HEADER HYDROLASE 15-DEC-12 4IFZ TITLE CRYSTAL STRUCTURE OF TREPONEMA PALLIDUM TP0796 FLAVIN TRAFFICKING TITLE 2 PROTEIN, MN(II)-AMP PRODUCT BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: THIAMINE BIOSYNTHESIS LIPOPROTEIN APBE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TREPONEMA PALLIDUM SUBSP. PALLIDUM; SOURCE 3 ORGANISM_TAXID: 243276; SOURCE 4 STRAIN: NICHOLS; SOURCE 5 GENE: APBE, TP0796, 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 HYDROLASE, BIMETAL CENTER, FAD PYROPHOSPHATASE, FLAVIN TURNOVER, KEYWDS 2 TREPONEMA PALLIDUM EXPDTA X-RAY DIFFRACTION AUTHOR D.R.TOMCHICK,C.A.BRAUTIGAM,R.K.DEKA,M.V.NORGARD REVDAT 6 20-SEP-23 4IFZ 1 REMARK LINK REVDAT 5 15-NOV-17 4IFZ 1 REMARK REVDAT 4 08-MAY-13 4IFZ 1 JRNL REVDAT 3 13-MAR-13 4IFZ 1 JRNL REVDAT 2 06-MAR-13 4IFZ 1 TITLE REVDAT 1 27-FEB-13 4IFZ 0 JRNL AUTH R.K.DEKA,C.A.BRAUTIGAM,W.Z.LIU,D.R.TOMCHICK,M.V.NORGARD JRNL TITL THE TP0796 LIPOPROTEIN OF TREPONEMA PALLIDUM IS A JRNL TITL 2 BIMETAL-DEPENDENT FAD PYROPHOSPHATASE WITH A POTENTIAL ROLE JRNL TITL 3 IN FLAVIN HOMEOSTASIS. JRNL REF J.BIOL.CHEM. V. 288 11106 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 23447540 JRNL DOI 10.1074/JBC.M113.449975 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.1_1168 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.53 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 24011 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 1187 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 29.5324 - 3.8000 1.00 2963 155 0.1589 0.1945 REMARK 3 2 3.8000 - 3.0171 1.00 2893 141 0.1677 0.1967 REMARK 3 3 3.0171 - 2.6360 1.00 2867 144 0.1635 0.2110 REMARK 3 4 2.6360 - 2.3951 1.00 2839 151 0.1587 0.2048 REMARK 3 5 2.3951 - 2.2235 0.99 2853 154 0.1478 0.2129 REMARK 3 6 2.2235 - 2.0925 0.99 2834 153 0.1487 0.2073 REMARK 3 7 2.0925 - 1.9877 0.99 2813 148 0.1481 0.2174 REMARK 3 8 1.9877 - 1.9012 0.98 2762 141 0.1529 0.2165 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.780 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.41 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 : 0.015 2684 REMARK 3 ANGLE : 1.268 3672 REMARK 3 CHIRALITY : 0.082 420 REMARK 3 PLANARITY : 0.007 479 REMARK 3 DIHEDRAL : 12.386 970 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 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.5679 50.7068 3.9446 REMARK 3 T TENSOR REMARK 3 T11: 0.1434 T22: 0.1602 REMARK 3 T33: 0.1257 T12: 0.0017 REMARK 3 T13: 0.0069 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 0.4870 L22: 0.5030 REMARK 3 L33: 0.2637 L12: 0.2319 REMARK 3 L13: 0.1345 L23: -0.2361 REMARK 3 S TENSOR REMARK 3 S11: 0.0521 S12: 0.0155 S13: 0.0256 REMARK 3 S21: 0.0822 S22: -0.1164 S23: 0.0040 REMARK 3 S31: -0.0270 S32: 0.0544 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 53 THROUGH 129 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.0051 41.7706 25.8278 REMARK 3 T TENSOR REMARK 3 T11: 0.2205 T22: 0.1504 REMARK 3 T33: 0.1558 T12: -0.0121 REMARK 3 T13: 0.0275 T23: -0.0228 REMARK 3 L TENSOR REMARK 3 L11: 0.2182 L22: 0.9704 REMARK 3 L33: 0.7082 L12: -0.2456 REMARK 3 L13: -0.1398 L23: 0.1806 REMARK 3 S TENSOR REMARK 3 S11: -0.0331 S12: -0.0214 S13: 0.0390 REMARK 3 S21: 0.3433 S22: 0.0616 S23: 0.0680 REMARK 3 S31: -0.1069 S32: -0.0775 S33: 0.0070 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 130 THROUGH 195 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.8494 48.0480 13.4193 REMARK 3 T TENSOR REMARK 3 T11: 