HEADER IMMUNE SYSTEM 24-JUL-01 1JNJ TITLE NMR SOLUTION STRUCTURE OF THE HUMAN BETA2-MICROGLOBULIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA2-MICROGLOBULIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: B2M; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PHN1 KEYWDS IMMUNOGLOBULIN CONSTANT DOMAIN, IMMUNE SYSTEM EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR G.VERDONE,A.CORAZZA,P.VIGLINO,F.PETTIROSSI,S.GIORGETTI,P.MANGIONE, AUTHOR 2 A.ANDREOLA,M.STOPPINI,V.BELLOTTI,G.ESPOSITO REVDAT 3 23-FEB-22 1JNJ 1 REMARK SEQADV REVDAT 2 24-FEB-09 1JNJ 1 VERSN REVDAT 1 27-FEB-02 1JNJ 0 JRNL AUTH G.VERDONE,A.CORAZZA,P.VIGLINO,F.PETTIROSSI,S.GIORGETTI, JRNL AUTH 2 P.MANGIONE,A.ANDREOLA,M.STOPPINI,V.BELLOTTI,G.ESPOSITO JRNL TITL THE SOLUTION STRUCTURE OF HUMAN BETA2-MICROGLOBULIN REVEALS JRNL TITL 2 THE PRODROMES OF ITS AMYLOID TRANSITION. JRNL REF PROTEIN SCI. V. 11 487 2002 JRNL REFN ISSN 0961-8368 JRNL PMID 11847272 JRNL DOI 10.1110/PS.29002 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.ESPOSITO,R.MICHELUTTI,G.VERDONE,P.VIGLINO,H.HERNANDEZ, REMARK 1 AUTH 2 C.V.ROBINSON,A.AMORESANO,F.DAL PIAZ,M.MONTI,P.PUCCI, REMARK 1 AUTH 3 P.MANGIONE,M.STOPPINI,G.MERLINI,G.FERRI,V.BELLOTTI REMARK 1 TITL REMOVAL OF THE N-TERMINAL HEXAPEPTIDE FROM HUMAN REMARK 1 TITL 2 BETA2-MICROGLOBULIN FACILITATES PROTEIN AGGREGATION AND REMARK 1 TITL 3 FIBRIL FORMATION REMARK 1 REF PROTEIN SCI. V. 9 831 2000 REMARK 1 REFN ISSN 0961-8368 REMARK 1 REFERENCE 2 REMARK 1 AUTH V.BELLOTTI,M.STOPPINI,P.MANGIONE,M.SUNDE,C.V.ROBINSON, REMARK 1 AUTH 2 L.ASTI,D.BRANCACCIO,G.FERRI REMARK 1 TITL BETA2-MICROGLOBULIN CAN BE REFOLDED INTO A NATIVE STATE FROM REMARK 1 TITL 2 EX VIVO AMYLOID FIBRILS. REMARK 1 REF EUR.J.BIOCHEM. V. 258 61 1998 REMARK 1 REFN ISSN 0014-2956 REMARK 1 DOI 10.1046/J.1432-1327.1998.2580061.X REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, DISCOVER 2000 REMARK 3 AUTHORS : BRUKER (XWINNMR), MSI (DISCOVER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1608 RESTRAINTS, 1541 ARE NOE-DERIVED DISTANCE CONTRAINTS, 67 REMARK 3 DIHEDRAL ANGLE RESTRAINTS REMARK 4 REMARK 4 1JNJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-01. REMARK 100 THE DEPOSITION ID IS D_1000013974. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310; 310 REMARK 210 PH : 6.4; 6.4 REMARK 210 IONIC STRENGTH : 100 MM NACL, 70 MM PHOSPHATE REMARK 210 BUFFER; 100 MM NACL, 70 MM REMARK 210 PHOSPHATE BUFFER REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.68 MM BETA2-M; 70 MM PHOSPHATE REMARK 210 BUFFER NA, 100 MM NACL.; 0.37 MM REMARK 210 BETA2-M; 70 MM PHOSPHATE BUFFER REMARK 210 NA, 100 MM NACL. REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 2000, DIANA 1.5 REMARK 210 METHOD USED : SIMULATED ANNEALING, RESTRAINED REMARK 210 MOLECULAR DYNAMICS, RESTRAINED REMARK 210 MOLECULAR MECHANICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 380 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR 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: 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 5 TYR A 63 CB - CG - CD1 ANGL. DEV. = -4.4 DEGREES REMARK 500 18 TYR A 63 CB - CG - CD1 ANGL. DEV. = -3.7 