HEADER LIGASE 16-NOV-09 2KQR TITLE SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN (RESIDUES 1-111) OF BRUGIA TITLE 2 MALAYI ASPARAGINYL-TRNA SYNTHETASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARAGINYL-TRNA SYNTHETASE, CYTOPLASMIC; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABSE RESIDUES 1-111; COMPND 5 SYNONYM: ASPARAGINE--TRNA LIGASE, ASNRS, POTENTIALLY PROTECTIVE 63 COMPND 6 KDA ANTIGEN; COMPND 7 EC: 6.1.1.22; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRUGIA MALAYI; SOURCE 3 ORGANISM_COMMON: AGENT OF LYMPHATIC FILARIASIS; SOURCE 4 ORGANISM_TAXID: 6279; SOURCE 5 GENE: ASPARAGINYL-TRNA SYNTHETASE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SG130099[PREP4]; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PQE30-8HT KEYWDS AMINOACYL-TRNA SYNTHETASE, BRUGIA MALAYI, ATP-BINDING, LIGASE, KEYWDS 2 NUCLEOTIDE-BINDING, PROTEIN BIOSYNTHESIS, STRUCTURAL GENOMICS, PSI- KEYWDS 3 2, PROTEIN STRUCTURE INITIATIVE, CENTER FOR EUKARYOTIC STRUCTURAL KEYWDS 4 GENOMICS, CESG EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.F.VOLKMAN,F.C.PETERSON,M.A.KRON,CENTER FOR EUKARYOTIC STRUCTURAL AUTHOR 2 GENOMICS (CESG) REVDAT 6 08-MAY-24 2KQR 1 REMARK REVDAT 5 14-JUN-23 2KQR 1 REMARK REVDAT 4 26-FEB-20 2KQR 1 REMARK SEQADV REVDAT 3 26-JAN-11 2KQR 1 JRNL REVDAT 2 22-DEC-10 2KQR 1 JRNL REVDAT 1 15-DEC-09 2KQR 0 JRNL AUTH T.CREPIN,F.PETERSON,M.HAERTLEIN,D.JENSEN,C.WANG,S.CUSACK, JRNL AUTH 2 M.KRON JRNL TITL A HYBRID STRUCTURAL MODEL OF THE COMPLETE BRUGIA MALAYI JRNL TITL 2 CYTOPLASMIC ASPARAGINYL-TRNA SYNTHETASE. JRNL REF J.MOL.BIOL. V. 405 1056 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21134380 JRNL DOI 10.1016/J.JMB.2010.11.049 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, CYANA 2.1, X-PLOR NIH REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 (CYANA), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: AUTOMATED METHODS WERE USED FOR REMARK 3 BACKBONE CHEMICAL SHIFT ASSIGNMENT AND ITERATIVE NOE REFINEMENT. REMARK 3 FINAL STRUCTURES WERE OBTAINED BY MOLECULAR DYNAMICS IN EXPLICIT REMARK 3 SOLVENT. STRUCTURES ARE BASED ON A TOTAL OF 1353 NOE CONSTRAINTS REMARK 3 (401 INTRA, 210 SEQUENTIAL, 255 MEDIUM, AND 487 LONG RANGE) AND REMARK 3 122 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. REMARK 4 REMARK 4 2KQR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-NOV-09. REMARK 100 THE DEPOSITION ID IS D_1000101456. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 53 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 ASNRS, 20 MM SODIUM PHOSPHATE, REMARK 210 50 MM SODIUM CHLORIDE, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY (AROMATIC) REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY, GARANT 2.2, CYANA 2.1, REMARK 210 TOPSPIN 2.1 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 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 SER A 0 96.57 64.62 REMARK 500 1 SER A 35 -55.97 59.86 REMARK 500 1 ASN A 