HEADER IMMUNE SYSTEM 16-FEB-22 7YXU TITLE CRYSTAL STRUCTURE OF AGONISTIC ANTIBODY 1618 FAB DOMAIN BOUND TO HUMAN TITLE 2 4-1BB. COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 9; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 4-1BB LIGAND RECEPTOR,CDW137,T-CELL ANTIGEN 4-1BB HOMOLOG,T- COMPND 5 CELL ANTIGEN ILA; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HEAVY CHAIN OF FAB; COMPND 9 CHAIN: H; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: LIGHT CHAIN OF FAB; COMPND 13 CHAIN: L; COMPND 14 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: TNFRSF9, CD137, ILA; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK; SOURCE 9 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 10 EXPRESSION_SYSTEM_CELL: 293-6E; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 16 EXPRESSION_SYSTEM_VARIANT: 293-6E; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: HEK293; SOURCE 18 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 19 MOL_ID: 3; SOURCE 20 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 21 ORGANISM_TAXID: 9606; SOURCE 22 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 23 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 24 EXPRESSION_SYSTEM_VARIANT: 293-6E; SOURCE 25 EXPRESSION_SYSTEM_CELL_LINE: HEK; SOURCE 26 EXPRESSION_SYSTEM_ORGAN: KIDNEY KEYWDS COMPLEX, FAB, TUMOR NECROSIS FACTOR, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.HAKANSSON,N.ROSE,J.PETERSSON,K.ENELL SMITH,M.THOROLFSSON,L.VON AUTHOR 2 SCHANTZ REVDAT 3 20-NOV-24 7YXU 1 REMARK REVDAT 2 07-FEB-24 7YXU 1 REMARK REVDAT 1 25-JAN-23 7YXU 0 JRNL AUTH M.H.NELSON,S.FRITZELL,R.MILLER,D.WERCHAU,D.VAN CITTERS, JRNL AUTH 2 A.NILSSON,L.MISHER,L.LJUNG,R.BADER,A.DERONIC,A.G.CHUNYK, JRNL AUTH 3 L.SCHULTZ,L.A.VARAS,N.ROSE,M.HAKANSSON,J.GROSS,C.FUREBRING, JRNL AUTH 4 P.PAVLIK,A.SUNDSTEDT,N.VEITONMAKI,H.J.RAMOS,A.SALL, JRNL AUTH 5 A.DAHLMAN,D.BIENVENUE,L.VON SCHANTZ,C.J.MCMAHAN,M.ASKMYR, JRNL AUTH 6 G.HERNANDEZ-HOYOS,P.ELLMARK JRNL TITL THE BISPECIFIC TUMOR ANTIGEN-CONDITIONAL 4-1BB X 5T4 JRNL TITL 2 AGONIST, ALG.APV-527, MEDIATES STRONG T-CELL ACTIVATION AND JRNL TITL 3 POTENT ANTITUMOR ACTIVITY IN PRECLINICAL STUDIES. JRNL REF MOL.CANCER THER. V. 22 89 2023 JRNL REFN ESSN 1538-8514 JRNL PMID 36343381 JRNL DOI 10.1158/1535-7163.MCT-22-0395 REMARK 2 REMARK 2 RESOLUTION. 2.31 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.7 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 33952 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1721 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 50 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.31 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.33 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.30 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 680 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2435 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 655 REMARK 3 BIN R VALUE (WORKING SET) : 0.2434 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 3.68 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 25 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4267 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 278 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.45790 