HEADER TRANSFERASE 19-APR-18 6D5X TITLE STRUCTURE OF HUMAN ATP:COBALAMIN ADENOSYLTRANSFERASE BOUND TO ATP, TITLE 2 ADENOSYLCOBALAMIN, AND TRIPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: COB(I)YRINIC ACID A,C-DIAMIDE ADENOSYLTRANSFERASE, COMPND 3 MITOCHONDRIAL; COMPND 4 CHAIN: A, B, C; COMPND 5 SYNONYM: COB(I)ALAMIN ADENOSYLTRANSFERASE,METHYLMALONIC ACIDURIA TYPE COMPND 6 B PROTEIN; COMPND 7 EC: 2.5.1.17; COMPND 8 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: MMAB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS B12, METABOLISM, ADENOSYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR G.J.DODGE,G.CAMPANELLO,J.L.SMITH,R.BANERJEE REVDAT 5 13-MAR-24 6D5X 1 LINK REVDAT 4 25-DEC-19 6D5X 1 REMARK REVDAT 3 31-OCT-18 6D5X 1 JRNL REVDAT 2 17-OCT-18 6D5X 1 COMPND JRNL REVDAT 1 10-OCT-18 6D5X 0 JRNL AUTH G.C.CAMPANELLO,M.RUETZ,G.J.DODGE,H.GOUDA,A.GUPTA,U.T.TWAHIR, JRNL AUTH 2 M.M.KILLIAN,D.WATKINS,D.S.ROSENBLATT,T.C.BRUNOLD,K.WARNCKE, JRNL AUTH 3 J.L.SMITH,R.BANERJEE JRNL TITL SACRIFICIAL COBALT-CARBON BOND HOMOLYSIS IN COENZYME B12AS A JRNL TITL 2 COFACTOR CONSERVATION STRATEGY. JRNL REF J. AM. CHEM. SOC. V. 140 13205 2018 JRNL REFN ESSN 1520-5126 JRNL PMID 30282455 JRNL DOI 10.1021/JACS.8B08659 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 65432 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.810 REMARK 3 FREE R VALUE TEST SET COUNT : 2013 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 48.8041 - 7.1930 1.00 2294 142 0.1329 0.1510 REMARK 3 2 7.1930 - 5.7121 1.00 2279 142 0.1701 0.1940 REMARK 3 3 5.7121 - 4.9909 1.00 2283 144 0.1577 0.1611 REMARK 3 4 4.9909 - 4.5349 1.00 2254 140 0.1378 0.1508 REMARK 3 5 4.5349 - 4.2101 1.00 2296 148 0.1316 0.1723 REMARK 3 6 4.2101 - 3.9620 1.00 2278 144 0.1526 0.1665 REMARK 3 7 3.9620 - 3.7636 1.00 2291 144 0.1588 0.2012 REMARK 3 8 3.7636 - 3.5999 1.00 2312 134 0.1704 0.2205 REMARK 3 9 3.5999 - 3.4613 1.00 2272 146 0.1850 0.2360 REMARK 3 10 3.4613 - 3.3419 1.00 2260 142 0.1984 0.2079 REMARK 3 11 3.3419 - 3.2374 1.00 2286 144 0.1936 0.2327 REMARK 3 12 3.2374 - 3.1449 1.00 2282 138 0.2030 0.2753 REMARK 3 13 3.1449 - 3.0621 1.00 2290 136 0.1999 0.2621 REMARK 3 14 3.0621 - 2.9874 1.00 2330 136 0.2068 0.2278 REMARK 3 15 2.9874 - 2.9195 1.00 2237 136 0.2227 0.2452 REMARK 3 16 2.9195 - 2.8574 1.00 2309 140 0.2463 0.2741 REMARK 3 17 2.8574 - 2.8002 1.00 2297 138 0.2620 0.2890 REMARK 3 18 2.8002 - 2.7474 1.00 2239 144 0.2752 0.3266 REMARK 3 19 2.7474 - 2.6983 1.00 2346 141 0.2682 0.3015 REMARK 3 20 2.6983 - 2.6526 1.00 2258 140 0.2668 0.2825 REMARK 3 21 2.6526 - 2.6098 1.00 2282 134 0.2787 0.3383 REMARK 3 22 2.6098 - 2.5697 1.00 2253 138 0.2856 0.2656 REMARK 