HEADER OXIDOREDUCTASE 12-AUG-22 5SSY TITLE CRYSTAL STRUCTURE OF HUMAN FORMYLGLYCINE GENERATING ENZYME COMPND MOL_ID: 1; COMPND 2 MOLECULE: FORMYLGLYCINE-GENERATING ENZYME; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FGE,C-ALPHA-FORMYLGLYCINE-GENERATING ENZYME 1,SULFATASE- COMPND 5 MODIFYING FACTOR 1; COMPND 6 EC: 1.8.3.7; COMPND 7 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: SUMF1, PSEC0152, UNQ3037/PRO9852; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_COMMON: CABBAGE LOOPER; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HI5; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PACGP67B-HIS7 KEYWDS FORMYLGLYCINE, MULTIPLE SULFATASE DEFICIENCY, COPPER, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR K.RADHAKRISHNAN,L.SCHLOTAWA,M.G.RUDOLPH REVDAT 2 13-SEP-23 5SSY 1 REMARK REVDAT 1 23-AUG-23 5SSY 0 JRNL AUTH J.KOWAL,L.SCHLOTAWA,M.G.RUDOLPH,H.NIEMANN JRNL TITL CRYSTAL STRUCTURE OF HUMAN FORMYLGLYCINE GENERATING ENZYME JRNL TITL 2 IN COMPLEX WITH N-ACETYL-CYSTEINE METHYLESTER JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.29 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.2 REMARK 3 NUMBER OF REFLECTIONS : 129503 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) : 0.212 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 6595 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 54.8600 - 3.9900 1.00 4591 227 0.1462 0.1633 REMARK 3 2 3.9900 - 3.1700 0.99 4516 271 0.1582 0.1682 REMARK 3 3 3.1700 - 2.7700 1.00 4583 261 0.1716 0.2110 REMARK 3 4 2.7700 - 2.5200 1.00 4585 209 0.1886 0.1885 REMARK 3 5 2.5200 - 2.3400 1.00 4595 250 0.1824 0.2166 REMARK 3 6 2.3400 - 2.2000 0.95 4387 236 0.2520 0.2632 REMARK 3 7 2.2000 - 2.0900 0.99 4550 228 0.1700 0.2295 REMARK 3 8 2.0900 - 2.0000 0.97 4430 266 0.2523 0.3540 REMARK 3 9 2.0000 - 1.9200 0.95 4380 220 0.2377 0.2315 REMARK 3 10 1.9200 - 1.8500 0.95 4368 236 0.3216 0.3476 REMARK 3 11 1.8500 - 1.8000 1.00 4501 262 0.1762 0.1801 REMARK 3 12 1.8000 - 1.7400 1.00 4601 266 0.1746 0.2100 REMARK 3 13 1.7400 - 1.7000 1.00 4592 266 0.1916 0.2214 REMARK 3 14 1.7000 - 1.6600 1.00 4607 213 0.1745 0.2063 REMARK 3 15 1.6600 - 1.6200 1.00 4621 222 0.1813 0.2155 REMARK 3 16 1.6200 - 1.5900 1.00 4615 228 0.1807 0.2075 REMARK 3 17 1.5900 - 1.5500 1.00 4575 235 0.1887 0.2067 REMARK 3 18 1.5500 - 1.5200 0.99 4569 222 0.2584 0.3085 REMARK 3 19 1.5200 - 1.5000 0.98 4456 267 0.3550 0.4013 REMARK 3 20 1.5000 - 1.4700 0.99 4602 199 0.2983 0.2845 REMARK 3 21 1.4700 - 1.4500 1.00 4590 223 0.3416 0.3358 REMARK 3 22 1.4500 - 1.4300 0.99 4547 270 0.3488 0.3430 REMARK 3 23 1.4300 - 1.4000 1.00 4509 300 0.2560 0.2372 REMARK 3 24 1.4000 - 1.3800 0.99 4637 224 0.2595 0.2733 REMARK 3 25 1.3800 - 1.3700 0.89 4010 231 0.4490 0.5011 REMARK 3 26 1.3700 - 1.3500 0.80 3691 203 0.3577 0.3861 REMARK 3 27 1.3500 - 1.3300 0.61 2801 186 0.2917 0.2810 REMARK 3 28 1.3300 - 1.3200 0.41 1856 105 0.2908 0.3394 REMARK 3 29 1.3200 - 1.3000 0.24 1113 46 0.3964 0.3749 REMARK 3 30 1.3000 - 1.2900 0.09 430 23 0.5126 