HEADER SIGNALING PROTEIN 05-SEP-13 4C4N TITLE CRYSTAL STRUCTURE OF THE SONIC HEDGEHOG-HEPARIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: SONIC HEDGEHOG PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TEMINAL SIGNALLING DOMAIN, RESIDUES 40-195; COMPND 5 SYNONYM: SHH, HHG-1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET22B KEYWDS SIGNALING PROTEIN, HEDGEHOG SIGNALLING, MORPHOGENS, HEPARAN SULPHATE KEYWDS 2 PROTEOGLYCANS, GLYCOSAMINOGLYCANS EXPDTA X-RAY DIFFRACTION AUTHOR D.M.WHALEN,T.MALINAUSKAS,R.J.C.GILBERT,C.SIEBOLD REVDAT 4 29-JUL-20 4C4N 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 30-OCT-13 4C4N 1 JRNL REVDAT 2 09-OCT-13 4C4N 1 JRNL REVDAT 1 02-OCT-13 4C4N 0 JRNL AUTH D.M.WHALEN,T.MALINAUSKAS,R.J.C.GILBERT,C.SIEBOLD JRNL TITL STRUCTURAL INSIGHTS INTO PROTEOGLYCAN-SHAPED HEDGEHOG JRNL TITL 2 SIGNALING. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 16420 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 24062467 JRNL DOI 10.1073/PNAS.1310097110 REMARK 2 REMARK 2 RESOLUTION. 2.36 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) : 2.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 14900 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 783 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) : 2.36 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.42 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1070 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.3060 REMARK 3 BIN FREE R VALUE SET COUNT : 52 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2434 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 219 REMARK 3 SOLVENT ATOMS : 64 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.91000 REMARK 3 B22 (A**2) : 0.36000 REMARK 3 B33 (A**2) : -3.27000 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): 0.396 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.238 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.189 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.271 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2708 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2388 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3708 ; 1.413 ; 2.043 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5544 ; 0.951 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 301 ; 6.071 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 128 ;35.235 ;23.906 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 437 ;14.441 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;16.741 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 431 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2871 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 593 ; 0.004 ; 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): 1210 ; 1.673 ; 2.603 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1209 ; 1.669 ; 2.601 