0.1569 T22: 0.1368 REMARK 3 T33: 0.1560 T12: 0.0161 REMARK 3 T13: 0.0216 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 0.1067 L22: 0.3751 REMARK 3 L33: 0.1950 L12: -0.1660 REMARK 3 L13: 0.1355 L23: -0.2731 REMARK 3 S TENSOR REMARK 3 S11: -0.0654 S12: -0.0124 S13: 0.0308 REMARK 3 S21: 0.1016 S22: 0.0559 S23: 0.0897 REMARK 3 S31: -0.0379 S32: -0.0533 S33: -0.0004 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 196 THROUGH 225 ) REMARK 3 ORIGIN FOR THE GROUP (A): 49.0732 33.4449 -2.1866 REMARK 3 T TENSOR REMARK 3 T11: 0.1786 T22: 0.1976 REMARK 3 T33: 0.1406 T12: 0.0321 REMARK 3 T13: 0.0054 T23: -0.0076 REMARK 3 L TENSOR REMARK 3 L11: 0.2557 L22: 0.1852 REMARK 3 L33: 0.2417 L12: 0.1185 REMARK 3 L13: 0.2504 L23: 0.1290 REMARK 3 S TENSOR REMARK 3 S11: 0.0207 S12: 0.1202 S13: 0.0221 REMARK 3 S21: -0.2058 S22: -0.1488 S23: -0.1040 REMARK 3 S31: 0.3561 S32: 0.2793 S33: -0.0004 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 226 THROUGH 255 ) REMARK 3 ORIGIN FOR THE GROUP (A): 44.9245 28.4645 13.4605 REMARK 3 T TENSOR REMARK 3 T11: 0.1375 T22: 0.1791 REMARK 3 T33: 0.2140 T12: -0.0000 REMARK 3 T13: -0.0365 T23: 0.0213 REMARK 3 L TENSOR REMARK 3 L11: 0.0316 L22: 0.6390 REMARK 3 L33: 0.1686 L12: -0.0749 REMARK 3 L13: 0.0750 L23: -0.1049 REMARK 3 S TENSOR REMARK 3 S11: -0.0037 S12: -0.0275 S13: -0.0328 REMARK 3 S21: -0.1126 S22: -0.0928 S23: -0.1600 REMARK 3 S31: 0.2049 S32: 0.0535 S33: 0.0412 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 256 THROUGH 340 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.5933 26.6556 7.6955 REMARK 3 T TENSOR REMARK 3 T11: 0.1346 T22: 0.1255 REMARK 3 T33: 0.1601 T12: -0.0011 REMARK 3 T13: -0.0169 T23: -0.0132 REMARK 3 L TENSOR REMARK 3 L11: 0.4307 L22: 0.9340 REMARK 3 L33: 0.4837 L12: -0.0440 REMARK 3 L13: -0.2211 L23: -0.0782 REMARK 3 S TENSOR REMARK 3 S11: -0.0039 S12: 0.0371 S13: -0.0762 REMARK 3 S21: 0.0224 S22: -0.0297 S23: 0.1354 REMARK 3 S31: 0.0940 S32: 0.0163 S33: -0.0000 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 4IFZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-DEC-12. REMARK 100 THE DEPOSITION ID IS D_1000076703. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-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) : 1.49993 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24023 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.23200 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 (%): 41.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES, 0.8 M SODIUM ACETATE, 0.1 M REMARK 280 NACL, 20% (W/V) ETHYLENE GLYCOL, PH 6.5, HANGING-DROP VAPOR REMARK 280 DIFFUSION, 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 58.31600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.45350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.31600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.45350 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 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 730 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 731 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 OE2 GLU A 211 HH12 ARG A 328 1.59 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 -155.52 -123.74 REMARK 500 ALA A 115 68.78 -53.11 REMARK 500 PRO A 118 -176.98 -55.78 REMARK 500 ASP A 182 12.67 -144.53 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 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 162 O REMARK 620 2 ASP A 284 O 90.9 REMARK 620 3 ASP A 284 OD1 83.2 90.8 REMARK 620 4 THR A 288 OG1 110.3 95.1 165.1 REMARK 620 5 AMP A 501 O1P 102.1 165.0 83.3 87.