HEADER CELL ADHESION 23-JAN-14 4CNM TITLE CRYSTAL STRUCTURE OF HUMAN 5T4 (WNT-ACTIVATED INHIBITORY FACTOR 1, TITLE 2 TROPHOBLAST GLYCOPROTEIN) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TROPHOBLAST GLYCOPROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EXTRACELLULAR DOMAIN, RESIDUES 60-345; COMPND 5 SYNONYM: 5T4 ONCOFETAL ANTIGEN, WNT-ACTIVATED INHIBITORY FACTOR, 5T4 COMPND 6 ONCOFETAL TROPHOBLAST GLYCOPROTEIN, 5T4 ONCOTROPHOBLAST GLYCOPROTEIN, COMPND 7 M6P1; 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: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293S GNTI-; SOURCE 9 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3022; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PURD; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PURD-5T4/WAIF1ECTO KEYWDS CELL ADHESION, WAIF1, TPBG, TROVAX, MVA-5T4, CANCER, SIGNALING, KEYWDS 2 LEUCINE-RICH REPEATS, WNT/BETA-CATENIN SIGNALING PATHWAY EXPDTA X-RAY DIFFRACTION AUTHOR Y.ZHAO,T.MALINAUSKAS,K.HARLOS,E.Y.JONES REVDAT 5 20-DEC-23 4CNM 1 HETSYN REVDAT 4 29-JUL-20 4CNM 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 23-APR-14 4CNM 1 JRNL REVDAT 2 12-MAR-14 4CNM 1 JRNL REVDAT 1 26-FEB-14 4CNM 0 JRNL AUTH Y.ZHAO,T.MALINAUSKAS,K.HARLOS,E.Y.JONES JRNL TITL STRUCTURAL INSIGHTS INTO THE INHIBITION OF WNT SIGNALING BY JRNL TITL 2 CANCER ANTIGEN 5T4/WNT-ACTIVATED INHIBITORY FACTOR 1. JRNL REF STRUCTURE V. 22 612 2014 JRNL REFN ISSN 0969-2126 JRNL PMID 24582434 JRNL DOI 10.1016/J.STR.2014.01.009 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 31330 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1674 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2247 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE SET COUNT : 117 REMARK 3 BIN FREE R VALUE : 0.2940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2201 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 130 REMARK 3 SOLVENT ATOMS : 124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.32000 REMARK 3 B22 (A**2) : 3.22000 REMARK 3 B33 (A**2) : -1.90000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.111 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.111 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.141 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2422 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2322 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3298 ; 1.833 ; 2.030 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5298 ; 0.929 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 291 ; 6.430 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 108 ;35.200 ;23.889 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 378 ;12.762 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;18.166 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 389 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2761 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 521 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1152 ; 1.943 ; 2.060 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1151 ; 1.942 ; 2.059 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1444 ; 2.814 ; 3.075 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1270 ; 3.656 ; 2.856 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 57 A 344 REMARK 3 ORIGIN FOR THE GROUP (A): 22.7534 -1.2691 -12.0136 REMARK 3 T TENSOR REMARK 3 T11: 0.0833 T22: 0.0255 REMARK 3 T33: 0.0719 T12: -0.0026 REMARK 3 T13: -0.0007 T23: 0.0066 REMARK 3 L TENSOR REMARK 3 L11: 1.4734 L22: 0.1783 REMARK 3 L33: 1.4536 L12: -0.3226 REMARK 3 L13: 0.1884 L23: -0.0551 REMARK 3 S TENSOR REMARK 3 S11: -0.0389 S12: -0.0897 S13: -0.0024 REMARK 3 S21: -0.0045 S22: 0.0091 S23: -0.0277 REMARK 3 S31: 0.0394 S32: -0.1719 S33: 0.0298 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES WITH TLS ADDED. REMARK 4 REMARK 4 4CNM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1290059414. