HEADER SIGNALING PROTEIN 11-JUL-18 6H16 TITLE STRUCTURE OF LRP6 P3E3P4E4 IN COMPLEX WITH VHH L-P2-D07 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED PROTEIN 6; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LRP-6; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: VHH L-P2-D07; COMPND 8 CHAIN: B; 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: LRP6; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 10 ORGANISM_COMMON: LLAMA; SOURCE 11 ORGANISM_TAXID: 9844; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, COMPLEX, SIGNALLING PROTEIN, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.GROS,R.C.VAN SCHERPENZEEL REVDAT 3 17-JAN-24 6H16 1 HETSYN LINK REVDAT 2 29-JUL-20 6H16 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE ATOM REVDAT 1 30-JAN-19 6H16 0 JRNL AUTH N.FENDERICO,R.C.VAN SCHERPENZEEL,M.GOLDFLAM,D.PROVERBIO, JRNL AUTH 2 I.JORDENS,T.KRALJ,S.STRYECK,T.Z.BASS,G.HERMANS,C.ULLMAN, JRNL AUTH 3 T.AASTRUP,P.GROS,M.M.MAURICE JRNL TITL ANTI-LRP5/6 VHHS PROMOTE DIFFERENTIATION OF JRNL TITL 2 WNT-HYPERSENSITIVE INTESTINAL STEM CELLS. JRNL REF NAT COMMUN V. 10 365 2019 JRNL REFN ESSN 2041-1723 JRNL PMID 30664649 JRNL DOI 10.1038/S41467-018-08172-Z REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13RC1_2958 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 82.10 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.450 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 36598 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.140 REMARK 3 FREE R VALUE TEST SET COUNT : 1880 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 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) : 0.490 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.850 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 116.0 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 630 THROUGH 967 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.0933 -22.8242 5.6293 REMARK 3 T TENSOR REMARK 3 T11: 0.6258 T22: 1.0313 REMARK 3 T33: 0.4760 T12: 0.1117 REMARK 3 T13: 0.0004 T23: 0.0038 REMARK 3 L TENSOR REMARK 3 L11: 2.6861 L22: 2.1048 REMARK 3 L33: 3.1417 L12: 0.0552 REMARK 3 L13: -0.2889 L23: -0.0801 REMARK 3 S TENSOR REMARK 3 S11: 0.1222 S12: 0.1395 S13: 0.0320 REMARK 3 S21: 0.0125 S22: 0.0382 S23: 0.0815 REMARK 3 S31: -0.0980 S32: -0.1419 S33: -0.1683 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 968 THROUGH 1247 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1340 -1.5222 45.1271 REMARK 3 T TENSOR REMARK 3 T11: 0.8799 T22: 1.5015 REMARK 3 T33: 0.6316 T12: -0.0524 REMARK 3 T13: -0.1056 T23: -0.2483 REMARK 3 L TENSOR REMARK 3 L11: 3.2106 L22: 4.2290 REMARK 3 L33: 4.6656 L12: -1.2993 REMARK 3 L13: -1.4422 L23: 1.8645 REMARK 3 S TENSOR REMARK 3 S11: -0.2878 S12: -0.4299 S13: 0.2677 REMARK 3 S21: -0.2184 S22: 0.5110 S23: -0.5621 REMARK 3 S31: -0.2285 S32: 0.9673 S33: -0.2189 