HEADER VIRAL PROTEIN 10-MAR-09 2KGF TITLE N-TERMINAL DOMAIN OF CAPSID PROTEIN FROM THE MASON-PFIZER MONKEY VIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSID PROTEIN P27; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 300-439; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MASON-PFIZER MONKEY VIRUS; SOURCE 3 ORGANISM_COMMON: MPMV; SOURCE 4 ORGANISM_TAXID: 11855; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: CANTDPET22B KEYWDS RETROVIRUS CAPSID PROTEIN, N-TERMINAL CORE DOMAIN (SCOP), CAPSID KEYWDS 2 PROTEIN, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 50 AUTHOR P.MACEK,J.CHMELIK,L.ZIDEK,P.KADERAVEK,P.PADRTA,T.RUML,I.PICHOVA, AUTHOR 2 M.RUMLOVA,V.SKLENAR REVDAT 3 16-MAR-22 2KGF 1 REMARK REVDAT 2 27-OCT-09 2KGF 1 JRNL REVDAT 1 11-AUG-09 2KGF 0 JRNL AUTH P.MACEK,J.CHMELIK,I.KRIZOVA,P.KADERAVEK,P.PADRTA,L.ZIDEK, JRNL AUTH 2 M.WILDOVA,R.HADRAVOVA,R.CHALOUPKOVA,I.PICHOVA,T.RUML, JRNL AUTH 3 M.RUMLOVA,V.SKLENAR JRNL TITL NMR STRUCTURE OF THE N-TERMINAL DOMAIN OF CAPSID PROTEIN JRNL TITL 2 FROM THE MASON-PFIZER MONKEY VIRUS JRNL REF J.MOL.BIOL. V. 392 100 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19527730 JRNL DOI 10.1016/J.JMB.2009.06.029 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.MACEK,L.ZIDEK,M.RUMLOVA,I.PICHOVA,V.SKLENAR REMARK 1 TITL 1H, 13C, AND 15N RESONANCE ASSIGNMENT OF THE N-TERMINAL REMARK 1 TITL 2 DOMAIN OF MASON-PFIZER MONKEY VIRUS CAPSID PROTEIN, CA 1-140 REMARK 1 REF BIOMOL.NMR ASSIGN. V. 2 43 2008 REMARK 1 REFN ISSN 1874-2718 REMARK 1 PMID 19636921 REMARK 1 DOI 10.1007/S12104-008-9080-1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS, CNS REMARK 3 AUTHORS : GODDARD (CNS), REMARK 3 BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-KUNSTLEVE,JIANG,KUSZEWSKI, REMARK 3 NILGES, PANNU,READ,RICE,SIMONSON,WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KGF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000101088. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 295 REMARK 210 PH : 8.0 REMARK 210 IONIC STRENGTH : 150MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.7-1.0 MM [U-100% 13C; U-100% REMARK 210 15N] MPMV NTD CA, 90% H2O, 10% REMARK 210 D2O; 0.7-1.0 MM [U-100% 13C; U- REMARK 210 100% 15N] MPMV NTD CA, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HCCH-TOCSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY; IPAP REMARK 210 [15N, 1H]‑HSQC; HN[C]-S3E; REMARK 210 2D IPAP [13C', 1H]-HCACO (C' REMARK 210 DETECTED) REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 150 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 50 REMARK 210 CONFORMERS, SELECTION CRITERIA : 10 STRUCTURES FOR LOWEST ENERGY 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: 