3 23 2.5697 - 2.5319 1.00 2323 146 0.2837 0.3061 REMARK 3 24 2.5319 - 2.4962 1.00 2286 142 0.3063 0.3013 REMARK 3 25 2.4962 - 2.4625 1.00 2260 139 0.3581 0.3625 REMARK 3 26 2.4625 - 2.4305 1.00 2278 140 0.3928 0.4381 REMARK 3 27 2.4305 - 2.4001 1.00 2258 141 0.4412 0.4447 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.370 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 59.73 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.73 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN B AND (RESID 61 THROUGH 80 OR REMARK 3 RESID 82 THROUGH 239)) REMARK 3 SELECTION : (CHAIN C AND (RESID 61 THROUGH 80 OR REMARK 3 RESID 82 THROUGH 239)) REMARK 3 ATOM PAIRS NUMBER : 1623 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6D5X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-APR-18. REMARK 100 THE DEPOSITION ID IS D_1000234002. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUN-17 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5498 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34408 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 48.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.10 REMARK 200 R MERGE FOR SHELL (I) : 1.40400 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: NULL 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 (%): 62.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19% PEG 3350, 0.2 M MGSO4, 10 % REMARK 280 GLYCEROL, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.31300 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 78.62600 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 78.62600 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 39.31300 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -98.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 29760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -273.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -78.62600 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 55 REMARK 465 PRO A 56 REMARK 465 LYS A 57 REMARK 465 ILE A 58 REMARK 465 TYR A 59 REMARK 465 THR A 60 REMARK 465 LYS A 61 REMARK 465 THR A 62 REMARK 465 GLY A 63 REMARK 465 ASP A 64 REMARK 465 LYS A 65 REMARK 465 GLY A 66 REMARK 465 PHE A 67 REMARK 465 SER A 68 REMARK 465 SER A 69 REMARK 465 THR A 70 REMARK 465 PHE A 71 REMARK 465 THR A 72 REMARK 465 GLY A 73 REMARK 465 GLU A 74 REMARK 465 ARG A 75 REMARK 465 ARG A 76 REMARK 465 PRO A 77 REMARK 465 LYS A 78 REMARK 465 PRO A 131 REMARK 465 CYS A 132 REMARK 465 SER A 133 REMARK 465 SER A 134 REMARK 465 ALA A 135 REMARK 465 ARG A 136 REMARK 465 GLU A 137 REMARK 465 ALA A 138 REMARK 465 HIS A 139 REMARK 465 LEU A 140 REMARK 465 LYS A 240 REMARK 465 ASN A 