HEADER TRANSFERASE 12-JUL-11 3ZTP TITLE ORTHORHOMBIC CRYSTAL FORM P21212 OF THE AQUIFEX AEOLICUS NUCLEOSIDE TITLE 2 DIPHOSPHATE KINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOSIDE DIPHOSPHATE KINASE; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: NDK, NDP KINASE, NUCLEOSIDE-2-P KINASE; COMPND 5 EC: 2.7.4.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 63363; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-21A KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR F.BOISSIER,F.GEORGESCAULD,L.MOYNIE,J.-W.DUPUY,C.SARGER,M.PODAR, AUTHOR 2 I.LASCU,M.-F.GIRAUD,A.DAUTANT REVDAT 3 20-DEC-23 3ZTP 1 REMARK ATOM REVDAT 2 23-MAY-12 3ZTP 1 JRNL REVDAT 1 14-MAR-12 3ZTP 0 JRNL AUTH F.BOISSIER,F.GEORGESCAULD,L.MOYNIE,J.W.DUPUY,C.SARGER, JRNL AUTH 2 M.PODAR,I.LASCU,M.F.GIRAUD,A.DAUTANT JRNL TITL AN INTERSUBUNIT DISULFIDE BRIDGE STABILIZES THE TETRAMERIC JRNL TITL 2 NUCLEOSIDE DIPHOSPHATE KINASE OF AQUIFEX AEOLICUS. JRNL REF PROTEINS V. 80 1658 2012 JRNL REFN ISSN 0887-3585 JRNL PMID 22467275 JRNL DOI 10.1002/PROT.24062 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.MOYNIE,M.GIRAUD,F.GEORGESCAULD,I.LASCU,A.DAUTANT REMARK 1 TITL THE STRUCTURE OF THE ESCHERICHIA COLI NUCLEOSIDE DIPHOSPHATE REMARK 1 TITL 2 KINASE REVEALS A NEW QUATERNARY ARCHITECTURE FOR THIS ENZYME REMARK 1 TITL 3 FAMILY. REMARK 1 REF PROTEINS V. 67 755 2007 REMARK 1 REFN ISSN 0887-3585 REMARK 1 PMID 17330300 REMARK 1 DOI 10.1002/PROT.21316 REMARK 1 REFERENCE 2 REMARK 1 AUTH R.L.WILLIAMS,D.A.OREN,J.MUNOZ-DORADO,S.INOUYE,M.INOUYE, REMARK 1 AUTH 2 E.ARNOLD REMARK 1 TITL CRYSTAL STRUCTURE OF MYXOCOCCUS XANTHUS NUCLEOSIDE REMARK 1 TITL 2 DIPHOSPHATE KINASE AND ITS INTERACTION WITH A NUCLEOTIDE REMARK 1 TITL 3 SUBSTRATE AT 2.0 A RESOLUTION. REMARK 1 REF J.MOL.BIOL. V. 234 1230 1993 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 8263923 REMARK 1 DOI 10.1006/JMBI.1993.1673 REMARK 2 REMARK 2 RESOLUTION. 1.37 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 1.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 64327 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.162 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3212 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 23.3164 - 2.9498 0.99 6422 363 0.1523 0.1690 REMARK 3 2 2.9498 - 2.3420 1.00 6338 319 0.1290 0.1414 REMARK 3 3 2.3420 - 2.0462 1.00 6246 315 0.1218 0.1404 REMARK 3 4 2.0462 - 1.8592 1.00 6227 302 0.1234 0.1365 REMARK 3 5 1.8592 - 1.7260 1.00 6160 343 0.1338 0.1488 REMARK 3 6 1.7260 - 1.6242 1.00 6220 276 0.1390 0.1719 REMARK 3 7 1.6242 - 1.5429 1.00 6142 357 0.1408 0.1593 REMARK 3 8 1.5429 - 1.4758 1.00 6125 344 0.1703 0.1775 REMARK 3 9 1.4758 - 1.4190 0.96 5934 313 0.2183 0.2441 REMARK 3 10 1.4190 - 1.3700 0.86 5301 280 0.2489 0.2726 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.60 REMARK 3 SHRINKAGE RADIUS : 0.41 REMARK 3 K_SOL : 0.48 REMARK 3 B_SOL : 61.22 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 