HEADER LYASE 25-NOV-19 6V2L TITLE E. COLI PHOSPHOENOLPYRUVATE CARBOXYKINASE S250A COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOENOLPYRUVATE CARBOXYKINASE (ATP); COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PEPCK; COMPND 5 EC: 4.1.1.49; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: PCKA, D9G24_04840; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LYASE EXPDTA X-RAY DIFFRACTION AUTHOR A.S.SOKARIBO,H.GOLDIE,D.SANDERS REVDAT 3 11-OCT-23 6V2L 1 LINK REVDAT 2 22-JAN-20 6V2L 1 JRNL REVDAT 1 11-DEC-19 6V2L 0 SPRSDE 11-DEC-19 6V2L 6D5I JRNL AUTH A.SOKARIBO,B.A.A.NOVAKOVSKI,J.COTELESAGE,A.P.WHITE, JRNL AUTH 2 D.SANDERS,H.GOLDIE JRNL TITL KINETIC AND STRUCTURAL ANALYSIS OF ESCHERICHIA COLI JRNL TITL 2 PHOSPHOENOLPYRUVATE CARBOXYKINASE MUTANTS. JRNL REF BIOCHIM BIOPHYS ACTA GEN V.1864 29517 2020 JRNL REF 2 SUBJ JRNL REFN ISSN 1872-8006 JRNL PMID 31911238 JRNL DOI 10.1016/J.BBAGEN.2020.129517 REMARK 2 REMARK 2 RESOLUTION. 1.70 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 58596 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2930 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 40.5000 - 4.6900 0.99 2708 142 0.1511 0.1722 REMARK 3 2 4.6900 - 3.7200 1.00 2681 141 0.1234 0.1715 REMARK 3 3 3.7200 - 3.2500 1.00 2666 141 0.1392 0.1538 REMARK 3 4 3.2500 - 2.9500 1.00 2675 140 0.1521 0.2025 REMARK 3 5 2.9500 - 2.7400 1.00 2652 140 0.1580 0.1940 REMARK 3 6 2.7400 - 2.5800 1.00 2649 139 0.1654 0.2279 REMARK 3 7 2.5800 - 2.4500 1.00 2647 140 0.1617 0.2007 REMARK 3 8 2.4500 - 2.3400 1.00 2689 141 0.1648 0.2207 REMARK 3 9 2.3400 - 2.2500 0.99 2630 139 0.1602 0.2130 REMARK 3 10 2.2500 - 2.1800 1.00 2651 139 0.1602 0.1958 REMARK 3 11 2.1800 - 2.1100 1.00 2627 138 0.1588 0.2335 REMARK 3 12 2.1100 - 2.0500 1.00 2670 141 0.1748 0.2131 REMARK 3 13 2.0500 - 1.9900 0.99 2636 139 0.1796 0.2537 REMARK 3 14 1.9900 - 1.9500 1.00 2628 138 0.1942 0.2325 REMARK 3 15 1.9500 - 1.9000 1.00 2662 140 0.2066 0.2647 REMARK 3 16 1.9000 - 1.8600 0.99 2608 138 0.2202 0.2484 REMARK 3 17 1.8600 - 1.8200 0.99 2656 140 0.2315 0.2782 REMARK 3 18 1.8200 - 1.7900 0.99 2608 137 0.2383 0.2636 REMARK 3 19 1.7900 - 1.7600 0.99 2653 139 0.2600 0.2890 REMARK 3 20 1.7600 - 1.7300 0.99 2656 140 0.2682 0.2951 REMARK 3 21 1.7300 - 1.7000 0.99 2614 138 0.2909 0.3206 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.410 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.05 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.36 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 : NULL 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 6V2L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-NOV-19. REMARK 100 THE DEPOSITION ID IS D_1000245653. