HEADER SIGNALING PROTEIN 06-DEC-22 8BWL TITLE CRYSTAL STRUCTURE OF HUMAN TWISTED GASTRULATION PROTEIN HOMOLOG 1 TITLE 2 (TWSG1) IN COMPLEX WITH HUMAN GROWTH DIFFERENTIATION FACTOR 5 (GDF5) TITLE 3 AND CALCIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: GROWTH/DIFFERENTIATION FACTOR 5; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GDF-5,BONE MORPHOGENETIC PROTEIN 14,BMP-14,CARTILAGE-DERIVED COMPND 5 MORPHOGENETIC PROTEIN 1,CDMP-1,LIPOPOLYSACCHARIDE-ASSOCIATED PROTEIN COMPND 6 4,LAP-4,LPS-ASSOCIATED PROTEIN 4,RADOTERMIN; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: TWISTED GASTRULATION PROTEIN HOMOLOG 1; COMPND 10 CHAIN: C, D; COMPND 11 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: GDF5, BMP14, CDMP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA PLYSS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: TWSG1, TSG, PSEC0250; SOURCE 15 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 16 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 18 EXPRESSION_SYSTEM_CELL_LINE: HEK293T; SOURCE 19 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3216; SOURCE 20 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 21 EXPRESSION_SYSTEM_PLASMID: PHR-CMV-TETO2-3C-MVENUS-HIS12 KEYWDS TWISTED GASTRULATION PROTEIN HOMOLOG 1 (TWSG1), GROWTH KEYWDS 2 DIFFERENTIATION FACTOR 5 (GDF5), TRANSFORMING GROWTH FACTOR BETA KEYWDS 3 (TGF-BETA) SIGNALLING PATHWAY, EXTRACELLULAR PROTEIN., SIGNALING KEYWDS 4 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.MALINAUSKAS,A.F.RUDOLF,G.MOORE,H.EGGINGTON,H.BELNOUE-DAVIS,K.EL AUTHOR 2 OMARI,R.E.WOOLLEY,S.C.GRIFFITHS,R.DUMAN,A.WAGNER,S.J.LEEDHAM, AUTHOR 3 C.BALDOCK,H.ASHE,C.SIEBOLD REVDAT 1 19-JUN-24 8BWL 0 JRNL AUTH T.MALINAUSKAS,G.MOORE,A.F.RUDOLF,H.EGGINGTON, JRNL AUTH 2 H.L.BELNOUE-DAVIS,K.EL OMARI,S.C.GRIFFITHS,R.E.WOOLLEY, JRNL AUTH 3 R.DUMAN,A.WAGNER,S.J.LEEDHAM,C.BALDOCK,H.L.ASHE,C.SIEBOLD JRNL TITL MOLECULAR MECHANISM OF BMP SIGNAL CONTROL BY TWISTED JRNL TITL 2 GASTRULATION. JRNL REF NAT COMMUN V. 15 4976 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 38862520 JRNL DOI 10.1038/S41467-024-49065-8 REMARK 2 REMARK 2 RESOLUTION. 1.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.25 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 84.2 REMARK 3 NUMBER OF REFLECTIONS : 30651 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.670 REMARK 3 FREE R VALUE TEST SET COUNT : 1431 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 49.2500 - 4.2200 1.00 3660 191 0.1795 0.1873 REMARK 3 2 4.2100 - 3.3500 1.00 3504 188 0.1620 0.2064 REMARK 3 3 3.3500 - 2.9200 1.00 3490 171 0.1816 0.2247 REMARK 3 4 2.9200 - 2.6600 1.00 3474 167 0.2160 0.2707 REMARK 3 5 2.6600 - 2.4700 1.00 3417 181 0.1840 0.1936 REMARK 3 6 2.4700 - 2.3200 1.00 3450 171 0.1897 0.2543 REMARK 3 7 2.3200 - 2.2000 1.00 3429 165 0.2291 0.2842 REMARK 3 8 2.2000 - 2.1100 0.90 3080 134 0.2449 0.2853 REMARK 3 9 2.1100 - 2.0300 