241 REMARK 465 ASP A 242 REMARK 465 PRO A 243 REMARK 465 SER A 244 REMARK 465 ALA A 245 REMARK 465 GLU A 246 REMARK 465 SER A 247 REMARK 465 GLU A 248 REMARK 465 GLY A 249 REMARK 465 LEU A 250 REMARK 465 MET B 55 REMARK 465 PRO B 56 REMARK 465 LYS B 240 REMARK 465 ASN B 241 REMARK 465 ASP B 242 REMARK 465 PRO B 243 REMARK 465 SER B 244 REMARK 465 ALA B 245 REMARK 465 GLU B 246 REMARK 465 SER B 247 REMARK 465 GLU B 248 REMARK 465 GLY B 249 REMARK 465 LEU B 250 REMARK 465 MET C 55 REMARK 465 PRO C 56 REMARK 465 LYS C 57 REMARK 465 ILE C 58 REMARK 465 TYR C 59 REMARK 465 THR C 60 REMARK 465 ASP C 242 REMARK 465 PRO C 243 REMARK 465 SER C 244 REMARK 465 ALA C 245 REMARK 465 GLU C 246 REMARK 465 SER C 247 REMARK 465 GLU C 248 REMARK 465 GLY C 249 REMARK 465 LEU C 250 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 SER A 174 -165.95 -167.77 REMARK 500 LYS B 61 -1.05 76.55 REMARK 500 HIS B 139 9.56 80.95 REMARK 500 LYS B 141 -163.23 -74.18 REMARK 500 THR B 143 66.37 62.13 REMARK 500 SER B 174 -163.86 -177.30 REMARK 500 ILE B 237 -159.29 -136.62 REMARK 500 TYR B 238 -149.97 70.18 REMARK 500 THR C 104 1.35 -67.83 REMARK 500 LYS C 106 -83.81 -115.91 REMARK 500 HIS C 108 -76.53 -98.75 REMARK 500 SER C 174 -167.41 -176.37 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 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 214 OD1 REMARK 620 2 3PO A 305 O3G 154.6 REMARK 620 3 3PO A 305 O2B 96.8 75.4 REMARK 620 4 3PO A 305 O1A 90.5 64.2 72.7 REMARK 620 5 HOH A 406 O 83.3 116.4 73.9 145.0 REMARK 620 6 HOH A 410 O 88.3 98.2 173.3 103.1 111.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 B12 A 302 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 5AD A 301 C5' REMARK 620 2 B12 A 302 N21 100.9 REMARK 620 3 B12 A 302 N22 107.6 89.4 REMARK 620 4 B12 A 302 N23 83.5 171.8 96.0 REMARK 620 5 B12 A 302 N24 77.1 84.0 172.6 90.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 B12 B 302 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 5AD B 301 C5' REMARK 620 2 B12 B 302 N21 103.5 REMARK 620 3 B12 B 302 N22 109.4 88.8 REMARK 620 4 B12 B 302 N23 87.2 166.2 95.8 REMARK 620 5 B12 B 302 N24 80.3 83.4 168.8 90.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 418 O REMARK 620 2 ATP C 301 O1A 155.2 REMARK 620 3 HOH C 410 O 75.4 79.7 REMARK 620 4 HOH C 412 O 113.7 90.3 162.3 REMARK 620 5 HOH C 416 O 93.6 85.4 87.6 77.0 REMARK 620 6 HOH C 422 O 94.3 85.9 91.0 102.9 171.