Header list of 1kmd.pdb file
Complete list - b 23 2 Bytes
HEADER ENDOCYTOSIS/EXOCYTOSIS 14-DEC-01 1KMD
TITLE SOLUTION STRUCTURE OF THE VAM7P PX DOMAIN
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: VACUOLAR MORPHOGENESIS PROTEIN VAM7;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: PX DOMAIN, RESIDUES 8-124;
COMPND 5 SYNONYM: VAM7P;
COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE;
SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST;
SOURCE 4 ORGANISM_TAXID: 4932;
SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21;
SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693;
SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-KG
KEYWDS PX DOMAIN, VAM7P, PHOSPHOINOSITIDE BINDING, ENDOCYTOSIS-EXOCYTOSIS
KEYWDS 2 COMPLEX
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR J.LU,J.GARCIA,I.DULUBOVA,T.C.SUDHOF,J.RIZO
REVDAT 3 23-FEB-22 1KMD 1 REMARK
REVDAT 2 24-FEB-09 1KMD 1 VERSN
REVDAT 1 12-JUN-02 1KMD 0
JRNL AUTH J.LU,J.GARCIA,I.DULUBOVA,T.C.SUDHOF,J.RIZO
JRNL TITL SOLUTION STRUCTURE OF THE VAM7P PX DOMAIN.
JRNL REF BIOCHEMISTRY V. 41 5956 2002
JRNL REFN ISSN 0006-2960
JRNL PMID 11993989
JRNL DOI 10.1021/BI020050B
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : NMRPIPE 1.8, CNS 1.0
REMARK 3 AUTHORS : DELAGLIO, F. ET AL. (NMRPIPE), BRUNGER, A.T. ET
REMARK 3 AL. (CNS)
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS:
REMARK 3 THE STRUCTURES ARE BASED ON A TOTAL OF 1443 RESTRAINTS, 1193 ARE
REMARK 3 NOE-DERIVED
REMARK 3 DISTANCE CONSTRAINTS, 152 DIHEDRAL ANGLE RESTRAINTS, 98 DISTANCE
REMARK 3 RESTRAINTS
REMARK 3 FROM HYDROGEN BONDS.
REMARK 4
REMARK 4 1KMD COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JAN-02.
REMARK 100 THE DEPOSITION ID IS D_1000015106.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 298
REMARK 210 PH : 6.2
REMARK 210 IONIC STRENGTH : 20MM MES
REMARK 210 PRESSURE : 1 ATM
REMARK 210 SAMPLE CONTENTS : 0.5MM VAM7P PX DOMAIN U-15N,20MM
REMARK 210 MES BUFFER; 0.5MM VAM7P PX
REMARK 210 DOMAIN U-15N, 13C, 20MM MES
REMARK 210 BUFFER; 0.5MM VAM7P PX DOMAIN U-
REMARK 210 15N, 20MM MES BUFFER; 0.5MM
REMARK 210 VAM7P PX DOMAIN 10%-13C, 20MM
REMARK 210 MES BUFFER
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C
REMARK 210 -SEPARATED_NOESY
REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ
REMARK 210 SPECTROMETER MODEL : INOVA
REMARK 210 SPECTROMETER MANUFACTURER : VARIAN
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : VNMR 6.1, NMRVIEW 4.1.2
REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 500
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20
REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE MINIMAL NOE
REMARK 210 ENERGY
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1
REMARK 210
REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR
REMARK 210 SPECTROSCOPY.
