HEADER ISOMERASE 05-MAY-17 5VPU TITLE CRYSTAL STRUCTURE OF 2,3-BISPHOSPHOGLYCERATE-INDEPENDENT TITLE 2 PHOSPHOGLYCERATE MUTASE BOUND TO 3-PHOSPHOGLYCERATE, FROM TITLE 3 ACINETOBACTER BAUMANNII COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2,3-BISPHOSPHOGLYCERATE-INDEPENDENT PHOSPHOGLYCERATE COMPND 3 MUTASE; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: ACBAC.17275.A.B1; COMPND 6 SYNONYM: IPGM; COMPND 7 EC: 5.4.2.12; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACINETOBACTER BAUMANNII; SOURCE 3 ORGANISM_TAXID: 470; SOURCE 4 GENE: GPMI, A7M79_08915, A8A08_04445, A8G88_07785, AB895_1730, SOURCE 5 AB988_1552, ABUW_3643, APD31_01565, APD31_14450, IX87_15700; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: ACBAC.17275.A.B1 KEYWDS STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR KEYWDS 2 INFECTIOUS DISEASE, SSGCID, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 04-OCT-23 5VPU 1 REMARK REVDAT 2 12-AUG-20 5VPU 1 JRNL REVDAT 1 24-MAY-17 5VPU 0 JRNL AUTH S.L.DELKER,D.M.DRANOW,J.ABENDROTH,D.LORIMER,T.E.EDWARDS, JRNL AUTH 2 SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE JRNL AUTH 3 (SSGCID) JRNL TITL CRYSTAL STRUCTURE OF 2,3-BISPHOSPHOGLYCERATE-INDEPENDENT JRNL TITL 2 PHOSPHOGLYCERATE MUTASE BOUND TO 3-PHOSPHOGLYCERATE, FROM JRNL TITL 3 ACINETOBACTER BAUMANNII JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.400 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 84298 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.136 REMARK 3 R VALUE (WORKING SET) : 0.135 REMARK 3 FREE R VALUE : 0.164 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.370 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 41.0604 - 3.6144 1.00 6022 147 0.1228 0.1514 REMARK 3 2 3.6144 - 2.8691 1.00 5946 138 0.1311 0.1542 REMARK 3 3 2.8691 - 2.5065 1.00 5972 135 0.1433 0.1923 REMARK 3 4 2.5065 - 2.2773 1.00 5893 163 0.1394 0.1586 REMARK 3 5 2.2773 - 2.1141 0.99 5917 125 0.1399 0.1470 REMARK 3 6 2.1141 - 1.9895 0.99 5906 140 0.1395 0.1903 REMARK 3 7 1.9895 - 1.8898 0.99 5896 132 0.1364 0.1729 REMARK 3 8 1.8898 - 1.8076 0.99 5865 165 0.1367 0.1684 REMARK 3 9 1.8076 - 1.7380 0.99 5869 156 0.1382 0.1575 REMARK 3 10 1.7380 - 1.6780 0.99 5843 143 0.1413 0.1791 REMARK 3 11 1.6780 - 1.6255 0.99 5869 138 0.1381 0.1596 REMARK 3 12 1.6255 - 1.5791 0.99 5838 135 0.1356 0.1669 REMARK 3 13 1.5791 - 1.5375 0.99 5815 139 0.1340 0.1687 REMARK 3 14 1.5375 - 1.5000 0.95 5647 144 0.1440 0.1734 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.680 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.38 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 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 : 0.006 4132 REMARK 3 ANGLE : 1.108 5601 REMARK 3 CHIRALITY : 0.076 625 REMARK 3 PLANARITY : 0.005 741 REMARK 3 DIHEDRAL : 11.812 1550 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 