HEADER PHOSPHOTRANSFERASE 29-NOV-93 1NDP TITLE ADENOSINE 5'-DIPHOSPHATE BINDING AND THE ACTIVE SITE OF NUCLEOSIDE TITLE 2 DIPHOSPHATE KINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOSIDE DIPHOSPHATE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.4.6; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DICTYOSTELIUM DISCOIDEUM; SOURCE 3 ORGANISM_TAXID: 44689 KEYWDS PHOSPHOTRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.JANIN,S.MORERA,C.DUMAS,I.LASCU,G.LEBRAS,M.VERON REVDAT 5 14-FEB-24 1NDP 1 REMARK LINK REVDAT 4 13-JUL-11 1NDP 1 VERSN REVDAT 3 24-FEB-09 1NDP 1 VERSN REVDAT 2 01-APR-03 1NDP 1 JRNL REVDAT 1 30-APR-94 1NDP 0 JRNL AUTH S.MORERA,I.LASCU,C.DUMAS,G.LEBRAS,P.BRIOZZO,M.VERON,J.JANIN JRNL TITL ADENOSINE 5'-DIPHOSPHATE BINDING AND THE ACTIVE SITE OF JRNL TITL 2 NUCLEOSIDE DIPHOSPHATE KINASE. JRNL REF BIOCHEMISTRY V. 33 459 1994 JRNL REFN ISSN 0006-2960 JRNL PMID 8286376 JRNL DOI 10.1021/BI00168A010 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.CHIADMI,S.MORERA,C.DUMAS,G.LEBRAS,I.LASCU,M.VERON,J.JANIN REMARK 1 TITL X-RAY STRUCTURE OF AWD NUCLEOSIDE DIPHOSPHATE KINASE FROM REMARK 1 TITL 2 DROSOPHILA REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 2 REMARK 1 AUTH C.DUMAS,I.LASCU,S.MORERA,P.GLASER,R.FOURME,V.WALLET, REMARK 1 AUTH 2 M.L.LACOMBE,M.VERON,J.JANIN REMARK 1 TITL X-RAY STRUCTURE OF NUCLEOSIDE DIPHOSPHATE KINASE REMARK 1 REF EMBO J. V. 11 3203 1992 REMARK 1 REFN ISSN 0261-4189 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 15348 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2294 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 158 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.014 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.044 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.050 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.010 ; 0.010 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.109 ; 0.100 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.180 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1NDP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000175250. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.59000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 21.12525 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 52.81667 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 36.59000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 21.12525 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 52.81667 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 36.59000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 21.12525 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 52.81667 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.25049 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 105.63333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 42.25049 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 105.63333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 42.25049 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 105.63333 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 18370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -108.