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 306 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN C 214 OD1 REMARK 620 2 ATP C 301 O3G 91.7 REMARK 620 3 ATP C 301 O2B 100.1 72.2 REMARK 620 4 ATP C 301 O2A 177.1 87.5 77.0 REMARK 620 5 HOH C 403 O 80.6 98.9 171.1 102.3 REMARK 620 6 HOH C 411 O 84.5 156.9 86.0 95.1 102.9 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 5AD A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B12 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 3PO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5AD B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B12 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ATP C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 306 DBREF 6D5X A 56 250 UNP Q96EY8 MMAB_HUMAN 56 250 DBREF 6D5X B 56 250 UNP Q96EY8 MMAB_HUMAN 56 250 DBREF 6D5X C 56 250 UNP Q96EY8 MMAB_HUMAN 56 250 SEQADV 6D5X MET A 55 UNP Q96EY8 INITIATING METHIONINE SEQADV 6D5X MET B 55 UNP Q96EY8 INITIATING METHIONINE SEQADV 6D5X MET C 55 UNP Q96EY8 INITIATING METHIONINE SEQRES 1 A 196 MET PRO LYS ILE TYR THR LYS THR GLY ASP LYS GLY PHE SEQRES 2 A 196 SER SER THR PHE THR GLY GLU ARG ARG PRO LYS ASP ASP SEQRES 3 A 196 GLN VAL PHE GLU ALA VAL GLY THR THR ASP GLU LEU SER SEQRES 4 A 196 SER ALA ILE GLY PHE ALA LEU GLU LEU VAL THR GLU LYS SEQRES 5 A 196 GLY HIS THR PHE ALA GLU GLU LEU GLN LYS ILE GLN CYS SEQRES 6 A 196 THR LEU GLN ASP VAL GLY SER ALA LEU ALA THR PRO CYS SEQRES 7 A 196 SER SER ALA ARG GLU ALA HIS LEU LYS TYR THR THR PHE SEQRES 8 A 196 LYS ALA GLY PRO ILE LEU GLU LEU GLU GLN TRP ILE ASP SEQRES 9 A 196 LYS TYR THR SER GLN LEU PRO PRO LEU THR ALA PHE ILE SEQRES 10 A 196 LEU PRO SER GLY GLY LYS ILE SER SER ALA LEU HIS PHE SEQRES 11 A 196 CYS ARG ALA VAL CYS ARG ARG ALA GLU ARG ARG VAL VAL SEQRES 12 A 196 PRO LEU VAL GLN MET GLY GLU THR ASP ALA ASN VAL ALA SEQRES 13 A 196 LYS PHE LEU ASN ARG LEU SER ASP TYR LEU PHE THR LEU SEQRES 14 A 196 ALA ARG TYR ALA ALA MET LYS GLU GLY ASN GLN GLU LYS SEQRES 15 A 196 ILE TYR MET LYS ASN ASP PRO SER ALA GLU SER GLU GLY SEQRES 16 A 196 LEU SEQRES 1 B 196 MET PRO LYS ILE TYR THR LYS THR GLY ASP LYS GLY PHE SEQRES 2 B 196 SER SER THR PHE THR GLY GLU ARG ARG PRO LYS ASP ASP SEQRES 3 B 196 GLN VAL PHE GLU ALA VAL GLY THR THR ASP GLU LEU SER SEQRES 4 B 196 SER ALA ILE GLY PHE ALA LEU GLU LEU VAL THR GLU LYS SEQRES 5 B 196 GLY HIS THR PHE ALA GLU GLU LEU GLN LYS ILE GLN CYS SEQRES 6 B 196 THR LEU GLN ASP VAL GLY SER ALA LEU ALA THR PRO CYS SEQRES 7 B 196 SER SER ALA ARG GLU ALA HIS LEU LYS TYR THR THR PHE SEQRES 8 B 196 LYS ALA GLY PRO ILE LEU GLU LEU GLU GLN TRP ILE ASP SEQRES 9 B 196 LYS TYR THR SER GLN LEU PRO PRO LEU THR ALA PHE ILE SEQRES 10 B 196 LEU PRO SER GLY GLY LYS ILE SER SER ALA LEU HIS PHE SEQRES 11 B 196 CYS ARG ALA VAL CYS ARG ARG ALA GLU ARG ARG VAL VAL SEQRES 12 B 196 PRO LEU VAL GLN MET GLY GLU THR ASP ALA ASN VAL ALA SEQRES 13 B 196 LYS PHE LEU ASN ARG