PDB Short entry for 5TDF HEADER TRANSFERASE 19-SEP-16 5TDF TITLE TEV CLEAVED HUMAN ATP CITRATE LYASE BOUND TO 4S HYDROXYCITRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP-CITRATE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-425; COMPND 5 SYNONYM: ATP-CITRATE (PRO-S-)-LYASE,ACL,CITRATE CLEAVAGE ENZYME; COMPND 6 EC: 2.3.3.8; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: ATP-CITRATE SYNTHASE; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: UNP RESIDUES 488-810; COMPND 12 SYNONYM: ATP-CITRATE (PRO-S-)-LYASE,ACL,CITRATE CLEAVAGE ENZYME; COMPND 13 EC: 2.3.3.8; COMPND 14 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: ACLY; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: ACLY; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TEV CLEAVED, ATP-GRASP FOLD, 4S HYDROXYCITRATE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.HU,M.E.FRASER REVDAT 2 16-AUG-17 5TDF 1 JRNL REVDAT 1 09-AUG-17 5TDF 0 JRNL AUTH J.HU,A.KOMAKULA,M.E.FRASER JRNL TITL BINDING OF HYDROXYCITRATE TO HUMAN ATP-CITRATE LYASE. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 73 660 2017 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 28777081 JRNL DOI 10.1107/S2059798317009871 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_2152: ???) 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 84319 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 4236 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 41.9464 - 5.5888 0.91 2672 140 0.1754 0.1985 REMARK 3 2 5.5888 - 4.4376 0.95 2675 134 0.1328 0.1407 REMARK 3 3 4.4376 - 3.8771 0.97 2686 132 0.1216 0.1565 REMARK 3 4 3.8771 - 3.5228 0.98 2691 135 0.1330 0.1677 REMARK 3 5 3.5228 - 3.2704 0.99 2706 125 0.1403 0.1853 REMARK 3 6 3.2704 - 3.0777 0.99 2669 151 0.1401 0.2169 REMARK 3 7 3.0777 - 2.9236 0.99 2679 149 0.1447 0.1748 REMARK 3 8 2.9236 - 2.7963 1.00 2681 158 0.1453 0.1896 REMARK 3 9 2.7963 - 2.6887 1.00 2706 128 0.1420 0.2084 REMARK 3 10 2.6887 - 2.5960 1.00 2688 143 0.1401 0.1628 REMARK 3 11 2.5960 - 2.5148 1.00 2652 145 0.1392 0.1818 REMARK 3 12 2.5148 - 2.4429 1.00 2694 147 0.1353 0.1987 REMARK 3 13 2.4429 - 2.3786 1.00 2665 143 0.1360 0.1881 REMARK 3 14 2.3786 - 2.3206 1.00 2654 166 0.1404 0.1742 REMARK 3 15 2.3206 - 2.2678 1.00 2657 134 0.1368 0.2059 REMARK 3 16 2.2678 - 2.2196 1.00 2680 148 0.1433 0.1814 REMARK 3 17 2.2196 - 2.1752 1.00 2694 123 0.1430 0.1869 REMARK 3 18 2.1752 - 2.1341 1.00 2645 143 0.1501 0.1697 REMARK 3 19 2.1341 - 2.0960 1.00 2674 