REMARK 3 B22 (A**2) : 7.81890 REMARK 3 B33 (A**2) : -0.36100 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.320 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.274 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.218 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.255 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.213 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4398 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 5972 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1474 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 743 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4398 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 2 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 576 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4929 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.08 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.11 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.38 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { H|1 - H|223 } REMARK 3 ORIGIN FOR THE GROUP (A): -14.5901 -4.2500 -29.5566 REMARK 3 T TENSOR REMARK 3 T11: 0.0115 T22: -0.0270 REMARK 3 T33: -0.0826 T12: -0.0878 REMARK 3 T13: -0.0058 T23: -0.0475 REMARK 3 L TENSOR REMARK 3 L11: 1.0551 L22: 1.7666 REMARK 3 L33: 0.0000 L12: 0.6916 REMARK 3 L13: -0.4623 L23: -0.6783 REMARK 3 S TENSOR REMARK 3 S11: 0.0056 S12: -0.0070 S13: -0.0428 REMARK 3 S21: -0.0637 S22: 0.0132 S23: -0.1243 REMARK 3 S31: 0.0621 S32: 0.0531 S33: -0.0188 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { L|1 - L|213 } REMARK 3 ORIGIN FOR THE GROUP (A): -15.1143 9.9640 -18.7301 REMARK 3 T TENSOR REMARK 3 T11: 0.0514 T22: -0.0946 REMARK 3 T33: -0.0943 T12: -0.1015 REMARK 3 T13: 0.0656 T23: -0.1117 REMARK 3 L TENSOR REMARK 3 L11: 1.8105 L22: 4.3909 REMARK 3 L33: 1.6726 L12: 1.8803 REMARK 3 L13: -1.0191 L23: -2.6181 REMARK 3 S TENSOR REMARK 3 S11: 0.3535 S12: -0.2769 S13: 0.3707 REMARK 3 S21: 0.6514 S22: -0.2749 S23: 0.3119 REMARK 3 S31: -0.4197 S32: -0.0477 S33: -0.0785 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { A|26 - A|160 } REMARK 3 ORIGIN FOR THE GROUP (A): -4.3042 -51.6884 -14.6538 REMARK 3 T TENSOR REMARK 3 T11: 0.1346 T22: -0.0043 REMARK 3 T33: 0.1757 T12: 0.0418 REMARK 3 T13: 0.0074 T23: -0.0063 REMARK 3 L TENSOR REMARK 3 L11: 0.3678 L22: 4.6814 REMARK 3 L33: 0.0584 L12: -2.7788 REMARK 3 L13: -1.2424 L23: 2.2056 REMARK 3 S TENSOR REMARK 3 S11: -0.1989 S12: 0.0834 S13: -0.0698 REMARK 3 S21: 0.5455 S22: 0.1602 S23: -0.2147 REMARK 3 S31: 0.3616 S32: -0.0306 S33: 0.0387 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7YXU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1292121147. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34026 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.310 REMARK 200 RESOLUTION RANGE LOW (A) : 54.