LEU SER ASP TYR LEU PHE THR LEU SEQRES 14 B 196 ALA ARG TYR ALA ALA MET LYS GLU GLY ASN GLN GLU LYS SEQRES 15 B 196 ILE TYR MET LYS ASN ASP PRO SER ALA GLU SER GLU GLY SEQRES 16 B 196 LEU SEQRES 1 C 196 MET PRO LYS ILE TYR THR LYS THR GLY ASP LYS GLY PHE SEQRES 2 C 196 SER SER THR PHE THR GLY GLU ARG ARG PRO LYS ASP ASP SEQRES 3 C 196 GLN VAL PHE GLU ALA VAL GLY THR THR ASP GLU LEU SER SEQRES 4 C 196 SER ALA ILE GLY PHE ALA LEU GLU LEU VAL THR GLU LYS SEQRES 5 C 196 GLY HIS THR PHE ALA GLU GLU LEU GLN LYS ILE GLN CYS SEQRES 6 C 196 THR LEU GLN ASP VAL GLY SER ALA LEU ALA THR PRO CYS SEQRES 7 C 196 SER SER ALA ARG GLU ALA HIS LEU LYS TYR THR THR PHE SEQRES 8 C 196 LYS ALA GLY PRO ILE LEU GLU LEU GLU GLN TRP ILE ASP SEQRES 9 C 196 LYS TYR THR SER GLN LEU PRO PRO LEU THR ALA PHE ILE SEQRES 10 C 196 LEU PRO SER GLY GLY LYS ILE SER SER ALA LEU HIS PHE SEQRES 11 C 196 CYS ARG ALA VAL CYS ARG ARG ALA GLU ARG ARG VAL VAL SEQRES 12 C 196 PRO LEU VAL GLN MET GLY GLU THR ASP ALA ASN VAL ALA SEQRES 13 C 196 LYS PHE LEU ASN ARG LEU SER ASP TYR LEU PHE THR LEU SEQRES 14 C 196 ALA ARG TYR ALA ALA MET LYS GLU GLY ASN GLN GLU LYS SEQRES 15 C 196 ILE TYR MET LYS ASN ASP PRO SER ALA GLU SER GLU GLY SEQRES 16 C 196 LEU HET 5AD A 301 18 HET B12 A 302 91 HET SO4 A 303 5 HET MG A 304 1 HET 3PO A 305 13 HET 5AD B 301 18 HET B12 B 302 91 HET SO4 B 303 5 HET ATP C 301 31 HET MG C 302 1 HET SO4 C 303 5 HET SO4 C 304 5 HET SO4 C 305 5 HET MG C 306 1 HETNAM 5AD 5'-DEOXYADENOSINE HETNAM B12 COBALAMIN HETNAM SO4 SULFATE ION HETNAM MG MAGNESIUM ION HETNAM 3PO TRIPHOSPHATE HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE FORMUL 4 5AD 2(C10 H13 N5 O3) FORMUL 5 B12 2(C62 H89 CO N13 O14 P 2+) FORMUL 6 SO4 5(O4 S 2-) FORMUL 7 MG 3(MG 2+) FORMUL 8 3PO H5 O10 P3 FORMUL 12 ATP C10 H16 N5 O13 P3 FORMUL 18 HOH *74(H2 O) HELIX 1 AA1 ASP A 79 GLU A 101 1 23 HELIX 2 AA2 HIS A 108 ALA A 129 1 22 HELIX 3 AA3 ALA A 147 SER A 162 1 16 HELIX 4 AA4 GLY A 176 MET A 202 1 27 HELIX 5 AA5 ASP A 206 GLU A 231 1 26 HELIX 6 AA6 ASP B 80 GLU B 101 1 22 HELIX 7 AA7 HIS B 108 ALA B 129 1 22 HELIX 8 AA8 PRO B 131 ALA B 138 1 8 HELIX 9 AA9 ALA B 147 SER B 162 1 16 HELIX 10 AB1 GLY B 176 MET B 202 1 27 HELIX 11 AB2 ASP B 206 GLY B 232 1 27 HELIX 12 AB3 ASP C 80 THR C 104 1 25 HELIX 13 AB4 HIS C 108 ALA C 129 1 22 HELIX 14 AB5 ARG C 136 ALA C 138 5 3 HELIX 15 AB6 HIS C 139 THR C 144 1 6 HELIX 16 AB7 ALA C 147 LEU C 164 1 18 HELIX 17 AB8 GLY C 176 GLN C 201 1 26 HELIX 18 AB9 ASP C 206 GLY C 232 1 27 SHEET 1 AA1 2 PHE B 67 SER B 69 0 SHEET 2 AA1 2 ARG B 75 PRO B 77 -1 O ARG B 76 N SER B 68 SHEET 1 AA2 2 PHE C 67 SER C 69 0 SHEET 2 AA2 2 ARG C 75 PRO C 77 -1 O ARG C 76 N SER C 68 