10 20 30 40 50 60 70 80 2E5E - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER SIGNALING PROTEIN 20-DEC-06 2E5E
TITLE SOLUTION STRUCTURE OF VARIABLE-TYPE DOMAIN OF HUMAN TITLE 2 RECEPTOR FOR ADVANCED GLYCATION ENDPRODUCTS
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADVANCED GLYCOSYLATION END PRODUCT-SPECIFIC COMPND 3 RECEPTOR; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: VARIABLE-TYPE DOMAIN; COMPND 6 SYNONYM: RECEPTOR FOR ADVANCED GLYCATION ENDPRODUCTS, COMPND 7 RECEPTOR FOR ADVANCED GLYCOSYLATION END PRODUCTS; COMPND 8 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: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ORIGAMI B (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET32B
KEYWDS VARIABLE-TYPE IMMUNOGLOBULIN-LIKE FOLD, SIGNALING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 15
AUTHOR S.MATSUMOTO,T.YOSHIDA,I.YASUMATSU,H.YAMAMOTO,Y.KOBAYASHI, AUTHOR 2 T.OHKUBO
REVDAT 3 24-FEB-09 2E5E 1 VERSN REVDAT 2 08-JUL-08 2E5E 1 ATOM REVDAT 1 25-DEC-07 2E5E 0
JRNL AUTH S.MATSUMOTO,T.YOSHIDA,I.YASUMATSU,H.YAMAMOTO, JRNL AUTH 2 Y.KOBAYASHI,T.OHKUBO JRNL TITL SOLUTION STRUCTURE OF VARIABLE-TYPE DOMAIN OF JRNL TITL 2 HUMAN RECEPTOR FOR ADVANCED GLYCATION ENDPRODUCTS JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2E5E COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-DEC-06. REMARK 100 THE RCSB ID CODE IS RCSB026246.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1ATM REMARK 210 SAMPLE CONTENTS : 0.2MM VARIABLE-TYPE DOMAIN OF REMARK 210 RECEPTOR FOR ADVANCED REMARK 210 GLYCATION ENDPRODUCTS U-15N, REMARK 210 13C; 20MM PHOSPHATE BUFFER NA, REMARK 210 100MM NA2SO4; 90% H2O, 10% REMARK 210 D2O; 0.2MM VARIABLE-TYPE REMARK 210 DOMAIN OF RECEPTOR FOR REMARK 210 ADVANCED GLYCATION REMARK 210 ENDPRODUCTS; 20MM PHOSPHATE REMARK 210 BUFFER NA, 100MM NA2SO4; 100% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY, 3D_ REMARK 210 15N-SEPARATED_NOESY, 2D NOESY, REMARK 210 2D TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ, 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 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 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 ALA A 23 142.09 -175.96 REMARK 500 1 LYS A 39 -176.15 -65.31 REMARK 500 1 PRO A 42 -166.72 -56.21 REMARK 500 1 PRO A 45 167.69 -49.82 REMARK 500 1 PRO A 46 105.54 -55.29 REMARK 500 1 THR A 58 104.86 62.13 REMARK 500 1 GLU A 59 16.67 -140.92 REMARK 500 1 ALA A 88 105.48 -167.53 REMARK 500 1 GLU A 94 178.16 -50.92 REMARK 500 1 SER A 111 124.88 -171.15 REMARK 500 1 TYR A 118 -77.99 -52.99 REMARK 500 2 LYS A 39 -174.11 -69.73 REMARK 500 2 ALA A 41 105.31 -52.26 REMARK 500 2 PRO A 42 -160.65 -61.96 REMARK 500 2 PRO A 45 108.27 -55.59 REMARK 500 2 