0.6395 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 1.00 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.760 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.36 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 : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 87 THROUGH 127 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.1056 80.3008 13.1323 REMARK 3 T TENSOR REMARK 3 T11: 0.1210 T22: 0.0762 REMARK 3 T33: 0.0813 T12: -0.0074 REMARK 3 T13: 0.0055 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.4626 L22: 0.3997 REMARK 3 L33: 0.3193 L12: -0.0083 REMARK 3 L13: 0.2709 L23: 0.2609 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: 0.0555 S13: 0.0275 REMARK 3 S21: -0.1422 S22: 0.0146 S23: -0.0188 REMARK 3 S31: -0.0987 S32: 0.1085 S33: -0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 128 THROUGH 179 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.7878 59.3651 21.0008 REMARK 3 T TENSOR REMARK 3 T11: 0.0683 T22: 0.0800 REMARK 3 T33: 0.0846 T12: -0.0063 REMARK 3 T13: 0.0035 T23: -0.0067 REMARK 3 L TENSOR REMARK 3 L11: 0.4863 L22: 0.4056 REMARK 3 L33: 0.2400 L12: 0.1314 REMARK 3 L13: 0.1828 L23: -0.1556 REMARK 3 S TENSOR REMARK 3 S11: -0.0410 S12: 0.0241 S13: -0.0920 REMARK 3 S21: -0.0124 S22: 0.0383 S23: 0.0672 REMARK 3 S31: 0.0751 S32: 0.0158 S33: -0.0015 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND ((RESID 180 THROUGH 309 ) OR (RESID REMARK 3 500)) REMARK 3 ORIGIN FOR THE GROUP (A): 17.6416 66.3486 19.3597 REMARK 3 T TENSOR REMARK 3 T11: 0.0506 T22: 0.0457 REMARK 3 T33: 0.0372 T12: 0.0016 REMARK 3 T13: -0.0014 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 0.7555 L22: 0.6268 REMARK 3 L33: 0.3856 L12: -0.0497 REMARK 3 L13: -0.0237 L23: -0.0366 REMARK 3 S TENSOR REMARK 3 S11: -0.0019 S12: 0.0262 S13: -0.0492 REMARK 3 S21: -0.0074 S22: 0.0066 S23: -0.0341 REMARK 3 S31: 0.0164 S32: 0.0055 S33: 0.0005 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND ((RESID 310 THROUGH 349 ) OR (NAME REMARK 3 CU)) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7287 72.2055 7.8031 REMARK 3 T TENSOR REMARK 3 T11: 0.1262 T22: 0.1033 REMARK 3 T33: 0.0712 T12: -0.0015 REMARK 3 T13: -0.0112 T23: -0.0022 REMARK 3 L TENSOR REMARK 3 L11: 0.5311 L22: 0.1406 REMARK 3 L33: 0.5273 L12: 0.1509 REMARK 3 L13: 0.0180 L23: 0.0617 REMARK 3 S TENSOR REMARK 3 S11: -0.0051 S12: 0.1329 S13: 0.0697 REMARK 3 S21: -0.2263 S22: -0.0202 S23: -0.0539 REMARK 3 S31: -0.0655 S32: 0.0872 S33: -0.0003 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 350 THROUGH 375 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.2713 72.1272 20.7751 REMARK 3 T TENSOR REMARK 3 T11: 0.0701 T22: 0.0794 REMARK 3 T33: 0.0887 T12: 0.0176 REMARK 3 T13: 0.0028 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 0.5382 L22: 0.6738 REMARK 3 L33: 0.2472 L12: 0.0657 REMARK 3 L13: 0.1539 L23: -0.2204 REMARK 3 S TENSOR REMARK 3 S11: -0.0306 S12: -0.0339 S13: 0.0372 REMARK 3 S21: 0.0309 S22: -0.0269 S23: 0.1668 REMARK 3 S31: -0.0606 S32: -0.1223 S33: -0.0307 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 5SSY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-AUG-22. REMARK 100 THE DEPOSITION ID IS D_1001404925. