HEADER HYDROLASE 08-MAY-25 9OJP TITLE CRYSTAL STRUCTURE OF E. COLI APAH BOUND TO MANGANESE IONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIS(5'-NUCLEOSYL)-TETRAPHOSPHATASE [SYMMETRICAL]; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AP4A HYDROLASE,DIADENOSINE 5',5'''-P1,P4-TETRAPHOSPHATE COMPND 5 PYROPHOSPHOHYDROLASE,DIADENOSINE TETRAPHOSPHATASE; COMPND 6 EC: 3.6.1.41; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: APAH, B0049, JW0048; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS APAH, SYMMETRICAL HYDROLASE, RNA DECAPPING, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.NUTHANAKANTI,A.SERGANOV REVDAT 2 10-JUN-26 9OJP 1 JRNL REVDAT 1 03-SEP-25 9OJP 0 JRNL AUTH A.NUTHANAKANTI,M.KORN,R.LEVENSON-PALMER,Y.WU,N.R.BABU, JRNL AUTH 2 X.HUANG,R.S.BANH,J.G.BELASCO,A.SERGANOV JRNL TITL APAH DECAPS NP 4 N-CAPPED RNAS IN TWO ALTERNATIVE JRNL TITL 2 ORIENTATIONS. JRNL REF NAT.CHEM.BIOL. V. 22 895 2026 JRNL REFN ESSN 1552-4469 JRNL PMID 40789943 JRNL DOI 10.1038/S41589-025-01991-4 REMARK 2 REMARK 2 RESOLUTION. 1.68 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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) : 1.68 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 83.36 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.3 REMARK 3 NUMBER OF REFLECTIONS : 92329 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.170 REMARK 3 FREE R VALUE TEST SET COUNT : 3846 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 83.3600 - 5.0300 0.94 6384 148 0.1809 0.1809 REMARK 3 2 5.0300 - 3.9900 0.95 6434 142 0.1379 0.1227 REMARK 3 3 3.9900 - 3.4900 0.95 6501 149 0.1354 0.1705 REMARK 3 4 3.4900 - 3.1700 0.96 6529 138 0.1615 0.1717 REMARK 3 5 3.1700 - 2.9400 0.93 6322 140 0.1623 0.1849 REMARK 3 6 2.9400 - 2.7700 0.96 6556 150 0.1713 0.1656 REMARK 3 7 2.7700 - 2.6300 0.97 6538 143 0.1697 0.1509 REMARK 3 8 2.6300 - 2.5200 0.97 6586 140 0.1705 0.1916 REMARK 3 9 2.5200 - 2.4200 0.97 6647 149 0.1623 0.1671 REMARK 3 10 2.4200 - 2.3400 0.97 6619 144 0.1704 0.1815 REMARK 3 11 2.3300 - 2.2600 0.98 6604 142 0.1755 0.1967 REMARK 3 12 2.2600 - 2.2000 0.96 6523 147 0.1748 0.1768 REMARK 3 13 2.2000 - 2.1400 0.92 6270 146 0.1829 0.2067 REMARK 3 14 2.1400 - 2.0900 0.95 6448 135 0.1814 0.2290 REMARK 3 15 2.0900 - 2.0400 0.96 6468 170 0.1950 0.2083 REMARK 3 16 2.0400 - 2.0000 0.96 6589 151 0.2046 0.2040 REMARK 3 17 2.0000 - 1.9600 0.96 6488 122 0.2197 0.2274 REMARK 3 18 1.9600 - 1.9200 0.96 6535 139 0.2287 0.2878 REMARK 3 19 1.9200 - 1.8900 0.95 6446 142 0.2485 0.2657 REMARK 3 20 1.8900 - 1.8500 0.95 6486 145 0.2529 0.2640 REMARK 3 21 1.8500 - 1.8200 0.94 6412 163 0.2511 0.2610 REMARK 3 22 1.8200 - 1.8000 0.92 6237 113 0.2606 0.2686 REMARK 3 23 1.8000 - 