125 0.1571 0.2060 REMARK 3 20 2.0960 - 2.0605 1.00 2668 148 0.1607 0.2037 REMARK 3 21 2.0605 - 2.0273 1.00 2667 142 0.1632 0.2030 REMARK 3 22 2.0273 - 1.9961 1.00 2650 136 0.1749 0.2134 REMARK 3 23 1.9961 - 1.9667 1.00 2629 147 0.1701 0.2412 REMARK 3 24 1.9667 - 1.9390 1.00 2697 142 0.1862 0.2354 REMARK 3 25 1.9390 - 1.9128 1.00 2641 144 0.1917 0.2332 REMARK 3 26 1.9128 - 1.8880 1.00 2652 147 0.2001 0.2261 REMARK 3 27 1.8880 - 1.8644 1.00 2658 129 0.2076 0.2546 REMARK 3 28 1.8644 - 1.8419 1.00 2635 150 0.2099 0.2821 REMARK 3 29 1.8419 - 1.8205 1.00 2632 144 0.2275 0.2802 REMARK 3 30 1.8205 - 1.8000 1.00 2686 138 0.2320 0.2764 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.150 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 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 : 0.010 6022 REMARK 3 ANGLE : 0.994 8151 REMARK 3 CHIRALITY : 0.060 903 REMARK 3 PLANARITY : 0.006 1054 REMARK 3 DIHEDRAL : 14.444 3604 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 5TDF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000224064. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 84385 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 41.940 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% P3350, 100 MM TRISHCL PH 8.4, 150 REMARK 280 MM AMMONIUM CHLORIDE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 294K 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 27.52500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 97.87000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.93500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 97.87000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.52500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.93500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 140 REMARK 465 ASP A 141 REMARK 465 VAL A 142 REMARK 465 GLY A 143 REMARK 465 ASP A 144 REMARK 465 VAL A 145 REMARK 465 ASP A 146 REMARK 465 ALA A 147 REMARK 465 LYS A 148 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 HH12 ARG A 244 O GLU B 755 1.43 REMARK 500 HO1 GOL A 906 O HOH A 1008 1.59 REMARK 500 HZ1 LYS A 167 O3 GOL A 906 1.59 REMARK 500 O HOH A 1238 O HOH A 1354 2.12 REMARK 500 O HOH B 1192 O HOH B 1341 2.13 REMARK 500 O HOH B 1282 O HOH B 1358 2.16 REMARK 500 O HOH A 1237 O HOH A 1385 2.17 REMARK 500 O HOH B 1009 O HOH B 1302 2.18 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 1301 O HOH B 1020 3655 1.86 REMARK 500 O HOH A 1320 O HOH B 1230 3555 2.09 REMARK 500 O HOH A 