PDB Short entry for 5JZA HEADER OXIDOREDUCTASE 16-MAY-16 5JZA TITLE ASPARTYL/ASPARAGINYL BETA-HYDROXYLASE (ASPH)OXYGENASE AND TPR DOMAINS TITLE 2 IN COMPLEX WITH MANGANESE AND N-OXALYLGLYCINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTYL/ASPARAGINYL BETA-HYDROXYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ASPARTATE BETA-HYDROXYLASE,ASP BETA-HYDROXYLASE,PEPTIDE- COMPND 5 ASPARTATE BETA-DIOXYGENASE; COMPND 6 EC: 1.14.11.16; 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: ASPH, BAH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-28A(+) KEYWDS 2-OXOGLUTARATE DEPENDENT OXYGENASE, ASPARTYL/ASPARAGINYL BETA- KEYWDS 2 HYDROXYLASE, EGF-LIKE DOMAIN HYDROXYLASE, DOUBLE STRANDED BETA- KEYWDS 3 HELIX, TETRATRICOPEPTIDE REPEAT, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.A.MCDONOUGH,I.PFEFFER REVDAT 3 10-JAN-24 5JZA 1 LINK REVDAT 2 06-NOV-19 5JZA 1 JRNL REVDAT 1 24-MAY-17 5JZA 0 JRNL AUTH I.PFEFFER,L.BREWITZ,T.KROJER,S.A.JENSEN,G.T.KOCHAN, JRNL AUTH 2 N.J.KERSHAW,K.S.HEWITSON,L.A.MCNEILL,H.KRAMER,M.MUNZEL, JRNL AUTH 3 R.J.HOPKINSON,U.OPPERMANN,P.A.HANDFORD,M.A.MCDONOUGH, JRNL AUTH 4 C.J.SCHOFIELD JRNL TITL ASPARTATE/ASPARAGINE-BETA-HYDROXYLASE CRYSTAL STRUCTURES JRNL TITL 2 REVEAL AN UNEXPECTED EPIDERMAL GROWTH FACTOR-LIKE DOMAIN JRNL TITL 3 SUBSTRATE DISULFIDE PATTERN. JRNL REF NAT COMMUN V. 10 4910 2019 JRNL REFN ESSN 2041-1723 JRNL PMID 31659163 JRNL DOI 10.1038/S41467-019-12711-7 REMARK 2 REMARK 2 RESOLUTION. 2.14 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 85.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 33179 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.050 REMARK 3 FREE R VALUE TEST SET COUNT : 3748 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 85.2776 - 6.4192 0.99 2146 142 0.1713 0.2054 REMARK 3 2 6.4192 - 5.0953 0.99 2151 138 0.1765 0.1919 REMARK 3 3 5.0953 - 4.4512 0.99 2127 128 0.1440 0.1401 REMARK 3 4 4.4512 - 4.0443 0.99 2150 140 0.1376 0.1589 REMARK 3 5 4.0443 - 3.7544 0.99 2146 140 0.1459 0.1642 REMARK 3 6 3.7544 - 3.5330 0.99 2150 135 0.1631 0.1528 REMARK 3 7 3.5330 - 3.3561 0.99 2183 142 0.1750 0.1854 REMARK 3 8 3.3561 - 3.2100 0.99 2166 139 0.1737 0.2115 REMARK 3 9 3.2100 - 3.0864 0.99 2133 138 0.1834 0.2112 REMARK 3 10 3.0864 - 2.9799 1.00 2146 141 0.1824 0.2037 REMARK 3 11 2.9799 - 2.8867 0.99 2159 138 0.1830 0.2695 REMARK 3 12 2.8867 - 2.8042 0.99 2152 135 0.2007 0.2655 REMARK 3 13 2.8042 - 2.7304 1.00 2159 141 0.1890 0.2089 REMARK 3 14 2.7304 - 2.6638 0.99 2181 138 0.1886 0.2090 REMARK 3 15 2.6638 - 2.6032 0.99 2115 138 0.1904 0.2181 REMARK 3 16 2.6032 - 2.5478 0.99 2190 142 0.2044 0.2524 REMARK 3 17 2.5478 - 2.4968 1.00 2157 136 0.1959 0.2194 REMARK 3 18 2.4968 - 2.4497 0.99 2152 138 0.1931 0.2143 REMARK 3 19 2.4497 - 2.4060 1.00 2193 144 0.2070 0.2177 REMARK 3 20 2.4060 - 2.3652 0.99 2120 141 0.2163 0.2606 REMARK 3 21 2.3652 - 2.3270 0.99 2154 146 0.2139 0.2460 REMARK 3 22 