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 GLN A 2 71.96 -114.15 REMARK 500 1 ASN A 21 -147.85 -118.32 REMARK 500 1 LYS A 41 -133.08 -81.91 REMARK 500 1 ASP A 53 170.69 66.29 REMARK 500 1 SER A 57 19.29 52.81 REMARK 500 1 LYS A 58 41.75 21.71 REMARK 500 1 ASP A 59 -109.72 -108.44 REMARK 500 1 GLU A 74 -93.72 55.62 REMARK 500 1 ASN A 83 76.08 -151.91 REMARK 500 1 TRP A 95 -86.13 -62.97 REMARK 500 1 ASP A 96 177.87 165.54 REMARK 500 2 ILE A 1 13.04 -144.73 REMARK 500 2 ASN A 21 -154.35 -127.51 REMARK 500 2 HIS A 31 143.81 -174.85 REMARK 500 2 PRO A 32 -151.74 -85.43 REMARK 500 2 LYS A 41 -140.55 -79.07 REMARK 500 2 SER A 55 64.12 -113.97 REMARK 500 2 ASP A 59 -85.57 -66.96 REMARK 500 2 TRP A 60 63.81 -172.20 REMARK 500 2 GLU A 74 -100.71 43.41 REMARK 500 2 SER A 88 -41.71 71.99 REMARK 500 2 TRP A 95 -98.71 -76.94 REMARK 500 2 ASP A 96 -171.94 170.69 REMARK 500 2 ARG A 97 -61.92 -160.90 REMARK 500 2 ASP A 98 62.24 -154.93 REMARK 500 3 ILE A 1 173.62 -56.54 REMARK 500 3 ALA A 15 141.98 64.14 REMARK 500 3 ASN A 21 -149.73 -120.63 REMARK 500 3 HIS A 31 145.16 -171.75 REMARK 500 3 PRO A 32 -149.43 -87.31 REMARK 500 3 LYS A 41 -138.78 -79.60 REMARK 500 3 SER A 57 -150.44 51.64 REMARK 500 3 PHE A 62 124.54 -170.54 REMARK 500 3 GLU A 74 -93.51 59.68 REMARK 500 3 SER A 88 -38.94 72.45 REMARK 500 3 LYS A 94 85.67 43.11 REMARK 500 3 TRP A 95 111.18 -31.93 REMARK 500 4 ALA A 15 -175.27 59.02 REMARK 500 4 GLU A 16 -162.21 -167.85 REMARK 500 4 ASN A 21 -145.55 -114.74 REMARK 500 4 HIS A 31 148.14 -171.53 REMARK 500 4 PRO A 32 -158.29 -84.17 REMARK 500 4 LYS A 41 -142.23 -82.16 REMARK 500 4 ASP A 53 -78.30 -8.51 REMARK 500 4 LYS A 58 41.87 24.76 REMARK 500 4 GLU A 74 -91.87 59.84 REMARK 500 4 SER A 88 -43.00 75.08 REMARK 500 4 ARG A 97 -83.90 -14.60 REMARK 500 5 ASN A 21 -139.99 -115.94 REMARK 500 5 LYS A 41 -142.01 -85.06 REMARK 500 REMARK 500 THIS ENTRY HAS 224 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 57 LYS A 58 5 -143.50 REMARK 500 SER A 57 LYS A 58 13 -134.62 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 26 0.07 SIDE CHAIN REMARK 500 1 TYR A 63 0.09 SIDE CHAIN REMARK 500 1 TYR A 66 0.18 SIDE CHAIN REMARK 500 2 TYR A 63 0.08 SIDE CHAIN REMARK 500 2 TYR A 66 0.20 SIDE CHAIN REMARK 500 3 TYR A 66 0.21 SIDE CHAIN REMARK 500 4 TYR A 63 0.12 SIDE CHAIN REMARK 500 4 TYR A 66 0.18 SIDE CHAIN REMARK 500 4 TYR A 67 0.10 SIDE CHAIN REMARK 500 5 PHE A 30 0.13 SIDE CHAIN REMARK 500 5 TYR A 63 0.17 SIDE CHAIN REMARK 500 5 TYR A 66 0.23 SIDE CHAIN REMARK 500 5 TYR A 67 0.06 SIDE CHAIN REMARK 500 6 TYR A 63 0.07 SIDE CHAIN REMARK 500 6 TYR A 66 0.21 SIDE CHAIN REMARK 500 7 TYR A 26 0.07 SIDE CHAIN REMARK 500 7 TYR A 66 0.18 SIDE CHAIN REMARK 500 8 TYR A 63 0.09 SIDE CHAIN REMARK 500 8 TYR A 66 0.19 SIDE CHAIN REMARK 500 9 TYR A 10 0.09 SIDE CHAIN REMARK 500 9 TYR A 66 0.21 SIDE CHAIN REMARK 500 10 PHE A 30 0.08 SIDE CHAIN REMARK 500 10 TYR A 66 0.17 SIDE CHAIN REMARK 500 10 TYR A 67 0.07 SIDE CHAIN REMARK 500 11 TYR A 66 0.18 SIDE CHAIN REMARK 500 11 TYR A 67 0.09 SIDE CHAIN REMARK 500 12 PHE A 62 0.09 SIDE CHAIN REMARK 500 12 TYR A 66 0.20 SIDE CHAIN REMARK 500 12 TYR A 67 0.11 SIDE CHAIN REMARK 500 13 TYR A 63 0.11 SIDE CHAIN REMARK 