HEADER OXIDOREDUCTASE 15-JUN-14 4QM8 TITLE CRYSTAL STRUCTURE OF A PUTATIVE CYSTEINE DIOXYGNASE FROM BACILLUS TITLE 2 SUBTILIS: A ALTERNATIVE MODELING OF 3EQE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYSTEINE DIOXYGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CDO; COMPND 5 EC: 1.13.11.20; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS SUBSP. SUBTILIS; SOURCE 3 ORGANISM_TAXID: 224308; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: BSU31140, CDOA, CYSTEINE DIOXYGENASE, YUBC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21 KEYWDS OXIDOREDUCTASE, CUPIN FOLD, CYSTEINE DIOXYGNEASE EXPDTA X-RAY DIFFRACTION AUTHOR S.H.HARTMAN,C.M.DRIGGERS,P.A.KARPLUS REVDAT 4 22-NOV-17 4QM8 1 REMARK REVDAT 3 14-JAN-15 4QM8 1 JRNL REVDAT 2 31-DEC-14 4QM8 1 JRNL REVDAT 1 26-NOV-14 4QM8 0 JRNL AUTH C.M.DRIGGERS,S.J.HARTMAN,P.A.KARPLUS JRNL TITL STRUCTURES OF ARG- AND GLN-TYPE BACTERIAL CYSTEINE JRNL TITL 2 DIOXYGENASE HOMOLOGS. JRNL REF PROTEIN SCI. V. 24 154 2015 JRNL REFN ISSN 0961-8368 JRNL PMID 25307852 JRNL DOI 10.1002/PRO.2587 REMARK 0 REMARK 0 THIS ENTRY 4QM8 REFLECTS AN ALTERNATIVE MODELING OF THE ORIGINAL REMARK 0 STRUCTURAL DATA R3EQESF DETERMINED BY AUTHORS OF THE PDB ENTRY REMARK 0 3EQE:S.M.VOROBIEV,M.SU,J.SEETHARAMAN,J.BENACH,F.FOROUHAR, REMARK 0 G.CLAYTON,B.COOPER,H.WANG,E.L.FOOTE,C.CICCOSANTI,L.MAO, R.XIAO, REMARK 0 T.B.ACTON,G.T.MONTELIONE,J.F.HUNT,L.TONG,NORTHEAST STRUCTURAL REMARK 0 GENOMICS CONSORTIUM (NESG) REMARK 2 REMARK 2 RESOLUTION. 2.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 11097 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.190 REMARK 3 FREE R VALUE TEST SET COUNT : 465 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.5197 - 4.0669 1.00 3726 166 0.1562 0.2318 REMARK 3 2 4.0669 - 3.2283 1.00 3498 152 0.1982 0.2770 REMARK 3 3 3.2283 - 2.8203 0.99 3408 147 0.2205 0.3030 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 2416 REMARK 3 ANGLE : 1.174 3273 REMARK 3 CHIRALITY : 0.042 371 REMARK 3 PLANARITY : 0.005 427 REMARK 3 DIHEDRAL : 14.395 891 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -39.7633 -19.2955 141.5321 REMARK 3 T TENSOR REMARK 3 T11: 0.5886 T22: 0.3245 REMARK 3 T33: 0.3469 T12: 0.0152 REMARK 3 T13: 0.0416 T23: -0.0065 REMARK 3 L TENSOR REMARK 3 L11: 8.2144 L22: 7.1499 REMARK 3 L33: 3.7545 L12: 3.0178 REMARK 3 L13: -0.4006 L23: -0.1940 REMARK 3 S TENSOR REMARK 3 S11: 0.0274 S12: -0.0136 S13: 0.1388 REMARK 3 S21: -0.0907 S22: 0.0361 S23: -0.4668 REMARK 3 S31: 0.0037 S32: 0.1680 S33: -0.0267 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -39.1092 1.9788 121.6725 REMARK 3 T TENSOR REMARK 3 T11: 0.6880 T22: 0.3720 REMARK 3 T33: 0.4085 T12: -0.0340 REMARK 3 T13: 0.0515 T23: -0.0735 REMARK 3 L TENSOR REMARK 3 L11: 7.0365 L22: 3.9853 REMARK 3 L33: 3.9340 L12: 0.9998 REMARK 3 L13: -0.3336 L23: -1.8359 REMARK 3 S TENSOR REMARK 3 S11: 0.2318 S12: 0.1474 S13: -0.4566 REMARK 3 S21: -0.0828 S22: -0.1207 S23: 0.0459 REMARK 3 S31: 0.5831 S32: 0.0050 S33: -0.1291 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4QM8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1000086231. