HEADER CHAPERONE 02-JAN-24 8VHI TITLE NPM2-H1.8 ISOLATED FROM XENOPUS EGG EXTRACT COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOPLASMIN ISOFORM X1; COMPND 3 CHAIN: A, B, C, D, E SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 3 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 4 ORGANISM_TAXID: 8355 KEYWDS H1, XENOPUS EGG EXTRACT, MAGIC-CRYO-EM, HISTONE CHAPERONE, CHAPERONE EXPDTA ELECTRON MICROSCOPY AUTHOR Y.ARIMURA,H.FUNABIKI REVDAT 2 04-JUN-25 8VHI 1 JRNL REMARK REVDAT 1 11-DEC-24 8VHI 0 JRNL AUTH Y.ARIMURA,H.A.KONISHI,H.FUNABIKI JRNL TITL MAGIC-CRYO-EM, STRUCTURAL DETERMINATION ON MAGNETIC BEADS JRNL TITL 2 FOR SCARCE MACROMOLECULES IN HETEROGENEOUS SAMPLES. JRNL REF ELIFE V. 13 2025 JRNL REFN ESSN 2050-084X JRNL PMID 40390365 JRNL DOI 10.7554/ELIFE.103486 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.ARIMURA,H.A.KONISHI,H.FUNABIKI REMARK 1 TITL MAGIC-CRYO-EM: STRUCTURAL DETERMINATION ON MAGNETIC BEADS REMARK 1 TITL 2 FOR SCARCE MACROMOLECULES IN HETEROGENEOUS SAMPLES REMARK 1 REF ELIFE 2024 REMARK 1 REFN ESSN 2050-084X REMARK 1 DOI 10.7554/ELIFE.103486.1 REMARK 2 REMARK 2 RESOLUTION. 5.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : SERIALEM, PHENIX, CRYOSPARC, CRYOSPARC, REMARK 3 CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 5.000 REMARK 3 NUMBER OF PARTICLES : 92428 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8VHI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1000280245. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : CELL REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : NPM2 COMPLEXED WITH H1.8 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : THE GRID WAS INCUBATED ON THE REMARK 245 40 X 20 MM N52 NEODYMIUM DISC REMARK 245 MAGNETS FOR 5 MINUTES AND REMARK 245 VITRIFIED USING THE VITROBOT REMARK 245 MARK IV (FEI) WITH A 2-SECOND REMARK 245 BLOTTING TIME AT ROOM REMARK 245 TEMPERATURE UNDER 100% HUMIDITY REMARK 245 CONDITIONS. REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 3500.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5192.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: PENTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 SER A 3 REMARK 465 THR A 4 REMARK 465 VAL A 5 REMARK 465 SER A 6 REMARK 465 ASN A 7 REMARK 465 THR A 8 REMARK 465 SER A 9 REMARK 465 LYS A 10 REMARK 465 LEU A 11 REMARK 465 GLU A 12 REMARK 465 LYS A 13 REMARK 465 PRO A 14 REMARK 465 VAL A 15 REMARK 465 TRP A 126 REMARK 465 ALA A 127 REMARK 465 GLU A 128 REMARK 465 GLU A 129 REMARK 465 GLU A 130 REMARK 465 ASP A 131 REMARK 465 GLU A 132 REMARK 465 GLY A 133 REMARK 465 GLU A 134 REMARK 465 ALA A 135 REMARK 465 GLU A 136 REMARK 465 GLY A 137 