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-17 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 : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 87450 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.200 REMARK 200 RESOLUTION RANGE LOW (A) : 54.860 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 200 DATA REDUNDANCY : 5.247 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 60.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.88 REMARK 200 R MERGE FOR SHELL (I) : 1.26600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.530 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: INHOUSE MODEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 9.6 MG/ML PROTEIN IN 20MM TRIS/HCL REMARK 280 PH8.0 MIXED 1:1 WITH RESERVOIR 0.1M TRIS/HCL PH 8.5, 20-25% REMARK 280 PEG4000, 0.2-0.3M CACL2, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+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 30.86550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.85950 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.86550 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 54.85950 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 777 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 828 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ALA A 64 REMARK 465 ASP A 65 REMARK 465 LEU A 66 REMARK 465 GLY A 67 REMARK 465 SER A 68 REMARK 465 SER A 69 REMARK 465 MET A 70 REMARK 465 GLU A 71 REMARK 465 PHE A 72 REMARK 465 GLU A 73 REMARK 465 ALA A 74 REMARK 465 ASN A 75 REMARK 465 ALA A 76 REMARK 465 PRO A 77 REMARK 465 GLY A 78 REMARK 465 PRO A 79 REMARK 465 VAL A 80 REMARK 465 PRO A 81 REMARK 465 GLY A 82 REMARK 465 GLU A 83 REMARK 465 ARG A 84 REMARK 465 GLN A 85 REMARK 465 LEU A 86 REMARK 465 SER A 163 REMARK 465 GLU A 164 REMARK 465 GLN A 165 REMARK 465 VAL A 166 REMARK 465 LYS A 167 REMARK 465 THR A 168 REMARK 465 ASN A 169 REMARK 465 ILE A 170 REMARK 465 GLN A 171 REMARK 465 GLN A 172 REMARK 465 ALA A 173 REMARK 465 VAL A 174 REMARK 465 GLY A 376 REMARK 465 ARG A 377 REMARK 465 GLY A 378 REMARK 465 SER A 379 REMARK 465 HIS A 380 REMARK 465 HIS A 381 REMARK 465 HIS A 382 REMARK 465 HIS A 383 REMARK 465 HIS A 384 REMARK 465 HIS A 385 REMARK 465 HIS A 386 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 673 O HOH A 753 2.15 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 517 O HOH A 588 1655 2.11 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 LYS A 223 -160.98 -129.00 REMARK 500 ILE A 260 -162.48 -128.82 REMARK 500 PHE A 284 166.53 71.35 REMARK 500 ASN A 297 -104.92 67.91 REMARK 500 HIS A 310 -124.47 -101.53 REMARK 500 SER A 311 151.46 174.65 REMARK 500 TYR A 340 -21.85 -147.43 REMARK 500 CYS A 341 87.29 -150.50 REMARK 500 TYR A 342 59.64 -95.03 REMARK 500 TYR A 344 36.35 -90.02 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 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 130 OE2 REMARK 620 2 ASN A 293 O 92.9 REMARK 620 3 GLY A 296 O 92.9 87.9 REMARK 620 4 ALA A 298 O 85.4 174.0 86.4 REMARK 620 5 GLU A 300 OE2 95.9 81.5 166.6 104.4 REMARK 620 6 HOH A 597 O 160.3 106.6 85.3 74.9 89.