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SHELXDE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: AUTHOR USED THE SF DATA FROM ENTRY 3EQE. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 2 2 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 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+1/4 REMARK 290 8555 -Y,-X,-Z+3/4 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 98.59500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 147.89250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 49.29750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 98.59500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 49.29750 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 147.89250 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 -11 REMARK 465 GLY A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 SER A -3 REMARK 465 HIS A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 LYS A 155 REMARK 465 GLU A 156 REMARK 465 VAL A 157 REMARK 465 LEU A 158 REMARK 465 GLU A 159 REMARK 465 ASN A 160 REMARK 465 SER A 161 REMARK 465 MSE B -11 REMARK 465 GLY B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 SER B -3 REMARK 465 HIS B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 GLU B 153 REMARK 465 GLN B 154 REMARK 465 LYS B 155 REMARK 465 GLU B 156 REMARK 465 VAL B 157 REMARK 465 LEU B 158 REMARK 465 GLU B 159 REMARK 465 ASN B 160 REMARK 465 SER B 161 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 GLN A 8 CG CD OE1 NE2 REMARK 470 ARG A 97 CG CD NE CZ NH1 NH2 REMARK 470 SER A 98 OG REMARK 470 THR A 99 OG1 CG2 REMARK 470 GLU A 101 CG CD OE1 OE2 REMARK 470 GLU A 104 CG CD OE1 OE2 REMARK 470 LYS A 121 CG CD CE NZ REMARK 470 GLU A 146 CG CD OE1 OE2 REMARK 470 GLU A 152 CG CD OE1 OE2 REMARK 470 GLN A 154 CG CD OE1 NE2 REMARK 470 LYS B 20 CG CD CE NZ REMARK 470 LYS B 27 CG CD CE NZ REMARK 470 ARG B 97 CG CD NE CZ NH1 NH2 REMARK 470 SER B 98 OG REMARK 470 THR B 99 OG1 CG2 REMARK 470 GLU B 101 CG CD OE1 OE2 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 NH2 ARG A 50 OXT CYS A 202 1.45 REMARK 500 OH TYR B 141 OXT CYS B 202 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 44 -82.26 -114.79 REMARK 500 ASN A 56 -152.64 -129.63 REMARK 500 THR A 99 40.16 -91.14 REMARK 500 HIS A 102 -163.12 -109.33 REMARK 500 GLU A 146 -50.30 -122.04 REMARK 500 ASP A 147 66.50 -112.32 REMARK 500 ASN B 31 64.09 24.69 REMARK 500 ASN B 31 63.66 25.19 REMARK 500 ASP B 44 -89.17 -114.20 REMARK 500 ASN B 56 -158.18 -121.55 REMARK 500 ASN B 69 17.60 58.38 REMARK 500 THR B 72 -158.39 -82.36 REMARK 500 GLU B 101 52.33 -97.70 REMARK 500 HIS B 102 144.55 -174.93 REMARK 500 ASN B 107 148.59 -174.91 REMARK 500 GLU B 146 -104.33 -100.