HEADER HYDROLASE 11-DEC-08 2RPZ TITLE SOLUTION STRUCTURE OF THE MONOMERIC FORM OF MOUSE APOBEC2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE C->U-EDITING ENZYME APOBEC-2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 46-224; COMPND 5 EC: 3.5.4.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: P021021-43 KEYWDS CYTIDINE DEAMINASE, HYDROLASE, METAL-BINDING, MRNA PROCESSING, ZINC, KEYWDS 2 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 3 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR F.HAYASHI,T.NAGATA,T.NAGASHIMA,Y.MUTO,M.INOUE,T.KIGAWA,S.YOKOYAMA, AUTHOR 2 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 2 16-MAR-22 2RPZ 1 REMARK SEQADV REVDAT 1 22-DEC-09 2RPZ 0 JRNL AUTH F.HAYASHI,T.UMEHARA,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE MONOMERIC FORM OF MOUSE APOBEC2 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, KUJIRA 0.9839 REMARK 3 AUTHORS : VARIAN (VNMR), KOBAYASHI, IWAHARA, KOSHIBA, REMARK 3 TOMIZAWA, TOCHIO, GUNTERT, KIGAWA, AND YOKOYAMA REMARK 3 (KUJIRA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RPZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1000150145. 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 : 20 MM [U-2H] TRIS-1, 100 MM REMARK 210 SODIUM CHLORIDE-2, 1 MM [U-2H] REMARK 210 DTT-3, 0.02 % SODIUM AZIDE-4, REMARK 210 0.1 MM ZINC ION-5, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCO; 3D HN(CO)CA; 3D HNCACB; REMARK 210 3D CBCA(CO)NH; 3D HBHA(CO)NH; 3D REMARK 210 HBHAHN; 3D HCCH-TOCSY; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW, KUJIRA 0.9839 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 SER A 40 27.72 46.94 REMARK 500 1 SER A 43 -74.29 -118.67 REMARK 500 1 GLN A 55 -62.45 -95.45 REMARK 500 1 ASN A 58 89.86 -46.21 REMARK 500 1 TYR A 61 34.22 -84.23 REMARK 500 1 ASN A 66 -75.16 -109.79 REMARK 500 1 ALA A 95 85.18 -160.08 REMARK 500 1 ALA A 102 -26.38 -38.75 REMARK 500 1 PHE A 103 -73.85 -62.66 REMARK 500 1 THR A 106 -41.39 -134.68 REMARK 500 1 ILE A 107 -73.57 -57.80 REMARK 500 1 LEU A 108 76.12 -107.62 REMARK 500 1 PRO A 113 5.87 -69.83 REMARK 500 1 ASP A 133 -72.64 -70.05 REMARK 500 1 MET A 179 95.88 -34.03 REMARK 500 1 ASN A 190 -63.97 -109.40 REMARK 500 1 SER A 199 110.37 -165.47 REMARK 500 1 LYS A 200 -166.00 -107.74 REMARK 500 1 ALA A 201 119.96 -165.43 REMARK 500 1 PHE A 202 95.73 -59.78 REMARK 500 1 PRO A 204 92.80 -69.71 REMARK 500 1 ASP A 207 122.91 -175.24 REMARK 500 2 SER A 41 -53.65 -121.70 REMARK 500 2 SER A 43 -75.65 -78.88 REMARK 500 2 ASN A 50 -32.46 -37.02 REMARK 500 2 PHE A 51 -60.86 -95.31 REMARK 500 2 LYS A 53 -37.75 -34.40 REMARK 500 2 LYS A 67 94.42 -49.62 REMARK 500 2 ALA A 95 62.71 -158.16 REMARK 500 2 ALA A 102 -26.41 -38.36 REMARK 500 2 THR A 106 -41.87 -134.73 REMARK 500 2 ILE A 107 -72.98 -71.31 REMARK 500 2 LEU A 108 71.49 -108.14 REMARK 500 2 PRO A 113 6.35 -69.81 REMARK 500 2 ASP A 133 -71.62 -72.83 REMARK 500 2 MET A 156 41.68 34.44 REMARK 500 2 MET A 179 93.56 -34.46 REMARK 500 2 SER A 199 109.17 -178.29 REMARK 500 2 ALA A 201 118.40 -165.69 REMARK 500 2 PHE A 202 100.28 -56.86 REMARK 500 2 ASP A 207 106.47 -171.82 REMARK 500 2 GLN A 209 -64.40 -93.48 REMARK 500 2 TYR A 214 -39.52 -34.75 REMARK 500 2 SER A 225 -61.17 -132.40 REMARK 500 3 SER A 44 -72.76 -34.76 REMARK 500 