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.31 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4NNP, 6A3W REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS/HCL PH 8.5, 0.2 M REMARK 280 TRIMETHYLOXIDE (TMAO), 20% (W/V) PEG 2000 MONOMETHYLETHER (MME) REMARK 280 AND 20 MM MNCL2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 32.53200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 106.73250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.53200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 106.73250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H, L 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH H 577 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LEU A 24 REMARK 465 GLN A 25 REMARK 465 GLY A 161 REMARK 465 SER A 162 REMARK 465 LEU A 163 REMARK 465 GLY A 164 REMARK 465 SER H 135 REMARK 465 SER H 136 REMARK 465 LYS H 137 REMARK 465 SER H 138 REMARK 465 THR H 139 REMARK 465 CYS H 224 REMARK 465 ASP H 225 REMARK 465 LYS H 226 REMARK 465 THR H 227 REMARK 465 HIS H 228 REMARK 465 CYS L 214 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 ARG A 75 -60.56 -100.63 REMARK 500 LYS A 115 33.44 -94.89 REMARK 500 THR A 151 -160.31 -126.11 REMARK 500 ASP H 109 -50.08 -129.87 REMARK 500 ASP H 152 65.15 64.11 REMARK 500 ILE L 2 120.96 -21.05 REMARK 500 SER L 30 -121.39 50.33 REMARK 500 ALA L 51 -42.61 65.77 REMARK 500 SER L 77 89.35 -157.87 REMARK 500 ASN L 138 73.83 41.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN L 301 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU H 1 OE1 REMARK 620 2 HIS H 172 NE2 102.8 REMARK 620 3 HOH H 502 O 108.4 5.7 REMARK 620 4 HOH H 544 O 106.4 5.2 4.9 REMARK 620 5 ASN L 137 ND2 105.5 2.7 3.2 3.5 REMARK 620 6 ASN L 138 OD1 103.6 4.6 7.1 2.9 4.5 REMARK 620 N 1 2 3 4 5 DBREF 7YXU A 24 160 UNP Q07011 TNR9_HUMAN 24 160 DBREF 7YXU H 1 228 PDB 7YXU 7YXU 1 228 DBREF 7YXU L 1 214 PDB 7YXU 7YXU 1 214 SEQADV 7YXU SER A 121 UNP Q07011 CYS 121 CONFLICT SEQADV 7YXU ASP A 138 UNP Q07011 ASN 138 CONFLICT SEQADV 7YXU GLN A 149 UNP Q07011 ASN 149 CONFLICT SEQADV 7YXU GLY A 161 UNP Q07011 EXPRESSION TAG SEQADV 7YXU SER A 162 UNP Q07011 EXPRESSION TAG SEQADV 7YXU LEU A 163 UNP Q07011 EXPRESSION TAG SEQADV 7YXU GLY A 164 UNP Q07011 EXPRESSION TAG SEQRES 1 A 141 LEU GLN ASP PRO CYS SER ASN CYS PRO ALA GLY THR PHE SEQRES 2 A 141 CYS ASP ASN ASN ARG ASN GLN ILE CYS SER PRO CYS PRO SEQRES 3 A 141 PRO ASN SER PHE SER SER ALA GLY GLY GLN ARG THR CYS SEQRES 4 A 141 ASP ILE CYS ARG GLN CYS LYS GLY VAL PHE ARG THR ARG SEQRES 5 A 141 LYS GLU CYS SER SER THR SER ASN ALA GLU CYS ASP CYS SEQRES 6 A 141 THR PRO GLY PHE HIS CYS LEU GLY ALA GLY CYS SER MET SEQRES 7 A 141 CYS GLU GLN ASP CYS LYS GLN GLY GLN GLU LEU THR LYS SEQRES 8 A 141 LYS GLY CYS LYS ASP CYS SER PHE GLY THR PHE ASN ASP SEQRES 9 A 141 GLN LYS ARG GLY ILE CYS ARG PRO TRP THR ASP CYS SER SEQRES 10 A 141 LEU ASP GLY LYS SER VAL LEU VAL GLN GLY THR LYS GLU SEQRES 11 A 141 ARG ASP VAL VAL CYS GLY PRO GLY SER LEU GLY SEQRES 1 H 228 GLU VAL GLN LEU LEU GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 H 228 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 H 228 PHE THR PHE SER TYR GLY SER MET TYR TRP VAL ARG GLN SEQRES 4 H 228 ALA PRO GLY LYS GLY LEU GLU TRP VAL SER SER ILE SER SEQRES 5 H 228 SER GLY SER GLY SER THR TYR TYR ALA ASP SER VAL LYS SEQRES 6 H 228 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 H 228 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 H 228 ALA VAL TYR TYR CYS ALA ARG SER SER TYR TYR GLY SER SEQRES 9 H 228 TYR TYR