13.700 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.55280 REMARK 3 B22 (A**2) : 0.17820 REMARK 3 B33 (A**2) : -0.73100 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.010 2493 REMARK 3 ANGLE : 1.325 3388 REMARK 3 CHIRALITY : 0.077 363 REMARK 3 PLANARITY : 0.008 453 REMARK 3 DIHEDRAL : 13.150 994 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND (RESSEQ 2:51 OR RESSEQ 58:142) AND NOT REMARK 3 ELEMENT H) REMARK 3 ORIGIN FOR THE GROUP (A): 14.3299 -4.9306 -9.6471 REMARK 3 T TENSOR REMARK 3 T11: 0.0184 T22: 0.0505 REMARK 3 T33: 0.0147 T12: -0.0186 REMARK 3 T13: -0.0021 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 0.3712 L22: 0.6954 REMARK 3 L33: 1.0248 L12: 0.2054 REMARK 3 L13: 0.0931 L23: 0.0299 REMARK 3 S TENSOR REMARK 3 S11: -0.0066 S12: 0.0261 S13: -0.0009 REMARK 3 S21: -0.0080 S22: 0.0093 S23: 0.0317 REMARK 3 S31: 0.0663 S32: -0.1539 S33: -0.0039 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 52:57 AND NOT ELEMENT H) REMARK 3 ORIGIN FOR THE GROUP (A): 3.3762 -14.4664 0.8018 REMARK 3 T TENSOR REMARK 3 T11: 0.1743 T22: 0.3216 REMARK 3 T33: 0.1930 T12: -0.1596 REMARK 3 T13: 0.0426 T23: -0.0848 REMARK 3 L TENSOR REMARK 3 L11: 5.1274 L22: 0.9609 REMARK 3 L33: 0.2115 L12: 2.1597 REMARK 3 L13: -0.4292 L23: -0.0859 REMARK 3 S TENSOR REMARK 3 S11: -0.0845 S12: 0.0021 S13: 0.2554 REMARK 3 S21: -0.0108 S22: 0.0102 S23: 0.2077 REMARK 3 S31: 0.0609 S32: -0.0359 S33: 0.0307 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN C AND (RESSEQ 2:51 OR RESSEQ 58:142) AND NOT REMARK 3 ELEMENT H) REMARK 3 ORIGIN FOR THE GROUP (A): 16.6893 8.5151 21.6137 REMARK 3 T TENSOR REMARK 3 T11: 0.0734 T22: 0.0845 REMARK 3 T33: 0.0507 T12: 0.0301 REMARK 3 T13: 0.0016 T23: -0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.2064 L22: 0.7728 REMARK 3 L33: 1.0356 L12: -0.0629 REMARK 3 L13: -0.1141 L23: -0.0959 REMARK 3 S TENSOR REMARK 3 S11: -0.0066 S12: -0.0212 S13: 0.0065 REMARK 3 S21: 0.0379 S22: 0.0012 S23: 0.0390 REMARK 3 S31: -0.1206 S32: -0.1677 S33: 0.0018 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 52:57 AND NOT ELEMENT H) REMARK 3 ORIGIN FOR THE GROUP (A): 8.4778 19.6596 11.5567 REMARK 3 T TENSOR REMARK 3 T11: 0.2389 T22: 0.4528 REMARK 3 T33: 0.3100 T12: 0.2120 REMARK 3 T13: -0.0884 T23: -0.0798 REMARK 3 L TENSOR REMARK 3 L11: 0.3967 L22: 0.0695 REMARK 3 L33: 0.0390 L12: 0.1637 REMARK 3 L13: 0.1154 L23: 0.0477 REMARK 3 S TENSOR REMARK 3 S11: -0.0677 S12: -0.2618 S13: 0.1769 REMARK 3 S21: -0.0270 S22: 0.0380 S23: 0.1076 REMARK 3 S31: 0.0357 S32: 0.0962 S33: 0.0466 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: IN THE SSBOND CARDS: THE FIRST ATOM REMARK 3 BELONGS TO THE ALTERNATE CONFORMER A (WITH OCCUPANCY Q1). THE REMARK 3 SECOND ONE BELONGS TO THE ALTERNATE CONFORMER B (WITH OCCUPANCY REMARK 3 Q2). ABS(Q1 - Q2)*100 IS THE PERCENTAGE OF CYS133 NOT INVOLVED REMARK 3 IN THE DISULFIDE BRIDGE. REMARK 4 REMARK 4 3ZTP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1290045702. