HEADER TRANSFERASE(PHOSPHOTRANSFERASE) 12-JUL-00 1E4V TITLE MUTANT G10V OF ADENYLATE KINASE FROM E. COLI, MODIFIED IN THE GLY-LOOP COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENYLATE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AK,ATP-AMP TRANSPHOSPHORYLASE,ATP:AMP PHOSPHOTRANSFERASE, COMPND 5 ADENYLATE MONOPHOSPHATE KINASE; COMPND 6 EC: 2.7.4.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: AP5A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: CV2; SOURCE 5 GENE: ADK, DNAW, PLSA, B0474, JW0463; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE(PHOSPHOTRANSFERASE) EXPDTA X-RAY DIFFRACTION AUTHOR C.W.MUELLER,G.E.SCHULZ REVDAT 5 19-SEP-18 1E4V 1 COMPND SOURCE JRNL DBREF REVDAT 5 2 1 SEQADV REVDAT 4 05-JUL-17 1E4V 1 REMARK REVDAT 3 24-FEB-09 1E4V 1 VERSN REVDAT 2 23-JAN-06 1E4V 1 COMPND REVDAT 1 04-AUG-00 1E4V 0 JRNL AUTH C.W.MULLER,G.E.SCHULZ JRNL TITL CRYSTAL STRUCTURES OF TWO MUTANTS OF ADENYLATE KINASE FROM JRNL TITL 2 ESCHERICHIA COLI THAT MODIFY THE GLY-LOOP. JRNL REF PROTEINS V. 15 42 1993 JRNL REFN ISSN 0887-3585 JRNL PMID 8451239 JRNL DOI 10.1002/PROT.340150106 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.E.SCHULZ,C.W.MUELLER,K.DIEDERICHS REMARK 1 TITL INDUCED-FIT MOVEMENTS IN ADENYLATE KINASES REMARK 1 REF J.MOL.BIOL. V. 213 627 1990 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 2162964 REMARK 1 DOI 10.1016/S0022-2836(05)80250-5 REMARK 1 REFERENCE 2 REMARK 1 AUTH C.W.MUELLER,G.E.SCHULZ REMARK 1 TITL STRUCTURE OF THE COMPLEX OF ADENYLATE KINASE FROM REMARK 1 TITL 2 ESCHERICHIA COLI WITH THE INHIBITOR P1, P5-BIS REMARK 1 TITL 3 (ADENOSINE-5'-) PENTAPHOSPHATE REMARK 1 REF J.MOL.BIOL. V. 202 909 1988 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 2845103 REMARK 1 DOI 10.1016/0022-2836(88)90567-0 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 1.5 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 90.0 REMARK 3 NUMBER OF REFLECTIONS : 20297 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 SET) : 0.196 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 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3318 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 114 REMARK 3 SOLVENT ATOMS : 348 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 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 BOND ANGLES (DEGREES) : 3.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : 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 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE REFINED MODEL CONTAINS 378 SOLVENT REMARK 3 MOLECULES. SOLVENT MOLECULE Z106 INTERACT WITH COMPLEX -I AND REMARK 3 Y111 WITH COMPLEX-II. SOLVENT MOLECULES Z106 - Z179 AND Y111- REMARK 3 Y14 FORM NCS-RELATED PAIRS. IN COMPLEX-I ARG 167 AND PHOSPHATE-4 REMARK 3 OF AP5 ADOPT TWO CONFORMATIONS. BOTH CONFORMATIONS WERE REFINED REMARK 3 ALTERNATINGLY. NOTE THAT THE DISTANCE PD - O3D FOR CONFORMATION REMARK 3 A OF AP5 A 215 IS 2.13 ANGSTROMS WHICH IS LARGER THAN EXPECTED. REMARK 3 NOTE FURTHER THAT CONFORMATION A OF THIS ENTRY CORRESPONDS TO REMARK 3 CONFORMATION A' OF THE PAPER CITED ON JRNL RECORDS ABOVE AND REMARK 3 CONFORMATION B CORRESPONDS TO CONFORMATION B' OF THE REMARK 3 PUBLICATION. THE TRANSFORMATION PRESENTED ON THE *MTRIX* RECORDS REMARK 3 WILL YIELD APPROXIMATE COORDINATES FOR CHAIN *A* WHEN APPLIED TO REMARK 3 CHAIN *B*. REMARK 4 REMARK 4 1E4V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JUL-00. REMARK 100 THE DEPOSITION ID IS D_1290005142. