HEADER OXIDOREDUCTASE 31-JUL-19 6KMD TITLE CRYSTAL STRUCTURE OF SEMET-PHYTOCHROMOBILIN SYNTHASE FROM TOMATO IN TITLE 2 COMPLEX WITH BILIVERDIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHYTOCHROMOBILIN SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.3.7.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SOLANUM LYCOPERSICUM; SOURCE 3 ORGANISM_COMMON: TOMATO; SOURCE 4 ORGANISM_TAXID: 4081; SOURCE 5 GENE: AUREA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS SUBSTRATE COMPLEX, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SUGISHIMA,K.WADA,K.FUKUYAMA REVDAT 3 29-JAN-20 6KMD 1 JRNL REVDAT 2 25-DEC-19 6KMD 1 JRNL REVDAT 1 18-DEC-19 6KMD 0 JRNL AUTH M.SUGISHIMA,K.WADA,K.FUKUYAMA,K.YAMAMOTO JRNL TITL CRYSTAL STRUCTURE OF PHYTOCHROMOBILIN SYNTHASE IN COMPLEX JRNL TITL 2 WITH BILIVERDIN IX ALPHA , A KEY ENZYME IN THE BIOSYNTHESIS JRNL TITL 3 OF PHYTOCHROME. JRNL REF J.BIOL.CHEM. V. 295 771 2020 JRNL REFN ESSN 1083-351X JRNL PMID 31822504 JRNL DOI 10.1074/JBC.RA119.011431 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14-3260 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 17288 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1111 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 2.3000 - 2.2000 0.97 1914 0 0.2090 0.3020 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 56 THROUGH 104 ) REMARK 3 ORIGIN FOR THE GROUP (A): 64.8654 18.7846 77.8494 REMARK 3 T TENSOR REMARK 3 T11: 0.3571 T22: 0.2373 REMARK 3 T33: 0.3198 T12: -0.0469 REMARK 3 T13: -0.1061 T23: 0.0674 REMARK 3 L TENSOR REMARK 3 L11: 1.4053 L22: 2.1778 REMARK 3 L33: 3.6056 L12: 1.2621 REMARK 3 L13: 0.9715 L23: 2.1731 REMARK 3 S TENSOR REMARK 3 S11: 0.3252 S12: -0.1172 S13: -0.3777 REMARK 3 S21: 0.3660 S22: -0.0994 S23: -0.1385 REMARK 3 S31: 0.5580 S32: 0.0068 S33: -0.2296 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 105 THROUGH 128 ) REMARK 3 ORIGIN FOR THE GROUP (A): 63.9993 22.5820 72.0002 REMARK 3 T TENSOR REMARK 3 T11: 0.2713 T22: 0.2175 REMARK 3 T33: 0.2347 T12: -0.0393 REMARK 3 T13: -0.0862 T23: -0.0172 REMARK 3 L TENSOR REMARK 3 L11: 6.2971 L22: 3.9862 REMARK 3 L33: 2.0075 L12: 0.9207 REMARK 3 L13: 1.4068 L23: -2.3479 REMARK 3 S TENSOR REMARK 3 S11: 0.2760 S12: 0.0350 S13: -0.0549 REMARK 3 S21: 0.0118 S22: -0.1890 S23: -0.4708 REMARK 3 S31: 0.5064 S32: 0.2398 S33: -0.0551 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 129 THROUGH 262 ) REMARK 3 ORIGIN FOR THE GROUP (A): 62.7688 36.9396 72.3283 REMARK 3 T TENSOR REMARK 3 T11: 0.2309 T22: 0.1423 REMARK 3 T33: 0.2225 T12: -0.0450 REMARK 3 T13: 0.0064 T23: -0.0293 REMARK 3 L TENSOR REMARK 3 L11: 2.1012 L22: 1.2601 REMARK 3 L33: 3.2572 L12: 0.6444 REMARK 3 L13: 0.3245 L23: 0.1655 REMARK 3 S TENSOR REMARK 3 S11: 0.1793 S12: -0.1259 S13: 0.1212 REMARK 3 S21: 0.1374 S22: -0.1163 S23: 0.0844 REMARK 3 S31: -0.2879 S32: 0.1467 S33: -0.0794 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 263 THROUGH 284 ) REMARK 3 ORIGIN