HEADER LYASE 09-MAR-11 3R0X TITLE CRYSTAL STRUCTURE OF SELENOMETHIONINE INCORPORATED APO D-SERINE TITLE 2 DEAMINASE FROM SALMONELLA TYHIMURIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-SERINE DEHYDRATASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: D-SERINE DEAMINASE, DSD; COMPND 5 EC: 4.3.1.18; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR SOURCE 3 TYPHIMURIUM; SOURCE 4 ORGANISM_TAXID: 90371; SOURCE 5 GENE: DSDA, STM3802; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21B(+) KEYWDS FOLDTYPE 2 OF PLP-DEPENDENT ENZYMES, ALPHA, BETA ELIMINATION OF D- KEYWDS 2 SERINE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR S.R.BHARATH,B.SHVETA,H.S.SAVITHRI,M.R.N.MURTHY REVDAT 1 29-JUN-11 3R0X 0 JRNL AUTH S.R.BHARATH,S.BISHT,H.S.SAVITHRI,M.R.N.MURTHY JRNL TITL CRYSTAL STRUCTURES OF OPEN AND CLOSED FORMS OF D-SERINE JRNL TITL 2 DEAMINASE FROM SALMONELLA TYPHIMURIUM - IMPLICATIONS ON JRNL TITL 3 SUBSTRATE SPECIFICITY AND CATALYSIS JRNL REF FEBS J. 2011 JRNL REFN ISSN 1742-464X JRNL PMID 21668644 JRNL DOI 10.1111/J.1742-4658.2011.08210.X REMARK 2 REMARK 2 RESOLUTION. 1.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 34192 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1822 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) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2293 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 113 REMARK 3 BIN FREE R VALUE : 0.2430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3291 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 387 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.01000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.140 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.656 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3435 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4657 ; 0.915 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 451 ; 4.800 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 148 ;33.541 ;24.392 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 543 ;12.638 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;15.155 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 513 ; 0.061 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2621 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2188 ; 0.294 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3477 ; 0.565 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1247 ; 0.830 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1175 ; 1.332 ; 4.500 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3R0X COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-MAR-11. REMARK 100 THE RCSB ID CODE IS RCSB064350. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-OCT-09; 06-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; N REMARK 200 RADIATION SOURCE : ESRF; ROTATING ANODE REMARK 200 BEAMLINE : BM14; NULL REMARK 200 X-RAY GENERATOR MODEL : NULL; BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97848, 0.97872, 1.01876, REMARK 200 0.97083; 1.5418 REMARK 200 MONOCHROMATOR : NULL; OSMIC MIRROR REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD; MAR REMARK 200 SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36067 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.930 REMARK 200 RESOLUTION RANGE LOW (A) : 48.