HEADER LYASE,TRANSFERASE 16-OCT-14 4WOU TITLE CRYSTAL STRUCTURE OF MTB PEPCK IN COMPLEX WITH GDP AND METALS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOENOLPYRUVATE CARBOXYKINASE [GTP]; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PEPCK; COMPND 5 EC: 4.1.1.32; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 419947; SOURCE 4 STRAIN: ATCC 25177 / H37RA; SOURCE 5 GENE: PCKG, MRA_0219; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GTP-DEPENDENT PEPCK, KINASE, P-LOOP, OMEGA-LOOP, R-LOOP, METAL KEYWDS 2 BINDING PROTEIN, LYASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.L.KIM,J.C.SACCHETTINI REVDAT 3 27-DEC-23 4WOU 1 LINK REVDAT 2 22-NOV-17 4WOU 1 REMARK REVDAT 1 04-NOV-15 4WOU 0 JRNL AUTH H.L.KIM,I.V.KRIGER,J.C.SACCHETTINI JRNL TITL CRYSTAL STRUCTURE OF MTB PEPCK IN COMPLEX WITH GDP AND JRNL TITL 2 METALS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) 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) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.58 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.400 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 85053 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 4316 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 47.5900 - 6.5874 1.00 2745 140 0.1562 0.1568 REMARK 3 2 6.5874 - 5.2307 1.00 2755 125 0.1724 0.1586 REMARK 3 3 5.2307 - 4.5701 1.00 2736 139 0.1473 0.1838 REMARK 3 4 4.5701 - 4.1525 1.00 2716 162 0.1354 0.1807 REMARK 3 5 4.1525 - 3.8550 1.00 2712 155 0.1552 0.1687 REMARK 3 6 3.8550 - 3.6278 1.00 2757 132 0.1581 0.2033 REMARK 3 7 3.6278 - 3.4462 1.00 2741 141 0.1743 0.2079 REMARK 3 8 3.4462 - 3.2962 1.00 2717 162 0.1855 0.2200 REMARK 3 9 3.2962 - 3.1694 1.00 2739 161 0.1896 0.2571 REMARK 3 10 3.1694 - 3.0600 0.99 2679 147 0.1798 0.2206 REMARK 3 11 3.0600 - 2.9644 0.99 2719 170 0.1787 0.2115 REMARK 3 12 2.9644 - 2.8796 0.99 2679 165 0.1813 0.2020 REMARK 3 13 2.8796 - 2.8038 0.99 2714 143 0.1864 0.2331 REMARK 3 14 2.8038 - 2.7354 0.99 2691 183 0.1863 0.2159 REMARK 3 15 2.7354 - 2.6733 0.99 2732 131 0.1811 0.2429 REMARK 3 16 2.6733 - 2.6164 0.99 2682 127 0.1826 0.2053 REMARK 3 17 2.6164 - 2.5640 0.99 2762 142 0.1933 0.2115 REMARK 3 18 2.5640 - 2.5157 0.99 2670 137 0.1915 0.2530 REMARK 3 19 2.5157 - 2.4707 0.98 2703 171 0.1931 0.2682 REMARK 3 20 2.4707 - 2.4288 0.99 2722 147 0.2049 0.2447 REMARK 3 21 2.4288 - 2.3897 0.99 2657 134 0.1998 0.3093 REMARK 3 22 2.3897 - 2.3529 0.99 2712 147 0.2092 0.2740 REMARK 3 23 2.3529 - 2.3183 0.98 2708 107 0.2283 0.2783 REMARK 3 24 2.3183 - 2.2856 0.98 2725 116 0.2338 0.2900 REMARK 3 25 2.2856 - 2.2548 0.97 2625 129 0.2290 0.2359 REMARK 3 26 2.2548 - 2.2255 0.97 2693 153 0.2448 0.2886 REMARK 3 27 2.2255 - 2.1977 0.97 2664 122 0.2456 0.2472 REMARK 3 28 2.1977 - 2.1712 0.96 2698 159 0.2546 0.3176 REMARK 3 29 2.1712 - 2.1459 0.96 2596 132 0.2682 0.3067 REMARK 3 30 2.1459 - 2.1220 0.84 2288 137 0.2754 0.2920 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.060 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.35 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.53 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 : 0.007 4829 REMARK 3 ANGLE : 1.105 6570 REMARK 3 CHIRALITY : 0.074 685 REMARK 3 PLANARITY : 0.005 857 REMARK 3 DIHEDRAL : 14.064 1747 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 4WOU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000204217. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-APR-11 REMARK 200 TEMPERATURE (KELVIN) : 120 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 : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91993 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000, DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-3000, SCALEPACK, D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44852 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.122 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.500 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.7500 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% (W/V) PEG 3350, 0.2 M KH2PO4, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 61.07350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.07350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 51.65800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 62.58600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 51.65800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 62.58600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 61.07350 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 51.65800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 62.58600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 61.07350 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 51.65800 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 62.58600 REMARK 290 SMTRY3 8 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 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 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ALA A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 SER A 3 REMARK 465 ALA A 4 REMARK 465 THR A 5 REMARK 465 ILE A 6 REMARK 465 PRO A 7 REMARK 465 GLY A 8 REMARK 465 LEU A 9 REMARK 465 ASP A 10 REMARK 465 THR A 11 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 OG1 THR A 449 O GLY A 454 2.08 REMARK 500 OD1 ASN A 329 O HOH A 875 2.15 REMARK 500 OE1 GLU A 447 O HOH A 1105 2.15 REMARK 500 NZ LYS A 532 O HOH A 801 2.19 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 PRO A 13 37.33 -79.56 REMARK 500 ASN A 62 108.81 -37.25 REMARK 500 CYS A 89 68.73 -104.19 REMARK 500 ASP A 139 74.95 -118.42 REMARK 500 ASP A 173 19.81 -149.77 REMARK 500 ASP A 296 -54.18 -146.50 REMARK 500 PHE A 318 75.50 -119.59 REMARK 500 ASN A 329 75.18 -156.69 REMARK 500 GLU A 378 -66.50 -133.94 REMARK 500 THR A 424 -55.91 77.07 REMARK 500 ALA A 452 -5.39 76.37 REMARK 500 LYS A 455 72.63 57.72 REMARK 500 MET A 464 26.65 47.55 REMARK 500 PHE A 515 -123.17 51.56 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 A1028 DISTANCE = 6.39 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 ZN A 704 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 229 NZ REMARK 620 2 HIS A 249 NE2 87.1 REMARK 620 3 ASP A 296 OD1 86.7 82.6 REMARK 620 4 HOH A1107 O 172.1 88.6 99.3 REMARK 620 5 HOH A1108 O 95.6 175.8 94.4 89.1 REMARK 620 6 HOH A1111 O 93.2 99.3 178.1 81.0 83.