FOR THE GROUP (A): 54.7156 18.0374 63.9130 REMARK 3 T TENSOR REMARK 3 T11: 0.1659 T22: 0.1473 REMARK 3 T33: 0.2240 T12: -0.0085 REMARK 3 T13: -0.0685 T23: 0.0252 REMARK 3 L TENSOR REMARK 3 L11: 9.1280 L22: 5.7010 REMARK 3 L33: 8.1616 L12: -0.3113 REMARK 3 L13: -2.2999 L23: 3.4182 REMARK 3 S TENSOR REMARK 3 S11: 0.0039 S12: 0.3505 S13: -0.2834 REMARK 3 S21: -0.1669 S22: -0.1342 S23: 0.3647 REMARK 3 S31: 0.2405 S32: -0.4545 S33: 0.1078 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 285 THROUGH 336 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.0694 35.8555 63.3286 REMARK 3 T TENSOR REMARK 3 T11: 0.2299 T22: 0.1028 REMARK 3 T33: 0.2458 T12: 0.0130 REMARK 3 T13: 0.0230 T23: -0.0559 REMARK 3 L TENSOR REMARK 3 L11: 3.5319 L22: 2.1938 REMARK 3 L33: 2.7286 L12: 0.6783 REMARK 3 L13: 0.5451 L23: -0.4562 REMARK 3 S TENSOR REMARK 3 S11: 0.1478 S12: 0.0338 S13: 0.1537 REMARK 3 S21: -0.0444 S22: -0.0704 S23: 0.2844 REMARK 3 S31: -0.0887 S32: -0.1150 S33: -0.0346 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: FOR THE MODEL REFINEMENT, BIJVOET PAIRS REMARK 3 WERE MERGED. REMARK 4 REMARK 4 6KMD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1300013283. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-19 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 : SPRING-8 REMARK 200 BEAMLINE : BL32XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.975 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31770 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 49.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.970 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.880 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, MAGNESIUM CHLORIDE, TRIS REMARK 280 -HCL, PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 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+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 79.21300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 31.96250 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 31.96250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 118.81950 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 31.96250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 31.96250 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 39.60650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 31.96250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 31.96250 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 118.81950 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 31.96250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 31.96250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 39.60650 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 0.00000 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 79.21300 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL 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 25 REMARK 465 GLY A 26 REMARK 465 SER A 27 REMARK 465 SER A 28 