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-09 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 : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9334 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE(220) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65505 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.370 REMARK 200 RESOLUTION RANGE LOW (A) : 23.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.37 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.31000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 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: PDB ENTRY 3ZTO REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M AMMONIUM FORMATE, 0.1 M HEPES, REMARK 280 PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 26.09000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.56000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.09000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.56000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -110.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 BIOMT1 2 -1.000000 0.000000 0.000000 52.18000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A2097 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2187 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 MET A 1 REMARK 465 MET C 1 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 113 -158.41 -154.60 REMARK 500 ALA A 118 -40.25 73.70 REMARK 500 ASP C 113 -149.94 -148.41 REMARK 500 ALA C 118 -40.96 73.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2035 DISTANCE = 6.67 ANGSTROMS REMARK 525 HOH A2036 DISTANCE = 6.98 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 510 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZTS RELATED DB: PDB REMARK 900 HEXAGONAL FORM P6122 OF THE AQUIFEX AEOLICUS NUCLEOSIDE DIPHOSPHATE REMARK 900 KINASE (FINAL STAGE OF RADIATION DAMAGE) REMARK 900 RELATED ID: 3ZTR RELATED DB: PDB REMARK 900 HEXAGONAL FORM P6122 OF THE AQUIFEX AEOLICUS NUCLEOSIDE DIPHOSPHATE REMARK 900 KINASE (FIRST STAGE OF RADIATION DAMAGE) REMARK 900 RELATED ID: 3ZTQ RELATED DB: PDB REMARK 900 HEXAGONAL CRYSTAL FORM P61 OF THE AQUIFEX AEOLICUS NUCLEOSIDE REMARK 900 DIPHOSPHATE KINASE REMARK 900 RELATED ID: 3ZTO RELATED DB: PDB REMARK 900 ORTHORHOMBIC CRYSTAL FORM C222 OF THE AQUIFEX AEOLICUS NUCLEOSIDE REMARK 900 DIPHOSPHATE KINASE DBREF 3ZTP A 1 142 UNP O67528 NDK_AQUAE 1 142 DBREF 3ZTP C 1 142 UNP O67528 NDK_AQUAE 1 142 SEQRES 1 A 142 MET ALA VAL GLU ARG THR LEU ILE ILE VAL LYS PRO ASP SEQRES 2 A 142 ALA MET GLU LYS GLY ALA LEU GLY LYS ILE LEU ASP ARG SEQRES 3 A 142 PHE ILE GLN GLU GLY PHE GLN ILE LYS ALA LEU LYS MET SEQRES 4 A 142 PHE ARG PHE THR PRO GLU LYS ALA GLY GLU PHE TYR TYR SEQRES 5 A 142 VAL HIS ARG GLU ARG PRO PHE PHE GLN GLU LEU VAL GLU SEQRES 6 A 142 PHE MET SER SER GLY PRO VAL VAL ALA ALA VAL LEU GLU SEQRES 7 A 142 GLY GLU ASP ALA