HEADER HYDROLASE 25-JAN-05 1YNS TITLE CRYSTAL STRUCTURE OF HUMAN ENOLASE-PHOSPHATASE E1 AND ITS COMPLEX WITH TITLE 2 A SUBSTRATE ANALOG COMPND MOL_ID: 1; COMPND 2 MOLECULE: E-1 ENZYME; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ENOLASE-PHOSPHATASE E1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX 6P-1 KEYWDS HYDROLASE FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.WANG,H.PANG,M.BARTLAM,Z.RAO REVDAT 4 13-MAR-24 1YNS 1 REMARK LINK REVDAT 3 11-OCT-17 1YNS 1 REMARK REVDAT 2 24-FEB-09 1YNS 1 VERSN REVDAT 1 17-MAY-05 1YNS 0 JRNL AUTH H.WANG,H.PANG,M.BARTLAM,Z.RAO JRNL TITL CRYSTAL STRUCTURE OF HUMAN E1 ENZYME AND ITS COMPLEX WITH A JRNL TITL 2 SUBSTRATE ANALOG REVEALS THE MECHANISM OF ITS JRNL TITL 3 PHOSPHATASE/ENOLASE JRNL REF J.MOL.BIOL. V. 348 917 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 15843022 JRNL DOI 10.1016/J.JMB.2005.01.072 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 28576 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1413 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1986 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 583 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.019 REMARK 3 BOND ANGLES (DEGREES) : 2.220 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1YNS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000031728. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSMIC MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : R-AXIS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 106126 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, HEPES, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 27.00850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.65900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.77300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.65900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.00850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.77300 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 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 MET A 1 REMARK 465 VAL A 2 REMARK 465 VAL A 3 REMARK 465 PRO A 258 REMARK 465 SER A 259 REMARK 465 SER A 260 REMARK 465 THR A 261 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 NZ LYS A 106 O HOH A 1822 1.61 REMARK 500 O LEU A 103 O HOH A 1641 1.72 REMARK 500 O HOH A 1491 O HOH A 1688 1.75 REMARK 500 O HOH A 1313 O HOH A 1491 1.89 REMARK 500 O1 HPO A 1261 O HOH A 1471 1.94 REMARK 500 O HOH A 1445 O HOH A 1709 2.00 REMARK 500 O HOH A 1384 O HOH A 1605 2.01 REMARK 500 CD GLU A 174 O HOH A 1736 2.01 REMARK 500 O HOH A 1319 O HOH A 1812 2.01 REMARK 500 CA VAL A 93 O HOH A 1396 2.02 REMARK 500 OE1 GLU A 169 O HOH A 1427 2.02 REMARK 500 O HOH A 1366 O HOH A 1741 2.02 REMARK 500 O HOH A 1317 O HOH A 1698 2.02 REMARK 500 O HOH A 1508 O HOH A 1656 2.02 REMARK 500 O HOH A 1414 O HOH A 1754 2.02 REMARK 500 O HOH A 1326 O HOH A 1690 2.03 REMARK 500 CA LEU A 113 O HOH A 1784 2.03 REMARK 500 O HOH A 1723 O HOH A 1842 2.03 REMARK 500 CE LYS A 183 O HOH A 1365 2.03 REMARK 500 O PHE A 209 O HOH A 1801 2.03 REMARK 500 O HOH A 1631 O HOH A 1799 2.03 REMARK 500 O HOH A 1390 O HOH A 1788 2.04 REMARK 500 O HOH A 1270 O HOH A 1645 2.04 REMARK 500 O HOH A 1419 O HOH A 1750 2.04 REMARK 500 O HOH A 1397 O HOH A 1691 2.04 REMARK 500 CA GLU A 254 O HOH A 1774 2.04 REMARK 500 O GLY A 185 O HOH A 1484 2.04 REMARK 500 NE2 GLN A 53 O HOH A 1415 2.04 REMARK 500 CB GLN A 160 O HOH A 1821 2.04 REMARK 500 C LEU A 175 O HOH A 1501 2.04 REMARK 500 CB SER A 156 O HOH A 1796 2.04 REMARK 500 CA ALA A 228 O