HEADER OXIDOREDUCTASE 24-JAN-24 8RS5 TITLE CRYSTAL STRUCTURE OF METHANOPYRUS KANDLERI MALATE DEHYDROGENASE MUTANT TITLE 2 4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MALATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.1.299; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOPYRUS KANDLERI; SOURCE 3 ORGANISM_TAXID: 2320; SOURCE 4 GENE: MDH, MK1069; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MALATE DEHYDROGENASE, ROSSMANN-LIKE MOTIF, NAD(P)H BINDING SITE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.COQUILLE,S.ENGILBERGE,D.MADERN REVDAT 1 10-JUL-24 8RS5 0 JRNL AUTH S.COQUILLE,C.SIMOES PEREIRA,C.BROCHIER-ARMANET,J.ROCHE, JRNL AUTH 2 G.SANTONI,N.COQUELLE,E.GIRARD,F.STERPONE,D.MADERN JRNL TITL NAVIGATING THE CONFORMATIONAL LANDSCAPE OF AN ENZYME. JRNL TITL 2 STABILIZATION OF A LOW POPULATED CONFORMER BY EVOLUTIONARY JRNL TITL 3 MUTATIONS TRIGGERS ALLOSTERY INTO A NON-ALLOSTERIC ENZYME. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.21_5207 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.92 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 55331 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.259 REMARK 3 R VALUE (WORKING SET) : 0.258 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2765 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 19.9200 - 5.2600 0.96 2804 148 0.2755 0.2890 REMARK 3 2 5.2600 - 4.1900 0.97 2694 141 0.2121 0.2248 REMARK 3 3 4.1900 - 3.6600 0.98 2657 140 0.2187 0.2297 REMARK 3 4 3.6600 - 3.3300 0.98 2632 139 0.2367 0.2896 REMARK 3 5 3.3300 - 3.0900 0.99 2610 137 0.2617 0.2968 REMARK 3 6 3.0900 - 2.9100 0.99 2661 141 0.2718 0.2843 REMARK 3 7 2.9100 - 2.7700 0.99 2604 137 0.2668 0.2963 REMARK 3 8 2.7700 - 2.6500 0.99 2633 138 0.2669 0.3465 REMARK 3 9 2.6500 - 2.5400 0.99 2630 138 0.2589 0.2711 REMARK 3 10 2.5400 - 2.4600 0.99 2615 138 0.2644 0.3004 REMARK 3 11 2.4600 - 2.3800 0.99 2607 137 0.2699 0.2881 REMARK 3 12 2.3800 - 2.3100 1.00 2606 137 0.2683 0.2897 REMARK 3 13 2.3100 - 2.2500 1.00 2604 137 0.2738 0.3069 REMARK 3 14 2.2500 - 2.2000 1.00 2608 138 0.2826 0.3340 REMARK 3 15 2.2000 - 2.1500 1.00 2607 137 0.2891 0.3565 REMARK 3 16 2.1500 - 2.1000 1.00 2597 137 0.2953 0.3018 REMARK 3 17 2.1000 - 2.0600 1.00 2590 135 0.3184 0.2956 REMARK 3 18 2.0600 - 2.0200 1.00 2610 137 0.3203 0.3495 REMARK 3 19 2.0200 - 1.9800 1.00 2600 137 0.3307 0.3884 REMARK 3 20 1.9800 - 1.9500 1.00 2597 136 0.3539 0.3588 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.339 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.579 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.96 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.48 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 : 0.009 4857 REMARK 3 ANGLE : 0.893 6602 REMARK 3 CHIRALITY : 0.049 797 REMARK 3 PLANARITY : 0.006 843 REMARK 3 DIHEDRAL : 14.556 1817 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 8RS5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1292136130. