HEADER SIGNALING PROTEIN 29-JUL-20 6ZXB TITLE DIGUANYLATE CYCLASE DGCR (I-SITE MUTANT) IN NATIVE STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE GGDEF/RESPONSE REGULATOR RECEIVER DOMAIN PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEPTOSPIRA BIFLEXA SEROVAR PATOC STRAIN 'PATOC SOURCE 3 1 (PARIS)'; SOURCE 4 ORGANISM_TAXID: 456481; SOURCE 5 GENE: LEPBI_P0053; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GGDEF DOMAIN, RECEIVER DOMAIN, REC, C-DI-GMP, LEPTOSPIRA, SIGNALING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.D.TEIXEIRA,T.SCHIRMER REVDAT 3 31-JAN-24 6ZXB 1 REMARK REVDAT 2 28-JUL-21 6ZXB 1 JRNL REVDAT 1 31-MAR-21 6ZXB 0 JRNL AUTH R.D.TEIXEIRA,F.HOLZSCHUH,T.SCHIRMER JRNL TITL ACTIVATION MECHANISM OF A SMALL PROTOTYPIC REC-GGDEF JRNL TITL 2 DIGUANYLATE CYCLASE. JRNL REF NAT COMMUN V. 12 2162 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 33846343 JRNL DOI 10.1038/S41467-021-22492-7 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) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 35759 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) : 0.228 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1797 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2557 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.3240 REMARK 3 BIN FREE R VALUE SET COUNT : 138 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4672 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 101 REMARK 3 SOLVENT ATOMS : 49 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.59 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.55000 REMARK 3 B22 (A**2) : -3.10000 REMARK 3 B33 (A**2) : 1.50000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.43000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.276 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.214 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.217 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.693 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4858 ; 0.012 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4660 ; 0.003 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6526 ; 1.661 ; 1.635 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10740 ; 1.271 ; 1.583 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 584 ; 6.923 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 258 ;35.451 ;22.326 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 910 ;18.014 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;19.992 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 660 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5318 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1058 ; 0.006 ; 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 6 298 B 6 298 8909 0.120 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 129 REMARK 3 RESIDUE RANGE : A 401 A 401 REMARK 3 ORIGIN FOR THE GROUP (A): 15.7790 -5.1190 9.9370 REMARK 3 T TENSOR REMARK 3 T11: 0.3041 T22: 0.7903 REMARK 3 T33: 0.1731 T12: 0.0417 REMARK 3 T13: -0.0585 T23: -0.0061 REMARK 3 L TENSOR