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 279.0 REMARK 200 PH : 6.70 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 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 : 20297 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 10.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.0 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : 0.10000 REMARK 200 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 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: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.70 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 2 21 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,-Z+1/2 REMARK 290 4555 -X+1/2,-Y,Z+1/2 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 36.60000 REMARK 290 SMTRY2 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.50000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 36.60000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 42.50000 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: PQS 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 400 REMARK 400 COMPOUND REMARK 400 CHAIN A, B ENGINEERED MUTATION GLY10VAL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O GLY A 100 O GLY A 100 2656 2.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 126 NE2 HIS A 126 CD2 -0.069 REMARK 500 HIS A 134 NE2 HIS A 134 CD2 -0.069 REMARK 500 HIS A 172 NE2 HIS A 172 CD2 -0.070 REMARK 500 HIS B 172 NE2 HIS B 172 CD2 -0.070 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 2 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 LYS A 47 CG - CD - CE ANGL. DEV. = -20.9 DEGREES REMARK 500 ARG A 88 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 88 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 TYR A 105 CB - CG - CD1 ANGL. DEV. = -3.7 DEGREES REMARK 500 VAL A 111 CG1 - CB - CG2 ANGL. DEV. = -10.5 DEGREES REMARK 500 ARG A 165 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 167 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 167 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 VAL B 64 CG1 - CB - CG2 ANGL. DEV. = -11.2 DEGREES REMARK 500 ARG B 88 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 VAL B 164 CA - CB - CG2 ANGL. DEV. = -10.0 DEGREES REMARK 500 ARG B 165 CA - CB - CG ANGL. DEV. = -13.3 DEGREES REMARK 500 ARG B 167 NE - CZ - NH1 ANGL. DEV. = 3.6 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 ALA A 8 161.50 -44.87 REMARK 500 ASN A 138 60.32 -170.34 REMARK 500 GLU B 44 -37.28 -38.98 REMARK 500 ALA B 99 11.94 -66.03 REMARK 500 ASN B 138 67.03 -155.60 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 TYR A 193 0.07 SIDE CHAIN 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 A2016 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH A2068 DISTANCE = 6.85 