2.3270 - 2.2912 0.99 2171 138 0.2214 0.2605 REMARK 3 23 2.2912 - 2.2575 1.00 2154 138 0.2355 0.2762 REMARK 3 24 2.2575 - 2.2257 0.99 2164 140 0.2466 0.2639 REMARK 3 25 2.2257 - 2.1956 0.99 2109 134 0.2514 0.2652 REMARK 3 26 2.1956 - 2.1671 1.00 2214 139 0.2647 0.2783 REMARK 3 27 2.1671 - 2.1400 1.00 2148 139 0.2590 0.2986 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.070 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.25 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 3574 REMARK 3 ANGLE : 0.706 4818 REMARK 3 CHIRALITY : 0.033 502 REMARK 3 PLANARITY : 0.004 625 REMARK 3 DIHEDRAL : 15.145 2154 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 330 THROUGH 374 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.4960 8.3776 -72.0983 REMARK 3 T TENSOR REMARK 3 T11: 1.8109 T22: 1.7187 REMARK 3 T33: 1.0962 T12: 0.2448 REMARK 3 T13: 0.4651 T23: -0.1052 REMARK 3 L TENSOR REMARK 3 L11: 2.4408 L22: 3.9523 REMARK 3 L33: 1.5214 L12: 0.1609 REMARK 3 L13: 1.2425 L23: -0.2396 REMARK 3 S TENSOR REMARK 3 S11: 0.2632 S12: 1.0613 S13: 0.3749 REMARK 3 S21: -1.3995 S22: 0.1431 S23: -0.8189 REMARK 3 S31: -0.7091 S32: 0.1433 S33: -0.6763 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 375 THROUGH 410 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.5765 14.5818 -59.8962 REMARK 3 T TENSOR REMARK 3 T11: 1.0777 T22: 0.9020 REMARK 3 T33: 1.0064 T12: 0.1243 REMARK 3 T13: 0.4321 T23: 0.1364 REMARK 3 L TENSOR REMARK 3 L11: 8.6391 L22: 5.8978 REMARK 3 L33: 5.7209 L12: 0.3183 REMARK 3 L13: 1.0791 L23: -0.6277 REMARK 3 S TENSOR REMARK 3 S11: 0.0826 S12: 1.6576 S13: 0.6435 REMARK 3 S21: -1.2675 S22: -0.2159 S23: -1.2266 REMARK 3 S31: 0.2564 S32: 1.0575 S33: -0.0522 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 411 THROUGH 538 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.2175 2.1341 -42.5452 REMARK 3 T TENSOR REMARK 3 T11: 0.5774 T22: 0.3207 REMARK 3 T33: 0.4330 T12: 0.0220 REMARK 3 T13: -0.0075 T23: -0.0825 REMARK 3 L TENSOR REMARK 3 L11: 2.0910 L22: 4.0843 REMARK 3 L33: 2.1837 L12: 0.0492 REMARK 3 L13: 0.3108 L23: -2.0532 REMARK 3 S TENSOR REMARK 3 S11: 0.0433 S12: 0.1941 S13: 0.1063 REMARK 3 S21: -0.7342 S22: 0.0159 S23: 0.0823 REMARK 3 S31: 0.2205 S32: -0.1855 S33: -0.0409 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 539 THROUGH 616 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7857 5.7846 -16.2948 REMARK 3 T TENSOR REMARK 3 T11: 0.3234 T22: 0.3706 REMARK 3 T33: 0.2942 T12: 0.0323 REMARK 3 T13: 0.0120 T23: -0.0500 REMARK 3 L TENSOR REMARK 3 L11: 3.9909 L22: 2.3918 REMARK 3 L33: 3.0855 L12: 0.6303 REMARK 3 L13: 1.1421 L23: 1.8171 REMARK 3 S TENSOR REMARK 3 S11: 0.1026 S12: -0.2485 S13: 0.0221 REMARK 3 S21: -0.0480 S22: 0.1223 S23: -0.2472 REMARK 3 S31: 0.0514 S32: 0.2131 S33: -0.2355 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 617 THROUGH 734 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.2915 11.2522 -12.3741 