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 H3 PRO A 1 OD2 ASP A 57 1.56 REMARK 500 O LEU A 101 HG1 THR A 102 1.57 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 50 LYS A 134 N LYS A 134 CA 0.133 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 9 LYS A 134 N - CA - C ANGL. DEV. = 16.3 DEGREES REMARK 500 11 LYS A 134 N - CA - C ANGL. DEV. = 17.4 DEGREES REMARK 500 22 PRO A 136 C - N - CA ANGL. DEV. = 9.5 DEGREES REMARK 500 27 LYS A 134 N - CA - C ANGL. DEV. = 17.8 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 THR A 37 -31.86 170.03 REMARK 500 1 ASP A 97 -59.31 73.22 REMARK 500 1 THR A 102 -59.10 -177.57 REMARK 500 1 SER A 104 110.47 167.43 REMARK 500 1 TYR A 107 -51.52 -134.44 REMARK 500 1 SER A 109 -162.00 49.47 REMARK 500 1 TYR A 116 176.94 54.72 REMARK 500 1 TRP A 132 27.73 -69.59 REMARK 500 1 LYS A 134 38.40 -61.64 REMARK 500 2 ARG A 14 -122.11 174.48 REMARK 500 2 THR A 37 -37.88 176.44 REMARK 500 2 THR A 102 -170.93 161.65 REMARK 500 2 SER A 104 150.51 -38.68 REMARK 500 2 TYR A 107 15.23 -145.61 REMARK 500 2 SER A 108 -71.56 -132.72 REMARK 500 2 SER A 109 -165.99 65.90 REMARK 500 2 GLN A 115 45.80 -101.63 REMARK 500 2 TRP A 132 27.86 -70.83 REMARK 500 2 LYS A 134 40.93 -58.46 REMARK 500 3 THR A 102 -50.69 162.00 REMARK 500 3 SER A 104 95.87 65.91 REMARK 500 3 TYR A 107 -36.96 -164.01 REMARK 500 3 SER A 108 -78.55 -43.99 REMARK 500 3 SER A 109 -156.34 65.93 REMARK 500 3 TRP A 132 27.20 -69.89 REMARK 500 3 LYS A 134 39.04 -61.32 REMARK 500 3 PRO A 136 -167.29 -72.99 REMARK 500 4 GLN A 9 18.33 -66.11 REMARK 500 4 THR A 37 -8.19 70.19 REMARK 500 4 ALA A 64 -60.99 -95.55 REMARK 500 4 ASP A 97 -41.31 80.33 REMARK 500 4 THR A 102 -175.51 85.18 REMARK 500 4 SER A 108 -79.60 -28.64 REMARK 500 4 SER A 109 -155.07 46.90 REMARK 500 4 TYR A 116 116.58 71.86 REMARK 500 4 TRP A 132 26.83 -77.59 REMARK 500 4 LYS A 134 38.42 -58.19 REMARK 500 5 ALA A 36 107.67 -40.37 REMARK 500 5 THR A 37 -34.63 153.96 REMARK 500 5 VAL A 65 -76.53 -47.01 REMARK 500 5 ASP A 97 -31.90 78.56 REMARK 500 5 PHE A 98 -70.65 -79.94 REMARK 500 5 THR A 102 177.37 73.54 REMARK 500 5 SER A 104 81.10 78.60 REMARK 500 5 TYR A 107 18.13 -165.81 REMARK 500 5 SER A 109 -170.72 54.66 REMARK 500 5 TYR A 116 121.89 70.00 REMARK 500 5 TRP A 132 28.33 -68.43 REMARK 500 5 LYS A 134 39.35 -58.91 REMARK 500 5 PRO A 136 -131.09 -68.01 REMARK 500 REMARK 500 THIS ENTRY HAS 525 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 133 0.10 SIDE CHAIN REMARK 500 3 ARG A 133 0.14 SIDE CHAIN REMARK 500 4 ARG A 83 0.08 SIDE CHAIN REMARK 500 4 ARG A 133 0.10 SIDE CHAIN REMARK 500 5 ARG A 133 0.08 SIDE CHAIN REMARK 500 8 ARG A 83 0.09 SIDE