HEADER TRANSFERASE 05-AUG-14 4U98 TITLE STRUCTURE OF MYCOBACTERIAL MALTOKINASE, THE MISSING LINK IN THE TITLE 2 ESSENTIAL GLGE-PATHWAY (APPCP COMPLEX) COMPND MOL_ID: 1; COMPND 2 MOLECULE: MALTOKINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MAK,MALTOSE-1-PHOSPHATE SYNTHASE; COMPND 5 EC: 2.7.1.175; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM VANBAALENII; SOURCE 3 ORGANISM_TAXID: 350058; SOURCE 4 STRAIN: DSM 7251 / PYR-1; SOURCE 5 GENE: MAK, MVAN_5735; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS MALTOSE, GLYCOGEN, APPCP, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.FRAGA,N.EMPADINHAS,P.J.B.PEREIRA,S.MACEDO-RIBEIRO REVDAT 2 20-DEC-23 4U98 1 LINK REVDAT 1 11-FEB-15 4U98 0 JRNL AUTH J.FRAGA,A.MARANHA,V.MENDES,P.J.PEREIRA,N.EMPADINHAS, JRNL AUTH 2 S.MACEDO-RIBEIRO JRNL TITL STRUCTURE OF MYCOBACTERIAL MALTOKINASE, THE MISSING LINK IN JRNL TITL 2 THE ESSENTIAL GLGE-PATHWAY. JRNL REF SCI REP V. 5 8026 2015 JRNL REFN ESSN 2045-2322 JRNL PMID 25619172 JRNL DOI 10.1038/SREP08026 REMARK 2 REMARK 2 RESOLUTION. 1.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.65 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 173483 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.163 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 8675 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 35.6650 - 3.5718 0.98 5837 308 0.1666 0.1753 REMARK 3 2 3.5718 - 2.8354 0.99 5662 298 0.1587 0.1826 REMARK 3 3 2.8354 - 2.4771 0.99 5634 296 0.1517 0.1587 REMARK 3 4 2.4771 - 2.2506 0.99 5605 295 0.1379 0.1539 REMARK 3 5 2.2506 - 2.0894 0.99 5601 295 0.1259 0.1396 REMARK 3 6 2.0894 - 1.9662 1.00 5595 295 0.1263 0.1432 REMARK 3 7 1.9662 - 1.8677 0.99 5578 293 0.1222 0.1422 REMARK 3 8 1.8677 - 1.7864 1.00 5581 294 0.1238 0.1507 REMARK 3 9 1.7864 - 1.7176 1.00 5560 293 0.1226 0.1399 REMARK 3 10 1.7176 - 1.6584 1.00 5534 291 0.1124 0.1357 REMARK 3 11 1.6584 - 1.6065 1.00 5584 294 0.1096 0.1363 REMARK 3 12 1.6065 - 1.5606 1.00 5533 291 0.1077 0.1361 REMARK 3 13 1.5606 - 1.5195 0.99 5565 293 0.1060 0.1403 REMARK 3 14 1.5195 - 1.4824 0.99 5511 290 0.1087 0.1373 REMARK 3 15 1.4824 - 1.4487 1.00 5546 292 0.1142 0.1470 REMARK 3 16 1.4487 - 1.4179 1.00 5541 291 0.1235 0.1532 REMARK 3 17 1.4179 - 1.3895 1.00 5490 289 0.1220 0.1590 REMARK 3 18 1.3895 - 1.3633 1.00 5537 292 0.1267 0.1474 REMARK 3 19 1.3633 - 1.3390 1.00 5554 292 0.1297 0.1515 REMARK 3 20 1.3390 - 1.3163 0.99 5504 290 0.1350 0.1612 REMARK 3 21 1.3163 - 1.2950 0.99 5500 289 0.1473 0.1814 REMARK 3 22 1.2950 - 1.2751 1.00 5512 290 0.1499 0.1585 REMARK 3 23 1.2751 - 1.2564 1.00 5518 291 0.1580 0.1776 REMARK 3 24 1.2564 - 1.2387 1.00 5521 290 0.1809 0.2124 REMARK 3 25 1.2387 - 1.2219 1.00 5497 290 0.1953 0.2275 REMARK 3 26 1.2219 - 1.2061 1.00 5522 290 0.2063 0.2177 REMARK 3 27 1.2061 - 1.1910 0.97 5342 281 0.2167 0.2416 REMARK 3 28 1.1910 - 1.1766 0.94 5257 277 0.2456 0.2626 REMARK 3 29 1.1766 - 1.1629 0.90 