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 AUTHORS HAVE DECLARED THAT THE ACTIVE SITE DENSITY AT THIS REMARK 600 RESOLUTION IS NOT DEFINITIVE, SO TO BE CONSERVATIVE OUR FINAL REMARK 600 REFINEMENT AND DEPOSITION USED THE MINIMAL INTERPRETATION OF THREE REMARK 600 WATERS IN THE ACTIVE SITE. TO ENSURE THAT USERS OF THE COORDINATES REMARK 600 ARE AWARE THAT CYS MAY BE BOUND, WE ALSO INCLUDE IN THE FILE, WITH REMARK 600 OCCUPANCY SET TO ZERO, THE COORDINATES AND B-FACTORS WE OBTAINED BY REMARK 600 REFINING A BOUND CYS AT 100% OCCUPANCY REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 CYS A 202 REMARK 615 CYS B 202 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 FE A 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 125 NE2 REMARK 620 2 HIS A 77 NE2 87.8 REMARK 620 3 HIS A 75 NE2 76.2 92.1 REMARK 620 4 HOH A 338 O 107.4 155.4 73.6 REMARK 620 5 CYS A 202 SG 99.3 164.4 76.3 9.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 75 NE2 REMARK 620 2 HIS B 77 NE2 90.4 REMARK 620 3 HIS B 125 NE2 77.1 83.4 REMARK 620 4 CYS B 202 SG 103.0 164.8 92.6 REMARK 620 5 CYS B 202 N 68.8 112.1 142.1 79.9 REMARK 620 6 HOH B 325 O 96.7 172.8 99.3 10.3 69.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CYS B 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3EQE RELATED DB: PDB REMARK 900 THIS ENTRY 4QM8 REFLECTS AN ALTERNATIVE MODELING OF THE ORIGINAL REMARK 900 STRUCTURAL DATA R3EQESF REMARK 900 RELATED ID: 4IEV RELATED DB: PDB REMARK 900 RAT CDO WITH CYS-BOUND REMARK 900 RELATED ID: 2B5H RELATED DB: PDB REMARK 900 RAT CDO REMARK 900 RELATED ID: 4QM9 RELATED DB: PDB REMARK 900 RELATED ID: 4QMA RELATED DB: PDB DBREF 4QM8 A 1 161 UNP O32085 CDOA_BACSU 1 161 DBREF 4QM8 B 1 161 UNP O32085 CDOA_BACSU 1 161 SEQADV 4QM8 MSE A -11 UNP O32085 EXPRESSION TAG SEQADV 4QM8 GLY A -10 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A -9 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A -8 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A -7 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A -6 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A -5 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A -4 UNP O32085 EXPRESSION TAG SEQADV 4QM8 SER A -3 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A -2 UNP O32085 EXPRESSION TAG SEQADV 4QM8 SER A -1 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS A 0 UNP O32085 EXPRESSION TAG SEQADV 4QM8 MSE B -11 UNP O32085 EXPRESSION TAG SEQADV 4QM8 GLY B -10 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B -9 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B -8 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B -7 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B -6 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B -5 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B -4 UNP O32085 EXPRESSION TAG SEQADV 4QM8 SER B -3 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B -2 UNP O32085 EXPRESSION TAG SEQADV 4QM8 SER B -1 UNP O32085 EXPRESSION TAG SEQADV 4QM8 HIS B 0 UNP O32085 EXPRESSION TAG SEQRES 1 A 173 MSE GLY HIS HIS HIS HIS HIS HIS SER HIS SER HIS MSE SEQRES 2 A 173 GLU LEU TYR GLU CYS ILE GLN ASP ILE PHE GLY GLY LEU SEQRES 3 A 173 LYS ASN PRO SER VAL LYS ASP LEU ALA THR SER LEU LYS SEQRES 4 A 173 GLN ILE PRO ASN ALA ALA LYS LEU SER GLN PRO TYR ILE SEQRES 5 A 173 LYS GLU PRO ASP GLN TYR ALA TYR GLY ARG ASN ALA ILE SEQRES 6 A 173 TYR ARG