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 105 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08B1-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8856 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58603 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 40.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.18030 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.23700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.250 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1AYL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: A 2UL DROP WITH 3 MG/ML S250A PCK, 5 REMARK 280 MM MANGANESE CHLORIDE, 5MM MAGNESIUM CHLORIDE, 2 MM ATP, 2MM REMARK 280 PYRUVATE, 1 MM EDTA, 200 MM AMMONIUM ACETATE, 100 MM SODIUM REMARK 280 ACETATE PH 4.8, 0.01 MM DTT, 12% PEG 4000 WAS ADDED TO 2 UL DROP REMARK 280 CONTAINING 0.01 MM NICKEL CHLORIDE, 0.1 M TRIS PH 8.5, 20% PEG REMARK 280 2000. AFTER A WEEK A ROD LIKE CRYSTAL WAS REMOVED AND SOAKED IN REMARK 280 A SOLUTION WITH 30% GLYCEROL 1MM EDTA, 100 MM SODIUM ACETATE REMARK 280 200MM AMMONIUM ACETATE AND 12% PEG 4000 FOR 10 SECONDS AND FLASH REMARK 280 COOLED IN LIQUID NOTROGEN, MICROBATCH, TEMPERATURE 293K 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 62.45500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.31000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 62.45500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 47.31000 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 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 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 A 762 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 996 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1056 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1158 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1165 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1204 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1222 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 ARG A 2 REMARK 465 VAL A 3 REMARK 465 ASN A 4 REMARK 465 ASN A 5 REMARK 465 CYS A 6 REMARK 465 LEU A 7 REMARK 465 THR A 8 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 LYS A 240 CG CD CE NZ REMARK 470 GLU A 317 CG CD OE1 OE2 REMARK 470 LYS A 453 CG CD CE NZ REMARK 470 LYS A 492 CB CG CD CE NZ REMARK 470 LYS A 539 CG CD CE NZ 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 OE1 GLU A 400 O HOH A 701 1.74 REMARK 500 O HOH A 1189 O HOH A 1195 2.02 REMARK 500 O HOH A 1067 O HOH A 1126 2.06 REMARK 500 O HOH A 709 O HOH A 1109 2.15 REMARK 500 OG1 THR A 394 O HOH A 702 2.17 REMARK 500 O HOH A 1004 O HOH A 1149 2.19 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 GLU A 182 CG GLU A 182 CD 0.091 REMARK 500 PRO A 418 CD PRO A 418 N -0.200 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 305 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 305 NE - CZ - NH2 ANGL. DEV. = -5.7 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 269 -30.38 -156.25 REMARK 500 ASP A 274 -167.50 -110.90 REMARK 500 ASP A 307 -16.54 90.89 REMARK 500 ASN A 331 38.97 -92.74 REMARK 500 GLU A 400 124.12 -21.49 REMARK 500 MET A 477 -60.15 77.