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 703 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 276 OG1 REMARK 620 2 GDP A 701 O1B 77.0 REMARK 620 3 HOH A 824 O 77.3 86.1 REMARK 620 4 HOH A 834 O 167.4 98.8 90.6 REMARK 620 5 HOH A1115 O 112.6 92.5 169.4 79.2 REMARK 620 6 HOH A1116 O 115.1 166.7 101.8 70.6 77.8 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 GDP A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 705 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4WIU RELATED DB: PDB REMARK 900 RELATED ID: 4WIE RELATED DB: PDB REMARK 900 RELATED ID: 4WL8 RELATED DB: PDB REMARK 900 RELATED ID: 4WPT RELATED DB: PDB REMARK 900 RELATED ID: 4WPU RELATED DB: PDB REMARK 900 RELATED ID: 4WPV RELATED DB: PDB DBREF 4WOU A 1 606 UNP A5TYT6 PCKG_MYCTA 1 606 SEQADV 4WOU HIS A -15 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU HIS A -14 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU HIS A -13 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU HIS A -12 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU HIS A -11 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU HIS A -10 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU SER A -9 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU SER A -8 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU GLY A -7 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU LEU A -6 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU VAL A -5 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU PRO A -4 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU ALA A -3 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU GLY A -2 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU SER A -1 UNP A5TYT6 EXPRESSION TAG SEQADV 4WOU HIS A 0 UNP A5TYT6 EXPRESSION TAG SEQRES 1 A 622 HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL PRO ALA SEQRES 2 A 622 GLY SER HIS MET THR SER ALA THR ILE PRO GLY LEU ASP SEQRES 3 A 622 THR ALA PRO THR ASN HIS GLN GLY LEU LEU SER TRP VAL SEQRES 4 A 622 GLU GLU VAL ALA GLU LEU THR GLN PRO ASP ARG VAL VAL SEQRES 5 A 622 PHE THR ASP GLY SER GLU GLU GLU PHE GLN ARG LEU CYS SEQRES 6 A 622 ASP GLN LEU VAL GLU ALA GLY THR PHE ILE ARG LEU ASN SEQRES 7 A 622 PRO GLU LYS HIS LYS ASN SER TYR LEU ALA LEU SER ASP SEQRES 8 A 622 PRO SER ASP VAL ALA ARG VAL GLU SER ARG THR TYR ILE SEQRES 9 A 622 CYS SER ALA LYS GLU ILE ASP ALA GLY PRO THR ASN ASN SEQRES 10 A 622 TRP MET ASP PRO GLY GLU MET ARG SER ILE MET LYS ASP SEQRES 11 A 622 LEU TYR ARG GLY CYS MET ARG GLY ARG THR MET TYR VAL SEQRES 12 A 622 VAL PRO PHE CYS MET GLY PRO LEU GLY ALA GLU ASP PRO SEQRES 13 A 622 LYS LEU GLY VAL GLU ILE THR ASP SER GLU TYR VAL VAL SEQRES 14 A 622 VAL SER MET ARG THR MET THR ARG MET GLY LYS ALA ALA SEQRES 15 A 622 LEU GLU LYS MET GLY ASP ASP GLY PHE PHE VAL LYS ALA SEQRES 16 A 622 LEU HIS SER VAL GLY ALA PRO LEU GLU PRO GLY GLN LYS SEQRES 17 A 622 ASP VAL ALA TRP PRO CYS SER GLU THR LYS TYR ILE THR SEQRES 18 A 622 HIS PHE PRO GLU THR ARG GLU ILE TRP SER TYR GLY SER SEQRES 19 A 622 GLY TYR GLY GLY ASN ALA LEU LEU GLY LYS LYS CYS TYR SEQRES 20 A 622 SER LEU ARG ILE ALA SER ALA MET ALA HIS ASP GLU GLY SEQRES 21 A 622 TRP LEU ALA GLU HIS MET LEU ILE LEU LYS LEU ILE SER SEQRES 22 A 622 PRO GLU ASN LYS ALA TYR TYR PHE ALA ALA ALA PHE PRO SEQRES 23 A 