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.9002 -0.3014 -7.1690 REMARK 3 T TENSOR REMARK 3 T11: 0.6642 T22: 0.6765 REMARK 3 T33: 0.8662 T12: 0.0189 REMARK 3 T13: -0.0539 T23: 0.0981 REMARK 3 L TENSOR REMARK 3 L11: 2.2454 L22: 7.9285 REMARK 3 L33: 5.6864 L12: -0.0873 REMARK 3 L13: 3.5290 L23: 0.1927 REMARK 3 S TENSOR REMARK 3 S11: 0.7666 S12: -0.5901 S13: 1.4428 REMARK 3 S21: 0.8371 S22: -0.3478 S23: -0.9618 REMARK 3 S31: -1.3376 S32: 1.8488 S33: -0.4113 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 18 THROUGH 40 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.7821 -6.7998 -6.5216 REMARK 3 T TENSOR REMARK 3 T11: 0.6923 T22: 1.1002 REMARK 3 T33: 0.7015 T12: 0.0295 REMARK 3 T13: 0.0318 T23: 0.0022 REMARK 3 L TENSOR REMARK 3 L11: 6.7703 L22: 7.7253 REMARK 3 L33: 2.7235 L12: -0.0510 REMARK 3 L13: 0.0169 L23: -4.4126 REMARK 3 S TENSOR REMARK 3 S11: 0.0009 S12: 1.0029 S13: 0.3720 REMARK 3 S21: 0.1312 S22: 0.1165 S23: -0.6212 REMARK 3 S31: -1.2427 S32: -0.2749 S33: 0.0626 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 41 THROUGH 69 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.4277 -5.3410 -17.1063 REMARK 3 T TENSOR REMARK 3 T11: 0.8256 T22: 1.3118 REMARK 3 T33: 0.8506 T12: 0.2845 REMARK 3 T13: 0.1587 T23: 0.3441 REMARK 3 L TENSOR REMARK 3 L11: 5.5874 L22: 6.7889 REMARK 3 L33: 8.0915 L12: 2.9703 REMARK 3 L13: -0.9254 L23: -1.1785 REMARK 3 S TENSOR REMARK 3 S11: 0.3957 S12: 1.6248 S13: 0.6999 REMARK 3 S21: -1.1725 S22: -0.1646 S23: 0.5818 REMARK 3 S31: -0.1632 S32: -0.3634 S33: -0.2660 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 70 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.5007 -14.4935 -6.4545 REMARK 3 T TENSOR REMARK 3 T11: 0.5234 T22: 1.2317 REMARK 3 T33: 0.6562 T12: -0.0046 REMARK 3 T13: -0.0336 T23: 0.1238 REMARK 3 L TENSOR REMARK 3 L11: 2.4026 L22: 9.5337 REMARK 3 L33: 8.7079 L12: -3.7473 REMARK 3 L13: -3.1025 L23: 0.6910 REMARK 3 S TENSOR REMARK 3 S11: -0.1538 S12: 1.2449 S13: 0.7513 REMARK 3 S21: 0.4848 S22: -0.6168 S23: 0.7813 REMARK 3 S31: 0.0839 S32: 0.5781 S33: 0.7087 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 79 THROUGH 85 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9703 -7.7305 -12.1584 REMARK 3 T TENSOR REMARK 3 T11: 0.8126 T22: 1.0501 REMARK 3 T33: 0.8917 T12: 0.1549 REMARK 3 T13: 0.0845 T23: 0.0604 REMARK 3 L TENSOR REMARK 3 L11: 4.3030 L22: 9.7288 REMARK 3 L33: 5.6299 L12: -4.4284 REMARK 3 L13: 4.7263 L23: -6.3650 REMARK 3 S TENSOR REMARK 3 S11: -0.8321 S12: -0.7419 S13: 0.0224 REMARK 3 S21: -0.8949 S22: -1.0982 S23: -1.1812 REMARK 3 S31: 0.3975 S32: 1.2849 S33: 1.8931 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 86 THROUGH 92 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.5059 3.6015 -22.0818 REMARK 3 T TENSOR REMARK 3 T11: 1.2562 T22: 1.3755 REMARK 3 T33: 1.1206 T12: 0.1557 REMARK 3 T13: 0.1541 T23: 0.3111 REMARK 3 L TENSOR REMARK 3 L11: 4.1490 L22: 