1119 O HOH B 1230 3555 2.10 REMARK 500 O HOH A 1453 O HOH B 1196 1455 2.11 REMARK 500 O HOH A 1047 O HOH A 1281 4455 2.13 REMARK 500 O HOH A 1001 O HOH B 1141 3645 2.13 REMARK 500 O HOH A 1301 O HOH B 1029 3655 2.15 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 PHE A 29 14.99 58.98 REMARK 500 GLN A 61 30.68 -141.89 REMARK 500 ARG A 88 -50.12 -121.34 REMARK 500 PHE A 347 -9.25 -151.54 REMARK 500 LYS B 488 -142.30 -115.56 REMARK 500 CYS B 633 -60.33 -127.29 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 A 903 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 203 O REMARK 620 2 ASP A 216 OD2 92.0 REMARK 620 3 ADP A 902 O1B 175.5 92.2 REMARK 620 4 ADP A 902 O2A 94.4 87.9 84.0 REMARK 620 5 HOH A1254 O 81.9 164.8 93.6 78.7 REMARK 620 6 HOH A1318 O 93.4 84.9 88.8 169.6 109.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 901 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 NEP B 760 O3P REMARK 620 2 HOH A1012 O 82.8 REMARK 620 3 HOH A1033 O 96.4 90.5 REMARK 620 4 HOH A1223 O 91.3 86.3 171.3 REMARK 620 5 HOH B1015 O 99.6 177.3 90.3 92.5 REMARK 620 6 HOH B1038 O 169.8 88.3 88.6 83.2 89.1 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 7A3 A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 904 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 905 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 906 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADE A 907 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 904 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5TDM RELATED DB: PDB REMARK 900 RELATED ID: 5TDE RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AMINO-TERMINAL PORTION OF HUMAN ACLY WAS REDESIGNED TO HAVE TEV REMARK 999 PROTEASE CLEAVAGE SITES BORDERING THE LINKER REGION. BOTH CLEAVAGE REMARK 999 SITES HAD THE SAME SEQUENCE, ENLYFQS, AND THESE RESIDUES WERE REMARK 999 SUBSTITUTED FOR RESIDUES 426-432 AND 481-487 OF ACLY. A HIS10-TAG REMARK 999 REPLACED RESIDUES 450-459 OF THE LINKER. THE PROTEIN WAS TERMINATED REMARK 999 AT RESIDUE 810. WHEN CLEAVED, THE PROTEIN WOULD CONSIST OF RESIDUES REMARK 999 2-425-ENLYFQ AND S-488-810 OF HACLY. DBREF 5TDF A 1 425 UNP P53396 ACLY_HUMAN 1 425 DBREF 5TDF B 488 810 UNP P53396 ACLY_HUMAN 488 810 SEQADV 5TDF GLU A 426 UNP P53396 SEE REMARK 999 SEQADV 5TDF ASN A 427 UNP P53396 SEE REMARK 999 SEQADV 5TDF LEU A 428 UNP P53396 SEE REMARK 999 SEQADV 5TDF TYR A 429 UNP P53396 SEE REMARK 999 SEQADV 5TDF PHE A 430 UNP P53396 SEE REMARK 999 SEQADV 