73 85.49 58.54 REMARK 500 1 ALA A 77 95.38 70.70 REMARK 500 1 LEU A 81 126.86 61.40 REMARK 500 1 LYS A 83 -72.42 -72.84 REMARK 500 1 ASP A 84 144.53 -174.44 REMARK 500 1 ALA A 85 29.36 -145.92 REMARK 500 1 LEU A 108 100.42 66.30 REMARK 500 2 GLU A 8 -64.54 -91.14 REMARK 500 2 VAL A 76 -61.73 -108.59 REMARK 500 2 ALA A 78 -77.38 -151.85 REMARK 500 2 LYS A 79 88.44 41.88 REMARK 500 2 MET A 80 -87.15 -94.95 REMARK 500 2 LEU A 81 158.04 160.15 REMARK 500 2 ALA A 85 -79.77 -175.48 REMARK 500 2 THR A 86 73.36 47.07 REMARK 500 2 VAL A 100 116.39 -160.85 REMARK 500 2 GLN A 101 107.02 -171.73 REMARK 500 2 LEU A 108 146.70 74.85 REMARK 500 3 GLU A 8 -73.72 -69.38 REMARK 500 3 ASP A 11 144.68 -172.84 REMARK 500 3 GLU A 74 -72.28 -109.98 REMARK 500 3 ALA A 77 -65.92 -144.82 REMARK 500 3 ALA A 78 77.00 42.57 REMARK 500 3 MET A 80 93.57 61.25 REMARK 500 3 ALA A 85 100.99 61.78 REMARK 500 3 LEU A 94 93.13 55.35 REMARK 500 3 LEU A 108 103.68 58.78 REMARK 500 4 PRO A 7 22.11 -74.57 REMARK 500 4 ASP A 11 130.85 -173.97 REMARK 500 4 SER A 35 14.37 56.45 REMARK 500 4 LYS A 36 7.88 -164.61 REMARK 500 4 GLU A 74 36.66 -97.92 REMARK 500 4 LYS A 75 62.12 68.12 REMARK 500 4 VAL A 76 -50.63 -131.56 REMARK 500 4 ALA A 77 118.11 -160.24 REMARK 500 4 MET A 80 -81.44 65.00 REMARK 500 4 GLU A 82 -93.41 -84.78 REMARK 500 4 LYS A 83 -35.86 -145.19 REMARK 500 4 LYS A 99 92.56 -163.22 REMARK 500 4 LEU A 104 108.67 62.55 REMARK 500 5 SER A 0 -168.66 64.80 REMARK 500 5 PRO A 7 5.66 -68.15 REMARK 500 5 GLU A 8 -69.26 -99.39 REMARK 500 5 SER A 35 -25.23 61.22 REMARK 500 5 ASN A 73 -81.72 -90.50 REMARK 500 5 LYS A 75 -44.59 159.51 REMARK 500 5 ALA A 78 -77.67 -86.86 REMARK 500 5 LYS A 83 87.22 68.14 REMARK 500 REMARK 500 THIS ENTRY HAS 164 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: GO.102066 RELATED DB: TARGETDB REMARK 900 RELATED ID: 16610 RELATED DB: BMRB DBREF 2KQR A 1 111 UNP P10723 SYNC_BRUMA 1 111 SEQADV 2KQR GLY A -1 UNP P10723 EXPRESSION TAG SEQADV 2KQR SER A 0 UNP P10723 EXPRESSION TAG SEQADV 2KQR VAL A 50 UNP P10723 ILE 50 VARIANT SEQADV 2KQR ARG A 65 UNP P10723 HIS 65 VARIANT SEQRES 1 A 113 GLY SER MET THR VAL TYR ILE CYS PRO GLU THR GLY ASP SEQRES 2 A 113 ASP GLY ASN ASP GLY SER GLU LEU LYS PRO LEU ARG THR SEQRES 3 A 113 LEU TYR GLN ALA MET ILE ILE THR LYS SER SER LYS GLY SEQRES 4 A 113 ASP PHE LEU ILE ARG THR LYS LYS ASP GLY LYS GLN VAL SEQRES 5 A 113 TRP GLU ALA ALA SER LYS THR ALA LEU LYS LYS SER TRP SEQRES 6 A 113 LYS ARG TYR GLU GLN GLU MET LEU LYS ASN GLU LYS VAL SEQRES 7 A 113 ALA ALA LYS MET LEU GLU LYS ASP ALA THR GLU VAL GLY SEQRES 8 A 113 VAL LYS ALA ALA LEU GLU GLU ALA LYS LYS VAL GLN ILE SEQRES 9 A 113 GLU LEU ASP THR SER LEU SER TYR ILE HELIX 1 1 THR A 24 LYS A 33 1 10 HELIX 2 2 SER A 55 ASN A 73 1 19 SHEET 1 A 3 VAL A 3 ILE A 5 0 SHEET 2 A 3 PHE A 39 LYS A 45 1 O ARG A 42 N ILE A 5 SHEET 3 A 3 LYS A 48 ALA A 53 -1 O VAL A 50 N THR A 43 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