HEADER TRANSFERASE 20-DEC-14 4XDU TITLE CRYSTAL STRUCTURE OF TREPONEMA PALLIDUM TP0796 FLAVIN TRAFFICKING TITLE 2 PROTEIN,A BIFUNCTIONAL FMN TRANSFERASE/FAD PYROPHOSPHATASE, N55Y TITLE 3 MUTANT, ADP BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAD:PROTEIN FMN TRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FLAVIN TRANSFERASE; COMPND 5 EC: 2.7.1.180; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TREPONEMA PALLIDUM (STRAIN NICHOLS); SOURCE 3 ORGANISM_TAXID: 243276; SOURCE 4 STRAIN: NICHOLS; SOURCE 5 GENE: APBE, TP_0796; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS FMN TRANSFERASE, FAD PYROPHOSPHATASE, HYDROLASE, BIMETAL CENTER, KEYWDS 2 FLAVIN TURNOVER, TREPONEMA PALLIDUM, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.R.TOMCHICK,C.A.BRAUTIGAM,R.K.DEKA,M.V.NORGARD REVDAT 1 14-OCT-15 4XDU 0 JRNL AUTH R.K.DEKA,C.A.BRAUTIGAM,W.Z.LIU,D.R.TOMCHICK,M.V.NORGARD JRNL TITL EVIDENCE FOR POSTTRANSLATIONAL PROTEIN FLAVINYLATION IN THE JRNL TITL 2 SYPHILIS SPIROCHETE TREPONEMA PALLIDUM: STRUCTURAL AND JRNL TITL 3 BIOCHEMICAL INSIGHTS FROM THE CATALYTIC CORE OF A JRNL TITL 4 PERIPLASMIC FLAVIN-TRAFFICKING PROTEIN. JRNL REF MBIO V. 6 00519 2015 JRNL REFN ESSN 2150-7511 JRNL PMID 25944861 JRNL DOI 10.1128/MBIO.00519-15 REMARK 2 REMARK 2 RESOLUTION. 1.35 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 66598 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 3361 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 24.5386 - 3.8891 0.99 2729 141 0.1636 0.1849 REMARK 3 2 3.8891 - 3.0889 1.00 2699 136 0.1682 0.1691 REMARK 3 3 3.0889 - 2.6990 1.00 2703 124 0.1653 0.2006 REMARK 3 4 2.6990 - 2.4524 1.00 2616 151 0.1628 0.1708 REMARK 3 5 2.4524 - 2.2768 1.00 2677 143 0.1510 0.1535 REMARK 3 6 2.2768 - 2.1426 1.00 2632 143 0.1471 0.1518 REMARK 3 7 2.1426 - 2.0354 1.00 2636 140 0.1552 0.1883 REMARK 3 8 2.0354 - 1.9468 1.00 2652 127 0.1524 0.1935 REMARK 3 9 1.9468 - 1.8719 1.00 2634 147 0.1593 0.1826 REMARK 3 10 1.8719 - 1.8073 1.00 2639 142 0.1617 0.1899 REMARK 3 11 1.8073 - 1.7508 1.00 2648 125 0.1643 0.2091 REMARK 3 12 1.7508 - 1.7008 1.00 2617 148 0.1671 0.1871 REMARK 3 13 1.7008 - 1.6560 1.00 2629 143 0.1658 0.2181 REMARK 3 14 1.6560 - 1.6156 1.00 2639 152 0.1717 0.2148 REMARK 3 15 1.6156 - 1.5789 1.00 2652 122 0.1736 0.2226 REMARK 3 16 1.5789 - 1.5453 1.00 2616 159 0.1734 0.1996 REMARK 3 17 1.5453 - 1.5144 1.00 2629 144 0.1717 0.1829 REMARK 3 18 1.5144 - 1.4858 1.00 2621 151 0.1827 0.1968 REMARK 3 19 1.4858 - 1.4593 1.00 2595 147 0.1892 0.2222 REMARK 3 20 1.4593 - 1.4346 1.00 2633 158 0.2044 0.2097 REMARK 3 21 1.4346 - 1.4114 1.00 2629 130 0.2136 0.2271 REMARK 3 22 1.4114 - 1.3897 1.00 2619 137 0.2336 0.2996 REMARK 3 23 1.3897 - 1.3693 0.98 2553 139 0.2484 0.2788 REMARK 3 24 1.3693 - 1.3500 0.95 2540 112 0.2618 0.2541 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.790 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.79 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.64 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 : 0.016 2664 REMARK 3 