CHAIN REMARK 500 8 ARG A 88 0.07 SIDE CHAIN REMARK 500 8 ARG A 133 0.08 SIDE CHAIN REMARK 500 9 ARG A 133 0.11 SIDE CHAIN REMARK 500 12 ARG A 83 0.08 SIDE CHAIN REMARK 500 12 ARG A 133 0.09 SIDE CHAIN REMARK 500 14 ARG A 88 0.08 SIDE CHAIN REMARK 500 14 ARG A 133 0.09 SIDE CHAIN REMARK 500 16 ARG A 88 0.08 SIDE CHAIN REMARK 500 16 ARG A 133 0.09 SIDE CHAIN REMARK 500 18 ARG A 133 0.10 SIDE CHAIN REMARK 500 21 ARG A 133 0.08 SIDE CHAIN REMARK 500 22 ARG A 14 0.08 SIDE CHAIN REMARK 500 23 ARG A 88 0.10 SIDE CHAIN REMARK 500 23 ARG A 133 0.11 SIDE CHAIN REMARK 500 24 ARG A 14 0.09 SIDE CHAIN REMARK 500 24 ARG A 133 0.10 SIDE CHAIN REMARK 500 25 ARG A 88 0.08 SIDE CHAIN REMARK 500 25 ARG A 133 0.09 SIDE CHAIN REMARK 500 28 ARG A 133 0.11 SIDE CHAIN REMARK 500 30 ARG A 83 0.12 SIDE CHAIN REMARK 500 33 ARG A 133 0.08 SIDE CHAIN REMARK 500 34 ARG A 14 0.12 SIDE CHAIN REMARK 500 34 ARG A 83 0.10 SIDE CHAIN REMARK 500 36 ARG A 83 0.07 SIDE CHAIN REMARK 500 36 ARG A 133 0.08 SIDE CHAIN REMARK 500 37 ARG A 14 0.10 SIDE CHAIN REMARK 500 37 ARG A 83 0.08 SIDE CHAIN REMARK 500 37 ARG A 88 0.12 SIDE CHAIN REMARK 500 40 ARG A 133 0.08 SIDE CHAIN REMARK 500 43 ARG A 88 0.09 SIDE CHAIN REMARK 500 44 ARG A 14 0.08 SIDE CHAIN REMARK 500 44 ARG A 88 0.10 SIDE CHAIN REMARK 500 45 ARG A 133 0.09 SIDE CHAIN REMARK 500 46 ARG A 133 0.07 SIDE CHAIN REMARK 500 47 ARG A 83 0.11 SIDE CHAIN REMARK 500 47 ARG A 133 0.13 SIDE CHAIN REMARK 500 49 ARG A 133 0.10 SIDE CHAIN REMARK 500 50 ARG A 88 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16234 RELATED DB: BMRB DBREF 2KGF A 1 140 UNP P07567 GAG_MPMV 300 439 SEQRES 1 A 140 PRO VAL THR GLU THR VAL ASP GLY GLN GLY GLN ALA TRP SEQRES 2 A 140 ARG HIS HIS ASN GLY PHE ASP PHE ALA VAL ILE LYS GLU SEQRES 3 A 140 LEU LYS THR ALA ALA SER GLN TYR GLY ALA THR ALA PRO SEQRES 4 A 140 TYR THR LEU ALA ILE VAL GLU SER VAL ALA ASP ASN TRP SEQRES 5 A 140 LEU THR PRO THR ASP TRP ASN THR LEU VAL ARG ALA VAL SEQRES 6 A 140 LEU SER GLY GLY ASP HIS LEU LEU TRP LYS SER GLU PHE SEQRES 7 A 140 PHE GLU ASN CYS ARG ASP THR ALA LYS ARG ASN GLN GLN SEQRES 8 A 140 ALA GLY ASN GLY TRP ASP PHE ASP MET LEU THR GLY SER SEQRES 9 A 140 GLY ASN TYR SER SER THR ASP ALA GLN MET GLN TYR ASP SEQRES 10 A 140 PRO GLY LEU PHE ALA GLN ILE GLN ALA ALA ALA THR LYS SEQRES 11 A 140 ALA TRP ARG LYS LEU PRO VAL LYS GLY ASP HELIX 1 1 ASP A 20 TYR A 34 1 15 HELIX 2 2 ALA A 38 ASP A 50 1 13 HELIX 3 3 THR A 54 LEU A 66 1 13 HELIX 4 4 GLY A 68 GLY A 93 1 26 HELIX 5 5 SER A 108 TYR A 116 1 9 HELIX 6 6 ASP A 117 TRP A 132 1 16 SHEET 1 A 2 VAL A 2 VAL A 6 0 SHEET 2 A 2 ALA A 12 HIS A 16 -1 O TRP A 13 N THR A 5 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