1.7700 0.92 6185 155 0.2597 0.3047 REMARK 3 24 1.7700 - 1.7400 0.93 6301 144 0.2618 0.2720 REMARK 3 25 1.7400 - 1.7200 0.92 6207 109 0.2643 0.2765 REMARK 3 26 1.7200 - 1.7000 0.92 6310 162 0.2819 0.3133 REMARK 3 27 1.7000 - 1.6800 0.81 5522 118 0.2883 0.3280 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) : 0.181 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.437 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.47 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 4409 REMARK 3 ANGLE : 0.958 6016 REMARK 3 CHIRALITY : 0.059 638 REMARK 3 PLANARITY : 0.025 773 REMARK 3 DIHEDRAL : 12.966 600 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 : 1 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 2 through 28 or REMARK 3 (resid 29 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 30 REMARK 3 through 82 or (resid 83 and (name N or REMARK 3 name CA or name C or name O or name CB or REMARK 3 name CG )) or resid 84 through 103 or REMARK 3 resid 105 through 190 or resid 192 REMARK 3 through 193 or resid 195 through 201 or REMARK 3 (resid 202 and (name N or name CA or name REMARK 3 C or name O or name CB or name CG )) or REMARK 3 resid 203 through 219 or (resid 220 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB or name CG )) or resid 221 REMARK 3 through 270)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 2 through 78 or REMARK 3 (resid 79 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 80 REMARK 3 through 103 or resid 105 through 136 or REMARK 3 (resid 137 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 138 REMARK 3 through 172 or (resid 173 and (name N or REMARK 3 name CA or name C or name O or name CB or REMARK 3 name CG )) or resid 174 through 190 or REMARK 3 resid 192 through 193 or resid 195 REMARK 3 through 200 or (resid 201 and (name N or REMARK 3 name CA or name C or name O or name CB )) REMARK 3 or resid 202 through 207 or (resid 208 REMARK 3 through 209 and (name N or name CA or REMARK 3 name C or name O or name CB or name CG or REMARK 3 name CD )) or resid 210 through 233 or REMARK 3 (resid 234 and (name N or name CA or name REMARK 3 C or name O or name CB or name CG or name REMARK 3 CD )) or resid 235 through 270)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9OJP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-25. REMARK 100 THE DEPOSITION ID IS D_1000295721. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-FEB-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.362500 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 92329 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.680 REMARK 200 RESOLUTION RANGE LOW (A) : 83.