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1509 ; 2.742 ; 3.894 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1498 ; 1.470 ; 2.694 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 : 4 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 40 A 189 REMARK 3 ORIGIN FOR THE GROUP (A): -18.1120 19.3898 -7.2393 REMARK 3 T TENSOR REMARK 3 T11: 0.1589 T22: 0.1135 REMARK 3 T33: 0.1192 T12: 0.0373 REMARK 3 T13: 0.0489 T23: 0.0264 REMARK 3 L TENSOR REMARK 3 L11: 2.8533 L22: 11.7437 REMARK 3 L33: 7.9832 L12: -0.6794 REMARK 3 L13: 2.1328 L23: -3.5470 REMARK 3 S TENSOR REMARK 3 S11: 0.3376 S12: -0.0110 S13: -0.1774 REMARK 3 S21: -1.2103 S22: -0.5856 S23: -0.4733 REMARK 3 S31: 0.6577 S32: 0.0086 S33: 0.2480 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 40 B 191 REMARK 3 ORIGIN FOR THE GROUP (A): -13.5205 48.0749 -25.1534 REMARK 3 T TENSOR REMARK 3 T11: 0.1611 T22: 0.1896 REMARK 3 T33: 0.1691 T12: -0.1221 REMARK 3 T13: -0.1239 T23: 0.0635 REMARK 3 L TENSOR REMARK 3 L11: 4.0639 L22: 3.2411 REMARK 3 L33: 9.3454 L12: 1.0264 REMARK 3 L13: 0.2470 L23: -1.3378 REMARK 3 S TENSOR REMARK 3 S11: -0.3308 S12: 0.0832 S13: 0.0791 REMARK 3 S21: -0.1558 S22: -0.0850 S23: 0.0469 REMARK 3 S31: -0.6986 S32: 0.3500 S33: 0.4157 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1201 A 1206 REMARK 3 ORIGIN FOR THE GROUP (A): -2.3354 13.8592 -15.9568 REMARK 3 T TENSOR REMARK 3 T11: 1.0516 T22: 1.3915 REMARK 3 T33: 1.8112 T12: 0.0502 REMARK 3 T13: -0.7812 T23: -0.1925 REMARK 3 L TENSOR REMARK 3 L11: 40.0850 L22: 29.6289 REMARK 3 L33: 8.3793 L12: -23.5088 REMARK 3 L13: -13.9101 L23: 15.5342 REMARK 3 S TENSOR REMARK 3 S11: 1.4243 S12: -0.3965 S13: -0.3430 REMARK 3 S21: -2.9987 S22: -1.0562 S23: 0.1396 REMARK 3 S31: -1.3031 S32: -0.3106 S33: -0.3681 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1201 B 1206 REMARK 3 ORIGIN FOR THE GROUP (A): 2.4416 48.0078 -15.8591 REMARK 3 T TENSOR REMARK 3 T11: 1.4817 T22: 1.0469 REMARK 3 T33: 1.2214 T12: -0.0904 REMARK 3 T13: 0.3959 T23: -0.0601 REMARK 3 L TENSOR REMARK 3 L11: 10.4206 L22: 0.2097 REMARK 3 L33: 7.0879 L12: -1.3047 REMARK 3 L13: 8.4148 L23: -1.1694 REMARK 3 S TENSOR REMARK 3 S11: 0.2545 S12: -0.8598 S13: -0.2563 REMARK 3 S21: 0.2259 S22: 0.1255 S23: 0.0799 REMARK 3 S31: -0.4495 S32: -0.7071 S33: -0.3801 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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. THE OLIGOSACCHARIDE CHAIN IDS-SGN IS PRESENT IN TWO REMARK 3 DISTINCT CONFORMATIONS WHICH ARE SYMMETRY MATES. ONLY ONE REMARK 3 CONFORMATION IS PRESENT IN THE PDB FILE WITH 0.50 OCCCUPANCY, REMARK 3 SINCE THE OTHER CAN BE GENERATED BY APPLYING THE SYMMETRY REMARK 3 OPERATIONS OF THE SPACE GROUP. REMARK 4 REMARK 4 4C4N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1290058045. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAY-12 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 : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.86000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15713 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.360 REMARK 200 RESOLUTION RANGE LOW (A) : 22.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.63000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 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: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS-HCL PH 8.5; 200 MM SODIUM REMARK 280 ACETATE; 30% (W/V) PEG 4000; 8% (V/V) 1,1,1,3,3, 3-HEXAFLUORO-2- REMARK 280 PROPANOL 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 47.84000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.80000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 47.84000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.80000 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: DIMERIC 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 38 REMARK 465 ALA A 39 REMARK 465 SER A 191 REMARK 465 VAL A 192 REMARK 465 ALA A 193 REMARK 465 ALA A 194 REMARK 465 LYS A 195 REMARK 465 HIS A 196 REMARK 465 HIS A 197 REMARK 465 HIS A 198 REMARK 465 HIS A 199 REMARK 465 HIS A 200 REMARK 465 HIS A 201 REMARK 465 MET B 38 REMARK 465 ALA B 39 REMARK 465 VAL B 192 REMARK 465 ALA B 193 REMARK 465 ALA B 194 REMARK 465 LYS B 195 REMARK 465 HIS B 196 REMARK 465 HIS B 197 REMARK 465 HIS B 198 REMARK 465 HIS B 199 REMARK 465 HIS B 200 REMARK 465 HIS B 201 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 ALA A 59 -120.53 -107.72 REMARK 500 ALA B 59 -122.07 -104.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 2-O-SULFO-ALPHA-L-IDOPYRANURONIC ACID (IDS): THE REMARK 600 OLIGOSACCHARIDE CHAIN IDS-SGN IS CONTINUOUS RUNNING REMARK 600 THROUGH SEVERAL UNIT CELLS. REMARK 600 N,O6-DISULFO-GLUCOSAMINE (SGN): THE OLIGOSACCHARIDE CHAIN REMARK 600 IDS-SGN IS CONTINUOUS RUNNING THROUGH SEVERAL UNIT CELLS. 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 A1193 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 90 OE1 REMARK 620 2 GLU A 90 OE2 51.8 REMARK 620 3 GLU A 91 OE1 71.5 73.6 REMARK 620 4 GLU A 91 OE2 109.1 73.5 50.4 REMARK 620 5 ASP A 96 OD1 141.8 148.5 85.3 75.0 REMARK 620 6 ASP A 96 OD2 94.9 143.5 82.3 111.1 51.2 REMARK 620 7 THR A 126 O 98.5 110.5 164.0 145.3 96.3 86.4 REMARK 620 8 GLU A 127 OE2 138.3 87.3 107.8 57.5 77.0 126.7 87.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1192 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 91 OE2 REMARK 620 2 GLU A 127 OE1 107.9 REMARK 620 3 GLU A 127 OE2 55.9 52.1 REMARK 620 4 ASP A 130 OD1 163.1 86.9 138.9 REMARK 620 5 ASP A 132 OD2 93.5 145.0 137.0 77.7 REMARK 620 6 HOH A2020 O 79.0 87.4 82.3 94.0 124.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1191 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 141 NE2 REMARK 620 2 ASP A 148 OD1 102.6 REMARK 620 3 HIS A 183 ND1 100.1 101.