0.43 1497 55 0.2565 0.2876 REMARK 3 10 2.0300 - 1.9600 0.06 219 8 0.2451 0.3920 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.675 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.32 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.016 2443 REMARK 3 ANGLE : 1.550 3309 REMARK 3 CHIRALITY : 0.070 370 REMARK 3 PLANARITY : 0.013 429 REMARK 3 DIHEDRAL : 12.882 915 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 397 THROUGH 501) REMARK 3 ORIGIN FOR THE GROUP (A): -14.4706 17.4401 -13.6119 REMARK 3 T TENSOR REMARK 3 T11: 0.4325 T22: 0.3172 REMARK 3 T33: 0.4128 T12: -0.0559 REMARK 3 T13: 0.0425 T23: -0.0197 REMARK 3 L TENSOR REMARK 3 L11: 3.9147 L22: 0.7747 REMARK 3 L33: 7.0611 L12: 0.3932 REMARK 3 L13: 4.6429 L23: 0.7867 REMARK 3 S TENSOR REMARK 3 S11: -0.2601 S12: -0.1418 S13: 0.1106 REMARK 3 S21: -0.1685 S22: 0.0169 S23: 0.0667 REMARK 3 S31: -0.1452 S32: -0.2049 S33: 0.2921 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 398 THROUGH 501) REMARK 3 ORIGIN FOR THE GROUP (A): -0.8093 10.8219 -6.1023 REMARK 3 T TENSOR REMARK 3 T11: 0.4382 T22: 0.3412 REMARK 3 T33: 0.3923 T12: 0.0116 REMARK 3 T13: 0.1352 T23: -0.0181 REMARK 3 L TENSOR REMARK 3 L11: 2.8081 L22: 3.4701 REMARK 3 L33: 7.1043 L12: -1.4175 REMARK 3 L13: 3.7798 L23: -3.7459 REMARK 3 S TENSOR REMARK 3 S11: 0.0035 S12: 0.4010 S13: 0.0771 REMARK 3 S21: -0.1755 S22: -0.1912 S23: -0.1546 REMARK 3 S31: 0.2285 S32: 0.3585 S33: 0.2088 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'C' AND RESID 25 THROUGH 77) REMARK 3 ORIGIN FOR THE GROUP (A): -6.0755 12.7919 -35.0310 REMARK 3 T TENSOR REMARK 3 T11: 1.0263 T22: 1.1830 REMARK 3 T33: 0.9049 T12: -0.0948 REMARK 3 T13: 0.1301 T23: -0.2523 REMARK 3 L TENSOR REMARK 3 L11: 2.3553 L22: 4.1529 REMARK 3 L33: 6.5714 L12: -1.8346 REMARK 3 L13: -2.3765 L23: 2.4397 REMARK 3 S TENSOR REMARK 3 S11: -0.0886 S12: 1.3985 S13: -0.9487 REMARK 3 S21: -1.3946 S22: 0.1586 S23: -1.0675 REMARK 3 S31: -0.2682 S32: 1.1383 S33: -0.0099 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'D' AND RESID 25 THROUGH 78) REMARK 3 ORIGIN FOR THE GROUP (A): -10.5940 13.2997 14.6395 REMARK 3 T TENSOR REMARK 3 T11: 0.7264 T22: 0.8403 REMARK 3 T33: 0.7970 T12: 0.0220 REMARK 3 T13: 0.2011 T23: 0.1795 REMARK 3 L TENSOR REMARK 3 L11: 8.8311 L22: 2.3949 REMARK 3 L33: 4.9231 L12: 1.1032 REMARK 3 L13: -1.6194 L23: 0.8858 REMARK 3 S TENSOR REMARK 3 S11: 0.0400 S12: -1.0327 S13: -0.2224 REMARK 3 S21: 1.0959 S22: 0.0945 S23: 1.2514 REMARK 3 S31: 0.3070 S32: -1.3044 S33: -0.1006 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8BWL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-DEC-22. REMARK 100 THE DEPOSITION ID IS D_1292127227. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JAN-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5-8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30654 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.957 REMARK 200 RESOLUTION RANGE LOW (A) : 49.254 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 84.2 REMARK 200 DATA REDUNDANCY : 13.10 REMARK 200 R MERGE (I) : 0.06400 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) : 1.