HEADER UNKNOWN FUNCTION 15-APR-23 8J2Y TITLE ACIDIMICROBIACEAE BACTERIUM PHOTOCOBILINS PROTEIN, DARK STATE CAVEAT 8J2Y B12 A 401 HAS WRONG CHIRALITY AT ATOM C19 B12 B 401 HAS CAVEAT 2 8J2Y WRONG CHIRALITY AT ATOM C19 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GGDEF DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACIDIMICROBIACEAE BACTERIUM; SOURCE 3 ORGANISM_TAXID: 2024894; SOURCE 4 GENE: DCS55_04760; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS COBALAMIN BINDING, BILIVERDIN BINDING, B12-DEPENDENT PHOTORECEPTOR KEYWDS 2 PROTEIN, PHOTOCOBILINS, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR S.ZHANG,H.PODDAR,W.C.LEVY,D.LEYS REVDAT 1 10-APR-24 8J2Y 0 JRNL AUTH S.ZHANG,L.N.JEFFREYS,H.PODDAR,Y.YU,C.LIU,K.PATEL, JRNL AUTH 2 L.O.JOHANNISSEN,L.ZHU,M.J.CLIFF,C.YAN,G.SCHIRO,M.WEIK, JRNL AUTH 3 M.SAKUMA,C.W.LEVY,D.LEYS,D.J.HEYES,N.S.SCRUTTON JRNL TITL PHOTOCOBILINS INTEGRATE B12 AND BILIN PHOTOCHEMISTRY FOR JRNL TITL 2 ENZYME CONTROL. JRNL REF NAT COMMUN V. 15 2740 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 38548733 JRNL DOI 10.1038/S41467-024-46995-1 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 36286 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1996 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2612 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 161 REMARK 3 BIN FREE R VALUE : 0.3140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4874 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 231 REMARK 3 SOLVENT ATOMS : 128 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.19000 REMARK 3 B22 (A**2) : -2.59000 REMARK 3 B33 (A**2) : 2.40000 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): 0.288 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.211 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.231 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 20.306 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5251 ; 0.014 ; 0.016 REMARK 3 BOND LENGTHS OTHERS (A): 4811 ; 0.003 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7233 ; 1.768 ; 1.841 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11107 ; 0.535 ; 1.606 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 709 ; 7.819 ; 5.360 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 729 ;15.656 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 834 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6179 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1063 ; 0.002 ; 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): 2625 ; 1.636 ; 1.857 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2623 ; 1.624 ; 1.855 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3272 ; 2.685 ; 2.769 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3273 ; 2.685 ; 2.770 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2626 ; 1.711 ; 1.964 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2626 ; 1.691 ; 1.964 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3957 ; 2.708 ; 2.885 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5877 ; 6.267 ;24.286 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5857 ; 6.269 ;24.175 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 403 REMARK 3 ORIGIN FOR THE