HEADER VIRAL PROTEIN 17-MAR-04 1VD0 TITLE CAPSID STABILIZING PROTEIN GPD, NMR, 20 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEAD DECORATION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GPD, MAJOR CAPSID PROTEIN D; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE LAMBDA; SOURCE 3 ORGANISM_TAXID: 10710; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: T7-PROMOTER; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PAT101 KEYWDS VIRUS/VIRAL PROTEIN, CAPSID PROTEIN, STRUCTURAL GENOMICS, NPPSFA, KEYWDS 2 NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, KEYWDS 3 SCOTTISH STRUCTURAL PROTEOMICS FACILITY, SSPF, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.IWAI,P.FORRER,A.PLUCKTHUN,P.GUNTERT,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 6 27-DEC-23 1VD0 1 REMARK REVDAT 5 02-MAR-22 1VD0 1 REMARK ATOM REVDAT 4 24-FEB-09 1VD0 1 VERSN REVDAT 3 16-OCT-07 1VD0 1 REMARK AUTHOR KEYWDS REVDAT 2 21-JUN-05 1VD0 1 JRNL REVDAT 1 29-MAR-05 1VD0 0 JRNL AUTH H.IWAI,P.FORRER,A.PLUCKTHUN,P.GUNTERT JRNL TITL NMR SOLUTION STRUCTURE OF THE MONOMERIC FORM OF THE JRNL TITL 2 BACTERIOPHAGE LAMBDA CAPSID STABILIZING PROTEIN GPD. JRNL REF J.BIOMOL.NMR V. 31 351 2005 JRNL REFN ISSN 0925-2738 JRNL PMID 15929002 JRNL DOI 10.1007/S10858-005-0945-7 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.IWAI,P.FORRER,A.PLUCKTHUN,P.GUNTERT REMARK 1 TITL ASSIGNMENTS OF 1H AND 15N RESONANCES OF THE BACTERIOPHAGE REMARK 1 TITL 2 LAMBDA CAPSID STABILIZING PROTEIN GPD REMARK 1 REF J.BIOMOL.NMR V. 28 89 2004 REMARK 1 REFN ISSN 0925-2738 REMARK 1 PMID 14739644 REMARK 1 DOI 10.1023/B:JNMR.0000012844.21707.8C REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.0.17 REMARK 3 AUTHORS : GUNTERT, P. ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1VD0 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-MAR-04. REMARK 100 THE DEPOSITION ID IS D_1000006478. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.3MM 15N LABELLED GPD, 20MM REMARK 210 SODIUM PHOSPHATE; 1.3MM GPD, REMARK 210 50MM SODIUM PHOSPHATE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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: 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 SER A 2 107.58 -170.30 REMARK 500 1 THR A 5 148.27 -173.03 REMARK 500 1 HIS A 8 87.20 -56.85 REMARK 500 1 HIS A 19 43.22 -107.08 REMARK 500 1 PRO A 24 2.85 -69.77 REMARK 500 1 PHE A 101 30.17 -99.94 REMARK 500 2 THR A 5 53.98 -106.75 REMARK 500 2 PHE A 6 44.63 -99.38 REMARK 500 2 TYR A 9 121.89 -35.35 REMARK 500 2 PRO A 11 -174.43 -69.72 REMARK 500 2 ALA A 18 150.32 -42.21 REMARK 500 2 PRO A 24 3.25 -69.78 REMARK 500 2 THR A 53 105.99 -36.13 REMARK 500 3 SER A 2 119.92 -166.77 REMARK 500 3 PHE A 6 111.79 -173.10 REMARK 500 3 PRO A 11 -174.23 -69.80 REMARK 500 3 GLN A 12 33.90 33.83 REMARK 500 3 ASN A 14 36.47 33.94 REMARK 500 3 PRO A 24 3.26 -69.75 REMARK 500 3 THR A 53 120.82 -37.34 REMARK 500 3 ALA A 64 154.08 -46.20 REMARK 500 3 LYS A 76 -32.06 -131.08 REMARK 500 4 SER A 2 147.80 -173.20 REMARK 500 4 LYS A 3 53.97 -105.03 REMARK 500 4 GLN A 12 44.60 -97.09 REMARK 500 4 ALA A 18 155.52 -37.14 REMARK 500 4 PRO A 24 1.61 -69.77 REMARK 500 4 ALA A 90 -29.59 -36.64 REMARK 500 5 GLU A 4 111.35 -171.21 REMARK 500 5 PHE A 6 138.20 -174.82 REMARK 500 5 PRO A 24 0.68 -69.84 REMARK 500 5 ALA A 33 -174.72 -61.84 REMARK 500 5 ASP A 40 -175.84 -68.94 REMARK 500 5 ALA A 48 152.49 -49.03 REMARK 500 5 ALA A 91 95.41 -69.36 REMARK 500 6 PHE A 6 42.75 -84.04 REMARK 500 6 TYR A 9 121.91 -170.95 REMARK 500 6 ALA A 18 52.73 34.17 REMARK 500 7 PHE A 6 135.27 -174.98 REMARK 500 7 TYR A 9 148.31 -170.47 REMARK 500 7 GLN A 12 40.84 -85.07 REMARK 500 7 ALA A 18 31.53 -86.24 REMARK 500 7 PRO A 24 4.93 -69.72 REMARK 500 7 ALA A 48 153.91 -48.26 REMARK 500 8 GLU A 4 129.93 -174.50 REMARK 500 8 HIS A 8 -41.55 -133.35 REMARK 500 8 PRO A 24 6.17 -69.79 REMARK 500 8 THR A 53 108.10 -38.07 REMARK 500 8 LYS A 76 -30.80 -130.80 REMARK 500 9 LYS A 3 146.15 -172.36 REMARK 500 REMARK 500 THIS ENTRY HAS 126 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5807 RELATED DB: BMRB REMARK 900 CHEMICAL SHIFTS REMARK 900 RELATED ID: MY_001000120.1 RELATED DB: TARGETDB DBREF 1VD0 A 1 109 UNP P03712 VCAD_LAMBD 2 110 SEQRES 1 A 109 THR SER LYS GLU THR PHE THR HIS TYR GLN PRO GLN GLY SEQRES 2 A 109 ASN SER ASP PRO ALA HIS THR ALA THR ALA PRO GLY GLY SEQRES 3 A 109 LEU SER ALA LYS ALA PRO ALA MET THR PRO LEU MET LEU SEQRES 4 A 109 ASP THR SER SER ARG LYS LEU VAL ALA TRP ASP GLY THR SEQRES 5 A 109 THR ASP GLY ALA ALA VAL GLY ILE LEU ALA VAL ALA ALA SEQRES 6 A 109 ASP GLN THR SER THR THR LEU THR PHE TYR LYS SER GLY SEQRES 7 A 109 THR PHE ARG TYR GLU ASP VAL LEU TRP PRO GLU ALA ALA SEQRES 8 A 109 SER ASP GLU THR LYS LYS ARG THR ALA PHE ALA GLY THR SEQRES 9 A 109 ALA ILE SER ILE VAL HELIX 1 1 ASP A 93 THR A 99 1 7 SHEET 1 A 2 THR A 20 ALA A 23 0 SHEET 2 A 2 LEU A 72 TYR A 75 -1 O PHE A 74 N ALA A 21 SHEET 1 B 3 LEU A 46 ALA A 48 0 SHEET 2 B 3 THR A 35 LEU A 39 -1 N MET A 38 O VAL A 47 SHEET 3 B 3 ALA A 57 LEU A 61 -1 O VAL A 58 N LEU A 37 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 MODEL 1