HEADER TRANSFERASE 23-SEP-13 4MVC TITLE CRYSTAL STRUCTURE OF A MAMMALIAN CYTIDYLYLTRANSFERASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHOLINE-PHOSPHATE CYTIDYLYLTRANSFERASE A; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CCT1-312 (DEL 238-269); COMPND 5 SYNONYM: CCT-ALPHA, CTP:PHOSPHOCHOLINE CYTIDYLYLTRANSFERASE A, CCT A, COMPND 6 CT A, PHOSPHORYLCHOLINE TRANSFERASE A; COMPND 7 EC: 2.7.7.15; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: BROWN RAT,RAT,RATS; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: CTPCT, PCYT1, PCYT1A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-14B KEYWDS ROSSMANN FOLD, AMPHIPATHIC HELIX, LIPID MEMBRANE BINDING, CYTIDINE 5 KEYWDS 2 -DIPHOSPHOCHOLINE SYNTHESIS, PHOSPHATIDYLCHOLINE HOMEOSTASIS, LIPID KEYWDS 3 MEMBRANE SURFACE, ENDOPLASMIC RETICULUM, NUCLEUS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.LEE,R.B.CORNELL REVDAT 4 20-SEP-23 4MVC 1 REMARK SEQADV REVDAT 3 09-AUG-17 4MVC 1 SOURCE REMARK REVDAT 2 05-FEB-14 4MVC 1 JRNL REVDAT 1 11-DEC-13 4MVC 0 JRNL AUTH J.LEE,S.G.TANEVA,B.W.HOLLAND,D.P.TIELEMAN,R.B.CORNELL JRNL TITL STRUCTURAL BASIS FOR AUTOINHIBITION OF CTP:PHOSPHOCHOLINE JRNL TITL 2 CYTIDYLYLTRANSFERASE (CCT), THE REGULATORY ENZYME IN JRNL TITL 3 PHOSPHATIDYLCHOLINE SYNTHESIS, BY ITS MEMBRANE-BINDING JRNL TITL 4 AMPHIPATHIC HELIX. JRNL REF J.BIOL.CHEM. V. 289 1742 2014 JRNL REFN ISSN 0021-9258 JRNL PMID 24275660 JRNL DOI 10.1074/JBC.M113.526970 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.1 REMARK 3 NUMBER OF REFLECTIONS : 13068 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 649 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 39.9775 - 5.1272 0.91 2564 132 0.2561 0.2838 REMARK 3 2 5.1272 - 4.0709 0.91 2470 126 0.2023 0.2798 REMARK 3 3 4.0709 - 3.5567 0.91 2484 127 0.1921 0.2729 REMARK 3 4 3.5567 - 3.2316 0.91 2444 122 0.2185 0.2919 REMARK 3 5 3.2316 - 3.0001 0.91 2457 142 0.2560 0.3227 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 42.70 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.790 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.750 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.17 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -10.72850 REMARK 3 B22 (A**2) : -16.76350 REMARK 3 B33 (A**2) : 27.49200 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.36640 REMARK 3 B23 (A**2) : 0.00000 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 : 0.004 3261 REMARK 3 ANGLE : 0.958 4462 REMARK 3 CHIRALITY : 0.062 493 REMARK 3 PLANARITY : 0.004 576 REMARK 3 DIHEDRAL : 16.235 1120 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 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4MVC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000082411. