HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 19-SEP-20 7K6A
TITLE CRYSTAL STRUCTURE OF DIHYDROFOLATE REDUCTASE (DHFR) FROM MYCOBACTERIUM
TITLE 2 ULCERANS AGY99 IN COMPLEX WITH NADP AND INHIBITOR SDDC-0001575
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: DIHYDROFOLATE REDUCTASE;
COMPND 3 CHAIN: A;
COMPND 4 EC: 1.5.1.3;
COMPND 5 ENGINEERED: YES;
COMPND 6 MUTATION: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM ULCERANS (STRAIN AGY99);
SOURCE 3 ORGANISM_TAXID: 362242;
SOURCE 4 STRAIN: AGY99;
SOURCE 5 GENE: DFRA, MUL_2179;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3);
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008;
SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);
SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MYULA.01062.A.B12
KEYWDS SSGCID, SDDC, INHIBITOR, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL
KEYWDS 2 GENOMICS CENTER FOR INFECTIOUS DISEASE, OXIDOREDUCTASE,
KEYWDS 3 OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID)
REVDAT 2 18-OCT-23 7K6A 1 KEYWDS
REVDAT 1 17-MAR-21 7K6A 0
JRNL AUTH J.ABENDROTH,D.M.DRANOW,V.SANTHAKUMAR,C.WALPOLE,D.D.LORIMER,
JRNL AUTH 2 P.S.HORANYI,T.E.EDWARDS
JRNL TITL CRYSTAL STRUCTURE OF DIHYDROFOLATE REDUCTASE (DHFR) FROM
JRNL TITL 2 MYCOBACTERIUM ULCERANS AGY99 IN COMPLEX WITH NADP AND
JRNL TITL 3 INHIBITOR SDDC-0001575
JRNL REF TO BE PUBLISHED
JRNL REFN
REMARK 2
REMARK 2 RESOLUTION. 1.60 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : PHENIX 1.18.2
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) : 1.60
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.27
REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350
REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6
REMARK 3 NUMBER OF REFLECTIONS : 21855
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 R VALUE (WORKING + TEST SET) : 0.149
REMARK 3 R VALUE (WORKING SET) : 0.146
REMARK 3 FREE R VALUE : 0.178
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.490
REMARK 3 FREE R VALUE TEST SET COUNT : 2074
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 44.2700 - 3.9500 1.00 1395 124 0.1449 0.1712
REMARK 3 2 3.9400 - 3.1300 1.00 1331 159 0.1321 0.1662
REMARK 3 3 3.1300 - 2.7400 1.00 1328 157 0.1470 0.1724
REMARK 3 4 2.7400 - 2.4900 1.00 1334 142 0.1459 0.1771
REMARK 3 5 2.4900 - 2.3100 1.00 1337 150 0.1429 0.1954
REMARK 3 6 2.3100 - 2.1700 1.00 1319 148 0.1443 0.1660
REMARK 3 7 2.1700 - 2.0600 1.00 1321 126 0.1389 0.1531
REMARK 3 8 2.0600 - 1.9700 1.00 1386 124 0.1373 0.1537
REMARK 3 9 1.9700 - 1.9000 1.00 1299 172 0.1420 0.1957
REMARK 3 10 1.9000 - 1.8300 0.99 1316 141 0.1490 0.1654
REMARK 3 11 1.8300 - 1.7700 0.98 1311 113 0.1506 0.1924
REMARK 3 12 1.7700 - 1.7200 0.98 1299 144 0.1593 0.1968
REMARK 3 13 1.7200 - 1.6800 0.95 1279 117 0.1676 0.2190
REMARK 3 14 1.6800 - 1.6400 0.95 1274 135 0.1798 0.2208
REMARK 3 15 1.6400 - 1.6000 0.95 1252 122 0.2053 0.2551
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) : 0.137
REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.467
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 19.18
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.55
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 : 0.007 1425
REMARK 3 ANGLE : 1.084 1969
REMARK 3 CHIRALITY : 0.058 217
REMARK 3 PLANARITY : 0.010 268
REMARK 3 DIHEDRAL : 13.590 546
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 10
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 26 )
REMARK 3 ORIGIN FOR THE GROUP (A): 5.1880 1.8182 16.1283
REMARK 3 T TENSOR
REMARK 3 T11: 0.0460 T22: 0.0438
REMARK 3 T33: 0.0658 T12: -0.0057
REMARK 3 T13: 0.0080 T23: -0.0059
REMARK 3 L TENSOR
REMARK 3 L11: 2.7806 L22: 2.9260
REMARK 3 L33: 3.3438 L12: -0.0479
REMARK 3 L13: 0.1957 L23: -0.2032
REMARK 3 S TENSOR
REMARK 3 S11: 0.0574 S12: -0.2063 S13: 0.0958
REMARK 3 S21: 0.1037 S22: -0.0267 S23: -0.1007
REMARK 3 S31: -0.0693 S32: -0.0098 S33: -0.0154
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 37 )
REMARK 3 ORIGIN FOR THE GROUP (A): -7.9134 2.8732 13.5375
REMARK 3 T TENSOR
REMARK 3 T11: 0.0596 T22: 0.0509
REMARK 3 T33: 0.0885 T12: 0.0030
REMARK 3 T13: 0.0010 T23: -0.0122
REMARK 3 L TENSOR
REMARK 3 L11: 3.2949 L22: 4.4245
REMARK 3 L33: 4.6352 L12: -0.5240
REMARK 3 L13: -0.0123 L23: 3.2798
REMARK 3 S TENSOR
REMARK 3 S11: 0.0729 S12: -0.1631 S13: 0.1878
REMARK 3 S21: -0.0928 S22: -0.1857 S23: 0.2327
REMARK 3 S31: -0.2453 S32: -0.0650 S33: 0.0894
REMARK 3 TLS GROUP : 3
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 38 THROUGH 62 )
REMARK 3 ORIGIN FOR THE GROUP (A): -3.2864 -10.1336 12.8668
REMARK 3 T TENSOR
REMARK 3 T11: 0.0542 T22: 0.0199
REMARK 3 T33: 0.0522 T12: -0.0117
REMARK 3 T13: 0.0054 T23: -0.0168
REMARK 3 L TENSOR
REMARK 3 L11: 4.0684 L22: 2.6933
REMARK 3 L33: 3.0055 L12: -1.2571
REMARK 3 L13: 0.4864 L23: -0.6941
REMARK 3 S TENSOR
REMARK 3 S11: -0.0151 S12: -0.0840 S13: -0.0658
REMARK 3 S21: 0.0434 S22: -0.0267 S23: 0.0986
REMARK 3 S31: 0.0428 S32: -0.0395 S33: 0.0399
REMARK 3 TLS GROUP : 4
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 63 THROUGH 78 )
REMARK 3 ORIGIN FOR THE GROUP (A): 0.9888 -18.3743 8.8087
REMARK 3 T TENSOR
REMARK 3 T11: 0.1206 T22: 0.0527
REMARK 3 T33: 0.1335 T12: 0.0098
REMARK 3 T13: 0.0275 T23: -0.0339
REMARK 3 L TENSOR
REMARK 3 L11: 4.3345 L22: 3.7246
REMARK 3 L33: 1.5102 L12: -1.3858
REMARK 3 L13: -0.7214 L23: -0.2666
REMARK 3 S TENSOR
REMARK 3 S11: -0.2071 S12: 0.2879 S13: -0.4113
REMARK 3 S21: 0.0156 S22: -0.0074 S23: -0.2455
REMARK 3 S31: 0.2542 S32: -0.0617 S33: 0.1119
REMARK 3 TLS GROUP : 5
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 79 THROUGH 87 )
REMARK 3 ORIGIN FOR THE GROUP (A): 3.4094 -15.1917 1.5906
REMARK 3 T TENSOR
REMARK 3 T11: 0.1363 T22: 0.1240
REMARK 3 T33: 0.1119 T12: 0.0063
REMARK 3 T13: 0.0191 T23: -0.0271
REMARK 3 L TENSOR
REMARK 3 L11: 2.4339 L22: 7.1923
REMARK 3 L33: 3.9752 L12: 0.3147
REMARK 3 L13: -0.5940 L23: 1.1227
REMARK 3 S TENSOR
REMARK 3 S11: 0.0027 S12: 0.1492 S13: 0.2809