HOH A 1751 2.04 REMARK 500 OE1 GLU A 191 O HOH A 1263 2.04 REMARK 500 O HOH A 1692 O HOH A 1770 2.04 REMARK 500 O HOH A 1291 O HOH A 1704 2.05 REMARK 500 O GLU A 130 O HOH A 1440 2.05 REMARK 500 O HOH A 1444 O HOH A 1566 2.05 REMARK 500 O HOH A 1324 O HOH A 1734 2.05 REMARK 500 OE1 GLN A 62 O HOH A 1511 2.05 REMARK 500 OG SER A 218 O HOH A 1826 2.05 REMARK 500 O ILE A 196 O HOH A 1775 2.05 REMARK 500 O HOH A 1349 O HOH A 1744 2.05 REMARK 500 O THR A 21 O HOH A 1440 2.05 REMARK 500 O HOH A 1470 O HOH A 1675 2.06 REMARK 500 O HOH A 1271 O HOH A 1562 2.06 REMARK 500 O HOH A 1348 O HOH A 1803 2.06 REMARK 500 O HOH A 1317 O HOH A 1624 2.06 REMARK 500 CB VAL A 149 O HOH A 1403 2.06 REMARK 500 CA ARG A 119 O HOH A 1767 2.06 REMARK 500 O HOH A 1398 O HOH A 1407 2.06 REMARK 500 REMARK 500 THIS ENTRY HAS 149 CLOSE CONTACTS 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 1733 O HOH A 1734 1565 2.02 REMARK 500 O HOH A 1749 O HOH A 1826 1455 2.03 REMARK 500 O HOH A 1459 O HOH A 1707 4445 2.09 REMARK 500 O HOH A 1336 O HOH A 1826 1455 2.12 REMARK 500 O HOH A 1435 O HOH A 1707 4445 2.14 REMARK 500 O HOH A 1330 O HOH A 1740 3654 2.18 REMARK 500 O HOH A 1371 O HOH A 1472 3754 2.19 REMARK 500 O HOH A 1303 O HOH A 1761 1565 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 LEU A 103 C ASP A 104 N -0.143 REMARK 500 ASP A 104 C ARG A 105 N -0.267 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 103 CB - CA - C ANGL. DEV. = -20.1 DEGREES REMARK 500 ASP A 104 N - CA - CB ANGL. DEV. = 17.8 DEGREES REMARK 500 ASP A 104 N - CA - C ANGL. DEV. = -16.2 DEGREES REMARK 500 ASP A 104 O - C - N ANGL. DEV. = -12.8 DEGREES 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 ILE A 17 -75.39 -106.41 REMARK 500 ILE A 30 -61.41 -126.07 REMARK 500 ALA A 78 158.13 -48.81 REMARK 500 ASP A 104 34.36 98.43 REMARK 500 LYS A 106 74.24 -103.81 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 MG A1258 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 16 OD2 REMARK 620 2 GLU A 18 O 83.9 REMARK 620 3 ASP A 212 OD1 84.8 88.3 REMARK 620 4 HOH A1831 O 92.4 89.0 176.3 REMARK 620 5 HOH A1834 O 169.0 86.0 90.7 91.6 REMARK 620 6 HOH A1835 O 89.2 173.0 90.2 92.2 100.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1259 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 198 OD1 REMARK 620 2 HOH A1832 O 174.1 REMARK 620 3 HOH A1836 O 86.9 89.3 REMARK 620 4 HOH A1837 O 99.9 84.3 86.2 REMARK 620 5 HOH A1838 O 92.6 91.8 172.6 86.6 REMARK 620 6 HOH A1839 O 92.9 82.5 89.1 166.1 98.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1260 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1833 O REMARK 620 2 HOH A1840 O 161.1 REMARK 620 3 HOH A1841 O 90.0 86.7 REMARK 620 4 HOH A1842 O 102.8 95.9 90.7 REMARK 620 5 HOH A1843 O 88.8 91.9 171.8 97.5 REMARK 620 6 HOH A1844 O 80.9 80.4 87.3 175.9 84.5 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 MG A 1258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1259 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1260 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HPO A 1261 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WDH RELATED DB: PDB REMARK 900 THE STRUCTURE OF HUMAN E1 ENZYME DBREF 1YNS A 1 261 UNP Q9UHY7 Q9UHY7_HUMAN 1 261 SEQRES 1 A 261 MET VAL VAL LEU SER VAL PRO ALA GLU VAL THR VAL ILE SEQRES 2 A 261 LEU LEU ASP ILE GLU GLY THR THR THR PRO ILE ALA PHE SEQRES 3 A 261 VAL LYS ASP ILE LEU PHE PRO TYR ILE GLU GLU ASN VAL SEQRES 4 A 261 LYS GLU TYR LEU GLN THR HIS TRP GLU GLU GLU GLU CYS SEQRES 5 A 261 GLN GLN ASP VAL SER LEU LEU