HEADER LIGASE 12-FEB-20 6VTE TITLE NAEGLERIA GRUBERI RNA LIGASE K170M MUTANT WITH AMP AND MN COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NAEGLERIA GRUBERI; SOURCE 3 ORGANISM_COMMON: AMOEBA; SOURCE 4 ORGANISM_TAXID: 5762; SOURCE 5 GENE: NAEGRDRAFT_82186; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RNA REPAIR, ADENYLYLTRANSFERASE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR M.C.UNCIULEAC,Y.GOLDGUR,S.SHUMAN REVDAT 4 11-OCT-23 6VTE 1 LINK REVDAT 3 10-JUN-20 6VTE 1 JRNL REVDAT 2 06-MAY-20 6VTE 1 JRNL REVDAT 1 08-APR-20 6VTE 0 JRNL AUTH M.C.UNCIULEAC,Y.GOLDGUR,S.SHUMAN JRNL TITL CAVEAT MUTATOR: ALANINE SUBSTITUTIONS FOR CONSERVED AMINO JRNL TITL 2 ACIDS IN RNA LIGASE ELICIT UNEXPECTED REARRANGEMENTS OF THE JRNL TITL 3 ACTIVE SITE FOR LYSINE ADENYLYLATION. JRNL REF NUCLEIC ACIDS RES. V. 48 5603 2020 JRNL REFN ESSN 1362-4962 JRNL PMID 32315072 JRNL DOI 10.1093/NAR/GKAA238 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.040 REMARK 3 COMPLETENESS FOR RANGE (%) : 70.1 REMARK 3 NUMBER OF REFLECTIONS : 28362 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.970 REMARK 3 FREE R VALUE TEST SET COUNT : 2827 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 27.7000 - 5.6800 0.84 1529 177 0.1409 0.1595 REMARK 3 2 5.6700 - 4.5100 0.86 1559 161 0.1362 0.1998 REMARK 3 3 4.5100 - 3.9400 0.81 1472 149 0.1394 0.2090 REMARK 3 4 3.9400 - 3.5900 0.83 1550 168 0.1612 0.2108 REMARK 3 5 3.5800 - 3.3300 0.76 1380 162 0.1733 0.2291 REMARK 3 6 3.3300 - 3.1300 0.78 1402 172 0.2044 0.2975 REMARK 3 7 3.1300 - 2.9800 0.82 1477 170 0.2277 0.3092 REMARK 3 8 2.9800 - 2.8500 0.83 1527 176 0.2380 0.3146 REMARK 3 9 2.8500 - 2.7400 0.75 1306 158 0.2390 0.2760 REMARK 3 10 2.7400 - 2.6400 0.80 1456 161 0.2452 0.3543 REMARK 3 11 2.6400 - 2.5600 0.81 1509 170 0.2425 0.2780 REMARK 3 12 2.5600 - 2.4900 0.81 1461 154 0.2384 0.3328 REMARK 3 13 2.4900 - 2.4200 0.81 1466 154 0.2280 0.3281 REMARK 3 14 2.4200 - 2.3600 0.74 1389 140 0.2311 0.2722 REMARK 3 15 2.3600 - 2.3100 0.63 1112 123 0.2379 0.3591 REMARK 3 16 2.3100 - 2.2600 0.57 1076 117 0.2544 0.3030 REMARK 3 17 2.2600 - 2.2100 0.51 925 88 0.2599 0.3767 REMARK 3 18 2.2100 - 2.1700 0.40 743 84 0.2654 0.4286 REMARK 3 19 2.1700 - 2.1300 0.36 643 83 0.2654 0.3357 REMARK 3 20 2.1300 - 2.1000 0.30 553 60 0.2515 0.3334 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.040 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.66 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 4 THROUGH 117 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.0477 -31.0426 -15.9670 REMARK 3 T TENSOR REMARK 3 T11: 0.2485 T22: 0.2094 REMARK 3 T33: 0.2602 T12: 0.0121 REMARK 3 T13: 0.0293 T23: 0.0207 REMARK 3 L TENSOR REMARK 3 L11: 0.5278 L22: 0.7339 