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAR-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8856 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55448 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 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 (%) : 99.0 REMARK 200 DATA REDUNDANCY : 7.390 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.1600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.68 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M POTASSIUM CITRATE TRIBASIC REMARK 280 MONOHYDRATE, 13-16% PEG 3350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 133.83500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 37.18000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 37.18000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 200.75250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 37.18000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 37.18000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 66.91750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 37.18000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.18000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 200.75250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 37.18000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.18000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 66.91750 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 133.83500 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 18370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 43220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -115.0 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 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 MET A 1 REMARK 465 PRO A 84 REMARK 465 GLN A 85 REMARK 465 LYS A 86 REMARK 465 PRO A 87 REMARK 465 GLY A 88 REMARK 465 GLN A 89 REMARK 465 THR A 90 REMARK 465 ARG A 91 REMARK 465 SER A 315 REMARK 465 GLU A 316 REMARK 465 ARG A 317 REMARK 465 MET B 1 REMARK 465 PRO B 84 REMARK 465 GLN B 85 REMARK 465 LYS B 86 REMARK 465 PRO B 87 REMARK 465 GLY B 88 REMARK 465 GLN B 89 REMARK 465 THR B 90 REMARK 465 ARG B 91 REMARK 465 ILE B 314 REMARK 465 SER B 315 REMARK 465 GLU B 316 REMARK 465 ARG B 317 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 ILE A 83 CG1 CG2 CD1 REMARK 470 LEU A 94 CG CD1 CD2 REMARK 470 LEU B 92 CG CD1 CD2 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 HE ARG A 274 OE2 GLU A 282 1.56 REMARK 500 O HOH B 544 O HOH B 618 2.13 REMARK 500 OD2 ASP A 93 O HOH A 501 2.14 REMARK 500 O HOH B 514 O HOH B 559 2.16 REMARK 500 O VAL A 280 O HOH A 502 2.18 REMARK 500 OD1 ASP A 151 NH2 ARG A 154 2.19 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 596 O HOH B 621 7555 2.19 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 CYS A 66 20.44 -145.59 REMARK 500 ASN A 113 85.50 -151.94 REMARK 500 VAL A 185 77.18 -103.93 REMARK 500 THR A 224 -72.02 -117.60 REMARK 500 GLN A 229 -67.95 -149.75 REMARK 500 ALA B 60 140.49 -174.00 REMARK 500 VAL B 185 77.72 -106.12 REMARK 500 THR B 224 -68.33 -124.58 REMARK 500 GLN B 229 -68.88 -157.