REMARK 465 HIS A 29 REMARK 465 HIS A 30 REMARK 465 HIS A 31 REMARK 465 HIS A 32 REMARK 465 HIS A 33 REMARK 465 HIS A 34 REMARK 465 SER A 35 REMARK 465 SER A 36 REMARK 465 GLY A 37 REMARK 465 LEU A 38 REMARK 465 VAL A 39 REMARK 465 PRO A 40 REMARK 465 ARG A 41 REMARK 465 GLY A 42 REMARK 465 SER A 43 REMARK 465 HIS A 44 REMARK 465 MSE A 45 REMARK 465 SER A 46 REMARK 465 TYR A 47 REMARK 465 THR A 48 REMARK 465 GLU A 49 REMARK 465 ASN A 50 REMARK 465 GLU A 51 REMARK 465 SER A 52 REMARK 465 SER A 53 REMARK 465 GLY A 54 REMARK 465 VAL A 55 REMARK 465 ASP A 337 REMARK 465 ARG A 338 REMARK 465 VAL A 339 REMARK 465 GLU A 340 REMARK 465 ILE A 341 REMARK 465 VAL A 342 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 82 CG CD CE NZ REMARK 470 GLU A 114 CG CD OE1 OE2 REMARK 470 ASP A 117 CG OD1 OD2 REMARK 470 LYS A 146 CG CD CE NZ REMARK 470 ASP A 162 CG OD1 OD2 REMARK 470 GLN A 163 CG CD OE1 NE2 REMARK 470 GLU A 164 CG CD OE1 OE2 REMARK 470 LYS A 172 CG CD CE NZ REMARK 470 LYS A 279 CG CD CE NZ REMARK 470 GLU A 308 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 O HOH A 632 O HOH A 650 2.14 REMARK 500 O HOH A 516 O HOH A 664 2.17 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 THR A 72 -166.48 -166.85 REMARK 500 SER A 84 -53.69 -139.75 REMARK 500 SER A 116 33.09 -94.98 REMARK 500 ASP A 117 25.28 -148.88 REMARK 500 ASP A 133 32.91 -77.82 REMARK 500 PHE A 285 -70.18 -118.72 REMARK 500 ASN A 288 129.01 -39.19 REMARK 500 PHE A 323 68.71 62.11 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 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 91 OD1 REMARK 620 2 HOH A 571 O 95.9 REMARK 620 3 HOH A 580 O 95.5 92.2 REMARK 620 4 HOH A 625 O 90.7 173.2 85.5 REMARK 620 5 HOH A 510 O 85.0 88.3 179.1 93.9 REMARK 620 6 HOH A 554 O 167.9 82.1 96.4 91.8 83.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 502 O REMARK 620 2 GLU A 324 OE1 54.5 REMARK 620 3 HOH A 648 O 116.6 108.6 REMARK 620 4 HOH A 518 O 66.7 72.8 176.7 REMARK 620 5 HOH A 654 O 163.2 108.9 63.4 113.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BLA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 404 DBREF 6KMD A 46 342 UNP Q588D6 Q588D6_SOLLC 46 342 SEQADV 6KMD MSE A 25 UNP Q588D6 INITIATING METHIONINE SEQADV 6KMD GLY A 26 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD SER A 27 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD SER A 28 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD HIS A 29 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD HIS A 30 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD HIS A 31 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD HIS A 32 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD HIS A 33 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD HIS A 34 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD SER A 35 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD SER A 36 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD GLY A 