REMARK 3 S21: -0.5372 S22: 0.1230 S23: -0.4439
REMARK 3 S31: -0.0126 S32: 0.3131 S33: 0.0006
REMARK 3 TLS GROUP : 6
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 88 THROUGH 102 )
REMARK 3 ORIGIN FOR THE GROUP (A): -2.5710 -7.5442 0.3504
REMARK 3 T TENSOR
REMARK 3 T11: 0.1976 T22: 0.1344
REMARK 3 T33: 0.1657 T12: -0.0225
REMARK 3 T13: -0.0503 T23: -0.0356
REMARK 3 L TENSOR
REMARK 3 L11: 0.5763 L22: 6.1925
REMARK 3 L33: 3.0313 L12: 0.4025
REMARK 3 L13: -0.6366 L23: 2.5228
REMARK 3 S TENSOR
REMARK 3 S11: -0.2348 S12: 0.2666 S13: -0.2921
REMARK 3 S21: -0.9220 S22: -0.0285 S23: 0.4940
REMARK 3 S31: -0.2616 S32: -0.3069 S33: 0.0687
REMARK 3 TLS GROUP : 7
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 103 THROUGH 112 )
REMARK 3 ORIGIN FOR THE GROUP (A): 9.0481 -4.1773 4.1677
REMARK 3 T TENSOR
REMARK 3 T11: 0.0742 T22: 0.0841
REMARK 3 T33: 0.0929 T12: 0.0227
REMARK 3 T13: 0.0135 T23: 0.0042
REMARK 3 L TENSOR
REMARK 3 L11: 3.3901 L22: 3.6941
REMARK 3 L33: 5.9004 L12: -1.2835
REMARK 3 L13: 1.1718 L23: -2.7325
REMARK 3 S TENSOR
REMARK 3 S11: 0.1445 S12: 0.3317 S13: -0.0128
REMARK 3 S21: -0.3030 S22: -0.3758 S23: -0.0486
REMARK 3 S31: 0.0573 S32: 0.2949 S33: 0.1951
REMARK 3 TLS GROUP : 8
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 113 THROUGH 132 )
REMARK 3 ORIGIN FOR THE GROUP (A): 7.2106 4.7089 14.6912
REMARK 3 T TENSOR
REMARK 3 T11: 0.0785 T22: 0.0441
REMARK 3 T33: 0.1128 T12: -0.0209
REMARK 3 T13: -0.0238 T23: -0.0069
REMARK 3 L TENSOR
REMARK 3 L11: 1.9419 L22: 2.7080
REMARK 3 L33: 0.3891 L12: -1.5872
REMARK 3 L13: -0.8861 L23: 0.2376
REMARK 3 S TENSOR
REMARK 3 S11: -0.1821 S12: -0.1837 S13: 0.2378
REMARK 3 S21: 0.1582 S22: 0.0955 S23: -0.3115
REMARK 3 S31: -0.1310 S32: -0.0092 S33: 0.0548
REMARK 3 TLS GROUP : 9
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 133 THROUGH 145 )
REMARK 3 ORIGIN FOR THE GROUP (A): 8.5811 8.7270 3.4608
REMARK 3 T TENSOR
REMARK 3 T11: 0.1391 T22: 0.1195
REMARK 3 T33: 0.1249 T12: 0.0000
REMARK 3 T13: 0.0358 T23: 0.0469
REMARK 3 L TENSOR
REMARK 3 L11: 0.1384 L22: 1.0169
REMARK 3 L33: 3.1542 L12: -0.2349
REMARK 3 L13: 0.6832 L23: -0.3655
REMARK 3 S TENSOR
REMARK 3 S11: 0.1014 S12: 0.2227 S13: 0.1270
REMARK 3 S21: -0.0482 S22: -0.1936 S23: -0.1431
REMARK 3 S31: -0.5090 S32: 0.4188 S33: 0.0686
REMARK 3 TLS GROUP : 10
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 146 THROUGH 165 )
REMARK 3 ORIGIN FOR THE GROUP (A): -0.1016 11.8662 10.9205
REMARK 3 T TENSOR
REMARK 3 T11: 0.1235 T22: 0.0504
REMARK 3 T33: 0.0916 T12: 0.0152
REMARK 3 T13: 0.0005 T23: 0.0046
REMARK 3 L TENSOR
REMARK 3 L11: 2.0498 L22: 1.6297
REMARK 3 L33: 7.2185 L12: -0.5140
REMARK 3 L13: -3.0613 L23: 2.5174
REMARK 3 S TENSOR
REMARK 3 S11: 0.1074 S12: 0.0889 S13: 0.0953
REMARK 3 S21: -0.0878 S22: -0.0925 S23: -0.0070
REMARK 3 S31: -0.1005 S32: -0.2038 S33: -0.0136
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 7K6A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-20.