14 THROUGH 74 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.7741 -7.5780 7.4233 REMARK 3 T TENSOR REMARK 3 T11: 0.1084 T22: 0.1128 REMARK 3 T33: 0.1062 T12: 0.0010 REMARK 3 T13: 0.0216 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 0.2297 L22: 1.2906 REMARK 3 L33: 1.3809 L12: -0.0199 REMARK 3 L13: 0.0956 L23: -0.1981 REMARK 3 S TENSOR REMARK 3 S11: -0.0156 S12: 0.0223 S13: -0.0028 REMARK 3 S21: -0.1162 S22: 0.0048 S23: -0.0803 REMARK 3 S31: 0.0152 S32: 0.1411 S33: 0.0025 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 75 THROUGH 119 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.3997 17.1498 25.1481 REMARK 3 T TENSOR REMARK 3 T11: 0.1225 T22: 0.1351 REMARK 3 T33: 0.1310 T12: -0.0192 REMARK 3 T13: 0.0090 T23: 0.0080 REMARK 3 L TENSOR REMARK 3 L11: 0.0339 L22: 0.7220 REMARK 3 L33: 1.8846 L12: 0.0556 REMARK 3 L13: 0.4178 L23: 1.0539 REMARK 3 S TENSOR REMARK 3 S11: -0.0552 S12: 0.0561 S13: 0.0285 REMARK 3 S21: -0.1104 S22: 0.0524 S23: 0.0203 REMARK 3 S31: -0.0942 S32: 0.1588 S33: -0.0201 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 120 THROUGH 312 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.5340 6.6691 38.2623 REMARK 3 T TENSOR REMARK 3 T11: 0.0694 T22: 0.0744 REMARK 3 T33: 0.0779 T12: -0.0033 REMARK 3 T13: 0.0163 T23: -0.0079 REMARK 3 L TENSOR REMARK 3 L11: 0.5014 L22: 1.5191 REMARK 3 L33: 0.9453 L12: 0.2790 REMARK 3 L13: 0.0194 L23: 0.5643 REMARK 3 S TENSOR REMARK 3 S11: 0.0119 S12: -0.0392 S13: 0.0128 REMARK 3 S21: 0.1211 S22: -0.0610 S23: 0.0809 REMARK 3 S31: 0.0727 S32: -0.0628 S33: 0.0336 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 313 THROUGH 335 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.8260 16.9498 8.9082 REMARK 3 T TENSOR REMARK 3 T11: 0.1883 T22: 0.0888 REMARK 3 T33: 0.1302 T12: 0.0018 REMARK 3 T13: -0.0154 T23: 0.0221 REMARK 3 L TENSOR REMARK 3 L11: 1.6881 L22: 0.3303 REMARK 3 L33: 4.5461 L12: 0.8361 REMARK 3 L13: 2.7903 L23: 1.2277 REMARK 3 S TENSOR REMARK 3 S11: -0.1643 S12: 0.0924 S13: 0.0625 REMARK 3 S21: -0.1419 S22: 0.0596 S23: 0.0161 REMARK 3 S31: -0.4117 S32: 0.1377 S33: 0.1469 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 336 THROUGH 383 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.2774 1.7623 15.3256 REMARK 3 T TENSOR REMARK 3 T11: 0.1278 T22: 0.1226 REMARK 3 T33: 0.1334 T12: 0.0135 REMARK 3 T13: 0.0060 T23: 0.0058 REMARK 3 L TENSOR REMARK 3 L11: 0.3466 L22: 1.5516 REMARK 3 L33: 1.8051 L12: 0.1745 REMARK 3 L13: 0.0103 L23: -1.1849 REMARK 3 S TENSOR REMARK 3 S11: -0.0138 S12: -0.0212 S13: 0.0443 REMARK 3 S21: 0.0943 S22: 0.0431 S23: 0.1344 REMARK 3 S31: -0.2002 S32: -0.0736 S33: -0.0318 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 384 THROUGH 481 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.3085 -8.1565 10.0455 REMARK 3 T TENSOR REMARK 3 