REMARK 500 3 LYS A 149 92.31 -41.86 REMARK 500 4 SER A 6 175.20 -56.75 REMARK 500 4 LYS A 28 114.19 -33.36 REMARK 500 4 CYS A 31 176.33 -52.47 REMARK 500 4 HIS A 49 -74.18 -142.99 REMARK 500 4 ASN A 56 -77.82 -35.65 REMARK 500 4 GLU A 64 31.95 -154.50 REMARK 500 4 GLU A 68 32.49 71.16 REMARK 500 4 PRO A 92 -165.70 -69.71 REMARK 500 4 PRO A 94 3.27 -69.71 REMARK 500 4 THR A 116 144.65 -174.66 REMARK 500 5 SER A 2 -175.53 -170.92 REMARK 500 5 HIS A 49 -71.74 -140.67 REMARK 500 5 ASN A 56 -76.66 -35.85 REMARK 500 REMARK 500 THIS ENTRY HAS 260 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 16 SG REMARK 620 2 CYS A 31 SG 102.9 REMARK 620 3 HIS A 44 NE2 100.5 112.1 REMARK 620 4 HIS A 49 NE2 122.7 97.5 119.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 60 SG REMARK 620 2 CYS A 65 SG 139.5 REMARK 620 3 HIS A 81 NE2 108.8 102.3 REMARK 620 4 HIS A 85 NE2 102.8 102.5 90.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 93 SG REMARK 620 2 CYS A 98 SG 116.7 REMARK 620 3 HIS A 111 NE2 118.5 111.6 REMARK 620 4 HIS A 115 NE2 114.4 100.0 91.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 123 SG REMARK 620 2 CYS A 128 SG 120.1 REMARK 620 3 HIS A 141 NE2 116.5 110.4 REMARK 620 4 HIS A 145 NE2 106.7 106.3 92.5 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 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 801 DBREF 2RPC A 8 149 UNP O60481 ZIC3_HUMAN 245 386 SEQADV 2RPC GLY A 1 UNP O60481 EXPRESSION TAG SEQADV 2RPC SER A 2 UNP O60481 EXPRESSION TAG SEQADV 2RPC SER A 3 UNP O60481 EXPRESSION TAG SEQADV 2RPC GLY A 4 UNP O60481 EXPRESSION TAG SEQADV 2RPC SER A 5 UNP O60481 EXPRESSION TAG SEQADV 2RPC SER A 6 UNP O60481 EXPRESSION TAG SEQADV 2RPC GLY A 7 UNP O60481 EXPRESSION TAG SEQADV 2RPC SER A 150 UNP O60481 EXPRESSION TAG SEQADV 2RPC GLY A 151 UNP O60481 EXPRESSION TAG SEQADV 2RPC PRO A 152 UNP O60481 EXPRESSION TAG SEQADV 2RPC SER A 153 UNP O60481 EXPRESSION TAG SEQADV 2RPC SER A 154 UNP O60481 EXPRESSION TAG SEQADV 2RPC GLY A 155 UNP O60481 EXPRESSION TAG SEQRES 1 A 155 GLY SER SER GLY SER SER GLY GLN PRO ILE LYS GLN GLU SEQRES 2 A 155 LEU SER CYS LYS TRP ILE ASP GLU ALA GLN LEU SER ARG SEQRES 3 A 155 PRO LYS LYS SER CYS ASP ARG THR PHE SER THR MET HIS SEQRES 4 A 155 GLU LEU VAL THR HIS VAL THR MET GLU HIS VAL GLY GLY SEQRES 5 A 155 PRO GLU GLN ASN ASN HIS VAL CYS TYR TRP GLU GLU CYS SEQRES 6 A 155 PRO ARG GLU GLY LYS SER PHE LYS ALA LYS TYR LYS LEU SEQRES 7 A 155 VAL ASN HIS ILE