HEADER LYASE 07-NOV-18 6N10 TITLE CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA MEVALONATE 5-DIPHOSPHATE TITLE 2 DECARBOXYLASE 1 COMPLEXED WITH (R)-MVAPP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIPHOSPHOMEVALONATE DECARBOXYLASE MVD1, PEROXISOMAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MEVALONATE 5-DIPHOSPHATE DECARBOXYLASE 1,ATMVD1; COMPND 5 EC: 4.1.1.33; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: MVD1, MDD1, MVD, AT2G38700; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LYASE EXPDTA X-RAY DIFFRACTION AUTHOR J.P.NOEL,S.T.THOMAS,G.V.LOUIE REVDAT 4 11-OCT-23 6N10 1 REMARK REVDAT 3 20-NOV-19 6N10 1 REMARK REVDAT 2 28-AUG-19 6N10 1 JRNL REVDAT 1 17-JUL-19 6N10 0 JRNL AUTH S.T.THOMAS,G.V.LOUIE,J.W.LUBIN,V.LUNDBLAD,J.P.NOEL JRNL TITL SUBSTRATE SPECIFICITY AND ENGINEERING OF MEVALONATE JRNL TITL 2 5-PHOSPHATE DECARBOXYLASE. JRNL REF ACS CHEM.BIOL. V. 14 1767 2019 JRNL REFN ESSN 1554-8937 JRNL PMID 31268677 JRNL DOI 10.1021/ACSCHEMBIO.9B00322 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3260) 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 42182 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.030 REMARK 3 FREE R VALUE TEST SET COUNT : 4793 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 49.1790 - 7.1396 1.00 2563 159 0.1604 0.1911 REMARK 3 2 7.1396 - 5.6696 1.00 2547 163 0.1621 0.2089 REMARK 3 3 5.6696 - 4.9537 1.00 2554 167 0.1445 0.1692 REMARK 3 4 4.9537 - 4.5011 1.00 2540 158 0.1277 0.1519 REMARK 3 5 4.5011 - 4.1787 1.00 2556 159 0.1341 0.1601 REMARK 3 6 4.1787 - 3.9324 1.00 2541 159 0.1434 0.1848 REMARK 3 7 3.9324 - 3.7355 1.00 2549 179 0.1625 0.2098 REMARK 3 8 3.7355 - 3.5730 1.00 2535 153 0.1895 0.2056 REMARK 3 9 3.5730 - 3.4355 1.00 2536 169 0.1824 0.2407 REMARK 3 10 3.4355 - 3.3169 1.00 2567 167 0.1906 0.2198 REMARK 3 11 3.3169 - 3.2133 1.00 2520 162 0.2085 0.2511 REMARK 3 12 3.2133 - 3.1214 1.00 2569 158 0.2249 0.2424 REMARK 3 13 3.1214 - 3.0393 1.00 2537 174 0.2185 0.2648 REMARK 3 14 3.0393 - 2.9651 1.00 2509 163 0.2370 0.2546 REMARK 3 15 2.9651 - 2.8977 1.00 2573 164 0.2312 0.2951 REMARK 3 16 2.8977 - 2.8361 0.98 2478 172 0.2253 0.2961 REMARK 3 17 2.8361 - 2.7793 0.98 2517 147 0.2321 0.2487 REMARK 3 18 2.7793 - 2.7269 0.96 2428 158 0.2443 0.2676 REMARK 3 19 2.7269 - 2.6782 0.94 2407 159 0.2393 0.2812 REMARK 3 20 2.6782 - 2.6328 0.94 2365 152 0.2497 0.2846 REMARK 3 21 2.6328 - 2.5903 0.94 2389 160 0.2562 0.3137 REMARK 3 22 2.5903 - 2.5505 0.95 2423 157 0.2664 0.3420 REMARK 3 23 2.5505 - 2.5130 0.95 2421 161 0.2785 0.3302 REMARK 3 24 2.5130 - 2.4776 0.95 2405 167 0.2945 0.3759 REMARK 3 25 2.4776 - 2.4441 0.95 2460 147 0.3034 0.2773 REMARK 3 26 2.4441 - 2.4124 0.95 2413 136 0.2902 0.2782 REMARK 3 27 2.4124 - 2.3822 0.96 2456 142 