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 22.5 REMARK 200 DATA REDUNDANCY IN SHELL : 13.70 REMARK 200 R MERGE FOR SHELL (I) : 1.93600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12.1% W/V PEG 1000, 12.1% W/V PEG REMARK 280 3350, 12.1% V/V MPD, 97 MM CACL2, 0.097 M BICINE/TRIZMA PH 8.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K 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 28.52350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.81100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.29400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.81100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.52350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.29400 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 MET A 381 REMARK 465 ALA A 382 REMARK 465 PRO A 383 REMARK 465 LEU A 384 REMARK 465 ALA A 385 REMARK 465 THR A 386 REMARK 465 ARG A 387 REMARK 465 GLN A 388 REMARK 465 GLY A 389 REMARK 465 LYS A 390 REMARK 465 ARG A 391 REMARK 465 PRO A 392 REMARK 465 SER A 393 REMARK 465 LYS A 394 REMARK 465 ASN A 395 REMARK 465 LEU A 396 REMARK 465 MET B 381 REMARK 465 ALA B 382 REMARK 465 PRO B 383 REMARK 465 LEU B 384 REMARK 465 ALA B 385 REMARK 465 THR B 386 REMARK 465 ARG B 387 REMARK 465 GLN B 388 REMARK 465 GLY B 389 REMARK 465 LYS B 390 REMARK 465 ARG B 391 REMARK 465 PRO B 392 REMARK 465 SER B 393 REMARK 465 LYS B 394 REMARK 465 ASN B 395 REMARK 465 LEU B 396 REMARK 465 LYS B 397 REMARK 465 GLU C 23 REMARK 465 THR C 24 REMARK 465 GLU C 50 REMARK 465 GLY C 51 REMARK 465 ASN C 52 REMARK 465 ASN C 78 REMARK 465 PRO C 79 REMARK 465 ARG C 80 REMARK 465 ASN C 81 REMARK 465 TYR C 82 REMARK 465 SER C 83 REMARK 465 GLY C 84 REMARK 465 THR C 85 REMARK 465 LEU C 86 REMARK 465 GLU C 87 REMARK 465 VAL C 88 REMARK 465 LEU C 89 REMARK 465 PHE C 90 REMARK 465 GLN C 91 REMARK 465 GLU D 23 REMARK 465 THR D 24 REMARK 465 GLY D 49 REMARK 465 GLU D 50 REMARK 465 GLY D 51 REMARK 465 ASN D 52 REMARK 465 PRO D 79 REMARK 465 ARG D 80 REMARK 465 ASN D 81 REMARK 465 TYR D 82 REMARK 465 SER D 83 REMARK 465 GLY D 84 REMARK 465 THR D 85 REMARK 465 LEU D 86 REMARK 465 GLU D 87 REMARK 465 VAL D 88 REMARK 465 LEU D 89 REMARK 465 PHE D 90 REMARK 465 GLN D 91 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 HD1 HIS B 406 OE2 GLU B 425 1.52 REMARK 500 OD2 ASP B 411 O HOH B 701 2.18 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 ASP B 480 CB - CG - OD2 ANGL. DEV. = -5.6 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 CYS A 400 122.67 -27.64 REMARK 500 TRP A 417 -23.35 -141.07 REMARK 500 PHE A 427 165.23 76.67 REMARK 500 CYS B 400 119.81 -38.27 REMARK 500 PHE B 427 172.32 62.81 REMARK 500 GLU B 442 53.04 36.44 REMARK 500 