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 259 OD1 REMARK 620 2 ILE A 260 O 99.7 REMARK 620 3 ASP A 273 OD1 94.6 123.4 REMARK 620 4 ASP A 273 OD2 87.5 72.7 53.4 REMARK 620 5 PHE A 275 O 90.1 154.4 78.8 131.7 REMARK 620 6 HOH A 556 O 174.7 84.1 86.3 97.2 85.0 REMARK 620 7 HOH A 590 O 90.0 74.6 160.1 146.3 81.8 87.4 REMARK 620 N 1 2 3 4 5 6 DBREF 5SSY A 73 374 UNP Q8NBK3 SUMF1_HUMAN 73 374 SEQADV 5SSY ALA A 64 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY ASP A 65 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY LEU A 66 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY GLY A 67 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY SER A 68 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY SER A 69 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY MET A 70 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY GLU A 71 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY PHE A 72 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY SER A 375 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY GLY A 376 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY ARG A 377 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY GLY A 378 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY SER A 379 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY HIS A 380 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY HIS A 381 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY HIS A 382 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY HIS A 383 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY HIS A 384 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY HIS A 385 UNP Q8NBK3 EXPRESSION TAG SEQADV 5SSY HIS A 386 UNP Q8NBK3 EXPRESSION TAG SEQRES 1 A 323 ALA ASP LEU GLY SER SER MET GLU PHE GLU ALA ASN ALA SEQRES 2 A 323 PRO GLY PRO VAL PRO GLY GLU ARG GLN LEU ALA HIS SER SEQRES 3 A 323 LYS MET VAL PRO ILE PRO ALA GLY VAL PHE THR MET GLY SEQRES 4 A 323 THR ASP ASP PRO GLN ILE LYS GLN ASP GLY GLU ALA PRO SEQRES 5 A 323 ALA ARG ARG VAL THR ILE ASP ALA PHE TYR MET ASP ALA SEQRES 6 A 323 TYR GLU VAL SER ASN THR GLU PHE GLU LYS PHE VAL ASN SEQRES 7 A 323 SER THR GLY TYR LEU THR GLU ALA GLU LYS PHE GLY ASP SEQRES 8 A 323 SER PHE VAL PHE GLU GLY MET LEU SER GLU GLN VAL LYS SEQRES 9 A 323 THR ASN ILE GLN GLN ALA VAL ALA ALA ALA PRO TRP TRP SEQRES 10 A 323 LEU PRO VAL LYS GLY ALA ASN TRP ARG HIS PRO GLU GLY SEQRES 11 A 323 PRO ASP SER THR ILE LEU HIS ARG PRO ASP HIS PRO VAL SEQRES 12 A 323 LEU HIS VAL SER TRP ASN ASP ALA VAL ALA TYR CYS THR SEQRES 13 A 323 TRP ALA GLY LYS ARG LEU PRO THR GLU ALA GLU TRP GLU SEQRES 14 A 323 TYR SER CYS ARG GLY GLY LEU HIS ASN ARG LEU PHE PRO SEQRES 15 A 323 TRP GLY ASN LYS LEU GLN PRO LYS GLY GLN HIS TYR