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08B1-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : KOHZU DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : COLLIMATING MIRROR WITH TWO REMARK 200 STRIPES (SI, RH/PT) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13085 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.14100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.33900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3HL4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS (PH 8.5), 20% PEG 10,000, REMARK 280 0.2 M SODIUM CITRATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-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 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 22.27500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 ALA A 3 REMARK 465 GLN A 4 REMARK 465 SER A 5 REMARK 465 SER A 6 REMARK 465 ALA A 7 REMARK 465 LYS A 8 REMARK 465 VAL A 9 REMARK 465 ASN A 10 REMARK 465 SER A 11 REMARK 465 ARG A 12 REMARK 465 LYS A 13 REMARK 465 ARG A 14 REMARK 465 ARG A 15 REMARK 465 LYS A 16 REMARK 465 GLU A 17 REMARK 465 VAL A 18 REMARK 465 PRO A 19 REMARK 465 GLY A 20 REMARK 465 PRO A 21 REMARK 465 ASN A 22 REMARK 465 GLY A 23 REMARK 465 ALA A 24 REMARK 465 THR A 25 REMARK 465 GLU A 26 REMARK 465 GLU A 27 REMARK 465 ASP A 28 REMARK 465 GLY A 29 REMARK 465 ILE A 30 REMARK 465 PRO A 31 REMARK 465 SER A 32 REMARK 465 LYS A 33 REMARK 465 VAL A 34 REMARK 465 GLN A 35 REMARK 465 ARG A 36 REMARK 465 CYS A 37 REMARK 465 ALA A 38 REMARK 465 VAL A 39 REMARK 465 GLY A 256 REMARK 465 TYR A 257 REMARK 465 THR A 258 REMARK 465 ALA A 259 REMARK 465 LYS A 260 REMARK 465 GLU A 261 REMARK 465 LEU A 262 REMARK 465 ASN A 263 REMARK 465 VAL A 264 REMARK 465 SER A 265 REMARK 465 PHE A 266 REMARK 465 ILE A 267 REMARK 465 ASN A 268 REMARK 465 GLU A 269 REMARK 465 LYS A 270 REMARK 465 SER A 271 REMARK 465 ILE A 272 REMARK 465 ASP A 273 REMARK 465 LEU A 274 REMARK 465 GLU A 296 REMARK 465 GLY A 297 REMARK 465 ALA A 298 REMARK 465 LEU A 299 REMARK 465 LYS A 300 REMARK 465 HIS A 301 REMARK 465 MET A 302 REMARK 465 LEU A 303 REMARK 465 LYS A 304 REMARK 465 GLU A 305 REMARK 465 GLY A 306 REMARK 465 LYS A 307 REMARK 465 GLY A 308 REMARK 465 ARG A 309 REMARK 465 MET A 310 REMARK 465 LEU A 311 REMARK 465 GLN A 312 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 ALA B 3 REMARK 465 GLN B 4 REMARK 465 SER B 5 REMARK 465 SER B 6 REMARK 465 ALA B 7 REMARK 465 LYS B 8 REMARK 465 VAL B 9 REMARK 465 ASN B 10 REMARK 465 SER B 11 REMARK 465 ARG B 12 REMARK 465 LYS B 13 REMARK 465 ARG B 14 REMARK 465 ARG B 15 REMARK 465 LYS B 16 REMARK 465 GLU B 17 REMARK 465 VAL B 18 REMARK 465 PRO B 19 REMARK 465 GLY B 20 REMARK 465 PRO B 21 REMARK 465 ASN B 22 REMARK 465 GLY B 23 REMARK 465 ALA B 24 REMARK 465 THR B 25 REMARK 465 GLU B 26 REMARK 465 GLU B 27 REMARK 465 ASP B 28 REMARK 465 GLY B 29 REMARK 465 ILE B 30 REMARK 465 PRO B 31 REMARK 465 SER B 32 REMARK 465 LYS B 33 REMARK 465 VAL B 34 REMARK 465 GLN B 35 REMARK 465 ARG B 36 REMARK 465 CYS B 37 REMARK 