PDB Short entry for 1PLN HEADER MEMBRANE PROTEIN 06-AUG-98 1PLN TITLE MODEL OF THE PENTAMERIC TRANSMEMBRANE DOMAIN OF TITLE 2 PHOSPHOLAMBAN, A PUTATIVE CARDIAC ION CHANNEL COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (CARDIAC PHOSPHOLAMBAN); COMPND 3 CHAIN: A, B, C, D, E; COMPND 4 FRAGMENT: PUTATIVE MEMBRANE SPANNING DOMAIN 35-52; COMPND 5 SYNONYM: PLB(35-52) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 OTHER_DETAILS: SARCOPLASMIC RETICULUM KEYWDS ION CHANNEL, ATPASE REGULATOR, PHOSPHORYLATION, HELIX BUNDLE EXPDTA THEORETICAL MODEL AUTHOR P.HERZYK,R.E.HUBBARD REVDAT 2 29-DEC-99 1PLN 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 12-AUG-98 1PLN 0 JRNL AUTH P.HERZYK,R.E.HUBBARD JRNL TITL USING EXPERIMENTAL INFORMATION TO PRODUCE A MODEL JRNL TITL 2 OF THE TRANSMEMBRANE DOMAIN OF THE ION CHANNEL JRNL TITL 3 PHOSPHOLAMBAN. JRNL REF BIOPHYS.J. V. 74 1203 1998 JRNL REFN ASTM BIOJAU US ISSN 0006-3495 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.HERZYK,R.E.HUBBARD REMARK 1 TITL AUTOMATED METHOD FOR MODELING SEVEN-HELIX REMARK 1 TITL 2 TRANSMEMBRANE RECEPTORS FROM EXPERIMENTAL DATA REMARK 1 REF BIOPHYS.J. V. 69 2419 1995 REMARK 1 REFN ASTM BIOJAU US ISSN 0006-3495 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT IS CARRIED OUT AS REMARK 3 DESCRIBED IN THE JRNL CITATION ABOVE, EXCEPT THAT (1) DIHEDRAL REMARK 3 ANGLE POTENTIAL IS ADDED FROM THE ANNEALING STAGE ONWARDS, (2) REMARK 3 THE FINAL UNCONSTRAINED MINIMISATION IS CARRIED OUT USING REMARK 3 UNMODIFIED TOPH19 - POLOGY AND PARAM19 PARAMETER SETS. REMARK 4 REMARK 4 1PLN COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 6 REMARK 6 THE COORDINATES IN THIS ENTRY REPRESENT A THEORETICAL MODEL REMARK 6 STRUCTURE. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT * REMARK 6 CRYST1* AND *SCALE* RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 6 THESE RECORDS ARE MEANINGLESS. REMARK 7 REMARK 7 THE SEQUENCE MODELLED IS THAT OF THE PUTATIVE TRANSMEMBRANE REMARK 7 REGION AND THEREFORE BEGINS AT RESIDUE 35 AND ENDS AT REMARK 7 RESIDUE 52. REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-SEP-1999. REMARK 100 THE RCSB ID CODE IS RCSB008375. REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: MODELLING PROGRAM: PANDA, X-PLOR MODELLING EXPERIMENT: REMARK 220 AN ATOMIC MODEL OF THE TRANSMEMBRANE (TM) DOMAIN OF THE REMARK 220 PHOSPHOLAMBAN PENTAMER HAS BEEN GENERATED BY A REMARK 220 COMPUTATIONAL METHOD THAT USES THE EXPERIMENTALLY REMARK 220 MEASURED EFFECTS OF SYSTEMATIC SINGLE-SITE MUTATIONS REMARK 220 UPON THE OLIGOMERIZATION (SIMMERMAN ET AL., 1996) AS REMARK 220 GUIDING FORCES IN THE MODELLING PROCEDURE. THIS METHOD REMARK 220 MAKES THE ASSUMPTION THAT (1) THE PHOSPHOLAMBAN TM REMARK 220 DOMAIN IS A PARALLEL FIVE-HELIX BUNDLE, AND (2) REMARK 220 NONDISRUPTIVE MUTATION POSITIONS ARE LIPID EXPOSED, REMARK 220 WHEREAS (3) DISRUPTIVE OR PARTIALLY DISRUPTIVE MUTATIONS REMARK 220 ARE NOT. IN THE FIRST STAGE, A SIMPLIFIED TEMPLATE REMARK 220 REPRESENTING A 3-D ARRANGEMENT OF FIVE RIGID, IDEALIZED REMARK 220 HELICES IS GENERATED. THIS PROCESS IS PREDOMINANTLY REMARK 220 GUIDED BY EXPERIMENTAL INFORMATION AND IS ACHIEVED BY REMARK 220 MONTE CARLO SIMULATED ANNEALING (MCSA) OPTIMIZATION OF A REMARK 220 FUNCTION PENALIZING VIOLATIONS OF STRUCTURAL RESTRAINTS REMARK 220 DERIVED FROM THE INTERPRETATION OF THE MUTAGENESIS DATA REMARK 220 (REFERENCE 1). THIS SIMPLIFIED TEMPLATE STRUCTURE IS REMARK 220 THEN REFINED INTO A FULL-ATOM REPRESENTATION AND ITS REMARK 220 GEOMETRY OPTIMIZED IN A SERIES OF MOLECULAR DYNAMICS REMARK 220 SIMULATED ANNEALING (MDSA) CALCULATIONS. THUS THE REMARK 220 REFINEMENT STEP GENERATES THE MOST PROBABLE FULL-ATOM REMARK 220 PROTEIN STRUCTURE THAT CORRESPONDS TO THE EXPERIMENTALLY REMARK 220 DRIVEN SIMPLIFIED TEMPLATE. REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS. REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR-DETERMINED DBREF 1PLN A 35 52 UNP P26678 PPLA_HUMAN 35 52 DBREF 1PLN B 35 52 UNP P26678 PPLA_HUMAN 35 52 DBREF 1PLN C 35 52 UNP P26678 PPLA_HUMAN 35 52 DBREF 1PLN D 35 52 UNP P26678 PPLA_HUMAN 35 52 DBREF 1PLN E 35 52 UNP P26678 PPLA_HUMAN 35 52 SEQRES 1 A 18 PHE CYS LEU ILE LEU ILE CYS LEU LEU LEU ILE CYS ILE SEQRES 2 A 18 ILE VAL MET LEU LEU SEQRES 1 B 18 PHE CYS LEU ILE LEU ILE CYS LEU LEU LEU ILE CYS ILE SEQRES 2 B 18 ILE VAL MET LEU LEU SEQRES 1 C 18 PHE CYS LEU ILE LEU ILE CYS LEU LEU LEU ILE CYS ILE SEQRES 2 C 18 ILE VAL MET LEU LEU SEQRES 1 D 18 PHE CYS LEU ILE LEU ILE CYS LEU LEU LEU ILE CYS ILE SEQRES 2 D 18 ILE VAL MET LEU LEU SEQRES 1 E 18 PHE CYS LEU ILE LEU ILE CYS LEU LEU LEU ILE CYS ILE SEQRES 2 E 18 ILE VAL MET LEU LEU HELIX 1 A PHE A 35 LEU A 52 1 18 HELIX 2 B PHE B 35 LEU B 52 1 18 HELIX 3 C PHE C 35 LEU C 52 1 18 HELIX 4 D PHE D 35 LEU D 52 1 18 HELIX 5 E PHE E 35 LEU E 52 1 18 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