REMARK 465 GLU A 138 REMARK 465 GLU A 139 REMARK 465 GLU A 140 REMARK 465 GLU A 141 REMARK 465 GLU A 142 REMARK 465 GLU A 143 REMARK 465 GLU A 144 REMARK 465 GLU A 145 REMARK 465 ASP A 146 REMARK 465 GLN A 147 REMARK 465 GLU A 148 REMARK 465 SER A 149 REMARK 465 PRO A 150 REMARK 465 PRO A 151 REMARK 465 LYS A 152 REMARK 465 ALA A 153 REMARK 465 VAL A 154 REMARK 465 LYS A 155 REMARK 465 ARG A 156 REMARK 465 PRO A 157 REMARK 465 ALA A 158 REMARK 465 ALA A 159 REMARK 465 THR A 160 REMARK 465 LYS A 161 REMARK 465 LYS A 162 REMARK 465 ALA A 163 REMARK 465 GLY A 164 REMARK 465 GLN A 165 REMARK 465 ALA A 166 REMARK 465 LYS A 167 REMARK 465 LYS A 168 REMARK 465 LYS A 169 REMARK 465 LEU A 170 REMARK 465 ASP A 171 REMARK 465 LYS A 172 REMARK 465 GLU A 173 REMARK 465 ASP A 174 REMARK 465 GLU A 175 REMARK 465 SER A 176 REMARK 465 SER A 177 REMARK 465 GLU A 178 REMARK 465 GLU A 179 REMARK 465 ASP A 180 REMARK 465 SER A 181 REMARK 465 PRO A 182 REMARK 465 THR A 183 REMARK 465 LYS A 184 REMARK 465 LYS A 185 REMARK 465 GLY A 186 REMARK 465 LYS A 187 REMARK 465 GLY A 188 REMARK 465 ALA A 189 REMARK 465 GLY A 190 REMARK 465 ARG A 191 REMARK 465 GLY A 192 REMARK 465 ARG A 193 REMARK 465 LYS A 194 REMARK 465 PRO A 195 REMARK 465 ALA A 196 REMARK 465 ALA A 197 REMARK 465 LYS A 198 REMARK 465 LYS A 199 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 SER B 3 REMARK 465 THR B 4 REMARK 465 VAL B 5 REMARK 465 SER B 6 REMARK 465 ASN B 7 REMARK 465 THR B 8 REMARK 465 SER B 9 REMARK 465 LYS B 10 REMARK 465 LEU B 11 REMARK 465 GLU B 12 REMARK 465 LYS B 13 REMARK 465 PRO B 14 REMARK 465 VAL B 15 REMARK 465 TRP B 126 REMARK 465 ALA B 127 REMARK 465 GLU B 128 REMARK 465 GLU B 129 REMARK 465 GLU B 130 REMARK 465 ASP B 131 REMARK 465 GLU B 132 REMARK 465 GLY B 133 REMARK 465 GLU B 134 REMARK 465 ALA B 135 REMARK 465 GLU B 136 REMARK 465 GLY B 137 REMARK 465 GLU B 138 REMARK 465 GLU B 139 REMARK 465 GLU B 140 REMARK 465 GLU B 141 REMARK 465 GLU B 142 REMARK 465 GLU B 143 REMARK 465 GLU B 144 REMARK 465 GLU B 145 REMARK 465 ASP B 146 REMARK 465 GLN B 147 REMARK 465 GLU B 148 REMARK 465 SER B 149 REMARK 465 PRO B 150 REMARK 465 PRO B 151 REMARK 465 LYS B 152 REMARK 465 ALA B 153 REMARK 465 VAL B 154 REMARK 465 LYS B 155 REMARK 465 ARG B 156 REMARK 465 PRO B 157 REMARK 465 ALA B 158 REMARK 465 ALA B 159 REMARK 465 THR B 160 REMARK 465 LYS B 161 REMARK 465 LYS B 162 REMARK 465 ALA B 163 REMARK 465 GLY B 164 REMARK 465 GLN B 165 REMARK 465 ALA B 166 REMARK 465 LYS B 167 REMARK 465 LYS B 168 REMARK 465 LYS B 169 REMARK 465 LEU B 170 REMARK 465 ASP B 171 REMARK 465 LYS B 172 REMARK 465 GLU B 173 REMARK 465 ASP B 174 REMARK 465 GLU B 175 REMARK 465 SER B 176 REMARK 