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1193 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 90 OE1 REMARK 620 2 GLU B 90 OE2 54.0 REMARK 620 3 GLU B 91 OE2 114.1 77.6 REMARK 620 4 GLU B 91 OE1 75.6 76.9 49.6 REMARK 620 5 ASP B 96 OD1 137.1 154.2 76.7 84.1 REMARK 620 6 ASP B 96 OD2 88.1 139.8 112.4 81.5 51.4 REMARK 620 7 THR B 126 O 93.9 112.0 149.2 158.8 91.9 79.8 REMARK 620 8 GLU B 127 OE2 145.6 93.9 62.4 111.9 77.0 125.8 87.2 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1194 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 91 OE2 REMARK 620 2 GLU B 127 OE2 63.1 REMARK 620 3 GLU B 127 OE1 114.8 52.3 REMARK 620 4 ASP B 130 OD1 158.7 131.6 79.8 REMARK 620 5 ASP B 132 OD2 87.9 137.1 147.1 86.3 REMARK 620 6 HOH B2014 O 83.7 128.3 129.5 75.0 73.6 REMARK 620 7 HOH B2015 O 72.7 73.5 81.6 95.6 129.6 58.7 REMARK 620 8 HOH B2016 O 92.4 75.9 80.9 105.7 74.5 147.9 149.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1192 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 141 NE2 REMARK 620 2 ASP B 148 OD1 106.8 REMARK 620 3 HIS B 183 ND1 103.7 105.3 REMARK 620 4 HOH B2024 O 120.8 116.6 101.6 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4C4M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SONIC HEDGEHOG-CHONDROITIN-4- SULPHATE REMARK 900 COMPLEX REMARK 999 REMARK 999 SEQUENCE REMARK 999 CONSTRUCT CONTAINS TWO ADDITIONAL N-TERMINAL RESIDUES (MA) REMARK 999 AND 6 ADDITIONAL C-TERMINAL RESIDUES (HHHHHH) DBREF 4C4N A 40 195 UNP Q62226 SHH_MOUSE 40 195 DBREF 4C4N B 40 195 UNP Q62226 SHH_MOUSE 40 195 SEQADV 4C4N MET A 38 UNP Q62226 EXPRESSION TAG SEQADV 4C4N ALA A 39 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS A 196 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS A 197 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS A 198 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS A 199 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS A 200 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS A 201 UNP Q62226 EXPRESSION TAG SEQADV 4C4N MET B 38 UNP Q62226 EXPRESSION TAG SEQADV 4C4N ALA B 39 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS B 196 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS B 197 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS B 198 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS B 199 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS B 200 UNP Q62226 EXPRESSION TAG SEQADV 4C4N HIS B 201 UNP Q62226 EXPRESSION TAG SEQRES 1 A 164 MET ALA LEU THR PRO LEU ALA TYR LYS GLN PHE ILE PRO SEQRES 2 A 164 ASN VAL ALA GLU LYS THR LEU GLY ALA SER GLY ARG TYR SEQRES 3 A 164 GLU GLY LYS ILE THR ARG ASN SER GLU ARG PHE LYS GLU SEQRES 4 A 164 LEU THR PRO ASN TYR ASN PRO ASP ILE ILE PHE LYS ASP SEQRES 5 A 164 GLU GLU ASN THR GLY ALA ASP ARG LEU MET THR GLN ARG SEQRES 6 A 164 CYS LYS ASP LYS LEU ASN ALA LEU ALA ILE SER VAL MET SEQRES 7 A 164 ASN