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.68 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.60200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CONDITIONS: 0.3 MM APAH (10 MG/ML), 1 REMARK 280 MM DTT, 2 MM MNCL2, 25 MM HEPES (PH 7.5), 0.2 M NACL. WELL REMARK 280 SOLUTION: 0.1 M HEPES (PH 7.5), 1.0 M AMMONIUM SULFATE, 0.5% REMARK 280 PEG8K., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 83.53350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.42550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 83.53350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.42550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 1 REMARK 465 HIS A 271 REMARK 465 LYS A 272 REMARK 465 ASP A 273 REMARK 465 LEU A 274 REMARK 465 GLY A 275 REMARK 465 GLU A 276 REMARK 465 ALA A 277 REMARK 465 ALA A 278 REMARK 465 ALA A 279 REMARK 465 SER A 280 REMARK 465 HIS A 281 REMARK 465 HIS A 282 REMARK 465 HIS A 283 REMARK 465 HIS A 284 REMARK 465 HIS A 285 REMARK 465 HIS A 286 REMARK 465 MET B 1 REMARK 465 HIS B 271 REMARK 465 LYS B 272 REMARK 465 ASP B 273 REMARK 465 LEU B 274 REMARK 465 GLY B 275 REMARK 465 GLU B 276 REMARK 465 ALA B 277 REMARK 465 ALA B 278 REMARK 465 ALA B 279 REMARK 465 SER B 280 REMARK 465 HIS B 281 REMARK 465 HIS B 282 REMARK 465 HIS B 283 REMARK 465 HIS B 284 REMARK 465 HIS B 285 REMARK 465 HIS B 286 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 79 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 137 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 173 CD1 CD2 REMARK 470 GLU A 201 CG CD OE1 OE2 REMARK 470 LYS A 208 CE NZ REMARK 470 LYS A 234 CE NZ REMARK 470 GLU A 238 CG CD OE1 OE2 REMARK 470 LYS B 29 CG CD CE NZ REMARK 470 LYS B 83 CD CE NZ REMARK 470 GLU B 201 CD OE1 OE2 REMARK 470 GLU B 202 CD OE1 OE2 REMARK 470 GLU B 220 CD OE1 OE2 REMARK 470 GLU B 238 CG CD OE1 OE2 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 O2 SO4 A 303 O HOH A 401 1.81 REMARK 500 O HOH A 439 O HOH A 732 1.95 REMARK 500 O HOH A 563 O HOH A 704 2.04 REMARK 500 O HOH A 661 O HOH A 723 2.08 REMARK 500 O HOH A 603 O HOH A 698 2.09 REMARK 500 O HOH A 691 O HOH A 700 2.17 REMARK 500 O HOH A 426 O HOH A 628 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 ALA A 40 147.53 82.24 REMARK 500 ARG A 41 -61.30 80.23 REMARK 500 ARG A 184 -71.77 -137.72 REMARK 500 HIS A 227 -50.45 69.41 REMARK 500 ALA B 40 151.19 81.02 REMARK 500 ARG B 41 -61.76 79.18 REMARK 500 ARG B 184 -71.76 -137.84 REMARK 500 HIS B 227 -51.37 69.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 270 0.10 SIDE CHAIN REMARK 500 ARG B 104 0.27 SIDE CHAIN REMARK 500 ARG B 270 0.26 SIDE CHAIN 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 MN A 301 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD2 REMARK 620 2 HIS A 10 NE2 116.0 REMARK 620 3 ASP A 37 OD2 86.7 86.5 REMARK 620 4 HOH A 416 O 102.2 97.0 167.7 REMARK 620 5 HOH A 532 O 108.3 128.4 70.4 98.