465 SER B 177 REMARK 465 GLU B 178 REMARK 465 GLU B 179 REMARK 465 ASP B 180 REMARK 465 SER B 181 REMARK 465 PRO B 182 REMARK 465 THR B 183 REMARK 465 LYS B 184 REMARK 465 LYS B 185 REMARK 465 GLY B 186 REMARK 465 LYS B 187 REMARK 465 GLY B 188 REMARK 465 ALA B 189 REMARK 465 GLY B 190 REMARK 465 ARG B 191 REMARK 465 GLY B 192 REMARK 465 ARG B 193 REMARK 465 LYS B 194 REMARK 465 PRO B 195 REMARK 465 ALA B 196 REMARK 465 ALA B 197 REMARK 465 LYS B 198 REMARK 465 LYS B 199 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 SER C 3 REMARK 465 THR C 4 REMARK 465 VAL C 5 REMARK 465 SER C 6 REMARK 465 ASN C 7 REMARK 465 THR C 8 REMARK 465 SER C 9 REMARK 465 LYS C 10 REMARK 465 LEU C 11 REMARK 465 GLU C 12 REMARK 465 LYS C 13 REMARK 465 PRO C 14 REMARK 465 VAL C 15 REMARK 465 TRP C 126 REMARK 465 ALA C 127 REMARK 465 GLU C 128 REMARK 465 GLU C 129 REMARK 465 GLU C 130 REMARK 465 ASP C 131 REMARK 465 GLU C 132 REMARK 465 GLY C 133 REMARK 465 GLU C 134 REMARK 465 ALA C 135 REMARK 465 GLU C 136 REMARK 465 GLY C 137 REMARK 465 GLU C 138 REMARK 465 GLU C 139 REMARK 465 GLU C 140 REMARK 465 GLU C 141 REMARK 465 GLU C 142 REMARK 465 GLU C 143 REMARK 465 GLU C 144 REMARK 465 GLU C 145 REMARK 465 ASP C 146 REMARK 465 GLN C 147 REMARK 465 GLU C 148 REMARK 465 SER C 149 REMARK 465 PRO C 150 REMARK 465 PRO C 151 REMARK 465 LYS C 152 REMARK 465 ALA C 153 REMARK 465 VAL C 154 REMARK 465 LYS C 155 REMARK 465 ARG C 156 REMARK 465 PRO C 157 REMARK 465 ALA C 158 REMARK 465 ALA C 159 REMARK 465 THR C 160 REMARK 465 LYS C 161 REMARK 465 LYS C 162 REMARK 465 ALA C 163 REMARK 465 GLY C 164 REMARK 465 GLN C 165 REMARK 465 ALA C 166 REMARK 465 LYS C 167 REMARK 465 LYS C 168 REMARK 465 LYS C 169 REMARK 465 LEU C 170 REMARK 465 ASP C 171 REMARK 465 LYS C 172 REMARK 465 GLU C 173 REMARK 465 ASP C 174 REMARK 465 GLU C 175 REMARK 465 SER C 176 REMARK 465 SER C 177 REMARK 465 GLU C 178 REMARK 465 GLU C 179 REMARK 465 ASP C 180 REMARK 465 SER C 181 REMARK 465 PRO C 182 REMARK 465 THR C 183 REMARK 465 LYS C 184 REMARK 465 LYS C 185 REMARK 465 GLY C 186 REMARK 465 LYS C 187 REMARK 465 GLY C 188 REMARK 465 ALA C 189 REMARK 465 GLY C 190 REMARK 465 ARG C 191 REMARK 465 GLY C 192 REMARK 465 ARG C 193 REMARK 465 LYS C 194 REMARK 465 PRO C 195 REMARK 465 ALA C 196 REMARK 465 ALA C 197 REMARK 465 LYS C 198 REMARK 465 LYS C 199 REMARK 465 MET D 1 REMARK 465 ALA D 2 REMARK 465 SER D 3 REMARK 465 THR D 4 REMARK 465 VAL D 5 REMARK 465 SER D 6 REMARK 465 ASN D 7 REMARK 465 THR D 8 REMARK 465 SER D 9 REMARK 465 LYS D 10 REMARK 465 LEU D 11 REMARK 465 GLU D 12 REMARK 465 LYS D 13 REMARK 465 PRO D 14 REMARK 465 VAL D 15 REMARK 465 TRP D 126 REMARK 465 ALA D 127 REMARK 465 