ANGLE : 1.243 3586 REMARK 3 CHIRALITY : 0.074 416 REMARK 3 PLANARITY : 0.005 462 REMARK 3 DIHEDRAL : 13.561 953 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 5 THROUGH 30 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7697 21.5985 -0.1304 REMARK 3 T TENSOR REMARK 3 T11: 0.0293 T22: 0.1088 REMARK 3 T33: 0.0828 T12: 0.0053 REMARK 3 T13: 0.0161 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 2.3108 L22: 2.9340 REMARK 3 L33: 4.7559 L12: 0.5391 REMARK 3 L13: -0.8870 L23: -0.7928 REMARK 3 S TENSOR REMARK 3 S11: 0.0519 S12: 0.0318 S13: 0.0295 REMARK 3 S21: -0.0604 S22: -0.0663 S23: -0.0058 REMARK 3 S31: 0.1207 S32: 0.2545 S33: 0.0681 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 31 THROUGH 92 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.4716 24.8181 16.7005 REMARK 3 T TENSOR REMARK 3 T11: 0.2197 T22: 0.1292 REMARK 3 T33: 0.1393 T12: 0.0088 REMARK 3 T13: 0.0500 T23: -0.0133 REMARK 3 L TENSOR REMARK 3 L11: 1.5914 L22: 0.4372 REMARK 3 L33: 1.9195 L12: 0.3976 REMARK 3 L13: -1.4025 L23: -0.8123 REMARK 3 S TENSOR REMARK 3 S11: 0.2194 S12: -0.1824 S13: 0.1110 REMARK 3 S21: 0.3059 S22: -0.0689 S23: 0.0602 REMARK 3 S31: -0.3679 S32: 0.0945 S33: -0.1161 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 93 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.6506 7.7939 30.3760 REMARK 3 T TENSOR REMARK 3 T11: 0.3106 T22: 0.2468 REMARK 3 T33: 0.1646 T12: 0.0269 REMARK 3 T13: 0.0253 T23: -0.0232 REMARK 3 L TENSOR REMARK 3 L11: 3.2731 L22: 3.1388 REMARK 3 L33: 4.5794 L12: -0.3168 REMARK 3 L13: 0.1822 L23: 0.5563 REMARK 3 S TENSOR REMARK 3 S11: 0.0025 S12: -0.4489 S13: -0.2153 REMARK 3 S21: 0.7901 S22: 0.1712 S23: -0.2706 REMARK 3 S31: 0.4948 S32: 0.4863 S33: -0.0680 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 132 THROUGH 216 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.7098 19.9238 8.5214 REMARK 3 T TENSOR REMARK 3 T11: 0.0908 T22: 0.0760 REMARK 3 T33: 0.0882 T12: -0.0030 REMARK 3 T13: 0.0243 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 0.5264 L22: 0.9128 REMARK 3 L33: 0.2321 L12: -0.2844 REMARK 3 L13: 0.2535 L23: -0.3463 REMARK 3 S TENSOR REMARK 3 S11: -0.0519 S12: -0.0335 S13: -0.0069 REMARK 3 S21: 0.0937 S22: 0.0451 S23: 0.0656 REMARK 3 S31: -0.0091 S32: -0.0444 S33: 0.0091 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 217 THROUGH 279 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.7820 1.8510 13.8032 REMARK 3 T TENSOR REMARK 3 T11: 0.1071 T22: 0.0982 REMARK 3 T33: 0.1047 T12: -0.0010 REMARK 3 T13: -0.0055 T23: -0.0058 REMARK 3 L TENSOR REMARK 3 L11: 0.5382 L22: 1.8718 REMARK 3 L33: 3.1021 L12: 0.0080 REMARK 3 L13: -0.1995 L23: -1.1254 REMARK 3 S TENSOR REMARK 3 S11: -0.0128 S12: -0.0888 S13: -0.0460 REMARK 3 S21: 0.1606 S22: -0.0240 S23: -0.1034 REMARK 3 S31: 0.1239 S32: 0.2293 S33: 0.0469 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 280 THROUGH 340 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.6979 -0.5073 4.4554 REMARK 3 T TENSOR REMARK 3 T11: 0.0842 T22: 0.0799 REMARK 3 T33: 0.0975 T12: -0.0117 REMARK 3 T13: -0.0017 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 1.2423 L22: 2.3212 REMARK 3 L33: 1.0267 L12: -0.6319 REMARK 3 L13: -0.4608 L23: 0.3088 REMARK 3 S TENSOR REMARK 3 S11: 0.0318 S12: 0.1135 S13: -0.1214 REMARK 3 S21: -0.0488 S22: -0.0720 S23: 0.2275 REMARK 3 S31: 0.0656 S32: -0.0563 S33: 0.0384 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 4XDU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000205499. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 72901 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.50900 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES, 0.7 M SODIUM ACETATE, 0.1 M REMARK 280 NACL, 20% (V/V) ETHYLENE GLYCOL;, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 58.41500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.40700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.41500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.40700 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 300 REMARK: THE BIOLOGICAL UNIT IS A MONOMER. THERE IS 1 BIOLOGICAL REMARK 300 UNIT IN THE ASYMMETRIC UNIT. 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 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 646 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 713 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 CYS A 1 REMARK 465 GLY A 2 REMARK 465 GLY A 3 REMARK 465 ARG A 4 REMARK 465 ASP A 201 REMARK 465 VAL A 202 REMARK 465 ARG A 203 REMARK 465 SER A 204 REMARK 465 ALA A 205 REMARK 465 ALA A 206 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 29 OE1 GLU A 33 1.52 REMARK 500 O HOH A 796 O HOH A 802 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 SER A 70 -149.72 -121.90 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 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 162 O REMARK 620 2 ASP A 284 O 92.8 REMARK 620 3 ASP A 284 OD1 83.5 91.3 REMARK 620 4 THR A 288 OG1 111.3 94.8 163.5 REMARK 620 5 ADP A 505 O1A 103.8 160.1 79.9 89.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 504 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 239 O REMARK 620 2 GLU A 244 OE1 103.2 REMARK 620 3 HOH A 789 O 98.2 154.6 REMARK 620 4 ADP A 505 O3B 111.3 81.5 103.5 REMARK 620 5 HOH A 787 O 151.6 104.4 53.4 79.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 267 O REMARK 620 2 EDO A 508 O1 78.6 REMARK 620 3 HOH A 816 O 172.2 96.7 REMARK 620 4 HOH A 735 O 95.7 76.8 89.2 REMARK 620 5 HOH A 823 O 92.7 105.0 82.5 171.6 REMARK 620 6 HOH A 851 O 92.9 155.6 93.9 81.5 98.1 REMARK 620 N 1 2 3 4 5 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 ASP A 284 OD1 REMARK 620 2 ADP A 505 O1B 173.5 REMARK 620 3 ADP A 505 O1A 89.6 89.2 REMARK 620 4 HOH A 718 O 91.4 94.8 85.4 REMARK 620 5 HOH A 850 O 90.6 91.4 174.3 88.9 REMARK 620 6 HOH A 717 O 84.2 89.5 93.0 175.3 92.7 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 MG 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 NA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 510 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4IFU RELATED DB: PDB REMARK 900 4IFU CONTAINS THE WILD TYPE PROTEIN, APO FORM. DBREF 4XDU A 1 340 UNP O83774 APBE_TREPA 23 362 SEQADV 4XDU TYR A 55 UNP O83774 ASN 77 ENGINEERED MUTATION SEQADV 4XDU VAL A 104 UNP O83774 UNK 126 CONFLICT SEQRES 1 A 340 CYS GLY GLY ARG ALA ARG VAL ARG GLU TYR SER ARG ALA SEQRES 2 A 340 GLU LEU VAL ILE GLY THR LEU CYS ARG VAL ARG VAL TYR SEQRES 3 A 340 SER LYS ARG PRO ALA ALA GLU VAL HIS ALA ALA LEU GLU SEQRES 4 A 340 GLU VAL PHE THR LEU LEU GLN GLN GLN GLU MET VAL LEU SEQRES 5 A 340 SER ALA TYR ARG ASP ASP SER ALA LEU ALA ALA LEU ASN SEQRES 6 A 340 ALA GLN ALA GLY SER ALA PRO VAL VAL VAL ASP ARG SER SEQRES 7 A 340 LEU TYR ALA LEU LEU GLU ARG ALA LEU PHE PHE ALA GLU SEQRES 8 A 340 LYS SER GLY GLY ALA PHE ASN PRO ALA LEU GLY ALA VAL SEQRES 9 A 340 VAL LYS LEU TRP ASN ILE GLY PHE ASP ARG ALA ALA VAL SEQRES 10 A 340 PRO ASP PRO ASP ALA LEU LYS GLU ALA LEU THR ARG CYS SEQRES 11 A 340 ASP PHE ARG GLN VAL HIS LEU ARG ALA GLY VAL SER VAL SEQRES 12 A 340 GLY ALA PRO HIS THR VAL GLN LEU ALA GLN ALA GLY MET SEQRES 13 A 340 GLN LEU ASP LEU GLY ALA ILE ALA LYS GLY PHE LEU ALA SEQRES 14 A 340 ASP LYS ILE VAL GLN LEU LEU THR ALA HIS ALA LEU ASP SEQRES 15 A 340 SER ALA LEU VAL ASP LEU GLY GLY ASN ILE PHE ALA LEU SEQRES 16 A 340 GLY LEU LYS TYR GLY ASP VAL ARG SER ALA ALA ALA GLN SEQRES 17 A 340 ARG LEU GLU TRP ASN VAL GLY ILE ARG ASP PRO HIS GLY SEQRES 18 A 340 THR GLY GLN LYS PRO ALA LEU VAL VAL SER VAL ARG ASP SEQRES 19 A 340 CYS SER VAL VAL THR SER GLY ALA TYR GLU ARG PHE PHE SEQRES 20 A 340 GLU ARG ASP GLY VAL ARG TYR HIS HIS ILE ILE ASP PRO SEQRES 21 A 340 VAL THR GLY PHE PRO ALA HIS THR ASP VAL ASP SER VAL SEQRES 22 A 340 SER ILE PHE ALA PRO ARG SER THR ASP ALA ASP ALA LEU SEQRES 23 A 340 ALA THR ALA CYS PHE VAL LEU GLY TYR GLU LYS SER CYS SEQRES 24 A 340 ALA LEU LEU ARG GLU PHE PRO GLY VAL ASP ALA LEU PHE SEQRES 25 A 340 ILE PHE PRO ASP LYS ARG VAL ARG ALA SER ALA GLY ILE SEQRES 26 A 340 VAL ASP ARG VAL ARG VAL LEU ASP ALA ARG PHE VAL LEU SEQRES 27 A 340 GLU ARG HET MG A 501 1 HET MG A 502 1 HET NA A 503 1 HET NA A 504 1 HET ADP A 505 39 HET EDO A 506 10 HET EDO A 507 10 HET EDO A 508 10 HET ACT A 509 7 HET ACT A 510 7 HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MG 2(MG 2+) FORMUL 4 NA 2(NA 1+) FORMUL 6 ADP C10 H15 N5 O10 P2 FORMUL 7 EDO 3(C2 H6 O2) FORMUL 10 ACT 2(C2 H3 O2 1-) FORMUL 12 HOH *255(H2 O) HELIX 1 AA1 PRO A 30 SER A 53 1 24 HELIX 2 AA2 SER A 59 GLN A 67 1 9 HELIX 3 AA3 ASP A 76 SER A 93 1 18 HELIX 4 AA4 LEU A 101 ALA A 115 1 15 HELIX 5 AA5 ASP A 119 THR A 128 1 10 HELIX 6 AA6 ARG A 129 CYS A 130 5 2 HELIX 7 AA7 ASP A 131 ARG A 133 5 3 HELIX 8 AA8 ILE A 163 HIS A 179 1 17 HELIX 9 AA9 ARG A 279 GLY A 294 1 16 HELIX 10 AB1 GLY A 294 ARG A 303 1 10 HELIX 11 AB2 ILE A 325 ASP A 327 5 3 SHEET 1 AA1 9 ARG A 8 VAL A 16 0 SHEET 2 AA1 9 THR A 19 SER A 27 -1 O VAL A 25 N TYR A 10 SHEET 3 AA1 9 ALA A 184 LEU A 188 -1 O ASP A 187 N ARG A 22 SHEET 4 AA1 9 ASN A 191 LEU A 195 -1 O PHE A 193 N VAL A 186 SHEET 5 AA1 9 CYS A 235 GLY A 241 -1 O CYS A 235 N ALA A 194 SHEET 6 