REMARK 3 L11: 5.6538 L22: 1.7376 REMARK 3 L33: 7.5245 L12: -0.6267 REMARK 3 L13: 0.1794 L23: 1.2378 REMARK 3 S TENSOR REMARK 3 S11: -0.1151 S12: 0.1174 S13: -0.7055 REMARK 3 S21: -0.3709 S22: -0.2023 S23: 0.2063 REMARK 3 S31: 0.0777 S32: 0.5476 S33: 0.3174 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 130 A 301 REMARK 3 RESIDUE RANGE : A 402 A 403 REMARK 3 ORIGIN FOR THE GROUP (A): 29.9400 -3.6660 51.5820 REMARK 3 T TENSOR REMARK 3 T11: 0.0201 T22: 0.6496 REMARK 3 T33: 0.2543 T12: 0.0334 REMARK 3 T13: 0.0113 T23: 0.0139 REMARK 3 L TENSOR REMARK 3 L11: 2.8449 L22: 1.4911 REMARK 3 L33: 1.5581 L12: -0.6975 REMARK 3 L13: -0.5576 L23: 0.9247 REMARK 3 S TENSOR REMARK 3 S11: 0.1665 S12: 0.1435 S13: -0.1031 REMARK 3 S21: 0.0221 S22: -0.1699 S23: -0.0628 REMARK 3 S31: 0.0772 S32: 0.0621 S33: 0.0034 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 6 B 129 REMARK 3 RESIDUE RANGE : B 401 B 401 REMARK 3 ORIGIN FOR THE GROUP (A): -5.3700 6.4260 17.4690 REMARK 3 T TENSOR REMARK 3 T11: 0.2085 T22: 1.0477 REMARK 3 T33: 0.1943 T12: 0.0474 REMARK 3 T13: 0.0261 T23: -0.1445 REMARK 3 L TENSOR REMARK 3 L11: 8.9164 L22: 1.0394 REMARK 3 L33: 6.5357 L12: 0.0045 REMARK 3 L13: 1.7083 L23: 0.1590 REMARK 3 S TENSOR REMARK 3 S11: 0.5854 S12: -0.3486 S13: 1.0798 REMARK 3 S21: -0.0705 S22: -0.5285 S23: 0.1467 REMARK 3 S31: -0.0854 S32: -0.4145 S33: -0.0568 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 130 B 301 REMARK 3 RESIDUE RANGE : B 402 B 403 REMARK 3 ORIGIN FOR THE GROUP (A): -2.3940 1.5570 53.0730 REMARK 3 T TENSOR REMARK 3 T11: 0.0198 T22: 0.5910 REMARK 3 T33: 0.3055 T12: 0.0052 REMARK 3 T13: 0.0095 T23: -0.0237 REMARK 3 L TENSOR REMARK 3 L11: 2.7064 L22: 1.7349 REMARK 3 L33: 2.3514 L12: -1.6974 REMARK 3 L13: 0.6876 L23: -0.8404 REMARK 3 S TENSOR REMARK 3 S11: 0.1999 S12: 0.1763 S13: -0.0901 REMARK 3 S21: -0.1032 S22: -0.1286 S23: 0.2643 REMARK 3 S31: 0.1263 S32: -0.0034 S33: -0.0713 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 : WITH TLS ADDED REMARK 4 REMARK 4 6ZXB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-JUL-20. REMARK 100 THE DEPOSITION ID IS D_1292110463. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979389 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38136 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 45.040 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.09907 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 1.32800 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: PHASER REMARK 200 STARTING MODEL: 2V0N REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM SULFATE, 20%PEG 3350, REMARK 280 PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K 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 68.33800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.67200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 68.33800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.67200 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -116.