ASN ASN GLU LEU GLU ILE ILE VAL ILE ASN ILE SEQRES 7 A 173 PRO PRO ASN LYS GLU THR THR VAL HIS ASP HIS GLY GLN SEQRES 8 A 173 SER ILE GLY CYS ALA MSE VAL LEU GLU GLY LYS LEU LEU SEQRES 9 A 173 ASN SER ILE TYR ARG SER THR GLY GLU HIS ALA GLU LEU SEQRES 10 A 173 SER ASN SER TYR PHE VAL HIS GLU GLY GLU CYS LEU ILE SEQRES 11 A 173 SER THR LYS GLY LEU ILE HIS LYS MSE SER ASN PRO THR SEQRES 12 A 173 SER GLU ARG MSE VAL SER LEU HIS VAL TYR SER PRO PRO SEQRES 13 A 173 LEU GLU ASP MSE THR VAL PHE GLU GLU GLN LYS GLU VAL SEQRES 14 A 173 LEU GLU ASN SER SEQRES 1 B 173 MSE GLY HIS HIS HIS HIS HIS HIS SER HIS SER HIS MSE SEQRES 2 B 173 GLU LEU TYR GLU CYS ILE GLN ASP ILE PHE GLY GLY LEU SEQRES 3 B 173 LYS ASN PRO SER VAL LYS ASP LEU ALA THR SER LEU LYS SEQRES 4 B 173 GLN ILE PRO ASN ALA ALA LYS LEU SER GLN PRO TYR ILE SEQRES 5 B 173 LYS GLU PRO ASP GLN TYR ALA TYR GLY ARG ASN ALA ILE SEQRES 6 B 173 TYR ARG ASN ASN GLU LEU GLU ILE ILE VAL ILE ASN ILE SEQRES 7 B 173 PRO PRO ASN LYS GLU THR THR VAL HIS ASP HIS GLY GLN SEQRES 8 B 173 SER ILE GLY CYS ALA MSE VAL LEU GLU GLY LYS LEU LEU SEQRES 9 B 173 ASN SER ILE TYR ARG SER THR GLY GLU HIS ALA GLU LEU SEQRES 10 B 173 SER ASN SER TYR PHE VAL HIS GLU GLY GLU CYS LEU ILE SEQRES 11 B 173 SER THR LYS GLY LEU ILE HIS LYS MSE SER ASN PRO THR SEQRES 12 B 173 SER GLU ARG MSE VAL SER LEU HIS VAL TYR SER PRO PRO SEQRES 13 B 173 LEU GLU ASP MSE THR VAL PHE GLU GLU GLN LYS GLU VAL SEQRES 14 B 173 LEU GLU ASN SER MODRES 4QM8 MSE A 1 MET SELENOMETHIONINE MODRES 4QM8 MSE A 85 MET SELENOMETHIONINE MODRES 4QM8 MSE A 127 MET SELENOMETHIONINE MODRES 4QM8 MSE A 135 MET SELENOMETHIONINE MODRES 4QM8 MSE A 148 MET SELENOMETHIONINE MODRES 4QM8 MSE B 1 MET SELENOMETHIONINE MODRES 4QM8 MSE B 85 MET SELENOMETHIONINE MODRES 4QM8 MSE B 127 MET SELENOMETHIONINE MODRES 4QM8 MSE B 135 MET SELENOMETHIONINE MODRES 4QM8 MSE B 148 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 85 8 HET MSE A 127 8 HET MSE A 135 8 HET MSE A 148 8 HET MSE B 1 8 HET MSE B 85 8 HET MSE B 127 8 HET MSE B 135 8 HET MSE B 148 8 HET FE A 201 1 HET CYS A 202 7 HET FE B 201 1 HET CYS B 202 7 HETNAM MSE SELENOMETHIONINE HETNAM FE FE (III) ION HETNAM CYS CYSTEINE FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 3 FE 2(FE 3+) FORMUL 4 CYS 2(C3 H7 N O2 S) FORMUL 7 HOH *63(H2 O) HELIX 1 1 GLU A 2 PHE A 11 1 10 HELIX 2 2 SER A 18 GLN A 28 1 11 HELIX 3 3 ASN A 31 GLN A 37 1 7 HELIX 4 4 PRO A 38 ILE A 40 5 3 HELIX 5 5 GLU B 2 GLY B 12 1 11 HELIX 6 6 SER B 18 LYS B 27 1 10 HELIX 7 7 ASN B 31 GLN B 37 1 7 HELIX 8 8 PRO B 38 ILE B 40 5 3 SHEET 1 A 5 GLY A 49 ARG A 55 0 SHEET 2 A 5 GLU A 60 ILE A 66 -1 O VAL A 63 N ASN A 51 SHEET 3 A 5 MSE A 135 SER A 142 -1 O HIS A 139 N ILE A 62 SHEET 4 A 5 ILE A 81 GLU A 88 -1 N ILE A 81 O SER A 142 SHEET 5 A 5 CYS A 116 SER A 119 -1 O LEU A 117 N ALA A 84 SHEET 1 B 2 VAL A 74 ASP A 76 0 SHEET 2 B 2 THR A 149 PHE A 151 -1 O PHE A 151 N VAL A 74 SHEET 1 C 3 HIS A 102 VAL A 111 0 SHEET 2 C 3 LEU A 91 THR A 99 -1 N ILE A 95 O SER A 106 SHEET 3 C 3 ILE A 124 SER A 128 -1 O ILE A 124 N TYR A 96 SHEET 1 D 5 GLY