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 302 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 37 OD2 REMARK 620 2 ASN A 65 OD1 87.1 REMARK 620 3 HIS A 120 NE2 92.6 92.6 REMARK 620 4 HIS A 227 ND1 167.4 100.9 96.7 REMARK 620 5 HOH A 532 O 83.3 117.9 148.8 84.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 302 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 8 OD2 REMARK 620 2 HIS B 10 NE2 120.7 REMARK 620 3 ASP B 37 OD2 86.5 91.7 REMARK 620 4 HOH B 414 O 102.4 96.1 162.9 REMARK 620 5 HOH B 451 O 109.6 126.0 72.4 90.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 303 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 37 OD2 REMARK 620 2 ASN B 65 OD1 87.0 REMARK 620 3 HIS B 120 NE2 91.7 93.4 REMARK 620 4 HIS B 227 ND1 173.0 99.3 90.8 REMARK 620 5 HOH B 451 O 87.9 118.2 148.3 86.6 REMARK 620 N 1 2 3 4 DBREF 9OJP A 1 280 UNP P05637 APAH_ECOLI 1 280 DBREF 9OJP B 1 280 UNP P05637 APAH_ECOLI 1 280 SEQADV 9OJP HIS A 281 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS A 282 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS A 283 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS A 284 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS A 285 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS A 286 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS B 281 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS B 282 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS B 283 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS B 284 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS B 285 UNP P05637 EXPRESSION TAG SEQADV 9OJP HIS B 286 UNP P05637 EXPRESSION TAG SEQRES 1 A 286 MET ALA THR TYR LEU ILE GLY ASP VAL HIS GLY CYS TYR SEQRES 2 A 286 ASP GLU LEU ILE ALA LEU LEU HIS LYS VAL GLU PHE THR SEQRES 3 A 286 PRO GLY LYS ASP THR LEU TRP LEU THR GLY ASP LEU VAL SEQRES 4 A 286 ALA ARG GLY PRO GLY SER LEU ASP VAL LEU ARG TYR VAL SEQRES 5 A 286 LYS SER LEU GLY ASP SER VAL ARG LEU VAL LEU GLY ASN SEQRES 6 A 286 HIS ASP LEU HIS LEU LEU ALA VAL PHE ALA GLY ILE SER SEQRES 7 A 286 ARG ASN LYS PRO LYS ASP ARG LEU THR PRO LEU LEU GLU SEQRES 8 A 286 ALA PRO ASP ALA ASP GLU LEU LEU ASN TRP LEU ARG ARG SEQRES 9 A 286 GLN PRO LEU LEU GLN ILE ASP GLU GLU LYS LYS LEU VAL SEQRES 10 A 286 MET ALA HIS ALA GLY ILE THR PRO GLN TRP ASP LEU GLN SEQRES 11 A 286 THR ALA LYS GLU CYS ALA ARG ASP VAL GLU ALA VAL LEU SEQRES 12 A 286 SER SER ASP SER TYR PRO PHE PHE LEU ASP ALA MET TYR SEQRES 13 A 286 GLY ASP MET PRO ASN ASN TRP SER PRO GLU LEU ARG GLY SEQRES 14 A 286 LEU GLY ARG LEU ARG PHE ILE THR ASN ALA PHE THR