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 SER A 298 CA - C - O ANGL. DEV. = -12.7 DEGREES REMARK 500 ARG B 153 NE - CZ - NH2 ANGL. DEV. = -3.9 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 ASN A 28 43.07 -79.47 REMARK 500 SER A 47 -83.44 -61.60 REMARK 500 ASN A 63 -164.79 -70.35 REMARK 500 LYS A 177 55.89 38.40 REMARK 500 GLU A 217 33.79 -142.63 REMARK 500 ARG A 293 -170.10 60.73 REMARK 500 ASN B 28 42.84 -80.14 REMARK 500 SER B 47 -82.11 -61.26 REMARK 500 PRO B 60 -71.10 -46.36 REMARK 500 ASN B 63 -160.63 -70.88 REMARK 500 GLU B 217 32.95 -143.59 REMARK 500 ARG B 293 -172.51 58.69 REMARK 500 REMARK 500 REMARK: NULL 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 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 12 OE2 REMARK 620 2 ASP A 13 OD1 82.0 REMARK 620 3 ASP A 56 OD2 75.2 88.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 174 OD2 REMARK 620 2 GLU A 217 OE2 83.3 REMARK 620 3 GLU A 218 OE2 88.6 86.2 REMARK 620 4 HOH A 406 O 95.3 83.2 168.1 REMARK 620 5 HOH A 424 O 105.8 170.8 95.6 94.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 174 OD1 REMARK 620 2 ILE A 175 O 80.4 REMARK 620 3 GLU A 217 OE1 90.8 90.3 REMARK 620 4 GLU A 217 OE2 76.5 138.4 56.4 REMARK 620 5 GH3 A 301 O2G 88.6 109.4 160.0 104.2 REMARK 620 6 GH3 A 301 O2B 171.3 106.7 84.2 94.7 93.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 12 OE2 REMARK 620 2 ASP B 13 OD1 82.2 REMARK 620 3 ASP B 56 OD2 75.6 88.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 174 OD2 REMARK 620 2 GLU B 217 OE2 77.8 REMARK 620 3 GLU B 218 OE1 97.8 108.3 REMARK 620 4 GH3 B 301 O1A 142.1 81.9 119.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 174 OD1 REMARK 620 2 ILE B 175 O 77.2 REMARK 620 3 GLU B 217 OE1 89.2 86.0 REMARK 620 4 GH3 B 301 O2G 86.0 93.6 175.2 REMARK 620 5 GH3 B 301 O2B 169.2 92.0 90.1 94.7 REMARK 620 N 1 2 3 4 DBREF 6ZXB A 6 298 UNP B0SUI1 B0SUI1_LEPBP 6 298 DBREF 6ZXB B 6 298 UNP B0SUI1 B0SUI1_LEPBP 6 298 SEQADV 6ZXB ALA A 206 UNP B0SUI1 ARG 206 ENGINEERED MUTATION SEQADV 6ZXB ALA A 209 UNP B0SUI1 ASP 209 ENGINEERED MUTATION SEQADV 6ZXB ALA B 206 UNP B0SUI1 ARG 206 ENGINEERED MUTATION SEQADV 6ZXB ALA B 209 UNP B0SUI1 ASP 209 ENGINEERED MUTATION SEQRES 1 A 293 ARG LYS ILE LEU ILE ILE GLU ASP SER GLU LEU GLN ARG SEQRES 2 A 293 LYS LEU LEU SER ARG TRP VAL SER LYS ASN GLY TYR ILE SEQRES 3 A 293 ALA ILE GLU ALA GLU SER ILE SER VAL ALA ARG GLU LYS SEQRES 4 A 293 ILE ILE SER GLU SER ILE ASP VAL VAL LEU LEU ASP TRP SEQRES 5 A 293 GLU LEU PRO ASP GLY ASN GLY ILE ASP LEU ILE SER ASP SEQRES 6 A 293 ILE LEU SER THR SER PRO VAL GLY TRP LEU PRO ILE ILE SEQRES 7 A 293 MET VAL THR GLY HIS THR GLU PRO GLU TYR PHE LYS ILE SEQRES 8 A 293 ALA ILE GLU ALA GLY ALA THR ASP TYR ILE THR LYS PRO SEQRES 9 A 293 ALA LYS GLU ILE GLU LEU LEU ALA ARG ILE PHE SER ALA SEQRES 10 A 293 LEU ARG ILE LYS ALA LEU HIS ASP GLN LEU ARG GLU THR SEQRES 11 A 293 ALA ILE ARG ASP VAL MET THR GLY LEU TYR ASN ARG ARG SEQRES 12 A 293 TYR MET GLU GLU ARG ILE GLU GLN GLU PHE GLN ARG CYS SEQRES 13 A 293 LYS ARG HIS ASP SER LEU LEU SER MET ALA MET ILE ASP SEQRES 14 A 293 ILE ASP LYS PHE LYS ASN ILE