37 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD LEU A 38 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD VAL A 39 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD PRO A 40 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD ARG A 41 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD GLY A 42 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD SER A 43 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD HIS A 44 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD MSE A 45 UNP Q588D6 EXPRESSION TAG SEQADV 6KMD SER A 116 UNP Q588D6 THR 116 ENGINEERED MUTATION SEQRES 1 A 318 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 318 LEU VAL PRO ARG GLY SER HIS MSE SER TYR THR GLU ASN SEQRES 3 A 318 GLU SER SER GLY VAL SER TYR LYS LYS LEU ILE HIS PHE SEQRES 4 A 318 ALA LEU GLU GLU THR ASN THR HIS THR LEU LEU SER PRO SEQRES 5 A 318 SER PRO LEU GLN GLU LYS TYR SER SER LEU LEU SER MSE SEQRES 6 A 318 ASP ASP LYS THR GLU LEU GLN MSE LEU SER PHE GLU ALA SEQRES 7 A 318 HIS LYS ILE ARG LEU LEU ARG SER LEU CYS ILE GLU GLY SEQRES 8 A 318 SER ASP GLY MSE GLN VAL LEU ASP PHE ALA ALA PHE PRO SEQRES 9 A 318 LYS PRO GLU PHE ASP LEU PRO ILE PHE CYS ALA ASN PHE SEQRES 10 A 318 PHE THR THR ALA LYS MSE ASN ILE ILE VAL LEU ASP LEU SEQRES 11 A 318 ASN PRO LEU HIS ASP ILE MSE ASP GLN GLU ASP TYR LYS SEQRES 12 A 318 GLU LYS TYR TYR LYS ASP LEU ILE THR LEU GLY LEU LYS SEQRES 13 A 318 TYR SER LYS LEU LEU PRO TRP GLY GLY LYS LEU THR SER SEQRES 14 A 318 GLU SER LEU ARG PHE PHE SER PRO ILE VAL ILE TRP THR SEQRES 15 A 318 ARG PHE SER SER SER PRO HIS ASN HIS SER VAL LEU PHE SEQRES 16 A 318 SER ALA PHE LYS ASP TYR TYR GLN ALA TRP LEU GLY LEU SEQRES 17 A 318 MSE ASP ARG SER GLU GLY GLU THR ASP ALA SER GLN ILE SEQRES 18 A 318 ALA CYS ASN CYS GLU ALA GLN HIS ARG TYR LEU THR TRP SEQRES 19 A 318 ARG SER GLU LYS ASP PRO GLY HIS GLY VAL LEU LYS ARG SEQRES 20 A 318 LEU ILE GLY GLU ASP LEU ALA LYS ASP VAL ILE THR LYS SEQRES 21 A 318 PHE LEU PHE ASN GLY VAL ASN GLU LEU GLY ASN LYS THR SEQRES 22 A 318 PHE LEU ASP TYR PHE PRO GLU TYR ARG CYS GLU ASP GLY SEQRES 23 A 318 LYS VAL ASN GLU LYS ARG SER MSE ILE GLY LYS SER PHE SEQRES 24 A 318 GLU ASN ARG PRO TRP ASN ALA ARG GLY GLU PHE ILE GLY SEQRES 25 A 318 ASP ARG VAL GLU ILE VAL MODRES 6KMD MSE A 89 MET MODIFIED RESIDUE MODRES 6KMD MSE A 97 MET MODIFIED RESIDUE MODRES 6KMD MSE A 119 MET MODIFIED RESIDUE MODRES 6KMD MSE A 147 MET MODIFIED RESIDUE MODRES 6KMD MSE A 161 MET MODIFIED RESIDUE MODRES 6KMD MSE A 233 MET MODIFIED RESIDUE MODRES 6KMD MSE A 318 MET MODIFIED RESIDUE HET MSE A 89 8 HET MSE A 97 8 HET MSE A 119 8 HET MSE A 147 8 HET MSE A 161 8 HET MSE A 233 8 HET MSE A 318 8 HET BLA A 401 43 HET MG A 402 1 HET MG A 403 1 HET CL A 404 1 HETNAM MSE SELENOMETHIONINE HETNAM BLA BILIVERDINE IX ALPHA HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 2 BLA C33 H34 N4 O6 FORMUL 3 MG 2(MG 2+) FORMUL 5 CL CL 1- FORMUL 6 HOH *176(H2 O) HELIX 1 AA1 TYR