622 SER ALA CYS GLY LYS THR ASN LEU ALA MET LEU GLN PRO SEQRES 24 A 622 THR ILE PRO GLY TRP ARG ALA GLU THR LEU GLY ASP ASP SEQRES 25 A 622 ILE ALA TRP MET ARG PHE GLY LYS ASP GLY ARG LEU TYR SEQRES 26 A 622 ALA VAL ASN PRO GLU PHE GLY PHE PHE GLY VAL ALA PRO SEQRES 27 A 622 GLY THR ASN TRP LYS SER ASN PRO ASN ALA MET ARG THR SEQRES 28 A 622 ILE ALA ALA GLY ASN THR VAL PHE THR ASN VAL ALA LEU SEQRES 29 A 622 THR ASP ASP GLY ASP VAL TRP TRP GLU GLY LEU GLU GLY SEQRES 30 A 622 ASP PRO GLN HIS LEU ILE ASP TRP LYS GLY ASN ASP TRP SEQRES 31 A 622 TYR PHE ARG GLU THR GLU THR ASN ALA ALA HIS PRO ASN SEQRES 32 A 622 SER ARG TYR CYS THR PRO MET SER GLN CYS PRO ILE LEU SEQRES 33 A 622 ALA PRO GLU TRP ASP ASP PRO GLN GLY VAL PRO ILE SER SEQRES 34 A 622 GLY ILE LEU PHE GLY GLY ARG ARG LYS THR THR VAL PRO SEQRES 35 A 622 LEU VAL THR GLU ALA ARG ASP TRP GLN HIS GLY VAL PHE SEQRES 36 A 622 ILE GLY ALA THR LEU GLY SER GLU GLN THR ALA ALA ALA SEQRES 37 A 622 GLU GLY LYS VAL GLY ASN VAL ARG ARG ASP PRO MET ALA SEQRES 38 A 622 MET LEU PRO PHE LEU GLY TYR ASN VAL GLY ASP TYR PHE SEQRES 39 A 622 GLN HIS TRP ILE ASN LEU GLY LYS HIS ALA ASP GLU SER SEQRES 40 A 622 LYS LEU PRO LYS VAL PHE PHE VAL ASN TRP PHE ARG ARG SEQRES 41 A 622 GLY ASP ASP GLY ARG PHE LEU TRP PRO GLY PHE GLY GLU SEQRES 42 A 622 ASN SER ARG VAL LEU LYS TRP ILE VAL ASP ARG ILE GLU SEQRES 43 A 622 HIS LYS ALA GLY GLY ALA THR THR PRO ILE GLY THR VAL SEQRES 44 A 622 PRO ALA VAL GLU ASP LEU ASP LEU ASP GLY LEU ASP VAL SEQRES 45 A 622 ASP ALA ALA ASP VAL ALA ALA ALA LEU ALA VAL ASP ALA SEQRES 46 A 622 ASP GLU TRP ARG GLN GLU LEU PRO LEU ILE GLU GLU TRP SEQRES 47 A 622 LEU GLN PHE VAL GLY GLU LYS LEU PRO THR GLY VAL LYS SEQRES 48 A 622 ASP GLU PHE ASP ALA LEU LYS GLU ARG LEU GLY HET GDP A 701 28 HET GOL A 702 6 HET MN A 703 1 HET ZN A 704 1 HET PO4 A 705 5 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM GOL GLYCEROL HETNAM MN MANGANESE (II) ION HETNAM ZN ZINC ION HETNAM PO4 PHOSPHATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GDP C10 H15 N5 O11 P2 FORMUL 3 GOL C3 H8 O3 FORMUL 4 MN MN 2+ FORMUL 5 ZN ZN 2+ FORMUL 6 PO4 O4 P 3- FORMUL 7 HOH *316(H2 O) HELIX 1 AA1 HIS A 16 GLN A 31 1 16 HELIX 2 AA2 SER A 41 ALA A 55 1 15 HELIX 3 AA3 ASP A 75 VAL A 79 5 5 HELIX 4 AA4 VAL A 82 SER A 84 5 3 HELIX 5 AA5 LYS A 92 ALA A 96 5 5 HELIX 6 AA6 ASP A 104 ARG A 117 1 14 HELIX 7 AA7 SER A 149 THR A 160 1 12 HELIX 8 AA8 GLY A 163 MET A 170 1 8 HELIX 9 AA9 TYR A 220 LEU A 225 1 6 HELIX 10 AB1 LEU A 233 GLY A 244 1 12 HELIX 11 AB2 GLY A 274 MET A 280 1 7 HELIX 12 AB3 ASN A 329 ALA A 338 1 10 HELIX 13 AB4 SER A 395 CYS A 397 5 3 HELIX 14 AB5 ALA A 401 ASP A 406 5 6 HELIX 15 AB6 ASP A 433 THR A 443 1 11 HELIX 16 AB7 PRO A 463 MET A 466 5 4 HELIX 17 AB8 ASN A 473 HIS A 487 1 15 HELIX 18 AB9 GLY A 514 GLY A 516 5 3 HELIX 19 AC1 GLU A 517 GLU A 530 1 14 HELIX 20 AC2 ALA A 545 LEU A 549 5 5 HELIX 21 AC3 ASP A 557 LEU A 565 1 9 HELIX 22 AC4 ASP A 568 GLY A 587 1 20 HELIX 23 AC5 GLU A 588 LEU A 590 5 3 HELIX 24 AC6 PRO A 591 GLY A 606 1 16 SHEET 1 AA1 7 ARG A 34 PHE A 37 0 SHEET 2 AA1 7 THR A 124 MET A 132 1 O MET A 125 N ARG A 34 SHEET 3 AA1 7 LYS A 141 THR A 147 -1 O GLU A 145 N VAL A 128 SHEET 4 AA1 7 VAL A 177 SER A 182 