4.9486 REMARK 3 L33: 6.6224 L12: -4.5293 REMARK 3 L13: -5.2233 L23: 5.7143 REMARK 3 S TENSOR REMARK 3 S11: 0.5691 S12: 3.0601 S13: 2.1813 REMARK 3 S21: -2.8708 S22: -0.3413 S23: -0.8520 REMARK 3 S31: -2.0986 S32: -0.5273 S33: -0.1732 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 93 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.7412 -0.8786 -7.3321 REMARK 3 T TENSOR REMARK 3 T11: 0.7822 T22: 0.8466 REMARK 3 T33: 0.6982 T12: 0.0341 REMARK 3 T13: -0.1724 T23: 0.0779 REMARK 3 L TENSOR REMARK 3 L11: 4.6027 L22: 7.8018 REMARK 3 L33: 7.1441 L12: 5.1954 REMARK 3 L13: -5.5221 L23: -5.0310 REMARK 3 S TENSOR REMARK 3 S11: 0.7858 S12: -0.3515 S13: 0.6402 REMARK 3 S21: 0.2561 S22: -0.2684 S23: 0.0010 REMARK 3 S31: -0.4624 S32: -0.0041 S33: -0.4662 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 6H16 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1200010887. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-MAR-17 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 : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8731 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 : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36674 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 164.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 1.02900 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: 4A0P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 5.0, 10 % W/V PEG 6000, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291.15K 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 46.39750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 82.09550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.97700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 82.09550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 46.39750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.97700 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 SER A 1005 REMARK 465 SER A 1006 REMARK 465 VAL A 1007 REMARK 465 PRO A 1008 REMARK 465 SER A 1009 REMARK 465 GLN A 1010 REMARK 465 ASN A 1011 REMARK 465 LEU A 1012 REMARK 465 SER A 1102 REMARK 465 LYS A 1103 REMARK 465 PRO A 1104 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 ARG A 985 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 986 CG CD OE1 NE2 REMARK 470 LYS A1082 CG CD CE NZ REMARK 470 ARG A1112 CG CD NE CZ NH1 NH2 REMARK 470 ARG A1124 CG CD NE CZ NH1 NH2 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 639 -111.69 52.99 REMARK 500 THR A 649 -140.15 57.53 REMARK 500 ASN A 653 38.22 -78.29 REMARK 500 PRO A 657 87.79 -67.48 REMARK 500 THR A 659 -62.86 -94.77 REMARK 500 SER A 665 -103.65 -125.88 REMARK 500 GLU A 701 13.40 -143.46 REMARK 500 TRP A 744 -13.00 -148.00 REMARK 500 SER A 749 70.76 57.40 REMARK 500 ARG A 751 -81.38 -117.05 REMARK 500 LYS A 770 79.59 55.16 REMARK 500 HIS A 834 81.23 -158.33 REMARK 500 PHE A 836 -91.16 -121.21 