HEADER SIGNALING PROTEIN 28-JUN-19 6PJV TITLE STRUCTURE OF HUMAN SONIC HEDGEHOG IN COMPLEX WITH ZINC AND MAGNESIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: SONIC HEDGEHOG PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SHH,HHG-1,SHH UNPROCESSED N-TERMINAL SIGNALING AND C- COMPND 5 TERMINAL AUTOPROCESSING DOMAINS,SHHNC; COMPND 6 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: SHH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET42-GST-TEV KEYWDS HEDGEHOG PROTEINS, SIGNALING, ZINC IONS, MAGNESIUM IONS, KEYWDS 2 AUTOCATALYTIC CLEAVAGE DEVELOPMENTAL, PROTEIN, HOLOPROSENCEPHALY, KEYWDS 3 SECRETED, SIGNALING PROTEIN, SONIC HEDGEHOG, SHH, SHH-N EXPDTA X-RAY DIFFRACTION AUTHOR R.B.BONN-BREACH,J.L.JENKINS,J.E.WEDEKIND REVDAT 4 11-OCT-23 6PJV 1 LINK REVDAT 3 18-DEC-19 6PJV 1 REMARK REVDAT 2 20-NOV-19 6PJV 1 JRNL REVDAT 1 13-NOV-19 6PJV 0 JRNL AUTH R.BONN-BREACH,Y.GU,J.JENKINS,R.FASAN,J.WEDEKIND JRNL TITL STRUCTURE OF SONIC HEDGEHOG PROTEIN IN COMPLEX WITH ZINC(II) JRNL TITL 2 AND MAGNESIUM(II) REVEALS ION-COORDINATION PLASTICITY JRNL TITL 3 RELEVANT TO PEPTIDE DRUG DESIGN. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 75 969 2019 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 31692471 JRNL DOI 10.1107/S2059798319012890 REMARK 2 REMARK 2 RESOLUTION. 1.43 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 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) : 1.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 51261 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.124 REMARK 3 R VALUE (WORKING SET) : 0.124 REMARK 3 FREE R VALUE : 0.139 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.480 REMARK 3 FREE R VALUE TEST SET COUNT : 2297 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 37.5000 - 3.6033 1.00 3185 152 0.1424 0.1416 REMARK 3 2 3.6033 - 2.8603 1.00 3110 145 0.1235 0.1564 REMARK 3 3 2.8603 - 2.4989 1.00 3083 139 0.1243 0.1493 REMARK 3 4 2.4989 - 2.2704 1.00 3067 147 0.1147 0.1202 REMARK 3 5 2.2704 - 2.1077 1.00 3061 142 0.1080 0.1223 REMARK 3 6 2.1077 - 1.9834 1.00 3064 146 0.1064 0.1163 REMARK 3 7 1.9834 - 1.8841 1.00 3042 142 0.1086 0.1015 REMARK 3 8 1.8841 - 1.8021 1.00 3056 141 0.1062 0.1215 REMARK 3 9 1.8021 - 1.7327 1.00 3067 146 0.1112 0.1274 REMARK 3 10 1.7327 - 1.6729 1.00 3039 144 0.1076 0.1356 REMARK 3 11 1.6729 - 1.6206 1.00 3051 140 0.1049 0.1467 REMARK 3 12 1.6206 - 1.5743 1.00 3017 143 0.1105 0.1287 REMARK 3 13 1.5743 - 1.5329 1.00 3040 142 0.1179 0.1423 REMARK 3 14 1.5329 - 1.4955 1.00 3037 145 0.1406 0.1716 REMARK 3 15 1.4955 - 1.4615 1.00 3006 144 0.1721 0.2074 REMARK 3 16 1.4615 - 1.4304 0.99 3039 139 0.2193 0.2692 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) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 11.670 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.68 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 : NULL 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 6PJV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-19. REMARK 100 THE DEPOSITION ID IS D_1000242659. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JAN-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS JANUARY 26, 2018 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.3 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51261 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.430 REMARK 200 RESOLUTION RANGE LOW (A) : 37.545 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 19.