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 612 DISTANCE = 6.58 ANGSTROMS 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 K A 404 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 22 O REMARK 620 2 LEU A 24 O 90.4 REMARK 620 3 VAL A 27 O 107.8 76.2 REMARK 620 4 ASP A 59 O 102.4 161.9 111.2 REMARK 620 5 HOH A 545 O 94.4 75.6 143.9 90.5 REMARK 620 6 HOH A 595 O 176.0 93.1 74.8 73.8 84.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 403 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 22 O REMARK 620 2 LEU B 24 O 94.4 REMARK 620 3 VAL B 27 O 108.4 74.0 REMARK 620 4 ASP B 59 O 93.4 165.5 114.9 REMARK 620 5 HOH B 539 O 93.8 69.4 138.4 97.9 REMARK 620 6 HOH B 581 O 170.1 85.8 81.3 84.4 77.0 REMARK 620 N 1 2 3 4 5 DBREF 8RS5 A 1 317 UNP Q8TWG5 MDH_METKA 1 317 DBREF 8RS5 B 1 317 UNP Q8TWG5 MDH_METKA 1 317 SEQADV 8RS5 HIS A 51 UNP Q8TWG5 ASP 51 ENGINEERED MUTATION SEQADV 8RS5 GLN A 85 UNP Q8TWG5 ARG 85 ENGINEERED MUTATION SEQADV 8RS5 SER A 146 UNP Q8TWG5 LEU 146 ENGINEERED MUTATION SEQADV 8RS5 THR A 228 UNP Q8TWG5 SER 228 ENGINEERED MUTATION SEQADV 8RS5 ILE A 232 UNP Q8TWG5 PRO 232 ENGINEERED MUTATION SEQADV 8RS5 HIS B 51 UNP Q8TWG5 ASP 51 ENGINEERED MUTATION SEQADV 8RS5 GLN B 85 UNP Q8TWG5 ARG 85 ENGINEERED MUTATION SEQADV 8RS5 SER B 146 UNP Q8TWG5 LEU 146 ENGINEERED MUTATION SEQADV 8RS5 THR B 228 UNP Q8TWG5 SER 228 ENGINEERED MUTATION SEQADV 8RS5 ILE B 232 UNP Q8TWG5 PRO 232 ENGINEERED MUTATION SEQRES 1 A 317 MET SER LYS VAL ALA VAL ILE GLY ALA THR GLY ARG VAL SEQRES 2 A 317 GLY SER THR ALA ALA ALA ARG LEU ALA LEU LEU ASP CYS SEQRES 3 A 317 VAL ASN GLU VAL THR LEU ILE ALA ARG PRO LYS SER VAL SEQRES 4 A 317 ASP LYS LEU ARG GLY LEU ARG ARG ASP ILE LEU HIS SER SEQRES 5 A 317 LEU ALA ALA ALA GLN LYS ASP ALA GLU ILE THR ILE GLY SEQRES 6 A 317 CYS GLU ARG ASP ASP TYR VAL ASP ALA ASP VAL ILE VAL SEQRES 7 A 317 MET THR ALA GLY ILE PRO GLN LYS PRO GLY GLN THR ARG SEQRES 8 A 317 LEU ASP LEU THR LYS ASP ASN ALA ALA ILE ILE LYS LYS SEQRES 9 A 317 TYR LEU GLU GLY VAL ALA GLU GLU ASN PRO GLU ALA ILE SEQRES 10 A 317 VAL LEU VAL VAL THR ASN PRO VAL ASP VAL LEU THR TYR SEQRES 11 A 317 VAL ALA LEU LYS VAL SER GLY LEU PRO LYS ASN ARG VAL SEQRES 12 A 317 ILE GLY SER GLY THR HIS LEU ASP SER MET ARG PHE LYS SEQRES 13 A 317 VAL LEU ILE ALA LYS HIS PHE ASN VAL HIS MET SER GLU SEQRES 14 A 317 VAL HIS THR ARG ILE ILE GLY GLU HIS GLY ASP THR MET SEQRES 15 A 317 VAL PRO VAL ILE SER SER THR SER VAL GLY GLY ILE PRO SEQRES 16 A 317 VAL THR ARG MET PRO GLY TRP GLU ASP PHE ASP VAL GLU SEQRES 17 A 317 GLU ALA VAL ARG GLU VAL LYS GLU ALA GLY GLN ARG ILE SEQRES 18 A 317 ILE GLU THR TRP GLY GLY THR GLN PHE GLY ILE ALA GLN SEQRES 19 A 317 ALA ILE THR ASN LEU VAL ARG THR ILE