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AP5 A 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AP5 B 215 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4AKE RELATED DB: PDB REMARK 900 ADENYLATE KINASE REMARK 900 RELATED ID: 2ECK RELATED DB: PDB REMARK 900 STRUCTURE OF PHOSPHOTRANSFERASE REMARK 900 RELATED ID: 1AKE RELATED DB: PDB REMARK 900 ADENYLATE KINASE (E.C.2.7.4.3) COMPLEX WITH THE INHIBITOR AP=5= REMARK 900 AADENYLATE KINASE REMARK 900 RELATED ID: 1ANK RELATED DB: PDB REMARK 900 ADENYLATE KINASE (ADK) (E.C.2.7.4.3) REMARK 900 RELATED ID: 1E4Y RELATED DB: PDB REMARK 900 MUTANT P9L OF ADENYLATE KINASE FROM E. COLI, MODIFIED IN THE GLY- REMARK 900 LOOP DBREF 1E4V A 1 214 UNP P69441 KAD_ECOLI 1 214 DBREF 1E4V B 1 214 UNP P69441 KAD_ECOLI 1 214 SEQADV 1E4V VAL A 10 UNP P69441 GLY 10 ENGINEERED MUTATION SEQADV 1E4V VAL B 10 UNP P69441 GLY 10 ENGINEERED MUTATION SEQRES 1 A 214 MET ARG ILE ILE LEU LEU GLY ALA PRO VAL ALA GLY LYS SEQRES 2 A 214 GLY THR GLN ALA GLN PHE ILE MET GLU LYS TYR GLY ILE SEQRES 3 A 214 PRO GLN ILE SER THR GLY ASP MET LEU ARG ALA ALA VAL SEQRES 4 A 214 LYS SER GLY SER GLU LEU GLY LYS GLN ALA LYS ASP ILE SEQRES 5 A 214 MET ASP ALA GLY LYS LEU VAL THR ASP GLU LEU VAL ILE SEQRES 6 A 214 ALA LEU VAL LYS GLU ARG ILE ALA GLN GLU ASP CYS ARG SEQRES 7 A 214 ASN GLY PHE LEU LEU ASP GLY PHE PRO ARG THR ILE PRO SEQRES 8 A 214 GLN ALA ASP ALA MET LYS GLU ALA GLY ILE ASN VAL ASP SEQRES 9 A 214 TYR VAL LEU GLU PHE ASP VAL PRO ASP GLU LEU ILE VAL SEQRES 10 A 214 ASP ARG ILE VAL GLY ARG ARG VAL HIS ALA PRO SER GLY SEQRES 11 A 214 ARG VAL TYR HIS VAL LYS PHE ASN PRO PRO LYS VAL GLU SEQRES 12 A 214 GLY LYS ASP ASP VAL THR GLY GLU GLU LEU THR THR ARG SEQRES 13 A 214 LYS ASP ASP GLN GLU GLU THR VAL ARG LYS ARG LEU VAL SEQRES 14 A 214 GLU TYR HIS GLN MET THR ALA PRO LEU ILE GLY TYR TYR SEQRES 15 A 214 SER LYS GLU ALA GLU ALA GLY ASN THR LYS TYR ALA LYS SEQRES 16 A 214 VAL ASP GLY THR LYS PRO VAL ALA GLU VAL ARG ALA ASP SEQRES 17 A 214 LEU GLU LYS ILE LEU GLY SEQRES 1 B 214 MET ARG ILE ILE LEU LEU GLY ALA PRO VAL ALA GLY LYS SEQRES 2 B 214 GLY THR GLN ALA GLN PHE ILE MET GLU LYS TYR GLY ILE SEQRES 3 B 214 PRO GLN ILE SER THR GLY ASP MET LEU ARG ALA ALA VAL SEQRES 4 B 214 LYS SER GLY SER GLU LEU GLY LYS GLN ALA LYS ASP ILE SEQRES 5 B 214 MET ASP ALA GLY LYS LEU VAL THR ASP GLU LEU VAL ILE SEQRES 6 B 214 ALA LEU VAL LYS GLU ARG ILE ALA GLN GLU ASP CYS ARG SEQRES 7 B 214 ASN GLY PHE LEU LEU ASP GLY PHE PRO ARG THR ILE PRO SEQRES 8 B 214 GLN ALA ASP ALA MET LYS GLU ALA GLY ILE ASN VAL ASP SEQRES 9 B 214 TYR VAL LEU GLU PHE ASP VAL PRO ASP GLU LEU ILE VAL SEQRES 10 B 214 ASP ARG ILE VAL GLY ARG ARG VAL HIS ALA PRO SER GLY SEQRES 11 B 214 ARG VAL TYR HIS VAL LYS PHE ASN PRO PRO LYS VAL GLU SEQRES 12 B 214 GLY LYS ASP ASP VAL THR GLY GLU GLU LEU THR THR ARG SEQRES 13 B 214 LYS ASP ASP GLN GLU GLU THR VAL ARG LYS ARG LEU VAL SEQRES 14 B 214 GLU TYR HIS GLN MET THR ALA PRO LEU ILE GLY TYR TYR SEQRES 15 B 214 SER LYS GLU ALA GLU ALA GLY ASN THR LYS TYR ALA LYS SEQRES 16 B 214 VAL ASP GLY THR LYS PRO VAL ALA GLU VAL ARG ALA ASP SEQRES 17 B 214 LEU GLU LYS ILE