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 <I/SIGMA(I)> 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 <I/SIGMA(I)> 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