HEADER APOPTOSIS 20-JAN-21 7LGC TITLE MOAP1 CA-LIKE C-TERMINAL DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MODULATOR OF APOPTOSIS 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN; COMPND 5 SYNONYM: MAP1,PARANEOPLASTIC ANTIGEN MA4; 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: MOAP1, PNMA4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DOMESTICATED GAG, APOPTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR K.ZUROWSKA,O.PORNILLOS,B.K.GANSER-PORNILLOS REVDAT 3 03-APR-24 7LGC 1 REMARK REVDAT 2 29-DEC-21 7LGC 1 JRNL REVDAT 1 06-OCT-21 7LGC 0 JRNL AUTH K.ZUROWSKA,A.ALAM,B.K.GANSER-PORNILLOS,O.PORNILLOS JRNL TITL STRUCTURAL EVIDENCE THAT MOAP1 AND PEG10 ARE DERIVED FROM JRNL TITL 2 RETROVIRUS/RETROTRANSPOSON GAG PROTEINS. JRNL REF PROTEINS V. 90 309 2022 JRNL REFN ESSN 1097-0134 JRNL PMID 34357660 JRNL DOI 10.1002/PROT.26204 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18_3845 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.16 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.4 REMARK 3 NUMBER OF REFLECTIONS : 19264 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.640 REMARK 3 FREE R VALUE TEST SET COUNT : 893 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 30.1600 - 3.3600 0.99 3444 143 0.1895 0.2284 REMARK 3 2 3.3600 - 2.6700 0.98 3431 170 0.2071 0.2523 REMARK 3 3 2.6700 - 2.3300 0.98 3364 177 0.2111 0.2761 REMARK 3 4 2.3300 - 2.1200 0.97 3363 150 0.2119 0.2597 REMARK 3 5 2.1200 - 1.9700 0.89 3062 164 0.2418 0.2823 REMARK 3 6 1.9700 - 1.8500 0.49 1707 89 0.2582 0.2995 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.241 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.692 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.77 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 1621 REMARK 3 ANGLE : 0.757 2200 REMARK 3 CHIRALITY : 0.041 263 REMARK 3 PLANARITY : 0.007 287 REMARK 3 DIHEDRAL : 18.844 623 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 247 or (resid 248 REMARK 3 through 249 and (name N or name CA or REMARK 3 name C or name O or name CB )) or resid REMARK 3 250 through 263 or (resid 264 and (name N REMARK 3 or name CA or name C or name O or name CB REMARK 3 )) or resid 265 through 307 or resid 309 REMARK 3 through 314 or (resid 315 through 316 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB )) or resid 317 through 347)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 247 through 307 or REMARK 3 resid 309 through 347)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7LGC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1000254247. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-AUG-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20575 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.3500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.79700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: LOW RESOLUTION EXPERIMENTAL MODEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS 20% PEG 3350 3% HEXANEDIOL, REMARK 280 PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 GLY A 242 REMARK 465 VAL A 243 REMARK 465 THR A 244 REMARK 465 ASN A 349 REMARK 465 PHE A 350 REMARK 465 THR A 351 REMARK 465 GLY B 242 REMARK 465 VAL B 243 REMARK 465 THR B 244 REMARK 465 ASP B 245 REMARK 465 ASN B 246 REMARK 465 GLY B 348 REMARK 465 ASN B 349 REMARK 465 PHE B 350 REMARK 465 THR B 351 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 286 CG CD OE1 OE2 REMARK 470 ARG A 309 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 312 CG OD1 ND2 REMARK 470 ASP A 316 CG OD1 OD2 REMARK 470 ARG B 248 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 249 CG CD OE1 OE2 REMARK 470 LYS B 264 CG CD CE NZ REMARK 470 GLU B 286 CG CD OE1 OE2 REMARK 470 ARG B 309 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 312 CG OD1 ND2 REMARK 470 GLU B 315 CG CD OE1 OE2 REMARK 470 ASP B 316 CG OD1 OD2 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 ASP A 316 -31.47 71.22 REMARK 500 REMARK 500 REMARK: NULL DBREF 7LGC A 242 351 UNP Q96BY2 MOAP1_HUMAN 242 351 DBREF 7LGC B 242 351 UNP Q96BY2 MOAP1_HUMAN 242 351 SEQRES 1 A 110 GLY VAL THR ASP ASN PRO ARG GLU LEU GLN VAL LYS TYR SEQRES 2 A 110 LEU THR THR TYR GLN LYS ASP GLU GLU LYS LEU SER ALA SEQRES 3 A 110 TYR VAL LEU ARG LEU GLU PRO LEU LEU GLN LYS LEU VAL SEQRES 4 A 110 GLN ARG GLY ALA ILE GLU ARG ASP ALA VAL ASN GLN ALA SEQRES 5 A 110 ARG LEU ASP GLN VAL ILE ALA GLY ALA VAL HIS LYS THR SEQRES 6 A 110 ILE ARG ARG GLU LEU ASN LEU PRO GLU ASP GLY PRO ALA SEQRES 7 A 110 PRO GLY PHE LEU GLN LEU LEU VAL LEU ILE LYS ASP TYR SEQRES 8 A 110 GLU ALA ALA GLU GLU GLU GLU ALA LEU LEU GLN ALA ILE SEQRES 9 A 110 LEU GLU GLY ASN PHE THR SEQRES 1 B 110 GLY VAL THR ASP ASN PRO ARG GLU LEU GLN VAL LYS TYR SEQRES 2 B 110 LEU THR THR TYR GLN LYS ASP GLU GLU LYS LEU SER ALA SEQRES 3 B 110 TYR VAL LEU ARG LEU GLU PRO LEU LEU GLN LYS LEU VAL SEQRES 4 B 110 GLN ARG GLY ALA ILE GLU ARG ASP ALA VAL ASN GLN ALA SEQRES 5 B 110 ARG LEU ASP GLN VAL ILE ALA GLY ALA VAL HIS LYS THR SEQRES 6 B 110 ILE ARG ARG GLU LEU ASN LEU PRO GLU ASP GLY PRO ALA SEQRES 7 B 110 PRO GLY PHE LEU GLN LEU LEU VAL LEU ILE LYS ASP TYR SEQRES 8 B 110 GLU ALA ALA GLU GLU GLU GLU ALA LEU LEU GLN ALA ILE SEQRES 9 B 110 LEU GLU GLY ASN PHE THR FORMUL 3 HOH *172(H2 O) HELIX 1 AA1 ASN A 246 THR A 256 1 11 HELIX 2 AA2 LYS A 264 ARG A 282 1 19 HELIX 3 AA3 GLU A 286 ASP A 288 5 3 HELIX 4 AA4 ALA A 289 ALA A 302 1 14 HELIX 5 AA5 THR A 306 LEU A 311 1 6 HELIX 6 AA6 GLY A 321 GLU A 347 1 27 HELIX 7 AA7 ARG B 248 THR B 256 1 9 HELIX 8 AA8 LYS B 264 ARG B 282 1 19 HELIX 9 AA9 GLU B 286 ASP B 288 5 3 HELIX 10 AB1 ALA B 289 ALA B 302 1 14 HELIX 11 AB2 THR B 306 LEU B 311 1 6 HELIX 12 AB3 GLY B 321 GLU B 347 1 27 CRYST1 34.034 34.126 57.673 97.73 93.91 94.64 P 1 2 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 0.029382 0.002385 0.002366 0.00000 SCALE2 0.000000 0.029400 0.004183 0.00000 SCALE3 0.000000 0.000000 0.017555 0.00000 MTRIX1 1 0.085026 -0.996376 0.002474 6.97413 1 MTRIX2 1 -0.996370 -0.085015 0.004332 3.75362 1 MTRIX3 1 -0.004106 -0.002833 -0.999988 34.62147 1