5TDF GLN A 431 UNP P53396 SEE REMARK 999 SEQADV 5TDF SER B 487 UNP P53396 SEE REMARK 999 SEQRES 1 A 431 MET SER ALA LYS ALA ILE SER GLU GLN THR GLY LYS GLU SEQRES 2 A 431 LEU LEU TYR LYS PHE ILE CYS THR THR SER ALA ILE GLN SEQRES 3 A 431 ASN ARG PHE LYS TYR ALA ARG VAL THR PRO ASP THR ASP SEQRES 4 A 431 TRP ALA ARG LEU LEU GLN ASP HIS PRO TRP LEU LEU SER SEQRES 5 A 431 GLN ASN LEU VAL VAL LYS PRO ASP GLN LEU ILE LYS ARG SEQRES 6 A 431 ARG GLY LYS LEU GLY LEU VAL GLY VAL ASN LEU THR LEU SEQRES 7 A 431 ASP GLY VAL LYS SER TRP LEU LYS PRO ARG LEU GLY GLN SEQRES 8 A 431 GLU ALA THR VAL GLY LYS ALA THR GLY PHE LEU LYS ASN SEQRES 9 A 431 PHE LEU ILE GLU PRO PHE VAL PRO HIS SER GLN ALA GLU SEQRES 10 A 431 GLU PHE TYR VAL CYS ILE TYR ALA THR ARG GLU GLY ASP SEQRES 11 A 431 TYR VAL LEU PHE HIS HIS GLU GLY GLY VAL ASP VAL GLY SEQRES 12 A 431 ASP VAL ASP ALA LYS ALA GLN LYS LEU LEU VAL GLY VAL SEQRES 13 A 431 ASP GLU LYS LEU ASN PRO GLU ASP ILE LYS LYS HIS LEU SEQRES 14 A 431 LEU VAL HIS ALA PRO GLU ASP LYS LYS GLU ILE LEU ALA SEQRES 15 A 431 SER PHE ILE SER GLY LEU PHE ASN PHE TYR GLU ASP LEU SEQRES 16 A 431 TYR PHE THR TYR LEU GLU ILE ASN PRO LEU VAL VAL THR SEQRES 17 A 431 LYS ASP GLY VAL TYR VAL LEU ASP LEU ALA ALA LYS VAL SEQRES 18 A 431 ASP ALA THR ALA ASP TYR ILE CYS LYS VAL LYS TRP GLY SEQRES 19 A 431 ASP ILE GLU PHE PRO PRO PRO PHE GLY ARG GLU ALA TYR SEQRES 20 A 431 PRO GLU GLU ALA TYR ILE ALA ASP LEU ASP ALA LYS SER SEQRES 21 A 431 GLY ALA SER LEU LYS LEU THR LEU LEU ASN PRO LYS GLY SEQRES 22 A 431 ARG ILE TRP THR MET VAL ALA GLY GLY GLY ALA SER VAL SEQRES 23 A 431 VAL TYR SER ASP THR ILE CYS ASP LEU GLY GLY VAL ASN SEQRES 24 A 431 GLU LEU ALA ASN TYR GLY GLU TYR SER GLY ALA PRO SER SEQRES 25 A 431 GLU GLN GLN THR TYR ASP TYR ALA LYS THR ILE LEU SER SEQRES 26 A 431 LEU MET THR ARG GLU LYS HIS PRO ASP GLY LYS ILE LEU SEQRES 27 A 431 ILE ILE GLY GLY SER ILE ALA ASN PHE THR ASN VAL ALA SEQRES 28 A 431 ALA THR PHE LYS GLY ILE VAL ARG ALA ILE ARG ASP TYR SEQRES 29 A 431 GLN GLY PRO LEU LYS GLU HIS GLU VAL THR ILE PHE VAL SEQRES 30 A 431 ARG ARG GLY GLY PRO ASN TYR GLN GLU GLY LEU ARG VAL SEQRES 31 A 431 MET GLY GLU VAL GLY LYS THR THR GLY ILE PRO ILE HIS SEQRES 32 A 431 VAL PHE GLY THR GLU THR HIS MET THR ALA ILE VAL GLY SEQRES 33 A 431 MET ALA LEU GLY HIS ARG PRO ILE PRO GLU ASN LEU TYR SEQRES 34 A 431 PHE GLN SEQRES 1 B 324 SER LYS SER THR THR LEU PHE SER ARG HIS THR LYS ALA SEQRES 2 B 324 ILE VAL TRP GLY MET GLN THR ARG ALA VAL GLN