ARG VAL HIS THR GLY GLU LYS PRO PHE SEQRES 8 A 155 PRO CYS PRO PHE PRO GLY CYS GLY LYS ILE PHE ALA ARG SEQRES 9 A 155 SER GLU ASN LEU LYS ILE HIS LYS ARG THR HIS THR GLY SEQRES 10 A 155 GLU LYS PRO PHE LYS CYS GLU PHE GLU GLY CYS ASP ARG SEQRES 11 A 155 ARG PHE ALA ASN SER SER ASP ARG LYS LYS HIS MET HIS SEQRES 12 A 155 VAL HIS THR SER ASP LYS SER GLY PRO SER SER GLY HET ZN A 201 1 HET ZN A 401 1 HET ZN A 601 1 HET ZN A 801 1 HETNAM ZN ZINC ION FORMUL 2 ZN 4(ZN 2+) HELIX 1 1 THR A 37 MET A 47 1 11 HELIX 2 2 ALA A 74 ILE A 82 1 9 HELIX 3 3 ILE A 82 GLY A 87 1 6 HELIX 4 4 ARG A 104 ARG A 113 1 10 HELIX 5 5 ASN A 134 HIS A 141 1 8 SHEET 1 A 2 PHE A 91 PRO A 92 0 SHEET 2 A 2 ILE A 101 PHE A 102 -1 O PHE A 102 N PHE A 91 LINK SG CYS A 16 ZN ZN A 201 1555 1555 2.20 LINK SG CYS A 31 ZN ZN A 201 1555 1555 2.36 LINK NE2 HIS A 44 ZN ZN A 201 1555 1555 2.12 LINK NE2 HIS A 49 ZN ZN A 201 1555 1555 2.04 LINK SG CYS A 60 ZN ZN A 401 1555 1555 2.13 LINK SG CYS A 65 ZN ZN A 401 1555 1555 2.14 LINK NE2 HIS A 81 ZN ZN A 401 1555 1555 2.12 LINK NE2 HIS A 85 ZN ZN A 401 1555 1555 2.11 LINK SG CYS A 93 ZN ZN A 601 1555 1555 2.20 LINK SG CYS A 98 ZN ZN A 601 1555 1555 2.35 LINK NE2 HIS A 111 ZN ZN A 601 1555 1555 2.09 LINK NE2 HIS A 115 ZN ZN A 601 1555 1555 2.11 LINK SG CYS A 123 ZN ZN A 801 1555 1555 2.25 LINK SG CYS A 128 ZN ZN A 801 1555 1555 2.30 LINK NE2 HIS A 141 ZN ZN A 801 1555 1555 2.06 LINK NE2 HIS A 145 ZN ZN A 801 1555 1555 2.09 CISPEP 1 ARG A 26 PRO A 27 1 0.00 CISPEP 2 ARG A 26 PRO A 27 2 -0.02 CISPEP 3 ARG A 26 PRO A 27 3 -0.02 CISPEP 4 ARG A 26 PRO A 27 4 -0.02 CISPEP 5 ARG A 26 PRO A 27 5 -0.05 CISPEP 6 ARG A 26 PRO A 27 6 -0.02 CISPEP 7 ARG A 26 PRO A 27 7 -0.01 CISPEP 8 ARG A 26 PRO A 27 8 -0.03 CISPEP 9 ARG A 26 PRO A 27 9 -0.02 CISPEP 10 ARG A 26 PRO A 27 10 0.07 CISPEP 11 ARG A 26 PRO A 27 11 0.03 CISPEP 12 ARG A 26 PRO A 27 12 -0.02 CISPEP 13 ARG A 26 PRO A 27 13 -0.02 CISPEP 14 ARG A 26 PRO A 27 14 0.01 CISPEP 15 ARG A 26 PRO A 27 15 0.05 CISPEP 16 ARG A 26 PRO A 27 16 -0.02 CISPEP 17 ARG A 26 PRO A 27 17 -0.02 CISPEP 18 ARG A 26 PRO A 27 18 0.02 CISPEP 19 ARG A 26 PRO A 27 19 0.09 CISPEP 20 ARG A 26 PRO A 27 20 0.02 SITE 1 AC1 4 CYS A 16 CYS A 31 HIS A 44 HIS A 49 SITE 1 AC2 4 CYS A 60 CYS A 65 HIS A 81 HIS A 85 SITE 1 AC3 4 CYS A 93 CYS A 98 HIS A 111 HIS A 115 SITE 1 AC4 5 CYS A 123 PHE A 125 CYS A 128 HIS A 141 SITE 2 AC4 5 HIS A 145 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