REMARK 3 L33: 0.2967 L12: 0.0136 REMARK 3 L13: 0.0745 L23: -0.2179 REMARK 3 S TENSOR REMARK 3 S11: -0.0967 S12: -0.0548 S13: -0.2501 REMARK 3 S21: -0.1492 S22: -0.0322 S23: -0.1214 REMARK 3 S31: 0.0899 S32: 0.1800 S33: 0.0001 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 118 THROUGH 137 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.7500 -10.8319 -6.6639 REMARK 3 T TENSOR REMARK 3 T11: 0.3426 T22: 0.3723 REMARK 3 T33: 0.3608 T12: -0.0842 REMARK 3 T13: 0.0545 T23: 0.0276 REMARK 3 L TENSOR REMARK 3 L11: 0.0217 L22: 0.0256 REMARK 3 L33: 0.0461 L12: -0.0055 REMARK 3 L13: 0.0199 L23: 0.0692 REMARK 3 S TENSOR REMARK 3 S11: 0.1024 S12: -0.0571 S13: 0.2519 REMARK 3 S21: -0.3621 S22: 0.0854 S23: -0.3057 REMARK 3 S31: -0.2942 S32: 0.0681 S33: -0.0005 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 138 THROUGH 339 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.6968 -2.8855 -4.8857 REMARK 3 T TENSOR REMARK 3 T11: 0.1893 T22: 0.1374 REMARK 3 T33: 0.1560 T12: 0.0052 REMARK 3 T13: -0.0017 T23: 0.0048 REMARK 3 L TENSOR REMARK 3 L11: 0.5522 L22: 0.7164 REMARK 3 L33: 0.8196 L12: 0.3116 REMARK 3 L13: 0.4047 L23: 0.4140 REMARK 3 S TENSOR REMARK 3 S11: -0.0598 S12: -0.0373 S13: 0.0999 REMARK 3 S21: 0.0431 S22: 0.0184 S23: 0.0822 REMARK 3 S31: 0.0031 S32: 0.0001 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 6VTE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1000247053. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28362 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.6 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 46.9 REMARK 200 DATA REDUNDANCY IN SHELL : 1.30 REMARK 200 R MERGE FOR SHELL (I) : 0.24700 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5COT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NGRNLK170M (9.8 MG/ML) WAS ADJUSTED TO REMARK 280 5 MM AMP AND 2 MM MNCL2 AND INCUBATED FOR 15 MIN ON ICE BEFORE REMARK 280 ALIQUOTS OF THE PROTEIN SOLUTION (1 UL) WERE MIXED ON A REMARK 280 COVERSLIP WITH AN EQUAL VOLUME OF PRECIPITANT SOLUTION REMARK 280 CONTAINING 0.1 M HEPES PH 6.5, 30% PEG6000, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.16267 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 34.08133 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 VAL A 3 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 O HOH A 610 O HOH A 657 1.89 REMARK 500 O THR A 145 O3' AMP A 401 1.98 REMARK 500 OG1 THR A 199 O HOH A 501 2.07 REMARK 500 ND2 ASN A 308 O HOH A 502 2.09 REMARK 500 O ASP A 72 O HOH A 503 2.10 REMARK 500 O LEU A 237 O HOH A 504 2.12 REMARK 500 O5' AMP A 401 O HOH A 505 2.13 REMARK 500 O LYS A 161 O HOH A 506 2.16 REMARK 500 OD1 ASP A 244 O HOH A 507 2.16 REMARK 500 O HOH A 532 O HOH A 676 2.17 REMARK 500 