HEADER TRANSFERASE 22-DEC-04 1WVO TITLE SOLUTION STRUCTURE OF RSGI RUH-029, AN ANTIFREEZE PROTEIN LIKE DOMAIN TITLE 2 IN HUMAN N-ACETYLNEURAMINIC ACID PHOSPHATE SYNTHASE GENE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIALIC ACID SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ANTIFREEZE PROTEIN LIKE DOMAIN; COMPND 5 SYNONYM: N-ACETYLNEURAMINATE SYNTHASE, N-ACETYLNEURAMINIC ACID COMPND 6 SYNTHASE, N-ACETYLNEURAMINATE-9-PHOSPHATE SYNTHASE, N- COMPND 7 ACETYLNEURAMINIC ACID PHOSPHATE SYNTHASE; COMPND 8 EC: 2.5.1.56, 2.5.1.57; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: P040531-08; SOURCE 7 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS ANTIFREEZE PROTEIN LIKE DOMAIN, N-ACETYLNEURAMINIC ACID PHOSPHATE KEYWDS 2 SYNTHASE, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN KEYWDS 3 STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.ITO,T.HAMADA,F.HAYASHI,S.YOKOYAMA,H.HIROTA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 02-MAR-22 1WVO 1 REMARK SEQADV REVDAT 3 24-FEB-09 1WVO 1 VERSN REVDAT 2 16-MAY-06 1WVO 1 JRNL REVDAT 1 03-JAN-06 1WVO 0 JRNL AUTH T.HAMADA,Y.ITO,T.ABE,F.HAYASHI,P.GUNTERT,M.INOUE,T.KIGAWA, JRNL AUTH 2 T.TERADA,M.SHIROUZU,M.YOSHIDA,A.TANAKA,S.SUGANO,S.YOKOYAMA, JRNL AUTH 3 H.HIROTA JRNL TITL SOLUTION STRUCTURE OF THE ANTIFREEZE-LIKE DOMAIN OF HUMAN JRNL TITL 2 SIALIC ACID SYNTHASE JRNL REF PROTEIN SCI. V. 15 1010 2006 JRNL REFN ISSN 0961-8368 JRNL PMID 16597820 JRNL DOI 10.1110/PS.051700406 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1C, CYANA 2.0.17, OPALP 1.4 REMARK 3 AUTHORS : VARIAN (VNMR), GUENTERT, P. (CYANA), KORADI, R., REMARK 3 BILLETER, M., GUNTERT, P. (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WVO COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-DEC-04. REMARK 100 THE DEPOSITION ID IS D_1000024056. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 100MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.1MM ANTIFREEZE PROTEIN LIKE REMARK 210 DOMAIN U-15N,13C; 20MM TRIS-HCL REMARK 210 BUFFER (PH 7.0); 100MM NACL; 1MM REMARK 210 D-DTT; 0.02% NAN3; 90% H2O, 10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 21_2, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9049, 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 : TARGET FUNCTION,STRUCTURES WITH REMARK 210 THE LOWEST ENERGY,STRUCTURES REMARK 210 WITH THE LEAST RESTRAINT REMARK 210 VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING 3D NMR TECHNIQUES 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 5 41.00 -75.04 REMARK 500 1 PRO A 33 44.02 -80.47 REMARK 500 1 VAL A 45 93.73 -67.20 REMARK 500 1 ASP A 56 13.06 56.92 REMARK 500 1 LYS A 69 -65.03 -99.14 REMARK 500 1 ILE A 71 39.60 -74.93 REMARK 500 2 SER A 77 -122.90 -104.30 REMARK 500 3 VAL A 30 98.62 -59.63 REMARK 500 3 VAL A 45 91.29 -67.68 REMARK 500 4 GLU A 62 4.33 -65.66 REMARK 500 4 ASN A 66 135.55 179.73 REMARK 500 5 HIS A 67 -67.28 64.43 REMARK 500 5 LYS A 69 -4.48 154.68 REMARK 500 5 SER A 73 92.87 -62.40 REMARK 500 5 SER A 78 80.34 -154.62 