LEU GLY HET AP5 A 215 57 HET AP5 B 215 57 HETNAM AP5 BIS(ADENOSINE)-5'-PENTAPHOSPHATE FORMUL 3 AP5 2(C20 H29 N10 O22 P5) FORMUL 5 HOH *348(H2 O) HELIX 1 1 GLY A 12 GLY A 25 1 14 HELIX 2 2 THR A 31 GLY A 42 1 12 HELIX 3 3 GLY A 46 GLN A 48 5 3 HELIX 4 4 ALA A 49 ALA A 55 1 7 HELIX 5 5 THR A 60 ALA A 73 1 14 HELIX 6 6 GLN A 74 GLY A 80 5 7 HELIX 7 7 THR A 89 ALA A 99 1 11 HELIX 8 8 PRO A 112 GLU A 114 5 3 HELIX 9 9 LEU A 115 GLY A 122 1 8 HELIX 10 10 GLN A 160 THR A 175 1 16 HELIX 11 11 ALA A 176 ALA A 188 1 13 HELIX 12 12 PRO A 201 GLY A 214 1 14 HELIX 13 13 GLY B 12 GLY B 25 1 14 HELIX 14 14 THR B 31 SER B 41 1 11 HELIX 15 15 GLY B 46 GLN B 48 5 3 HELIX 16 16 ALA B 49 ALA B 55 1 7 HELIX 17 17 THR B 60 GLN B 74 1 15 HELIX 18 18 GLU B 75 GLY B 80 5 6 HELIX 19 19 THR B 89 ALA B 99 1 11 HELIX 20 20 PRO B 112 GLU B 114 5 3 HELIX 21 21 LEU B 115 GLY B 122 1 8 HELIX 22 22 ALA B 127 GLY B 130 5 4 HELIX 23 23 GLN B 160 THR B 175 1 16 HELIX 24 24 PRO B 177 GLY B 189 1 13 HELIX 25 25 PRO B 201 GLY B 214 1 14 SHEET 1 A 5 GLN A 28 SER A 30 0 SHEET 2 A 5 PHE A 81 ASP A 84 1 O LEU A 82 N ILE A 29 SHEET 3 A 5 ARG A 2 GLY A 7 1 O ILE A 3 N LEU A 83 SHEET 4 A 5 TYR A 105 ASP A 110 1 O TYR A 105 N ILE A 4 SHEET 5 A 5 LYS A 192 ASP A 197 1 O LYS A 192 N VAL A 106 SHEET 1 B 2 ARG A 123 VAL A 125 0 SHEET 2 B 2 VAL A 132 HIS A 134 0 SHEET 1 C 5 GLN B 28 SER B 30 0 SHEET 2 C 5 PHE B 81 ASP B 84 1 O LEU B 82 N ILE B 29 SHEET 3 C 5 ARG B 2 GLY B 7 1 O ILE B 3 N LEU B 83 SHEET 4 C 5 TYR B 105 ASP B 110 1 O TYR B 105 N ILE B 4 SHEET 5 C 5 LYS B 192 ASP B 197 1 O LYS B 192 N VAL B 106 SHEET 1 D 2 ARG B 123 VAL B 125 0 SHEET 2 D 2 VAL B 132 HIS B 134 0 CISPEP 1 PHE A 86 PRO A 87 0 -13.59 CISPEP 2 PHE B 86 PRO B 87 0 -1.61 SITE 1 AC1 41 PRO A 9 VAL A 10 ALA A 11 GLY A 12 SITE 2 AC1 41 LYS A 13 GLY A 14 THR A 15 THR A 31 SITE 3 AC1 41 GLY A 32 LEU A 35 ARG A 36 MET A 53 SITE 4 AC1 41 LYS A 57 VAL A 59 VAL A 64 GLY A 85 SITE 5 AC1 41 PHE A 86 ARG A 88 GLN A 92 ARG A 119 SITE 6 AC1 41 ARG A 123 VAL A 132 TYR A 133 HIS A 134 SITE 7 AC1 41 PHE A 137 ARG A 156 ARG A 167 LYS A 200 SITE 8 AC1 41 PRO A 201 VAL A 202 HOH A2008 HOH A2062 SITE 9 AC1 41 HOH A2071 HOH A2104 HOH A2105 HOH A2107 SITE 10 AC1 41 HOH A2204 HOH A2217 HOH A2218 HOH A2219 SITE 11 AC1 41 HOH A2220 SITE 1 AC2 36 ALA B 8 PRO B 9 VAL B 10 ALA B 11 SITE 2 AC2 36 GLY B 12 LYS B 13 GLY B 14 THR B 15 SITE 3 AC2 36 THR B 31 GLY B 32 LEU B 35 ARG B 36 SITE 4 AC2 36 MET B 53 LYS B 57 VAL B 59 VAL B 64 SITE 5 AC2 36 GLY B 85 PHE B 86 ARG B 88 GLN B 92 SITE 6 AC2 36 ARG B 119 ARG B 123 VAL B 132 TYR B 133 SITE 7 AC2 36 HIS B 134 PHE B 137 ARG B 156 ARG B 167 SITE 8 AC2 36 LYS B 200 VAL B 202 HOH B2068 HOH B2124 SITE 9 AC2 36 HOH B2125 HOH B2126 HOH B2127 HOH B2128 CRYST1 73.200 79.800 85.000 90.00 90.00 90.00 P 21 2 21 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 0.013661 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012531 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011765 0.00000 MTRIX1 1 -0.995341 0.068333 0.068023 38.70362 1 MTRIX2 1 0.038108 0.926860 -0.373469 47.46029 1 MTRIX3 1 -0.088568 -0.369136 -0.925145 42.28705 1