REMARK 500 GLN A 842 -125.43 55.11 REMARK 500 THR A 861 -64.21 -96.41 REMARK 500 GLN A 864 -163.97 -109.56 REMARK 500 GLN A 887 75.05 -119.24 REMARK 500 HIS A 902 -73.03 -125.97 REMARK 500 PRO A 917 170.84 -59.34 REMARK 500 HIS A 919 -10.95 71.85 REMARK 500 ARG A 927 -41.17 -132.04 REMARK 500 ASN A 966 71.60 61.86 REMARK 500 ASN A 987 65.83 63.08 REMARK 500 ARG A1060 -87.97 -116.39 REMARK 500 ARG A1079 22.75 46.09 REMARK 500 LEU A1096 -65.27 -98.61 REMARK 500 PHE A1098 -64.76 -106.54 REMARK 500 LEU A1139 -162.69 -79.71 REMARK 500 GLN A1146 86.36 -151.87 REMARK 500 GLU A1154 -115.68 58.50 REMARK 500 ASN A1155 50.07 -111.12 REMARK 500 ARG A1175 -66.12 -105.96 REMARK 500 ARG A1184 71.73 59.79 REMARK 500 HIS A1216 -115.52 67.31 REMARK 500 PRO A1231 -174.47 -65.96 REMARK 500 LEU A1237 -165.28 -111.88 REMARK 500 LEU A1241 -49.42 -132.24 REMARK 500 ALA A1245 -152.67 -81.04 REMARK 500 ALA A1246 -67.71 -135.85 REMARK 500 LEU B 19 129.65 -171.30 REMARK 500 VAL B 49 -63.23 -105.17 REMARK 500 ALA B 76 -50.95 -149.42 REMARK 500 ARG B 104 -14.42 67.40 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 A1315 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A1107 O REMARK 620 2 HOH A1402 O 53.0 REMARK 620 3 HOH A1403 O 157.9 125.4 REMARK 620 4 HOH A1404 O 122.4 69.6 64.2 REMARK 620 5 HOH A1407 O 93.8 65.2 105.1 53.1 REMARK 620 6 HOH A1414 O 142.6 112.7 59.3 54.4 52.8 REMARK 620 7 HOH A1415 O 89.0 141.0 93.0 144.9 115.4 91.4 REMARK 620 N 1 2 3 4 5 6 DBREF 6H16 A 630 1244 UNP O75581 LRP6_HUMAN 630 1244 DBREF 6H16 B 2 120 PDB 6H16 6H16 2 120 SEQADV 6H16 ALA A 1245 UNP O75581 EXPRESSION TAG SEQADV 6H16 ALA A 1246 UNP O75581 EXPRESSION TAG SEQADV 6H16 ALA A 1247 UNP O75581 EXPRESSION TAG SEQRES 1 A 618 PRO GLU ALA PHE LEU LEU PHE SER ARG ARG ALA ASP ILE SEQRES 2 A 618 ARG ARG ILE SER LEU GLU THR ASN ASN ASN ASN VAL ALA SEQRES 3 A 618 ILE PRO LEU THR GLY VAL LYS GLU ALA SER ALA LEU ASP SEQRES 4 A 618 PHE ASP VAL THR ASP ASN ARG ILE TYR TRP THR ASP ILE SEQRES 5 A 618 SER LEU LYS THR ILE SER ARG ALA PHE MET ASN GLY SER SEQRES 6 A 618 ALA LEU GLU HIS VAL VAL GLU PHE GLY LEU ASP TYR PRO SEQRES 7 A 618 GLU GLY MET ALA VAL ASP TRP LEU GLY LYS ASN LEU TYR SEQRES 8 A 618 TRP ALA ASP THR GLY THR ASN ARG ILE GLU VAL SER LYS SEQRES 9 A 618 LEU ASP GLY GLN HIS ARG GLN VAL LEU VAL TRP LYS ASP SEQRES 10 A 618 LEU ASP SER PRO ARG ALA LEU ALA LEU ASP PRO ALA GLU SEQRES 11 A 618 GLY PHE MET TYR TRP THR GLU TRP GLY GLY LYS PRO LYS SEQRES 12 A 618 ILE ASP ARG ALA ALA MET ASP GLY SER GLU ARG THR THR SEQRES 13 A 618 LEU VAL PRO ASN VAL GLY ARG ALA ASN GLY LEU THR ILE SEQRES 14 A 618 ASP TYR ALA LYS ARG ARG LEU TYR TRP THR ASP LEU ASP SEQRES 15 A 618 THR ASN LEU ILE GLU SER SER ASN MET LEU GLY LEU ASN SEQRES 16 A 618 ARG GLU VAL ILE ALA ASP ASP LEU PRO HIS PRO PHE GLY SEQRES 17 A 618 LEU THR GLN TYR GLN ASP TYR ILE TYR TRP THR ASP TRP SEQRES 18 A 618 SER ARG ARG SER