T11: 0.1003 T22: 0.0835 REMARK 3 T33: 0.0986 T12: -0.0035 REMARK 3 T13: 0.0090 T23: -0.0039 REMARK 3 L TENSOR REMARK 3 L11: 0.6059 L22: 0.9091 REMARK 3 L33: 1.4650 L12: -0.1717 REMARK 3 L13: 0.4701 L23: -0.4185 REMARK 3 S TENSOR REMARK 3 S11: -0.0225 S12: 0.0521 S13: -0.0123 REMARK 3 S21: -0.0941 S22: 0.0178 S23: 0.0410 REMARK 3 S31: 0.0288 S32: 0.0108 S33: -0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 482 THROUGH 522 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.7408 4.9745 -4.1229 REMARK 3 T TENSOR REMARK 3 T11: 0.1768 T22: 0.1271 REMARK 3 T33: 0.1020 T12: -0.0236 REMARK 3 T13: 0.0267 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 1.0720 L22: 1.1859 REMARK 3 L33: 2.9711 L12: 0.0242 REMARK 3 L13: 0.3546 L23: 0.6795 REMARK 3 S TENSOR REMARK 3 S11: -0.0298 S12: 0.1198 S13: 0.0384 REMARK 3 S21: -0.2524 S22: -0.0553 S23: -0.0887 REMARK 3 S31: -0.0267 S32: 0.1456 S33: 0.0853 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 5VPU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1000227824. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : DIAMOND [111] REMARK 200 OPTICS : BERYLLIUM LENSES REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 84305 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 41.045 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.142 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.9800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.15 REMARK 200 R MERGE FOR SHELL (I) : 0.15100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 1O98 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MCSG1 F2: 0.2 M AMMONIUM ACETATE 0.1 M REMARK 280 BIS-TRIS: HCL, PH 6.5 25 % (W/V) PEG 3350 +3MM 3- REMARK 280 PHOSPHOGLYCERATE CRYO:15% ETHYLENE GLYCOL PS38071 24.7MG/ML, 0.4+ REMARK 280 0.4 PUCK FRN7-12, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 41.04500 REMARK 290 SMTRY3 2 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 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 MET A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 ASP A 3 REMARK 465 ALA A 4 REMARK 465 THR A 5 REMARK 465 ALA A 515 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 GLU A 179 CG CD OE1 OE2 REMARK 470 LYS A 276 CG CD CE NZ REMARK 470 GLU A 312 CG CD OE1 OE2 REMARK 470 LYS A 356 CG CD CE NZ REMARK 470 LYS A 436 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 ND2 ASN A 495 O HOH A 701 2.17 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 155 -100.57 -98.35 REMARK 500 LYS A 276 56.58 -93.77 REMARK 500 ASP A 277 44.07 161.36 REMARK 500 THR A 341 -101.30 -108.48 REMARK 500 LYS A 371 77.33 -150.36 REMARK 500 MET A 374 -130.26 45.09 REMARK 500 HIS A 445 166.08 177.55 REMARK 500 ASN A 447 -66.30 -174.77 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 A1396 DISTANCE = 5.81 ANGSTROMS REMARK 525 HOH A1397 