ARG LYS GLN ALA GLU GLU SEQRES 6 A 261 ASP ALA HIS LEU ASP GLY ALA VAL PRO ILE PRO ALA ALA SEQRES 7 A 261 SER GLY ASN GLY VAL ASP ASP LEU GLN GLN MET ILE GLN SEQRES 8 A 261 ALA VAL VAL ASP ASN VAL CYS TRP GLN MET SER LEU ASP SEQRES 9 A 261 ARG LYS THR THR ALA LEU LYS GLN LEU GLN GLY HIS MET SEQRES 10 A 261 TRP ARG ALA ALA PHE THR ALA GLY ARG MET LYS ALA GLU SEQRES 11 A 261 PHE PHE ALA ASP VAL VAL PRO ALA VAL ARG LYS TRP ARG SEQRES 12 A 261 GLU ALA GLY MET LYS VAL TYR ILE TYR SER SER GLY SER SEQRES 13 A 261 VAL GLU ALA GLN LYS LEU LEU PHE GLY HIS SER THR GLU SEQRES 14 A 261 GLY ASP ILE LEU GLU LEU VAL ASP GLY HIS PHE ASP THR SEQRES 15 A 261 LYS ILE GLY HIS LYS VAL GLU SER GLU SER TYR ARG LYS SEQRES 16 A 261 ILE ALA ASP SER ILE GLY CYS SER THR ASN ASN ILE LEU SEQRES 17 A 261 PHE LEU THR ASP VAL THR ARG GLU ALA SER ALA ALA GLU SEQRES 18 A 261 GLU ALA ASP VAL HIS VAL ALA VAL VAL VAL ARG PRO GLY SEQRES 19 A 261 ASN ALA GLY LEU THR ASP ASP GLU LYS THR TYR TYR SER SEQRES 20 A 261 LEU ILE THR SER PHE SER GLU LEU TYR LEU PRO SER SER SEQRES 21 A 261 THR HET MG A1258 1 HET MG A1259 1 HET MG A1260 1 HET HPO A1261 12 HETNAM MG MAGNESIUM ION HETNAM HPO 2-OXOHEPTYLPHOSPHONIC ACID FORMUL 2 MG 3(MG 2+) FORMUL 5 HPO C7 H15 O4 P FORMUL 6 HOH *583(H2 O) HELIX 1 1 PRO A 23 ILE A 30 1 8 HELIX 2 2 ILE A 30 TRP A 47 1 18 HELIX 3 3 GLU A 49 ASP A 66 1 18 HELIX 4 4 GLY A 82 ASP A 104 1 23 HELIX 5 5 THR A 107 ALA A 124 1 18 HELIX 6 6 ASP A 134 ALA A 145 1 12 HELIX 7 7 SER A 156 HIS A 166 1 11 HELIX 8 8 ILE A 172 VAL A 176 5 5 HELIX 9 9 ASP A 181 GLY A 185 5 5 HELIX 10 10 GLU A 189 GLY A 201 1 13 HELIX 11 11 SER A 203 ASN A 205 5 3 HELIX 12 12 VAL A 213 ALA A 223 1 11 HELIX 13 13 THR A 239 TYR A 246 1 8 HELIX 14 14 SER A 251 LEU A 255 5 5 SHEET 1 A 6 GLY A 178 PHE A 180 0 SHEET 2 A 6 LYS A 148 TYR A 152 1 N ILE A 151 O GLY A 178 SHEET 3 A 6 VAL A 12 LEU A 15 1 N LEU A 15 O TYR A 150 SHEET 4 A 6 ILE A 207 THR A 211 1 O LEU A 208 N LEU A 14 SHEET 5 A 6 HIS A 226 VAL A 230 1 O HIS A 226 N PHE A 209 SHEET 6 A 6 LEU A 248 ILE A 249 1 O ILE A 249 N VAL A 229 LINK OD2 ASP A 16 MG MG A1258 1555 1555 2.11 LINK O GLU A 18 MG MG A1258 1555 1555 2.12 LINK OD1 ASP A 198 MG MG A1259 1555 1555 2.00 LINK OD1 ASP A 212 MG MG A1258 1555 1555 2.04 LINK MG MG A1258 O HOH A1831 1555 1555 1.99 LINK MG MG A1258 O HOH A1834 1555 1555 2.12 LINK MG MG A1258 O HOH A1835 1555 1555 2.06 LINK MG MG A1259 O HOH A1832 1555 1555 2.10 LINK MG MG A1259 O HOH A1836 1555 1555 2.23 LINK MG MG A1259 O HOH A1837 1555 1555 2.30 LINK MG MG A1259 O HOH A1838 1555 1555 2.06 LINK MG MG A1259 O HOH A1839 1555 1555 2.08 LINK MG MG A1260 O HOH A1833 1555 1555 2.03 LINK MG MG A1260 O HOH A1840 1555 1555 2.00 LINK MG MG A1260 O HOH A1841 1555 1555 2.27 LINK MG MG A1260 O HOH A1842 1555 1555 2.06 LINK MG MG A1260 O HOH A1843 1555 1555 1.91 LINK MG MG A1260 O HOH A1844 1555 1555 2.26 SITE 1 AC1 6 ASP A 16 GLU A 18 ASP A 212 HOH A1831 SITE 2 AC1 6 HOH A1834 HOH A1835 SITE 1 AC2 6 ASP A 198 HOH A1832 HOH A1836 HOH A1837 SITE 2 AC2 6 HOH A1838 HOH A1839 SITE 1 AC3 6 HOH A1833 HOH A1840 HOH A1841 HOH A1842 SITE 2 AC3 6 HOH A1843 HOH A1844 SITE 1 AC4 15 GLU A 18 LEU A 31 PHE A 32 TRP A 118 SITE 2 AC4 15 SER A 153 SER A 154 LYS A 187 HOH A1313 SITE 3 AC4 15 HOH A1347 HOH A1463 HOH A1471 HOH A1477 SITE 4 AC4 15 HOH A1491 HOH A1598 HOH A1831 CRYST1 54.017 57.546 87.318 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 0.018513 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017377 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011452 0.00000