HEADER TRANSFERASE 02-MAR-21 7E8N TITLE CRYSTAL STRUCTURE OF TYPE II CITRATE SYNTHASE (HYCS) FROM HYMENOBACTER TITLE 2 SP. PAMC 26554 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CITRATE SYNTHASE; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HYMENOBACTER SP. PAMC 26554; SOURCE 3 ORGANISM_TAXID: 1484116; SOURCE 4 GENE: GLTA, A0257_01235; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS CITRATE SYNTHASE, HYMENOBACTER SP. PAMC 26554, DOMAIN MOVEMENT, KEYWDS 2 RIBOSOMAL PROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.-H.PARK,C.W.LEE,D.-W.BAE,J.H.LEE REVDAT 2 29-NOV-23 7E8N 1 REMARK REVDAT 1 12-JAN-22 7E8N 0 JRNL AUTH S.H.PARK,C.W.LEE,D.W.BAE,H.DO,C.S.JEONG,J.HWANG,S.S.CHA, JRNL AUTH 2 J.H.LEE JRNL TITL STRUCTURAL BASIS OF THE COOPERATIVE ACTIVATION OF TYPE II JRNL TITL 2 CITRATE SYNTHASE (HYCS) FROM HYMENOBACTER SP. PAMC 26554. JRNL REF INT.J.BIOL.MACROMOL. V. 183 213 2021 JRNL REFN ISSN 0141-8130 JRNL PMID 33910038 JRNL DOI 10.1016/J.IJBIOMAC.2021.04.141 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 72970 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3848 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5237 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2360 REMARK 3 BIN FREE R VALUE SET COUNT : 292 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 10051 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 394 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.71000 REMARK 3 B22 (A**2) : -3.76000 REMARK 3 B33 (A**2) : 4.47000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.247 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.199 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.147 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.851 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 10319 ; 0.009 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 9717 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 13985 ; 1.572 ; 1.643 REMARK 3 BOND ANGLES OTHERS (DEGREES): 22430 ; 1.326 ; 1.573 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1274 ; 7.185 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 510 ;37.673 ;22.882 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1749 ;15.835 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 51 ;16.014 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1358 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 11644 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 2315 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7E8N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1300020980. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76885 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 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 : 7.900 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 47.