THR A 58 76.91 64.58 REMARK 500 2 GLU A 94 177.31 -50.62 REMARK 500 2 SER A 111 112.26 -166.60 REMARK 500 3 ALA A 23 129.35 63.56 REMARK 500 3 LYS A 39 170.87 -55.55 REMARK 500 3 PRO A 42 -158.32 -57.68 REMARK 500 3 ARG A 57 -77.57 -107.11 REMARK 500 3 THR A 58 -173.37 -176.32 REMARK 500 3 GLU A 59 96.92 60.99 REMARK 500 3 ALA A 60 -68.97 -178.82 REMARK 500 3 PRO A 66 84.56 -69.13 REMARK 500 3 GLN A 67 79.84 66.07 REMARK 500 3 SER A 83 -169.53 -119.31 REMARK 500 3 ALA A 88 108.10 -165.89 REMARK 500 3 GLU A 94 177.39 -50.35 REMARK 500 4 MET A 22 175.08 60.01 REMARK 500 4 ALA A 23 -172.33 -62.31 REMARK 500 4 LYS A 39 179.55 -58.81 REMARK 500 4 PRO A 42 178.67 -51.94 REMARK 500 4 ARG A 57 -68.12 69.81 REMARK 500 4 THR A 58 140.75 173.97 REMARK 500 4 GLU A 59 38.89 -179.53 REMARK 500 4 ALA A 60 -29.76 171.37 REMARK 500 4 PRO A 66 63.93 -69.58 REMARK 500 4 GLN A 67 -60.01 -145.50 REMARK 500 4 GLU A 94 178.81 -53.63 REMARK 500 5 PRO A 42 -178.08 -52.77 REMARK 500 5 THR A 58 67.69 62.39 REMARK 500 5 GLN A 67 97.44 -176.17 REMARK 500 5 GLU A 94 178.43 -51.96 REMARK 500 5 GLN A 100 117.35 -160.32 REMARK 500 5 SER A 111 119.56 -166.26 REMARK 500 5 TYR A 118 -78.68 -54.31 REMARK 500 6 PRO A 42 176.97 -53.22 REMARK 500 6 PRO A 46 88.73 -53.93 REMARK 500 6 THR A 58 91.92 -52.58 REMARK 500 6 GLN A 67 -55.13 -178.79 REMARK 500 6 ALA A 88 101.36 -163.24 REMARK 500 6 GLU A 94 173.20 -49.00 REMARK 500 6 SER A 111 125.67 -170.92 REMARK 500 6 TYR A 118 -76.13 -52.23 REMARK 500 7 MET A 22 -176.71 60.73 REMARK 500 7 ALA A 23 -173.20 64.72 REMARK 500 7 PRO A 42 -162.60 -56.72 REMARK 500 7 GLU A 94 171.68 -56.16 REMARK 500 7 SER A 111 108.77 -161.84 REMARK 500 7 TYR A 118 -74.25 -58.57 REMARK 500 8 PRO A 42 170.60 -53.69 REMARK 500 8 THR A 58 93.65 -51.46 REMARK 500 8 GLN A 67 79.55 -160.67 REMARK 500 8 GLU A 94 -178.59 -59.33 REMARK 500 8 SER A 111 108.74 -166.80 REMARK 500 9 MET A 22 -172.81 61.85 REMARK 500 9 PRO A 42 -171.58 -54.77 REMARK 500 9 PRO A 45 159.77 -47.53 REMARK 500 9 GLN A 47 -167.82 -168.86 REMARK 500 9 THR A 58 95.69 64.26 REMARK 500 9 GLU A 59 26.85 -157.58 REMARK 500 9 GLN A 67 -51.82 -178.10 REMARK 500 9 ALA A 88 112.21 -168.17 REMARK 500 9 GLU A 94 175.30 -49.83 REMARK 500 9 TYR A 118 -76.91 -54.86 REMARK 500 10 PRO A 42 -164.06 -56.71 REMARK 500 10 PRO A 46 -166.90 -70.17 REMARK 500 10 GLN A 47 -36.09 178.06 REMARK 500 10 THR A 58 93.57 64.16 REMARK 500 10 GLU A 59 29.86 -168.04 REMARK 500 10 VAL A 75 -69.19 -94.62 REMARK 500 10 GLU A 94 174.84 -53.91 REMARK 500 10 SER A 111 110.91 -162.64 REMARK 500 10 TYR A 118 -74.43 -61.63 REMARK 500 11 PRO A 46 95.34 -54.66 REMARK 500 11 THR A 58 95.10 66.33 REMARK 500 11 GLU A 59 72.07 -160.56 REMARK 500 11 ALA A 60 -28.52 175.98 