GLU D 128 REMARK 465 GLU D 129 REMARK 465 GLU D 130 REMARK 465 ASP D 131 REMARK 465 GLU D 132 REMARK 465 GLY D 133 REMARK 465 GLU D 134 REMARK 465 ALA D 135 REMARK 465 GLU D 136 REMARK 465 GLY D 137 REMARK 465 GLU D 138 REMARK 465 GLU D 139 REMARK 465 GLU D 140 REMARK 465 GLU D 141 REMARK 465 GLU D 142 REMARK 465 GLU D 143 REMARK 465 GLU D 144 REMARK 465 GLU D 145 REMARK 465 ASP D 146 REMARK 465 GLN D 147 REMARK 465 GLU D 148 REMARK 465 SER D 149 REMARK 465 PRO D 150 REMARK 465 PRO D 151 REMARK 465 LYS D 152 REMARK 465 ALA D 153 REMARK 465 VAL D 154 REMARK 465 LYS D 155 REMARK 465 ARG D 156 REMARK 465 PRO D 157 REMARK 465 ALA D 158 REMARK 465 ALA D 159 REMARK 465 THR D 160 REMARK 465 LYS D 161 REMARK 465 LYS D 162 REMARK 465 ALA D 163 REMARK 465 GLY D 164 REMARK 465 GLN D 165 REMARK 465 ALA D 166 REMARK 465 LYS D 167 REMARK 465 LYS D 168 REMARK 465 LYS D 169 REMARK 465 LEU D 170 REMARK 465 ASP D 171 REMARK 465 LYS D 172 REMARK 465 GLU D 173 REMARK 465 ASP D 174 REMARK 465 GLU D 175 REMARK 465 SER D 176 REMARK 465 SER D 177 REMARK 465 GLU D 178 REMARK 465 GLU D 179 REMARK 465 ASP D 180 REMARK 465 SER D 181 REMARK 465 PRO D 182 REMARK 465 THR D 183 REMARK 465 LYS D 184 REMARK 465 LYS D 185 REMARK 465 GLY D 186 REMARK 465 LYS D 187 REMARK 465 GLY D 188 REMARK 465 ALA D 189 REMARK 465 GLY D 190 REMARK 465 ARG D 191 REMARK 465 GLY D 192 REMARK 465 ARG D 193 REMARK 465 LYS D 194 REMARK 465 PRO D 195 REMARK 465 ALA D 196 REMARK 465 ALA D 197 REMARK 465 LYS D 198 REMARK 465 LYS D 199 REMARK 465 MET E 1 REMARK 465 ALA E 2 REMARK 465 SER E 3 REMARK 465 THR E 4 REMARK 465 VAL E 5 REMARK 465 SER E 6 REMARK 465 ASN E 7 REMARK 465 THR E 8 REMARK 465 SER E 9 REMARK 465 LYS E 10 REMARK 465 LEU E 11 REMARK 465 GLU E 12 REMARK 465 LYS E 13 REMARK 465 PRO E 14 REMARK 465 VAL E 15 REMARK 465 TRP E 126 REMARK 465 ALA E 127 REMARK 465 GLU E 128 REMARK 465 GLU E 129 REMARK 465 GLU E 130 REMARK 465 ASP E 131 REMARK 465 GLU E 132 REMARK 465 GLY E 133 REMARK 465 GLU E 134 REMARK 465 ALA E 135 REMARK 465 GLU E 136 REMARK 465 GLY E 137 REMARK 465 GLU E 138 REMARK 465 GLU E 139 REMARK 465 GLU E 140 REMARK 465 GLU E 141 REMARK 465 GLU E 142 REMARK 465 GLU E 143 REMARK 465 GLU E 144 REMARK 465 GLU E 145 REMARK 465 ASP E 146 REMARK 465 GLN E 147 REMARK 465 GLU E 148 REMARK 465 SER E 149 REMARK 465 PRO E 150 REMARK 465 PRO E 151 REMARK 465 LYS E 152 REMARK 465 ALA E 153 REMARK 465 VAL E 154 REMARK 465 LYS E 155 REMARK 465 ARG E 156 REMARK 465 PRO E 157 REMARK 465 ALA E 158 REMARK 465 ALA E 159 REMARK 465 THR E 160 REMARK 465 LYS E 161 REMARK 465 LYS E 162 REMARK 465 ALA E 163 REMARK 465 GLY E 164 REMARK 465 GLN E 165 REMARK 465 ALA E 166 REMARK 465 LYS E 167 