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.34200 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: 4TVM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CACODYLATE, HCL (PH 6.5), REMARK 280 1 M SODIUM CITRATE TRIBASIC, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K 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 67.66750 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 67.66750 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 67.16950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 83.08400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 67.16950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 83.08400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 67.66750 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 67.16950 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 83.08400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 67.66750 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 67.16950 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 83.08400 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 45140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 88660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -220.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -134.33900 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -67.66750 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 758 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 642 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 657 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 684 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 LYS A 431 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 GLY B 284 REMARK 465 GLY B 285 REMARK 465 ASP B 296 REMARK 465 LYS B 297 REMARK 465 ASN B 298 REMARK 465 SER B 299 REMARK 465 GLY B 300 REMARK 465 GLY C -2 REMARK 465 SER C -1 REMARK 465 HIS C 0 REMARK 465 LYS C 297 REMARK 465 ASN C 298 REMARK 465 SER C 299 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 C 360 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 CE1 HIS B 266 O4 CIT B 501 2.11 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 CYS B 140 N - CA - CB ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG B 403 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 HIS A 231 46.06 -149.52 REMARK 500 GLU A 232 -144.20 64.30 REMARK 500 GLN A 233 53.87 -95.83 REMARK 500 HIS A 266 -138.31 -129.77 REMARK 500 LYS A 297 101.26 -45.81 REMARK 500 ASN A 298 86.13 68.78 REMARK 500 MET A 334 62.98 -108.82 REMARK 500 GLU A 421 119.41 -33.60 REMARK 500 TYR B 47 18.92 56.20 REMARK 500 ASN B 153 73.34 58.38 REMARK 500 GLU B 209 148.50 -176.47 REMARK 500 HIS B 231 40.99 -150.00 REMARK 500 GLU B 232 -143.37 61.83 REMARK 500 ASN B 247 31.17 70.56 REMARK 500 HIS B 266 -115.24 -120.55 REMARK 500 THR B 287 161.76 -32.60 REMARK 500 SER B 288 -49.42 67.43 REMARK 500 LEU B 303 90.41 -60.90 REMARK 500 MET B 334 60.13 -114.19 REMARK 500 ASN B 336 138.34 -179.38 REMARK 500 SER B 337 86.26 -168.32 REMARK 500 SER C 45 -91.60 -1.31 REMARK 500 TYR C 47 19.29 54.09 REMARK 500 ASN C 153 67.90 61.42 REMARK 500 HIS C 231 42.47 -148.67 REMARK 500 GLU C 232 -146.11 71.83 REMARK 500 ALA C 269 93.48 -52.20 REMARK 500 GLN C 271 -2.91 -57.40 REMARK 