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 SER A 2 REMARK 465 THR A 3 REMARK 465 ASN A 4 REMARK 465 LYS A 5 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 THR B 3 REMARK 465 ASN B 4 REMARK 465 LYS B 5 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 B 181 O HOH B 232 2.15 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 ARG A 10 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 22 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 THR A 48 C - N - CA ANGL. DEV. = 16.1 DEGREES REMARK 500 TYR A 56 CB - CG - CD2 ANGL. DEV. = -4.8 DEGREES REMARK 500 TYR A 56 CB - CG - CD1 ANGL. DEV. = 4.5 DEGREES REMARK 500 VAL A 81 CB - CA - C ANGL. DEV. = 13.0 DEGREES REMARK 500 PHE A 82 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ALA A 104 N - CA - CB ANGL. DEV. = -9.1 DEGREES REMARK 500 ARG A 109 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ASP A 111 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP A 115 N - CA - CB ANGL. DEV. = -12.2 DEGREES REMARK 500 ASP A 115 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 118 CD - NE - CZ ANGL. DEV. = -18.8 DEGREES REMARK 500 ARG A 118 NH1 - CZ - NH2 ANGL. DEV. = 26.1 DEGREES REMARK 500 ARG A 118 NE - CZ - NH1 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG A 118 NE - CZ - NH2 ANGL. DEV. = -18.9 DEGREES REMARK 500 GLU A 128 OE1 - CD - OE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 ASN A 131 O - C - N ANGL. DEV. = 10.0 DEGREES REMARK 500 LEU A 136 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 ARG B 22 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG B 31 NE - CZ - NH2 ANGL. DEV. = -6.7 DEGREES REMARK 500 ARG B 62 NE - CZ - NH2 ANGL. DEV. = 4.5 DEGREES REMARK 500 VAL B 81 CB - CA - C ANGL. DEV. = 12.7 DEGREES REMARK 500 ALA B 89 CB - CA - C ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG B 109 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP B 111 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG B 118 CD - NE - CZ ANGL. DEV. = 34.7 DEGREES REMARK 500 ARG B 118 NE - CZ - NH1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ASP B 125 CB - CG - OD1 ANGL. DEV. = 8.3 DEGREES REMARK 500 ARG B 132 NE - CZ - NH2 ANGL. DEV. = 3.4 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 ASN A 7 -26.88 88.84 REMARK 500 ASN A 119 35.76 -98.05 REMARK 500 ILE A 120 -41.17 54.34 REMARK 500 ASN B 7 -2.21 176.05 REMARK 500 ASN B 119 34.32 -86.66 REMARK 500 ILE B 120 -30.46 46.53 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 22 0.09 SIDE CHAIN REMARK 500 ARG A 92 0.10 SIDE CHAIN REMARK 500 ARG A 118 0.34 SIDE CHAIN REMARK 500 ARG A 132 0.14 SIDE CHAIN REMARK 500 ARG B 118 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 A MG++ ION (MG B 161) IS ASSOCIATED WITH ADP IN CHAIN B. REMARK 600 IN CHAIN A, THE CORRESPONDING DENSITY IS WEAK AND HAS BEEN REMARK 600 ATTRIBUTED TO A WATER MOLECULE LABELLED HOH A 161 FOR REMARK 600 CONSISTENCY. 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 B 161 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP B 160 O1B REMARK 620 2 ADP B 160 O1A 88.9 REMARK 620 3 HOH B 204 O 155.9 85.2 REMARK 620 4 HOH B 218 O 83.0 85.3 73.3 REMARK 620 5 HOH B 220 O 88.9 92.5 114.7 171.6 REMARK 620 6 HOH B 244 O 92.8 165.0 87.2 80.2 102.4 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 MG B 161 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 160 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 160 DBREF 1NDP A 1 155 UNP P22887 NDKC_DICDI 1 155 DBREF 1NDP B 1 155 UNP P22887 NDKC_DICDI 1 155 SEQRES 1 A 155 MET SER THR ASN LYS VAL ASN LYS GLU ARG THR PHE LEU SEQRES 2 A 155 ALA VAL LYS PRO ASP GLY VAL ALA ARG GLY LEU VAL GLY SEQRES 3 A 155 GLU ILE ILE ALA ARG TYR GLU LYS LYS GLY PHE VAL LEU SEQRES 4 A 155 VAL GLY LEU LYS GLN LEU VAL PRO THR LYS ASP LEU ALA SEQRES 5 A 155 GLU SER HIS