N ARG A 4 O HOH A 508 2.18 REMARK 500 O HOH A 613 O HOH A 693 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 ASP A 273 CB - CG - OD1 ANGL. DEV. = -6.5 DEGREES 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 ASP A 30 -122.01 49.01 REMARK 500 ASP A 53 -12.35 82.51 REMARK 500 ASP A 59 99.92 -170.74 REMARK 500 TYR A 63 59.83 -117.10 REMARK 500 THR A 145 70.14 -114.36 REMARK 500 ASP A 182 -129.50 45.80 REMARK 500 ASP A 183 37.02 -86.29 REMARK 500 ASN A 290 54.64 -161.03 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 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 AMP A 401 O3P REMARK 620 2 HOH A 543 O 172.9 REMARK 620 3 HOH A 557 O 90.5 82.9 REMARK 620 4 HOH A 571 O 106.2 80.4 163.2 REMARK 620 5 HOH A 580 O 94.4 87.1 79.9 100.5 REMARK 620 6 HOH A 662 O 91.8 86.6 98.6 79.1 173.6 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 402 DBREF 6VTE A 1 339 UNP D2W2Z5 D2W2Z5_NAEGR 1 339 SEQADV 6VTE SER A 0 UNP D2W2Z5 EXPRESSION TAG SEQADV 6VTE MET A 170 UNP D2W2Z5 LYS 170 ENGINEERED MUTATION SEQRES 1 A 340 SER MET GLY VAL ARG LYS LEU ALA THR ILE ARG THR ALA SEQRES 2 A 340 GLY GLU ILE THR PRO ILE ALA GLY ALA GLU ALA ILE GLU SEQRES 3 A 340 CYS CYS HIS VAL ASP GLY TRP THR CYS VAL ILE LYS LYS SEQRES 4 A 340 GLY GLU PHE LYS GLN GLY ASP ARG GLY VAL TYR PHE GLU SEQRES 5 A 340 ILE ASP SER PHE ILE LYS GLU ASP ASN ASP ARG TYR PRO SEQRES 6 A 340 MET LEU SER LYS GLN VAL ILE ASP TYR GLU GLY GLN ARG SEQRES 7 A 340 GLY THR ARG LEU ARG THR ALA ARG LEU ARG GLY GLN LEU SEQRES 8 A 340 SER GLN GLY LEU PHE LEU PRO MET ASP ARG PHE PRO GLU SEQRES 9 A 340 LEU ALA SER ASN GLN VAL GLY ASP ASP VAL THR GLU ILE SEQRES 10 A 340 LEU GLY ILE THR LYS TRP GLU PRO PRO ILE SER THR ASN SEQRES 11 A 340 LEU SER GLY GLU ILE LEU GLY GLU PHE PRO THR PHE ILE SEQRES 12 A 340 SER LYS THR ASP GLN GLU ARG VAL GLN ASN LEU ILE PRO SEQRES 13 A 340 GLN ILE GLU GLU ASN LYS GLY GLN LYS PHE GLU VAL THR SEQRES 14 A 340 VAL MET LEU ASP GLY SER SER MET THR VAL TYR ARG LYS SEQRES 15 A 340 ASP ASP HIS ILE GLY VAL CYS GLY ARG ASN TRP GLU LEU SEQRES 16 A 340 ARG GLU THR ALA THR ASN ALA GLN TRP HIS ALA ALA ARG SEQRES 17 A 340 ARG ASN LYS MET ILE GLU GLY LEU GLN PHE LEU ASN ARG SEQRES 18 A 340 ASN LEU ALA LEU GLN GLY GLU ILE ILE GLY GLU SER ILE SEQRES 19 A 340 GLN GLY ASN LEU GLU LYS LEU LYS GLY GLN ASP PHE TYR SEQRES 20 A 340 LEU PHE ASP ILE TYR ASP ILE ASP LYS ALA GLN TYR LEU SEQRES 21 A 340 THR PRO ILE GLU ARG GLN SER LEU VAL LYS GLN LEU ASN SEQRES 22 A 340 ASP ASN GLY PHE THR VAL LYS HIS VAL PRO ILE LEU ASP SEQRES 23 A 340 ASP LEU GLU LEU ASN HIS THR ALA GLU GLN ILE LEU ALA SEQRES 24 A 340 MET ALA ASP GLY PRO SER LEU ASN LYS ASN VAL LYS ARG SEQRES 25 A 340 GLU GLY LEU VAL PHE LYS ARG LEU ASP GLY LYS PHE SER SEQRES 