465 ALA B 38 REMARK 465 VAL B 39 REMARK 465 GLY B 256 REMARK 465 TYR B 257 REMARK 465 THR B 258 REMARK 465 ALA B 259 REMARK 465 LYS B 260 REMARK 465 GLU B 261 REMARK 465 LEU B 262 REMARK 465 ASN B 263 REMARK 465 VAL B 264 REMARK 465 SER B 265 REMARK 465 PHE B 266 REMARK 465 ILE B 267 REMARK 465 ASN B 268 REMARK 465 GLU B 269 REMARK 465 LYS B 270 REMARK 465 SER B 271 REMARK 465 ILE B 272 REMARK 465 ASP B 273 REMARK 465 LEU B 274 REMARK 465 ILE B 275 REMARK 465 GLU B 296 REMARK 465 GLY B 297 REMARK 465 ALA B 298 REMARK 465 LEU B 299 REMARK 465 LYS B 300 REMARK 465 HIS B 301 REMARK 465 MET B 302 REMARK 465 LEU B 303 REMARK 465 LYS B 304 REMARK 465 GLU B 305 REMARK 465 GLY B 306 REMARK 465 LYS B 307 REMARK 465 GLY B 308 REMARK 465 ARG B 309 REMARK 465 MET B 310 REMARK 465 LEU B 311 REMARK 465 GLN B 312 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 ARG A 42 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 43 CG CD OE1 NE2 REMARK 470 GLU A 52 CG CD OE1 OE2 REMARK 470 LYS A 57 CG CD CE NZ REMARK 470 GLU A 65 CG CD OE1 OE2 REMARK 470 ARG A 69 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 74 CG CD OE1 OE2 REMARK 470 GLU A 116 CG CD OE1 OE2 REMARK 470 LYS A 183 CG CD CE NZ REMARK 470 GLU A 187 CG CD OE1 OE2 REMARK 470 ARG A 211 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 219 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 222 CG CD OE1 NE2 REMARK 470 ARG A 223 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 275 CG1 CG2 CD1 REMARK 470 GLN A 276 CG CD OE1 NE2 REMARK 470 LYS A 277 CG CD CE NZ REMARK 470 GLU A 279 CG CD OE1 OE2 REMARK 470 GLU A 280 CG CD OE1 OE2 REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 ARG A 283 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 284 CG CD OE1 OE2 REMARK 470 GLU A 291 CG CD OE1 OE2 REMARK 470 ARG B 42 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 43 CG CD OE1 NE2 REMARK 470 GLU B 50 CG CD OE1 OE2 REMARK 470 GLU B 52 CG CD OE1 OE2 REMARK 470 ASP B 54 CG OD1 OD2 REMARK 470 SER B 56 OG REMARK 470 LYS B 57 CG CD CE NZ REMARK 470 GLU B 65 CG CD OE1 OE2 REMARK 470 ARG B 69 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 74 CG CD OE1 OE2 REMARK 470 GLU B 116 CG CD OE1 OE2 REMARK 470 LYS B 183 CG CD CE NZ REMARK 470 GLU B 187 CG CD OE1 OE2 REMARK 470 GLU B 198 CG CD OE1 OE2 REMARK 470 ARG B 211 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 219 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 222 CG CD OE1 NE2 REMARK 470 ARG B 223 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 276 CG CD OE1 NE2 REMARK 470 LYS B 277 CG CD CE NZ REMARK 470 GLU B 279 CG CD OE1 OE2 REMARK 470 GLU B 280 CG CD OE1 OE2 REMARK 470 LYS B 281 CG CD CE NZ REMARK 470 ARG B 283 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 284 CG CD OE1 OE2 REMARK 470 GLU B 291 CG CD OE1 OE2 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 OD1 ASP A 134 NH2 