LEU GLN ASP GLU SEQRES 20 A 317 ARG ARG VAL LEU THR VAL SER ALA TYR LEU ASP GLY GLU SEQRES 21 A 317 ILE ASP GLY ILE ARG ASP VAL CYS ILE GLY VAL PRO ALA SEQRES 22 A 317 ARG LEU GLY ARG GLU GLY VAL LEU GLU ILE VAL PRO ILE SEQRES 23 A 317 GLU LEU GLU GLU ASP GLU MET ARG ALA PHE ARG ARG SER SEQRES 24 A 317 VAL LYS VAL VAL LYS GLU ALA THR ARG GLU ALA MET GLU SEQRES 25 A 317 ALA ILE SER GLU ARG SEQRES 1 B 317 MET SER LYS VAL ALA VAL ILE GLY ALA THR GLY ARG VAL SEQRES 2 B 317 GLY SER THR ALA ALA ALA ARG LEU ALA LEU LEU ASP CYS SEQRES 3 B 317 VAL ASN GLU VAL THR LEU ILE ALA ARG PRO LYS SER VAL SEQRES 4 B 317 ASP LYS LEU ARG GLY LEU ARG ARG ASP ILE LEU HIS SER SEQRES 5 B 317 LEU ALA ALA ALA GLN LYS ASP ALA GLU ILE THR ILE GLY SEQRES 6 B 317 CYS GLU ARG ASP ASP TYR VAL ASP ALA ASP VAL ILE VAL SEQRES 7 B 317 MET THR ALA GLY ILE PRO GLN LYS PRO GLY GLN THR ARG SEQRES 8 B 317 LEU ASP LEU THR LYS ASP ASN ALA ALA ILE ILE LYS LYS SEQRES 9 B 317 TYR LEU GLU GLY VAL ALA GLU GLU ASN PRO GLU ALA ILE SEQRES 10 B 317 VAL LEU VAL VAL THR ASN PRO VAL ASP VAL LEU THR TYR SEQRES 11 B 317 VAL ALA LEU LYS VAL SER GLY LEU PRO LYS ASN ARG VAL SEQRES 12 B 317 ILE GLY SER GLY THR HIS LEU ASP SER MET ARG PHE LYS SEQRES 13 B 317 VAL LEU ILE ALA LYS HIS PHE ASN VAL HIS MET SER GLU SEQRES 14 B 317 VAL HIS THR ARG ILE ILE GLY GLU HIS GLY ASP THR MET SEQRES 15 B 317 VAL PRO VAL ILE SER SER THR SER VAL GLY GLY ILE PRO SEQRES 16 B 317 VAL THR ARG MET PRO GLY TRP GLU ASP PHE ASP VAL GLU SEQRES 17 B 317 GLU ALA VAL ARG GLU VAL LYS GLU ALA GLY GLN ARG ILE SEQRES 18 B 317 ILE GLU THR TRP GLY GLY THR GLN PHE GLY ILE ALA GLN SEQRES 19 B 317 ALA ILE THR ASN LEU VAL ARG THR ILE LEU GLN ASP GLU SEQRES 20 B 317 ARG ARG VAL LEU THR VAL SER ALA TYR LEU ASP GLY GLU SEQRES 21 B 317 ILE ASP GLY ILE ARG ASP VAL CYS ILE GLY VAL PRO ALA SEQRES 22 B 317 ARG LEU GLY ARG GLU GLY VAL LEU GLU ILE VAL PRO ILE SEQRES 23 B 317 GLU LEU GLU GLU ASP GLU MET ARG ALA PHE ARG ARG SER SEQRES 24 B 317 VAL LYS VAL VAL LYS GLU ALA THR ARG GLU ALA MET GLU SEQRES 25 B 317 ALA ILE SER GLU ARG HET NDP A 401 74 HET CL A 402 1 HET CL A 403 1 HET K A 404 1 HET NDP B 401 74 HET CL B 402 1 HET K B 403 1 HETNAM NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NDP PHOSPHATE HETNAM CL CHLORIDE ION HETNAM K POTASSIUM ION FORMUL 3 NDP 2(C21 H30 N7 O17 P3) FORMUL 4 CL 3(CL 1-) FORMUL 6 K 2(K 1+) FORMUL 10 HOH *246(H2 O) HELIX 1 AA1 GLY A 11 LEU A 23 1 13 HELIX 2 AA2 ARG A 35 LYS A 37 5 3 HELIX 3 AA3 SER A 38 GLN A 57 1 20 HELIX 4 AA4 GLU A 67 VAL A 72 1 6 HELIX 5 AA5 ASP A 93 GLU A 107 1 15 HELIX 6 AA6 GLY A 108 ASN A 113 1 6 HELIX 7 AA7 PRO A 124 GLY A 137 1 14 HELIX 8 AA8 PRO A 139 ASN A 141 5 3 HELIX 9 AA9 THR A 148 ASN A 164 1 17 HELIX 10 AB1 HIS A 166 SER A 168 5 3 HELIX 11 AB2 ILE A 186 SER A 188 5 3 HELIX 12 AB3 THR A 197 MET A 199 5 3 HELIX 13 AB4 GLY A 201 PHE A 205 5 5 HELIX 14 AB5 ASP A 206 TRP A 225 1 20 HELIX 15 AB6 GLN A 229 GLN A 245 