4976 262 0.2585 0.2520 REMARK 3 30 1.1629 - 1.1499 0.84 4611 243 0.2765 0.2888 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.100 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 14.480 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 : 0.012 3828 REMARK 3 ANGLE : 1.026 5245 REMARK 3 CHIRALITY : 0.053 568 REMARK 3 PLANARITY : 0.004 702 REMARK 3 DIHEDRAL : 14.068 1416 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 4U98 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-AUG-14. REMARK 100 THE DEPOSITION ID IS D_1000203034. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 173534 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.150 REMARK 200 RESOLUTION RANGE LOW (A) : 35.648 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.02600 REMARK 200 FOR THE DATA SET : 21.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 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: 4U94 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MOPS/SODIUM HEPES PH 7.5, 0.12 M REMARK 280 ETHYLENE GLYCOLS (0.03M EACH OF DI-ETHYLENEGLYCOL, TRI- REMARK 280 ETHYLENEGLYCOL, TETRA-ETHYLENEGLYCOL, AND PENTA-ETHYLENEGLYCOL), REMARK 280 30% PEG 500MME/PEG 20K, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.45500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.45500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 629 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 650 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 675 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 705 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 724 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 740 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 766 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 777 LIES ON A SPECIAL POSITION. 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 HIS A 453 REMARK 465 HIS A 454 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 13 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 129 CD CE NZ 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 HD1 HIS A 245 HH TYR A 391 1.02 REMARK 500 HOB2 ACP A 501 MG MG A 503 1.31 REMARK 500 HOB2 ACP A 501 MG MG A 503 1.33 REMARK 500 C SER A 255 H THR A 256 1.35 REMARK 500 HOG3 ACP A 501 MG MG A 503 1.42 REMARK 500 HOG3 ACP A 501 MG MG A 503 1.49 REMARK 500 HH22 ARG A 34 O HOH A 944 1.57 REMARK 500 C GLU A 277 H LEU A 278 1.57 REMARK 500 C GLU A 277 H LEU A 278 1.57 REMARK 500 O HOH A 1195 O HOH A 1197 1.84 REMARK 500 O HOH A 1120 O HOH A 1194 1.86 REMARK 500 O HOH A 977 O HOH A 1159 1.88 REMARK 500 O HOH A 628 O HOH A 743 1.88 REMARK 500 O HOH A 1141 O HOH A 1176 1.89 REMARK 500 O HOH A 603 O HOH A 716 1.91 REMARK 500 OE1 GLN A 357 O HOH A 1203 1.94 REMARK 500 O HOH A 1095 O HOH A 1148 1.95 REMARK 500 O HOH A 649 O HOH A 1042 1.99 REMARK 500 OE1 GLU A 287 O HOH A 1152 2.01 REMARK 500 O HOH A 954 O HOH A 1150 2.01 REMARK 500 OE2 GLU A 184 O HOH A 601 