500 ASP C 283 41.29 -86.77 REMARK 500 SER C 288 63.88 -69.40 REMARK 500 LYS C 289 -52.64 -167.67 REMARK 500 LYS C 295 -58.54 -123.17 REMARK 500 PHE C 301 -49.49 113.73 REMARK 500 ASN C 313 -61.53 80.71 REMARK 500 ASN C 336 56.74 -113.17 REMARK 500 THR C 352 -35.84 -144.86 REMARK 500 LYS C 406 47.93 35.88 REMARK 500 ARG C 430 -89.74 -98.77 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 A 760 DISTANCE = 9.24 ANGSTROMS DBREF1 7E8N A 1 431 UNP A0A142HAE2_9BACT DBREF2 7E8N A A0A142HAE2 1 431 DBREF1 7E8N B 1 431 UNP A0A142HAE2_9BACT DBREF2 7E8N B A0A142HAE2 1 431 DBREF1 7E8N C 1 431 UNP A0A142HAE2_9BACT DBREF2 7E8N C A0A142HAE2 1 431 SEQADV 7E8N GLY A -2 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N SER A -1 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N HIS A 0 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N GLY B -2 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N SER B -1 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N HIS B 0 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N GLY C -2 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N SER C -1 UNP A0A142HAE EXPRESSION TAG SEQADV 7E8N HIS C 0 UNP A0A142HAE EXPRESSION TAG SEQRES 1 A 434 GLY SER HIS MET ALA GLU THR ALA GLU LEU ASN LEU PRO SEQRES 2 A 434 GLY GLY GLN SER ILE SER LEU PRO ILE PHE GLU GLY THR SEQRES 3 A 434 GLU GLN GLU LYS ALA PHE ASP ILE GLY LYS LEU ARG ASP SEQRES 4 A 434 ALA THR GLY TYR VAL THR LEU ASP SER GLY TYR LYS ASN SEQRES 5 A 434 THR GLY ALA CYS LYS SER ALA ILE THR PHE LEU ASP GLY SEQRES 6 A 434 GLU GLU GLY ILE LEU ARG TYR ARG GLY TYR PRO ILE GLU SEQRES 7 A 434 GLN LEU ALA GLU ASN SER SER PHE LEU GLU VAL ALA TYR SEQRES 8 A 434 LEU LEU ILE TYR GLY HIS LEU PRO THR GLU ALA GLU LEU SEQRES 9 A 434 LYS ASP PHE SER GLY HIS ILE THR LYS HIS THR LEU VAL SEQRES 10 A 434 HIS GLU ASP ILE ARG LYS ILE PHE ASP GLY PHE PRO SER SEQRES 11 A 434 SER THR HIS PRO MET ALA ILE LEU SER SER LEU THR CYS SEQRES 12 A 434 ALA LEU THR GLY PHE TYR PRO GLU SER ILE SER PRO ASN SEQRES 13 A 434 GLN THR PRO GLU ALA ILE ASP LEU THR ILE VAL ARG LEU SEQRES 14 A 434 MET ALA LYS MET SER THR ILE ALA ALA TRP THR TYR LYS SEQRES 15 A 434 ASN SER VAL GLY HIS PRO LEU ASN TYR PRO ARG ASN ASP SEQRES 16 A 434 LEU ASP TYR CYS ALA ASN PHE LEU TYR MET MET PHE SER SEQRES 17 A 434 PHE PRO THR GLU LYS TYR GLU ILE ASN PRO VAL ILE VAL SEQRES 18 A 434 SER ALA LEU ASN LYS LEU LEU ILE LEU HIS ALA ASP HIS SEQRES 19 A 434 GLU GLN ASN CYS SER THR SER THR VAL ARG LEU VAL GLY SEQRES 20 A 434 SER ALA ASN ALA SER LEU TYR GLY SER VAL SER ALA GLY SEQRES 21 A 434 ILE ASN ALA LEU TRP GLY PRO LEU HIS GLY GLY ALA ASN SEQRES 22 A 434 GLN GLU VAL ILE GLU MET LEU GLU ALA ILE GLU LYS ASP SEQRES 23 A 434 GLY GLY ASP THR SER LYS PHE ILE ALA GLN ALA LYS ASP SEQRES 24 A 434 LYS ASN SER GLY PHE ARG LEU MET GLY PHE GLY HIS ARG SEQRES 25 A 434 VAL TYR LYS ASN PHE ASP PRO ARG ALA LYS ILE ILE LYS SEQRES 26 A 434 VAL ALA ALA ASP GLU VAL LEU GLN ALA LEU GLY MET GLN SEQRES 27 A 434 ASN SER PRO LEU LEU LYS ILE ALA THR GLU LEU GLU GLN SEQRES 28 A 