1 17 HELIX 16 AB7 GLU A 289 ILE A 314 1 26 HELIX 17 AB8 GLY B 11 LEU B 23 1 13 HELIX 18 AB9 ARG B 35 LYS B 37 5 3 HELIX 19 AC1 SER B 38 ALA B 56 1 19 HELIX 20 AC2 GLU B 67 TYR B 71 5 5 HELIX 21 AC3 ASP B 93 GLU B 107 1 15 HELIX 22 AC4 GLY B 108 ASN B 113 1 6 HELIX 23 AC5 PRO B 124 GLY B 137 1 14 HELIX 24 AC6 PRO B 139 ASN B 141 5 3 HELIX 25 AC7 THR B 148 ASN B 164 1 17 HELIX 26 AC8 HIS B 166 SER B 168 5 3 HELIX 27 AC9 ILE B 186 SER B 188 5 3 HELIX 28 AD1 THR B 197 MET B 199 5 3 HELIX 29 AD2 GLY B 201 PHE B 205 5 5 HELIX 30 AD3 ASP B 206 GLU B 223 1 18 HELIX 31 AD4 GLN B 229 GLN B 245 1 17 HELIX 32 AD5 GLU B 289 ALA B 313 1 25 SHEET 1 AA1 6 GLU A 61 GLY A 65 0 SHEET 2 AA1 6 GLU A 29 ILE A 33 1 N VAL A 30 O GLU A 61 SHEET 3 AA1 6 LYS A 3 ILE A 7 1 N VAL A 6 O THR A 31 SHEET 4 AA1 6 VAL A 76 MET A 79 1 O VAL A 78 N ALA A 5 SHEET 5 AA1 6 ILE A 117 VAL A 120 1 O ILE A 117 N ILE A 77 SHEET 6 AA1 6 VAL A 143 GLY A 145 1 O ILE A 144 N VAL A 118 SHEET 1 AA2 3 VAL A 170 HIS A 171 0 SHEET 2 AA2 3 SER A 190 VAL A 191 -1 O SER A 190 N HIS A 171 SHEET 3 AA2 3 ILE A 194 PRO A 195 -1 O ILE A 194 N VAL A 191 SHEET 1 AA3 2 ILE A 174 ILE A 175 0 SHEET 2 AA3 2 VAL A 183 PRO A 184 -1 O VAL A 183 N ILE A 175 SHEET 1 AA4 3 ARG A 249 ASP A 258 0 SHEET 2 AA4 3 ARG A 265 GLY A 276 -1 O VAL A 267 N LEU A 257 SHEET 3 AA4 3 GLY A 279 ILE A 283 -1 O LEU A 281 N ARG A 274 SHEET 1 AA5 6 GLU B 61 GLY B 65 0 SHEET 2 AA5 6 GLU B 29 ILE B 33 1 N LEU B 32 O THR B 63 SHEET 3 AA5 6 LYS B 3 ILE B 7 1 N VAL B 6 O THR B 31 SHEET 4 AA5 6 VAL B 76 MET B 79 1 O VAL B 78 N ALA B 5 SHEET 5 AA5 6 ILE B 117 VAL B 120 1 O LEU B 119 N MET B 79 SHEET 6 AA5 6 VAL B 143 GLY B 145 1 O ILE B 144 N VAL B 120 SHEET 1 AA6 3 VAL B 170 HIS B 171 0 SHEET 2 AA6 3 SER B 190 VAL B 191 -1 O SER B 190 N HIS B 171 SHEET 3 AA6 3 ILE B 194 PRO B 195 -1 O ILE B 194 N VAL B 191 SHEET 1 AA7 2 ILE B 174 ILE B 175 0 SHEET 2 AA7 2 VAL B 183 PRO B 184 -1 O VAL B 183 N ILE B 175 SHEET 1 AA8 3 ARG B 249 ASP B 258 0 SHEET 2 AA8 3 ARG B 265 GLY B 276 -1 O VAL B 267 N LEU B 257 SHEET 3 AA8 3 GLY B 279 ILE B 283 -1 O LEU B 281 N ARG B 274 LINK O ALA A 22 K K A 404 1555 1555 2.62 LINK O LEU A 24 K K A 404 1555 1555 2.56 LINK O VAL A 27 K K A 404 1555 1555 2.64 LINK O ASP A 59 K K A 404 1555 1555 2.76 LINK K K A 404 O HOH A 545 1555 1555 2.95 LINK K K A 404 O HOH A 595 1555 1555 2.79 LINK O ALA B 22 K K B 403 1555 1555 2.77 LINK O LEU B 24 K K B 403 1555 1555 2.57 LINK O VAL B 27 K K B 403 1555 1555 2.56 LINK O ASP B 59 K K B 403 1555 1555 2.66 LINK K K B 403 O HOH B 539 1555 1555 2.87 LINK K K B 403 O HOH B 581 1555 1555 2.69 CISPEP 1 ASN A 123 PRO A 124 0 -1.89 CISPEP 2 ASN B 123 PRO B 124 0 -0.78 CRYST1 74.360 74.360 267.670 90.00 90.00 90.00 P 43 21 2 16 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 0.013448 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013448 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003736 0.00000