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.5 REMARK 200 DATA REDUNDANCY IN SHELL : 10.10 REMARK 200 R MERGE FOR SHELL (I) : 0.17400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 12.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: AUTORICKSHAW REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRISODIUM CITRATE PH 6.1, 0.4M REMARK 280 AMMONIUM SULPHATEM, 0.8M LITHIUM SULPHATE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 28.23000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 94.19500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.23000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 94.19500 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: 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 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 GLY A 439 REMARK 465 ARG A 440 REMARK 465 LEU A 441 REMARK 465 GLU A 442 REMARK 465 HIS A 443 REMARK 465 HIS A 444 REMARK 465 HIS A 445 REMARK 465 HIS A 446 REMARK 465 HIS A 447 REMARK 465 HIS A 448 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 GLU A 2 CG CD OE1 OE2 REMARK 470 LYS A 6 CG CD CE NZ REMARK 470 GLN A 45 CD OE1 NE2 REMARK 470 LYS A 130 CE NZ REMARK 470 LYS A 199 CD CE NZ REMARK 470 ARG A 222 CD NE CZ NH1 NH2 REMARK 470 LYS A 223 CD CE NZ 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 LYS A 105 55.44 -91.22 REMARK 500 ILE A 111 -53.97 73.47 REMARK 500 SER A 307 56.23 -141.26 REMARK 500 HIS A 319 -123.66 51.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 668 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH A 674 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A 678 DISTANCE = 5.03 ANGSTROMS REMARK 525 HOH A 821 DISTANCE = 5.61 ANGSTROMS 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 NA A 454 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 307 O REMARK 620 2 GLU A 303 OE2 80.2 REMARK 620 3 GLY A 277 O 159.7 91.2 REMARK 620 4 LEU A 338 O 94.9 159.2 99.3 REMARK 620 5 CYS A 276 O 121.0 85.0 76.0 80.2 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 SO4 A 449 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 450 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 451 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 452 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 453 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 454 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 455 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 456 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 457 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3R0Z RELATED DB: PDB DBREF 3R0X A 1 440 UNP Q8ZL08 SDHD_SALTY 1 440 SEQADV 3R0X LEU A 441 UNP Q8ZL08 EXPRESSION TAG