LINK OD1 ASN A 214 MG MG A 304 1555 1555 2.02 LINK C5' 5AD A 301 CO B12 A 302 1555 1555 2.08 LINK MG MG A 304 O3G 3PO A 305 1555 1555 1.77 LINK MG MG A 304 O2B 3PO A 305 1555 1555 2.65 LINK MG MG A 304 O1A 3PO A 305 1555 1555 2.05 LINK MG MG A 304 O HOH A 406 1555 1555 2.16 LINK MG MG A 304 O HOH A 410 1555 1555 2.27 LINK C5' 5AD B 301 CO B12 B 302 1555 1555 2.07 LINK O HOH B 418 MG MG C 302 1555 1555 2.06 LINK OD1 ASN C 214 MG MG C 306 1555 1555 2.04 LINK O1A ATP C 301 MG MG C 302 1555 1555 2.10 LINK O3G ATP C 301 MG MG C 306 1555 1555 2.13 LINK O2B ATP C 301 MG MG C 306 1555 1555 1.99 LINK O2A ATP C 301 MG MG C 306 1555 1555 1.89 LINK MG MG C 302 O HOH C 410 1555 1555 2.07 LINK MG MG C 302 O HOH C 412 1555 1555 2.00 LINK MG MG C 302 O HOH C 416 1555 1555 2.13 LINK MG MG C 302 O HOH C 422 1555 1555 2.20 LINK MG MG C 306 O HOH C 403 1555 1555 2.16 LINK MG MG C 306 O HOH C 411 1555 1555 2.21 SITE 1 AC1 9 ARG A 190 GLU A 193 ARG A 194 B12 A 302 SITE 2 AC1 9 3PO A 305 HOH A 406 SER C 68 SER C 69 SITE 3 AC1 9 PHE C 83 SITE 1 AC2 19 THR A 168 ALA A 169 PHE A 170 ILE A 171 SITE 2 AC2 19 ARG A 186 ARG A 190 SER A 217 ASP A 218 SITE 3 AC2 19 PHE A 221 5AD A 301 3PO A 305 HOH A 411 SITE 4 AC2 19 PHE C 71 VAL C 86 GLN C 122 SER C 126 SITE 5 AC2 19 ALA C 129 TYR C 142 HOH C 402 SITE 1 AC3 4 HIS A 108 THR A 109 PHE A 110 TYR A 226 SITE 1 AC4 4 ASN A 214 3PO A 305 HOH A 406 HOH A 410 SITE 1 AC5 11 ARG A 190 ASN A 214 ASP A 218 5AD A 301 SITE 2 AC5 11 B12 A 302 MG A 304 HOH A 406 HOH A 410 SITE 3 AC5 11 THR C 62 SER C 68 LYS C 78 SITE 1 AC6 5 PHE A 83 ARG B 190 GLU B 193 ARG B 194 SITE 2 AC6 5 B12 B 302 SITE 1 AC7 14 VAL A 86 ASP A 90 GLN A 122 SER A 126 SITE 2 AC7 14 LYS B 57 LEU B 167 THR B 168 PHE B 170 SITE 3 AC7 14 ILE B 171 ARG B 186 ARG B 190 SER B 217 SITE 4 AC7 14 PHE B 221 5AD B 301 SITE 1 AC8 4 HIS B 108 THR B 109 PHE B 110 TYR B 226 SITE 1 AC9 20 THR B 60 LYS B 61 THR B 62 GLY B 63 SITE 2 AC9 20 SER B 68 SER B 69 LYS B 78 PHE B 83 SITE 3 AC9 20 HOH B 406 ARG C 190 GLU C 193 ARG C 194 SITE 4 AC9 20 ASN C 214 MG C 302 MG C 306 HOH C 410 SITE 5 AC9 20 HOH C 411 HOH C 412 HOH C 416 HOH C 422 SITE 1 AD1 6 HOH B 418 ATP C 301 HOH C 410 HOH C 412 SITE 2 AD1 6 HOH C 416 HOH C 422 SITE 1 AD2 5 GLY C 107 HIS C 108 THR C 109 PHE C 110 SITE 2 AD2 5 TYR C 226 SITE 1 AD3 3 ALA C 147 ASN C 208 HOH C 424 SITE 1 AD4 3 LYS B 211 ARG B 215 LYS C 141 SITE 1 AD5 4 ASN C 214 ATP C 301 HOH C 403 HOH C 411 CRYST1 112.685 112.685 117.939 90.00 90.00 120.00 P 31 2 1 18 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 0.008874 0.005124 0.000000 0.00000 SCALE2 0.000000 0.010247 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008479 0.00000