PDB Short entry for 2YTA HEADER METAL BINDING PROTEIN 05-APR-07 2YTA TITLE SOLUTION STRUCTURE OF C2H2 TYPE ZINC FINGER DOMAIN 3 IN ZINC FINGER TITLE 2 PROTEIN 32 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZINC FINGER PROTEIN 32; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ZINC-FINGER MOTIF; COMPND 5 SYNONYM: ZINC FINGER PROTEIN KOX30, C2H2-546; 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: ZNF32, KOX30; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P061204-05; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS ZINC-FINGER DOMAIN, C2H2, STRUCTURAL GENOMICS, NPPSFA, NATIONAL KEYWDS 2 PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN KEYWDS 3 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, METAL BINDING KEYWDS 4 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.KASAHARA,K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA,M.SHIROUZU, AUTHOR 2 S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 16-MAR-22 2YTA 1 REMARK SEQADV REVDAT 2 24-FEB-09 2YTA 1 VERSN REVDAT 1 09-OCT-07 2YTA 0 JRNL AUTH N.KASAHARA,K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA, JRNL AUTH 2 M.SHIROUZU,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF C2H2 TYPE ZINC FINGER DOMAIN 3 IN ZINC JRNL TITL 2 FINGER PROTEIN 32 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUTERT,P (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2YTA COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000027106. 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 : 20MM D-TRIS-HCL(PH7.0), 100MM REMARK 210 NACL, 1MM D-DTT, 0.02% NAN3, REMARK 210 0.05MM ZNCL2 +1MM IDA, 90% H2O, REMARK 210 10% D2O 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 : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20060702, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9820, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 RESTRAINTED MOLECULAR 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, STRUCTURES REMARK 210 WITH THE LOWEST ENERGY, 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 167 -65.66 -172.92 REMARK 500 2 SER A 133 34.56 -160.10 REMARK 500 2 PRO A 166 -176.02 -69.79 REMARK 500 2 SER A 168 -71.62 -63.94 REMARK 500 3 SER A 130 28.08 -152.60 REMARK 500 3 SER A 131 179.83 59.42 REMARK 500 3 SER A 164 -172.38 58.70 REMARK 500 4 SER A 133 71.17 59.06 REMARK 500 4 SER A 164 172.11 61.72 REMARK 500 5 PRO A 166 78.72 -69.69 REMARK 500 5 SER A 168 -73.88 -178.63 REMARK 500 6 SER A 131 42.96 -144.57 REMARK 500 6 SER A 134 -42.51 -140.43 REMARK 500 6 SER A 164 77.53 57.71 REMARK 500 6 SER A 167 -45.45 -169.01 REMARK 500 7 SER A 133 -171.01 55.90 REMARK 500 7 SER A 134 45.27 -145.84 REMARK 500 7 PRO A 166 -171.22 -69.76 REMARK 500 7 SER A 168 41.19 -105.22 REMARK 500 8 SER A 164 -177.45 60.59 REMARK 500 8 PRO A 166 78.91 -69.76 REMARK 500 8 SER A 168 -71.18 -179.24 REMARK 500 9 SER A 164 165.06 62.61 REMARK 500 9 PRO A 166 78.78 -69.76 REMARK 500 9 SER A 168 -68.80 -178.57 REMARK 500 10 SER A 133 39.67 -170.12 REMARK 500 10 PRO A 166 -179.29 -69.79 REMARK 500 11 SER A 134 -55.73 -157.44 REMARK 500 11 LYS A 146 -179.56 -69.79 REMARK 500 11 PRO A 166 -171.35 -69.79 REMARK 500 12 SER A 164 -64.01 -171.60 REMARK 500 12 PRO A 166 92.57 -69.79 REMARK 500 12 SER A 167 90.91 55.45 REMARK 500 13 SER A 131 135.11 -175.06 REMARK 500 13 PRO A 166 -173.21 -69.72 REMARK 500 14 SER A 133 63.53 -104.02 REMARK 500 14 SER A 164 98.51 62.51 REMARK 500 14 PRO A 166 -172.48 -69.78 REMARK 500 14 SER A 168 -67.11 -94.21 REMARK 500 15 SER A 130 162.72 63.14 REMARK 500 16 SER A 133 145.00 -177.22 REMARK 500 16 SER A 134 31.66 -142.40 REMARK 500 16 SER A 164 -68.60 -125.62 REMARK 500 16 PRO A 166 -172.27 -69.78 REMARK 500 16 SER A 168 -74.12 -103.55 REMARK 500 17 SER A 130 -170.74 52.81 REMARK 500 17 SER A 133 90.97 58.96 REMARK 500 17 PRO A 166 -170.03 -69.83 REMARK 500 17 SER A 167 102.08 -53.81 REMARK 500 18 PRO A 166 -175.34 -69.76 REMARK 500 REMARK 500 THIS ENTRY HAS 55 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 141 SG REMARK 620 2 CYS A 144 SG 115.4 REMARK 620 3 HIS A 157 NE2 111.1 101.4 REMARK 620 4 HIS A 161 NE2 98.8 124.0 106.0 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002014866.3 RELATED DB: TARGETDB DBREF 2YTA A 136 163 UNP P17041 ZNF32_HUMAN 129 156 SEQADV 2YTA GLY A 129 UNP P17041 EXPRESSION TAG SEQADV 2YTA SER A 130 UNP P17041 EXPRESSION TAG SEQADV 2YTA SER A 131 UNP P17041 EXPRESSION TAG SEQADV 2YTA GLY A 132 UNP P17041 EXPRESSION TAG SEQADV 2YTA SER A 133 UNP P17041 EXPRESSION TAG SEQADV 2YTA SER A 134 UNP P17041 EXPRESSION TAG SEQADV 2YTA GLY A 135 UNP P17041 EXPRESSION TAG SEQADV 2YTA SER A 164 UNP P17041 EXPRESSION TAG SEQADV 2YTA GLY A 165 UNP P17041 EXPRESSION TAG SEQADV 2YTA PRO A 166 UNP P17041 EXPRESSION TAG SEQADV 2YTA SER A 167 UNP P17041 EXPRESSION TAG SEQADV 2YTA SER A 168 UNP P17041 EXPRESSION TAG SEQADV 2YTA GLY A 169 UNP P17041 EXPRESSION TAG SEQRES 1 A 41 GLY SER SER GLY SER SER GLY GLU LYS PRO TYR GLN CYS SEQRES 2 A 41 LYS GLU CYS GLY LYS SER PHE SER GLN ARG GLY SER LEU SEQRES 3 A 41 ALA VAL HIS GLU ARG LEU HIS THR GLY SER GLY PRO SER SEQRES 4 A 41 SER GLY HET ZN A 201 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 GLN A 150 LEU A 160 1 11 LINK SG CYS A 141 ZN ZN A 201 1555 1555 2.39 LINK SG CYS A 144 ZN ZN A 201 1555 1555 2.19 LINK NE2 HIS A 157 ZN ZN A 201 1555 1555 2.09 LINK NE2 HIS A 161 ZN ZN A 201 1555 1555 1.98 SITE 1 AC1 4 CYS A 141 CYS A 144 HIS A 157 HIS A 161 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