2.01 REMARK 500 O PRO A 118 O HOH A 1149 2.02 REMARK 500 OE1 GLU A 52 O HOH A 1146 2.03 REMARK 500 O HOH A 1155 O HOH A 1198 2.04 REMARK 500 O HOH A 677 O HOH A 749 2.06 REMARK 500 OE2 GLU A 326 O HOH A 1025 2.07 REMARK 500 O HOH A 950 O HOH A 1171 2.07 REMARK 500 OE1 GLN A 269 O HOH A 1198 2.08 REMARK 500 O HOH A 1084 O HOH A 1192 2.09 REMARK 500 O HOH A 1132 O HOH A 1205 2.11 REMARK 500 O HOH A 601 O HOH A 744 2.16 REMARK 500 OD2 ASP A 397 O HOH A 958 2.17 REMARK 500 O HOH A 1092 O HOH A 1154 2.18 REMARK 500 O HOH A 1110 O HOH A 1153 2.19 REMARK 500 O HOH A 1153 O HOH A 1175 2.19 REMARK 500 O HOH A 1076 O HOH A 1157 2.19 REMARK 500 O HOH A 1181 O HOH A 1206 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 731 O HOH A 746 4555 2.01 REMARK 500 O HOH A 666 O HOH A 743 3655 2.10 REMARK 500 O HOH A 653 O HOH A 748 4565 2.17 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 ARG A 336 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 18 -122.88 56.55 REMARK 500 ALA A 110 -117.38 52.50 REMARK 500 ASN A 137 -167.22 -119.81 REMARK 500 ARG A 152 -73.44 -88.69 REMARK 500 ALA A 223 51.52 -94.58 REMARK 500 ASP A 305 53.93 -150.49 REMARK 500 ASP A 322 74.52 67.64 REMARK 500 ASP A 367 54.63 -147.10 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 A1000 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH A1055 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A1193 DISTANCE = 5.92 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 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 310 OE1 REMARK 620 2 ASP A 322 OD2 102.7 REMARK 620 3 ACP A 501 O2B 156.7 71.5 REMARK 620 4 ACP A 501 O2B 172.2 77.9 16.2 REMARK 620 5 ACP A 501 O2A 119.8 94.7 83.4 67.7 REMARK 620 6 HOH A1036 O 90.1 92.4 68.1 82.1 146.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 322 OD2 REMARK 620 2 ACP A 501 O3G 176.0 REMARK 620 3 ACP A 501 O3G 173.5 4.1 REMARK 620 4 ACP A 501 O2B 85.5 90.9 88.2 REMARK 620 5 ACP A 501 O2B 84.8 92.2 88.8 16.6 REMARK 620 6 HOH A 915 O 91.2 91.2 88.8 102.3 85.8 REMARK 620 7 HOH A 934 O 90.2 93.1 96.2 170.1 170.8 86.6 REMARK 620 8 HOH A 941 O 83.6 94.6 97.4 86.2 102.6 169.6 84.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 503 DBREF 4U98 A 1 441 UNP A1TH50 MAK_MYCVP 1 441 SEQADV 4U98 LYS A 442 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 LEU A 443 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 ALA A 444 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 ALA A 445 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 ALA A 446 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 LEU A 447 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 GLU A 448 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 HIS A 449 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 HIS A 450 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 HIS A 451 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 HIS A 452 