ASP B 457 82.72 -153.03 REMARK 500 PRO C 48 46.63 -82.88 REMARK 500 SER C 54 -68.36 -104.33 REMARK 500 CYS D 55 4.65 -69.71 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 CA A 601 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 413 O REMARK 620 2 ASP A 416 OD1 76.1 REMARK 620 3 ASP A 416 OD2 125.1 49.1 REMARK 620 4 HOH A 702 O 171.9 104.4 55.4 REMARK 620 5 HOH A 758 O 82.5 97.8 99.0 89.4 REMARK 620 6 HOH A 765 O 107.0 160.6 123.2 69.9 64.2 REMARK 620 7 HOH C 201 O 140.3 97.6 63.4 47.8 137.0 91.8 REMARK 620 8 HOH C 203 O 80.7 125.5 131.2 105.0 127.1 73.6 71.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 601 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 413 O REMARK 620 2 ASP B 416 OD1 71.2 REMARK 620 3 ASP B 416 OD2 116.8 47.7 REMARK 620 4 HOH B 740 O 72.8 89.1 89.8 REMARK 620 5 HOH B 747 O 145.2 125.7 79.6 77.1 REMARK 620 6 HOH B 754 O 90.6 159.8 152.1 93.8 74.3 REMARK 620 7 HOH D 209 O 152.7 121.0 83.9 127.8 50.8 72.0 REMARK 620 8 HOH D 210 O 77.5 76.5 99.2 149.9 132.7 91.4 81.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 101 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA C 65 O REMARK 620 2 GLU C 69 OE2 95.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D 101 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA D 65 O REMARK 620 2 GLU D 69 OE1 62.9 REMARK 620 3 GLU D 69 OE2 93.9 43.6 REMARK 620 4 HOH D 208 O 64.7 62.4 102.8 REMARK 620 5 HOH D 214 O 83.7 105.4 79.6 148.4 REMARK 620 N 1 2 3 4 DBREF 8BWL A 382 501 UNP P43026 GDF5_HUMAN 382 501 DBREF 8BWL B 382 501 UNP P43026 GDF5_HUMAN 382 501 DBREF 8BWL C 26 83 UNP Q9GZX9 TWSG1_HUMAN 26 83 DBREF 8BWL D 26 83 UNP Q9GZX9 TWSG1_HUMAN 26 83 SEQADV 8BWL MET A 381 UNP P43026 INITIATING METHIONINE SEQADV 8BWL MET B 381 UNP P43026 INITIATING METHIONINE SEQADV 8BWL GLU C 23 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL THR C 24 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLY C 25 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLY C 84 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL THR C 85 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL LEU C 86 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLU C 87 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL VAL C 88 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL LEU C 89 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL PHE C 90 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLN C 91 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLU D 23 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL THR D 24 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLY D 25 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLY D 84 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL THR D 85 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL LEU D 86 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLU D 87 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL VAL D 88 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL LEU D 89 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL PHE D 90 UNP Q9GZX9 EXPRESSION TAG SEQADV 8BWL GLN D 91 UNP Q9GZX9 EXPRESSION TAG SEQRES 1 A 121 MET ALA PRO LEU ALA THR ARG GLN GLY LYS ARG PRO SER SEQRES 2 A 121 LYS ASN LEU LYS ALA ARG CYS SER ARG LYS ALA LEU HIS SEQRES 3 A 121 VAL ASN PHE LYS ASP MET GLY TRP ASP ASP TRP ILE ILE SEQRES 4 A 121 ALA PRO LEU GLU TYR GLU ALA PHE HIS CYS GLU GLY LEU SEQRES 5 A 121 CYS GLU PHE PRO LEU ARG SER HIS LEU GLU PRO THR ASN SEQRES 6 A 121 HIS ALA VAL ILE GLN THR LEU MET ASN SER MET ASP PRO SEQRES 7 A 121 GLU SER THR PRO PRO THR CYS CYS VAL PRO THR ARG LEU SEQRES 8 A 121 SER PRO ILE SER ILE LEU PHE ILE ASP SER ALA ASN ASN SEQRES 9 A 121 VAL VAL TYR LYS GLN TYR GLU ASP MET VAL VAL GLU SER SEQRES 10 A 121 CYS GLY CYS ARG SEQRES 1 B 121 MET ALA PRO LEU ALA THR ARG GLN GLY LYS ARG PRO SER SEQRES 2 B 121 LYS ASN LEU LYS ALA ARG CYS SER ARG LYS ALA LEU HIS SEQRES 3 B 121 VAL ASN PHE LYS ASP MET GLY TRP ASP ASP TRP ILE ILE SEQRES 4 B 121 ALA PRO LEU GLU TYR GLU ALA PHE HIS CYS GLU GLY LEU SEQRES 5 B 121 CYS GLU PHE PRO LEU ARG SER HIS LEU GLU PRO THR ASN SEQRES 6 B 121 HIS ALA VAL ILE GLN THR LEU MET ASN SER MET ASP PRO SEQRES 7 B 121 GLU SER THR PRO PRO THR CYS CYS VAL PRO THR ARG LEU SEQRES 8 B 121 SER PRO ILE SER ILE LEU PHE ILE ASP SER ALA ASN ASN SEQRES 9 B 121 VAL VAL TYR LYS GLN TYR GLU ASP MET VAL VAL GLU SER SEQRES 10 B 121 CYS GLY CYS ARG SEQRES 1 C 69 GLU THR GLY CYS ASN LYS ALA LEU CYS ALA SER ASP VAL SEQRES 2 C 69 SER LYS CYS LEU ILE GLN GLU LEU CYS GLN CYS ARG PRO SEQRES 3 C 69 GLY GLU GLY ASN CYS SER CYS CYS LYS GLU CYS MET LEU SEQRES 4 C 69 CYS LEU GLY ALA LEU TRP ASP GLU CYS CYS ASP CYS VAL SEQRES 5 C 69 GLY MET CYS ASN PRO ARG ASN TYR SER GLY THR LEU GLU SEQRES 6 C 69 VAL LEU PHE GLN SEQRES 1 D 69 GLU THR GLY CYS ASN LYS ALA LEU CYS ALA SER ASP VAL SEQRES 2 D 69 SER LYS CYS LEU ILE GLN GLU LEU CYS GLN CYS ARG PRO SEQRES 3 D 69 GLY GLU GLY ASN CYS SER CYS CYS LYS GLU CYS MET LEU SEQRES 4 D 69 CYS LEU GLY ALA LEU TRP ASP GLU CYS CYS ASP CYS VAL SEQRES 5 D 69 GLY MET CYS ASN PRO ARG ASN TYR SER GLY THR LEU GLU SEQRES 6 D 69 VAL LEU PHE GLN HET CA A 601 1 HET CA B 601 1 HET CA C 101 1 HET CA D 101 1 HETNAM CA CALCIUM ION FORMUL 5 CA 4(CA 2+) FORMUL 9 HOH *150(H2 O) HELIX 1 AA1 ARG A 438 GLU A 442 5 5 HELIX 2 AA2 THR A 444 ASP A 457 1 14 HELIX 3 AA3 LYS B 410 GLY B 413 5 4 HELIX 4 AA4 ARG B 438 GLU B 442 5 5 HELIX 5 AA5 THR B 444 ASP B 457 1 14 HELIX 6 AA6 ASN C 27 GLN C 41 1 15 HELIX 7 AA7 CYS C 55 GLY C 64 1 10 HELIX 8 AA8 LEU C 66 CYS C 71 1 6 HELIX 9 AA9 ASP C 72 GLY C 75 5 4 HELIX 10 AB1 ASN D 27 GLN D 41 1 15 HELIX 11 AB2 CYS D 55 GLY D 64 1 10 HELIX 12 AB3 LEU D 66 CYS D 71 1 6 HELIX 13 AB4 ASP D 72 VAL D 74 5 3 SHEET 1 AA1 2 SER A 401 LYS A 403 0 SHEET 2 AA1 2 HIS A 428 GLU A 430 -1 O HIS A 428 N LYS A 403 SHEET 1 AA2 2 HIS A 