1 O ALA A 179 N ILE A 146 SHEET 5 AA1 7 GLU A 212 TYR A 216 1 O SER A 215 N LEU A 180 SHEET 6 AA1 7 TYR A 203 PHE A 207 -1 N PHE A 207 O GLU A 212 SHEET 7 AA1 7 THR A 86 ILE A 88 1 N TYR A 87 O ILE A 204 SHEET 1 AA2 3 ARG A 34 PHE A 37 0 SHEET 2 AA2 3 THR A 124 MET A 132 1 O MET A 125 N ARG A 34 SHEET 3 AA2 3 ARG A 161 MET A 162 -1 O ARG A 161 N CYS A 131 SHEET 1 AA3 5 PHE A 58 ARG A 60 0 SHEET 2 AA3 5 TYR A 70 ALA A 72 -1 O LEU A 71 N ILE A 59 SHEET 3 AA3 5 VAL A 342 THR A 344 1 O PHE A 343 N TYR A 70 SHEET 4 AA3 5 ARG A 389 PRO A 393 -1 O ARG A 389 N THR A 344 SHEET 5 AA3 5 GLY A 316 VAL A 320 -1 N PHE A 317 O THR A 392 SHEET 1 AA4 7 LEU A 246 GLU A 248 0 SHEET 2 AA4 7 ALA A 298 PHE A 302 -1 O ALA A 298 N GLU A 248 SHEET 3 AA4 7 LEU A 308 VAL A 311 -1 O TYR A 309 N ARG A 301 SHEET 4 AA4 7 VAL A 410 GLY A 418 -1 O ILE A 412 N LEU A 308 SHEET 5 AA4 7 ALA A 262 ALA A 268 1 N ALA A 266 O LEU A 416 SHEET 6 AA4 7 LEU A 251 ILE A 256 -1 N LEU A 255 O TYR A 263 SHEET 7 AA4 7 ARG A 289 GLY A 294 -1 O ARG A 289 N ILE A 256 SHEET 1 AA5 6 LEU A 246 GLU A 248 0 SHEET 2 AA5 6 ALA A 298 PHE A 302 -1 O ALA A 298 N GLU A 248 SHEET 3 AA5 6 LEU A 308 VAL A 311 -1 O TYR A 309 N ARG A 301 SHEET 4 AA5 6 VAL A 410 GLY A 418 -1 O ILE A 412 N LEU A 308 SHEET 5 AA5 6 LYS A 495 VAL A 499 1 O PHE A 497 N ILE A 415 SHEET 6 AA5 6 VAL A 428 GLU A 430 -1 N THR A 429 O PHE A 498 SHEET 1 AA6 4 VAL A 354 TRP A 355 0 SHEET 2 AA6 4 ALA A 347 THR A 349 -1 N ALA A 347 O TRP A 355 SHEET 3 AA6 4 HIS A 365 ILE A 367 -1 O ILE A 367 N LEU A 348 SHEET 4 AA6 4 ASP A 373 TYR A 375 -1 O TRP A 374 N LEU A 366 SHEET 1 AA7 2 GLY A 445 SER A 446 0 SHEET 2 AA7 2 ARG A 460 ARG A 461 -1 O ARG A 460 N SER A 446 SHEET 1 AA8 2 ALA A 536 THR A 538 0 SHEET 2 AA8 2 GLY A 541 VAL A 543 -1 O VAL A 543 N ALA A 536 LINK NZ LYS A 229 ZN ZN A 704 1555 1555 2.41 LINK NE2 HIS A 249 ZN ZN A 704 1555 1555 2.33 LINK OG1 THR A 276 MN MN A 703 1555 1555 2.17 LINK OD1 ASP A 296 ZN ZN A 704 1555 1555 2.21 LINK O1B GDP A 701 MN MN A 703 1555 1555 2.26 LINK MN MN A 703 O HOH A 824 1555 1555 2.49 LINK MN MN A 703 O HOH A 834 1555 1555 2.70 LINK MN MN A 703 O HOH A1115 1555 1555 1.94 LINK MN MN A 703 O HOH A1116 1555 1555 2.21 LINK ZN ZN A 704 O HOH A1107 1555 1555 2.29 LINK ZN ZN A 704 O HOH A1108 1555 1555 2.26 LINK ZN ZN A 704 O HOH A1111 1555 1555 2.32 SITE 1 AC1 23 PRO A 270 ALA A 272 CYS A 273 GLY A 274 SITE 2 AC1 23 LYS A 275 THR A 276 ASN A 277 ASP A 362 SITE 3 AC1 23 ARG A 377 ARG A 420 TRP A 501 PHE A 502 SITE 4 AC1 23 PHE A 510 GLY A 514 PHE A 515 ASN A 518 SITE 5 AC1 23 MN A 703 HOH A 808 HOH A 824 HOH A 834 SITE 6 AC1 23 HOH A 930 HOH A1022 HOH A1115 SITE 1 AC2 6 THR A 86 THR A 99 ASN A 100 ASN A 101 SITE 2 AC2 6 LEU A 467 PRO A 468 SITE 1 AC3 6 THR A 276 GDP A 701 HOH A 824 HOH A 834 SITE 2 AC3 6 HOH A1115 HOH A1116 SITE 1 AC4 6 LYS A 229 HIS A 249 ASP A 296 HOH A1107 SITE 2 AC4 6 HOH A1108 HOH A1111 SITE 1 AC5 5 LYS A 229 ARG A 389 HOH A 886 HOH A 893 SITE 2 AC5 5 HOH A1108 CRYST1 103.316 125.172 122.147 90.00 90.00 90.00 C 2 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 0.009679 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007989 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008187 0.00000