GLY MET SEQRES 3 B 324 LEU ASP PHE ASP TYR VAL CYS SER ARG ASP GLU PRO SER SEQRES 4 B 324 VAL ALA ALA MET VAL TYR PRO PHE THR GLY ASP HIS LYS SEQRES 5 B 324 GLN LYS PHE TYR TRP GLY HIS LYS GLU ILE LEU ILE PRO SEQRES 6 B 324 VAL PHE LYS ASN MET ALA ASP ALA MET ARG LYS HIS PRO SEQRES 7 B 324 GLU VAL ASP VAL LEU ILE ASN PHE ALA SER LEU ARG SER SEQRES 8 B 324 ALA TYR ASP SER THR MET GLU THR MET ASN TYR ALA GLN SEQRES 9 B 324 ILE ARG THR ILE ALA ILE ILE ALA GLU GLY ILE PRO GLU SEQRES 10 B 324 ALA LEU THR ARG LYS LEU ILE LYS LYS ALA ASP GLN LYS SEQRES 11 B 324 GLY VAL THR ILE ILE GLY PRO ALA THR VAL GLY GLY ILE SEQRES 12 B 324 LYS PRO GLY CYS PHE LYS ILE GLY ASN THR GLY GLY MET SEQRES 13 B 324 LEU ASP ASN ILE LEU ALA SER LYS LEU TYR ARG PRO GLY SEQRES 14 B 324 SER VAL ALA TYR VAL SER ARG SER GLY GLY MET SER ASN SEQRES 15 B 324 GLU LEU ASN ASN ILE ILE SER ARG THR THR ASP GLY VAL SEQRES 16 B 324 TYR GLU GLY VAL ALA ILE GLY GLY ASP ARG TYR PRO GLY SEQRES 17 B 324 SER THR PHE MET ASP HIS VAL LEU ARG TYR GLN ASP THR SEQRES 18 B 324 PRO GLY VAL LYS MET ILE VAL VAL LEU GLY GLU ILE GLY SEQRES 19 B 324 GLY THR GLU GLU TYR LYS ILE CYS ARG GLY ILE LYS GLU SEQRES 20 B 324 GLY ARG LEU THR LYS PRO ILE VAL CYS TRP CYS ILE GLY SEQRES 21 B 324 THR CYS ALA THR MET PHE SER SER GLU VAL GLN PHE GLY SEQRES 22 B 324 NEP ALA GLY ALA CYS ALA ASN GLN ALA SER GLU THR ALA SEQRES 23 B 324 VAL ALA LYS ASN GLN ALA LEU LYS GLU ALA GLY VAL PHE SEQRES 24 B 324 VAL PRO ARG SER PHE ASP GLU LEU GLY GLU ILE ILE GLN SEQRES 25 B 324 SER VAL TYR GLU ASP LEU VAL ALA ASN GLY VAL ILE MODRES 5TDF NEP B 760 HIS MODIFIED RESIDUE HET NEP B 760 19 HET 7A3 A 901 19 HET ADP A 902 42 HET MG A 903 1 HET GOL A 904 14 HET GOL A 905 14 HET GOL A 906 14 HET ADE A 907 14 HET MG B 901 1 HET GOL B 902 14 HET GOL B 903 14 HET GOL B 904 14 HETNAM NEP N1-PHOSPHONOHISTIDINE HETNAM 7A3 3-C-CARBOXY-2-DEOXY-D-ERYTHRO-PENTARIC ACID HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETNAM ADE ADENINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NEP C6 H10 N3 O5 P FORMUL 3 7A3 C6 H8 O8 FORMUL 4 ADP C10 H15 N5 O10 P2 FORMUL 5 MG 2(MG 2+) FORMUL 6 GOL 6(C3 H8 O3) FORMUL 9 ADE C5 H5 N5 FORMUL 14 HOH *821(H2 O) HELIX 1 AA1 SER A 7 ILE A 19 1 13 HELIX 2 AA2 ASP A 39 HIS A 47 1 9 HELIX 3 AA3 PRO A 48 SER A 52 5 5 HELIX 4 AA4 ARG A 66 GLY A 70 5 5 HELIX 5 AA5 THR A 77 LYS A 86 1 10 HELIX 6 AA6 SER A 114 ALA A 116 5 3 HELIX 7 AA7 ASN A 161 LEU A 170 1 10 HELIX 8 AA8 PRO A 174 ASP A 176 5 3 HELIX 9 AA9 