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 THR A 399 GLU A 400 -136.53 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 A1249 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A1250 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH A1251 DISTANCE = 7.36 ANGSTROMS 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 604 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 213 NZ REMARK 620 2 HIS A 232 NE2 90.1 REMARK 620 3 ASP A 269 OD1 97.8 93.2 REMARK 620 4 ATP A 601 O1G 177.7 91.9 83.3 REMARK 620 5 HOH A 928 O 92.8 175.3 82.8 85.3 REMARK 620 6 HOH A 948 O 97.9 93.1 163.1 80.8 90.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 603 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 255 OG1 REMARK 620 2 ATP A 601 O3G 171.4 REMARK 620 3 ATP A 601 O2B 87.3 95.2 REMARK 620 4 HOH A 721 O 84.7 87.1 89.9 REMARK 620 5 HOH A 740 O 92.0 96.2 87.4 175.9 REMARK 620 6 HOH A 749 O 88.0 90.2 172.8 95.2 87.2 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 ATP A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 604 DBREF1 6V2L A 1 540 UNP A0A400L9R1_ECOLX DBREF2 6V2L A A0A400L9R1 1 540 SEQADV 6V2L ALA A 250 UNP A0A400L9R SER 250 ENGINEERED MUTATION SEQRES 1 A 540 MET ARG VAL ASN ASN CYS LEU THR PRO GLN GLU LEU GLU SEQRES 2 A 540 ALA TYR GLY ILE SER ASP VAL HIS ASP ILE VAL TYR ASN SEQRES 3 A 540 PRO SER TYR ASP LEU LEU TYR GLN GLU GLU LEU ASP PRO SEQRES 4 A 540 SER LEU THR GLY TYR GLU ARG GLY VAL LEU THR ASN LEU SEQRES 5 A 540 GLY ALA VAL ALA VAL ASP THR GLY ILE PHE THR GLY ARG SEQRES 6 A 540 SER PRO LYS ASP LYS TYR ILE VAL ARG ASP ASP THR THR SEQRES 7 A 540 ARG ASP THR PHE TRP TRP ALA ASP LYS GLY LYS GLY LYS SEQRES 8 A 540 ASN ASP ASN LYS PRO LEU SER PRO GLU THR TRP GLN HIS SEQRES 9 A 540 LEU LYS GLY LEU VAL THR ARG GLN LEU SER GLY LYS ARG SEQRES 10 A 540 LEU PHE VAL VAL ASP ALA PHE CYS GLY ALA ASN PRO ASP SEQRES 11 A 540 THR ARG LEU SER VAL ARG PHE ILE THR GLU VAL ALA TRP SEQRES 12 A 540 GLN ALA HIS PHE VAL LYS ASN MET PHE ILE ARG PRO SER SEQRES 13 A 540 ASP GLU GLU LEU ALA GLY PHE LYS PRO ASP PHE ILE VAL SEQRES 14 A 540 MET ASN GLY ALA LYS CYS THR ASN PRO GLN TRP LYS GLU SEQRES 15 A 540 GLN GLY LEU ASN SER GLU ASN PHE VAL ALA PHE ASN LEU SEQRES 16 A 540 THR GLU ARG MET GLN LEU ILE GLY GLY THR TRP TYR GLY SEQRES 17 A 540 GLY GLU MET LYS LYS GLY MET PHE SER MET MET ASN TYR SEQRES 18 A 540 LEU LEU PRO LEU LYS GLY ILE ALA SER MET HIS CYS SER SEQRES 19 A 540 ALA ASN VAL GLY GLU LYS GLY ASP VAL ALA VAL PHE PHE SEQRES 20 A 540 GLY LEU ALA GLY THR GLY LYS THR THR LEU SER THR ASP SEQRES 21 A 540 PRO LYS