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 ASP A 18 27.76 -144.25
REMARK 500 1 LYS A 36 -176.56 167.70
REMARK 500 1 LYS A 49 -73.96 -63.11
REMARK 500 1 PRO A 61 34.05 -88.50
REMARK 500 1 VAL A 70 -78.81 -81.43
REMARK 500 1 LEU A 71 39.40 -156.32
REMARK 500 1 ARG A 103 -62.28 -133.33
REMARK 500 1 LEU A 120 38.06 -92.35
REMARK 500 1 SER A 121 -168.36 -74.23
REMARK 500 2 ARG A 14 98.88 -65.10
REMARK 500 2 ASP A 18 25.62 -142.69
REMARK 500 2 LYS A 36 -179.13 165.52
REMARK 500 2 LYS A 49 -71.48 -55.09
REMARK 500 2 VAL A 70 -79.41 -77.37
REMARK 500 2 ASN A 101 52.54 -90.48
REMARK 500 2 ARG A 103 -67.45 -122.84
REMARK 500 2 LEU A 120 38.76 -91.76
REMARK 500 3 LYS A 36 -178.34 136.16
REMARK 500 3 LYS A 49 -72.80 -62.09
REMARK 500 3 PRO A 61 35.11 -88.61
REMARK 500 3 VAL A 70 -79.16 -103.20
REMARK 500 3 LEU A 71 57.95 -107.11
REMARK 500 3 LEU A 120 38.15 -92.30
REMARK 500 3 SER A 121 -163.62 -105.40
REMARK 500 4 LYS A 36 -179.41 166.59
REMARK 500 4 LYS A 49 -70.27 -56.17
REMARK 500 4 PRO A 61 34.95 -86.09
REMARK 500 4 VAL A 70 -78.98 -98.17
REMARK 500 4 ARG A 73 13.44 -141.67
REMARK 500 4 ASN A 101 57.43 -95.41
REMARK 500 4 LEU A 120 38.59 -92.03
REMARK 500 5 LYS A 36 -178.37 167.86
REMARK 500 5 LYS A 49 -72.51 -55.45
REMARK 500 5 PRO A 61 33.94 -85.52
REMARK 500 5 VAL A 70 -79.47 -67.37
REMARK 500 5 LEU A 71 70.16 -114.33
REMARK 500 5 ASN A 101 52.25 -94.17
REMARK 500 5 LEU A 120 40.45 -93.92
REMARK 500 6 ASP A 18 26.58 -155.42
REMARK 500 6 LYS A 36 177.40 169.18
REMARK 500 6 LYS A 49 -72.31 -52.54
REMARK 500 6 GLU A 66 -167.16 -74.73
REMARK 500 6 VAL A 70 -79.16 -124.35
REMARK 500 6 LEU A 71 45.52 -166.70
REMARK 500 6 ASP A 80 33.67 -98.90
REMARK 500 6 ARG A 103 -50.53 -128.64
REMARK 500 6 LEU A 120 37.48 -90.66
REMARK 500 6 SER A 121 176.40 57.11
REMARK 500 7 LYS A 36 -178.30 168.30
REMARK 500 7 PRO A 61 32.58 -87.97
REMARK 500
REMARK 500 THIS ENTRY HAS 149 RAMACHANDRAN OUTLIERS.
REMARK 500
REMARK 500 REMARK: NULL
DBREF 1KMD A 8 124 UNP P32912 VAM7_YEAST 8 124
SEQRES 1 A 117 LYS MET SER GLU LYS LEU ARG ILE LYS VAL ASP ASP VAL
SEQRES 2 A 117 LYS ILE ASN PRO LYS TYR VAL LEU TYR GLY VAL SER THR
SEQRES 3 A 117 PRO ASN LYS ARG LEU TYR LYS ARG TYR SER GLU PHE TRP
SEQRES 4 A 117 LYS LEU LYS THR ARG LEU GLU ARG ASP VAL GLY SER THR
SEQRES 5 A 117 ILE PRO TYR ASP PHE PRO GLU LYS PRO GLY VAL LEU ASP
SEQRES 6 A 117 ARG ARG TRP GLN ARG ARG TYR ASP ASP PRO GLU MET ILE
SEQRES 7 A 117 ASP GLU ARG ARG ILE GLY LEU GLU ARG PHE LEU ASN GLU
SEQRES 8 A 117 LEU TYR ASN ASP ARG PHE ASP SER ARG TRP ARG ASP THR
SEQRES 9 A 117 LYS ILE ALA GLN ASP PHE LEU GLN LEU SER LYS PRO ASN
HELIX 1 1 ARG A 41 GLY A 57 1 17
HELIX 2 2 ASP A 81 ASN A 101 1 21
HELIX 3 3 SER A 106 THR A 111 1 6
HELIX 4 4 THR A 111 LEU A 118 1 8
SHEET 1 A 3 LEU A 38 LYS A 40 0
SHEET 2 A 3 VAL A 27 SER A 32 -1 N VAL A 31 O LEU A 38
SHEET 3 A 3 LYS A 16 VAL A 17 -1 N LYS A 16 O SER A 32
SHEET 1 B 3 LEU A 38 LYS A 40 0
SHEET 2 B 3 VAL A 27 SER A 32 -1 N VAL A 31 O LEU A 38
SHEET 3 B 3 LYS A 21 ILE A 22 -1 N LYS A 21 O LEU A 28
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
Complete list - b 23 2 Bytes