SER ILE ASP TYR TRP GLY GLN GLY THR LEU VAL SEQRES 10 H 228 THR VAL SER SER ALA SER THR LYS GLY PRO SER VAL PHE SEQRES 11 H 228 PRO LEU ALA PRO SER SER LYS SER THR SER GLY GLY THR SEQRES 12 H 228 ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU SEQRES 13 H 228 PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SER SEQRES 14 H 228 GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY SEQRES 15 H 228 LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SER SER SEQRES 16 H 228 SER LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS SEQRES 17 H 228 LYS PRO SER ASN THR LYS VAL ASP LYS LYS VAL GLU PRO SEQRES 18 H 228 LYS SER CYS ASP LYS THR HIS SEQRES 1 L 214 ASP ILE GLN MET THR GLN SER PRO SER SER LEU SER ALA SEQRES 2 L 214 SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA SER SEQRES 3 L 214 GLN SER ILE SER SER TYR LEU ASN TRP TYR GLN GLN LYS SEQRES 4 L 214 PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR ALA ALA SER SEQRES 5 L 214 SER LEU GLN SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 214 GLY SER GLY THR ASP PHE THR LEU THR ILE SER SER LEU SEQRES 7 L 214 GLN PRO GLU ASP PHE ALA THR TYR TYR CYS GLN GLN TYR SEQRES 8 L 214 TYR ASP ASN LEU PRO THR PHE GLY GLN GLY THR LYS LEU SEQRES 9 L 214 GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 L 214 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 L 214 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 L 214 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 L 214 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 L 214 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 L 214 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 L 214 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 L 214 PHE ASN ARG GLY GLU CYS HET TMO H 401 5 HET MN L 301 1 HETNAM TMO TRIMETHYLAMINE OXIDE HETNAM MN MANGANESE (II) ION FORMUL 4 TMO C3 H9 N O FORMUL 5 MN MN 2+ FORMUL 6 HOH *278(H2 O) HELIX 1 AA1 ASP A 26 CYS A 31 5 6 HELIX 2 AA2 ASP A 138 GLY A 143 5 6 HELIX 3 AA3 ARG H 87 THR H 91 5 5 HELIX 4 AA4 SER H 195 LEU H 197 5 3 HELIX 5 AA5 LYS H 209 ASN H 212 5 4 HELIX 6 AA6 GLN L 79 PHE L 83 5 5 HELIX 7 AA7 SER L 121 LYS L 126 1 6 HELIX 8 AA8 LYS L 183 HIS L 189 1 7 SHEET 1 AA1 2 THR A 35 CYS A 37 0 SHEET 2 AA1 2 CYS A 45 PRO A 47 -1 O SER A 46 N PHE A 36 SHEET 1 AA2 2 SER A 52 PHE A 53 0 SHEET 2 AA2 2 ASP A 63 ILE A 64 -1 O ASP A 63 N PHE A 53 SHEET 1 AA3 2 PHE A 72 LYS A 76 0 SHEET 2 AA3 2 GLU A 85 CYS A 88 -1 O ASP A 87 N ARG A 73 SHEET 1 AA4 2 PHE A 92 LEU A 95 0 SHEET 2 AA4 2 MET A 101 GLN A 104 -1 O GLU A 103 N HIS A 93 SHEET 1 AA5 2 GLN A 110 THR A 113 0 SHEET 2 AA5 2 GLY A 116 ASP A 119 -1 O LYS A 118 N GLU A 111 SHEET 1 AA6 2 THR A 124 PHE A 125 0 SHEET 2 AA6 2 ARG A 134 PRO A 135 -1 O ARG A 134 N PHE A 125 SHEET 1 AA7 2 VAL A 146 VAL A 148 0 SHEET 2 AA7 2 VAL A 157 CYS A 158 -1 O VAL A 157 N LEU A 147 SHEET 1 AA8 4 GLN H 3 SER H 7 0 SHEET 2 AA8 4 LEU H 18 SER H 25 -1 O ALA H 23 N LEU H 5 SHEET 3 AA8 4 THR H 78 MET H 83 -1 O MET H 83 N LEU H 18 SHEET 4 AA8 4 PHE H 68 ASP H 73 -1 N SER H 71 O TYR H 80 SHEET 1 AA9 6 LEU H 11 VAL H 12 0 SHEET 2 AA9 6 THR H 115 VAL H 119 1 O THR H 118 N VAL H 12 SHEET 3 AA9 6 ALA H 92 TYR H 102 -1 N TYR H 94 O THR H 115 SHEET 4 