ARG SEQRES 15 A 286 MET ARG PHE CYS PHE PRO ASN GLY GLN LEU ASP MET TYR SEQRES 16 A 286 SER LYS GLU SER PRO GLU GLU ALA PRO ALA PRO LEU LYS SEQRES 17 A 286 PRO TRP PHE ALA ILE PRO GLY PRO VAL ALA GLU GLU TYR SEQRES 18 A 286 SER ILE ALA PHE GLY HIS TRP ALA SER LEU GLU GLY LYS SEQRES 19 A 286 GLY THR PRO GLU GLY ILE TYR ALA LEU ASP THR GLY CYS SEQRES 20 A 286 CYS TRP GLY GLY THR LEU THR CYS LEU ARG TRP GLU ASP SEQRES 21 A 286 LYS GLN TYR PHE VAL GLN PRO SER ASN ARG HIS LYS ASP SEQRES 22 A 286 LEU GLY GLU ALA ALA ALA SER HIS HIS HIS HIS HIS HIS SEQRES 1 B 286 MET ALA THR TYR LEU ILE GLY ASP VAL HIS GLY CYS TYR SEQRES 2 B 286 ASP GLU LEU ILE ALA LEU LEU HIS LYS VAL GLU PHE THR SEQRES 3 B 286 PRO GLY LYS ASP THR LEU TRP LEU THR GLY ASP LEU VAL SEQRES 4 B 286 ALA ARG GLY PRO GLY SER LEU ASP VAL LEU ARG TYR VAL SEQRES 5 B 286 LYS SER LEU GLY ASP SER VAL ARG LEU VAL LEU GLY ASN SEQRES 6 B 286 HIS ASP LEU HIS LEU LEU ALA VAL PHE ALA GLY ILE SER SEQRES 7 B 286 ARG ASN LYS PRO LYS ASP ARG LEU THR PRO LEU LEU GLU SEQRES 8 B 286 ALA PRO ASP ALA ASP GLU LEU LEU ASN TRP LEU ARG ARG SEQRES 9 B 286 GLN PRO LEU LEU GLN ILE ASP GLU GLU LYS LYS LEU VAL SEQRES 10 B 286 MET ALA HIS ALA GLY ILE THR PRO GLN TRP ASP LEU GLN SEQRES 11 B 286 THR ALA LYS GLU CYS ALA ARG ASP VAL GLU ALA VAL LEU SEQRES 12 B 286 SER SER ASP SER TYR PRO PHE PHE LEU ASP ALA MET TYR SEQRES 13 B 286 GLY ASP MET PRO ASN ASN TRP SER PRO GLU LEU ARG GLY SEQRES 14 B 286 LEU GLY ARG LEU ARG PHE ILE THR ASN ALA PHE THR ARG SEQRES 15 B 286 MET ARG PHE CYS PHE PRO ASN GLY GLN LEU ASP MET TYR SEQRES 16 B 286 SER LYS GLU SER PRO GLU GLU ALA PRO ALA PRO LEU LYS SEQRES 17 B 286 PRO TRP PHE ALA ILE PRO GLY PRO VAL ALA GLU GLU TYR SEQRES 18 B 286 SER ILE ALA PHE GLY HIS TRP ALA SER LEU GLU GLY LYS SEQRES 19 B 286 GLY THR PRO GLU GLY ILE TYR ALA LEU ASP THR GLY CYS SEQRES 20 B 286 CYS TRP GLY GLY THR LEU THR CYS LEU ARG TRP GLU ASP SEQRES 21 B 286 LYS GLN TYR PHE VAL GLN PRO SER ASN ARG HIS LYS ASP SEQRES 22 B 286 LEU GLY GLU ALA ALA ALA SER HIS HIS HIS HIS HIS HIS HET MN A 301 1 HET MN A 302 1 HET SO4 A 303 5 HET SO4 A 304 5 HET SO4 A 305 5 HET SO4 A 306 5 HET SO4 A 307 5 HET EPE B 301 32 HET MN B 302 1 HET MN B 303 1 HET SO4 B 304 5 HET SO4 B 305 5 HET SO4 B 306 5 HET SO4 B 307 5 HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN EPE HEPES FORMUL 3 MN 4(MN 2+) FORMUL 5 SO4 9(O4 S 2-) FORMUL 10 EPE C8 H18 N2 O4 S FORMUL 17 HOH *690(H2 O) HELIX 1 AA1 CYS A 12 VAL A 23 1 12 HELIX 2 AA2 GLY A 44 GLY A 56 1 13 HELIX 3 AA3 GLY A 64 ALA A 75 1 12 HELIX 4 AA4 LYS A 81 ARG A 85 5 5 HELIX 5 AA5 LEU A 86 GLU A 91 1 6 HELIX 6 AA6 ASP A 94 ARG A 103 1 10 HELIX 7 AA7 ASP A 128 SER A 145 1 18 HELIX 8 AA8 SER A 147 TYR A 156 1 10 HELIX 9 AA9 