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A1398 DISTANCE = 6.07 ANGSTROMS REMARK 525 HOH A1399 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH A1400 DISTANCE = 6.41 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 602 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 17 OD1 REMARK 620 2 SER A 67 OG 125.3 REMARK 620 3 ASP A 444 OD2 101.1 92.5 REMARK 620 4 HIS A 445 NE2 108.1 123.5 94.3 REMARK 620 5 3PG A 603 O2P 103.4 60.9 151.2 92.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 601 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 403 OD1 REMARK 620 2 ASP A 403 OD2 54.6 REMARK 620 3 HIS A 407 NE2 100.1 94.9 REMARK 620 4 HIS A 463 NE2 99.7 151.2 103.3 REMARK 620 5 3PG A 603 O1P 154.1 104.8 97.0 94.9 REMARK 620 6 3PG A 603 O2P 90.7 70.4 151.9 100.2 65.6 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 MN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 3PG A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 608 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 609 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 610 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 611 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 612 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SSGCID-ACBAC.17275.A RELATED DB: TARGETTRACK DBREF1 5VPU A 1 515 UNP A0A059ZPG7_ACIBA DBREF2 5VPU A A0A059ZPG7 1 515 SEQADV 5VPU MET A -7 UNP A0A059ZPG INITIATING METHIONINE SEQADV 5VPU ALA A -6 UNP A0A059ZPG EXPRESSION TAG SEQADV 5VPU HIS A -5 UNP A0A059ZPG EXPRESSION TAG SEQADV 5VPU HIS A -4 UNP A0A059ZPG EXPRESSION TAG SEQADV 5VPU HIS A -3 UNP A0A059ZPG EXPRESSION TAG SEQADV 5VPU HIS A -2 UNP A0A059ZPG EXPRESSION TAG SEQADV 5VPU HIS A -1 UNP A0A059ZPG EXPRESSION TAG SEQADV 5VPU HIS A 0 UNP A0A059ZPG EXPRESSION TAG SEQRES 1 A 523 MET ALA HIS HIS HIS HIS HIS HIS MET THR ASP ALA THR SEQRES 2 A 523 ALA GLY LYS ILE PRO HIS VAL LEU VAL ILE MET ASP GLY SEQRES 3 A 523 VAL GLY HIS ARG GLU ALA ILE GLU ASP ASN ALA PHE LEU SEQRES 4 A 523 ALA ALA LYS THR PRO ASN LEU THR ALA MET LYS ALA LYS SEQRES 5 A 523 HIS PRO ASN SER LEU ILE SER GLY SER GLY GLU ASP VAL SEQRES 6 A 523 GLY LEU PRO ASP GLY GLN MET GLY ASN SER GLU VAL GLY SEQRES 7 A 523 HIS MET ASN LEU GLY ALA GLY ARG VAL LEU TYR GLN ASP SEQRES 8 A 523 PHE THR ARG ILE THR LYS ASP ILE ARG THR GLY ALA PHE SEQRES 9 A 523 PHE GLU HIS GLU VAL LEU VAL ASP ALA VAL GLU LYS ALA SEQRES 10 A 523 LYS ALA ALA GLY GLY ALA VAL HIS ILE MET GLY LEU LEU SEQRES 11 A 523 SER GLU GLY GLY VAL HIS SER HIS GLU ASP HIS ILE VAL SEQRES 12 A 523 ALA MET CYS GLU LEU ALA LEU LYS ARG GLY ALA LYS VAL SEQRES 13 A 523 TYR LEU HIS ALA PHE LEU ASP GLY ARG ASP THR PRO PRO SEQRES 14 A 523 ARG SER ALA GLN PRO SER LEU GLU LYS LEU ASP ALA LEU SEQRES 15 A 523 PHE ALA GLN TYR GLU GLY LYS GLY ARG ILE ALA THR MET SEQRES 16 A 523 ILE GLY ARG TYR PHE ALA MET ASP ARG ASP