AA1 9 SER A 272 ALA A 277 -1 O ALA A 277 N SER A 236 SHEET 7 AA1 9 ASP A 309 ILE A 313 -1 O LEU A 311 N SER A 274 SHEET 8 AA1 9 ARG A 318 ALA A 321 -1 O ARG A 320 N PHE A 312 SHEET 9 AA1 9 VAL A 337 LEU A 338 1 O VAL A 337 N VAL A 319 SHEET 1 AA2 3 VAL A 73 VAL A 75 0 SHEET 2 AA2 3 HIS A 147 LEU A 151 -1 O VAL A 149 N VAL A 73 SHEET 3 AA2 3 VAL A 135 ALA A 139 -1 N ARG A 138 O THR A 148 SHEET 1 AA3 2 LYS A 198 TYR A 199 0 SHEET 2 AA3 2 ARG A 209 LEU A 210 -1 O LEU A 210 N LYS A 198 SHEET 1 AA4 3 TRP A 212 ARG A 217 0 SHEET 2 AA4 3 PRO A 226 VAL A 232 -1 O LEU A 228 N ILE A 216 SHEET 3 AA4 3 VAL A 329 VAL A 331 -1 O ARG A 330 N VAL A 229 SHEET 1 AA5 2 PHE A 246 ARG A 249 0 SHEET 2 AA5 2 VAL A 252 HIS A 255 -1 O TYR A 254 N PHE A 247 LINK O ALA A 162 MG MG A 501 1555 1555 2.34 LINK O THR A 239 NA NA A 504 1555 1555 2.54 LINK OE1 GLU A 244 NA NA A 504 1555 1555 2.47 LINK O HIS A 267 NA NA A 503 1555 1555 2.15 LINK O ASP A 284 MG MG A 501 1555 1555 2.27 LINK OD1 ASP A 284 MG MG A 501 1555 1555 2.32 LINK OD1 ASP A 284 MG MG A 502 1555 1555 2.16 LINK OG1 THR A 288 MG MG A 501 1555 1555 2.30 LINK MG MG A 501 O1A ADP A 505 1555 1555 2.30 LINK MG MG A 502 O1B ADP A 505 1555 1555 2.03 LINK MG MG A 502 O1A ADP A 505 1555 1555 2.06 LINK MG MG A 502 O HOH A 718 1555 1555 2.15 LINK MG MG A 502 O HOH A 850 1555 1555 2.06 LINK MG MG A 502 O HOH A 717 1555 1555 2.11 LINK NA NA A 503 O1 EDO A 508 1555 1555 2.62 LINK NA NA A 503 O HOH A 816 1555 1555 2.26 LINK NA NA A 503 O HOH A 735 1555 1555 2.34 LINK NA NA A 503 O HOH A 823 1555 1555 2.44 LINK NA NA A 503 O HOH A 851 1555 1555 2.49 LINK NA NA A 504 O HOH A 789 1555 1555 2.62 LINK NA NA A 504 O3B ADP A 505 1555 1555 2.52 LINK NA NA A 504 O HOH A 787 1555 1555 2.41 SITE 1 AC1 5 ALA A 162 ASP A 284 THR A 288 MG A 502 SITE 2 AC1 5 ADP A 505 SITE 1 AC2 6 ASP A 284 MG A 501 ADP A 505 HOH A 717 SITE 2 AC2 6 HOH A 718 HOH A 850 SITE 1 AC3 6 HIS A 267 EDO A 508 HOH A 735 HOH A 816 SITE 2 AC3 6 HOH A 823 HOH A 851 SITE 1 AC4 5 THR A 239 GLU A 244 ADP A 505 HOH A 787 SITE 2 AC4 5 HOH A 789 SITE 1 AC5 27 ALA A 96 PHE A 97 ASN A 98 LEU A 101 SITE 2 AC5 27 ASP A 159 GLY A 161 ALA A 162 LYS A 165 SITE 3 AC5 27 SER A 240 GLU A 244 HIS A 256 ILE A 257 SITE 4 AC5 27 ILE A 258 ASP A 284 THR A 288 MG A 501 SITE 5 AC5 27 MG A 502 NA A 504 HOH A 717 HOH A 718 SITE 6 AC5 27 HOH A 733 HOH A 751 HOH A 803 HOH A 811 SITE 7 AC5 27 HOH A 826 HOH A 836 HOH A 850 SITE 1 AC6 5 PHE A 276 GLY A 307 ASP A 309 HOH A 828 SITE 2 AC6 5 HOH A 841 SITE 1 AC7 3 TYR A 295 ALA A 321 SER A 322 SITE 1 AC8 6 HIS A 267 ASP A 269 LEU A 293 NA A 503 SITE 2 AC8 6 HOH A 612 HOH A 735 SITE 1 AC9 4 ARG A 24 LEU A 185 LYS A 198 ASN A 213 SITE 1 AD1 7 SER A 27 LYS A 28 ALA A 180 LEU A 181 SITE 2 AD1 7 ASP A 182 HOH A 723 HOH A 809 CRYST1 116.830 46.814 57.501 90.00 102.22 90.00 C 1 2 1 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 0.008559 0.000000 0.001855 0.00000 SCALE2 0.000000 0.021361 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017795 0.00000 MASTER 449 0 10 11 19 0 23 6 0 0 0 27 END