HEADER IMMUNE SYSTEM 06-APR-17 5XF0 TITLE SOLUTION STRUCTURE OF THE IGI DOMAIN OF CD147 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BASIGIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 215-321; COMPND 5 SYNONYM: CD147, 5F7,COLLAGENASE STIMULATORY FACTOR,EXTRACELLULAR COMPND 6 MATRIX METALLOPROTEINASE INDUCER,EMMPRIN,LEUKOCYTE ACTIVATION ANTIGEN COMPND 7 M6,OK BLOOD GROUP ANTIGEN,TUMOR CELL-DERIVED COLLAGENASE STIMULATORY COMPND 8 FACTOR,TCSF; 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 GENE: BSG, UNQ6505/PRO21383; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ORIGAMI B(DE3) KEYWDS IG-LIKE DOMAIN, IMMUNE SYSTEM EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.J.JIN,B.XIA REVDAT 2 23-OCT-24 5XF0 1 REMARK REVDAT 1 11-APR-18 5XF0 0 JRNL AUTH S.JIN,P.DING,P.CHU,H.LI,J.SUN,D.LIANG,F.SONG,B.XIA JRNL TITL ZN(II) CAN MEDIATE SELF-ASSOCIATION OF THE EXTRACELLULAR JRNL TITL 2 C-TERMINAL DOMAIN OF CD147 JRNL REF PROTEIN CELL V. 9 310 2018 JRNL REFN ESSN 1674-8018 JRNL PMID 28822092 JRNL DOI 10.1007/S13238-017-0443-1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE B5059 ARE NOE REMARK 3 -DERIVED DISTANCE CONSTRAINTS, 143 DIHEDRAL ANGLE RESTRAINTS REMARK 4 REMARK 4 5XF0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-APR-17. REMARK 100 THE DEPOSITION ID IS D_1300003403. 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 : 100 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.5MM [U-13C; U-15N] CD147, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HNCO; 3D HCCH- REMARK 210 TOCSY; 3D HCCH-COSY; 3D HBHA(CO) REMARK 210 NH; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D 1H-13C NOESY AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA, NMRVIEW, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 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: 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 1 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 2 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 2 ARG A 157 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 2 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 3 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 3 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 4 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 4 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 5 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 6 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 7 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 7 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 8 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 8 ARG A 166 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 8 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 9 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 10 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 10 ARG A 166 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 10 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 11 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 11 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 12 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 12 ARG A 157 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 13 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 13 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 14 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 14 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 15 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 15 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 16 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 17 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 17 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 18 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 19 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 19 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 5.4 DEGREES REMARK 500 19 ARG A 157 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 19 ARG A 166 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 19 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 20 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 20 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 