434 ALA ALA LEU THR ASP GLN TYR PHE ILE ASP ARG LYS LEU SEQRES 29 A 434 TYR PRO ASN VAL ASP PHE TYR SER GLY ILE ILE TYR LYS SEQRES 30 A 434 ALA LEU GLY ILE PRO THR GLU MET PHE THR VAL MET PHE SEQRES 31 A 434 ALA LEU GLY ARG LEU PRO GLY TRP ILE ALA GLN TRP LYS SEQRES 32 A 434 GLU MET ARG GLU ASN LYS GLU PRO ILE GLY ARG PRO ARG SEQRES 33 A 434 GLN ILE TYR VAL GLY GLU THR GLU ARG ASN TYR VAL PRO SEQRES 34 A 434 MET THR GLU ARG LYS SEQRES 1 B 434 GLY SER HIS MET ALA GLU THR ALA GLU LEU ASN LEU PRO SEQRES 2 B 434 GLY GLY GLN SER ILE SER LEU PRO ILE PHE GLU GLY THR SEQRES 3 B 434 GLU GLN GLU LYS ALA PHE ASP ILE GLY LYS LEU ARG ASP SEQRES 4 B 434 ALA THR GLY TYR VAL THR LEU ASP SER GLY TYR LYS ASN SEQRES 5 B 434 THR GLY ALA CYS LYS SER ALA ILE THR PHE LEU ASP GLY SEQRES 6 B 434 GLU GLU GLY ILE LEU ARG TYR ARG GLY TYR PRO ILE GLU SEQRES 7 B 434 GLN LEU ALA GLU ASN SER SER PHE LEU GLU VAL ALA TYR SEQRES 8 B 434 LEU LEU ILE TYR GLY HIS LEU PRO THR GLU ALA GLU LEU SEQRES 9 B 434 LYS ASP PHE SER GLY HIS ILE THR LYS HIS THR LEU VAL SEQRES 10 B 434 HIS GLU ASP ILE ARG LYS ILE PHE ASP GLY PHE PRO SER SEQRES 11 B 434 SER THR HIS PRO MET ALA ILE LEU SER SER LEU THR CYS SEQRES 12 B 434 ALA LEU THR GLY PHE TYR PRO GLU SER ILE SER PRO ASN SEQRES 13 B 434 GLN THR PRO GLU ALA ILE ASP LEU THR ILE VAL ARG LEU SEQRES 14 B 434 MET ALA LYS MET SER THR ILE ALA ALA TRP THR TYR LYS SEQRES 15 B 434 ASN SER VAL GLY HIS PRO LEU ASN TYR PRO ARG ASN ASP SEQRES 16 B 434 LEU ASP TYR CYS ALA ASN PHE LEU TYR MET MET PHE SER SEQRES 17 B 434 PHE PRO THR GLU LYS TYR GLU ILE ASN PRO VAL ILE VAL SEQRES 18 B 434 SER ALA LEU ASN LYS LEU LEU ILE LEU HIS ALA ASP HIS SEQRES 19 B 434 GLU GLN ASN CYS SER THR SER THR VAL ARG LEU VAL GLY SEQRES 20 B 434 SER ALA ASN ALA SER LEU TYR GLY SER VAL SER ALA GLY SEQRES 21 B 434 ILE ASN ALA LEU TRP GLY PRO LEU HIS GLY GLY ALA ASN SEQRES 22 B 434 GLN GLU VAL ILE GLU MET LEU GLU ALA ILE GLU LYS ASP SEQRES 23 B 434 GLY GLY ASP THR SER LYS PHE ILE ALA GLN ALA LYS ASP SEQRES 24 B 434 LYS ASN SER GLY PHE ARG LEU MET GLY PHE GLY HIS ARG SEQRES 25 B 434 VAL TYR LYS ASN PHE ASP PRO ARG ALA LYS ILE ILE LYS SEQRES 26 B 434 VAL ALA ALA ASP GLU VAL LEU GLN ALA LEU GLY MET GLN SEQRES 27 B 434 ASN SER PRO LEU LEU LYS ILE ALA THR GLU LEU GLU GLN SEQRES 28 B 434 ALA ALA LEU THR ASP GLN TYR PHE ILE ASP ARG LYS LEU SEQRES 29 B 434 TYR PRO ASN VAL ASP PHE TYR SER GLY ILE ILE TYR LYS SEQRES 30 B 434 ALA LEU GLY ILE PRO THR GLU MET PHE THR VAL MET PHE SEQRES 31 B 434 ALA LEU GLY ARG LEU PRO GLY TRP ILE ALA GLN TRP LYS SEQRES 32 B 434 GLU MET ARG GLU ASN LYS GLU PRO ILE GLY ARG PRO ARG SEQRES 33 B 434 GLN ILE TYR VAL GLY GLU THR GLU ARG ASN TYR VAL PRO SEQRES 34 B 434 MET THR GLU ARG LYS SEQRES 1 C 434 GLY SER HIS MET ALA GLU THR ALA GLU LEU ASN LEU PRO SEQRES 2 C 434 GLY GLY GLN SER ILE SER LEU PRO ILE PHE GLU GLY THR SEQRES 3 C 434 GLU GLN GLU LYS ALA PHE ASP ILE GLY LYS LEU ARG ASP SEQRES 4 C 434 ALA THR GLY TYR VAL THR LEU ASP SER GLY TYR LYS ASN SEQRES 5 C 434 THR GLY ALA CYS LYS SER ALA ILE THR PHE LEU