GROUP (A): -23.9710 -33.2910 8.6530 REMARK 3 T TENSOR REMARK 3 T11: 0.2918 T22: 0.5695 REMARK 3 T33: 0.0254 T12: -0.0104 REMARK 3 T13: -0.0497 T23: -0.0309 REMARK 3 L TENSOR REMARK 3 L11: 3.1792 L22: 2.2111 REMARK 3 L33: 3.2250 L12: 1.1620 REMARK 3 L13: 0.4315 L23: 0.1740 REMARK 3 S TENSOR REMARK 3 S11: -0.1633 S12: 0.3365 S13: 0.1342 REMARK 3 S21: -0.2691 S22: 0.0010 S23: 0.1853 REMARK 3 S31: -0.1870 S32: -0.1934 S33: 0.1623 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 402 REMARK 3 ORIGIN FOR THE GROUP (A): -22.0450 -22.8820 31.8550 REMARK 3 T TENSOR REMARK 3 T11: 0.3390 T22: 0.6838 REMARK 3 T33: 0.0410 T12: 0.0288 REMARK 3 T13: -0.0231 T23: -0.0254 REMARK 3 L TENSOR REMARK 3 L11: 2.3177 L22: 2.0187 REMARK 3 L33: 2.3021 L12: 0.2601 REMARK 3 L13: -0.1584 L23: 0.7293 REMARK 3 S TENSOR REMARK 3 S11: 0.0653 S12: -0.0774 S13: 0.2874 REMARK 3 S21: 0.1305 S22: -0.1430 S23: 0.0642 REMARK 3 S31: -0.2957 S32: -0.3997 S33: 0.0777 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.10 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 8J2Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 19-APR-23. REMARK 100 THE DEPOSITION ID IS D_1300037066. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-21 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 : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38287 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 44.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 13.70 REMARK 200 R MERGE (I) : 0.17660 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.9500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 13.30 REMARK 200 R MERGE FOR SHELL (I) : 0.94390 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.940 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% PEG 20,000, 8% PEG 550 MME, 0.1M REMARK 280 SODIUM ACETATE PH5.5, 0.2M POTASSIUM THIOCYANATE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 62.31500 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 62.31500 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 54.38650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 62.91800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 54.38650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 62.91800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 62.31500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 54.38650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 62.91800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 62.31500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 54.38650 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 62.91800 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 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 B 539 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 546 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 SER A 247 REMARK 465 SER A 248 REMARK 465 LEU A 252 REMARK 465 ASP A 253 REMARK 465 SER A 333 REMARK 465 SER A 334 REMARK 465 GLN A 335 REMARK 465 PRO A 336 REMARK 465 VAL A 337 REMARK 465 GLU A 338 REMARK 465 VAL A 339 REMARK 465 ALA A 340 REMARK 465 ASP A 341 REMARK 465 GLY A 342 REMARK 465 ASP A 343 REMARK 465 GLY A 344 REMARK 465 LEU A 345 REMARK 465 GLU A 346 REMARK 465 HIS A 347 REMARK 