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 503 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 284 OD1 REMARK 620 2 AMP A 501 O1P 88.1 REMARK 620 3 HOH A 601 O 90.7 87.9 REMARK 620 4 HOH A 602 O 86.4 92.5 177.0 REMARK 620 5 HOH A 603 O 174.9 88.1 92.6 90.3 REMARK 620 6 HOH A 604 O 92.2 178.5 93.6 86.1 91.5 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 AMP 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 MN A 503 DBREF 4IFZ A 1 340 UNP O83774 APBE_TREPA 23 362 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 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 AMP A 501 35 HET MG A 502 1 HET MN A 503 1 HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM MN MANGANESE (II) ION FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 MG MG 2+ FORMUL 4 MN MN 2+ FORMUL 5 HOH *159(H2 O) HELIX 1 1 PRO A 30 SER A 53 1 24 HELIX 2 2 SER A 59 GLN A 67 1 9 HELIX 3 3 ASP A 76 SER A 93 1 18 HELIX 4 4 LEU A 101 ARG A 114 1 14 HELIX 5 5 ASP A 119 THR A 128 1 10 HELIX 6 6 ARG A 129 CYS A 130 5 2 HELIX 7 7 ASP A 131 ARG A 133 5 3 HELIX 8 8 ILE A 163 HIS A 179 1 17 HELIX 9 9 ARG A 279 GLY A 294 1 16 HELIX 10 10 GLY A 294 ARG A 303 1 10 HELIX 11 11 ILE A 325 ASP A 327 5 3 SHEET 1 A 9 ARG A 8 VAL A 16 0 SHEET 2 A 9 THR A 19 SER A 27 -1 O VAL A 25 N TYR A 10 SHEET 3 A 9 ALA A 184 LEU A 188 -1 O ASP A 187 N ARG A 22 SHEET 4 A 9 ASN A 191 LEU A 195 -1 O LEU A 195 N ALA A 184 SHEET 5 A 9 CYS A 235 GLY A 241 -1 O CYS A 235 N ALA A 194 SHEET 6 A 9 SER A 272 ALA A 277 -1 O ILE A 275 N VAL A 238 SHEET 7 A 9 ASP A 309 ILE A 313 -1 O LEU A 311 N SER A 274 SHEET 8 A 9 ARG A 318 ALA A 321 -1 O ARG A 320 N PHE A 312 SHEET 9 A 9 VAL A 337 LEU A 338 1 O VAL A 337 N VAL A 319 SHEET 1 B 3 VAL A 73 VAL A 75 0 SHEET 2 B 3 HIS A 147 LEU A 151 -1 O VAL A 149 N VAL A 73 SHEET 3 B 3 VAL A 135 ALA A 139 -1 N HIS A 136 O GLN A 150 SHEET 1 C 2 LYS A 198 TYR A 199 0 SHEET 2 C 2 ARG A 209 LEU A 210 -1 O LEU A 210 N LYS A 198 SHEET 1 D 3 TRP A 212 ARG A 217 0 SHEET 2 D 3 PRO A 226 VAL A 232 -1 O VAL A 230 N VAL A 214 SHEET 3 D 3 VAL A 329 VAL A 331 -1 O ARG A 330 N VAL A 229 SHEET 1 E 2 PHE A 246 ARG A 249 0 SHEET 2 E 2 VAL A 252 HIS A 255 -1 O TYR A 254 N PHE A 247 LINK O ALA A 162 MG MG A 502 1555 1555 2.42 LINK O ASP A 284 MG MG A 502 1555 1555 2.25 LINK OD1 ASP A 284 MG MG A 502 1555 1555 2.32 LINK OD1 ASP A 284 MN MN A 503 1555 1555 2.15 LINK OG1 THR A 288 MG MG A 502 1555 1555 2.31 LINK O1P AMP A 501 MG MG A 502 1555 1555 2.23 LINK O1P AMP A 501 MN MN A 503 1555 1555 2.20 LINK MN MN A 503 O HOH A 601 1555 1555 2.24 LINK MN MN A 503 O HOH A 602 1555 1555 2.25 LINK MN MN A 503 O HOH A 603 1555 1555 2.25 LINK MN MN A 503 O HOH A 604 1555 1555 2.19 SITE 1 AC1 20 ALA A 96 PHE A 97 ASN A 98 LEU A 101 SITE 2 AC1 20 ASP A 159 GLY A 161 ALA A 162 SER A 240 SITE 3 AC1 20 HIS A 256 ILE A 257 ILE A 258 ASP A 284 SITE 4 AC1 20 THR A 288 MG A 502 MN A 503 HOH A 601 SITE 5 AC1 20 HOH A 603 HOH A 606 HOH A 610 HOH A 709 SITE 1 AC2 5 ALA A 162 ASP A 284 THR A 288 AMP A 501 SITE 2 AC2 5 MN A 503 SITE 1 AC3 7 ASP A 284 AMP A 501 MG A 502 HOH A 601 SITE 2 AC3 7 HOH A 602 HOH A 603 HOH A 604 CRYST1 116.632 46.907 57.625 90.00 102.17 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 0.008574 0.000000 0.001849 0.00000 SCALE2 0.000000 0.021319 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017753 0.00000