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 HIS A 453 UNP A1TH50 EXPRESSION TAG SEQADV 4U98 HIS A 454 UNP A1TH50 EXPRESSION TAG SEQRES 1 A 454 MET THR LEU ALA PHE GLY ASP TRP ILE VAL HIS ARG ARG SEQRES 2 A 454 TRP TYR ALA GLY ARG SER ARG GLU LEU VAL SER ALA GLU SEQRES 3 A 454 PRO ALA VAL VAL THR PRO LEU ARG ASP ASP LEU ASP HIS SEQRES 4 A 454 ILE LEU LEU ASP VAL THR TYR THR ASP GLY THR VAL GLU SEQRES 5 A 454 ARG TYR GLN LEU VAL VAL ARG TRP ALA ASP SER PRO VAL SEQRES 6 A 454 ALA GLY PHE GLY GLU ALA ALA THR ILE GLY THR ALA LEU SEQRES 7 A 454 GLY PRO GLN GLY GLU ARG ILE ALA TYR ASP ALA LEU PHE SEQRES 8 A 454 ASP PRO ASP ALA ALA ARG HIS LEU LEU ARG LEU VAL ASP SEQRES 9 A 454 ALA SER ALA THR VAL ALA ASP LEU ARG PHE THR ARG GLU SEQRES 10 A 454 PRO GLY ALA THR LEU PRO LEU TYR ALA PRO PRO LYS VAL SEQRES 11 A 454 SER SER ALA GLU GLN SER ASN THR SER VAL ILE PHE GLY SEQRES 12 A 454 LYS ASP ALA MET LEU LYS VAL PHE ARG ARG VAL THR PRO SEQRES 13 A 454 GLY ILE ASN PRO ASP ILE GLU LEU ASN ARG VAL LEU ALA SEQRES 14 A 454 GLN ALA GLY ASN ARG HIS VAL ALA ARG LEU LEU GLY SER SEQRES 15 A 454 PHE GLU THR SER TRP ALA GLY PRO GLY THR ASP ARG CYS SEQRES 16 A 454 ALA LEU GLY MET VAL THR ALA PHE ALA ALA ASN SER ALA SEQRES 17 A 454 GLU GLY TRP ASP MET ALA THR ALA SER ALA ARG GLU MET SEQRES 18 A 454 PHE ALA ASP VAL VAL GLY SER ASP PHE ALA ASP GLU SER SEQRES 19 A 454 TYR ARG LEU GLY ASN ALA VAL ALA SER VAL HIS ALA THR SEQRES 20 A 454 LEU ALA GLU ALA LEU GLY THR SER THR GLU PRO PHE PRO SEQRES 21 A 454 VAL ASP THR VAL LEU ALA ARG LEU GLN SER ALA ALA ARG SEQRES 22 A 454 SER ALA PRO GLU LEU ALA GLY ARG ALA ALA ALA VAL GLU SEQRES 23 A 454 GLU ARG TYR ARG ARG LEU ASP GLY ARG ALA ILE THR VAL SEQRES 24 A 454 GLN ARG VAL HIS GLY ASP LEU HIS LEU GLY GLN VAL LEU SEQRES 25 A 454 ARG THR PRO ASP ASP TRP LEU LEU ILE ASP PHE GLU GLY SEQRES 26 A 454 GLU PRO GLY GLN PRO LEU ASP GLU ARG ARG ARG PRO ASP SEQRES 27 A 454 SER PRO LEU ARG ASP VAL ALA GLY VAL LEU ARG SER PHE SEQRES 28 A 454 GLU TYR ALA ALA TYR GLN LYS LEU VAL GLU LEU ALA PRO SEQRES 29 A 454 GLU GLN ASP ALA ASP GLY ARG LEU ALA ASP ARG ALA ARG SEQRES 30 A 454 ASN TRP VAL ASP ARG ASN SER ALA ALA PHE CYS ALA GLY SEQRES 31 A 454 TYR ALA ALA VAL ALA GLY ASP ASP PRO ARG ARG ASP GLY SEQRES 32 A 454 ASP VAL LEU ALA ALA TYR GLU LEU ASP LYS ALA VAL TYR SEQRES 33 A 454 GLU ALA ALA TYR GLU ALA ARG PHE ARG PRO SER TRP LEU SEQRES 34 A 454 PRO ILE PRO MET ARG SER ILE ASP ARG ILE LEU GLY LYS SEQRES 35 A 454 LEU ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS HET ACP A 501 96 HET MG A 502 1 HET MG A 503 1 HETNAM ACP PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER HETNAM MG MAGNESIUM ION HETSYN ACP ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE FORMUL 2 ACP C11 H18 N5 O12 P3 FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *612(H2 O) HELIX 1 AA1 ALA A 4 VAL A 10 1 7 HELIX 2 AA2 GLY A 69 ALA A 71 5 3 HELIX 3 AA3 ASP A 92 ALA A 105 1 14 HELIX 4 AA4 ASN A 159 