465 HIS A 348 REMARK 465 HIS A 349 REMARK 465 HIS A 350 REMARK 465 HIS A 351 REMARK 465 HIS A 352 REMARK 465 MET B 1 REMARK 465 SER B 247 REMARK 465 SER B 248 REMARK 465 ASP B 253 REMARK 465 TRP B 332 REMARK 465 SER B 333 REMARK 465 SER B 334 REMARK 465 GLN B 335 REMARK 465 PRO B 336 REMARK 465 VAL B 337 REMARK 465 GLU B 338 REMARK 465 VAL B 339 REMARK 465 ALA B 340 REMARK 465 ASP B 341 REMARK 465 GLY B 342 REMARK 465 ASP B 343 REMARK 465 GLY B 344 REMARK 465 LEU B 345 REMARK 465 GLU B 346 REMARK 465 HIS B 347 REMARK 465 HIS B 348 REMARK 465 HIS B 349 REMARK 465 HIS B 350 REMARK 465 HIS B 351 REMARK 465 HIS B 352 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 O HOH B 544 O HOH B 551 2.06 REMARK 500 OD1 ASP A 78 NH1 ARG B 20 2.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 200 CB GLU B 200 CG 0.119 REMARK 500 GLU B 200 CG GLU B 200 CD 0.140 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 LEU A 44 -65.89 -106.65 REMARK 500 SER A 127 120.51 -13.44 REMARK 500 LEU A 244 -31.22 86.83 REMARK 500 PRO A 250 88.23 -68.38 REMARK 500 LEU B 44 -66.74 -104.03 REMARK 500 SER B 127 119.06 -12.11 REMARK 500 LEU B 244 -32.60 87.02 REMARK 500 ASP B 329 32.53 -80.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 20 0.11 SIDE CHAIN REMARK 500 ARG A 21 0.12 SIDE CHAIN REMARK 500 ARG A 58 0.09 SIDE CHAIN REMARK 500 ARG A 89 0.08 SIDE CHAIN REMARK 500 ARG A 177 0.11 SIDE CHAIN REMARK 500 ARG A 211 0.10 SIDE CHAIN REMARK 500 ARG A 212 0.23 SIDE CHAIN REMARK 500 ARG A 263 0.12 SIDE CHAIN REMARK 500 ARG A 326 0.13 SIDE CHAIN REMARK 500 ARG B 55 0.08 SIDE CHAIN REMARK 500 ARG B 115 0.15 SIDE CHAIN REMARK 500 ARG B 211 0.09 SIDE CHAIN REMARK 500 ARG B 212 0.23 SIDE CHAIN REMARK 500 ARG B 277 0.10 SIDE CHAIN REMARK 500 ARG B 297 0.13 SIDE CHAIN REMARK 500 ARG B 326 0.12 SIDE CHAIN 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 B12 B 401 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 103 NE2 REMARK 620 2 B12 B 401 N21 95.6 REMARK 620 3 B12 B 401 N22 76.8 87.1 REMARK 620 4 B12 B 401 N23 83.6 176.3 96.2 REMARK 620 5 B12 B 401 N24 113.2 82.9 166.5 94.1 REMARK 620 N 1 2 3 4 DBREF1 8J2Y A 2 344 UNP A0A349B205_9ACTN DBREF2 8J2Y A A0A349B205 266 608 DBREF1 8J2Y B 2 344 UNP A0A349B205_9ACTN DBREF2 8J2Y B A0A349B205 266 608 SEQADV 8J2Y MET A 1 UNP A0A349B20 INITIATING METHIONINE SEQADV 8J2Y LEU A 345 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y GLU A 346 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS A 347 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS A 348 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS A 349 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS A 350 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS A 351 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS A 352 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y MET B 1 UNP A0A349B20 INITIATING METHIONINE SEQADV 8J2Y LEU B 345 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y GLU B 346 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS B 347 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS B 348 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS B 349 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS B 350 