REMARK 3 T TENSOR REMARK 3 T11: 0.2562 T22: 0.3715 REMARK 3 T33: 0.3192 T12: 0.0356 REMARK 3 T13: -0.0131 T23: -0.0976 REMARK 3 L TENSOR REMARK 3 L11: 4.1147 L22: 2.5161 REMARK 3 L33: 2.4622 L12: 0.1655 REMARK 3 L13: -0.0276 L23: 0.9040 REMARK 3 S TENSOR REMARK 3 S11: 0.0112 S12: -0.2238 S13: 0.3581 REMARK 3 S21: -0.1030 S22: 0.0228 S23: -0.0797 REMARK 3 S31: -0.0841 S32: 0.0075 S33: -0.0316 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 735 THROUGH 758 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.3267 12.0382 -22.3143 REMARK 3 T TENSOR REMARK 3 T11: 0.4064 T22: 0.4603 REMARK 3 T33: 0.4672 T12: 0.0023 REMARK 3 T13: 0.0533 T23: -0.0990 REMARK 3 L TENSOR REMARK 3 L11: 4.3359 L22: 1.9874 REMARK 3 L33: 3.8358 L12: 0.4632 REMARK 3 L13: -0.7756 L23: 0.2690 REMARK 3 S TENSOR REMARK 3 S11: 0.0864 S12: 0.0778 S13: 0.5295 REMARK 3 S21: -0.4216 S22: 0.1809 S23: -0.3329 REMARK 3 S31: -0.2823 S32: 0.4843 S33: -0.1894 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 5JZA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1000221465. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97950 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 : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33179 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.140 REMARK 200 RESOLUTION RANGE LOW (A) : 85.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.14 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.65200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.100 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: 5APA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM BICINE, 100 MM SODIUM CHLORIDE, REMARK 280 27% PEG 550 MME, 1 MM MANGANESE CHLORIDE, 2 MM N-OXALYLGLYCINE, REMARK 280 18 MG/ML PROTEIN, PH 9.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 24.36500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 85.21000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.12000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 85.21000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.36500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.12000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL 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 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 LYS A 424 CD CE NZ REMARK 470 ARG A 635 CD NE CZ NH1 NH2 REMARK 470 LYS A 697 CG CD CE NZ REMARK 470 GLU A 698 CG CD OE1 OE2 REMARK 470 ASP A 730 CG OD1 OD2 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 NH2 ARG A 661 O ARG A 752 2.08 REMARK 500 NH1 ARG A 661 O LEU A 755 2.13 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 GLN A 373 48.98 -88.18 REMARK 500 TYR A 583 50.43 -90.64 REMARK 500 ALA A 608 57.72 -150.03 REMARK 500 ASP A 616 109.35 -53.27 REMARK 500 ALA A 705 -124.49 54.04 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 MN A 801 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 679 