PDB Short entry for 1PEH HEADER NUCLEOTIDYLTRANSFERASE 10-JUN-96 1PEH TITLE NMR STRUCTURE OF THE MEMBRANE-BINDING DOMAIN OF CTP PHOSPHOCHOLINE TITLE 2 CYTIDYLYLTRANSFERASE, 10 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPNH1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 236 - 268; COMPND 5 SYNONYM: CYTIDYLYLTRANSFERASE MEMBRANE BINDING DOMAIN PEPTIDE; COMPND 6 EC: 2.7.7.15; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 4 ORGANISM_COMMON: NORWAY RAT; SOURCE 5 ORGANISM_TAXID: 10116 KEYWDS TRANSFERASE, NUCLEOTIDYLTRANSFERASE, PHOSPHOLIPID BIOSYNTHESIS, KEYWDS 2 MEMBRANE, PHOSPHORYLATION EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR S.J.DUNNE,R.B.CORNELL,J.E.JOHNSON,N.R.GLOVER,A.S.TRACEY REVDAT 5 03-NOV-21 1PEH 1 REMARK SEQADV LINK REVDAT 4 14-MAR-18 1PEH 1 COMPND SOURCE JRNL REMARK REVDAT 3 24-FEB-09 1PEH 1 VERSN REVDAT 2 01-APR-03 1PEH 1 JRNL REVDAT 1 07-DEC-96 1PEH 0 JRNL AUTH S.J.DUNNE,R.B.CORNELL,J.E.JOHNSON,N.R.GLOVER,A.S.TRACEY JRNL TITL STRUCTURE OF THE MEMBRANE BINDING DOMAIN OF JRNL TITL 2 CTP:PHOSPHOCHOLINE CYTIDYLYLTRANSFERASE. JRNL REF BIOCHEMISTRY V. 35 11975 1996 JRNL REFN ISSN 0006-2960 JRNL PMID 8810902 JRNL DOI 10.1021/BI960821+ REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.E.JOHNSON,R.B.CORNELL REMARK 1 TITL MEMBRANE-BINDING AMPHIPATHIC ALPHA-HELICAL PEPTIDE DERIVED REMARK 1 TITL 2 FROM CTP:PHOSPHOCHOLINE CYTIDYLYLTRANSFERASE REMARK 1 REF BIOCHEMISTRY V. 33 4327 1994 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 8155650 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DGII REMARK 3 AUTHORS : BIOSYM REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PEH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000175627. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.20 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : COSY; TOCSY; NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : BIOSYM MOLECULAR REMARK 210 SIMULATIONS/FELIX SIMULATIONS/ REMARK 210 FELIX REMARK 210 METHOD USED : RESTRAINED DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 10 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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: CLOSE CONTACTS 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 HD12 LEU A 242 HG22 VAL A 246 1.32 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 1 GLU A 237 CD GLU A 237 OE1 0.111 REMARK 500 1 GLU A 244 CD GLU A 244 OE1 0.110 REMARK 500 1 GLU A 257 CD GLU A 257 OE2 0.111 REMARK 500 1 GLU A 258 CD GLU A 258 OE2 0.110 REMARK 500 1 GLU A 262 CD GLU A 262 OE1 0.109 REMARK 500 1 GLU A 268 CD GLU A 268 OE1 0.116 REMARK 500 2 GLU A 237 CD GLU A 237 OE2 0.110 REMARK 500 2 GLU A 244 CD GLU A 244 OE1 0.110 REMARK 500 2 GLU A 257 CD GLU A 257 OE1 0.110 REMARK 500 2 GLU A 258 CD GLU A 258 OE2 0.110 REMARK 500 2 GLU A 262 CD GLU A 262 OE2 0.110 REMARK 500 2 GLU A 268 CD GLU A 268 OE2 0.115 REMARK 500 3 GLU A 237 CD GLU A 237 OE1 0.111 REMARK 500 3 GLU A 244 CD GLU A 244 OE2 0.111 REMARK 500 3 GLU A 257 CD GLU A 257 OE1 0.111 REMARK 500 3 GLU A 258 CD GLU A 258 OE2 0.110 REMARK 500 3 GLU A 262 CD GLU A 262 OE2 0.110 REMARK 500 3 GLU A 268 CD GLU A 268 OE2 0.117 REMARK 500 4 GLU A 237 CD GLU A 237 OE1 0.110 REMARK 500 4 GLU A 244 CD GLU A 244 OE1 0.110 REMARK 500 4 GLU A 257 CD GLU A 257 OE1 0.109 REMARK 500 4 GLU A 258 CD GLU A 258 OE2 0.112 REMARK 500 4 GLU A 262 CD GLU A 262 OE1 0.109 REMARK 500 4 GLU A 268 CD GLU A 268 OE2 0.115 REMARK 500 5 GLU A 237 CD GLU A 237 OE1 0.111 REMARK 500 5 GLU A 244 CD GLU A 244 OE2 0.110 REMARK 500 5 GLU A 257 CD GLU A 257 OE1 0.109 REMARK 500 5 GLU A 258 CD GLU A 258 OE1 0.110 REMARK 500 5 GLU A 262 CD GLU A 262 OE2 0.110 REMARK 500 5 GLU A 268 CD GLU A 268 OE1 0.113 REMARK 500 6 GLU A 237 CD GLU A 237 OE2 0.111 REMARK 500 6 GLU A 244 CD GLU A 244 OE2 0.110 REMARK 500 6 GLU A 257 CD GLU A 257 OE1 0.110 REMARK 500 6 GLU A 