ASN ARG TRP SEQRES 17 A 523 ASP ARG VAL GLU GLN ALA TYR ARG LEU LEU THR GLU GLY SEQRES 18 A 523 GLU ALA VAL ARG THR ALA THR THR ALA VAL GLU GLY LEU SEQRES 19 A 523 GLU LEU ALA TYR ALA ALA ASN GLU ASN ASP GLU PHE VAL SEQRES 20 A 523 LYS ALA THR ARG ILE GLY GLU ILE ALA LYS VAL GLN ASP SEQRES 21 A 523 GLY ASP SER VAL VAL PHE MET ASN PHE ARG ALA ASP ARG SEQRES 22 A 523 ALA ARG GLU ILE THR ARG ALA PHE VAL GLU LYS ASP PHE SEQRES 23 A 523 ALA GLY PHE GLU ARG LYS VAL VAL PRO ASN LEU SER LYS SEQRES 24 A 523 PHE VAL MET LEU THR ARG TYR GLN ALA SER ILE ASP ALA SEQRES 25 A 523 PRO VAL ALA TYR MET PRO GLU GLU LEU LYS ASN SER LEU SEQRES 26 A 523 GLY GLU TYR LEU SER SER LEU GLY LYS THR GLN LEU ARG SEQRES 27 A 523 ILE ALA GLU THR GLU LYS TYR ALA HIS VAL THR PHE PHE SEQRES 28 A 523 PHE SER GLY GLY ARG GLU ASP GLU TYR PRO GLY GLU LYS SEQRES 29 A 523 ARG ILE LEU ILE PRO SER PRO ASN VAL ALA THR TYR ASP SEQRES 30 A 523 LEU LYS PRO GLU MET SER ALA TYR GLU VAL THR ASP GLU SEQRES 31 A 523 LEU VAL LYS ALA ILE ASN SER GLY GLU TYR ASP LEU LEU SEQRES 32 A 523 VAL VAL ASN TYR ALA ASN GLY ASP MET VAL GLY HIS THR SEQRES 33 A 523 GLY VAL PHE ASP ALA ALA VAL LYS ALA VAL GLU ALA VAL SEQRES 34 A 523 ASP THR CYS LEU GLY ARG VAL TYR GLU ALA VAL MET ALA SEQRES 35 A 523 LYS LYS GLY HIS MET LEU ILE THR ALA ASP HIS GLY ASN SEQRES 36 A 523 VAL GLU GLN MET GLN ASP TYR GLU SER GLY GLN VAL HIS SEQRES 37 A 523 THR GLN HIS THR THR GLU LEU VAL PRO PHE ILE TYR VAL SEQRES 38 A 523 GLY PRO THR GLN ALA THR ILE ALA GLU GLY GLY VAL LEU SEQRES 39 A 523 ALA ASP VAL ALA PRO THR ILE LEU ASN LEU MET GLN ILE SEQRES 40 A 523 PRO VAL PRO ALA GLU MET GLN GLY ARG ASN LEU ILE THR SEQRES 41 A 523 LEU SER ALA HET MN A 601 1 HET MN A 602 1 HET 3PG A 603 11 HET EDO A 604 4 HET EDO A 605 4 HET EDO A 606 4 HET EDO A 607 4 HET EDO A 608 4 HET EDO A 609 4 HET EDO A 610 8 HET ACT A 611 4 HET ACT A 612 4 HETNAM MN MANGANESE (II) ION HETNAM 3PG 3-PHOSPHOGLYCERIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MN 2(MN 2+) FORMUL 4 3PG C3 H7 O7 P FORMUL 5 EDO 7(C2 H6 O2) FORMUL 12 ACT 2(C2 H3 O2 1-) FORMUL 14 HOH *700(H2 O) HELIX 1 AA1 ASN A 28 ALA A 33 1 6 HELIX 2 AA2 THR A 35 HIS A 45 1 11 HELIX 3 AA3 SER A 53 GLY A 58 5 6 HELIX 4 AA4 ASN A 66 GLY A 77 1 12 HELIX 5 AA5 GLN A 82 GLY A 94 1 13 HELIX 6 AA6 ALA A 95 GLU A 98 5 4 HELIX 7 AA7 HIS A 99 ALA A 112 1 14 HELIX 8 AA8 HIS A 130 ARG A 144 1 15 HELIX 9 AA9 ALA A 164 ALA A 176 1 13 HELIX 10 AB1 GLN A 177 GLU A 179 5 3 HELIX 11 AB2 ARG A 190 MET A 194 1 5 HELIX 12 AB3 ARG A 199 GLY A 213 1 15 HELIX 13 AB4 THR A 221 ALA A 232 1 12 HELIX 14 AB5 ASN A 235 VAL A 239 5 5 HELIX 15 AB6 ALA A 266 GLU A 275 1 10 HELIX 16 AB7 SER A 316 LEU A 324 1 9 HELIX 17 AB8 LYS A 336 THR A 341 1 6 HELIX 18 AB9 THR A 367 LYS A 371 5 5 HELIX 19 AC1 SER A 375 GLY A 390 1 16 HELIX 20 AC2 ALA A 400 HIS A 407 1 8 HELIX 21 AC3 VAL