LYS A 177 LEU A 195 1 19 HELIX 10 AB1 ALA A 225 GLY A 234 1 10 HELIX 11 AB2 TYR A 247 LYS A 259 1 13 HELIX 12 AB3 GLY A 281 LEU A 295 1 15 HELIX 13 AB4 GLY A 297 LEU A 301 5 5 HELIX 14 AB5 SER A 312 THR A 328 1 17 HELIX 15 AB6 ASN A 349 TYR A 364 1 16 HELIX 16 AB7 TYR A 364 HIS A 371 1 8 HELIX 17 AB8 ASN A 383 GLY A 399 1 17 HELIX 18 AB9 THR A 412 LEU A 419 1 8 HELIX 19 AC1 PRO A 425 TYR A 429 5 5 HELIX 20 AC2 GLN B 505 CYS B 519 1 15 HELIX 21 AC3 ASN B 555 HIS B 563 1 9 HELIX 22 AC4 SER B 577 MET B 586 1 10 HELIX 23 AC5 PRO B 602 GLY B 617 1 16 HELIX 24 AC6 MET B 642 SER B 649 1 8 HELIX 25 AC7 SER B 663 THR B 678 1 16 HELIX 26 AC8 THR B 696 ASP B 706 1 11 HELIX 27 AC9 GLU B 724 GLU B 733 1 10 HELIX 28 AD1 GLY B 746 PHE B 752 5 7 HELIX 29 AD2 GLN B 767 GLU B 770 5 4 HELIX 30 AD3 THR B 771 GLY B 783 1 13 HELIX 31 AD4 SER B 789 ASP B 791 5 3 HELIX 32 AD5 GLU B 792 ASN B 807 1 16 SHEET 1 AA1 6 ALA A 3 ILE A 6 0 SHEET 2 AA1 6 ALA A 218 ASP A 222 -1 O VAL A 221 N LYS A 4 SHEET 3 AA1 6 PHE A 197 THR A 208 -1 N GLU A 201 O ALA A 218 SHEET 4 AA1 6 GLU A 118 THR A 126 -1 N PHE A 119 O LEU A 205 SHEET 5 AA1 6 GLY A 129 HIS A 135 -1 O LEU A 133 N CYS A 122 SHEET 6 AA1 6 GLN A 150 GLY A 155 -1 O LEU A 152 N VAL A 132 SHEET 1 AA2 4 ALA A 3 ILE A 6 0 SHEET 2 AA2 4 ALA A 218 ASP A 222 -1 O VAL A 221 N LYS A 4 SHEET 3 AA2 4 PHE A 197 THR A 208 -1 N GLU A 201 O ALA A 218 SHEET 4 AA2 4 GLY A 211 VAL A 214 -1 O TYR A 213 N VAL A 206 SHEET 1 AA3 4 ALA A 32 VAL A 34 0 SHEET 2 AA3 4 PHE A 105 PRO A 109 -1 O PHE A 105 N VAL A 34 SHEET 3 AA3 4 LEU A 55 PRO A 59 -1 N LYS A 58 O LEU A 106 SHEET 4 AA3 4 GLY A 73 LEU A 76 -1 O GLY A 73 N VAL A 57 SHEET 1 AA4 2 GLU A 92 VAL A 95 0 SHEET 2 AA4 2 ALA A 98 PHE A 101 -1 O GLY A 100 N ALA A 93 SHEET 1 AA5 2 SER A 263 LEU A 268 0 SHEET 2 AA5 2 ASN A 303 SER A 308 -1 O TYR A 304 N THR A 267 SHEET 1 AA6 4 ILE A 275 THR A 277 0 SHEET 2 AA6 4 LYS A 336 ILE A 340 1 O ILE A 337 N TRP A 276 SHEET 3 AA6 4 VAL A 373 ARG A 378 1 O PHE A 376 N ILE A 340 SHEET 4 AA6 4 ILE A 402 PHE A 405 1 O HIS A 403 N VAL A 377 SHEET 1 AA7 7 HIS B 537 TRP B 543 0 SHEET 2 AA7 7 LYS B 546 PHE B 553 -1 O LYS B 546 N TRP B 543 SHEET 3 AA7 7 VAL B 526 VAL B 530 1 N MET B 529 O PHE B 553 SHEET 4 AA7 7 ALA B 499 TRP B 502 1 N ALA B 499 O ALA B 527 SHEET 5 AA7 7 VAL B 568 ASN B 571 1 O ILE B 570 N TRP B 502 SHEET 6 AA7 7 THR B 593 ILE B 596 1 O ALA B 595 N ASN B 571 SHEET 7 AA7 7 THR B 619 ILE B 621 1 O ILE B 621 N ILE B 596 SHEET 1 AA8 6 PHE B 634 LYS