3.5 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 SER A 145 -8.56 -148.68 REMARK 500 1 ASP A 147 74.17 -102.07 REMARK 500 1 LYS A 148 95.21 -65.28 REMARK 500 1 ASN A 152 102.86 -49.76 REMARK 500 1 SER A 156 15.81 54.47 REMARK 500 1 ARG A 157 -20.40 -141.77 REMARK 500 2 SER A 145 -4.31 -151.86 REMARK 500 2 ASP A 147 72.77 -118.47 REMARK 500 3 SER A 145 -5.08 -150.16 REMARK 500 3 ASP A 147 72.36 -115.13 REMARK 500 4 SER A 145 -1.90 -148.23 REMARK 500 4 ASP A 147 67.07 -116.62 REMARK 500 4 ASN A 152 80.31 -63.84 REMARK 500 5 SER A 145 -5.75 -150.65 REMARK 500 5 ASP A 147 73.78 -118.88 REMARK 500 6 ASP A 147 72.70 -110.57 REMARK 500 6 GLU A 155 -167.80 54.23 REMARK 500 6 ARG A 157 -33.65 -132.84 REMARK 500 7 SER A 145 -6.06 -150.58 REMARK 500 7 ASP A 147 73.35 -119.07 REMARK 500 8 SER A 145 -28.28 -142.91 REMARK 500 8 SER A 156 48.28 -75.56 REMARK 500 8 ARG A 157 -36.61 -160.50 REMARK 500 9 SER A 145 -6.32 -146.71 REMARK 500 9 ASP A 147 74.84 -107.21 REMARK 500 9 LYS A 148 99.34 -65.34 REMARK 500 9 ASN A 152 76.12 -63.65 REMARK 500 10 SER A 145 -19.99 -145.35 REMARK 500 11 ILE A 99 137.25 65.46 REMARK 500 11 SER A 145 -11.68 -148.68 REMARK 500 11 ASP A 147 75.51 -105.60 REMARK 500 11 LYS A 148 94.88 -66.01 REMARK 500 11 SER A 154 -149.16 -78.73 REMARK 500 12 SER A 145 -12.72 -147.62 REMARK 500 12 ASP A 147 76.94 -100.42 REMARK 500 12 ASN A 152 77.84 -62.65 REMARK 500 13 SER A 145 -19.10 -149.66 REMARK 500 14 SER A 145 -21.68 -147.48 REMARK 500 14 ASP A 147 75.21 -111.87 REMARK 500 14 LYS A 148 99.49 -65.31 REMARK 500 15 SER A 145 -5.34 -152.56 REMARK 500 15 ASP A 147 72.61 -118.77 REMARK 500 16 SER A 145 -9.41 -149.83 REMARK 500 16 ASP A 147 75.98 -101.90 REMARK 500 16 LYS A 148 97.52 -64.79 REMARK 500 17 LYS A 111 79.30 -109.49 REMARK 500 17 SER A 145 -2.87 -152.35 REMARK 500 17 ASP A 147 73.28 -119.49 REMARK 500 17 ASN A 152 76.80 -65.86 REMARK 500 18 SER A 145 -9.39 -148.50 REMARK 500 REMARK 500 THIS ENTRY HAS 57 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 9 HIS A 115 0.09 SIDE CHAIN REMARK 500 17 ARG A 166 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 27064 RELATED DB: BMRB DBREF 5XF0 A 99 205 UNP P35613 BASI_HUMAN 215 321 SEQADV 5XF0 MET A 98 UNP P35613 INITIATING METHIONINE SEQRES 1 A 108 MET ILE GLN LEU HIS GLY PRO PRO ARG VAL LYS ALA VAL SEQRES 2 A 108 LYS SER SER GLU HIS ILE ASN GLU GLY GLU THR ALA MET SEQRES 3 A 108 LEU VAL CYS LYS SER GLU SER VAL PRO PRO VAL THR ASP SEQRES 4 A 108 TRP ALA TRP TYR LYS ILE THR ASP SER GLU ASP LYS ALA SEQRES 5 A 108 LEU MET ASN GLY SER GLU SER ARG PHE PHE VAL SER SER SEQRES 6 A 108 SER GLN GLY ARG SER GLU LEU HIS ILE GLU ASN LEU ASN SEQRES 7 A 108 MET GLU ALA ASP PRO GLY GLN TYR ARG CYS ASN GLY THR SEQRES 8 A 108 SER SER LYS GLY SER ASP GLN ALA ILE ILE THR LEU ARG SEQRES 9 A 108 VAL ARG SER HIS HELIX 1 AA1 GLY A 153 SER A 156 5 4 SHEET 1 AA1 4 VAL A 107 ALA A 109 0 SHEET 2 AA1 4 ALA A 122 SER A 128 -1 O LYS A 127 N LYS A 108 SHEET 3 AA1 4 ARG A 166 ILE A 171 -1 O SER A 167 N CYS A 126 SHEET 4 AA1 4 PHE A 158 SER A 163 -1 N PHE A 159 O HIS A 170 SHEET 1 AA2 5 SER A 113 ASN A 117 0 SHEET 2 AA2 5 GLY A 192 ARG A 203 1 O ARG A 201 N ILE A 116 SHEET 3 AA2 5 GLY A 181 SER A 189 -1 N GLY A 187 O ASP A 194 SHEET 4 AA2 5 VAL A 134 ILE A 142 -1 N TYR A 140 O ARG A 184 SHEET 5 AA2 5 ASP A 147 LEU A 150 -1 O LYS A 148 N LYS A 141 SSBOND 1 CYS A 126 CYS A 185 1555 1555 2.01 CISPEP 1 VAL A 131 PRO A 132 1 -1.78 CISPEP 2 VAL A 131 PRO A 132 2 -2.99 CISPEP 3 VAL A 131 PRO A 132 3 -2.92 CISPEP 4 VAL A 131 PRO A 132 4 -6.00 CISPEP 5 VAL A 131 PRO A 132 5 -1.64 CISPEP 6 VAL A 131 PRO A 132 6 -4.88 CISPEP 7 VAL A 131 PRO A 132 7 8.24 CISPEP 8 VAL A 131 PRO A 132 8 3.00 CISPEP 9 VAL A 131 PRO A 132 9 -3.46 CISPEP 10 VAL A 131 PRO A 132 10 -4.08 CISPEP 11 VAL A 131 PRO A 132 11 -7.16 CISPEP 12 VAL A 131 PRO A 132 12 -4.44 CISPEP 13 VAL A 131 PRO A 132 13 2.23 CISPEP 14 VAL A 131 PRO A 132 14 7.65 CISPEP 15 VAL A 131 PRO A 132 15 -4.35 CISPEP 16 VAL A 131 PRO A 132 16 8.14 CISPEP 17 VAL A 131 PRO A 132 17 -4.96 CISPEP 18 VAL A 131 PRO A 132 18 3.28 CISPEP 19 VAL A 131 PRO A 132 19 9.32 CISPEP 20 VAL A 131 PRO A 132 20 -2.61 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