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.06 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : KIRKPATRICK BAEZ BIMORPH MIRROR REMARK 200 PAIR FOR HORIZONTAL AND VERTICAL REMARK 200 FOCUSSING REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33062 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 49.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.100 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 9.30 REMARK 200 R MERGE FOR SHELL (I) : 0.81000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 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: PDB ENTRY 3ZYJ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE CRYSTALLIZATION DROP CONTAINED 100 REMARK 280 NL OF CONCENTRATED 5T4 (5.5 MG/ML), 100 NL OF 25% W/V REMARK 280 POLYETHYLENE GLYCOL (PEG) 3350, 0.1 M CITRATE PH 3.5, AND 0.5 NL REMARK 280 OF 0.1 M NAOH REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 24.65500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.19000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.65500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.19000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.65500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.65500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 ALA A 167 REMARK 465 SER A 168 REMARK 465 VAL A 169 REMARK 465 SER A 170 REMARK 465 ALA A 171 REMARK 465 ASP A 345 REMARK 465 GLY A 346 REMARK 465 THR A 347 REMARK 465 GLU A 348 REMARK 465 THR A 349 REMARK 465 SER A 350 REMARK 465 GLN A 351 REMARK 465 VAL A 352 REMARK 465 ALA A 353 REMARK 465 PRO A 354 REMARK 465 ALA A 355 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASN A 166 CG OD1 ND2 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 ASP A 88 55.97 -92.90 REMARK 500 ALA A 104 -58.80 68.12 REMARK 500 LEU A 141 77.51 -119.81 REMARK 500 SER A 165 -151.78 -93.95 REMARK 500 ASN A 192 57.48 -102.10 REMARK 500 LEU A 209 53.56 -90.65 REMARK 500 ASN A 244 -157.84 -110.68 REMARK 500 ASN A 268 -157.79 -104.05 REMARK 500 GLN A 282 -17.23 -49.80 REMARK 500 ASP A 299 -164.79 -115.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PEG A 1352 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CNC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN 5T4 (WNT-ACTIVATED INHIBITORY FACTOR 1, REMARK 900 TROPHOBLAST GLYCOPROTEIN) DBREF 4CNM A 60 345 UNP Q13641 TPBG_HUMAN 60 345 SEQADV 4CNM GLU A 57 UNP Q13641 EXPRESSION TAG SEQADV 4CNM THR A 58 UNP Q13641 EXPRESSION TAG SEQADV 4CNM GLY A 59 UNP Q13641 EXPRESSION TAG SEQADV 4CNM GLY A 346 UNP Q13641 EXPRESSION TAG SEQADV 4CNM THR A 347 UNP Q13641 EXPRESSION TAG SEQADV 4CNM GLU A 348 UNP Q13641 EXPRESSION TAG SEQADV 4CNM THR A 349 UNP Q13641 EXPRESSION TAG SEQADV 4CNM SER A 350 UNP Q13641 EXPRESSION TAG SEQADV 4CNM GLN A 351 UNP Q13641 EXPRESSION TAG SEQADV 4CNM VAL A 352 UNP Q13641 EXPRESSION TAG SEQADV 4CNM ALA A 353 UNP Q13641 EXPRESSION TAG SEQADV 4CNM PRO A 354 UNP Q13641 EXPRESSION TAG SEQADV 4CNM ALA A 355 UNP Q13641 EXPRESSION TAG SEQRES 1 A 299 GLU THR GLY ASP GLN CYS PRO ALA LEU CYS GLU CYS SER SEQRES 2 A 299 GLU ALA ALA ARG THR VAL LYS CYS VAL ASN ARG ASN LEU SEQRES 3 A 299 THR GLU VAL PRO THR ASP LEU PRO ALA TYR VAL ARG ASN SEQRES 4 A 299 LEU PHE LEU THR GLY ASN GLN LEU ALA VAL LEU PRO ALA SEQRES 5 A 299 GLY ALA PHE ALA ARG ARG PRO PRO LEU ALA GLU LEU ALA SEQRES 6 A 299 ALA LEU ASN LEU SER GLY SER ARG LEU ASP GLU VAL ARG SEQRES 7 A 299 ALA GLY ALA PHE GLU HIS LEU PRO SER LEU ARG GLN LEU SEQRES 8 A 299 ASP LEU SER HIS ASN PRO LEU