REMARK 100 THE DEPOSITION ID IS D_1000251921.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 02-SEP-20
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 6.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : N
REMARK 200 RADIATION SOURCE : ROTATING ANODE
REMARK 200 BEAMLINE : NULL
REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS
REMARK 200 DATA SCALING SOFTWARE : XSCALE
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21861
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600
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 (%) : 98.6
REMARK 200 DATA REDUNDANCY : 6.162
REMARK 200 R MERGE (I) : 0.04700
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.2100
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64
REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6
REMARK 200 DATA REDUNDANCY IN SHELL : 3.70
REMARK 200 R MERGE FOR SHELL (I) : 0.40000
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.620
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: NAD AND P218-BOUND STRUCTURE, PDB ENTRY 6UWW
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 44.90
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: MORPHEUS SCREEN, CONDITION F2: 12.5%
REMARK 280 W/V PEG 1000, 12.5% W/V PEG 3350, 12.5% V/V MPD: 20MM OF EACH D-
REMARK 280 GLUCOSE, D-MANNOSE, D-GALACTOSE, L-FUCOSE, D-XYLOSE, N-ACETYL-D-
REMARK 280 GLUCOSAMINE: 100MM MES/IMIDAZOLE PH 6.5:
REMARK 280 MYULA.01062.A.B12.PS38539 AND 15.75MG/ML + 2.5MM NADP AND 4MM
REMARK 280 SDDC COMPOUND SDDC-0001575: TRAY: 317893F2: CRYO: DIRECT: PUCK:
REMARK 280 XHF8-7, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 287K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X,Y+1/2,-Z
REMARK 290
REMARK 290 WHERE NNN -> OPERATOR NUMBER
REMARK 290 MMM -> TRANSLATION VECTOR
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS
REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM
REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY
REMARK 290 RELATED MOLECULES.
REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 33.32500
REMARK 290 SMTRY3 2 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 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 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 -7
REMARK 465 ALA A -6
REMARK 465 HIS A -5
REMARK 465 HIS A -4
REMARK 465 HIS A -3
REMARK 465 HIS A -2
REMARK 465 HIS A -1
REMARK 465 HIS A 0
REMARK 465 MET A 1
REMARK 465 THR A 2
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 ARG A 25 CG CD NE CZ NH1 NH2
REMARK 470 GLU A 85 CG CD OE1 OE2
REMARK 470 GLU A 92 CG CD OE1 OE2
REMARK 470 ARG A 152 CG CD NE CZ NH1 NH2