REMARK 465 LYS E 168 REMARK 465 LYS E 169 REMARK 465 LEU E 170 REMARK 465 ASP E 171 REMARK 465 LYS E 172 REMARK 465 GLU E 173 REMARK 465 ASP E 174 REMARK 465 GLU E 175 REMARK 465 SER E 176 REMARK 465 SER E 177 REMARK 465 GLU E 178 REMARK 465 GLU E 179 REMARK 465 ASP E 180 REMARK 465 SER E 181 REMARK 465 PRO E 182 REMARK 465 THR E 183 REMARK 465 LYS E 184 REMARK 465 LYS E 185 REMARK 465 GLY E 186 REMARK 465 LYS E 187 REMARK 465 GLY E 188 REMARK 465 ALA E 189 REMARK 465 GLY E 190 REMARK 465 ARG E 191 REMARK 465 GLY E 192 REMARK 465 ARG E 193 REMARK 465 LYS E 194 REMARK 465 PRO E 195 REMARK 465 ALA E 196 REMARK 465 ALA E 197 REMARK 465 LYS E 198 REMARK 465 LYS E 199 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ILE D 65 OG SER D 75 1.94 REMARK 500 O ILE C 65 OG SER C 75 1.94 REMARK 500 O ILE A 65 OG SER A 75 1.94 REMARK 500 O ILE E 65 OG SER E 75 1.94 REMARK 500 O ILE B 65 OG SER B 75 1.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 61 CE1 HIS A 61 NE2 -0.076 REMARK 500 HIS A 61 NE2 HIS A 61 CD2 -0.071 REMARK 500 HIS B 61 CE1 HIS B 61 NE2 -0.076 REMARK 500 HIS B 61 NE2 HIS B 61 CD2 -0.071 REMARK 500 HIS C 61 CE1 HIS C 61 NE2 -0.075 REMARK 500 HIS C 61 NE2 HIS C 61 CD2 -0.072 REMARK 500 HIS D 61 CE1 HIS D 61 NE2 -0.076 REMARK 500 HIS D 61 NE2 HIS D 61 CD2 -0.071 REMARK 500 HIS E 61 CE1 HIS E 61 NE2 -0.076 REMARK 500 HIS E 61 NE2 HIS E 61 CD2 -0.071 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 70 26.63 45.72 REMARK 500 ILE A 85 -62.45 -122.41 REMARK 500 MET A 91 50.84 -93.61 REMARK 500 GLU B 70 26.67 45.74 REMARK 500 ILE B 85 -62.38 -122.43 REMARK 500 MET B 91 50.90 -93.60 REMARK 500 GLU C 70 26.63 45.72 REMARK 500 ILE C 85 -62.40 -122.44 REMARK 500 MET C 91 50.97 -93.69 REMARK 500 GLU D 70 26.65 45.68 REMARK 500 ILE D 85 -62.41 -122.46 REMARK 500 MET D 91 50.92 -93.67 REMARK 500 GLU E 70 26.60 45.76 REMARK 500 ILE E 85 -62.35 -122.46 REMARK 500 MET E 91 50.87 -93.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 HIS A 61 0.09 SIDE CHAIN REMARK 500 HIS B 61 0.09 SIDE CHAIN REMARK 500 HIS C 61 0.09 SIDE CHAIN REMARK 500 HIS D 61 0.09 SIDE CHAIN REMARK 500 HIS E 61 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-43238 RELATED DB: EMDB REMARK 900 NPM2-H1.8 ISOLATED FROM XENOPUS EGG EXTRACT DBREF1 8VHI A 1 199 UNP A0A1L8H245_XENLA DBREF2 8VHI A A0A1L8H245 1 199 DBREF1 8VHI B 1 199 UNP A0A1L8H245_XENLA DBREF2 8VHI B A0A1L8H245 1 199 DBREF1 8VHI C 1 199 UNP A0A1L8H245_XENLA DBREF2 8VHI C A0A1L8H245 1 199 DBREF1 8VHI D 1 199 UNP A0A1L8H245_XENLA DBREF2 8VHI D A0A1L8H245 1 199 DBREF1 8VHI E 1 199 UNP A0A1L8H245_XENLA DBREF2 8VHI E A0A1L8H245 1 199 SEQRES 1 A 199 MET ALA SER THR VAL SER ASN THR SER LYS LEU