ILE LYS ARG VAL ARG GLU ILE ILE GLY SEQRES 8 A 142 PRO THR ASP SER GLU GLU ALA ARG LYS VAL ALA PRO ASN SEQRES 9 A 142 SER ILE ARG ALA GLN PHE GLY THR ASP LYS GLY LYS ASN SEQRES 10 A 142 ALA ILE HIS ALA SER ASP SER PRO GLU SER ALA GLN TYR SEQRES 11 A 142 GLU ILE CYS PHE ILE PHE SER GLY LEU GLU ILE VAL SEQRES 1 C 142 MET ALA VAL GLU ARG THR LEU ILE ILE VAL LYS PRO ASP SEQRES 2 C 142 ALA MET GLU LYS GLY ALA LEU GLY LYS ILE LEU ASP ARG SEQRES 3 C 142 PHE ILE GLN GLU GLY PHE GLN ILE LYS ALA LEU LYS MET SEQRES 4 C 142 PHE ARG PHE THR PRO GLU LYS ALA GLY GLU PHE TYR TYR SEQRES 5 C 142 VAL HIS ARG GLU ARG PRO PHE PHE GLN GLU LEU VAL GLU SEQRES 6 C 142 PHE MET SER SER GLY PRO VAL VAL ALA ALA VAL LEU GLU SEQRES 7 C 142 GLY GLU ASP ALA ILE LYS ARG VAL ARG GLU ILE ILE GLY SEQRES 8 C 142 PRO THR ASP SER GLU GLU ALA ARG LYS VAL ALA PRO ASN SEQRES 9 C 142 SER ILE ARG ALA GLN PHE GLY THR ASP LYS GLY LYS ASN SEQRES 10 C 142 ALA ILE HIS ALA SER ASP SER PRO GLU SER ALA GLN TYR SEQRES 11 C 142 GLU ILE CYS PHE ILE PHE SER GLY LEU GLU ILE VAL HET GOL A 500 14 HET SO4 A 510 5 HET SO4 C 510 5 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL C3 H8 O3 FORMUL 4 SO4 2(O4 S 2-) FORMUL 6 HOH *356(H2 O) HELIX 1 1 LYS A 11 GLY A 18 1 8 HELIX 2 2 ALA A 19 GLU A 30 1 12 HELIX 3 3 THR A 43 TYR A 51 1 9 HELIX 4 4 TYR A 52 ARG A 55 5 4 HELIX 5 5 PHE A 59 SER A 68 1 10 HELIX 6 6 ASP A 81 GLY A 91 1 11 HELIX 7 7 ASP A 94 ALA A 102 1 9 HELIX 8 8 SER A 105 GLY A 111 1 7 HELIX 9 9 SER A 124 PHE A 136 1 13 HELIX 10 10 SER A 137 ILE A 141 5 5 HELIX 11 11 LYS C 11 LYS C 17 1 7 HELIX 12 12 ALA C 19 GLU C 30 1 12 HELIX 13 13 THR C 43 TYR C 51 1 9 HELIX 14 14 TYR C 52 ARG C 57 5 6 HELIX 15 15 PHE C 59 SER C 68 1 10 HELIX 16 16 ASP C 81 GLY C 91 1 11 HELIX 17 17 ASP C 94 ALA C 102 1 9 HELIX 18 18 SER C 105 GLY C 111 1 7 HELIX 19 19 SER C 124 PHE C 136 1 13 HELIX 20 20 SER C 137 ILE C 141 5 5 SHEET 1 AA 4 GLN A 33 PHE A 40 0 SHEET 2 AA 4 VAL A 72 GLU A 80 -1 O VAL A 72 N PHE A 40 SHEET 3 AA 4 VAL A 3 VAL A 10 -1 O GLU A 4 N GLY A 79 SHEET 4 AA 4 ILE A 119 ALA A 121 -1 O HIS A 120 N ILE A 9 SHEET 1 CA 4 GLN C 33 PHE C 40 0 SHEET 2 CA 4 VAL C 72 GLU C 80 -1 O VAL C 72 N PHE C 40 SHEET 3 CA 4 VAL C 3 VAL C 10 -1 O GLU C 4 N GLY C 79 SHEET 4 CA 4 ILE C 119 ALA C 121 -1 O HIS C 120 N ILE C 9 SSBOND 1 CYS A 133 CYS C 133 1555 1555 2.99 SITE 1 AC1 9 PHE A 50 TYR A 51 TYR A 52 VAL A 53 SITE 2 AC1 9 HIS A 54 SER A 127 GLU A 131 HOH A2115 SITE 3 AC1 9 HOH A2190 SITE 1 AC2 9 LYS A 11 TYR A 51 ARG A 107 HIS A 120 SITE 2 AC2 9 HOH A2029 HOH A2114 HOH A2115 HOH A2156 SITE 3 AC2 9 HOH A2191 SITE 1 AC3 8 LYS C 11 TYR C 51 LEU C 63 HIS C 120 SITE 2 AC3 8 HOH C2021 HOH C2139 HOH C2150 HOH C2165 CRYST1 52.180 95.120 61.980 90.00 90.00 90.00 P 21 21 2 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 0.019164 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010513 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016134 0.00000