GLN TRP PRO GLY VAL LYS LEU ARG VAL THR GLU GLY SEQRES 8 A 164 TRP ASP GLU ASP GLY HIS HIS SER GLU GLU SER LEU HIS SEQRES 9 A 164 TYR GLU GLY ARG ALA VAL ASP ILE THR THR SER ASP ARG SEQRES 10 A 164 ASP ARG SER LYS TYR GLY MET LEU ALA ARG LEU ALA VAL SEQRES 11 A 164 GLU ALA GLY PHE ASP TRP VAL TYR TYR GLU SER LYS ALA SEQRES 12 A 164 HIS ILE HIS CYS SER VAL LYS ALA GLU ASN SER VAL ALA SEQRES 13 A 164 ALA LYS HIS HIS HIS HIS HIS HIS SEQRES 1 B 164 MET ALA LEU THR PRO LEU ALA TYR LYS GLN PHE ILE PRO SEQRES 2 B 164 ASN VAL ALA GLU LYS THR LEU GLY ALA SER GLY ARG TYR SEQRES 3 B 164 GLU GLY LYS ILE THR ARG ASN SER GLU ARG PHE LYS GLU SEQRES 4 B 164 LEU THR PRO ASN TYR ASN PRO ASP ILE ILE PHE LYS ASP SEQRES 5 B 164 GLU GLU ASN THR GLY ALA ASP ARG LEU MET THR GLN ARG SEQRES 6 B 164 CYS LYS ASP LYS LEU ASN ALA LEU ALA ILE SER VAL MET SEQRES 7 B 164 ASN GLN TRP PRO GLY VAL LYS LEU ARG VAL THR GLU GLY SEQRES 8 B 164 TRP ASP GLU ASP GLY HIS HIS SER GLU GLU SER LEU HIS SEQRES 9 B 164 TYR GLU GLY ARG ALA VAL ASP ILE THR THR SER ASP ARG SEQRES 10 B 164 ASP ARG SER LYS TYR GLY MET LEU ALA ARG LEU ALA VAL SEQRES 11 B 164 GLU ALA GLY PHE ASP TRP VAL TYR TYR GLU SER LYS ALA SEQRES 12 B 164 HIS ILE HIS CYS SER VAL LYS ALA GLU ASN SER VAL ALA SEQRES 13 B 164 ALA LYS HIS HIS HIS HIS HIS HIS HET IDS C 1 17 HET SGN C 2 19 HET IDS C 3 16 HET SGN C 4 19 HET IDS C 5 16 HET SGN C 6 19 HET SGN D 1 20 HET IDS D 2 16 HET SGN D 3 19 HET IDS D 4 16 HET SGN D 5 19 HET IDS D 6 16 HET ZN A1191 1 HET CA A1192 1 HET CA A1193 1 HET ZN B1192 1 HET CA B1193 1 HET CA B1194 1 HET CL B1195 1 HETNAM IDS 2-O-SULFO-ALPHA-L-IDOPYRANURONIC ACID HETNAM SGN 2-DEOXY-6-O-SULFO-2-(SULFOAMINO)-ALPHA-D-GLUCOPYRANOSE HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETSYN IDS O2-SULFO-GLUCURONIC ACID FORMUL 3 IDS 6(C6 H10 O10 S) FORMUL 3 SGN 6(C6 H13 N O11 S2) FORMUL 5 ZN 2(ZN 2+) FORMUL 6 CA 4(CA 2+) FORMUL 11 CL CL 1- FORMUL 12 HOH *64(H2 O) HELIX 1 1 SER A 71 LEU A 77 5 7 HELIX 2 2 GLY A 94 ASP A 96 5 3 HELIX 3 3 THR A 100 TRP A 118 1 19 HELIX 4 4 SER A 139 GLY A 144 5 6 HELIX 5 5 ASP A 155 SER A 157 5 3 HELIX 6 6 LYS A 158 ALA A 169 1 12 HELIX 7 7 SER B 71 LEU B 77 5 7 HELIX 8 8 GLY B 94 ASP B 96 5 3 HELIX 9 9 THR B 100 TRP B 118 1 19 HELIX 10 10 SER B 139 GLY B 144 5 6 HELIX 11 11 ASP B 155 SER B 157 5 3 HELIX 12 12 LYS B 158 ALA B 169 1 12 SHEET 1 AA 6 PHE A 48 ILE A 49 0 SHEET 2 AA 6 TRP A 173 SER A 178 -1 O VAL A 174 N ILE A 49 SHEET 3 AA 6 HIS A 181 SER A 185 -1 O HIS A 181 N SER A 178 SHEET 4 AA 6 ALA A 146 THR A 151 -1 O VAL A 147 N CYS A 184 SHEET 5 AA 6 LEU A 123 GLU A 127 -1 O ARG A 124 N THR A 150 SHEET 6 AA 6 ILE A 85 PHE A 87 1 O ILE A 86 N VAL A 125 SHEET 1 AB 2 THR A 78 PRO A 79 0 SHEET 2 AB 2 LEU A 98 MET A 99 -1 O MET A 99 N THR A 78 SHEET 1 BA 6 PHE B 48 ILE B 49 0 SHEET 2 BA 6 TRP B 173 SER B 178 -1 O VAL B 174 N ILE B 49 SHEET 3 BA 6 HIS B 181 SER B 