3 ASN A 50 -34.59 -34.01 REMARK 500 3 GLN A 55 -62.39 -95.84 REMARK 500 3 ASN A 58 49.57 -76.08 REMARK 500 3 ASN A 66 -71.90 -128.50 REMARK 500 3 LYS A 79 92.18 -40.29 REMARK 500 REMARK 500 THIS ENTRY HAS 456 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 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 98 ND1 REMARK 620 2 CYS A 128 SG 107.3 REMARK 620 3 CYS A 131 SG 105.0 102.5 REMARK 620 N 1 2 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 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MMK001001360.1 RELATED DB: TARGETDB DBREF 2RPZ A 46 224 UNP Q9WV35 ABEC2_MOUSE 46 224 SEQADV 2RPZ GLY A 39 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ SER A 40 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ SER A 41 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ GLY A 42 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ SER A 43 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ SER A 44 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ GLY A 45 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ SER A 225 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ GLY A 226 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ PRO A 227 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ SER A 228 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ SER A 229 UNP Q9WV35 EXPRESSION TAG SEQADV 2RPZ GLY A 230 UNP Q9WV35 EXPRESSION TAG SEQRES 1 A 192 GLY SER SER GLY SER SER GLY ARG LEU PRO VAL ASN PHE SEQRES 2 A 192 PHE LYS PHE GLN PHE ARG ASN VAL GLU TYR SER SER GLY SEQRES 3 A 192 ARG ASN LYS THR PHE LEU CYS TYR VAL VAL GLU VAL GLN SEQRES 4 A 192 SER LYS GLY GLY GLN ALA GLN ALA THR GLN GLY TYR LEU SEQRES 5 A 192 GLU ASP GLU HIS ALA GLY ALA HIS ALA GLU GLU ALA PHE SEQRES 6 A 192 PHE ASN THR ILE LEU PRO ALA PHE ASP PRO ALA LEU LYS SEQRES 7 A 192 TYR ASN VAL THR TRP TYR VAL SER SER SER PRO CYS ALA SEQRES 8 A 192 ALA CYS ALA ASP ARG ILE LEU LYS THR LEU SER LYS THR SEQRES 9 A 192 LYS ASN LEU ARG LEU LEU ILE LEU VAL SER ARG LEU PHE SEQRES 10 A 192 MET TRP GLU GLU PRO GLU VAL GLN ALA ALA LEU LYS LYS SEQRES 11 A 192 LEU LYS GLU ALA GLY CYS LYS LEU ARG ILE MET LYS PRO SEQRES 12 A 192 GLN ASP PHE GLU TYR ILE TRP GLN ASN PHE VAL GLU GLN SEQRES 13 A 192 GLU GLU GLY GLU SER LYS ALA PHE GLU PRO TRP GLU ASP SEQRES 14 A 192 ILE GLN GLU ASN PHE LEU TYR TYR GLU GLU LYS LEU ALA SEQRES 15 A 192 ASP ILE LEU LYS SER GLY PRO SER SER GLY HET ZN A 301 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 VAL A 49 PHE A 56 1 8 HELIX 2 2 HIS A 98 ILE A 107 1 10 HELIX 3 3 ALA A 130 SER A 140 1 11 HELIX 4 4 GLU A 161 GLY A 173 1 13 HELIX 5 5 LYS A 180 ASN A 190 1 11 HELIX 6 6 GLN A 209 LYS A 224 1 16 SHEET 1 A 2 LEU A 47 PRO A 48 0 SHEET 2 A 2 VAL A 192 GLU A 193 1 O GLU A 193 N LEU A 47 SHEET 1 B 5 ALA A 85 GLU A 91 0 SHEET 2 B 5 PHE A 69 GLU A 75 -1 N VAL A 74 O THR A 86 SHEET 3 B 5 ASN A 118 VAL A 123 -1 O THR A 120 N VAL A 73 SHEET 4 B 5 ARG A 146 VAL A 151 1 O LEU A 150 N TRP A 121 SHEET 5 B 5 LYS A 175 ARG A 177 1 O LYS A 175 N ILE A 149 LINK ND1 HIS A 98 ZN ZN A 301 1555 1555 2.06 LINK SG CYS A 128 ZN ZN A 301 1555 1555 2.35 LINK SG CYS A 131 ZN ZN A 301 1555 1555 2.34 SITE 1 AC1 6 ASP A 92 HIS A 98 GLU A 100 GLU A 101 SITE 2 AC1 6 SER A 126 PRO A 127 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