ASP GLY SEQRES 6 C 434 GLU GLU GLY ILE LEU ARG TYR ARG GLY TYR PRO ILE GLU SEQRES 7 C 434 GLN LEU ALA GLU ASN SER SER PHE LEU GLU VAL ALA TYR SEQRES 8 C 434 LEU LEU ILE TYR GLY HIS LEU PRO THR GLU ALA GLU LEU SEQRES 9 C 434 LYS ASP PHE SER GLY HIS ILE THR LYS HIS THR LEU VAL SEQRES 10 C 434 HIS GLU ASP ILE ARG LYS ILE PHE ASP GLY PHE PRO SER SEQRES 11 C 434 SER THR HIS PRO MET ALA ILE LEU SER SER LEU THR CYS SEQRES 12 C 434 ALA LEU THR GLY PHE TYR PRO GLU SER ILE SER PRO ASN SEQRES 13 C 434 GLN THR PRO GLU ALA ILE ASP LEU THR ILE VAL ARG LEU SEQRES 14 C 434 MET ALA LYS MET SER THR ILE ALA ALA TRP THR TYR LYS SEQRES 15 C 434 ASN SER VAL GLY HIS PRO LEU ASN TYR PRO ARG ASN ASP SEQRES 16 C 434 LEU ASP TYR CYS ALA ASN PHE LEU TYR MET MET PHE SER SEQRES 17 C 434 PHE PRO THR GLU LYS TYR GLU ILE ASN PRO VAL ILE VAL SEQRES 18 C 434 SER ALA LEU ASN LYS LEU LEU ILE LEU HIS ALA ASP HIS SEQRES 19 C 434 GLU GLN ASN CYS SER THR SER THR VAL ARG LEU VAL GLY SEQRES 20 C 434 SER ALA ASN ALA SER LEU TYR GLY SER VAL SER ALA GLY SEQRES 21 C 434 ILE ASN ALA LEU TRP GLY PRO LEU HIS GLY GLY ALA ASN SEQRES 22 C 434 GLN GLU VAL ILE GLU MET LEU GLU ALA ILE GLU LYS ASP SEQRES 23 C 434 GLY GLY ASP THR SER LYS PHE ILE ALA GLN ALA LYS ASP SEQRES 24 C 434 LYS ASN SER GLY PHE ARG LEU MET GLY PHE GLY HIS ARG SEQRES 25 C 434 VAL TYR LYS ASN PHE ASP PRO ARG ALA LYS ILE ILE LYS SEQRES 26 C 434 VAL ALA ALA ASP GLU VAL LEU GLN ALA LEU GLY MET GLN SEQRES 27 C 434 ASN SER PRO LEU LEU LYS ILE ALA THR GLU LEU GLU GLN SEQRES 28 C 434 ALA ALA LEU THR ASP GLN TYR PHE ILE ASP ARG LYS LEU SEQRES 29 C 434 TYR PRO ASN VAL ASP PHE TYR SER GLY ILE ILE TYR LYS SEQRES 30 C 434 ALA LEU GLY ILE PRO THR GLU MET PHE THR VAL MET PHE SEQRES 31 C 434 ALA LEU GLY ARG LEU PRO GLY TRP ILE ALA GLN TRP LYS SEQRES 32 C 434 GLU MET ARG GLU ASN LYS GLU PRO ILE GLY ARG PRO ARG SEQRES 33 C 434 GLN ILE TYR VAL GLY GLU THR GLU ARG ASN TYR VAL PRO SEQRES 34 C 434 MET THR GLU ARG LYS HET CIT A 501 13 HET CIT B 501 13 HET CIT C 501 13 HETNAM CIT CITRIC ACID FORMUL 4 CIT 3(C6 H8 O7) FORMUL 7 HOH *394(H2 O) HELIX 1 AA1 LYS A 33 GLY A 39 1 7 HELIX 2 AA2 SER A 45 LYS A 48 5 4 HELIX 3 AA3 ILE A 74 SER A 81 1 8 HELIX 4 AA4 SER A 82 GLY A 93 1 12 HELIX 5 AA5 THR A 97 HIS A 111 1 15 HELIX 6 AA6 HIS A 115 GLY A 124 1 10 HELIX 7 AA7 HIS A 130 TYR A 146 1 17 HELIX 8 AA8 PRO A 147 SER A 151 5 5 HELIX 9 AA9 THR A 155 GLY A 183 1 29 HELIX 10 AB1 ASP A 194 SER A 205 1 12 HELIX 11 AB2 ASN A 214 ALA A 229 1 16 HELIX 12 AB3 ASN A 234 ALA A 246 1 13 HELIX 13 AB4 SER A 249 GLY A 263 1 15 HELIX 14 AB5 GLY A 268 GLY A 284 1 17 HELIX 15 AB6 ASP A 286 ASP A 296 1 11 HELIX 16 AB7 ASP A 315 LEU A 332 1 18 HELIX 17 AB8 SER A 337 ASP A 353 1 17 HELIX 18 AB9 ASP A 353 ARG A 359 1 7 HELIX 19 AC1 VAL A 365 LEU A 376 1 12 HELIX 20 AC2 PRO A 379 GLU A 381 5 3 HELIX 21 AC3 MET A 382 ASN A 405 1 24 HELIX 22 AC4 PRO A 426 ARG A 430 5 5 HELIX 23 AC5 LYS B 33 GLY B 39 1 7 HELIX 24 AC6 ASP B 44 LYS B 48 5 5 HELIX 25 AC7 ILE B 74 SER B 81 1 8 HELIX 26 AC8 SER B 82 GLY B 93 1 12 HELIX 27 