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS B 351 UNP A0A349B20 EXPRESSION TAG SEQADV 8J2Y HIS B 352 UNP A0A349B20 EXPRESSION TAG SEQRES 1 A 352 MET GLU ALA PRO ALA SER TYR VAL GLU PRO TYR LEU GLY SEQRES 2 A 352 ASP ALA ILE VAL GLY ASN ARG ARG PRO ALA VAL ARG LEU SEQRES 3 A 352 THR LEU ASP LEU LEU ASP HIS ARG VAL PRO GLU ALA ASP SEQRES 4 A 352 ILE VAL GLU ASP LEU LEU ALA ALA ALA GLN ARG GLU VAL SEQRES 5 A 352 GLY GLU ARG TRP TYR ARG ASN GLU LEU SER PRO ALA ASP SEQRES 6 A 352 GLU HIS LEU ALA SER GLY VAL ALA GLY ALA ALA LEU ASP SEQRES 7 A 352 ALA LEU ALA ALA GLU LEU PRO PRO PRO THR ARG ASP GLY SEQRES 8 A 352 LEU VAL VAL VAL ALA CYS ALA GLU GLY ASP TRP HIS SER SEQRES 9 A 352 LEU SER ALA GLN MET PHE GLY GLU THR LEU ARG ALA SER SEQRES 10 A 352 GLY PHE ASP VAL SER VAL LEU GLY ALA SER THR PRO ARG SEQRES 11 A 352 THR ALA VAL VAL ASP PHE LEU THR ARG ALA GLY GLY ASP SEQRES 12 A 352 SER LEU ALA VAL SER CYS ASN MET PRO ILE PHE PHE PRO SEQRES 13 A 352 GLY VAL ALA GLN LEU ILE ASN ALA ALA HIS GLU ILE GLY SEQRES 14 A 352 VAL PRO VAL ILE VAL GLY GLY ARG ALA PHE GLY ASP ASP SEQRES 15 A 352 ASP ARG ARG ALA ALA ARG LEU GLY ALA ASP ALA TRP ALA SEQRES 16 A 352 ALA GLY ALA SER GLU ALA ALA GLU ILE LEU ALA GLY TRP SEQRES 17 A 352 HIS ALA ARG ARG PRO GLU VAL GLY SER GLU PRO ALA PRO SEQRES 18 A 352 LEU ASP GLY ALA ALA LEU ARG LEU PHE ALA ALA SER SER SEQRES 19 A 352 THR LEU ALA THR ALA THR VAL ASP GLU LEU THR ALA SER SEQRES 20 A 352 SER SER PRO ILE LEU ASP LEU ASP ALA ASP GLN VAL ASP SEQRES 21 A 352 GLN LEU ARG GLU HIS LEU VAL PHE ALA VAL GLN PHE LEU SEQRES 22 A 352 ALA ALA ALA ARG LEU VAL ASP ASP ASP SER ILE PHE GLU SEQRES 23 A 352 ASP PHE LEU VAL TRP ILE ASP GLU LEU LEU ARG THR ARG SEQRES 24 A 352 ASP VAL PRO ARG GLU VAL LEU ALA ALA GLY LEU GLU GLY SEQRES 25 A 352 LEU ARG ALA LYS VAL ILE ALA VAL ASP PRO GLY ALA THR SEQRES 26 A 352 ARG LEU LEU ASP ALA ALA TRP SER SER GLN PRO VAL GLU SEQRES 27 A 352 VAL ALA ASP GLY ASP GLY LEU GLU HIS HIS HIS HIS HIS SEQRES 28 A 352 HIS SEQRES 1 B 352 MET GLU ALA PRO ALA SER TYR VAL GLU PRO TYR LEU GLY SEQRES 2 B 352 ASP ALA ILE VAL GLY ASN ARG ARG PRO ALA VAL ARG LEU SEQRES 3 B 352 THR LEU ASP LEU LEU ASP HIS ARG VAL PRO GLU ALA ASP SEQRES 4 B 352 ILE VAL GLU ASP LEU LEU ALA ALA ALA GLN ARG GLU VAL SEQRES 5 B 352 GLY GLU ARG TRP TYR ARG ASN GLU LEU SER PRO ALA ASP SEQRES 6 B 352 GLU HIS LEU ALA SER GLY VAL ALA GLY ALA ALA LEU ASP SEQRES 7 B 352 ALA LEU ALA ALA GLU LEU PRO PRO PRO THR ARG ASP GLY SEQRES 8 B 352 LEU VAL VAL VAL ALA CYS ALA GLU GLY ASP TRP HIS SER SEQRES 9 B 352 LEU SER ALA GLN MET PHE GLY GLU THR LEU ARG ALA SER SEQRES 10 B 352 GLY PHE ASP VAL SER VAL LEU GLY ALA SER THR PRO ARG SEQRES 11 B 352 THR ALA VAL VAL ASP PHE LEU THR ARG ALA GLY GLY ASP SEQRES 12 B 352 SER LEU ALA VAL SER CYS ASN MET PRO ILE PHE PHE PRO SEQRES 13 B 352 GLY VAL ALA GLN LEU ILE ASN ALA ALA HIS GLU ILE GLY SEQRES 14 B 352 VAL PRO VAL ILE VAL GLY GLY ARG ALA PHE GLY ASP ASP SEQRES 15 B 352 ASP ARG ARG ALA ALA ARG LEU GLY ALA ASP ALA TRP ALA SEQRES 16 B 352 ALA GLY ALA SER GLU ALA ALA GLU ILE LEU ALA GLY TRP SEQRES 17 B 352 HIS ALA ARG ARG PRO GLU VAL GLY SER GLU PRO ALA PRO SEQRES 18 B 352 LEU ASP GLY ALA ALA LEU ARG LEU PHE ALA ALA SER SER SEQRES 19 B 352 THR LEU ALA THR