HEADER OXIDOREDUCTASE 25-SEP-07 2VCL TITLE STRUCTURE OF PHYCOERYTHROBILIN SYNTHASE PEBS FROM THE CYANOPHAGE P- TITLE 2 SSM2 IN THE SUBSTRATE FREE FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYANOBACTERIAL PHYCOERYTHROBILIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PHYCOBILIN REDUCTASE, CYANOPHAGE PHYCOERYTHROBILIN SYNTHASE COMPND 5 PEBS; COMPND 6 EC: 1.3.7.6; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PROCHLOROCOCCUS PHAGE P-SSM2; SOURCE 3 ORGANISM_TAXID: 268746; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-3 KEYWDS CYANOPHAGES, BILIVERDIN IXA, OXIDOREDUCTASE, PHYCOBILIN REDUCTASE, KEYWDS 2 PHYCOBILIN SYNTHESIS, PROCHLOROCOCCUS, PHYCOERYTHROBILIN, BILIVERDIN KEYWDS 3 REDUCTASE, FERREDOXIN DEPENDENT EXPDTA X-RAY DIFFRACTION AUTHOR T.DAMMEYER,E.HOFMANN,N.FRANKENBERG-DINKEL REVDAT 5 08-MAY-19 2VCL 1 REMARK LINK REVDAT 4 28-JUN-17 2VCL 1 REMARK REVDAT 3 24-FEB-09 2VCL 1 VERSN REVDAT 2 14-OCT-08 2VCL 1 JRNL MODRES REVDAT 1 05-AUG-08 2VCL 0 JRNL AUTH T.DAMMEYER,E.HOFMANN,N.FRANKENBERG-DINKEL JRNL TITL PHYCOERYTHROBILIN SYNTHASE (PEBS) OF A MARINE VIRUS: CRYSTAL JRNL TITL 2 STRUCTURES OF THE BILIVERDIN COMPLEX AND THE SUBSTRATE-FREE JRNL TITL 3 FORM. JRNL REF J.BIOL.CHEM. V. 283 27547 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18662988 JRNL DOI 10.1074/JBC.M803765200 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 38986 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2052 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2557 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 134 REMARK 3 BIN FREE R VALUE : 0.2330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1703 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 225 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.86000 REMARK 3 B22 (A**2) : -0.48000 REMARK 3 B33 (A**2) : -0.38000 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): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.069 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.042 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.136 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1798 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2429 ; 1.726 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 212 ; 6.477 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 96 ;34.251 ;24.479 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 304 ;13.268 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;16.464 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 246 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1397 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 797 ; 0.209 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1235 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 201 ; 0.135 ; 0.200 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): 46 ; 0.199 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 17 ; 0.151 ; 0.200 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): 1063 ; 1.433 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1685 ; 1.938 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 841 ; 3.313 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 741 ; 4.338 ; 4.500 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. REMARK 4 REMARK 4 2VCL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1290033970. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9826 REMARK 200 MONOCHROMATOR : SI(111) MONOCHROMATOR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41020 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 38.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.900 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 26.30 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.2 REMARK 200 DATA REDUNDANCY IN SHELL : 14.40 REMARK 200 R MERGE FOR SHELL (I) : 0.64000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL2MAP, ARP/WARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SITTING DROP VAPOUR DIFFUSION REMARK 280 PROTEIN:RESERVOIR 1:1 PROTEIN: 10.5MG/ML PROTEIN, 0.025MM TES/ REMARK 280 KOH PH 8.0 RESERVOIR: 17% PEG4000, 8.5% ISOPROPANOL, 15% REMARK 280 GLYCEROL, 0.085M HEPES PH 8.5, VAPOR DIFFUSION, SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 21.25000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.47000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.23500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.47000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.25000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.23500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 MSE A 1 REMARK 465 THR A 2 REMARK 465 LYS A 3 REMARK 465 ASN A 4 REMARK 465 PRO A 5 REMARK 465 ARG A 6 REMARK 465 ASN A 7 REMARK 465 ASN A 8 REMARK 465 LYS A 9 REMARK 465 PRO A 10 REMARK 465 LYS A 11 REMARK 465 LYS A 12 REMARK 465 ILE A 13 REMARK 465 LEU A 14 REMARK 465 ASP A 15 REMARK 465 SER A 16 REMARK 465 SER A 17 REMARK 465 TYR A 18 REMARK 465 LYS A 19 REMARK 465 SER A 20 REMARK 465 LYS A 21 REMARK 465 VAL A 52 REMARK 465 THR A 53 REMARK 465 LYS A 54 REMARK 465 ASP A 55 REMARK 465 GLY A 56 REMARK 465 ASP A 206 REMARK 465 PRO A 207 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 A 2086 O HOH A 2197 2.18 REMARK 500 OE1 GLU A 204 O HOH A 2200 2.19 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 ASP A 48 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 66 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 MSE A 146 CB - CG - SE ANGL. DEV. = -19.4 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 70 -7.63 82.71 REMARK 500 PHE A 228 -54.89 -126.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1234 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1236 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VCK RELATED DB: PDB REMARK 900 STRUCTURE OF THE PHYCOERYTHROBILIN SYNTHASE PEBS FROM THE REMARK 900 CYANOPHAGE P-SSM2 IN COMPLEX WITH THE BOUND SUBSTRATE BILIVERDIN IXA REMARK 900 RELATED ID: 2VGR RELATED DB: PDB REMARK 900 STRUCTURE OF THE WT-PHYCOERYTHROBILIN SYNTHASE PEBS FROM THE REMARK 900 CYANOPHAGE P-SSM2 IN COMPLEX WITH THE BOUND SUBSTRATE BILIVERDIN IXA DBREF 2VCL A 1 233 UNP Q58MU6 Q58MU6_9CAUD 1 233 SEQRES 1 A 233 MSE THR LYS ASN PRO ARG ASN ASN LYS PRO LYS LYS ILE SEQRES 2 A 233 LEU ASP SER SER TYR LYS SER LYS THR ILE TRP GLN ASN SEQRES 3 A 233 TYR ILE ASP ALA LEU PHE GLU THR PHE PRO GLN LEU GLU SEQRES 4 A 233 ILE SER