ARG ARG LEU ILE GLY ASP ASP GLU HIS GLY TRP SEQRES 22 A 540 ASP ASP ASP GLY VAL PHE ASN PHE GLU GLY GLY CYS TYR SEQRES 23 A 540 ALA LYS THR ILE LYS LEU SER LYS GLU ALA GLU PRO GLU SEQRES 24 A 540 ILE TYR ASN ALA ILE ARG ARG ASP ALA LEU LEU GLU ASN SEQRES 25 A 540 VAL THR VAL ARG GLU ASP GLY THR ILE ASP PHE ASP ASP SEQRES 26 A 540 GLY SER LYS THR GLU ASN THR ARG VAL SER TYR PRO ILE SEQRES 27 A 540 TYR HIS ILE ASP ASN ILE VAL LYS PRO VAL SER LYS ALA SEQRES 28 A 540 GLY HIS ALA THR LYS VAL ILE PHE LEU THR ALA ASP ALA SEQRES 29 A 540 PHE GLY VAL LEU PRO PRO VAL SER ARG LEU THR ALA ASP SEQRES 30 A 540 GLN THR GLN TYR HIS PHE LEU SER GLY PHE THR ALA LYS SEQRES 31 A 540 LEU ALA GLY THR GLU ARG GLY ILE THR GLU PRO THR PRO SEQRES 32 A 540 THR PHE SER ALA CYS PHE GLY ALA ALA PHE LEU SER LEU SEQRES 33 A 540 HIS PRO THR GLN TYR ALA GLU VAL LEU VAL LYS ARG MET SEQRES 34 A 540 GLN ALA ALA GLY ALA GLN ALA TYR LEU VAL ASN THR GLY SEQRES 35 A 540 TRP ASN GLY THR GLY LYS ARG ILE SER ILE LYS ASP THR SEQRES 36 A 540 ARG ALA ILE ILE ASP ALA ILE LEU ASN GLY SER LEU ASP SEQRES 37 A 540 ASN ALA GLU THR PHE THR LEU PRO MET PHE ASN LEU ALA SEQRES 38 A 540 ILE PRO THR GLU LEU PRO GLY VAL ASP THR LYS ILE LEU SEQRES 39 A 540 ASP PRO ARG ASN THR TYR ALA SER PRO GLU GLN TRP GLN SEQRES 40 A 540 GLU LYS ALA GLU THR LEU ALA LYS LEU PHE ILE ASP ASN SEQRES 41 A 540 PHE ASP LYS TYR THR ASP THR PRO ALA GLY ALA ALA LEU SEQRES 42 A 540 VAL ALA ALA GLY PRO LYS LEU HET ATP A 601 31 HET ACT A 602 4 HET MN A 603 1 HET MN A 604 1 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM ACT ACETATE ION HETNAM MN MANGANESE (II) ION FORMUL 2 ATP C10 H16 N5 O13 P3 FORMUL 3 ACT C2 H3 O2 1- FORMUL 4 MN 2(MN 2+) FORMUL 6 HOH *551(H2 O) HELIX 1 AA1 PRO A 9 TYR A 15 1 7 HELIX 2 AA2 SER A 28 ASP A 38 1 11 HELIX 3 AA3 THR A 42 GLU A 45 5 4 HELIX 4 AA4 SER A 66 LYS A 68 5 3 HELIX 5 AA5 SER A 98 SER A 114 1 17 HELIX 6 AA6 VAL A 141 PHE A 152 1 12 HELIX 7 AA7 SER A 156 GLY A 162 1 7 HELIX 8 AA8 GLY A 208 LEU A 223 1 16 HELIX 9 AA9 PRO A 224 GLY A 227 5 4 HELIX 10 AB1 GLY A 253 THR A 259 1 7 HELIX 11 AB2 GLU A 297 ALA A 303 1 7 HELIX 12 AB3 TYR A 339 ILE A 341 5 3 HELIX 13 AB4 THR A 375 GLY A 386 1 12 HELIX 14 AB5 GLY A 393 GLY A 397 5 5 HELIX 15 AB6 ALA A 407 LEU A 414 5 8 HELIX 16 AB7 HIS A 417 GLY A 433 1 17 HELIX 17 AB8 SER A 451 ASN A 464 1 14 HELIX 18 AB9 GLY A 465 ALA A 470 1 6 HELIX 19 AC1 THR A 491 TYR A 500 5 10 HELIX 20 AC2 SER A 502 ASP A 522 1 21 HELIX 21 AC3 LYS A 523 THR A 525 5 3 HELIX 22 AC4 THR A 527 VAL A 534 1 8 HELIX 23 AC5 ALA A 535 GLY A 537 5 3 SHEET 1 AA1 8 ILE A 23 TYR A 25 0 SHEET 2 AA1 8 LEU A 118 CYS A 125 1 O LEU A 118 N VAL A 24 SHEET 3 AA1 8 LEU A 133 THR A 139 -1 O THR A 139 N PHE A 119 SHEET 4 AA1 8 PHE A 167 GLY A 172 1 O ASN A 171 N ILE A 138 SHEET 5 AA1 8 MET A 199 GLY A 203 1 O GLN