NE2 REMARK 620 2 HIS A 725 NE2 87.0 REMARK 620 3 OGA A 806 O1 174.1 91.9 REMARK 620 4 OGA A 806 O2' 101.3 90.5 72.9 REMARK 620 5 HOH A 939 O 91.5 92.3 94.3 167.0 REMARK 620 6 HOH A1005 O 89.4 175.9 91.5 88.4 89.6 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 MN A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OGA A 806 DBREF 5JZA A 330 758 UNP Q12797 ASPH_HUMAN 330 758 SEQRES 1 A 429 LYS PRO LYS LEU LEU ASN LYS PHE ASP LYS THR ILE LYS SEQRES 2 A 429 ALA GLU LEU ASP ALA ALA GLU LYS LEU ARG LYS ARG GLY SEQRES 3 A 429 LYS ILE GLU GLU ALA VAL ASN ALA PHE LYS GLU LEU VAL SEQRES 4 A 429 ARG LYS TYR PRO GLN SER PRO ARG ALA ARG TYR GLY LYS SEQRES 5 A 429 ALA GLN CYS GLU ASP ASP LEU ALA GLU LYS ARG ARG SER SEQRES 6 A 429 ASN GLU VAL LEU ARG GLY ALA ILE GLU THR TYR GLN GLU SEQRES 7 A 429 VAL ALA SER LEU PRO ASP VAL PRO ALA ASP LEU LEU LYS SEQRES 8 A 429 LEU SER LEU LYS ARG ARG SER ASP ARG GLN GLN PHE LEU SEQRES 9 A 429 GLY HIS MET ARG GLY SER LEU LEU THR LEU GLN ARG LEU SEQRES 10 A 429 VAL GLN LEU PHE PRO ASN ASP THR SER LEU LYS ASN ASP SEQRES 11 A 429 LEU GLY VAL GLY TYR LEU LEU ILE GLY ASP ASN ASP ASN SEQRES 12 A 429 ALA LYS LYS VAL TYR GLU GLU VAL LEU SER VAL THR PRO SEQRES 13 A 429 ASN ASP GLY PHE ALA LYS VAL HIS TYR GLY PHE ILE LEU SEQRES 14 A 429 LYS ALA GLN ASN LYS ILE ALA GLU SER ILE PRO TYR LEU SEQRES 15 A 429 LYS GLU GLY ILE GLU SER GLY ASP PRO GLY THR ASP ASP SEQRES 16 A 429 GLY ARG PHE TYR PHE HIS LEU GLY ASP ALA MET GLN ARG SEQRES 17 A 429 VAL GLY ASN LYS GLU ALA TYR LYS TRP TYR GLU LEU GLY SEQRES 18 A 429 HIS LYS ARG GLY HIS PHE ALA SER VAL TRP GLN ARG SER SEQRES 19 A 429 LEU TYR ASN VAL ASN GLY LEU LYS ALA GLN PRO TRP TRP SEQRES 20 A 429 THR PRO LYS GLU THR GLY TYR THR GLU LEU VAL LYS SER SEQRES 21 A 429 LEU GLU ARG ASN TRP LYS LEU ILE ARG ASP GLU GLY LEU SEQRES 22 A 429 ALA VAL MET ASP LYS ALA LYS GLY LEU PHE LEU PRO GLU SEQRES 23 A 429 ASP GLU ASN LEU ARG GLU LYS GLY ASP TRP SER GLN PHE SEQRES 24 A 429 THR LEU TRP GLN GLN GLY ARG ARG ASN GLU ASN ALA CYS SEQRES 25 A 429 LYS GLY ALA PRO LYS THR CYS THR LEU LEU GLU LYS PHE SEQRES 26 A 429 PRO GLU THR THR GLY CYS ARG ARG GLY GLN ILE LYS TYR SEQRES 27 A 429 SER ILE MET HIS PRO GLY THR HIS VAL TRP PRO HIS THR SEQRES 28 A 429 GLY PRO THR ASN CYS ARG LEU ARG MET HIS LEU GLY LEU SEQRES 29 A 429 VAL ILE PRO LYS GLU GLY CYS LYS ILE ARG CYS ALA ASN SEQRES 30 A 429 GLU THR LYS THR TRP GLU GLU GLY LYS VAL LEU ILE PHE SEQRES 31 A 429 ASP ASP SER PHE GLU HIS GLU VAL TRP GLN ASP ALA SER SEQRES 32 A 429 SER PHE ARG LEU ILE PHE ILE VAL ASP VAL TRP HIS PRO SEQRES 33 A 429 GLU LEU THR PRO GLN GLN ARG ARG SER LEU PRO ALA ILE HET MN A 801 1 HET GOL A 802 6 HET GOL A 803 6 HET GOL A 804 6 HET GOL A 805 6 HET OGA A 806 10 HETNAM MN MANGANESE (II) ION HETNAM GOL GLYCEROL HETNAM OGA N-OXALYLGLYCINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MN MN 2+ FORMUL 3 GOL 4(C3 H8 O3) FORMUL 7 OGA C4 H5 N O5 FORMUL 8 