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 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: 1VHH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% (W/V) POLYETHYLENE GLYCOL 8000, REMARK 280 0.10 M TRIS PH 7.0, AND 0.24 M MGCL2, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 3 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 15555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 16555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z+1/2,-X+1/2,-Y+1/2 REMARK 290 19555 -Z+1/2,-X+1/2,Y+1/2 REMARK 290 20555 -Z+1/2,X+1/2,-Y+1/2 REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z+1/2,-X+1/2 REMARK 290 23555 Y+1/2,-Z+1/2,-X+1/2 REMARK 290 24555 -Y+1/2,-Z+1/2,X+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 59.36400 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 59.36400 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 59.36400 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 59.36400 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 59.36400 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 59.36400 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 59.36400 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 59.36400 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 59.36400 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 59.36400 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 59.36400 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 59.36400 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 59.36400 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 59.36400 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 59.36400 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 59.36400 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 59.36400 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 59.36400 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 59.36400 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 59.36400 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 59.36400 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 59.36400 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 59.36400 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 59.36400 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 59.36400 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 59.36400 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 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 GLY A 29 REMARK 465 PHE A 30 REMARK 465 GLY A 31 REMARK 465 LYS A 32 REMARK 465 ARG A 33 REMARK 465 ARG A 34 REMARK 465 HIS A 35 REMARK 465 PRO A 36 REMARK 465 LYS A 37 REMARK 465 LYS A 38 REMARK 465 VAL A 191 REMARK 465 ALA A 192 REMARK 465 ALA A 193 REMARK 465 LYS A 194 REMARK 465 SER A 195 REMARK 465 GLY A 196 REMARK 465 GLY A 197 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 O HOH A 441 O HOH A 454 2.01 REMARK 500 O HOH A 392 O HOH A 486 2.12 REMARK 500 O HOH A 462 O HOH A 470 2.16 REMARK 500 O HOH A 497 O HOH A 511 2.19 REMARK 500 OE1 GLU A 137 O HOH A 301 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 460 O HOH A 493 20455 2.17 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 ALA A 58 -122.50 -108.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 551 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A 552 DISTANCE = 6.85 ANGSTROMS 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 MG A 205 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 90 OE2 REMARK 620 2 GLU A 126 OE1 175.3 REMARK 620 3 HOH A 307 O 92.7 91.4 REMARK 620 4 HOH A 309 O 88.3 89.5 87.1 REMARK 620 5 HOH A 315 O 92.9 89.3 92.6 178.8 REMARK 620 6 HOH A 386 O 89.0 86.8 176.1 89.4 90.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 206 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 140 NE2 REMARK 620 2 ASP A 147 OD1 92.0 REMARK 620 3 GLU A 176 OE1 175.3 92.7 REMARK 620 4 HIS A 182 ND1 89.1 99.5 90.5 REMARK 620 5 HOH A 313 O 91.8 91.2 87.7 169.2 REMARK 620 6 HOH A 319 O 89.6 175.5 85.6 84.7 84.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 207 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 140 NE2 REMARK 620 2 ASP A 147 OD1 91.6 REMARK 620 3 GLU A 176 OE1 175.3 93.1 REMARK 620 4 HIS A 182 ND1 88.6 99.3 90.8 REMARK 620 5 HOH A 313 O 91.5 91.3 88.2 169.4 REMARK 620 6 HOH A 319 O 89.3 175.9 86.0 84.7 84.