REMARK 500 11 GLN A 67 90.91 -168.53 REMARK 500 11 GLU A 94 173.28 -48.30 REMARK 500 11 SER A 111 110.67 -171.15 REMARK 500 11 TYR A 118 -75.14 -47.68 REMARK 500 12 PRO A 42 -174.53 -54.01 REMARK 500 12 GLN A 47 111.55 62.56 REMARK 500 12 THR A 58 71.01 63.78 REMARK 500 12 GLU A 59 88.51 -150.12 REMARK 500 12 ALA A 60 -41.91 -178.23 REMARK 500 12 SER A 83 -165.61 -112.69 REMARK 500 12 GLU A 94 174.11 -49.85 REMARK 500 12 SER A 111 141.98 -171.28 REMARK 500 12 TYR A 118 -80.05 -68.06 REMARK 500 13 ALA A 23 140.26 63.07 REMARK 500 13 PRO A 42 -158.30 -58.33 REMARK 500 13 PRO A 46 -166.72 -62.20 REMARK 500 13 THR A 58 -159.50 72.55 REMARK 500 13 GLU A 59 160.31 76.58 REMARK 500 13 ALA A 60 -0.40 77.53 REMARK 500 13 GLN A 67 87.27 -158.78 REMARK 500 13 ALA A 76 135.00 -171.36 REMARK 500 13 GLU A 94 177.78 -51.21 REMARK 500 13 TYR A 118 -80.66 -61.76 REMARK 500 14 MET A 22 177.30 60.36 REMARK 500 14 ALA A 41 105.13 -52.19 REMARK 500 14 PRO A 42 -162.22 -64.03 REMARK 500 14 PRO A 46 -167.96 -77.20 REMARK 500 14 GLN A 47 30.61 -157.08 REMARK 500 14 THR A 58 103.30 -49.64 REMARK 500 14 GLU A 59 27.00 -156.63 REMARK 500 14 GLN A 67 83.97 -164.18 REMARK 500 14 GLU A 94 -178.27 -55.34 REMARK 500 14 TYR A 118 -77.49 -57.70 REMARK 500 15 MET A 22 168.52 60.65 REMARK 500 15 ALA A 23 -177.56 60.71 REMARK 500 15 PRO A 42 -166.31 -54.26 REMARK 500 15 THR A 58 91.97 56.96 REMARK 500 15 GLU A 59 35.46 -173.09 REMARK 500 15 GLN A 67 -38.83 -136.83 REMARK 500 15 VAL A 75 -73.40 -96.99 REMARK 500 15 SER A 83 -167.98 -125.33 REMARK 500 15 GLU A 94 175.24 -49.52 REMARK 500 15 TYR A 118 -80.37 -63.11 REMARK 500 REMARK 500 REMARK: NULL
DBREF 2E5E A 23 121 UNP Q15109 RAGE_HUMAN 23 121
SEQADV 2E5E ALA A 21 UNP Q15109 EXPRESSION TAG SEQADV 2E5E MET A 22 UNP Q15109 EXPRESSION TAG
SEQRES 1 A 101 ALA MET ALA GLN ASN ILE THR ALA ARG ILE GLY GLU PRO SEQRES 2 A 101 LEU VAL LEU LYS CYS LYS GLY ALA PRO LYS LYS PRO PRO SEQRES 3 A 101 GLN ARG LEU GLU TRP LYS LEU ASN THR GLY ARG THR GLU SEQRES 4 A 101 ALA TRP LYS VAL LEU SER PRO GLN GLY GLY GLY PRO TRP SEQRES 5 A 101 ASP SER VAL ALA ARG VAL LEU PRO ASN GLY SER LEU PHE SEQRES 6 A 101 LEU PRO ALA VAL GLY ILE GLN ASP GLU GLY ILE PHE ARG SEQRES 7 A 101 CYS GLN ALA MET ASN ARG ASN GLY LYS GLU THR LYS SER SEQRES 8 A 101 ASN TYR ARG VAL ARG VAL TYR GLN ILE PRO
HELIX 1 1 PRO A 71 ALA A 76 1 6
SHEET 1 A 4 GLN A 24 THR A 27 0 SHEET 2 A 4 ASN A 112 ARG A 116 1 O ARG A 114 N GLN A 24 SHEET 3 A 4 GLY A 95 MET A 102 -1 N GLY A 95 O VAL A 115 SHEET 4 A 4 ARG A 48 ASN A 54 -1 N GLU A 50 O GLN A 100 SHEET 1 B 2 GLU A 32 LYS A 37 0 SHEET 2 B 2 SER A 83 VAL A 89 -1 O LEU A 84 N LEU A 36
SSBOND 1 CYS A 38 CYS A 99 1555 1555 2.03
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