ILE GLU ARG ALA ASN LYS THR SER GLY SEQRES 19 A 618 GLN ASN ARG THR ILE ILE GLN GLY HIS LEU ASP TYR VAL SEQRES 20 A 618 MET ASP ILE LEU VAL PHE HIS SER SER ARG GLN SER GLY SEQRES 21 A 618 TRP ASN GLU CYS ALA SER SER ASN GLY HIS CYS SER HIS SEQRES 22 A 618 LEU CYS LEU ALA VAL PRO VAL GLY GLY PHE VAL CYS GLY SEQRES 23 A 618 CYS PRO ALA HIS TYR SER LEU ASN ALA ASP ASN ARG THR SEQRES 24 A 618 CYS SER ALA PRO THR THR PHE LEU LEU PHE SER GLN LYS SEQRES 25 A 618 SER ALA ILE ASN ARG MET VAL ILE ASP GLU GLN GLN SER SEQRES 26 A 618 PRO ASP ILE ILE LEU PRO ILE HIS SER LEU ARG ASN VAL SEQRES 27 A 618 ARG ALA ILE ASP TYR ASP PRO LEU ASP LYS GLN LEU TYR SEQRES 28 A 618 TRP ILE ASP SER ARG GLN ASN MET ILE ARG LYS ALA GLN SEQRES 29 A 618 GLU ASP GLY SER GLN GLY PHE THR VAL VAL VAL SER SER SEQRES 30 A 618 VAL PRO SER GLN ASN LEU GLU ILE GLN PRO TYR ASP LEU SEQRES 31 A 618 SER ILE ASP ILE TYR SER ARG TYR ILE TYR TRP THR CYS SEQRES 32 A 618 GLU ALA THR ASN VAL ILE ASN VAL THR ARG LEU ASP GLY SEQRES 33 A 618 ARG SER VAL GLY VAL VAL LEU LYS GLY GLU GLN ASP ARG SEQRES 34 A 618 PRO ARG ALA VAL VAL VAL ASN PRO GLU LYS GLY TYR MET SEQRES 35 A 618 TYR PHE THR ASN LEU GLN GLU ARG SER PRO LYS ILE GLU SEQRES 36 A 618 ARG ALA ALA LEU ASP GLY THR GLU ARG GLU VAL LEU PHE SEQRES 37 A 618 PHE SER GLY LEU SER LYS PRO ILE ALA LEU ALA LEU ASP SEQRES 38 A 618 SER ARG LEU GLY LYS LEU PHE TRP ALA ASP SER ASP LEU SEQRES 39 A 618 ARG ARG ILE GLU SER SER ASP LEU SER GLY ALA ASN ARG SEQRES 40 A 618 ILE VAL LEU GLU ASP SER ASN ILE LEU GLN PRO VAL GLY SEQRES 41 A 618 LEU THR VAL PHE GLU ASN TRP LEU TYR TRP ILE ASP LYS SEQRES 42 A 618 GLN GLN GLN MET ILE GLU LYS ILE ASP MET THR GLY ARG SEQRES 43 A 618 GLU GLY ARG THR LYS VAL GLN ALA ARG ILE ALA GLN LEU SEQRES 44 A 618 SER ASP ILE HIS ALA VAL LYS GLU LEU ASN LEU GLN GLU SEQRES 45 A 618 TYR ARG GLN HIS PRO CYS ALA GLN ASP ASN GLY GLY CYS SEQRES 46 A 618 SER HIS ILE CYS LEU VAL LYS GLY ASP GLY THR THR ARG SEQRES 47 A 618 CYS SER CYS PRO MET HIS LEU VAL LEU LEU GLN ASP GLU SEQRES 48 A 618 LEU SER CYS GLY ALA ALA ALA SEQRES 1 B 119 GLU VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 119 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 B 119 ARG THR PHE SER ILE TYR THR ILE GLY TRP PHE ARG GLN SEQRES 4 B 119 ALA PRO GLY LYS GLU ARG GLU PHE VAL ALA GLU ILE THR SEQRES 5 B 119 TRP SER GLY GLY SER THR TYR TYR ALA ASP SER VAL LYS SEQRES 6 B 119 GLY ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN THR SEQRES 7 B 119 VAL TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR SEQRES 8 B 119 ALA VAL TYR TYR CYS ALA ALA ILE THR TYR THR ARG GLY SEQRES 9 B 119 ILE TYR LYS TYR TRP GLY GLN GLY THR GLN VAL THR VAL SEQRES 10 B 119 SER SER HET NAG C 1 14 HET NAG C 2 14 HET BMA C 3 11 HET NAG D 1 14 HET NAG D 2 14 HET BMA D 3 11 HET NAG E 1 14 HET NAG E 2 14 HET BMA E 3 11 HET NAG F 1 14 HET NAG F 2 14 HET BMA F 3 11 HET MAN F 4 11 HET