B 635 0 SHEET 2 AA8 6 GLY B 628 LYS B 630 -1 N LYS B 630 O PHE B 634 SHEET 3 AA8 6 VAL B 681 ALA B 686 -1 O GLY B 684 N ILE B 629 SHEET 4 AA8 6 VAL B 657 SER B 661 1 N VAL B 657 O TYR B 682 SHEET 5 AA8 6 MET B 712 GLU B 718 1 O VAL B 714 N ALA B 658 SHEET 6 AA8 6 ILE B 740 ILE B 745 1 O VAL B 741 N ILE B 713 LINK O ASN A 203 MG MG A 903 1555 1555 2.19 LINK OD2 ASP A 216 MG MG A 903 1555 1555 2.31 LINK C GLY B 759 N NEP B 760 1555 1555 1.33 LINK C NEP B 760 N ALA B 761 1555 1555 1.33 LINK O3P NEP B 760 MG MG B 901 1555 1555 2.02 LINK O1B ADP A 902 MG MG A 903 1555 1555 2.06 LINK O2A ADP A 902 MG MG A 903 1555 1555 2.20 LINK MG MG A 903 O HOH A1254 1555 1555 2.42 LINK MG MG A 903 O HOH A1318 1555 1555 2.25 LINK MG MG B 901 O HOH A1012 1555 1555 2.10 LINK MG MG B 901 O HOH A1033 1555 1555 2.14 LINK MG MG B 901 O HOH A1223 1555 1555 2.12 LINK MG MG B 901 O HOH B1015 1555 1555 2.14 LINK MG MG B 901 O HOH B1038 1555 1555 2.15 CISPEP 1 ASN A 203 PRO A 204 0 8.59 CISPEP 2 GLY B 622 PRO B 623 0 4.62 SITE 1 AC1 14 SER A 308 GLY A 309 SER A 343 ALA A 345 SITE 2 AC1 14 ASN A 346 PHE A 347 THR A 348 ARG A 379 SITE 3 AC1 14 HOH A1012 HOH A1041 HOH A1104 HOH A1223 SITE 4 AC1 14 HOH A1328 NEP B 760 SITE 1 AC2 23 VAL A 56 LYS A 58 ARG A 65 ARG A 66 SITE 2 AC2 23 GLY A 67 PRO A 109 PHE A 110 VAL A 111 SITE 3 AC2 23 HIS A 113 GLU A 118 ASN A 203 PRO A 204 SITE 4 AC2 23 LEU A 215 ASP A 216 MG A 903 HOH A1017 SITE 5 AC2 23 HOH A1045 HOH A1059 HOH A1184 HOH A1208 SITE 6 AC2 23 HOH A1254 HOH A1280 HOH A1318 SITE 1 AC3 5 ASN A 203 ASP A 216 ADP A 902 HOH A1254 SITE 2 AC3 5 HOH A1318 SITE 1 AC4 3 TYR A 124 LYS A 151 TYR B 517 SITE 1 AC5 5 ARG A 33 THR A 35 THR A 38 ADE A 907 SITE 2 AC5 5 HOH A1243 SITE 1 AC6 7 ASP A 164 LYS A 167 HIS A 168 HOH A1008 SITE 2 AC6 7 PRO B 654 ASP B 679 HOH B1232 SITE 1 AC7 5 ASP A 39 ARG A 42 LEU A 43 GOL A 905 SITE 2 AC7 5 HOH A1026 SITE 1 AC8 6 HOH A1012 HOH A1033 HOH A1223 NEP B 760 SITE 2 AC8 6 HOH B1015 HOH B1038 SITE 1 AC9 8 HIS A 410 ILE B 673 PHE B 790 ASP B 791 SITE 2 AC9 8 LEU B 793 GLY B 794 HOH B1112 HOH B1150 SITE 1 AD1 8 LYS A 230 HOH A1036 ARG B 576 PHE B 785 SITE 2 AD1 8 SER B 799 VAL B 800 ASP B 803 HOH B1062 SITE 1 AD2 6 GLN B 777 LYS B 780 PRO B 787 ARG B 788 SITE 2 AD2 6 HOH B1012 HOH B1068 CRYST1 55.050 83.870 195.740 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 0.018165 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011923 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005109 0.00000