A 57 THR A 72 1 16 HELIX 2 AA2 PRO A 78 LYS A 82 5 5 HELIX 3 AA3 GLU A 164 LYS A 172 1 9 HELIX 4 AA4 LEU A 174 LEU A 185 1 12 HELIX 5 AA5 GLU A 194 PHE A 199 5 6 HELIX 6 AA6 SER A 211 SER A 236 1 26 HELIX 7 AA7 ASP A 241 ASP A 263 1 23 HELIX 8 AA8 GLY A 265 GLY A 274 1 10 HELIX 9 AA9 GLY A 274 PHE A 285 1 12 HELIX 10 AB1 THR A 297 PHE A 302 1 6 HELIX 11 AB2 PRO A 303 ARG A 306 5 4 SHEET 1 AA1 3 SER A 75 PRO A 76 0 SHEET 2 AA1 3 GLU A 94 GLU A 101 -1 O GLU A 101 N SER A 75 SHEET 3 AA1 3 SER A 85 LEU A 87 -1 N LEU A 86 O LEU A 95 SHEET 1 AA2 7 SER A 75 PRO A 76 0 SHEET 2 AA2 7 GLU A 94 GLU A 101 -1 O GLU A 101 N SER A 75 SHEET 3 AA2 7 ILE A 105 GLU A 114 -1 O LEU A 108 N PHE A 100 SHEET 4 AA2 7 GLN A 120 PRO A 128 -1 O PHE A 127 N LEU A 107 SHEET 5 AA2 7 ILE A 136 THR A 143 -1 O ALA A 139 N PHE A 124 SHEET 6 AA2 7 MSE A 147 ASN A 155 -1 O VAL A 151 N ASN A 140 SHEET 7 AA2 7 ILE A 204 SER A 209 -1 O ILE A 204 N LEU A 152 SHEET 1 AA3 2 LEU A 191 THR A 192 0 SHEET 2 AA3 2 LYS A 321 SER A 322 -1 O SER A 322 N LEU A 191 LINK C SER A 88 N MSE A 89 1555 1555 1.33 LINK C MSE A 89 N ASP A 90 1555 1555 1.34 LINK OD1 ASP A 91 MG MG A 402 1555 1555 2.19 LINK C GLN A 96 N MSE A 97 1555 1555 1.33 LINK C MSE A 97 N LEU A 98 1555 1555 1.33 LINK C GLY A 118 N MSE A 119 1555 1555 1.33 LINK C MSE A 119 N GLN A 120 1555 1555 1.33 LINK C LYS A 146 N MSE A 147 1555 1555 1.33 LINK C MSE A 147 N ASN A 148 1555 1555 1.33 LINK C ILE A 160 N MSE A 161 1555 1555 1.33 LINK C MSE A 161 N ASP A 162 1555 1555 1.33 LINK C LEU A 232 N MSE A 233 1555 1555 1.33 LINK C MSE A 233 N ASP A 234 1555 1555 1.34 LINK C SER A 317 N MSE A 318 1555 1555 1.33 LINK C MSE A 318 N ILE A 319 1555 1555 1.34 LINK MG MG A 402 O HOH A 571 1555 1555 1.98 LINK MG MG A 402 O HOH A 580 1555 1555 2.06 LINK MG MG A 402 O HOH A 625 1555 1555 2.05 LINK MG MG A 403 O HOH A 502 1555 1555 2.13 LINK OE1 GLU A 324 MG MG A 403 1555 3644 2.62 LINK MG MG A 402 O HOH A 510 1555 5645 2.25 LINK MG MG A 402 O HOH A 554 1555 5645 1.94 LINK MG MG A 403 O HOH A 648 1555 4565 2.65 LINK MG MG A 403 O HOH A 518 1555 4565 2.41 LINK MG MG A 403 O HOH A 654 1555 4565 2.06 SITE 1 AC1 26 HIS A 103 VAL A 121 CYS A 138 ASN A 140 SITE 2 AC1 26 PHE A 142 ILE A 149 VAL A 151 LEU A 191 SITE 3 AC1 26 THR A 192 SER A 195 PHE A 198 TRP A 205 SITE 4 AC1 26 TRP A 258 ARG A 259 PRO A 264 GLY A 265 SITE 5 AC1 26 LEU A 269 ARG A 316 LYS A 321 HOH A 525 SITE 6 AC1 26 HOH A 528 HOH A 533 HOH A 558 HOH A 561 SITE 7 AC1 26 HOH A 563 HOH A 574 SITE 1 AC2 6 ASP A 91 HOH A 510 HOH A 554 HOH A 571 SITE 2 AC2 6 HOH A 580 HOH A 625 SITE 1 AC3 6 GLU A 67 GLU A 324 HOH A 502 HOH A 518 SITE 2 AC3 6 HOH A 648 HOH A 654 SITE 1 AC4 3 THR A 72 ARG A 207 HOH A 563 CRYST1 63.925 63.925 158.426 90.00 90.00 90.00 P 43 21 2 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 0.015643 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015643 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006312 0.00000