NAG A1304 14 HET CA A1315 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM CA CALCIUM ION 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 HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 3 NAG 9(C8 H15 N O6) FORMUL 3 BMA 4(C6 H12 O6) FORMUL 6 MAN C6 H12 O6 FORMUL 8 CA CA 2+ FORMUL 9 HOH *15(H2 O) HELIX 1 AA1 HIS A 883 GLN A 887 5 5 HELIX 2 AA2 ASN A 891 ASN A 897 1 7 HELIX 3 AA3 GLY A 898 CYS A 900 5 3 HELIX 4 AA4 ASN A 1198 ARG A 1203 1 6 HELIX 5 AA5 GLN A 1209 CYS A 1214 5 6 HELIX 6 AA6 LYS B 88 THR B 92 5 5 SHEET 1 AA1 3 ASP A 641 SER A 646 0 SHEET 2 AA1 3 PHE A 633 ARG A 638 -1 N LEU A 634 O ILE A 645 SHEET 3 AA1 3 VAL A 876 PHE A 882 -1 O PHE A 882 N PHE A 633 SHEET 1 AA2 4 ALA A 664 ASP A 670 0 SHEET 2 AA2 4 ARG A 675 ASP A 680 -1 O TYR A 677 N ASP A 668 SHEET 3 AA2 4 THR A 685 PHE A 690 -1 O ALA A 689 N ILE A 676 SHEET 4 AA2 4 GLU A 697 VAL A 700 -1 O VAL A 700 N ILE A 686 SHEET 1 AA3 4 GLY A 709 ASP A 713 0 SHEET 2 AA3 4 ASN A 718 ASP A 723 -1 O TYR A 720 N ALA A 711 SHEET 3 AA3 4 ARG A 728 LYS A 733 -1 O ARG A 728 N ASP A 723 SHEET 4 AA3 4 GLN A 740 VAL A 743 -1 O GLN A 740 N VAL A 731 SHEET 1 AA4 4 PRO A 750 ASP A 756 0 SHEET 2 AA4 4 PHE A 761 GLU A 766 -1 O TYR A 763 N ALA A 754 SHEET 3 AA4 4 LYS A 772 ALA A 777 -1 O LYS A 772 N GLU A 766 SHEET 4 AA4 4 THR A 784 VAL A 787 -1 O THR A 784 N ARG A 775 SHEET 1 AA5 4 ALA A 793 ASP A 799 0 SHEET 2 AA5 4 ARG A 804 ASP A 809 -1 O ARG A 804 N ASP A 799 SHEET 3 AA5 4 LEU A 814 ASN A 819 -1 O GLU A 816 N TRP A 807 SHEET 4 AA5 4 GLU A 826 ALA A 829 -1 O GLU A 826 N SER A 817 SHEET 1 AA6 4 PRO A 835 TYR A 841 0 SHEET 2 AA6 4 TYR A 844 ASP A 849 -1 O TYR A 844 N TYR A 841 SHEET 3 AA6 4 SER A 854 ASN A 859 -1 O GLU A 856 N TRP A 847 SHEET 4 AA6 4 THR A 867 GLN A 870 -1 O ILE A 869 N ILE A 855 SHEET 1 AA7 2 LEU A 903 VAL A 907 0 SHEET 2 AA7 2 GLY A 911 GLY A 915 -1 O VAL A 913 N LEU A 905 SHEET 1 AA8 2 SER A 921 LEU A 922 0 SHEET 2 AA8 2 CYS A 929 SER A 930 -1 O SER A 930 N SER A 921 SHEET 1 AA9 4 ILE A 957 ILE A 958 0 SHEET 2 AA9 4 ILE A 944 MET A 947 -1 N ARG A 946 O ILE A 957 SHEET 3 AA9 4 PHE A 935 GLN A 940 -1 N PHE A 938 O ASN A 945 SHEET 4 AA9 4 LEU A1188 VAL A1194 -1 O SER A1189 N SER A 939 SHEET 1 AB1 4 VAL A 967 ASP A 973 0 SHEET 2 AB1 4 GLN A 978 ASP A 983 -1 O GLN A 978 N ASP A 973 SHEET 3 AB1 4 MET A 988 ALA A 992 -1 O MET A 988 N ASP A 983 SHEET 4 AB1 4 PHE A1000 VAL A1003 -1 O PHE A1000 N LYS A 991 SHEET 1 AB2 4 PRO A1016 ASP A1022 0 SHEET 2 AB2 4 TYR A1027 CYS A1032 -1 O TYR A1027 N ASP A1022 SHEET 3 AB2 4 VAL A1037 ARG A1042 -1 O ASN A1039 N TRP A1030 SHEET 4 AB2 4 SER A1047 LEU A1052 -1 O LEU A1052 N ILE A1038 SHEET 1 AB3 4 PRO A1059 ASN A1065 0 SHEET 2 AB3 4 TYR A1070 GLN A1077 -1 O TYR A1072 N VAL A1063 SHEET 3 AB3 4 SER A1080 ALA A1087 -1 O LYS A1082 N ASN A1075 SHEET 4 AB3 4 GLU A1094 PHE A1097 -1 O GLU A1094 N ARG A1085 SHEET 1 AB4 4 LEU A1107 