0.3038 0.3493 REMARK 3 28 2.3822 - 2.3535 0.96 2441 149 0.3156 0.3191 REMARK 3 29 2.3535 - 2.3261 0.95 2408 151 0.3262 0.3487 REMARK 3 30 2.3261 - 2.3000 0.96 2462 181 0.3253 0.3843 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) : 0.320 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.690 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 : 0.014 3230 REMARK 3 ANGLE : 1.457 4377 REMARK 3 CHIRALITY : 0.066 492 REMARK 3 PLANARITY : 0.010 559 REMARK 3 DIHEDRAL : 20.812 1208 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 6N10 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1000237797. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-FEB-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 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 : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 7.1.0 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.2.7 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42293 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 53.315 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 10.70 REMARK 200 R MERGE (I) : 0.12100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.53600 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: MOLREP 11.2.08 REMARK 200 STARTING MODEL: 3D4J REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CITRATE TRIBASIC PH 5.6 REMARK 280 0.2 M POTASSIUM SODIUM TARTRATE 2.0 M AMMONIUM SULFATE 5MM (R)- REMARK 280 MVAPP, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 83.11500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.31500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.31500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 41.55750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.31500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.31500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 124.67250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.31500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.31500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.55750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.31500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.31500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 124.67250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 83.11500 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: 4640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -139.0 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 ALA A 358 REMARK 465 GLY A 359 REMARK 465 LEU A 360 REMARK 465 GLU A 361 REMARK 465 GLY A 362 REMARK 465 GLU A 363 REMARK 465 LEU A 364 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 CYS A 82 CB CYS A 82 SG -0.123 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 CYS A 165 CA - CB - SG ANGL. DEV. = 7.1 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 HIS A 47 14.19 52.05 REMARK 500 ALA A 127 103.53 -54.71 REMARK 500 ASN A 147 52.78 -99.43 REMARK 500 GLN A 211 120.02 -32.83 REMARK 500 ASN A 283 -168.32 -118.36 REMARK 500 SER A 299 21.46 -79.71 REMARK 500 ASP A 310 -146.70 -96.77 REMARK 500 PRO A 338 -176.53 -64.74 REMARK 500 ASP A 341 74.49 57.94 REMARK 500 ASP A 351 -45.08 58.76 REMARK 500 THR A 352 -59.58 95.03 REMARK 500 GLN A 366 -69.91 29.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DP6 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 505 DBREF 6N10 A 1 412 UNP O23722 MVD1_ARATH 1 412 SEQADV 6N10 GLY A -2 UNP O23722 EXPRESSION TAG SEQADV 6N10 SER A -1 UNP O23722 EXPRESSION TAG SEQADV 6N10 HIS A 0 UNP O23722 EXPRESSION TAG SEQRES 1 A 415 GLY SER HIS MET ALA GLU GLU LYS TRP VAL VAL MET VAL SEQRES 2 A 415 THR ALA GLN THR PRO THR ASN ILE ALA VAL ILE LYS TYR SEQRES 3 A 415 TRP GLY LYS ARG ASP GLU VAL ARG ILE LEU PRO ILE ASN SEQRES 4 A 415 ASP SER ILE SER VAL THR LEU ASP PRO ASP HIS LEU CYS SEQRES 5 A 415 THR LEU THR THR VAL ALA VAL SER PRO SER PHE ASP ARG SEQRES 6 A 415 ASP ARG MET TRP LEU ASN GLY LYS GLU ILE SER LEU SER SEQRES 7 A 415 GLY SER ARG TYR GLN ASN CYS LEU ARG GLU ILE ARG SER SEQRES 8 A 415 ARG ALA ASP ASP VAL GLU ASP LYS GLU LYS GLY ILE LYS SEQRES 9 A 415 ILE ALA LYS LYS ASP TRP GLU LYS LEU HIS LEU HIS ILE SEQRES 10 A 415 ALA SER HIS ASN ASN PHE PRO THR ALA ALA GLY LEU ALA SEQRES 11 A 415 SER SER ALA ALA GLY PHE ALA CYS LEU VAL PHE ALA LEU SEQRES 12 A 415 ALA LYS LEU MET ASN VAL ASN GLU ASP PRO SER GLN LEU SEQRES 13 A 415 SER ALA ILE ALA ARG GLN GLY SER GLY SER ALA CYS ARG SEQRES 14 A 415 SER LEU PHE GLY GLY PHE VAL LYS TRP ASN MET GLY ASN SEQRES 15 A 415 LYS GLU ASP GLY SER ASP SER VAL ALA VAL GLN LEU VAL SEQRES 16 A 415 ASP ASP LYS HIS TRP ASP ASP LEU VAL ILE ILE ILE ALA SEQRES 17 A 415 VAL VAL SER SER ARG GLN LYS GLU THR SER SER THR SER SEQRES 18 A 415 GLY MET ARG GLU SER VAL GLU THR SER LEU LEU LEU GLN SEQRES 19 A 415 HIS ARG ALA LYS GLU VAL VAL PRO VAL ARG ILE LEU GLN SEQRES 20 A 415 MET GLU GLU ALA ILE LYS ASN ARG ASP PHE THR SER PHE SEQRES 21 A 415 THR LYS LEU THR CYS SER ASP SER ASN GLN PHE HIS ALA SEQRES 22 A 415 VAL CYS MET ASP THR SER PRO PRO ILE PHE TYR MET ASN SEQRES 23 A 415 ASP THR SER HIS ARG ILE ILE SER LEU VAL GLU LYS TRP SEQRES 24 A 415 ASN ARG SER ALA GLY THR PRO GLU ILE ALA TYR THR PHE SEQRES 25 A 415 ASP ALA GLY PRO ASN ALA VAL MET ILE ALA ARG ASN ARG SEQRES 26 A 415 LYS VAL ALA VAL GLU LEU LEU GLN GLY LEU LEU TYR CYS SEQRES 27 A 415 PHE PRO PRO LYS PRO ASP THR ASP MET LYS SER TYR VAL SEQRES 28 A 415 LEU GLY ASP THR SER ILE VAL LYS GLU ALA GLY LEU GLU SEQRES 29 A 415 GLY GLU LEU PRO GLN GLY ILE LYS ASP LYS ILE GLY SER SEQRES 30 