REMARK 500 6 SER A 5 24.92 -140.79 REMARK 500 6 VAL A 45 98.70 -60.78 REMARK 500 7 SER A 2 -67.12 -131.41 REMARK 500 7 SER A 5 79.44 -153.97 REMARK 500 7 PRO A 33 31.65 -73.30 REMARK 500 7 HIS A 67 94.34 -63.63 REMARK 500 7 SER A 74 -170.70 -170.23 REMARK 500 8 SER A 6 -105.42 -102.83 REMARK 500 8 ASP A 56 1.20 82.87 REMARK 500 8 ASN A 66 114.94 173.18 REMARK 500 8 SER A 73 -168.36 -75.47 REMARK 500 9 SER A 5 -68.11 -161.46 REMARK 500 9 LYS A 70 109.38 -59.08 REMARK 500 9 SER A 73 -77.70 -78.60 REMARK 500 9 PRO A 76 9.65 -68.88 REMARK 500 9 SER A 78 -26.01 -169.92 REMARK 500 10 PRO A 33 28.80 -77.80 REMARK 500 10 ASP A 56 -6.18 72.47 REMARK 500 10 ILE A 59 93.73 -67.26 REMARK 500 11 SER A 5 127.91 -171.71 REMARK 500 12 SER A 2 -48.69 -148.32 REMARK 500 12 LYS A 34 106.15 -48.54 REMARK 500 12 HIS A 67 -55.72 -147.20 REMARK 500 12 LYS A 69 -57.36 -135.58 REMARK 500 12 PRO A 76 15.36 -67.73 REMARK 500 13 VAL A 30 89.99 -66.99 REMARK 500 13 SER A 78 -167.57 -79.12 REMARK 500 14 LYS A 34 95.32 -67.47 REMARK 500 14 ASP A 56 8.29 58.63 REMARK 500 15 SER A 2 -71.18 -54.09 REMARK 500 15 LYS A 70 105.98 -161.67 REMARK 500 15 SER A 73 -67.64 -123.38 REMARK 500 15 SER A 77 48.86 -73.79 REMARK 500 16 PRO A 33 36.23 -73.82 REMARK 500 16 VAL A 45 99.19 -68.05 REMARK 500 REMARK 500 THIS ENTRY HAS 63 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 TYR A 36 0.07 SIDE CHAIN REMARK 500 10 TYR A 36 0.07 SIDE CHAIN REMARK 500 11 TYR A 36 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSS001002155.1 RELATED DB: TARGETDB DBREF 1WVO A 8 73 UNP Q9NR45 SIAS_HUMAN 294 359 SEQADV 1WVO GLY A 1 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO SER A 2 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO SER A 3 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO GLY A 4 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO SER A 5 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO SER A 6 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO GLY A 7 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO SER A 74 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO GLY A 75 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO PRO A 76 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO SER A 77 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO SER A 78 UNP Q9NR45 CLONING ARTIFACT SEQADV 1WVO GLY A 79 UNP Q9NR45 CLONING ARTIFACT SEQRES 1 A 79 GLY SER SER GLY SER SER GLY SER VAL VAL ALA LYS VAL SEQRES 2 A 79 LYS ILE PRO GLU GLY THR ILE LEU THR MET ASP MET LEU SEQRES 3 A 79 THR VAL LYS VAL GLY GLU PRO LYS GLY TYR PRO PRO GLU SEQRES 4 A 79 ASP ILE PHE ASN LEU VAL GLY LYS LYS VAL LEU VAL THR SEQRES 5 A 79 VAL GLU GLU ASP ASP THR ILE MET GLU GLU LEU VAL ASP SEQRES 6 A 79 ASN HIS GLY LYS LYS ILE LYS SER SER GLY PRO SER SER SEQRES 7 A 79 GLY HELIX 1 1 THR A 22 ASP A 24 5 3 HELIX 2 2 ASP A 40 VAL A 45 1 6 HELIX 3 3 MET A 60 VAL A 64 5 5 SHEET 1 A 2 SER A 8 ALA A 11 0 SHEET 2 A 2 LEU A 26 LYS A 29 -1 O LYS A 29 N SER A 8 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