HEADER TRANSFERASE 19-DEC-14 4XDR TITLE CRYSTAL STRUCTURE OF TREPONEMA PALLIDUM TP0796 FLAVIN TRAFFICKING TITLE 2 PROTEIN, A BIFUNCTIONAL FMN TRANSFERASE/FAD PYROPHOSPHATASE, D284A TITLE 3 MUTANT, ADN 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 2 27-SEP-23 4XDR 1 REMARK LINK REVDAT 1 14-OCT-15 4XDR 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. 1.40 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.16 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 59261 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 3011 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 28.1691 - 3.9204 0.96 2571 132 0.1727 0.1884 REMARK 3 2 3.9204 - 3.1130 0.99 2624 132 0.1727 0.1878 REMARK 3 3 3.1130 - 2.7199 0.99 2623 122 0.1754 0.1838 REMARK 3 4 2.7199 - 2.4714 1.00 2602 145 0.1615 0.2146 REMARK 3 5 2.4714 - 2.2943 1.00 2575 140 0.1585 0.1820 REMARK 3 6 2.2943 - 2.1591 1.00 2601 141 0.1523 0.1703 REMARK 3 7 2.1591 - 2.0510 1.00 2598 132 0.1548 0.1774 REMARK 3 8 2.0510 - 1.9617 1.00 2582 130 0.1575 0.1809 REMARK 3 9 1.9617 - 1.8862 1.00 2598 148 0.1620 0.1997 REMARK 3 10 1.8862 - 1.8212 1.00 2584 129 0.1665 0.2045 REMARK 3 11 1.8212 - 1.7642 1.00 2580 127 0.1717 0.2336 REMARK 3 12 1.7642 - 1.7138 1.00 2572 153 0.1661 0.1969 REMARK 3 13 1.7138 - 1.6687 1.00 2585 127 0.1710 0.2022 REMARK 3 14 1.6687 - 1.6280 1.00 2576 148 0.1714 0.2160 REMARK 3 15 1.6280 - 1.5910 1.00 2577 132 0.1844 0.2149 REMARK 3 16 1.5910 - 1.5571 1.00 2547 141 0.1823 0.2257 REMARK 3 17 1.5571 - 1.5260 1.00 2591 152 0.1894 0.1835 REMARK 3 18 1.5260 - 1.4972 1.00 2543 139 0.1902 0.2003 REMARK 3 19 1.4972 - 1.4704 1.00 2600 146 0.2149 0.2615 REMARK 3 20 1.4704 - 1.4455 0.99 2533 151 0.2221 0.2414 REMARK 3 21 1.4455 - 1.4222 0.97 2502 129 0.2473 0.2682 REMARK 3 22 1.4222 - 1.4003 0.81 2086 115 0.2817 0.2619 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.970 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.42 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 : 0.014 2671 REMARK 3 ANGLE : 1.418 3613 REMARK 3 CHIRALITY : 0.085 424 REMARK 3 PLANARITY : 0.007 465 REMARK 3 DIHEDRAL : 12.250 942 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 5 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.6186 51.2342 3.7699 REMARK 3 T TENSOR REMARK 3 T11: 0.0575 T22: 0.1068 REMARK 3 T33: 0.0873 T12: -0.0032 REMARK 3 T13: 0.0010 T23: 0.0048 REMARK 3 L TENSOR REMARK 3 L11: 2.7997 L22: 3.0405 REMARK 3 L33: 2.3215 L12: 0.0645 REMARK 3 L13: -0.3193 L23: -0.1033 REMARK 3 S TENSOR REMARK 3 S11: 0.0119 S12: -0.1588 S13: 0.0462 REMARK 3 S21: 0.2627 S22: -0.0351 S23: 0.0715 REMARK 3 S31: -0.0756 S32: 0.0772 S33: 0.0057 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 53 THROUGH 114 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.5947 44.7767 23.4317 REMARK 3 T TENSOR REMARK 3 T11: 0.2151 T22: 0.1735 REMARK 3 T33: 0.1533 T12: -0.0095 REMARK 3 T13: 0.0229 T23: -0.0318 REMARK 3 L TENSOR REMARK 3 L11: 1.0802 L22: 3.1489 REMARK 3 L33: 2.5097 L12: -0.1940 REMARK 3 L13: -0.3816 L23: 0.3327 REMARK 3 S TENSOR REMARK 3 S11: 0.0097 S12: -0.1334 S13: 0.1846 REMARK 3 S21: 0.4111 S22: 0.0885 S23: -0.2442 REMARK 3 S31: -0.3833 S32: 0.1900 S33: -0.0389 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 115 THROUGH 244 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.9199 41.1827 11.6491 REMARK 3 T TENSOR REMARK 3 T11: 0.1036 T22: 0.0926 REMARK 3 T33: 0.0944 T12: -0.0004 REMARK 3 T13: 0.0039 T23: 0.0020 REMARK 3 L TENSOR REMARK 3 L11: 0.6052 L22: 1.1222 REMARK 3 L33: 0.8907 L12: -0.1851 REMARK 3 L13: -0.0422 L23: -0.1378 REMARK 3 S TENSOR REMARK 3 S11: -0.0372 S12: -0.0956 S13: -0.0133 REMARK 3 S21: 0.2048 S22: 0.0549 S23: 0.0401 REMARK 3 S31: 0.0422 S32: 0.0023 S33: 0.0004 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 245 THROUGH 340 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.2166 26.7932 10.2385 REMARK 3 T TENSOR REMARK 3 T11: 0.0659 T22: 0.0753 REMARK 3 T33: 0.1024 T12: -0.0076 REMARK 3 T13: -0.0152 T23: -0.0014 REMARK 3 L TENSOR REMARK 3 L11: 1.3977 L22: 2.0910 REMARK 3 L33: 1.4315 L12: -0.3986 REMARK 3 L13: -0.8725 L23: 0.0358 REMARK 3 S TENSOR REMARK 3 S11: -0.0119 S12: -0.0245 S13: -0.0606 REMARK 3 S21: 0.0821 S22: 0.0097 S23: 0.0788 REMARK 3 S31: 0.0706 S32: 0.0110 S33: 0.0083 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 4XDR 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_1000205464. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-APR-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 : 59272 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 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 (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.54500 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 4IFU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 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 58.41700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.39600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.41700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.39600 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 532 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 583 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 465 ALA A 207 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 1.39 REMARK 500 OE2 GLU A 211 HH12 ARG A 328 1.54 REMARK 500 HE21 GLN A 47 O HOH A 693 1.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 235 CB CYS A 235 SG -0.160 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 -151.52 -125.65 REMARK 500 ARG A 245 113.03 -166.37 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 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 267 O REMARK 620 2 HOH A 628 O 96.8 REMARK 620 3 HOH A 671 O 167.6 90.9 REMARK 620 4 HOH A 675 O 93.4 86.9 96.8 REMARK 620 5 HOH A 694 O 83.9 175.3 87.6 97.8 REMARK 620 N 1 2 3 4 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 413 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 4XDR A 1 340 UNP O83774 APBE_TREPA 23 362 SEQADV 4XDR VAL A 104 UNP O83774 UNK 126 CONFLICT SEQADV 4XDR ALA A 284 UNP O83774 ASP 306 ENGINEERED MUTATION 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 ASN 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 ALA 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 401 1 HET ADN A 402 64 HET ACT A 403 7 HET ACT A 404 7 HET ACT A 405 7 HET ACT A 406 7 HET ACT A 407 7 HET ACT A 408 7 HET EDO A 409 10 HET EDO A 410 10 HET EDO A 411 10 HET EDO A 412 10 HET EDO A 413 10 HETNAM MG MAGNESIUM ION HETNAM ADN ADENOSINE HETNAM ACT ACETATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MG MG 2+ FORMUL 3 ADN C10 H13 N5 O4 FORMUL 4 ACT 6(C2 H3 O2 1-) FORMUL 10 EDO 5(C2 H6 O2) FORMUL 15 HOH *194(H2 O) HELIX 1 AA1 PRO A 30 SER A 53 1 24 HELIX 2 AA2 SER A 59 ALA A 66 1 8 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 THR A 19 N VAL A 16 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 LEU A 195 N ALA A 184 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 ASP A 309 N PHE A 276 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 HIS A 136 O GLN A 150 SHEET 1 AA3 3 TRP A 212 ILE A 216 0 SHEET 2 AA3 3 LEU A 228 VAL A 232 -1 O VAL A 232 N TRP A 212 SHEET 3 AA3 3 VAL A 329 VAL A 331 -1 O ARG A 330 N VAL A 229 SHEET 1 AA4 2 PHE A 246 ARG A 249 0 SHEET 2 AA4 2 VAL A 252 HIS A 255 -1 O TYR A 254 N PHE A 247 LINK O HIS A 267 MG MG A 401 1555 1555 2.14 LINK MG MG A 401 O HOH A 628 1555 1555 2.15 LINK MG MG A 401 O HOH A 671 1555 1555 2.08 LINK MG MG A 401 O HOH A 675 1555 1555 2.27 LINK MG MG A 401 O HOH A 694 1555 1555 2.90 SITE 1 AC1 5 HIS A 267 HOH A 628 HOH A 671 HOH A 675 SITE 2 AC1 5 HOH A 694 SITE 1 AC2 14 ALA A 96 PHE A 97 ASN A 98 LEU A 101 SITE 2 AC2 14 VAL A 105 ASP A 159 GLY A 161 ALA A 162 SITE 3 AC2 14 HIS A 256 ILE A 258 EDO A 411 HOH A 589 SITE 4 AC2 14 HOH A 647 HOH A 662 SITE 1 AC3 4 ARG A 24 LEU A 185 LYS A 198 ASN A 213 SITE 1 AC4 7 SER A 27 LYS A 28 ALA A 180 LEU A 181 SITE 2 AC4 7 ASP A 182 HOH A 594 HOH A 650 SITE 1 AC5 2 GLU A 9 ALA A 13 SITE 1 AC6 6 ARG A 85 ARG A 279 ASP A 282 VAL A 308 SITE 2 AC6 6 ARG A 340 HOH A 668 SITE 1 AC7 7 GLY A 190 ILE A 192 GLY A 215 ILE A 216 SITE 2 AC7 7 VAL A 237 THR A 239 HOH A 621 SITE 1 AC8 6 GLU A 9 TYR A 10 SER A 11 ARG A 12 SITE 2 AC8 6 ALA A 13 ARG A 22 SITE 1 AC9 6 ALA A 162 ASN A 191 THR A 239 SER A 240 SITE 2 AC9 6 GLU A 244 HOH A 647 SITE 1 AD1 6 VAL A 143 ASP A 182 GLY A 196 ASP A 234 SITE 2 AD1 6 ARG A 303 HOH A 545 SITE 1 AD2 6 VAL A 105 ASN A 109 PHE A 112 ARG A 245 SITE 2 AD2 6 HIS A 256 ADN A 402 SITE 1 AD3 6 PHE A 276 ALA A 277 PRO A 278 GLY A 307 SITE 2 AD3 6 ASP A 309 HOH A 658 SITE 1 AD4 2 ALA A 103 ARG A 129 CRYST1 116.834 46.792 57.725 90.00 102.56 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 0.001906 0.00000 SCALE2 0.000000 0.021371 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017748 0.00000