ASP A1110 0 SHEET 2 AB4 4 LYS A1115 ASP A1120 -1 O PHE A1117 N ALA A1108 SHEET 3 AB4 4 ARG A1125 ASP A1130 -1 O GLU A1127 N TRP A1118 SHEET 4 AB4 4 ILE A1137 VAL A1138 -1 O ILE A1137 N SER A1128 SHEET 1 AB5 4 PRO A1147 VAL A1152 0 SHEET 2 AB5 4 TRP A1156 ASP A1161 -1 O ILE A1160 N VAL A1148 SHEET 3 AB5 4 MET A1166 ASP A1171 -1 O GLU A1168 N TRP A1159 SHEET 4 AB5 4 THR A1179 ALA A1183 -1 O GLN A1182 N ILE A1167 SHEET 1 AB6 2 ILE A1217 VAL A1220 0 SHEET 2 AB6 2 THR A1226 SER A1229 -1 O SER A1229 N ILE A1217 SHEET 1 AB7 2 VAL A1235 LEU A1236 0 SHEET 2 AB7 2 CYS A1243 GLY A1244 -1 O GLY A1244 N VAL A1235 SHEET 1 AB8 4 VAL B 3 SER B 8 0 SHEET 2 AB8 4 SER B 18 GLY B 27 -1 O SER B 26 N GLN B 4 SHEET 3 AB8 4 THR B 79 ASN B 85 -1 O MET B 84 N LEU B 19 SHEET 4 AB8 4 THR B 70 ARG B 73 -1 N THR B 70 O GLN B 83 SHEET 1 AB9 6 LEU B 12 GLN B 14 0 SHEET 2 AB9 6 THR B 114 SER B 119 1 O THR B 117 N VAL B 13 SHEET 3 AB9 6 ALA B 93 THR B 101 -1 N TYR B 95 O THR B 114 SHEET 4 AB9 6 ILE B 32 GLN B 40 -1 N PHE B 38 O TYR B 96 SHEET 5 AB9 6 ARG B 46 THR B 53 -1 O ALA B 50 N TRP B 37 SHEET 6 AB9 6 THR B 59 TYR B 61 -1 O TYR B 60 N GLU B 51 SHEET 1 AC1 4 LEU B 12 GLN B 14 0 SHEET 2 AC1 4 THR B 114 SER B 119 1 O THR B 117 N VAL B 13 SHEET 3 AC1 4 ALA B 93 THR B 101 -1 N TYR B 95 O THR B 114 SHEET 4 AC1 4 LYS B 108 TRP B 110 -1 O TYR B 109 N ALA B 99 SSBOND 1 CYS A 893 CYS A 904 1555 1555 2.03 SSBOND 2 CYS A 900 CYS A 914 1555 1555 2.03 SSBOND 3 CYS A 916 CYS A 929 1555 1555 2.03 SSBOND 4 CYS A 1207 CYS A 1218 1555 1555 2.03 SSBOND 5 CYS A 1214 CYS A 1228 1555 1555 2.03 SSBOND 6 CYS A 1230 CYS A 1243 1555 1555 2.02 SSBOND 7 CYS B 23 CYS B 97 1555 1555 2.04 LINK ND2 ASN A 692 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN A 859 C1 NAG A1304 1555 1555 1.44 LINK ND2 ASN A 865 C1 NAG D 1 1555 1555 1.45 LINK ND2 ASN A 926 C1 NAG E 1 1555 1555 1.44 LINK ND2 ASN A1039 C1 NAG F 1 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 LINK O4 NAG C 2 C1 BMA C 3 1555 1555 1.44 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.44 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.44 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.44 LINK O4 NAG E 2 C1 BMA E 3 1555 1555 1.44 LINK O4 NAG F 1 C1 NAG F 2 1555 1555 1.44 LINK O4 NAG F 2 C1 BMA F 3 1555 1555 1.44 LINK O3 BMA F 3 C1 MAN F 4 1555 1555 1.44 LINK O LEU A1107 CA CA A1315 1555 1555 3.16 LINK CA CA A1315 O HOH A1402 1555 1555 2.92 LINK CA CA A1315 O HOH A1403 1555 1555 2.48 LINK CA CA A1315 O HOH A1404 1555 1555 3.16 LINK CA CA A1315 O HOH A1407 1555 1555 2.62 LINK CA CA A1315 O HOH A1414 1555 1555 2.69 LINK CA CA A1315 O HOH A1415 1555 1555 2.65 CISPEP 1 PRO A 908 VAL A 909 0 -2.44 CRYST1 92.795 105.954 164.191 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 0.010776 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009438 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006090 0.00000