TYR ALA GLU HIS LYS GLU ARG PRO PHE PHE SEQRES 6 A 155 GLY GLY LEU VAL SER PHE ILE THR SER GLY PRO VAL VAL SEQRES 7 A 155 ALA MET VAL PHE GLU GLY LYS GLY VAL VAL ALA SER ALA SEQRES 8 A 155 ARG LEU MET ILE GLY VAL THR ASN PRO LEU ALA SER ALA SEQRES 9 A 155 PRO GLY SER ILE ARG GLY ASP PHE GLY VAL ASP VAL GLY SEQRES 10 A 155 ARG ASN ILE ILE HIS GLY SER ASP SER VAL GLU SER ALA SEQRES 11 A 155 ASN ARG GLU ILE ALA LEU TRP PHE LYS PRO GLU GLU LEU SEQRES 12 A 155 LEU THR GLU VAL LYS PRO ASN PRO ASN LEU TYR GLU SEQRES 1 B 155 MET SER THR ASN LYS VAL ASN LYS GLU ARG THR PHE LEU SEQRES 2 B 155 ALA VAL LYS PRO ASP GLY VAL ALA ARG GLY LEU VAL GLY SEQRES 3 B 155 GLU ILE ILE ALA ARG TYR GLU LYS LYS GLY PHE VAL LEU SEQRES 4 B 155 VAL GLY LEU LYS GLN LEU VAL PRO THR LYS ASP LEU ALA SEQRES 5 B 155 GLU SER HIS TYR ALA GLU HIS LYS GLU ARG PRO PHE PHE SEQRES 6 B 155 GLY GLY LEU VAL SER PHE ILE THR SER GLY PRO VAL VAL SEQRES 7 B 155 ALA MET VAL PHE GLU GLY LYS GLY VAL VAL ALA SER ALA SEQRES 8 B 155 ARG LEU MET ILE GLY VAL THR ASN PRO LEU ALA SER ALA SEQRES 9 B 155 PRO GLY SER ILE ARG GLY ASP PHE GLY VAL ASP VAL GLY SEQRES 10 B 155 ARG ASN ILE ILE HIS GLY SER ASP SER VAL GLU SER ALA SEQRES 11 B 155 ASN ARG GLU ILE ALA LEU TRP PHE LYS PRO GLU GLU LEU SEQRES 12 B 155 LEU THR GLU VAL LYS PRO ASN PRO ASN LEU TYR GLU HET ADP A 160 27 HET MG B 161 1 HET ADP B 160 27 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 ADP 2(C10 H15 N5 O10 P2) FORMUL 4 MG MG 2+ FORMUL 6 HOH *158(H2 O) HELIX 1 1 LYS A 16 ARG A 22 1 7 HELIX 2 2 LEU A 24 GLY A 36 1 13 HELIX 3 3 THR A 48 TYR A 56 1 9 HELIX 4 4 ALA A 57 LYS A 60 5 4 HELIX 5 5 PHE A 64 SER A 74 1 11 HELIX 6 6 GLY A 86 GLY A 96 1 11 HELIX 7 7 ASN A 99 SER A 103 5 5 HELIX 8 8 SER A 107 GLY A 113 1 7 HELIX 9 9 SER A 126 PHE A 138 1 13 HELIX 10 10 LYS A 139 LEU A 143 5 5 HELIX 11 11 LYS B 16 ARG B 22 1 7 HELIX 12 12 LEU B 24 GLY B 36 1 13 HELIX 13 13 THR B 48 TYR B 56 1 9 HELIX 14 14 ALA B 57 LYS B 60 5 4 HELIX 15 15 PHE B 64 THR B 73 1 10 HELIX 16 16 GLY B 86 GLY B 96 1 11 HELIX 17 17 SER B 107 GLY B 113 1 7 HELIX 18 18 ASP B 115 ASN B 119 5 5 HELIX 19 19 SER B 126 PHE B 138 1 13 SHEET 1 A 4 VAL A 38 LEU A 45 0 SHEET 2 A 4 VAL A 77 GLU A 83 -1 N VAL A 77 O LEU A 45 SHEET 3 A 4 ARG A 10 VAL A 15 -1 N THR A 11 O PHE A 82 SHEET 4 A 4 ILE A 121 GLY A 123 -1 O HIS A 122 N ALA A 14 SHEET 1 B 4 VAL B 38 LEU B 45 0 SHEET 2 B 4 VAL B 77 GLU B 83 -1 N VAL B 77 O LEU B 45 SHEET 3 B 4 ARG B 10 VAL B 15 -1 N THR B 11 O PHE B 82 SHEET 4 B 4 ILE B 121 GLY B 123 -1 N HIS B 122 O ALA B 14 LINK O1B ADP B 160 MG MG B 161 1555 1555 2.31 LINK O1A ADP B 160 MG MG B 161 1555 1555 2.03 LINK MG MG B 161 O HOH B 204 1555 1555 2.03 LINK MG MG B 161 O HOH B 218 1555 1555 1.99 LINK MG MG B 161 O HOH B 220 1555 1555 2.13 LINK MG MG B 161 O HOH B 244 1555 1555 2.12 SITE 1 AC1 5 ADP B 160 HOH B 204 HOH B 218 HOH B 220 SITE 2 AC1 5 HOH B 244 SITE 1 AC2 10 LYS A 16 HIS A 59 PHE A 64 LEU A 68 SITE 2 AC2 10 ARG A 92 THR A 98 ARG A 109 VAL A 116 SITE 3 AC2 10 ASN A 119 HOH A 163 SITE 1 AC3 18 LYS B 16 HIS B 59 PHE B 64 LEU B 68 SITE 2 AC3 18 ARG B 92 THR B 98 ARG B 109 VAL B 116 SITE 3 AC3 18 GLY B 117 ASN B 119 MG B 161 HOH B 189 SITE 4 AC3 18 HOH B 195 HOH B 204 HOH B 206 HOH B 210 SITE 5 AC3 18 HOH B 218 HOH B 220 CRYST1 73.180 73.180 158.450 90.00 90.00 120.00 H 3 18 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 0.013665 0.007889 0.000000 0.00000 SCALE2 0.000000 0.015779 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006311 0.00000