B 49 ARG B 55 0 SHEET 2 D 5 GLU B 60 ILE B 66 -1 O VAL B 63 N ASN B 51 SHEET 3 D 5 MSE B 135 SER B 142 -1 O HIS B 139 N ILE B 62 SHEET 4 D 5 ILE B 81 GLU B 88 -1 N CYS B 83 O VAL B 140 SHEET 5 D 5 CYS B 116 SER B 119 -1 O LEU B 117 N ALA B 84 SHEET 1 E 3 ALA B 103 VAL B 111 0 SHEET 2 E 3 LEU B 91 SER B 98 -1 N ARG B 97 O GLU B 104 SHEET 3 E 3 ILE B 124 SER B 128 -1 O ILE B 124 N TYR B 96 LINK C MSE A 1 N GLU A 2 1555 1555 1.33 LINK C ALA A 84 N MSE A 85 1555 1555 1.33 LINK C MSE A 85 N VAL A 86 1555 1555 1.32 LINK C LYS A 126 N MSE A 127 1555 1555 1.33 LINK C MSE A 127 N SER A 128 1555 1555 1.33 LINK C ARG A 134 N MSE A 135 1555 1555 1.33 LINK C MSE A 135 N VAL A 136 1555 1555 1.33 LINK C ASP A 147 N MSE A 148 1555 1555 1.33 LINK C MSE A 148 N THR A 149 1555 1555 1.33 LINK C MSE B 1 N GLU B 2 1555 1555 1.33 LINK C ALA B 84 N MSE B 85 1555 1555 1.33 LINK C MSE B 85 N VAL B 86 1555 1555 1.33 LINK C LYS B 126 N MSE B 127 1555 1555 1.33 LINK C MSE B 127 N SER B 128 1555 1555 1.32 LINK C ARG B 134 N MSE B 135 1555 1555 1.33 LINK C MSE B 135 N VAL B 136 1555 1555 1.33 LINK C ASP B 147 N MSE B 148 1555 1555 1.34 LINK C MSE B 148 N THR B 149 1555 1555 1.33 LINK NE2 HIS A 125 FE FE A 201 1555 1555 2.07 LINK NE2 HIS B 75 FE FE B 201 1555 1555 2.08 LINK NE2 HIS A 77 FE FE A 201 1555 1555 2.15 LINK NE2 HIS A 75 FE FE A 201 1555 1555 2.18 LINK NE2 HIS B 77 FE FE B 201 1555 1555 2.19 LINK NE2 HIS B 125 FE FE B 201 1555 1555 2.25 LINK FE FE B 201 SG BCYS B 202 1555 1555 2.11 LINK FE FE B 201 N BCYS B 202 1555 1555 2.23 LINK FE FE A 201 O AHOH A 338 1555 1555 2.26 LINK FE FE B 201 O AHOH B 325 1555 1555 2.31 LINK FE FE A 201 SG BCYS A 202 1555 1555 2.63 CISPEP 1 SER A 142 PRO A 143 0 -6.43 CISPEP 2 SER B 142 PRO B 143 0 -2.19 SITE 1 AC1 5 HIS A 75 HIS A 77 HIS A 125 TYR A 141 SITE 2 AC1 5 HOH A 338 SITE 1 AC2 5 HIS B 75 HIS B 77 HIS B 125 TYR B 141 SITE 2 AC2 5 HOH B 325 SITE 1 AC3 2 TYR B 141 HOH B 324 CRYST1 65.830 65.830 197.190 90.00 90.00 90.00 P 43 2 2 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 0.015191 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015191 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005071 0.00000 HETATM 1 N MSE A 1 -60.264 -21.598 154.665 1.00 74.38 N ANISOU 1 N MSE A 1 9255 10570 8435 -1703 4549 -1548 N HETATM 2 CA MSE A 1 -59.536 -21.802 153.406 1.00 96.85 C ANISOU 2 CA MSE A 1 12195 13142 11460 -1457 3914 -1245 C HETATM 3 C MSE A 1 -58.080 -21.279 153.466 1.00 92.35 C ANISOU 3 C MSE A 1 12043 12507 10539 -1350 3649 -1294 C HETATM 4 O MSE A 1 -57.828 -20.077 153.294 1.00 98.78 O ANISOU 4 O MSE A 1 12771 13163 11597 -1115 3695 -1581 O HETATM 5 CB MSE A 1 -60.297 -21.129 152.252 1.00108.17 C ANISOU 5 CB MSE A 1 13125 14309 13666 -1124 3784 -1291 C HETATM 6 CG MSE A 1 -59.700 -21.321 150.844 1.00102.87 C ANISOU 6 CG MSE A 1 12526 13401 13158 -913 3161 -988 C HETATM 7 SE MSE A 1 -60.132 -23.057 150.031 1.00202.00 SE ANISOU 7 SE MSE A 1 25073 25974 25703 -1137 2790 -547 SE HETATM 8 CE MSE A 1 -60.585 -22.472 148.213 1.00102.62 C ANISOU 8 CE MSE A 1 12094 13143 13753 -817 2299 -429 C