HOH *125(H2 O) HELIX 1 AA1 PHE A 337 THR A 340 5 4 HELIX 2 AA2 ILE A 341 GLY A 355 1 15 HELIX 3 AA3 LYS A 356 ARG A 369 1 14 HELIX 4 AA4 SER A 374 ARG A 393 1 20 HELIX 5 AA5 SER A 394 ALA A 409 1 16 HELIX 6 AA6 PRO A 415 GLY A 434 1 20 HELIX 7 AA7 HIS A 435 PHE A 450 1 16 HELIX 8 AA8 ASP A 453 ILE A 467 1 15 HELIX 9 AA9 ASP A 469 THR A 484 1 16 HELIX 10 AB1 ASP A 487 GLN A 501 1 15 HELIX 11 AB2 LYS A 503 GLY A 518 1 16 HELIX 12 AB3 ASP A 524 VAL A 538 1 15 HELIX 13 AB4 GLY A 539 LYS A 541 5 3 HELIX 14 AB5 GLU A 542 ARG A 553 1 12 HELIX 15 AB6 THR A 577 GLY A 582 1 6 HELIX 16 AB7 TYR A 583 ASN A 593 1 11 HELIX 17 AB8 ASN A 593 ALA A 608 1 16 HELIX 18 AB9 LYS A 609 PHE A 612 5 4 HELIX 19 AC1 ASP A 616 ASN A 618 5 3 HELIX 20 AC2 ASN A 637 LYS A 642 1 6 HELIX 21 AC3 ALA A 644 GLU A 652 1 9 HELIX 22 AC4 PHE A 654 GLY A 659 1 6 HELIX 23 AC5 THR A 748 LEU A 755 1 8 SHEET 1 AA1 7 TRP A 575 TRP A 576 0 SHEET 2 AA1 7 VAL A 716 PHE A 719 -1 O ILE A 718 N TRP A 576 SHEET 3 AA1 7 ARG A 686 VAL A 694 -1 N HIS A 690 O LEU A 717 SHEET 4 AA1 7 ARG A 735 TRP A 743 -1 O VAL A 740 N MET A 689 SHEET 5 AA1 7 GLN A 664 MET A 670 -1 N LYS A 666 O ILE A 739 SHEET 6 AA1 7 TRP A 625 GLN A 632 -1 N LEU A 630 O ILE A 665 SHEET 7 AA1 7 LEU A 613 PRO A 614 -1 N LEU A 613 O GLN A 627 SHEET 1 AA2 7 TRP A 575 TRP A 576 0 SHEET 2 AA2 7 VAL A 716 PHE A 719 -1 O ILE A 718 N TRP A 576 SHEET 3 AA2 7 ARG A 686 VAL A 694 -1 N HIS A 690 O LEU A 717 SHEET 4 AA2 7 ARG A 735 TRP A 743 -1 O VAL A 740 N MET A 689 SHEET 5 AA2 7 GLN A 664 MET A 670 -1 N LYS A 666 O ILE A 739 SHEET 6 AA2 7 TRP A 625 GLN A 632 -1 N LEU A 630 O ILE A 665 SHEET 7 AA2 7 ARG A 635 ARG A 636 -1 O ARG A 635 N GLN A 632 SHEET 1 AA3 5 ARG A 620 LYS A 622 0 SHEET 2 AA3 5 THR A 674 HIS A 679 -1 O HIS A 675 N GLU A 621 SHEET 3 AA3 5 HIS A 725 GLN A 729 -1 O VAL A 727 N VAL A 676 SHEET 4 AA3 5 CYS A 700 CYS A 704 -1 N ARG A 703 O GLU A 726 SHEET 5 AA3 5 GLU A 707 LYS A 709 -1 O LYS A 709 N ILE A 702 SSBOND 1 CYS A 641 CYS A 648 1555 1555 2.03 LINK NE2 HIS A 679 MN MN A 801 1555 1555 2.30 LINK NE2 HIS A 725 MN MN A 801 1555 1555 2.20 LINK MN MN A 801 O1 OGA A 806 1555 1555 2.19 LINK MN MN A 801 O2' OGA A 806 1555 1555 2.53 LINK MN MN A 801 O HOH A 939 1555 1555 2.23 LINK MN MN A 801 O HOH A1005 1555 1555 2.23 SITE 1 AC1 5 HIS A 679 HIS A 725 OGA A 806 HOH A 939 SITE 2 AC1 5 HOH A1005 SITE 1 AC2 5 SER A 455 ASN A 458 ASP A 459 PRO A 520 SITE 2 AC2 5 HOH A 931 SITE 1 AC3 3 TYR A 544 TRP A 560 GOL A 804 SITE 1 AC4 3 TRP A 560 ASN A 706 GOL A 803 SITE 1 AC5 2 LEU A 466 ARG A 526 SITE 1 AC6 11 TRP A 625 SER A 668 MET A 670 HIS A 679 SITE 2 AC6 11 ARG A 688 HIS A 690 HIS A 725 VAL A 727 SITE 3 AC6 11 ARG A 735 ILE A 739 MN A 801 CRYST1 48.730 70.240 170.420 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 0.020521 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014237 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005868 0.00000