A 410 LYS A 435 1 26 HELIX 22 AC4 ASP A 488 GLN A 498 1 11 SHEET 1 AA1 8 GLU A 355 ILE A 360 0 SHEET 2 AA1 8 GLN A 328 GLU A 333 1 N GLN A 328 O LYS A 356 SHEET 3 AA1 8 LEU A 394 TYR A 399 1 O VAL A 396 N LEU A 329 SHEET 4 AA1 8 HIS A 11 MET A 16 1 N LEU A 13 O LEU A 395 SHEET 5 AA1 8 HIS A 438 THR A 442 1 O THR A 442 N MET A 16 SHEET 6 AA1 8 VAL A 468 VAL A 473 -1 O VAL A 473 N MET A 439 SHEET 7 AA1 8 ASN A 47 SER A 51 -1 N ILE A 50 O VAL A 468 SHEET 8 AA1 8 GLY A 484 VAL A 485 1 O GLY A 484 N SER A 51 SHEET 1 AA2 8 ARG A 217 ALA A 219 0 SHEET 2 AA2 8 THR A 242 ILE A 244 1 O ARG A 243 N ARG A 217 SHEET 3 AA2 8 GLY A 182 GLY A 189 -1 N ALA A 185 O ILE A 244 SHEET 4 AA2 8 LYS A 147 LEU A 154 1 N LEU A 150 O ALA A 185 SHEET 5 AA2 8 ALA A 115 LEU A 121 1 N VAL A 116 O LYS A 147 SHEET 6 AA2 8 SER A 255 PHE A 258 1 O SER A 255 N HIS A 117 SHEET 7 AA2 8 LYS A 291 THR A 296 1 O VAL A 293 N VAL A 256 SHEET 8 AA2 8 VAL A 306 TYR A 308 1 O TYR A 308 N LEU A 295 SHEET 1 AA3 2 ALA A 478 ILE A 480 0 SHEET 2 AA3 2 ILE A 511 LEU A 513 -1 O THR A 512 N THR A 479 LINK OD1 ASP A 17 MN MN A 602 1555 1555 1.92 LINK OG SER A 67 MN MN A 602 1555 1555 1.89 LINK OD1 ASP A 403 MN MN A 601 1555 1555 2.08 LINK OD2 ASP A 403 MN MN A 601 1555 1555 2.62 LINK NE2 HIS A 407 MN MN A 601 1555 1555 1.98 LINK OD2 ASP A 444 MN MN A 602 1555 1555 2.31 LINK NE2 HIS A 445 MN MN A 602 1555 1555 2.02 LINK NE2 HIS A 463 MN MN A 601 1555 1555 2.02 LINK MN MN A 601 O1P 3PG A 603 1555 1555 2.43 LINK MN MN A 601 O2P 3PG A 603 1555 1555 2.38 LINK MN MN A 602 O2P 3PG A 603 1555 1555 2.67 SITE 1 AC1 4 ASP A 403 HIS A 407 HIS A 463 3PG A 603 SITE 1 AC2 5 ASP A 17 SER A 67 ASP A 444 HIS A 445 SITE 2 AC2 5 3PG A 603 SITE 1 AC3 19 ASP A 17 ASN A 66 SER A 67 HIS A 128 SITE 2 AC3 19 ARG A 157 ASP A 158 ARG A 190 ARG A 196 SITE 3 AC3 19 ARG A 262 ARG A 265 LYS A 336 HIS A 339 SITE 4 AC3 19 ASP A 403 HIS A 407 HIS A 445 HIS A 463 SITE 5 AC3 19 MN A 601 MN A 602 HOH A 729 SITE 1 AC4 5 ARG A 265 GLU A 335 MET A 404 HOH A 764 SITE 2 AC4 5 HOH A 840 SITE 1 AC5 5 GLN A 251 ASP A 252 VAL A 285 HOH A 753 SITE 2 AC5 5 HOH A 829 SITE 1 AC6 6 ASN A 37 MET A 41 GLY A 426 TYR A 429 SITE 2 AC6 6 HOH A 716 HOH A1109 SITE 1 AC7 5 THR A 88 HIS A 130 ASP A 132 HOH A 762 SITE 2 AC7 5 HOH A1118 SITE 1 AC8 8 GLY A 245 GLU A 246 THR A 512 HOH A 712 SITE 2 AC8 8 HOH A 722 HOH A 847 HOH A 876 HOH A1094 SITE 1 AC9 3 ASP A 201 GLN A 205 HOH A 750 SITE 1 AD1 3 VAL A 79 TYR A 81 HOH A 745 SITE 1 AD2 7 SER A 53 GLY A 54 ASP A 61 GLY A 62 SITE 2 AD2 7 THR A 465 HOH A 835 HOH A1071 SITE 1 AD3 4 PHE A 411 HOH A 704 HOH A 724 HOH A 826 CRYST1 45.940 82.090 72.410 90.00 97.64 90.00 P 1 21 1 2 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 0.021768 0.000000 0.002919 0.00000 SCALE2 0.000000 0.012182 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013934 0.00000