26 A 340 PHE LYS ALA ILE SER ASN ALA TYR LEU GLU LYS HIS LYS SEQRES 27 A 340 ASP ARG HET AMP A 401 23 HET MN A 402 1 HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM MN MANGANESE (II) ION FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 MN MN 2+ FORMUL 4 HOH *194(H2 O) HELIX 1 AA1 TYR A 63 LYS A 68 5 6 HELIX 2 AA2 ASP A 99 ALA A 105 5 7 HELIX 3 AA3 VAL A 113 GLY A 118 1 6 HELIX 4 AA4 SER A 127 SER A 131 5 5 HELIX 5 AA5 ARG A 149 ASN A 152 5 4 HELIX 6 AA6 LEU A 153 ASN A 160 1 8 HELIX 7 AA7 ASN A 200 ASN A 209 1 10 HELIX 8 AA8 LYS A 210 ASN A 219 1 10 HELIX 9 AA9 ILE A 233 LEU A 237 5 5 HELIX 10 AB1 THR A 260 ASP A 273 1 14 HELIX 11 AB2 THR A 292 ASP A 301 1 10 HELIX 12 AB3 SER A 329 HIS A 336 1 8 SHEET 1 AA1 5 TRP A 32 LYS A 37 0 SHEET 2 AA1 5 ALA A 21 VAL A 29 -1 N CYS A 27 O CYS A 34 SHEET 3 AA1 5 ALA A 7 ILE A 18 -1 N THR A 16 O CYS A 26 SHEET 4 AA1 5 ARG A 46 PHE A 50 -1 O TYR A 49 N THR A 8 SHEET 5 AA1 5 LEU A 94 PRO A 97 -1 O LEU A 94 N PHE A 50 SHEET 1 AA2 4 VAL A 70 TYR A 73 0 SHEET 2 AA2 4 GLN A 76 ARG A 80 -1 O GLY A 78 N ILE A 71 SHEET 3 AA2 4 SER A 54 LYS A 57 -1 N ILE A 56 O THR A 79 SHEET 4 AA2 4 THR A 120 LYS A 121 -1 O THR A 120 N PHE A 55 SHEET 1 AA3 2 ALA A 84 ARG A 85 0 SHEET 2 AA3 2 LEU A 90 SER A 91 -1 O SER A 91 N ALA A 84 SHEET 1 AA4 7 ILE A 134 GLU A 137 0 SHEET 2 AA4 7 TRP A 192 LEU A 194 -1 O GLU A 193 N LEU A 135 SHEET 3 AA4 7 HIS A 184 CYS A 188 -1 N VAL A 187 O LEU A 194 SHEET 4 AA4 7 SER A 174 LYS A 181 -1 N THR A 177 O CYS A 188 SHEET 5 AA4 7 LEU A 222 GLY A 230 -1 O LEU A 224 N VAL A 178 SHEET 6 AA4 7 GLN A 243 ASP A 252 -1 O ASP A 249 N GLN A 225 SHEET 7 AA4 7 GLN A 257 TYR A 258 -1 O GLN A 257 N ASP A 252 SHEET 1 AA5 4 LEU A 287 GLU A 288 0 SHEET 2 AA5 4 LYS A 164 MET A 170 -1 N PHE A 165 O LEU A 287 SHEET 3 AA5 4 GLY A 313 ARG A 318 -1 O LYS A 317 N GLU A 166 SHEET 4 AA5 4 SER A 324 ILE A 328 -1 O PHE A 325 N PHE A 316 LINK O3P AMP A 401 MN MN A 402 1555 1555 2.28 LINK MN MN A 402 O HOH A 543 1555 1555 2.19 LINK MN MN A 402 O HOH A 557 1555 1555 2.03 LINK MN MN A 402 O HOH A 571 1555 1555 2.27 LINK MN MN A 402 O HOH A 580 1555 1555 2.08 LINK MN MN A 402 O HOH A 662 1555 1555 2.09 SITE 1 AC1 17 THR A 145 THR A 168 VAL A 169 MET A 170 SITE 2 AC1 17 LEU A 171 SER A 175 GLU A 227 PHE A 248 SITE 3 AC1 17 VAL A 281 VAL A 315 LYS A 317 LYS A 326 SITE 4 AC1 17 MN A 402 HOH A 505 HOH A 557 HOH A 565 SITE 5 AC1 17 HOH A 602 SITE 1 AC2 6 AMP A 401 HOH A 543 HOH A 557 HOH A 571 SITE 2 AC2 6 HOH A 580 HOH A 662 CRYST1 54.916 54.916 102.244 90.00 90.00 120.00 P 32 3 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 0.018210 0.010513 0.000000 0.00000 SCALE2 0.000000 0.021027 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009781 0.00000