500 13 TYR A 66 0.20 SIDE CHAIN REMARK 500 13 TYR A 67 0.07 SIDE CHAIN REMARK 500 14 PHE A 30 0.11 SIDE CHAIN REMARK 500 14 TYR A 63 0.09 SIDE CHAIN REMARK 500 14 TYR A 66 0.20 SIDE CHAIN REMARK 500 15 TYR A 66 0.19 SIDE CHAIN REMARK 500 16 TYR A 66 0.26 SIDE CHAIN REMARK 500 17 TYR A 63 0.08 SIDE CHAIN REMARK 500 17 TYR A 66 0.19 SIDE CHAIN REMARK 500 18 TYR A 63 0.11 SIDE CHAIN REMARK 500 18 TYR A 66 0.18 SIDE CHAIN REMARK 500 18 PHE A 70 0.19 SIDE CHAIN REMARK 500 18 TYR A 78 0.07 SIDE CHAIN REMARK 500 19 TYR A 26 0.08 SIDE CHAIN REMARK 500 19 TYR A 63 0.07 SIDE CHAIN REMARK 500 19 TYR A 66 0.17 SIDE CHAIN REMARK 500 19 PHE A 70 0.14 SIDE CHAIN REMARK 500 20 TYR A 63 0.08 SIDE CHAIN REMARK 500 20 TYR A 66 0.19 SIDE CHAIN REMARK 500 20 PHE A 70 0.09 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 51 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HLA RELATED DB: PDB REMARK 900 X-RAY STRUCTURE AT 2.6 A RESOLUTION OF THE HLA-A2 (HUMAN REMARK 900 HISTOCOMPATIBILITY ANTIGEN) OF ALFA1, ALFA2, ALFA3 AND BETA2- REMARK 900 MICROGLOBULIN DOMAINS. REMARK 900 RELATED ID: 1HLA RELATED DB: PDB REMARK 900 X-RAY STRUCTURE AT 3.5 A RESOLUTION OF THE HLA-A2 (HUMAN REMARK 900 HISTOCOMPATIBILITY ANTIGEN) OF ALFA1, ALFA2, ALFA3 AND BETA2- REMARK 900 MICROGLOBULIN DOMAINS. DBREF 1JNJ A 1 99 UNP P61769 B2MG_HUMAN 21 119 SEQADV 1JNJ MET A 0 UNP P61769 CLONING ARTIFACT SEQRES 1 A 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 A 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 A 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 A 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 A 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 A 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 A 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 A 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SHEET 1 A 4 LYS A 6 SER A 11 0 SHEET 2 A 4 LEU A 23 SER A 28 -1 O SER A 28 N LYS A 6 SHEET 3 A 4 LEU A 64 THR A 68 -1 O TYR A 66 N CYS A 25 SHEET 4 A 4 GLU A 50 HIS A 51 -1 N GLU A 50 O TYR A 67 SHEET 1 B 3 LYS A 91 LYS A 94 0 SHEET 2 B 3 ALA A 79 HIS A 84 -1 N VAL A 82 O LYS A 91 SHEET 3 B 3 ILE A 35 GLU A 36 -1 N GLU A 36 O ASN A 83 SHEET 1 C 4 LYS A 91 LYS A 94 0 SHEET 2 C 4 ALA A 79 HIS A 84 -1 N VAL A 82 O LYS A 91 SHEET 3 C 4 LEU A 39 LEU A 40 -1 N LEU A 40 O ALA A 79 SHEET 4 C 4 ARG A 45 ILE A 46 -1 O ILE A 46 N LEU A 39 SSBOND 1 CYS A 25 CYS A 80 1555 1555 2.06 CISPEP 1 HIS A 31 PRO A 32 1 11.35 CISPEP 2 HIS A 31 PRO A 32 2 7.32 CISPEP 3 HIS A 31 PRO A 32 3 8.09 CISPEP 4 HIS A 31 PRO A 32 4 4.12 CISPEP 5 HIS A 31 PRO A 32 5 6.05 CISPEP 6 HIS A 31 PRO A 32 6 6.81 CISPEP 7 HIS A 31 PRO A 32 7 7.13 CISPEP 8 HIS A 31 PRO A 32 8 8.88 CISPEP 9 HIS A 31 PRO A 32 9 1.27 CISPEP 10 HIS A 31 PRO A 32 10 6.88 CISPEP 11 HIS A 31 PRO A 32 11 1.29 CISPEP 12 HIS A 31 PRO A 32 12 13.08 CISPEP 13 HIS A 31 PRO A 32 13 0.14 CISPEP 14 HIS A 31 PRO A 32 14 13.17 CISPEP 15 HIS A 31 PRO A 32 15 9.77 CISPEP 16 HIS A 31 PRO A 32 16 9.68 CISPEP 17 HIS A 31 PRO A 32 17 9.14 CISPEP 18 HIS A 31 PRO A 32 18 0.26 CISPEP 19 HIS A 31 PRO A 32 19 1.48 CISPEP 20 HIS A 31 PRO A 32 20 9.11 CRYST1 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