258 CD GLU A 258 OE2 0.109 REMARK 500 6 GLU A 262 CD GLU A 262 OE2 0.110 REMARK 500 6 GLU A 268 CD GLU A 268 OE2 0.112 REMARK 500 7 GLU A 237 CD GLU A 237 OE2 0.111 REMARK 500 7 GLU A 244 CD GLU A 244 OE1 0.109 REMARK 500 7 GLU A 257 CD GLU A 257 OE2 0.110 REMARK 500 7 GLU A 258 CD GLU A 258 OE2 0.109 REMARK 500 7 GLU A 262 CD GLU A 262 OE2 0.110 REMARK 500 7 GLU A 268 CD GLU A 268 OE2 0.115 REMARK 500 8 GLU A 237 CD GLU A 237 OE2 0.112 REMARK 500 8 GLU A 244 CD GLU A 244 OE1 0.110 REMARK 500 8 GLU A 257 CD GLU A 257 OE2 0.110 REMARK 500 8 GLU A 258 CD GLU A 258 OE2 0.110 REMARK 500 8 GLU A 262 CD GLU A 262 OE1 0.109 REMARK 500 8 GLU A 268 CD GLU A 268 OE2 0.115 REMARK 500 9 GLU A 237 CD GLU A 237 OE1 0.111 REMARK 500 9 GLU A 244 CD GLU A 244 OE2 0.110 REMARK 500 REMARK 500 THIS ENTRY HAS 60 BOND DEVIATIONS. 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 1 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 2 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 3 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 4 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 5 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 5 ASP A 247 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 6 HIS A 241 CB - CG - CD2 ANGL. DEV. = -9.7 DEGREES REMARK 500 6 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 7 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 8 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 9 HIS A 241 CB - CG - CD2 ANGL. DEV. = -9.8 DEGREES REMARK 500 9 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 10 HIS A 241 CB - CG - CD2 ANGL. DEV. = -10.1 DEGREES REMARK 500 10 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 4.0 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 1 TYR A 240 -86.40 -86.14 REMARK 500 1 HIS A 241 47.89 29.59 REMARK 500 1 LEU A 242 50.16 -104.64 REMARK 500 1 ARG A 245 -43.54 -150.78 REMARK 500 2 TYR A 240 -88.47 -84.21 REMARK 500 2 HIS A 241 45.06 30.51 REMARK 500 2 GLU A 244 37.22 -95.26 REMARK 500 2 ARG A 245 -40.47 -152.41 REMARK 500 3 LYS A 239 -77.17 -62.65 REMARK 500 3 TYR A 240 -80.57 -52.77 REMARK 500 3 HIS A 241 42.32 23.04 REMARK 500 3 ARG A 245 -46.91 -133.14 REMARK 500 4 TYR A 240 -89.29 -85.14 REMARK 500 4 HIS A 241 49.00 28.52 REMARK 500 4 ARG A 245 -46.21 -144.37 REMARK 500 5 LYS A 238 -34.56 -38.77 REMARK 500 5 TYR A 240 -90.27 -86.45 REMARK 500 5 HIS A 241 46.11 28.76 REMARK 500 5 ARG A 245 -44.92 -155.34 REMARK 500 6 TYR A 240 -86.86 -78.69 REMARK 500 6 HIS A 241 46.61 20.25 REMARK 500 6 ARG A 245 -45.27 -145.51 REMARK 500 7 LYS A 238 -73.15 -82.21 REMARK 500 7 TYR A 240 -89.50 -80.58 REMARK 500 7 HIS A 241 48.25 29.59 REMARK 500 7 ARG A 245 -42.94 -154.54 REMARK 500 8 TYR A 240 -87.23 -86.38 REMARK 500 8 HIS A 241 48.60 31.61 REMARK 500 8 ARG A 245 -41.72 -151.43 REMARK 500 9 TYR A 240 -84.30 -76.12 REMARK 500 9 HIS A 241 42.09 29.19 REMARK 500 9 GLU A 244 33.59 -99.77 REMARK 500 9 ARG A 245 -43.53 -148.15 REMARK 500 10 TYR A 240 -85.88 -68.60 REMARK 500 10 HIS A 241 52.28 21.04 REMARK 500 10 ARG A 245 -44.98 -147.92 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 ACE A 235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 A 269 DBREF 1PEH A 236 268 UNP P19836 PCY1A_RAT 236 268 SEQADV 1PEH TRP A 263 UNP P19836 PHE 263 ENGINEERED MUTATION SEQRES 1 A 35 ACE ASN GLU LYS LYS TYR HIS LEU GLN GLU ARG VAL ASP SEQRES 2 A 35 LYS VAL LYS LYS LYS VAL LYS ASP VAL GLU GLU LYS SER SEQRES 3 A 35 LYS GLU TRP VAL GLN LYS VAL GLU NH2 HET ACE A 235 6 HET NH2 A 269 3 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP FORMUL 1 ACE C2 H4 O FORMUL 1 NH2 H2 N HELIX 1 1 LYS A 248 LYS A 252 5 5 HELIX 2 2 LYS A 261 VAL A 267 1 7 LINK C ACE A 235 N ASN A 236 1555 1555 1.30 LINK C GLU A 268 N NH2 A 269 1555 1555 1.32 SITE 1 AC1 1 GLU A 237 SITE 1 AC2 1 GLU A 268 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