ALA A 171 1 13 HELIX 5 AA5 GLY A 210 GLU A 220 1 11 HELIX 6 AA6 SER A 228 GLY A 253 1 26 HELIX 7 AA7 PRO A 260 ALA A 275 1 16 HELIX 8 AA8 LEU A 278 ARG A 291 1 14 HELIX 9 AA9 HIS A 307 GLY A 309 5 3 HELIX 10 AB1 PRO A 330 ARG A 335 1 6 HELIX 11 AB2 SER A 339 LEU A 362 1 24 HELIX 12 AB3 ALA A 363 ALA A 368 5 6 HELIX 13 AB4 GLY A 370 GLY A 396 1 27 HELIX 14 AB5 ASP A 402 ARG A 425 1 24 HELIX 15 AB6 PRO A 426 TRP A 428 5 3 HELIX 16 AB7 LEU A 429 GLU A 448 1 20 SHEET 1 AA1 5 LEU A 22 ARG A 34 0 SHEET 2 AA1 5 LEU A 37 TYR A 46 -1 O LEU A 37 N LEU A 33 SHEET 3 AA1 5 VAL A 51 ALA A 61 -1 O LEU A 56 N ILE A 40 SHEET 4 AA1 5 GLY A 82 ASP A 88 -1 O TYR A 87 N ARG A 59 SHEET 5 AA1 5 THR A 73 GLY A 79 -1 N GLY A 75 O ALA A 86 SHEET 1 AA2 4 LEU A 22 ARG A 34 0 SHEET 2 AA2 4 LEU A 37 TYR A 46 -1 O LEU A 37 N LEU A 33 SHEET 3 AA2 4 VAL A 51 ALA A 61 -1 O LEU A 56 N ILE A 40 SHEET 4 AA2 4 ARG A 153 VAL A 154 -1 O VAL A 154 N ARG A 53 SHEET 1 AA3 7 THR A 108 VAL A 109 0 SHEET 2 AA3 7 LEU A 112 ARG A 116 -1 O LEU A 112 N VAL A 109 SHEET 3 AA3 7 LEU A 179 SER A 186 -1 O GLU A 184 N ARG A 113 SHEET 4 AA3 7 ARG A 194 ALA A 202 -1 O VAL A 200 N LEU A 180 SHEET 5 AA3 7 ALA A 146 VAL A 150 -1 N LYS A 149 O MET A 199 SHEET 6 AA3 7 THR A 138 PHE A 142 -1 N VAL A 140 O LEU A 148 SHEET 7 AA3 7 PRO A 128 VAL A 130 -1 N LYS A 129 O ILE A 141 SHEET 1 AA4 3 ALA A 208 GLU A 209 0 SHEET 2 AA4 3 VAL A 311 ARG A 313 -1 O ARG A 313 N ALA A 208 SHEET 3 AA4 3 TRP A 318 LEU A 320 -1 O LEU A 319 N LEU A 312 SHEET 1 AA5 2 THR A 254 PRO A 258 0 SHEET 2 AA5 2 ALA A 296 GLN A 300 -1 O ILE A 297 N GLU A 257 LINK OE1 GLN A 310 MG MG A 502 1555 1555 2.27 LINK OD2 ASP A 322 MG MG A 502 1555 1555 2.20 LINK OD2 ASP A 322 MG MG A 503 1555 1555 2.10 LINK O2BAACP A 501 MG MG A 502 1555 1555 2.40 LINK O2BBACP A 501 MG MG A 502 1555 1555 2.41 LINK O2AAACP A 501 MG MG A 502 1555 1555 2.45 LINK O3GAACP A 501 MG MG A 503 1555 1555 2.07 LINK O3GBACP A 501 MG MG A 503 1555 1555 1.99 LINK O2BAACP A 501 MG MG A 503 1555 1555 1.86 LINK O2BBACP A 501 MG MG A 503 1555 1555 2.20 LINK MG MG A 502 O HOH A1036 1555 1555 2.61 LINK MG MG A 503 O HOH A 915 1555 1555 2.11 LINK MG MG A 503 O HOH A 934 1555 1555 2.11 LINK MG MG A 503 O HOH A 941 1555 1555 2.07 SITE 1 AC1 21 GLN A 135 SER A 136 MET A 147 LYS A 149 SITE 2 AC1 21 ALA A 177 ALA A 202 PHE A 203 ALA A 204 SITE 3 AC1 21 LEU A 312 ILE A 321 ASP A 322 MG A 502 SITE 4 AC1 21 MG A 503 HOH A 851 HOH A 915 HOH A 934 SITE 5 AC1 21 HOH A 941 HOH A 994 HOH A1019 HOH A1036 SITE 6 AC1 21 HOH A1202 SITE 1 AC2 5 GLN A 310 ASP A 322 ACP A 501 MG A 503 SITE 2 AC2 5 HOH A1036 SITE 1 AC3 6 ASP A 322 ACP A 501 MG A 502 HOH A 915 SITE 2 AC3 6 HOH A 934 HOH A 941 CRYST1 63.000 73.520 106.910 90.00 90.00 90.00 P 2 2 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 0.015873 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013602 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009354 0.00000