185 -1 O HIS B 181 N SER B 178 SHEET 4 BA 6 ALA B 146 THR B 151 -1 O VAL B 147 N CYS B 184 SHEET 5 BA 6 LEU B 123 GLU B 127 -1 O ARG B 124 N THR B 150 SHEET 6 BA 6 ILE B 85 PHE B 87 1 O ILE B 86 N VAL B 125 SHEET 1 BB 2 THR B 78 PRO B 79 0 SHEET 2 BB 2 LEU B 98 MET B 99 -1 O MET B 99 N THR B 78 LINK O4 AIDS C 1 C1 ASGN C 2 1555 1555 1.44 LINK O4 ASGN C 2 C1 AIDS C 3 1555 1555 1.44 LINK O4 AIDS C 3 C1 ASGN C 4 1555 1555 1.43 LINK O4 ASGN C 4 C1 AIDS C 5 1555 1555 1.45 LINK O4 AIDS C 5 C1 ASGN C 6 1555 1555 1.45 LINK O4 BSGN D 1 C1 BIDS D 2 1555 1555 1.45 LINK O4 BIDS D 2 C1 BSGN D 3 1555 1555 1.45 LINK O4 BSGN D 3 C1 BIDS D 4 1555 1555 1.44 LINK O4 BIDS D 4 C1 BSGN D 5 1555 1555 1.45 LINK O4 BSGN D 5 C1 BIDS D 6 1555 1555 1.43 LINK OE1 GLU A 90 CA CA A1193 1555 1555 2.48 LINK OE2 GLU A 90 CA CA A1193 1555 1555 2.58 LINK OE2 GLU A 91 CA CA A1192 1555 1555 2.35 LINK OE1 GLU A 91 CA CA A1193 1555 1555 2.69 LINK OE2 GLU A 91 CA CA A1193 1555 1555 2.52 LINK OD1 ASP A 96 CA CA A1193 1555 1555 2.68 LINK OD2 ASP A 96 CA CA A1193 1555 1555 2.24 LINK O THR A 126 CA CA A1193 1555 1555 2.23 LINK OE1 GLU A 127 CA CA A1192 1555 1555 2.42 LINK OE2 GLU A 127 CA CA A1192 1555 1555 2.60 LINK OE2 GLU A 127 CA CA A1193 1555 1555 2.32 LINK OD1 ASP A 130 CA CA A1192 1555 1555 2.24 LINK OD2 ASP A 132 CA CA A1192 1555 1555 2.65 LINK NE2 HIS A 141 ZN ZN A1191 1555 1555 2.16 LINK OD1 ASP A 148 ZN ZN A1191 1555 1555 1.77 LINK ND1 HIS A 183 ZN ZN A1191 1555 1555 2.11 LINK CA CA A1192 O HOH A2020 1555 1555 2.44 LINK OE1 GLU B 90 CA CA B1193 1555 1555 2.52 LINK OE2 GLU B 90 CA CA B1193 1555 1555 2.39 LINK OE2 GLU B 91 CA CA B1193 1555 1555 2.61 LINK OE1 GLU B 91 CA CA B1193 1555 1555 2.60 LINK OE2 GLU B 91 CA CA B1194 1555 1555 2.30 LINK OD1 ASP B 96 CA CA B1193 1555 1555 2.72 LINK OD2 ASP B 96 CA CA B1193 1555 1555 2.34 LINK O THR B 126 CA CA B1193 1555 1555 2.41 LINK OE2 GLU B 127 CA CA B1193 1555 1555 2.31 LINK OE2 GLU B 127 CA CA B1194 1555 1555 2.57 LINK OE1 GLU B 127 CA CA B1194 1555 1555 2.47 LINK OD1 ASP B 130 CA CA B1194 1555 1555 2.19 LINK OD2 ASP B 132 CA CA B1194 1555 1555 2.43 LINK NE2 HIS B 141 ZN ZN B1192 1555 1555 2.07 LINK OD1 ASP B 148 ZN ZN B1192 1555 1555 1.75 LINK ND1 HIS B 183 ZN ZN B1192 1555 1555 2.11 LINK ZN ZN B1192 O HOH B2024 1555 1555 2.29 LINK CA CA B1194 O HOH B2014 1555 1555 2.97 LINK CA CA B1194 O HOH B2015 1555 1555 2.47 LINK CA CA B1194 O HOH B2016 1555 1555 2.53 CISPEP 1 ILE A 49 PRO A 50 0 -3.00 CISPEP 2 ILE B 49 PRO B 50 0 -6.54 CRYST1 95.680 61.600 62.320 90.00 90.00 90.00 P 21 21 2 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 0.010452 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016234 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016046 0.00000 MTRIX1 1 0.963100 -0.248100 -0.104500 4.04500 1 MTRIX2 1 -0.257800 -0.961700 -0.092940 59.79000 1 MTRIX3 1 -0.077450 0.116500 -0.990200 -38.78000 1