A 415 GLN ASP GLN LYS GLY GLU VAL SER TYR PHE ILE CYS SER SEQRES 31 A 415 ARG PRO GLY ARG GLY PRO VAL VAL LEU GLN ASP GLN THR SEQRES 32 A 415 GLN ALA LEU LEU HIS PRO GLN THR GLY LEU PRO LYS HET DP6 A 501 28 HET SO4 A 502 5 HET SO4 A 503 5 HET SO4 A 504 5 HET SO4 A 505 5 HETNAM DP6 (3R)-3-HYDROXY-5-{[(R)-HYDROXY(PHOSPHONOOXY) HETNAM 2 DP6 PHOSPHORYL]OXY}-3-METHYLPENTANOIC ACID HETNAM SO4 SULFATE ION FORMUL 2 DP6 C6 H14 O10 P2 FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *101(H2 O) HELIX 1 AA1 GLY A 76 SER A 88 1 13 HELIX 2 AA2 ALA A 103 LYS A 109 5 7 HELIX 3 AA3 ALA A 127 MET A 144 1 18 HELIX 4 AA4 ASP A 149 GLN A 159 1 11 HELIX 5 AA5 GLY A 160 PHE A 169 5 10 HELIX 6 AA6 SER A 215 SER A 227 1 13 HELIX 7 AA7 LEU A 229 VAL A 237 1 9 HELIX 8 AA8 VAL A 237 ASN A 251 1 15 HELIX 9 AA9 ASP A 253 ASP A 274 1 22 HELIX 10 AB1 ASN A 283 SER A 299 1 17 HELIX 11 AB2 ASN A 321 PHE A 336 1 16 HELIX 12 AB3 ASP A 343 TYR A 347 1 5 HELIX 13 AB4 ILE A 368 GLY A 373 1 6 HELIX 14 AB5 ASP A 398 ALA A 402 5 5 SHEET 1 AA1 6 LYS A 70 ILE A 72 0 SHEET 2 AA1 6 ARG A 64 LEU A 67 -1 N LEU A 67 O LYS A 70 SHEET 3 AA1 6 LEU A 112 ASN A 118 1 O ILE A 114 N ARG A 64 SHEET 4 AA1 6 THR A 50 VAL A 56 -1 N THR A 53 O ALA A 115 SHEET 5 AA1 6 VAL A 8 THR A 14 -1 N ALA A 12 O THR A 52 SHEET 6 AA1 6 VAL A 394 VAL A 395 -1 O VAL A 394 N GLN A 13 SHEET 1 AA2 4 ASN A 17 ILE A 21 0 SHEET 2 AA2 4 SER A 38 THR A 42 -1 O ILE A 39 N VAL A 20 SHEET 3 AA2 4 PHE A 172 TRP A 175 -1 O VAL A 173 N SER A 40 SHEET 4 AA2 4 ALA A 188 VAL A 192 -1 O LEU A 191 N PHE A 172 SHEET 1 AA3 2 LYS A 26 ASP A 28 0 SHEET 2 AA3 2 LEU A 33 PRO A 34 -1 O LEU A 33 N ARG A 27 SHEET 1 AA4 2 VAL A 93 ASP A 95 0 SHEET 2 AA4 2 ILE A 100 ILE A 102 -1 O ILE A 102 N VAL A 93 SHEET 1 AA5 5 ILE A 305 PHE A 309 0 SHEET 2 AA5 5 ALA A 315 ALA A 319 -1 O ILE A 318 N ALA A 306 SHEET 3 AA5 5 VAL A 201 VAL A 207 -1 N VAL A 201 O ALA A 319 SHEET 4 AA5 5 VAL A 381 SER A 387 -1 O TYR A 383 N VAL A 206 SHEET 5 AA5 5 VAL A 348 LEU A 349 1 N LEU A 349 O PHE A 384 CISPEP 1 SER A 276 PRO A 277 0 -6.44 SITE 1 AC1 15 ALA A 19 TYR A 23 LYS A 26 ARG A 78 SITE 2 AC1 15 SER A 161 GLY A 162 SER A 163 ARG A 166 SITE 3 AC1 15 SER A 216 THR A 217 MET A 220 PHE A 268 SITE 4 AC1 15 ASP A 310 HOH A 608 HOH A 624 SITE 1 AC2 6 SER A 59 PHE A 60 ASP A 61 ARG A 62 SITE 2 AC2 6 ARG A 64 HIS A 113 SITE 1 AC3 7 PHE A 169 GLY A 170 GLN A 190 ARG A 391 SITE 2 AC3 7 GLY A 392 HOH A 652 HOH A 673 SITE 1 AC4 3 LEU A 396 GLN A 397 ASP A 398 SITE 1 AC5 2 LYS A 180 GLU A 181 CRYST1 106.630 106.630 166.230 90.00 90.00 90.00 P 41 21 2 8 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 0.009378 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009378 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006016 0.00000