GLU LYS SEQRES 2 A 199 PRO VAL SER LEU ILE TRP GLY CYS GLU LEU ASN GLU GLN SEQRES 3 A 199 ASN LYS THR PHE GLU PHE LYS VAL GLU ASP ASP GLU GLU SEQRES 4 A 199 LYS CYS GLU HIS GLN LEU ALA LEU ARG THR VAL CYS LEU SEQRES 5 A 199 GLY ASP LYS ALA LYS ASP GLU PHE HIS ILE VAL GLU ILE SEQRES 6 A 199 VAL THR GLN GLU GLU GLY ALA GLU LYS SER VAL PRO ILE SEQRES 7 A 199 ALA THR LEU LYS PRO SER ILE LEU PRO MET ALA THR MET SEQRES 8 A 199 VAL GLY ILE GLU LEU THR PRO PRO VAL THR PHE ARG LEU SEQRES 9 A 199 LYS ALA GLY SER GLY PRO LEU TYR ILE SER GLY GLN HIS SEQRES 10 A 199 VAL ALA MET GLU GLU ASP TYR SER TRP ALA GLU GLU GLU SEQRES 11 A 199 ASP GLU GLY GLU ALA GLU GLY GLU GLU GLU GLU GLU GLU SEQRES 12 A 199 GLU GLU ASP GLN GLU SER PRO PRO LYS ALA VAL LYS ARG SEQRES 13 A 199 PRO ALA ALA THR LYS LYS ALA GLY GLN ALA LYS LYS LYS SEQRES 14 A 199 LEU ASP LYS GLU ASP GLU SER SER GLU GLU ASP SER PRO SEQRES 15 A 199 THR LYS LYS GLY LYS GLY ALA GLY ARG GLY ARG LYS PRO SEQRES 16 A 199 ALA ALA LYS LYS SEQRES 1 B 199 MET ALA SER THR VAL SER ASN THR SER LYS LEU GLU LYS SEQRES 2 B 199 PRO VAL SER LEU ILE TRP GLY CYS GLU LEU ASN GLU GLN SEQRES 3 B 199 ASN LYS THR PHE GLU PHE LYS VAL GLU ASP ASP GLU GLU SEQRES 4 B 199 LYS CYS GLU HIS GLN LEU ALA LEU ARG THR VAL CYS LEU SEQRES 5 B 199 GLY ASP LYS ALA LYS ASP GLU PHE HIS ILE VAL GLU ILE SEQRES 6 B 199 VAL THR GLN GLU GLU GLY ALA GLU LYS SER VAL PRO ILE SEQRES 7 B 199 ALA THR LEU LYS PRO SER ILE LEU PRO MET ALA THR MET SEQRES 8 B 199 VAL GLY ILE GLU LEU THR PRO PRO VAL THR PHE ARG LEU SEQRES 9 B 199 LYS ALA GLY SER GLY PRO LEU TYR ILE SER GLY GLN HIS SEQRES 10 B 199 VAL ALA MET GLU GLU ASP TYR SER TRP ALA GLU GLU GLU SEQRES 11 B 199 ASP GLU GLY GLU ALA GLU GLY GLU GLU GLU GLU GLU GLU SEQRES 12 B 199 GLU GLU ASP GLN GLU SER PRO PRO LYS ALA VAL LYS ARG SEQRES 13 B 199 PRO ALA ALA THR LYS LYS ALA GLY GLN ALA LYS LYS LYS SEQRES 14 B 199 LEU ASP LYS GLU ASP GLU SER SER GLU GLU ASP SER PRO SEQRES 15 B 199 THR LYS LYS GLY LYS GLY ALA GLY ARG GLY ARG LYS PRO SEQRES 16 B 199 ALA ALA LYS LYS SEQRES 1 C 199 MET ALA SER THR VAL SER ASN THR SER LYS LEU GLU LYS SEQRES 2 C 199 PRO VAL SER LEU ILE TRP GLY CYS GLU LEU ASN GLU GLN SEQRES 3 C 199 ASN LYS THR PHE GLU PHE LYS VAL GLU ASP ASP GLU GLU SEQRES 4 C 199 LYS CYS GLU HIS GLN LEU ALA LEU ARG THR VAL CYS LEU SEQRES 5 C 199 GLY ASP LYS ALA LYS ASP GLU PHE HIS ILE VAL GLU ILE SEQRES 6 C 199 VAL THR GLN GLU GLU GLY ALA GLU LYS SER VAL PRO ILE SEQRES 7 C 199 ALA THR LEU LYS PRO SER ILE LEU PRO MET ALA THR MET SEQRES 8 C 199 VAL GLY ILE GLU LEU THR PRO PRO VAL THR PHE ARG LEU SEQRES 9 C 199 LYS ALA GLY SER GLY PRO LEU TYR ILE SER GLY GLN HIS SEQRES 10 C 199 VAL ALA MET GLU GLU ASP TYR