ARG B 94 2.10 REMARK 500 O ASP A 115 ND1 HIS A 119 2.15 REMARK 500 O MET A 97 ND2 ASN A 101 2.16 REMARK 500 OH TYR A 216 O PHE B 285 2.16 REMARK 500 N ASN B 128 OE1 GLU B 131 2.18 REMARK 500 NE1 TRP A 151 OG SER A 175 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 PRO A 295 C - N - CA ANGL. DEV. = 11.7 DEGREES REMARK 500 PRO A 295 C - N - CD ANGL. DEV. = -13.2 DEGREES 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 LYS A 122 -65.01 -130.93 REMARK 500 PRO B 44 -178.70 -68.68 REMARK 500 GLU B 65 -70.30 -53.58 REMARK 500 ARG B 75 76.99 -119.45 REMARK 500 LYS B 122 -68.82 -130.55 REMARK 500 ALA B 176 -139.81 55.28 REMARK 500 LYS B 277 -5.53 65.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 175 ALA A 176 -148.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CDC A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CDC B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HL4 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN STRUCTURE OF THE CYTIDYLYLTRANSFERASE REMARK 900 RELATED ID: 4MVD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A MAMMALIAN CYTIDYLYLTRANSFERASE DBREF 4MVC A 1 269 UNP P19836 PCY1A_RAT 1 237 DBREF 4MVC A 270 312 UNP P19836 PCY1A_RAT 270 312 DBREF 4MVC B 1 269 UNP P19836 PCY1A_RAT 1 237 DBREF 4MVC B 270 312 UNP P19836 PCY1A_RAT 270 312 SEQADV 4MVC MET A -19 UNP P19836 EXPRESSION TAG SEQADV 4MVC GLY A -18 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER A -17 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER A -16 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS A -15 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS A -14 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS A -13 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS A -12 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS A -11 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS A -10 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER A -9 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER A -8 UNP P19836 EXPRESSION TAG SEQADV 4MVC GLY A -7 UNP P19836 EXPRESSION TAG SEQADV 4MVC LEU A -6 UNP P19836 EXPRESSION TAG SEQADV 4MVC VAL A -5 UNP P19836 EXPRESSION TAG SEQADV 4MVC PRO A -4 UNP P19836 EXPRESSION TAG SEQADV 4MVC ARG A -3 UNP P19836 EXPRESSION TAG SEQADV 4MVC GLY A -2 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER A -1 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS A 0 UNP P19836 EXPRESSION TAG SEQADV 4MVC MET B -19 UNP P19836 EXPRESSION TAG SEQADV 4MVC GLY B -18 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER B -17 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER B -16 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS B -15 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS B -14 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS B -13 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS B -12 