AA9 6 SER H 33 GLN H 39 -1 N VAL H 37 O TYR H 95 SHEET 5 AA9 6 LEU H 45 SER H 52 -1 O GLU H 46 N ARG H 38 SHEET 6 AA9 6 THR H 58 TYR H 60 -1 O TYR H 59 N SER H 50 SHEET 1 AB1 4 LEU H 11 VAL H 12 0 SHEET 2 AB1 4 THR H 115 VAL H 119 1 O THR H 118 N VAL H 12 SHEET 3 AB1 4 ALA H 92 TYR H 102 -1 N TYR H 94 O THR H 115 SHEET 4 AB1 4 TYR H 105 TRP H 111 -1 O SER H 107 N SER H 100 SHEET 1 AB2 4 SER H 128 LEU H 132 0 SHEET 2 AB2 4 THR H 143 TYR H 153 -1 O LEU H 149 N PHE H 130 SHEET 3 AB2 4 TYR H 184 PRO H 193 -1 O TYR H 184 N TYR H 153 SHEET 4 AB2 4 VAL H 171 THR H 173 -1 N HIS H 172 O VAL H 189 SHEET 1 AB3 4 SER H 128 LEU H 132 0 SHEET 2 AB3 4 THR H 143 TYR H 153 -1 O LEU H 149 N PHE H 130 SHEET 3 AB3 4 TYR H 184 PRO H 193 -1 O TYR H 184 N TYR H 153 SHEET 4 AB3 4 VAL H 177 LEU H 178 -1 N VAL H 177 O SER H 185 SHEET 1 AB4 3 THR H 159 TRP H 162 0 SHEET 2 AB4 3 ILE H 203 HIS H 208 -1 O ASN H 205 N SER H 161 SHEET 3 AB4 3 THR H 213 LYS H 218 -1 O VAL H 215 N VAL H 206 SHEET 1 AB5 4 MET L 4 SER L 7 0 SHEET 2 AB5 4 VAL L 19 ALA L 25 -1 O ARG L 24 N THR L 5 SHEET 3 AB5 4 ASP L 70 ILE L 75 -1 O LEU L 73 N ILE L 21 SHEET 4 AB5 4 PHE L 62 GLY L 66 -1 N SER L 63 O THR L 74 SHEET 1 AB6 6 SER L 10 SER L 14 0 SHEET 2 AB6 6 THR L 102 LYS L 107 1 O GLU L 105 N LEU L 11 SHEET 3 AB6 6 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 AB6 6 LEU L 33 GLN L 38 -1 N ASN L 34 O GLN L 89 SHEET 5 AB6 6 LYS L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 AB6 6 SER L 53 LEU L 54 -1 O SER L 53 N TYR L 49 SHEET 1 AB7 4 SER L 114 PHE L 118 0 SHEET 2 AB7 4 THR L 129 PHE L 139 -1 O LEU L 135 N PHE L 116 SHEET 3 AB7 4 TYR L 173 SER L 182 -1 O LEU L 181 N ALA L 130 SHEET 4 AB7 4 SER L 159 VAL L 163 -1 N GLN L 160 O THR L 178 SHEET 1 AB8 4 ALA L 153 LEU L 154 0 SHEET 2 AB8 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 AB8 4 VAL L 191 THR L 197 -1 O GLU L 195 N GLN L 147 SHEET 4 AB8 4 VAL L 205 ASN L 210 -1 O LYS L 207 N CYS L 194 SSBOND 1 CYS A 28 CYS A 37 1555 1555 2.03 SSBOND 2 CYS A 31 CYS A 45 1555 1555 2.04 SSBOND 3 CYS A 48 CYS A 62 1555 1555 2.03 SSBOND 4 CYS A 65 CYS A 78 1555 1555 2.02 SSBOND 5 CYS A 68 CYS A 86 1555 1555 2.03 SSBOND 6 CYS A 88 CYS A 102 1555 1555 2.03 SSBOND 7 CYS A 94 CYS A 99 1555 1555 2.03 SSBOND 8 CYS A 106 CYS A 117 1555 1555 2.03 SSBOND 9 CYS A 120 CYS A 133 1555 1555 2.03 SSBOND 10 CYS A 139 CYS A 158 1555 1555 2.04 SSBOND 11 CYS H 22 CYS H 96 1555 1555 2.04 SSBOND 12 CYS H 148 CYS H 204 1555 1555 2.03 SSBOND 13 CYS L 23 CYS L 88 1555 1555 2.04 SSBOND 14 CYS L 134 CYS L 194 1555 1555 2.03 LINK OE1 GLU H 1 MN MN L 301 1555 2555 2.45 LINK NE2 HIS H 172 MN MN L 301 1555 1555 2.22 LINK O HOH H 502 MN MN L 301 1555 1555 2.02 LINK O HOH H 544 MN MN L 301 2555 1555 2.18 LINK ND2 ASN L 137 MN MN L 301 1555 1555 2.06 LINK OD1 ASN L 138 MN MN L 301 1555 1555 2.12 CISPEP 1 PHE H 154 PRO H 155 0 -5.04 CISPEP 2 GLU H 156 PRO H 157 0 1.33 CISPEP 3 SER L 7 PRO L 8 0 -2.40 CISPEP 4 TYR L 140 PRO L 141 0 1.72 CRYST1 65.064 213.465 54.012 90.00 90.00 90.00 P 21 21 2 4 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 0.015369 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004685 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018514 0.00000