ARG A 168 ARG A 182 1 15 HELIX 10 AB1 SER A 199 ALA A 203 5 5 HELIX 11 AB2 PHE A 211 ILE A 213 5 3 HELIX 12 AB3 GLY A 215 TYR A 221 1 7 HELIX 13 AB4 TRP A 228 GLU A 232 5 5 HELIX 14 AB5 GLY A 246 GLY A 250 5 5 HELIX 15 AB6 CYS B 12 VAL B 23 1 12 HELIX 16 AB7 GLY B 44 LEU B 55 1 12 HELIX 17 AB8 GLY B 64 ALA B 75 1 12 HELIX 18 AB9 LYS B 81 ARG B 85 5 5 HELIX 19 AC1 LEU B 86 ALA B 92 1 7 HELIX 20 AC2 ASP B 94 ARG B 103 1 10 HELIX 21 AC3 ASP B 128 SER B 144 1 17 HELIX 22 AC4 SER B 147 MET B 155 1 9 HELIX 23 AC5 ARG B 168 ARG B 182 1 15 HELIX 24 AC6 SER B 199 ALA B 203 5 5 HELIX 25 AC7 PHE B 211 ILE B 213 5 3 HELIX 26 AC8 GLY B 215 TYR B 221 1 7 HELIX 27 AC9 TRP B 228 GLU B 232 5 5 HELIX 28 AD1 GLY B 246 GLY B 250 5 5 SHEET 1 AA1 5 VAL A 59 LEU A 61 0 SHEET 2 AA1 5 THR A 31 LEU A 34 1 N LEU A 32 O ARG A 60 SHEET 3 AA1 5 THR A 3 ILE A 6 1 N TYR A 4 O TRP A 33 SHEET 4 AA1 5 THR A 252 ARG A 257 -1 O LEU A 256 N LEU A 5 SHEET 5 AA1 5 GLN A 262 PRO A 267 -1 O GLN A 262 N ARG A 257 SHEET 1 AA2 4 LEU A 108 ASP A 111 0 SHEET 2 AA2 4 LEU A 116 ALA A 119 -1 O LEU A 116 N ASP A 111 SHEET 3 AA2 4 SER A 222 PHE A 225 1 O ALA A 224 N VAL A 117 SHEET 4 AA2 4 ILE A 240 ALA A 242 1 O TYR A 241 N ILE A 223 SHEET 1 AA3 2 PHE A 185 CYS A 186 0 SHEET 2 AA3 2 LYS A 208 PRO A 209 -1 O LYS A 208 N CYS A 186 SHEET 1 AA4 5 VAL B 59 LEU B 61 0 SHEET 2 AA4 5 THR B 31 LEU B 34 1 N LEU B 32 O ARG B 60 SHEET 3 AA4 5 THR B 3 ILE B 6 1 N TYR B 4 O TRP B 33 SHEET 4 AA4 5 THR B 252 ARG B 257 -1 O LEU B 256 N LEU B 5 SHEET 5 AA4 5 GLN B 262 PRO B 267 -1 O GLN B 262 N ARG B 257 SHEET 1 AA5 4 LEU B 108 ASP B 111 0 SHEET 2 AA5 4 LEU B 116 ALA B 119 -1 O LEU B 116 N ASP B 111 SHEET 3 AA5 4 SER B 222 PHE B 225 1 O ALA B 224 N VAL B 117 SHEET 4 AA5 4 ILE B 240 ALA B 242 1 O TYR B 241 N ILE B 223 SHEET 1 AA6 2 PHE B 185 CYS B 186 0 SHEET 2 AA6 2 LYS B 208 PRO B 209 -1 O LYS B 208 N CYS B 186 LINK OD2 ASP A 8 MN MN A 301 1555 1555 2.36 LINK NE2 HIS A 10 MN MN A 301 1555 1555 2.36 LINK OD2 ASP A 37 MN MN A 301 1555 1555 2.53 LINK OD2 ASP A 37 MN MN A 302 1555 1555 2.30 LINK OD1 ASN A 65 MN MN A 302 1555 1555 2.22 LINK NE2 HIS A 120 MN MN A 302 1555 1555 2.02 LINK ND1 HIS A 227 MN MN A 302 1555 1555 2.33 LINK MN MN A 301 O HOH A 416 1555 1555 2.14 LINK MN MN A 301 O HOH A 532 1555 1555 2.31 LINK MN MN A 302 O HOH A 532 1555 1555 1.88 LINK OD2 ASP B 8 MN MN B 302 1555 1555 2.27 LINK NE2 HIS B 10 MN MN B 302 1555 1555 2.37 LINK OD2 ASP B 37 MN MN B 302 1555 1555 2.53 LINK OD2 ASP B 37 MN MN B 303 1555 1555 2.21 LINK OD1 ASN B 65 MN MN B 303 1555 1555 2.22 LINK NE2 HIS B 120 MN MN B 303 1555 1555 2.08 LINK ND1 HIS B 227 MN MN B 303 1555 1555 2.22 LINK MN MN B 302 O HOH B 414 1555 1555 2.01 LINK MN MN B 302 O HOH B 451 