ALA SEQRES 16 A 323 ASN ILE TRP GLN GLY GLU PHE PRO VAL THR ASN THR GLY SEQRES 17 A 323 GLU ASP GLY PHE GLN GLY THR ALA PRO VAL ASP ALA PHE SEQRES 18 A 323 PRO PRO ASN GLY TYR GLY LEU TYR ASN ILE VAL GLY ASN SEQRES 19 A 323 ALA TRP GLU TRP THR SER ASP TRP TRP THR VAL HIS HIS SEQRES 20 A 323 SER VAL GLU GLU THR LEU ASN PRO LYS GLY PRO PRO SER SEQRES 21 A 323 GLY LYS ASP ARG VAL LYS LYS GLY GLY SER TYR MET CYS SEQRES 22 A 323 HIS ARG SER TYR CYS TYR ARG TYR ARG CYS ALA ALA ARG SEQRES 23 A 323 SER GLN ASN THR PRO ASP SER SER ALA SER ASN LEU GLY SEQRES 24 A 323 PHE ARG CYS ALA ALA ASP ARG LEU PRO THR MET ASP SER SEQRES 25 A 323 GLY ARG GLY SER HIS HIS HIS HIS HIS HIS HIS HET CU1 A 401 1 HET NAG A 402 14 HET CA A 403 1 HET CA A 404 1 HET UG6 A 405 22 HETNAM CU1 COPPER (I) ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CA CALCIUM ION HETNAM UG6 METHYL N-ACETYL-L-CYSTEINATE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 2 CU1 CU 1+ FORMUL 3 NAG C8 H15 N O6 FORMUL 4 CA 2(CA 2+) FORMUL 6 UG6 C6 H11 N O3 S FORMUL 7 HOH *357(H2 O) HELIX 1 AA1 ILE A 108 GLY A 112 5 5 HELIX 2 AA2 SER A 132 GLY A 144 1 13 HELIX 3 AA3 THR A 147 GLY A 153 1 7 HELIX 4 AA4 GLY A 160 LEU A 162 5 3 HELIX 5 AA5 SER A 210 ALA A 221 1 12 HELIX 6 AA6 THR A 227 GLY A 237 1 11 HELIX 7 AA7 GLN A 251 GLN A 255 5 5 SHEET 1 AA1 3 MET A 91 ILE A 94 0 SHEET 2 AA1 3 PHE A 124 ASP A 127 -1 O PHE A 124 N ILE A 94 SHEET 3 AA1 3 ALA A 366 ALA A 367 -1 O ALA A 367 N TYR A 125 SHEET 1 AA2 3 GLY A 97 MET A 101 0 SHEET 2 AA2 3 ARG A 117 ILE A 121 -1 O VAL A 119 N PHE A 99 SHEET 3 AA2 3 THR A 315 LEU A 316 1 O THR A 315 N THR A 120 SHEET 1 AA3 2 ASP A 154 PHE A 158 0 SHEET 2 AA3 2 TRP A 180 LYS A 184 -1 O VAL A 183 N SER A 155 SHEET 1 AA4 4 SER A 350 ASN A 352 0 SHEET 2 AA4 4 ARG A 327 LYS A 330 -1 N ARG A 327 O ASN A 352 SHEET 3 AA4 4 TRP A 299 TRP A 305 -1 N ASP A 304 O VAL A 328 SHEET 4 AA4 4 LEU A 361 GLY A 362 1 O GLY A 362 N TRP A 299 SSBOND 1 CYS A 218 CYS A 365 1555 1555 2.05 SSBOND 2 CYS A 235 CYS A 346 1555 1555 2.06 LINK ND2 ASN A 141 C1 NAG A 402 1555 1555 1.44 LINK OE2 GLU A 130 CA CA A 403 1555 1555 2.35 LINK OD1 ASN A 259 CA CA A 404 1555 1555 2.39 LINK O ILE A 260 CA CA A 404 1555 1555 2.34 LINK OD1 ASP A 273 CA CA A 404 1555 1555 2.44 LINK OD2 ASP A 273 CA CA A 404 1555 1555 2.46 LINK O PHE A 275 CA CA A 404 1555 1555 2.30 LINK O ASN A 293 CA CA A 403 1555 1555 2.36 LINK O GLY A 296 CA CA A 403 1555 1555 2.42 LINK O ALA A 298 CA CA A 403 1555 1555 2.34 LINK OE2 GLU A 300 CA CA A 403 1555 1555 2.33 LINK SG CYS A 341 CU CU1 A 401 1555 1555 2.18 LINK CA CA A 403 O HOH A 597 1555 1555 2.38 LINK CA CA A 404 O HOH A 556 1555 1555 2.36 LINK CA CA A 404 O HOH A 590 1555 1555 2.43 CISPEP 1 ALA A 114 PRO A 115 0 -2.02 CISPEP 2 PHE A 265 PRO A 266 0 5.26 CRYST1 43.475 61.731 109.719 90.00 90.00 90.00 P 2 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 0.023002 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016199 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009114 0.00000