GLU VAL TRP ALA LYS TRP ASP GLY GLY ASN VAL SEQRES 5 A 233 THR LYS ASP GLY GLY ASP ALA LYS LEU THR ALA ASN ILE SEQRES 6 A 233 ARG THR GLY GLU HIS PHE LEU LYS ALA ARG GLU ALA HIS SEQRES 7 A 233 ILE VAL ASP PRO ASN SER ASP ILE TYR ASN THR ILE LEU SEQRES 8 A 233 TYR PRO LYS THR GLY ALA ASP LEU PRO CYS PHE GLY MSE SEQRES 9 A 233 ASP LEU MSE LYS PHE SER ASP LYS LYS VAL ILE ILE VAL SEQRES 10 A 233 PHE ASP PHE GLN HIS PRO ARG GLU LYS TYR LEU PHE SER SEQRES 11 A 233 VAL ASP GLY LEU PRO GLU ASP ASP GLY LYS TYR ARG PHE SEQRES 12 A 233 PHE GLU MSE GLY ASN HIS PHE SER LYS ASN ILE PHE VAL SEQRES 13 A 233 ARG TYR CYS LYS PRO ASP GLU VAL ASP GLN TYR LEU ASP SEQRES 14 A 233 THR PHE LYS LEU TYR LEU THR LYS TYR LYS GLU MSE ILE SEQRES 15 A 233 ASP ASN ASN LYS PRO VAL GLY GLU ASP THR THR VAL TYR SEQRES 16 A 233 SER ASP PHE ASP THR TYR MSE THR GLU LEU ASP PRO VAL SEQRES 17 A 233 ARG GLY TYR MSE LYS ASN LYS PHE GLY GLU GLY ARG SER SEQRES 18 A 233 GLU ALA PHE VAL ASN ASP PHE LEU PHE SER TYR LYS MODRES 2VCL MSE A 104 MET SELENOMETHIONINE MODRES 2VCL MSE A 107 MET SELENOMETHIONINE MODRES 2VCL MSE A 146 MET SELENOMETHIONINE MODRES 2VCL MSE A 181 MET SELENOMETHIONINE MODRES 2VCL MSE A 202 MET SELENOMETHIONINE MODRES 2VCL MSE A 212 MET SELENOMETHIONINE HET MSE A 104 8 HET MSE A 107 8 HET MSE A 146 8 HET MSE A 181 8 HET MSE A 202 8 HET MSE A 212 8 HET GOL A1234 6 HET GOL A1235 6 HET GOL A1236 6 HETNAM MSE SELENOMETHIONINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 GOL 3(C3 H8 O3) FORMUL 5 HOH *225(H2 O) HELIX 1 1 TRP A 24 PHE A 35 1 12 HELIX 2 2 LYS A 160 GLN A 166 5 7 HELIX 3 3 TYR A 167 LYS A 186 1 20 HELIX 4 4 ASP A 191 VAL A 194 5 4 HELIX 5 5 TYR A 195 LEU A 205 1 11 HELIX 6 6 ARG A 209 GLY A 217 1 9 HELIX 7 7 GLY A 217 PHE A 228 1 12 SHEET 1 AA 7 GLU A 39 GLY A 49 0 SHEET 2 AA 7 ALA A 59 GLY A 68 -1 O ALA A 59 N GLY A 49 SHEET 3 AA 7 PHE A 71 ASP A 81 -1 O PHE A 71 N GLY A 68 SHEET 4 AA 7 SER A 84 PRO A 93 -1 O SER A 84 N ASP A 81 SHEET 5 AA 7 CYS A 101 SER A 110 -1 O PHE A 102 N LEU A 91 SHEET 6 AA 7 LYS A 113 GLN A 121 -1 O LYS A 113 N PHE A 109 SHEET 7 AA 7 PHE A 155 CYS A 159 -1 O PHE A 155 N PHE A 118 LINK C GLY A 103 N MSE A 104 1555 1555 1.33 LINK C MSE A 104 N ASP A 105 1555 1555 1.31 LINK C LEU A 106 N MSE A 107 1555 1555 1.35 LINK C MSE A 107 N LYS A 108 1555 1555 1.32 LINK C GLU A 145 N MSE A 146 1555 1555 1.32 LINK C MSE A 146 N GLY A 147 1555 1555 1.33 LINK C GLU A 180 N MSE A 181 1555 1555 1.34 LINK C MSE A 181 N ILE A 182 1555 1555 1.32 LINK C TYR A 201 N MSE A 202 1555 1555 1.33 LINK C MSE A 202 N THR A 203 1555 1555 1.32 LINK C TYR A 211 N MSE A 212 1555 1555 1.33 LINK C MSE A 212 N LYS A 213 1555 1555 1.33 SITE 1 AC1 10 LYS A 113 PHE A 143 TYR A 158 LEU A 168 SITE 2 AC1 10 ASP A 169 LYS A 172 HOH A2140 HOH A2162 SITE 3 AC1 10 HOH A2223 HOH A2224 SITE 1 AC2 4 ILE A 86 ASN A 88 ASP A 105 PHE A 224 SITE 1 AC3 5 GLY A 103 MSE A 104 GLN A 121 MSE A 202 SITE 2 AC3 5 HOH A2225 CRYST1 42.500 72.470 90.940 90.00 90.00 90.00 P 21 21 21 4 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 0.023529 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013799 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010996 0.00000