ASN ASP THR TYR GLY HIS SEQRES 15 A 293 GLU ILE GLY ASP GLN VAL ILE LYS GLN LEU ALA HIS GLU SEQRES 16 A 293 LEU LYS THR SER PHE ALA LYS SER ALA ILE ILE SER ARG SEQRES 17 A 293 PHE GLY GLY GLU GLU PHE VAL ILE LEU PHE PRO GLU THR SEQRES 18 A 293 GLY VAL VAL ASP ALA THR ARG ILE LEU ASP ARG VAL ARG SEQRES 19 A 293 GLU ASN VAL SER LYS LEU GLU MET LYS SER ASP THR ASP SEQRES 20 A 293 GLN ILE PHE HIS PHE THR PHE SER GLY GLY VAL ALA GLY SEQRES 21 A 293 GLY ASP LEU SER ASP ILE GLN SER ASN GLN GLU LEU LEU SEQRES 22 A 293 LYS ILE ALA ASP LYS ASN LEU TYR GLU ALA LYS SER SER SEQRES 23 A 293 GLY ARG ASN GLN ILE ILE SER SEQRES 1 B 293 ARG LYS ILE LEU ILE ILE GLU ASP SER GLU LEU GLN ARG SEQRES 2 B 293 LYS LEU LEU SER ARG TRP VAL SER LYS ASN GLY TYR ILE SEQRES 3 B 293 ALA ILE GLU ALA GLU SER ILE SER VAL ALA ARG GLU LYS SEQRES 4 B 293 ILE ILE SER GLU SER ILE ASP VAL VAL LEU LEU ASP TRP SEQRES 5 B 293 GLU LEU PRO ASP GLY ASN GLY ILE ASP LEU ILE SER ASP SEQRES 6 B 293 ILE LEU SER THR SER PRO VAL GLY TRP LEU PRO ILE ILE SEQRES 7 B 293 MET VAL THR GLY HIS THR GLU PRO GLU TYR PHE LYS ILE SEQRES 8 B 293 ALA ILE GLU ALA GLY ALA THR ASP TYR ILE THR LYS PRO SEQRES 9 B 293 ALA LYS GLU ILE GLU LEU LEU ALA ARG ILE PHE SER ALA SEQRES 10 B 293 LEU ARG ILE LYS ALA LEU HIS ASP GLN LEU ARG GLU THR SEQRES 11 B 293 ALA ILE ARG ASP VAL MET THR GLY LEU TYR ASN ARG ARG SEQRES 12 B 293 TYR MET GLU GLU ARG ILE GLU GLN GLU PHE GLN ARG CYS SEQRES 13 B 293 LYS ARG HIS ASP SER LEU LEU SER MET ALA MET ILE ASP SEQRES 14 B 293 ILE ASP LYS PHE LYS ASN ILE ASN ASP THR TYR GLY HIS SEQRES 15 B 293 GLU ILE GLY ASP GLN VAL ILE LYS GLN LEU ALA HIS GLU SEQRES 16 B 293 LEU LYS THR SER PHE ALA LYS SER ALA ILE ILE SER ARG SEQRES 17 B 293 PHE GLY GLY GLU GLU PHE VAL ILE LEU PHE PRO GLU THR SEQRES 18 B 293 GLY VAL VAL ASP ALA THR ARG ILE LEU ASP ARG VAL ARG SEQRES 19 B 293 GLU ASN VAL SER LYS LEU GLU MET LYS SER ASP THR ASP SEQRES 20 B 293 GLN ILE PHE HIS PHE THR PHE SER GLY GLY VAL ALA GLY SEQRES 21 B 293 GLY ASP LEU SER ASP ILE GLN SER ASN GLN GLU LEU LEU SEQRES 22 B 293 LYS ILE ALA ASP LYS ASN LEU TYR GLU ALA LYS SER SER SEQRES 23 B 293 GLY ARG ASN GLN ILE ILE SER HET GH3 A 301 31 HET MG A 302 1 HET MG A 303 1 HET MG A 304 1 HET SO4 A 305 5 HET SO4 A 306 5 HET SO4 A 307 5 HET SO4 A 308 5 HET EDO A 309 4 HET GH3 B 301 31 HET MG B 302 1 HET MG B 303 1 HET MG B 304 1 HET SO4 B 305 5 HET EDO B 306 4 HETNAM GH3 3'-DEOXY-GUANOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 GH3 2(C10 H16 N5 O13 P3) FORMUL 4 MG 6(MG 2+) FORMUL 7 SO4 5(O4 S 2-) FORMUL 11 EDO 2(C2 H6 O2) FORMUL 18 HOH *49(H2 O) HELIX 1 AA1 SER A 14 ASN A 28 1 15 HELIX 2 AA2 SER A 37 GLU A 48 1 12 HELIX 3 AA3 ASN A 63 SER A 75 1 13 HELIX 4 AA4 GLU A 90 GLY A 101 1 12 HELIX 5 AA5 LYS A 111 ALA A 136 1 26 HELIX 6 AA6 ASN A 146 HIS A 164 1 19 HELIX 7 AA7 LYS A 177 GLY A 186 1 10 HELIX 8 AA8 GLY A 186 PHE A 205 1 20 HELIX 9 AA9 GLY A 227 LEU A 245 1 19 HELIX 10 AB1 SER A 273 SER A 291 1 19 HELIX 11 AB2 SER B 14 ASN B 28 1 15 HELIX 12 AB3 SER B 37 GLU B 48 1 12 HELIX 13 AB4 ASN B 63 SER