SER TRP ALA GLU GLU GLU SEQRES 11 C 199 ASP GLU GLY GLU ALA GLU GLY GLU GLU GLU GLU GLU GLU SEQRES 12 C 199 GLU GLU ASP GLN GLU SER PRO PRO LYS ALA VAL LYS ARG SEQRES 13 C 199 PRO ALA ALA THR LYS LYS ALA GLY GLN ALA LYS LYS LYS SEQRES 14 C 199 LEU ASP LYS GLU ASP GLU SER SER GLU GLU ASP SER PRO SEQRES 15 C 199 THR LYS LYS GLY LYS GLY ALA GLY ARG GLY ARG LYS PRO SEQRES 16 C 199 ALA ALA LYS LYS SEQRES 1 D 199 MET ALA SER THR VAL SER ASN THR SER LYS LEU GLU LYS SEQRES 2 D 199 PRO VAL SER LEU ILE TRP GLY CYS GLU LEU ASN GLU GLN SEQRES 3 D 199 ASN LYS THR PHE GLU PHE LYS VAL GLU ASP ASP GLU GLU SEQRES 4 D 199 LYS CYS GLU HIS GLN LEU ALA LEU ARG THR VAL CYS LEU SEQRES 5 D 199 GLY ASP LYS ALA LYS ASP GLU PHE HIS ILE VAL GLU ILE SEQRES 6 D 199 VAL THR GLN GLU GLU GLY ALA GLU LYS SER VAL PRO ILE SEQRES 7 D 199 ALA THR LEU LYS PRO SER ILE LEU PRO MET ALA THR MET SEQRES 8 D 199 VAL GLY ILE GLU LEU THR PRO PRO VAL THR PHE ARG LEU SEQRES 9 D 199 LYS ALA GLY SER GLY PRO LEU TYR ILE SER GLY GLN HIS SEQRES 10 D 199 VAL ALA MET GLU GLU ASP TYR SER TRP ALA GLU GLU GLU SEQRES 11 D 199 ASP GLU GLY GLU ALA GLU GLY GLU GLU GLU GLU GLU GLU SEQRES 12 D 199 GLU GLU ASP GLN GLU SER PRO PRO LYS ALA VAL LYS ARG SEQRES 13 D 199 PRO ALA ALA THR LYS LYS ALA GLY GLN ALA LYS LYS LYS SEQRES 14 D 199 LEU ASP LYS GLU ASP GLU SER SER GLU GLU ASP SER PRO SEQRES 15 D 199 THR LYS LYS GLY LYS GLY ALA GLY ARG GLY ARG LYS PRO SEQRES 16 D 199 ALA ALA LYS LYS SEQRES 1 E 199 MET ALA SER THR VAL SER ASN THR SER LYS LEU GLU LYS SEQRES 2 E 199 PRO VAL SER LEU ILE TRP GLY CYS GLU LEU ASN GLU GLN SEQRES 3 E 199 ASN LYS THR PHE GLU PHE LYS VAL GLU ASP ASP GLU GLU SEQRES 4 E 199 LYS CYS GLU HIS GLN LEU ALA LEU ARG THR VAL CYS LEU SEQRES 5 E 199 GLY ASP LYS ALA LYS ASP GLU PHE HIS ILE VAL GLU ILE SEQRES 6 E 199 VAL THR GLN GLU GLU GLY ALA GLU LYS SER VAL PRO ILE SEQRES 7 E 199 ALA THR LEU LYS PRO SER ILE LEU PRO MET ALA THR MET SEQRES 8 E 199 VAL GLY ILE GLU LEU THR PRO PRO VAL THR PHE ARG LEU SEQRES 9 E 199 LYS ALA GLY SER GLY PRO LEU TYR ILE SER GLY GLN HIS SEQRES 10 E 199 VAL ALA MET GLU GLU ASP TYR SER TRP ALA GLU GLU GLU SEQRES 11 E 199 ASP GLU GLY GLU ALA GLU GLY GLU GLU GLU GLU GLU GLU SEQRES 12 E 199 GLU GLU ASP GLN GLU SER PRO PRO LYS ALA VAL LYS ARG SEQRES 13 E 199 PRO ALA ALA THR LYS LYS ALA GLY GLN ALA LYS LYS LYS SEQRES 14 E 199 LEU ASP LYS GLU ASP GLU SER SER GLU GLU ASP SER PRO SEQRES 15 E 199 THR LYS LYS GLY LYS GLY ALA GLY ARG GLY ARG LYS PRO SEQRES 16 E 199 ALA ALA LYS LYS HELIX 1 AA1 ASP A 37 CYS A 41 5 5 HELIX 2 AA2 ASP B 37 CYS B 41 5 5 HELIX 3 AA3 ASP C 37 CYS C 41 5 5 HELIX 4 AA4 ASP D 37 CYS D 41 5 5 HELIX 5 AA5 ASP E 37 CYS E 41 5 5 SHEET 1 AA1 4 TRP A 