AC9 THR B 97 HIS B 111 1 15 HELIX 28 AD1 HIS B 115 ASP B 123 1 9 HELIX 29 AD2 HIS B 130 TYR B 146 1 17 HELIX 30 AD3 PRO B 147 SER B 151 5 5 HELIX 31 AD4 THR B 155 GLY B 183 1 29 HELIX 32 AD5 ASP B 194 SER B 205 1 12 HELIX 33 AD6 ASN B 214 ALA B 229 1 16 HELIX 34 AD7 ASN B 234 ALA B 246 1 13 HELIX 35 AD8 SER B 249 GLY B 263 1 15 HELIX 36 AD9 GLY B 268 ASP B 283 1 16 HELIX 37 AE1 SER B 288 ALA B 294 1 7 HELIX 38 AE2 ASP B 315 LEU B 332 1 18 HELIX 39 AE3 SER B 337 LEU B 351 1 15 HELIX 40 AE4 ASP B 353 ARG B 359 1 7 HELIX 41 AE5 ASN B 364 PHE B 367 5 4 HELIX 42 AE6 TYR B 368 LEU B 376 1 9 HELIX 43 AE7 PRO B 379 GLU B 381 5 3 HELIX 44 AE8 MET B 382 ASN B 405 1 24 HELIX 45 AE9 PRO B 426 ARG B 430 5 5 HELIX 46 AF1 LYS C 33 GLY C 39 1 7 HELIX 47 AF2 ILE C 74 SER C 81 1 8 HELIX 48 AF3 SER C 82 GLY C 93 1 12 HELIX 49 AF4 THR C 97 THR C 112 1 16 HELIX 50 AF5 HIS C 115 GLY C 124 1 10 HELIX 51 AF6 HIS C 130 TYR C 146 1 17 HELIX 52 AF7 PRO C 147 SER C 151 5 5 HELIX 53 AF8 THR C 155 GLY C 183 1 29 HELIX 54 AF9 ASP C 194 SER C 205 1 12 HELIX 55 AG1 ASN C 214 ALA C 229 1 16 HELIX 56 AG2 ASN C 234 ALA C 246 1 13 HELIX 57 AG3 SER C 249 GLY C 263 1 15 HELIX 58 AG4 GLN C 271 ASP C 283 1 13 HELIX 59 AG5 ASP C 286 ALA C 294 1 9 HELIX 60 AG6 PHE C 301 GLY C 305 5 5 HELIX 61 AG7 ARG C 317 LEU C 332 1 16 HELIX 62 AG8 SER C 337 LEU C 351 1 15 HELIX 63 AG9 ASP C 353 ARG C 359 1 7 HELIX 64 AH1 ASN C 364 LEU C 376 1 13 HELIX 65 AH2 PRO C 379 GLU C 381 5 3 HELIX 66 AH3 MET C 382 ASN C 405 1 24 SHEET 1 AA112 ARG A 413 TYR A 416 0 SHEET 2 AA112 THR C 50 SER C 55 1 O THR C 50 N ARG A 413 SHEET 3 AA112 TYR A 40 LEU A 43 1 N THR A 42 O GLY C 51 SHEET 4 AA112 LYS C 27 ASP C 30 1 O PHE C 29 N LEU A 43 SHEET 5 AA112 GLN C 13 GLU C 21 -1 N PHE C 20 O ALA C 28 SHEET 6 AA112 THR C 4 LEU C 9 -1 N ALA C 5 O LEU C 17 SHEET 7 AA112 THR A 4 ASN A 8 -1 N ASN A 8 O GLU C 6 SHEET 8 AA112 SER A 14 GLU A 21 -1 O ILE A 15 N LEU A 7 SHEET 9 AA112 LYS A 27 ASP A 30 -1 O ALA A 28 N PHE A 20 SHEET 10 AA112 TYR C 40 LEU C 43 1 O LEU C 43 N PHE A 29 SHEET 11 AA112 THR A 50 SER A 55 1 N GLY A 51 O THR C 42 SHEET 12 AA112 ARG C 413 TYR C 416 1 O ARG C 413 N THR A 50 SHEET 1 AA2 3 THR A 58 ASP A 61 0 SHEET 2 AA2 3 ILE A 66 TYR A 69 -1 O ILE A 66 N ASP A 61 SHEET 3 AA2 3 TYR A 72 PRO A 73 -1 O TYR A 72 N TYR A 69 SHEET 1 AA3 3 THR B 4 ASN B 8 0 SHEET 2 AA3 3 SER B 14 GLU B 21 -1 O ILE B 15 N LEU B 7 SHEET 3 AA3 3 LYS B 27 PHE B 29 -1 O ALA B 28 N PHE B 20 SHEET 1 AA4 3 THR B 58 ASP B 61 0 SHEET 2 AA4 3 ILE B 66 TYR B 69 -1 O ILE B 66 N ASP B 61 SHEET 3 AA4 3 TYR B 72 PRO B 73 -1 O TYR B 72 N TYR B 69 SHEET 1 AA5 3 THR C 58 ASP C 61 0 SHEET 2 AA5 3 ILE C 66 TYR C 69 -1 O ARG C 68 N PHE C 59 SHEET 3 AA5 3 TYR C 72 PRO C 73 -1 O TYR C 72 N TYR C 69 LINK ND1 HIS B 266 O4 CIT B 501 1555 1555 1.46 CRYST1 134.339 166.168 135.335 90.00 90.00 90.00 C 2 2 21 24 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 0.007444 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006018 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007389 0.00000