406 ASN A 408 0 SHEET 2 AA2 2 GLU A 423 GLU A 425 -1 O TYR A 424 N VAL A 407 SHEET 1 AA3 3 ILE A 418 ALA A 420 0 SHEET 2 AA3 3 CYS A 466 ILE A 479 -1 O LEU A 477 N ALA A 420 SHEET 3 AA3 3 VAL A 485 CYS A 500 -1 O TYR A 490 N ILE A 474 SHEET 1 AA4 2 SER B 401 LYS B 403 0 SHEET 2 AA4 2 HIS B 428 GLU B 430 -1 O HIS B 428 N LYS B 403 SHEET 1 AA5 2 HIS B 406 ASN B 408 0 SHEET 2 AA5 2 GLU B 423 GLU B 425 -1 O TYR B 424 N VAL B 407 SHEET 1 AA6 3 ILE B 418 ALA B 420 0 SHEET 2 AA6 3 CYS B 466 ILE B 479 -1 O LEU B 477 N ALA B 420 SHEET 3 AA6 3 VAL B 485 CYS B 500 -1 O VAL B 486 N PHE B 478 SSBOND 1 CYS A 400 CYS A 466 1555 1555 2.09 SSBOND 2 CYS A 429 CYS A 498 1555 1555 2.06 SSBOND 3 CYS A 433 CYS A 500 1555 1555 2.05 SSBOND 4 CYS A 465 CYS B 465 1555 1555 2.04 SSBOND 5 CYS B 400 CYS B 466 1555 1555 2.10 SSBOND 6 CYS B 429 CYS B 498 1555 1555 2.04 SSBOND 7 CYS B 433 CYS B 500 1555 1555 2.06 SSBOND 8 CYS C 26 CYS C 73 1555 1555 2.05 SSBOND 9 CYS C 31 CYS C 70 1555 1555 2.03 SSBOND 10 CYS C 38 CYS C 62 1555 1555 2.05 SSBOND 11 CYS C 44 CYS C 59 1555 1555 2.04 SSBOND 12 CYS C 46 CYS C 55 1555 1555 2.04 SSBOND 13 CYS C 53 CYS C 56 1555 1555 2.03 SSBOND 14 CYS C 71 CYS C 77 1555 1555 2.05 SSBOND 15 CYS D 26 CYS D 73 1555 1555 2.05 SSBOND 16 CYS D 31 CYS D 70 1555 1555 2.04 SSBOND 17 CYS D 38 CYS D 62 1555 1555 2.08 SSBOND 18 CYS D 44 CYS D 59 1555 1555 2.06 SSBOND 19 CYS D 46 CYS D 55 1555 1555 2.05 SSBOND 20 CYS D 53 CYS D 56 1555 1555 2.04 SSBOND 21 CYS D 71 CYS D 77 1555 1555 2.06 LINK O GLY A 413 CA CA A 601 1555 1555 2.34 LINK OD1 ASP A 416 CA CA A 601 1555 1555 2.76 LINK OD2 ASP A 416 CA CA A 601 1555 1555 2.43 LINK CA CA A 601 O HOH A 702 1555 1555 2.74 LINK CA CA A 601 O HOH A 758 1555 1555 2.45 LINK CA CA A 601 O HOH A 765 1555 1555 2.29 LINK CA CA A 601 O HOH C 201 1555 1555 2.90 LINK CA CA A 601 O HOH C 203 1555 1555 2.39 LINK O GLY B 413 CA CA B 601 1555 1555 2.38 LINK OD1 ASP B 416 CA CA B 601 1555 1555 2.90 LINK OD2 ASP B 416 CA CA B 601 1555 1555 2.19 LINK CA CA B 601 O HOH B 740 1555 1555 2.56 LINK CA CA B 601 O HOH B 747 1555 1555 2.70 LINK CA CA B 601 O HOH B 754 1555 1555 2.30 LINK CA CA B 601 O HOH D 209 1555 1555 2.73 LINK CA CA B 601 O HOH D 210 1555 1555 2.43 LINK O ALA C 65 CA CA C 101 1555 1555 2.69 LINK OE2 GLU C 69 CA CA C 101 1555 1555 2.97 LINK O ALA D 65 CA CA D 101 1555 1555 2.84 LINK OE1 GLU D 69 CA CA D 101 1555 1555 3.14 LINK OE2 GLU D 69 CA CA D 101 1555 1555 2.47 LINK CA CA D 101 O HOH D 208 1555 1555 2.16 LINK CA CA D 101 O HOH D 214 1555 1555 2.53 CISPEP 1 ALA A 420 PRO A 421 0 -12.79 CISPEP 2 PHE A 435 PRO A 436 0 -0.65 CISPEP 3 ALA B 420 PRO B 421 0 -3.22 CISPEP 4 PHE B 435 PRO B 436 0 -2.21 CRYST1 57.047 88.588 97.622 90.00 90.00 90.00 P 21 21 21 8 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 0.017529 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011288 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010244 0.00000