ALA THR VAL ASP GLU LEU THR ALA SER SEQRES 20 B 352 SER SER PRO ILE LEU ASP LEU ASP ALA ASP GLN VAL ASP SEQRES 21 B 352 GLN LEU ARG GLU HIS LEU VAL PHE ALA VAL GLN PHE LEU SEQRES 22 B 352 ALA ALA ALA ARG LEU VAL ASP ASP ASP SER ILE PHE GLU SEQRES 23 B 352 ASP PHE LEU VAL TRP ILE ASP GLU LEU LEU ARG THR ARG SEQRES 24 B 352 ASP VAL PRO ARG GLU VAL LEU ALA ALA GLY LEU GLU GLY SEQRES 25 B 352 LEU ARG ALA LYS VAL ILE ALA VAL ASP PRO GLY ALA THR SEQRES 26 B 352 ARG LEU LEU ASP ALA ALA TRP SER SER GLN PRO VAL GLU SEQRES 27 B 352 VAL ALA ASP GLY ASP GLY LEU GLU HIS HIS HIS HIS HIS SEQRES 28 B 352 HIS HET B12 A 401 91 HET 5AD A 402 18 HET PEG A 403 7 HET SCN A 404 3 HET SCN A 405 3 HET B12 B 401 91 HET 5AD B 402 18 HETNAM B12 COBALAMIN HETNAM 5AD 5'-DEOXYADENOSINE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM SCN THIOCYANATE ION FORMUL 3 B12 2(C62 H89 CO N13 O14 P 2+) FORMUL 4 5AD 2(C10 H13 N5 O3) FORMUL 5 PEG C4 H10 O3 FORMUL 6 SCN 2(C N S 1-) FORMUL 10 HOH *128(H2 O) HELIX 1 AA1 ALA A 3 SER A 6 5 4 HELIX 2 AA2 TYR A 7 ILE A 16 1 10 HELIX 3 AA3 ASN A 19 HIS A 33 1 15 HELIX 4 AA4 PRO A 36 LEU A 44 1 9 HELIX 5 AA5 LEU A 44 ARG A 58 1 15 HELIX 6 AA6 SER A 62 ALA A 82 1 21 HELIX 7 AA7 HIS A 103 ALA A 116 1 14 HELIX 8 AA8 PRO A 129 GLY A 141 1 13 HELIX 9 AA9 MET A 151 ILE A 153 5 3 HELIX 10 AB1 PHE A 154 GLU A 167 1 14 HELIX 11 AB2 GLY A 176 GLY A 180 5 5 HELIX 12 AB3 ASP A 183 LEU A 189 1 7 HELIX 13 AB4 GLY A 197 ARG A 211 1 15 HELIX 14 AB5 ASP A 223 ALA A 232 1 10 HELIX 15 AB6 ALA A 232 GLU A 243 1 12 HELIX 16 AB7 ASP A 255 VAL A 279 1 25 HELIX 17 AB8 ASP A 282 THR A 298 1 17 HELIX 18 AB9 ARG A 303 ASP A 321 1 19 HELIX 19 AC1 ALA A 324 ALA A 331 1 8 HELIX 20 AC2 ALA B 3 SER B 6 5 4 HELIX 21 AC3 TYR B 7 ILE B 16 1 10 HELIX 22 AC4 ASN B 19 HIS B 33 1 15 HELIX 23 AC5 PRO B 36 LEU B 44 1 9 HELIX 24 AC6 LEU B 44 ARG B 58 1 15 HELIX 25 AC7 SER B 62 ALA B 82 1 21 HELIX 26 AC8 HIS B 103 SER B 117 1 15 HELIX 27 AC9 PRO B 129 GLY B 141 1 13 HELIX 28 AD1 MET B 151 ILE B 153 5 3 HELIX 29 AD2 PHE B 154 GLU B 167 1 14 HELIX 30 AD3 GLY B 176 GLY B 180 5 5 HELIX 31 AD4 ASP B 183 LEU B 189 1 7 HELIX 32 AD5 GLY B 197 ARG B 211 1 15 HELIX 33 AD6 ASP B 223 ALA B 232 1 10 HELIX 34 AD7 ALA B 232 GLU B 243 1 12 HELIX 35 AD8 ASP B 255 VAL B 279 1 25 HELIX 36 AD9 ASP B 282 THR B 298 1 17 HELIX 37 AE1 ARG B 303 ASP B 321 1 19 HELIX 38 AE2 ALA B 324 ASP B 329 1 6 SHEET 1 AA1 5 ASP A 120 GLY A 125 0 SHEET 2 AA1 5 LEU A 92 CYS A 97 1 N CYS A 97 O GLY A 125 SHEET 3 AA1 5 SER A 144 SER A 148 1 O ALA A 146 N VAL A 94 SHEET 4 AA1 5 VAL A 172 GLY A 175 1 O ILE A 173 N VAL A 147 SHEET 5 AA1 5 ALA A 193 TRP A 194 1 O ALA A 193 N VAL A 174 SHEET 1 AA2 5 ASP B 120 GLY B 125 0 SHEET 2 AA2 5 LEU B 92 CYS B 97 1 N CYS B 97 O GLY B 125 SHEET 3 AA2 5 SER B 144 SER B 148 1 O SER B 148 N ALA B 96 SHEET 4 AA2 5 VAL B 172 GLY B 175 1 O ILE B 173 N VAL B 147 SHEET 5 AA2 5 ALA B 193 TRP B 194 1 O ALA B 193 N VAL B 174 LINK NE2 HIS B 103 CO B12 B 401 1555 1555 2.31 CRYST1 108.773 125.836 124.630 90.00 90.00 90.00 C 2 2 21 16 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 0.009193 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007947 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008024 0.00000