ALA ASP LEU SER PRO PHE SEQRES 9 A 299 ALA PHE SER GLY SER ASN ALA SER VAL SER ALA PRO SER SEQRES 10 A 299 PRO LEU VAL GLU LEU ILE LEU ASN HIS ILE VAL PRO PRO SEQRES 11 A 299 GLU ASP GLU ARG GLN ASN ARG SER PHE GLU GLY MET VAL SEQRES 12 A 299 VAL ALA ALA LEU LEU ALA GLY ARG ALA LEU GLN GLY LEU SEQRES 13 A 299 ARG ARG LEU GLU LEU ALA SER ASN HIS PHE LEU TYR LEU SEQRES 14 A 299 PRO ARG ASP VAL LEU ALA GLN LEU PRO SER LEU ARG HIS SEQRES 15 A 299 LEU ASP LEU SER ASN ASN SER LEU VAL SER LEU THR TYR SEQRES 16 A 299 VAL SER PHE ARG ASN LEU THR HIS LEU GLU SER LEU HIS SEQRES 17 A 299 LEU GLU ASP ASN ALA LEU LYS VAL LEU HIS ASN GLY THR SEQRES 18 A 299 LEU ALA GLU LEU GLN GLY LEU PRO HIS ILE ARG VAL PHE SEQRES 19 A 299 LEU ASP ASN ASN PRO TRP VAL CYS ASP CYS HIS MET ALA SEQRES 20 A 299 ASP MET VAL THR TRP LEU LYS GLU THR GLU VAL VAL GLN SEQRES 21 A 299 GLY LYS ASP ARG LEU THR CYS ALA TYR PRO GLU LYS MET SEQRES 22 A 299 ARG ASN ARG VAL LEU LEU GLU LEU ASN SER ALA ASP LEU SEQRES 23 A 299 ASP CYS ASP GLY THR GLU THR SER GLN VAL ALA PRO ALA MODRES 4CNM ASN A 81 ASN GLYCOSYLATION SITE MODRES 4CNM ASN A 124 ASN GLYCOSYLATION SITE MODRES 4CNM ASN A 243 ASN GLYCOSYLATION SITE MODRES 4CNM ASN A 256 ASN GLYCOSYLATION SITE MODRES 4CNM ASN A 275 ASN GLYCOSYLATION SITE HET NAG B 1 14 HET NAG B 2 14 HET NAG A1346 14 HET NAG A1347 14 HET NAG A1348 14 HET NAG A1349 14 HET PEG A1351 7 HET PEG A1352 5 HET PEG A1353 7 HET PEG A1354 7 HET PEG A1355 7 HET CIT A1356 13 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM CIT CITRIC ACID HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 2 NAG 6(C8 H15 N O6) FORMUL 7 PEG 5(C4 H10 O3) FORMUL 12 CIT C6 H8 O7 FORMUL 13 HOH *124(H2 O) HELIX 1 1 GLU A 187 GLN A 191 5 5 HELIX 2 2 SER A 194 ALA A 205 1 12 HELIX 3 3 GLY A 206 ALA A 208 5 3 HELIX 4 4 PRO A 226 LEU A 233 1 8 HELIX 5 5 HIS A 274 GLN A 282 1 9 HELIX 6 6 ASP A 299 HIS A 301 5 3 HELIX 7 7 MET A 302 THR A 312 1 11 HELIX 8 8 GLY A 317 LEU A 321 5 5 HELIX 9 9 PRO A 326 ARG A 330 5 5 HELIX 10 10 LEU A 334 LEU A 337 5 4 HELIX 11 11 ASN A 338 LEU A 342 5 5 SHEET 1 AA11 GLU A 67 SER A 69 0 SHEET 2 AA11 THR A 74 LYS A 76 -1 O THR A 74 N SER A 69 SHEET 3 AA11 ASN A 95 PHE A 97 1 O ASN A 95 N VAL A 75 SHEET 4 AA11 ALA A 122 ASN A 124 1 O ALA A 122 N LEU A 96 SHEET 5 AA11 GLN A 146 ASP A 148 1 O GLN A 146 N LEU A 123 SHEET 6 AA11 GLU A 177 ILE A 179 1 O GLU A 177 N LEU A 147 SHEET 7 AA11 ARG A 214 GLU A 216 1 O ARG A 214 N LEU A 178 SHEET 8 AA11 HIS A 238 ASP A 240 1 O HIS A 238 N LEU A 215 SHEET 9 AA11 SER A 262 HIS A 264 1 O SER A 262 N LEU A 239 SHEET 10 AA11 ARG A 288 PHE A 290 1 O ARG A 288 N LEU A 263 SHEET 11 AA11 VAL A 315 GLN A 316 1 N GLN A 316 O VAL A 289 SHEET 1 AB 3 ALA A 104 LEU A 106 0 SHEET 2 AB 3 LEU A 130 VAL A 133 1 N ASP A 131 O ALA A 104 SHEET 3 AB 3 ASP A 156 LEU A 157 1 O ASP A 156 N VAL A 133 SHEET 1 AC 2 TRP A 296 VAL A 297 0 SHEET 2 AC 2 CYS A 323 TYR A 325 1 N ALA A 324 O TRP A 296 SSBOND 1 CYS A 62 CYS A 68 1555 1555 2.08 SSBOND 2 CYS A 66 CYS A 77 1555 1555 2.04 SSBOND 3 CYS A 298 CYS A 323 1555 1555 2.04 SSBOND 4 CYS A 300 CYS A 344 1555 1555 2.08 LINK ND2 ASN A 81 C1 NAG A1347 1555 1555 1.45 LINK ND2 ASN A 124 C1 NAG B 1 1555 1555 1.42 LINK ND2 ASN A 243 C1 NAG A1348 1555 1555 1.48 LINK ND2 ASN A 256 C1 NAG A1346 1555 1555 1.47 LINK ND2 ASN A 275 C1 NAG A1349 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44 CISPEP 1 ARG A 114 PRO A 115 0 -0.66 CISPEP 2 TYR A 325 PRO A 326 0 -9.43 CRYST1 49.310 67.310 96.380 90.00 90.00 90.00 P 21 21 21 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 0.020280 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014857 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010376 0.00000