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS B -11 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS B -10 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER B -9 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER B -8 UNP P19836 EXPRESSION TAG SEQADV 4MVC GLY B -7 UNP P19836 EXPRESSION TAG SEQADV 4MVC LEU B -6 UNP P19836 EXPRESSION TAG SEQADV 4MVC VAL B -5 UNP P19836 EXPRESSION TAG SEQADV 4MVC PRO B -4 UNP P19836 EXPRESSION TAG SEQADV 4MVC ARG B -3 UNP P19836 EXPRESSION TAG SEQADV 4MVC GLY B -2 UNP P19836 EXPRESSION TAG SEQADV 4MVC SER B -1 UNP P19836 EXPRESSION TAG SEQADV 4MVC HIS B 0 UNP P19836 EXPRESSION TAG SEQRES 1 A 300 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 300 LEU VAL PRO ARG GLY SER HIS MET ASP ALA GLN SER SER SEQRES 3 A 300 ALA LYS VAL ASN SER ARG LYS ARG ARG LYS GLU VAL PRO SEQRES 4 A 300 GLY PRO ASN GLY ALA THR GLU GLU ASP GLY ILE PRO SER SEQRES 5 A 300 LYS VAL GLN ARG CYS ALA VAL GLY LEU ARG GLN PRO ALA SEQRES 6 A 300 PRO PHE SER ASP GLU ILE GLU VAL ASP PHE SER LYS PRO SEQRES 7 A 300 TYR VAL ARG VAL THR MET GLU GLU ALA CYS ARG GLY THR SEQRES 8 A 300 PRO CYS GLU ARG PRO VAL ARG VAL TYR ALA ASP GLY ILE SEQRES 9 A 300 PHE ASP LEU PHE HIS SER GLY HIS ALA ARG ALA LEU MET SEQRES 10 A 300 GLN ALA LYS ASN LEU PHE PRO ASN THR TYR LEU ILE VAL SEQRES 11 A 300 GLY VAL CYS SER ASP GLU LEU THR HIS ASN PHE LYS GLY SEQRES 12 A 300 PHE THR VAL MET ASN GLU ASN GLU ARG TYR ASP ALA VAL SEQRES 13 A 300 GLN HIS CYS ARG TYR VAL ASP GLU VAL VAL ARG ASN ALA SEQRES 14 A 300 PRO TRP THR LEU THR PRO GLU PHE LEU ALA GLU HIS ARG SEQRES 15 A 300 ILE ASP PHE VAL ALA HIS ASP ASP ILE PRO TYR SER SER SEQRES 16 A 300 ALA GLY SER ASP ASP VAL TYR LYS HIS ILE LYS GLU ALA SEQRES 17 A 300 GLY MET PHE ALA PRO THR GLN ARG THR GLU GLY ILE SER SEQRES 18 A 300 THR SER ASP ILE ILE THR ARG ILE VAL ARG ASP TYR ASP SEQRES 19 A 300 VAL TYR ALA ARG ARG ASN LEU GLN ARG GLY TYR THR ALA SEQRES 20 A 300 LYS GLU LEU ASN VAL SER PHE ILE ASN GLU LYS SER ILE SEQRES 21 A 300 ASP LEU ILE GLN LYS TRP GLU GLU LYS SER ARG GLU PHE SEQRES 22 A 300 ILE GLY SER PHE LEU GLU MET PHE GLY PRO GLU GLY ALA SEQRES 23 A 300 LEU LYS HIS MET LEU LYS GLU GLY LYS GLY ARG MET LEU SEQRES 24 A 300 GLN SEQRES 1 B 300 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 300 LEU VAL PRO ARG GLY SER HIS MET ASP ALA GLN SER SER SEQRES 3 B 300 ALA LYS VAL ASN SER ARG LYS ARG ARG LYS GLU VAL PRO SEQRES 4 B 300 GLY PRO ASN GLY ALA THR GLU GLU ASP GLY ILE PRO SER SEQRES 5 B 300 LYS VAL GLN ARG CYS ALA VAL GLY LEU ARG GLN PRO ALA SEQRES 6 B 300 PRO PHE SER ASP GLU ILE GLU VAL ASP PHE SER LYS PRO SEQRES 7 B 300 TYR VAL ARG VAL THR MET GLU GLU ALA CYS ARG GLY THR SEQRES 8 B 300 PRO CYS GLU ARG PRO VAL ARG VAL TYR ALA ASP GLY ILE SEQRES 9 B 300 PHE ASP LEU PHE HIS SER GLY HIS ALA ARG ALA LEU MET SEQRES 10 B 300 GLN ALA LYS ASN LEU PHE PRO ASN THR TYR LEU ILE VAL SEQRES 11 B 300 GLY VAL CYS