A 200 N MET A 170 SHEET 6 AA1 8 PHE A 190 ASN A 194 -1 N ALA A 192 O LEU A 201 SHEET 7 AA1 8 LYS A 70 VAL A 73 1 N VAL A 73 O PHE A 193 SHEET 8 AA1 8 LYS A 95 LEU A 97 1 O LYS A 95 N ILE A 72 SHEET 1 AA2 5 GLY A 47 LEU A 49 0 SHEET 2 AA2 5 VAL A 55 VAL A 57 -1 O ALA A 56 N VAL A 48 SHEET 3 AA2 5 LEU A 309 GLU A 311 1 O LEU A 310 N VAL A 57 SHEET 4 AA2 5 ARG A 333 PRO A 337 -1 O ARG A 333 N GLU A 311 SHEET 5 AA2 5 GLY A 284 LYS A 288 -1 N ALA A 287 O VAL A 334 SHEET 1 AA3 4 ALA A 229 MET A 231 0 SHEET 2 AA3 4 HIS A 271 TRP A 273 -1 O HIS A 271 N MET A 231 SHEET 3 AA3 4 VAL A 278 ASN A 280 -1 O PHE A 279 N GLY A 272 SHEET 4 AA3 4 LYS A 350 ALA A 351 -1 O ALA A 351 N VAL A 278 SHEET 1 AA4 6 ARG A 264 GLY A 267 0 SHEET 2 AA4 6 CYS A 233 VAL A 237 -1 N VAL A 237 O ARG A 264 SHEET 3 AA4 6 VAL A 243 GLY A 248 -1 O ALA A 244 N ASN A 236 SHEET 4 AA4 6 ALA A 354 THR A 361 1 O LEU A 360 N PHE A 247 SHEET 5 AA4 6 GLN A 435 ASN A 440 1 O TYR A 437 N PHE A 359 SHEET 6 AA4 6 VAL A 371 ARG A 373 -1 N SER A 372 O LEU A 438 SHEET 1 AA5 2 THR A 314 VAL A 315 0 SHEET 2 AA5 2 ILE A 321 ASP A 322 -1 O ASP A 322 N THR A 314 SHEET 1 AA6 2 PHE A 387 LEU A 391 0 SHEET 2 AA6 2 PRO A 401 PHE A 405 -1 O THR A 402 N LYS A 390 SHEET 1 AA7 2 THR A 472 LEU A 475 0 SHEET 2 AA7 2 LEU A 480 PRO A 483 -1 O LEU A 480 N LEU A 475 LINK NZ LYS A 213 MN MN A 604 1555 1555 2.11 LINK NE2 HIS A 232 MN MN A 604 1555 1555 2.07 LINK OG1 THR A 255 MN MN A 603 1555 1555 2.11 LINK OD1 ASP A 269 MN MN A 604 1555 1555 2.18 LINK O3G ATP A 601 MN MN A 603 1555 1555 2.05 LINK O2B ATP A 601 MN MN A 603 1555 1555 2.04 LINK O1G ATP A 601 MN MN A 604 1555 1555 2.16 LINK MN MN A 603 O HOH A 721 1555 1555 2.07 LINK MN MN A 603 O HOH A 740 1555 1555 2.03 LINK MN MN A 603 O HOH A 749 1555 1555 2.14 LINK MN MN A 604 O HOH A 928 1555 1555 2.19 LINK MN MN A 604 O HOH A 948 1555 1555 2.17 CISPEP 1 LYS A 346 PRO A 347 0 4.10 SITE 1 AC1 31 HIS A 232 LEU A 249 ALA A 250 GLY A 251 SITE 2 AC1 31 THR A 252 GLY A 253 LYS A 254 THR A 255 SITE 3 AC1 31 THR A 256 ASP A 269 LYS A 288 GLU A 297 SITE 4 AC1 31 ARG A 333 THR A 441 ARG A 449 ILE A 450 SITE 5 AC1 31 SER A 451 ILE A 452 THR A 455 MN A 603 SITE 6 AC1 31 MN A 604 HOH A 721 HOH A 740 HOH A 749 SITE 7 AC1 31 HOH A 805 HOH A 818 HOH A 879 HOH A 928 SITE 8 AC1 31 HOH A 937 HOH A 948 HOH A 960 SITE 1 AC2 6 LEU A 249 ALA A 250 PHE A 413 HOH A 705 SITE 2 AC2 6 HOH A 750 HOH A 827 SITE 1 AC3 6 THR A 255 ASP A 268 ATP A 601 HOH A 721 SITE 2 AC3 6 HOH A 740 HOH A 749 SITE 1 AC4 6 LYS A 213 HIS A 232 ASP A 269 ATP A 601 SITE 2 AC4 6 HOH A 928 HOH A 948 CRYST1 124.910 94.620 46.350 90.00 96.21 90.00 C 1 2 1 4 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 0.008006 0.000000 0.000872 0.00000 SCALE2 0.000000 0.010569 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021702 0.00000