1555 1555 2.45 LINK MN MN B 303 O HOH B 451 1555 1555 2.03 CISPEP 1 MET A 159 PRO A 160 0 -2.28 CISPEP 2 ALA A 205 PRO A 206 0 1.41 CISPEP 3 MET B 159 PRO B 160 0 -2.63 CISPEP 4 ALA B 205 PRO B 206 0 2.60 CRYST1 167.067 54.851 120.527 90.00 130.12 90.00 C 1 2 1 8 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 0.005986 0.000000 0.005044 0.00000 SCALE2 0.000000 0.018231 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010850 0.00000 MTRIX1 1 -0.030152 -0.050661 0.998261 3.13340 1 MTRIX2 1 0.031335 -0.998272 -0.049715 -27.73552 1 MTRIX3 1 0.999054 0.029781 0.031688 4.82031 1 CONECT 52 4238 CONECT 69 4238 CONECT 282 4238 4239 CONECT 488 4239 CONECT 932 4239 CONECT 1766 4239 CONECT 2155 4297 CONECT 2172 4297 CONECT 2381 4297 4298 CONECT 2587 4298 CONECT 3042 4298 CONECT 3898 4298 CONECT 4238 52 69 282 4334 CONECT 4238 4450 CONECT 4239 282 488 932 1766 CONECT 4239 4450 CONECT 4240 4241 4242 4243 4244 CONECT 4241 4240 CONECT 4242 4240 CONECT 4243 4240 CONECT 4244 4240 CONECT 4245 4246 4247 4248 4249 CONECT 4246 4245 CONECT 4247 4245 CONECT 4248 4245 CONECT 4249 4245 CONECT 4250 4251 4252 4253 4254 CONECT 4251 4250 CONECT 4252 4250 CONECT 4253 4250 CONECT 4254 4250 CONECT 4255 4256 4257 4258 4259 CONECT 4256 4255 CONECT 4257 4255 CONECT 4258 4255 CONECT 4259 4255 CONECT 4260 4261 4262 4263 4264 CONECT 4261 4260 CONECT 4262 4260 CONECT 4263 4260 CONECT 4264 4260 CONECT 4265 4266 4270 4274 CONECT 4266 4265 4267 4280 4281 CONECT 4267 4266 4268 4282 4283 CONECT 4268 4267 4269 4271 CONECT 4269 4268 4270 4284 4285 CONECT 4270 4265 4269 4286 4287 CONECT 4271 4268 4272 4288 4289 CONECT 4272 4271 4273 4290 4291 CONECT 4273 4272 4292 CONECT 4274 4265 4275 4293 4294 CONECT 4275 4274 4276 4295 4296 CONECT 4276 4275 4277 4278 4279 CONECT 4277 4276 CONECT 4278 4276 CONECT 4279 4276 CONECT 4280 4266 CONECT 4281 4266 CONECT 4282 4267 CONECT 4283 4267 CONECT 4284 4269 CONECT 4285 4269 CONECT 4286 4270 CONECT 4287 4270 CONECT 4288 4271 CONECT 4289 4271 CONECT 4290 4272 CONECT 4291 4272 CONECT 4292 4273 CONECT 4293 4274 CONECT 4294 4274 CONECT 4295 4275 CONECT 4296 4275 CONECT 4297 2155 2172 2381 4683 CONECT 4297 4720 CONECT 4298 2381 2587 3042 3898 CONECT 4298 4720 CONECT 4299 4300 4301 4302 4303 CONECT 4300 4299 CONECT 4301 4299 CONECT 4302 4299 CONECT 4303 4299 CONECT 4304 4305 4306 4307 4308 CONECT 4305 4304 CONECT 4306 4304 CONECT 4307 4304 CONECT 4308 4304 CONECT 4309 4310 4311 4312 4313 CONECT 4310 4309 CONECT 4311 4309 CONECT 4312 4309 CONECT 4313 4309 CONECT 4314 4315 4316 4317 4318 CONECT 4315 4314 CONECT 4316 4314 CONECT 4317 4314 CONECT 4318 4314 CONECT 4334 4238 CONECT 4450 4238 4239 CONECT 4683 4297 CONECT 4720 4297 4298 MASTER 429 0 14 28 22 0 0 9 4964 2 101 44 END