SEQADV 3R0X GLU A 442 UNP Q8ZL08 EXPRESSION TAG SEQADV 3R0X HIS A 443 UNP Q8ZL08 EXPRESSION TAG SEQADV 3R0X HIS A 444 UNP Q8ZL08 EXPRESSION TAG SEQADV 3R0X HIS A 445 UNP Q8ZL08 EXPRESSION TAG SEQADV 3R0X HIS A 446 UNP Q8ZL08 EXPRESSION TAG SEQADV 3R0X HIS A 447 UNP Q8ZL08 EXPRESSION TAG SEQADV 3R0X HIS A 448 UNP Q8ZL08 EXPRESSION TAG SEQRES 1 A 448 MSE GLU ASN ILE GLN LYS LEU ILE ALA ARG TYR PRO LEU SEQRES 2 A 448 VAL GLU ASP LEU VAL ALA LEU LYS GLU THR THR TRP PHE SEQRES 3 A 448 ASN PRO GLY ALA THR SER LEU ALA GLN GLY LEU PRO TYR SEQRES 4 A 448 VAL GLY LEU THR GLU GLN ASP VAL ASN ALA ALA HIS ASP SEQRES 5 A 448 ARG LEU ALA ARG PHE ALA PRO TYR LEU ALA LYS ALA PHE SEQRES 6 A 448 PRO GLN THR ALA ALA ALA GLY GLY MSE ILE GLU SER ASP SEQRES 7 A 448 VAL VAL ALA ILE PRO ALA MSE GLN LYS ARG LEU GLU LYS SEQRES 8 A 448 GLU TYR GLY GLN THR ILE ASN GLY GLU MSE LEU LEU LYS SEQRES 9 A 448 LYS ASP SER HIS LEU ALA ILE SER GLY SER ILE LYS ALA SEQRES 10 A 448 ARG GLY GLY ILE TYR GLU VAL LEU THR HIS ALA GLU LYS SEQRES 11 A 448 LEU ALA LEU GLU ALA GLY LEU LEU THR THR ASP ASP ASP SEQRES 12 A 448 TYR SER VAL LEU LEU SER PRO GLU PHE LYS GLN PHE PHE SEQRES 13 A 448 SER GLN TYR SER ILE ALA VAL GLY SER THR GLY ASN LEU SEQRES 14 A 448 GLY LEU SER ILE GLY ILE MSE SER ALA CYS ILE GLY PHE SEQRES 15 A 448 LYS VAL THR VAL HIS MSE SER ALA ASP ALA ARG ALA TRP SEQRES 16 A 448 LYS LYS ALA LYS LEU ARG SER HIS GLY VAL THR VAL VAL SEQRES 17 A 448 GLU TYR GLU ASP ASP TYR GLY VAL ALA VAL GLU GLN GLY SEQRES 18 A 448 ARG LYS ALA ALA GLN SER ASP PRO ASN CYS PHE PHE ILE SEQRES 19 A 448 ASP ASP GLU ASN SER ARG THR LEU PHE LEU GLY TYR ALA SEQRES 20 A 448 VAL ALA GLY GLN ARG LEU LYS ALA GLN PHE ALA GLN GLN SEQRES 21 A 448 GLY ARG VAL VAL ASP ALA SER HIS PRO LEU PHE VAL TYR SEQRES 22 A 448 LEU PRO CYS GLY VAL GLY GLY GLY PRO GLY GLY VAL ALA SEQRES 23 A 448 PHE GLY LEU LYS LEU ALA PHE GLY ASP ASN VAL HIS CYS SEQRES 24 A 448 PHE PHE ALA GLU PRO THR HIS SER PRO CYS MSE LEU LEU SEQRES 25 A 448 GLY VAL TYR THR GLY LEU HIS ASP ALA ILE SER VAL GLN SEQRES 26 A 448 ASP ILE GLY ILE ASP ASN LEU THR ALA ALA ASP GLY LEU SEQRES 27 A 448 ALA VAL GLY ARG ALA SER GLY PHE VAL GLY ARG ALA MSE SEQRES 28 A 448 GLU ARG LEU LEU ASP GLY LEU TYR THR LEU ASP ASP GLN SEQRES 29 A 448 THR MSE TYR ASP MSE LEU GLY TRP LEU ALA GLN GLU GLU SEQRES 30 A 448 GLY ILE ARG LEU GLU PRO SER ALA LEU ALA GLY MSE ALA SEQRES 31 A 448 GLY PRO GLN ARG ILE CYS ALA SER VAL ALA TYR GLN GLN SEQRES 32 A 448 ARG HIS GLY PHE SER GLN THR GLN LEU GLY ASN ALA THR SEQRES 33 A 448 HIS LEU VAL TRP ALA THR GLY GLY GLY MSE VAL PRO GLU SEQRES 34 A 448 ASP GLU MSE GLU GLN TYR LEU ALA LYS GLY ARG LEU GLU SEQRES 35 A 448 HIS HIS HIS HIS HIS HIS MODRES 3R0X MSE A 1 MET SELENOMETHIONINE MODRES 3R0X MSE A 74 MET SELENOMETHIONINE MODRES 3R0X MSE A 85 MET SELENOMETHIONINE MODRES 3R0X MSE A 101 MET SELENOMETHIONINE MODRES 3R0X MSE A 176 MET SELENOMETHIONINE MODRES 3R0X MSE A 188 MET SELENOMETHIONINE MODRES 3R0X MSE A 310 MET SELENOMETHIONINE MODRES 3R0X MSE A 