19 LEU A 23 0 SHEET 2 AA1 4 LEU A 111 VAL A 118 -1 O GLY A 115 N TRP A 19 SHEET 3 AA1 4 GLN A 44 LEU A 52 -1 N THR A 49 O SER A 114 SHEET 4 AA1 4 MET A 88 LEU A 96 -1 O ILE A 94 N LEU A 47 SHEET 1 AA2 4 THR A 29 PHE A 32 0 SHEET 2 AA2 4 VAL A 100 ALA A 106 -1 O VAL A 100 N PHE A 32 SHEET 3 AA2 4 HIS A 61 GLU A 69 -1 N GLU A 64 O ARG A 103 SHEET 4 AA2 4 ALA A 72 LEU A 81 -1 O ILE A 78 N VAL A 63 SHEET 1 AA3 4 TRP B 19 LEU B 23 0 SHEET 2 AA3 4 LEU B 111 VAL B 118 -1 O GLY B 115 N TRP B 19 SHEET 3 AA3 4 GLN B 44 LEU B 52 -1 N THR B 49 O SER B 114 SHEET 4 AA3 4 MET B 88 LEU B 96 -1 O ILE B 94 N LEU B 47 SHEET 1 AA4 4 THR B 29 PHE B 32 0 SHEET 2 AA4 4 VAL B 100 ALA B 106 -1 O VAL B 100 N PHE B 32 SHEET 3 AA4 4 HIS B 61 GLU B 69 -1 N GLU B 64 O ARG B 103 SHEET 4 AA4 4 ALA B 72 LEU B 81 -1 O ILE B 78 N VAL B 63 SHEET 1 AA5 4 TRP C 19 LEU C 23 0 SHEET 2 AA5 4 LEU C 111 VAL C 118 -1 O GLY C 115 N TRP C 19 SHEET 3 AA5 4 GLN C 44 LEU C 52 -1 N THR C 49 O SER C 114 SHEET 4 AA5 4 MET C 88 LEU C 96 -1 O ILE C 94 N LEU C 47 SHEET 1 AA6 4 THR C 29 PHE C 32 0 SHEET 2 AA6 4 VAL C 100 ALA C 106 -1 O VAL C 100 N PHE C 32 SHEET 3 AA6 4 HIS C 61 GLU C 69 -1 N GLU C 64 O ARG C 103 SHEET 4 AA6 4 ALA C 72 LEU C 81 -1 O ILE C 78 N VAL C 63 SHEET 1 AA7 4 TRP D 19 LEU D 23 0 SHEET 2 AA7 4 LEU D 111 VAL D 118 -1 O GLY D 115 N TRP D 19 SHEET 3 AA7 4 GLN D 44 LEU D 52 -1 N THR D 49 O SER D 114 SHEET 4 AA7 4 MET D 88 LEU D 96 -1 O ILE D 94 N LEU D 47 SHEET 1 AA8 4 THR D 29 PHE D 32 0 SHEET 2 AA8 4 VAL D 100 ALA D 106 -1 O VAL D 100 N PHE D 32 SHEET 3 AA8 4 HIS D 61 GLU D 69 -1 N GLU D 64 O ARG D 103 SHEET 4 AA8 4 ALA D 72 LEU D 81 -1 O ILE D 78 N VAL D 63 SHEET 1 AA9 4 TRP E 19 LEU E 23 0 SHEET 2 AA9 4 LEU E 111 VAL E 118 -1 O GLY E 115 N TRP E 19 SHEET 3 AA9 4 GLN E 44 LEU E 52 -1 N THR E 49 O SER E 114 SHEET 4 AA9 4 MET E 88 LEU E 96 -1 O ILE E 94 N LEU E 47 SHEET 1 AB1 4 THR E 29 PHE E 32 0 SHEET 2 AB1 4 VAL E 100 ALA E 106 -1 O VAL E 100 N PHE E 32 SHEET 3 AB1 4 HIS E 61 GLU E 69 -1 N GLU E 64 O ARG E 103 SHEET 4 AB1 4 ALA E 72 LEU E 81 -1 O ILE E 78 N VAL E 63 CISPEP 1 PRO A 98 PRO A 99 0 -3.08 CISPEP 2 GLY A 109 PRO A 110 0 -0.10 CISPEP 3 PRO B 98 PRO B 99 0 -3.13 CISPEP 4 GLY B 109 PRO B 110 0 -0.07 CISPEP 5 PRO C 98 PRO C 99 0 -3.10 CISPEP 6 GLY C 109 PRO C 110 0 -0.03 CISPEP 7 PRO D 98 PRO D 99 0 -3.15 CISPEP 8 GLY D 109 PRO D 110 0 -0.09 CISPEP 9 PRO E 98 PRO E 99 0 -3.08 CISPEP 10 GLY E 109 PRO E 110 0 -0.07 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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 TER 858 SER A 125 TER 1716 SER B 125 TER 2574 SER C 125 TER 3432 SER D 125 TER 4290 SER E 125 MASTER 659 0 0 5 40 0 0 6 4285 5 0 80 END