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 OD1 ASP A 94 O HOH A 301 2.06
REMARK 500 O HOH A 369 O HOH A 483 2.09
REMARK 500 O GLN A 70 O HOH A 302 2.10
REMARK 500 OD2 ASP A 94 O HOH A 303 2.18
REMARK 500 O HOH A 392 O HOH A 447 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 488 O HOH A 492 1655 2.17
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 PRO A 23 41.94 -89.03
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 NAP A 201
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue VYG A 202
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 203
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 204
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 205
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC6
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 206
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: SSGCID-MYULA.01062.A.B12 RELATED DB: TARGETDB
DBREF 7K6A A 1 165 UNP A0PQG8 A0PQG8_MYCUA 1 165
SEQADV 7K6A MET A -7 UNP A0PQG8 INITIATING METHIONINE
SEQADV 7K6A ALA A -6 UNP A0PQG8 EXPRESSION TAG
SEQADV 7K6A HIS A -5 UNP A0PQG8 EXPRESSION TAG
SEQADV 7K6A HIS A -4 UNP A0PQG8 EXPRESSION TAG
SEQADV 7K6A HIS A -3 UNP A0PQG8 EXPRESSION TAG
SEQADV 7K6A HIS A -2 UNP A0PQG8 EXPRESSION TAG
SEQADV 7K6A HIS A -1 UNP A0PQG8 EXPRESSION TAG
SEQADV 7K6A HIS A 0 UNP A0PQG8 EXPRESSION TAG
SEQADV 7K6A ALA A 96 UNP A0PQG8 GLU 96 ENGINEERED MUTATION
SEQRES 1 A 173 MET ALA HIS HIS HIS HIS HIS HIS MET THR SER VAL GLY
SEQRES 2 A 173 LEU ILE TRP ALA GLN SER THR SER GLY VAL ILE GLY ARG
SEQRES 3 A 173 ASP GLY GLY ILE PRO TRP ARG LEU PRO GLU ASP LEU ALA
SEQRES 4 A 173 HIS PHE LYS ARG LEU THR MET GLY HIS THR VAL VAL MET
SEQRES 5 A 173 GLY ARG ARG THR TRP ASP SER LEU PRO ALA ALA HIS ARG
SEQRES 6 A 173 PRO LEU PRO GLY ARG ARG ASN VAL VAL VAL THR ARG GLN
SEQRES 7 A 173 THR GLY LEU VAL ALA HIS GLY ALA GLN VAL VAL GLY SER
SEQRES 8 A 173 LEU GLU GLN ALA LEU CYS PRO ALA GLU PRO ASP ALA ALA
SEQRES 9 A 173 THR TRP VAL ILE GLY GLY ALA GLN ILE TYR ALA LEU ALA
SEQRES 10 A 173 LEU PRO LEU ALA ASN ARG CYS GLU VAL THR GLU VAL ASP
SEQRES 11 A 173 VAL ASP LEU PRO PRO GLU ASP GLU ASP ALA LEU ALA PRO
SEQRES 12 A 173 VAL LEU ASP GLN THR TRP ALA GLY THR SER GLY GLU TRP
SEQRES 13 A 173 LEU VAL SER ARG SER GLY LEU ARG TYR ARG MET HIS SER
SEQRES 14 A 173 TYR ARG ARG LEU
HET NAP A 201 48
HET VYG A 202 31
HET CL A 203 1
HET EDO A 204 4
HET EDO A 205 4
HET EDO A 206 4
HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
HETNAM VYG 6-ETHYL-5-[3-({3-[4-(TRIFLUOROMETHYL)PIPERIDIN-1-
HETNAM 2 VYG YL]PYRIDIN-2-YL}OXY)PROPOXY]PYRIMIDINE-2,4-DIAMINE
HETNAM CL CHLORIDE ION
HETNAM EDO 1,2-ETHANEDIOL
HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
HETSYN EDO ETHYLENE GLYCOL
FORMUL 2 NAP C21 H28 N7 O17 P3
FORMUL 3 VYG C20 H27 F3 N6 O2
FORMUL 4 CL CL 1-
FORMUL 5 EDO 3(C2 H6 O2)
FORMUL 8 HOH *205(H2 O)
HELIX 1 AA1 LEU A 26 MET A 38 1 13
HELIX 2 AA2 ARG A 46 LEU A 52 1 7
HELIX 3 AA3 PRO A 53 ARG A 57 5 5
HELIX 4 AA4 SER A 83 LEU A 88 1 6
HELIX 5 AA5 GLY A 102 LEU A 110 1 9
HELIX 6 AA6 PRO A 111 ALA A 113 5 3
SHEET 1 AA1 8 GLN A 79 VAL A 81 0
SHEET 2 AA1 8 ARG A 63 VAL A 67 1 N VAL A 66 O GLN A 79
SHEET 3 AA1 8 THR A 41 GLY A 45 1 N VAL A 42 O ARG A 63
SHEET 4 AA1 8 THR A 97 VAL A 99 1 O TRP A 98 N VAL A 43
SHEET 5 AA1 8 VAL A 4 SER A 11 1 N GLY A 5 O VAL A 99
SHEET 6 AA1 8 ARG A 115 ASP A 122 1 O THR A 119 N GLN A 10
SHEET 7 AA1 8 ARG A 156 ARG A 164 -1 O HIS A 160 N VAL A 118
SHEET 8 AA1 8 TRP A 141 SER A 145 -1 N ALA A 142 O ARG A 163
SHEET 1 AA2 8 GLN A 79 VAL A 81 0
SHEET 2 AA2 8 ARG A 63 VAL A 67 1 N VAL A 66 O GLN A 79
SHEET 3 AA2 8 THR A 41 GLY A 45 1 N VAL A 42 O ARG A 63
SHEET 4 AA2 8 THR A 97 VAL A 99 1 O TRP A 98 N VAL A 43
SHEET 5 AA2 8 VAL A 4 SER A 11 1 N GLY A 5 O VAL A 99
SHEET 6 AA2 8 ARG A 115 ASP A 122 1 O THR A 119 N GLN A 10
SHEET 7 AA2 8 ARG A 156 ARG A 164 -1 O HIS A 160 N VAL A 118
SHEET 8 AA2 8 LEU A 149 VAL A 150 -1 N LEU A 149 O TYR A 157
SHEET 1 AA3 2 VAL A 15 GLY A 17 0
SHEET 2 AA3 2 ALA A 132 LEU A 133 -1 O ALA A 132 N ILE A 16
CISPEP 1 ARG A 57 PRO A 58 0 3.95
CISPEP 2 GLY A 101 GLY A 102 0 3.27
SITE 1 AC1 34 TRP A 8 ALA A 9 ILE A 16 GLY A 17
SITE 2 AC1 34 ARG A 18 GLY A 20 GLY A 21 ILE A 22
SITE 3 AC1 34 GLY A 45 ARG A 46 ARG A 47 THR A 48
SITE 4 AC1 34 VAL A 67 THR A 68 ARG A 69 GLN A 70
SITE 5 AC1 34 GLY A 82 ILE A 100 GLY A 102 ALA A 103
SITE 6 AC1 34 GLN A 104 ILE A 105 TYR A 106 LEU A 108
SITE 7 AC1 34 VYG A 202 EDO A 205 EDO A 206 HOH A 320
SITE 8 AC1 34 HOH A 321 HOH A 331 HOH A 340 HOH A 363
SITE 9 AC1 34 HOH A 404 HOH A 415
SITE 1 AC2 15 ILE A 7 TRP A 8 ILE A 22 ASP A 29
SITE 2 AC2 15 LEU A 30 PHE A 33 LYS A 34 PRO A 53
SITE 3 AC2 15 HIS A 56 LEU A 59 ILE A 100 TYR A 106
SITE 4 AC2 15 NAP A 201 HOH A 320 HOH A 401
SITE 1 AC3 3 LYS A 34 MET A 38 ARG A 62
SITE 1 AC4 5 ALA A 75 ALA A 78 GLN A 79 VAL A 80
SITE 2 AC4 5 HOH A 372
SITE 1 AC5 8 ARG A 18 ASP A 19 GLY A 20 ARG A 47
SITE 2 AC5 8 GLU A 130 NAP A 201 EDO A 206 HOH A 439
SITE 1 AC6 7 ARG A 47 GLN A 104 GLU A 130 ASP A 131
SITE 2 AC6 7 ALA A 132 NAP A 201 EDO A 205
CRYST1 28.870 66.650 44.290 90.00 91.80 90.00 P 1 21 1 2
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 0.034638 0.000000 0.001089 0.00000
SCALE2 0.000000 0.015004 0.000000 0.00000
SCALE3 0.000000 0.000000 0.022590 0.00000