SER ASP GLU LEU THR HIS ASN PHE LYS GLY SEQRES 12 B 300 PHE THR VAL MET ASN GLU ASN GLU ARG TYR ASP ALA VAL SEQRES 13 B 300 GLN HIS CYS ARG TYR VAL ASP GLU VAL VAL ARG ASN ALA SEQRES 14 B 300 PRO TRP THR LEU THR PRO GLU PHE LEU ALA GLU HIS ARG SEQRES 15 B 300 ILE ASP PHE VAL ALA HIS ASP ASP ILE PRO TYR SER SER SEQRES 16 B 300 ALA GLY SER ASP ASP VAL TYR LYS HIS ILE LYS GLU ALA SEQRES 17 B 300 GLY MET PHE ALA PRO THR GLN ARG THR GLU GLY ILE SER SEQRES 18 B 300 THR SER ASP ILE ILE THR ARG ILE VAL ARG ASP TYR ASP SEQRES 19 B 300 VAL TYR ALA ARG ARG ASN LEU GLN ARG GLY TYR THR ALA SEQRES 20 B 300 LYS GLU LEU ASN VAL SER PHE ILE ASN GLU LYS SER ILE SEQRES 21 B 300 ASP LEU ILE GLN LYS TRP GLU GLU LYS SER ARG GLU PHE SEQRES 22 B 300 ILE GLY SER PHE LEU GLU MET PHE GLY PRO GLU GLY ALA SEQRES 23 B 300 LEU LYS HIS MET LEU LYS GLU GLY LYS GLY ARG MET LEU SEQRES 24 B 300 GLN HET CDC A 401 31 HET CDC B 401 31 HETNAM CDC [2-CYTIDYLATE-O'-PHOSPHONYLOXYL]-ETHYL-TRIMETHYL- HETNAM 2 CDC AMMONIUM FORMUL 3 CDC 2(C14 H26 N4 O11 P2) FORMUL 5 HOH *19(H2 O) HELIX 1 1 THR A 63 ARG A 69 1 7 HELIX 2 2 HIS A 89 ASN A 101 1 13 HELIX 3 3 SER A 114 LYS A 122 1 9 HELIX 4 4 ASN A 128 HIS A 138 1 11 HELIX 5 5 THR A 154 HIS A 161 1 8 HELIX 6 6 TYR A 182 ALA A 188 1 7 HELIX 7 7 SER A 201 ARG A 223 1 23 HELIX 8 8 GLN A 276 MET A 292 1 17 HELIX 9 9 THR B 63 ARG B 69 1 7 HELIX 10 10 HIS B 89 LEU B 102 1 14 HELIX 11 11 SER B 114 LYS B 122 1 9 HELIX 12 12 ASN B 128 HIS B 138 1 11 HELIX 13 13 GLU B 156 HIS B 161 1 6 HELIX 14 14 TYR B 182 ALA B 188 1 7 HELIX 15 15 SER B 201 ARG B 223 1 23 HELIX 16 16 LYS B 277 MET B 292 1 16 SHEET 1 A 5 GLU A 144 ALA A 149 0 SHEET 2 A 5 THR A 106 CYS A 113 1 N VAL A 110 O GLU A 144 SHEET 3 A 5 VAL A 77 GLY A 83 1 N VAL A 77 O TYR A 107 SHEET 4 A 5 PHE A 165 ASP A 169 1 O ALA A 167 N TYR A 80 SHEET 5 A 5 PHE A 191 THR A 194 1 O ALA A 192 N VAL A 166 SHEET 1 B 5 GLU B 144 ALA B 149 0 SHEET 2 B 5 THR B 106 CYS B 113 1 N VAL B 110 O VAL B 146 SHEET 3 B 5 VAL B 77 GLY B 83 1 N VAL B 77 O TYR B 107 SHEET 4 B 5 PHE B 165 ASP B 169 1 O PHE B 165 N TYR B 80 SHEET 5 B 5 PHE B 191 THR B 194 1 O ALA B 192 N VAL B 166 SITE 1 AC1 18 ASP A 82 GLY A 83 ILE A 84 PHE A 85 SITE 2 AC1 18 HIS A 89 GLY A 91 ALA A 95 LYS A 122 SITE 3 AC1 18 TRP A 151 HIS A 168 ASP A 169 TYR A 173 SITE 4 AC1 18 TYR A 182 GLN A 195 ARG A 196 THR A 197 SITE 5 AC1 18 ILE A 200 HOH A 504 SITE 1 AC2 20 ASP B 82 GLY B 83 ILE B 84 PHE B 85 SITE 2 AC2 20 HIS B 89 GLY B 91 HIS B 92 ALA B 95 SITE 3 AC2 20 LYS B 122 PRO B 150 TRP B 151 HIS B 168 SITE 4 AC2 20 ASP B 169 TYR B 173 TYR B 182 GLN B 195 SITE 5 AC2 20 ARG B 196 THR B 197 ILE B 200 HOH B 502 CRYST1 87.260 44.550 97.130 90.00 111.21 90.00 P 1 21 1 4 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 0.011460 0.000000 0.004447 0.00000 SCALE2 0.000000 0.022447 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011044 0.00000