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 209 DBREF 6PJV A 29 197 UNP Q15465 SHH_HUMAN 29 197 SEQRES 1 A 169 GLY PHE GLY LYS ARG ARG HIS PRO LYS LYS LEU THR PRO SEQRES 2 A 169 LEU ALA TYR LYS GLN PHE ILE PRO ASN VAL ALA GLU LYS SEQRES 3 A 169 THR LEU GLY ALA SER GLY ARG TYR GLU GLY LYS ILE SER SEQRES 4 A 169 ARG ASN SER GLU ARG PHE LYS GLU LEU THR PRO ASN TYR SEQRES 5 A 169 ASN PRO ASP ILE ILE PHE LYS ASP GLU GLU ASN THR GLY SEQRES 6 A 169 ALA ASP ARG LEU MET THR GLN ARG CYS LYS ASP LYS LEU SEQRES 7 A 169 ASN ALA LEU ALA ILE SER VAL MET ASN GLN TRP PRO GLY SEQRES 8 A 169 VAL LYS LEU ARG VAL THR GLU GLY TRP ASP GLU ASP GLY SEQRES 9 A 169 HIS HIS SER GLU GLU SER LEU HIS TYR GLU GLY ARG ALA SEQRES 10 A 169 VAL ASP ILE THR THR SER ASP ARG ASP ARG SER LYS TYR SEQRES 11 A 169 GLY MET LEU ALA ARG LEU ALA VAL GLU ALA GLY PHE ASP SEQRES 12 A 169 TRP VAL TYR TYR GLU SER LYS ALA HIS ILE HIS CYS SER SEQRES 13 A 169 VAL LYS ALA GLU ASN SER VAL ALA ALA LYS SER GLY GLY HET DMS A 201 10 HET DMS A 202 10 HET DMS A 203 10 HET GOL A 204 14 HET MG A 205 1 HET ZN A 206 1 HET MG A 207 1 HET CL A 208 1 HET CL A 209 1 HETNAM DMS DIMETHYL SULFOXIDE HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 DMS 3(C2 H6 O S) FORMUL 5 GOL C3 H8 O3 FORMUL 6 MG 2(MG 2+) FORMUL 7 ZN ZN 2+ FORMUL 9 CL 2(CL 1-) FORMUL 11 HOH *252(H2 O) HELIX 1 AA1 SER A 70 GLU A 75 1 6 HELIX 2 AA2 GLY A 93 ASP A 95 5 3 HELIX 3 AA3 THR A 99 TRP A 117 1 19 HELIX 4 AA4 SER A 138 GLU A 142 5 5 HELIX 5 AA5 ASP A 154 SER A 156 5 3 HELIX 6 AA6 LYS A 157 ALA A 168 1 12 SHEET 1 AA1 6 PHE A 47 ILE A 48 0 SHEET 2 AA1 6 TRP A 172 SER A 177 -1 O VAL A 173 N ILE A 48 SHEET 3 AA1 6 HIS A 180 SER A 184 -1 O HIS A 182 N TYR A 174 SHEET 4 AA1 6 ALA A 145 THR A 150 -1 N VAL A 146 O CYS A 183 SHEET 5 AA1 6 LEU A 122 GLU A 126 -1 N GLU A 126 O ASP A 147 SHEET 6 AA1 6 ILE A 84 PHE A 86 1 N ILE A 85 O VAL A 124 SHEET 1 AA2 2 THR A 77 PRO A 78 0 SHEET 2 AA2 2 LEU A 97 MET A 98 -1 O MET A 98 N THR A 77 LINK OE2 GLU A 90 MG MG A 205 1555 1555 2.07 LINK OE1 GLU A 126 MG MG A 205 1555 1555 2.03 LINK NE2 HIS A 140 ZN A ZN A 206 1555 1555 2.24 LINK NE2 HIS A 140 MG B MG A 207 1555 1555 2.26 LINK OD1 ASP A 147 ZN A ZN A 206 1555 1555 2.09 LINK OD1 ASP A 147 MG B MG A 207 1555 1555 2.09 LINK OE1 GLU A 176 ZN A ZN A 206 1555 1555 2.17 LINK OE1 GLU A 176 MG B MG A 207 1555 1555 2.15 LINK ND1 HIS A 182 ZN A ZN A 206 1555 1555 2.26 LINK ND1 HIS A 182 MG B MG A 207 1555 1555 2.26 LINK MG MG A 205 O HOH A 307 1555 1555 2.02 LINK MG MG A 205 O HOH A 309 1555 1555 2.09 LINK MG MG A 205 O HOH A 315 1555 1555 2.04 LINK MG MG A 205 O HOH A 386 1555 1555 2.12 LINK ZN A ZN A 206 O HOH A 313 1555 1555 2.08 LINK ZN A ZN A 206 O HOH A 319 1555 1555 2.17 LINK MG B MG A 207 O HOH A 313 1555 1555 2.07 LINK MG B MG A 207 O HOH A 319 1555 1555 2.17 CISPEP 1 ILE A 48 PRO A 49 0 -3.93 CISPEP 2 ILE A 48 PRO A 49 0 -3.11 SITE 1 AC1 6 GLN A 46 ASN A 50 PRO A 78 TYR A 80 SITE 2 AC1 6 GLY A 93 HOH A 428 SITE 1 AC2 4 GLU A 53 GLU A 176 HOH A 347 HOH A 424 SITE 1 AC3 2 PHE A 47 HOH A 424 SITE 1 AC4 6 GLN A 116 TRP A 117 MET A 160 HOH A 302 SITE 2 AC4 6 HOH A 303 HOH A 421 SITE 1 AC5 6 GLU A 90 GLU A 126 HOH A 307 HOH A 309 SITE 2 AC5 6 HOH A 315 HOH A 386 SITE 1 AC6 6 HIS A 140 ASP A 147 GLU A 176 HIS A 182 SITE 2 AC6 6 HOH A 313 HOH A 319 SITE 1 AC7 6 HIS A 140 ASP A 147 GLU A 176 HIS A 182 SITE 2 AC7 6 HOH A 313 HOH A 319 SITE 1 AC8 3 ASN A 81 ASN A 107 HOH A 525 SITE 1 AC9 4 LYS A 87 ARG A 123 HOH A 468 HOH A 495 CRYST1 118.728 118.728 118.728 90.00 90.00 90.00 I 2 3 24 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 0.008423 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008423 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008423 0.00000