B 75 1 13 HELIX 14 AB5 GLU B 90 GLY B 101 1 12 HELIX 15 AB6 LYS B 111 GLU B 134 1 24 HELIX 16 AB7 ASN B 146 HIS B 164 1 19 HELIX 17 AB8 LYS B 177 GLY B 186 1 10 HELIX 18 AB9 GLY B 186 PHE B 205 1 20 HELIX 19 AC1 GLY B 227 LYS B 244 1 18 HELIX 20 AC2 SER B 273 SER B 291 1 19 SHEET 1 AA1 5 ILE A 31 ALA A 35 0 SHEET 2 AA1 5 LYS A 7 ILE A 11 1 N ILE A 10 O ILE A 33 SHEET 3 AA1 5 VAL A 52 ASP A 56 1 O LEU A 54 N LEU A 9 SHEET 4 AA1 5 ILE A 82 THR A 86 1 O ILE A 83 N VAL A 53 SHEET 5 AA1 5 ASP A 104 THR A 107 1 O ILE A 106 N MET A 84 SHEET 1 AA2 5 ILE A 210 GLY A 215 0 SHEET 2 AA2 5 GLU A 218 PRO A 224 -1 O LEU A 222 N ILE A 210 SHEET 3 AA2 5 LEU A 168 ILE A 175 -1 N SER A 169 O PHE A 223 SHEET 4 AA2 5 PHE A 259 GLY A 266 -1 O ALA A 264 N MET A 170 SHEET 5 AA2 5 ILE A 296 ILE A 297 1 O ILE A 297 N VAL A 263 SHEET 1 AA3 2 MET A 247 LYS A 248 0 SHEET 2 AA3 2 ILE A 254 PHE A 255 -1 O PHE A 255 N MET A 247 SHEET 1 AA4 5 ILE B 31 ALA B 35 0 SHEET 2 AA4 5 LYS B 7 ILE B 11 1 N ILE B 10 O ILE B 33 SHEET 3 AA4 5 VAL B 52 ASP B 56 1 O LEU B 54 N LEU B 9 SHEET 4 AA4 5 ILE B 82 THR B 86 1 O ILE B 83 N VAL B 53 SHEET 5 AA4 5 ASP B 104 THR B 107 1 O ILE B 106 N MET B 84 SHEET 1 AA5 5 ILE B 210 GLY B 215 0 SHEET 2 AA5 5 GLU B 218 PRO B 224 -1 O VAL B 220 N SER B 212 SHEET 3 AA5 5 LEU B 168 ILE B 175 -1 N SER B 169 O PHE B 223 SHEET 4 AA5 5 PHE B 259 GLY B 266 -1 O ALA B 264 N MET B 170 SHEET 5 AA5 5 ILE B 296 ILE B 297 1 O ILE B 297 N VAL B 263 SHEET 1 AA6 2 MET B 247 LYS B 248 0 SHEET 2 AA6 2 ILE B 254 PHE B 255 -1 O PHE B 255 N MET B 247 LINK OE2 GLU A 12 MG MG A 302 1555 1555 2.09 LINK OD1 ASP A 13 MG MG A 302 1555 1555 2.10 LINK OD2 ASP A 56 MG MG A 302 1555 1555 2.09 LINK OD2 ASP A 174 MG MG A 303 1555 1555 2.12 LINK OD1 ASP A 174 MG MG A 304 1555 1555 2.15 LINK O ILE A 175 MG MG A 304 1555 1555 2.07 LINK OE2 GLU A 217 MG MG A 303 1555 1555 2.09 LINK OE1 GLU A 217 MG MG A 304 1555 1555 2.08 LINK OE2 GLU A 217 MG MG A 304 1555 1555 2.58 LINK OE2 GLU A 218 MG MG A 303 1555 1555 2.06 LINK O2G GH3 A 301 MG MG A 304 1555 1555 1.88 LINK O2B GH3 A 301 MG MG A 304 1555 1555 2.00 LINK MG MG A 303 O HOH A 406 1555 1555 2.06 LINK MG MG A 303 O HOH A 424 1555 1555 2.07 LINK OE2 GLU B 12 MG MG B 302 1555 1555 2.09 LINK OD1 ASP B 13 MG MG B 302 1555 1555 2.09 LINK OD2 ASP B 56 MG MG B 302 1555 1555 2.09 LINK OD2 ASP B 174 MG MG B 303 1555 1555 2.15 LINK OD1 ASP B 174 MG MG B 304 1555 1555 2.11 LINK O ILE B 175 MG MG B 304 1555 1555 2.18 LINK OE2 GLU B 217 MG MG B 303 1555 1555 2.09 LINK OE1 GLU B 217 MG MG B 304 1555 1555 2.05 LINK OE1 GLU B 218 MG MG B 303 1555 1555 2.10 LINK O1A GH3 B 301 MG MG B 303 1555 1555 2.96 LINK O2G GH3 B 301 MG MG B 304 1555 1555 1.92 LINK O2B GH3 B 301 MG MG B 304 1555 1555 1.94 CISPEP 1 LYS A 108 PRO A 109 0 -1.10 CISPEP 2 LYS B 108 PRO B 109 0 -1.25 CRYST1 136.676 39.344 146.222 90.00 108.77 90.00 C 1 2 1 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 0.007317 0.000000 0.002487 0.00000 SCALE2 0.000000 0.025417 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007223 0.00000