351 MET SELENOMETHIONINE MODRES 3R0X MSE A 366 MET SELENOMETHIONINE MODRES 3R0X MSE A 369 MET SELENOMETHIONINE MODRES 3R0X MSE A 389 MET SELENOMETHIONINE MODRES 3R0X MSE A 426 MET SELENOMETHIONINE MODRES 3R0X MSE A 432 MET SELENOMETHIONINE HET MSE A 1 16 HET MSE A 74 8 HET MSE A 85 8 HET MSE A 101 8 HET MSE A 176 8 HET MSE A 188 8 HET MSE A 310 8 HET MSE A 351 8 HET MSE A 366 8 HET MSE A 369 8 HET MSE A 389 8 HET MSE A 426 8 HET MSE A 432 8 HET SO4 A 449 5 HET SO4 A 450 5 HET EDO A 451 4 HET EDO A 452 4 HET EDO A 453 4 HET NA A 454 1 HET SO4 A 455 5 HET EDO A 456 4 HET EDO A 457 4 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 13(C5 H11 N O2 SE) FORMUL 2 SO4 3(O4 S 2-) FORMUL 4 EDO 5(C2 H6 O2) FORMUL 7 NA NA 1+ FORMUL 11 HOH *387(H2 O) HELIX 1 1 MSE A 1 ALA A 9 1 9 HELIX 2 2 PRO A 12 ALA A 19 1 8 HELIX 3 3 SER A 32 LEU A 37 1 6 HELIX 4 4 PRO A 38 VAL A 40 5 3 HELIX 5 5 THR A 43 PHE A 57 1 15 HELIX 6 6 PHE A 57 PHE A 65 1 9 HELIX 7 7 PRO A 66 GLY A 72 5 7 HELIX 8 8 ILE A 82 GLY A 94 1 13 HELIX 9 9 SER A 107 LEU A 109 5 3 HELIX 10 10 SER A 114 ALA A 135 1 22 HELIX 11 11 ASP A 143 LEU A 148 5 6 HELIX 12 12 SER A 149 SER A 157 1 9 HELIX 13 13 GLY A 167 GLY A 181 1 15 HELIX 14 14 ARG A 193 SER A 202 1 10 HELIX 15 15 ASP A 213 SER A 227 1 15 HELIX 16 16 SER A 239 VAL A 248 1 10 HELIX 17 17 VAL A 248 GLY A 261 1 14 HELIX 18 18 GLY A 279 GLY A 294 1 16 HELIX 19 19 PRO A 308 GLY A 317 1 10 HELIX 20 20 LEU A 318 ILE A 322 5 5 HELIX 21 21 VAL A 324 GLY A 328 5 5 HELIX 22 22 ALA A 335 ALA A 339 5 5 HELIX 23 23 GLY A 345 GLU A 352 1 8 HELIX 24 24 ARG A 353 LEU A 355 5 3 HELIX 25 25 ASP A 362 GLY A 378 1 17 HELIX 26 26 GLU A 382 MSE A 389 5 8 HELIX 27 27 ALA A 390 SER A 398 1 9 HELIX 28 28 SER A 398 HIS A 405 1 8 HELIX 29 29 SER A 408 GLY A 413 1 6 HELIX 30 30 PRO A 428 LYS A 438 1 11 SHEET 1 A 7 THR A 24 PHE A 26 0 SHEET 2 A 7 GLY A 357 LEU A 361 -1 O LEU A 358 N TRP A 25 SHEET 3 A 7 VAL A 297 PRO A 304 1 N GLU A 303 O TYR A 359 SHEET 4 A 7 LEU A 270 PRO A 275 1 N LEU A 274 O PHE A 300 SHEET 5 A 7 THR A 416 ALA A 421 1 O LEU A 418 N PHE A 271 SHEET 6 A 7 GLU A 100 LYS A 105 1 N LEU A 102 O HIS A 417 SHEET 7 A 7 VAL A 79 ALA A 81 -1 N VAL A 80 O LEU A 103 SHEET 1 B 4 THR A 206 TYR A 210 0 SHEET 2 B 4 LYS A 183 SER A 189 1 N VAL A 186 O THR A 206 SHEET 3 B 4 SER A 160 GLY A 164 1 N VAL A 163 O HIS A 187 SHEET 4 B 4 CYS A 231 ILE A 234 1 O ILE A 234 N ALA A 162 LINK C AMSE A 1 N GLU A 2 1555 1555 1.33 LINK C BMSE A 1 N GLU A 2 1555 1555 1.34 LINK C GLY A 73 N MSE A 74 1555 1555 1.33 LINK C MSE A 74 N ILE A 75 1555 1555 1.33 LINK C ALA A 84 N MSE A 85 1555 1555 1.33 LINK C MSE A 85 N GLN A 86 1555 1555 1.33 LINK C GLU A 100 N MSE A 101 1555 1555 1.33 LINK C MSE A 101 N LEU A 102 1555 1555 1.33 LINK C ILE A 175 N MSE A 176 1555 1555 1.33 LINK C MSE A 176 N SER A 177 1555 1555 1.33 LINK C HIS A 187 N MSE A 188 1555 1555 1.33 LINK C MSE A 188 N SER A 189 1555 1555 1.33 LINK C CYS A 309 N MSE A 310 1555 1555 1.33 LINK C MSE A 310 N LEU A 311 1555 1555 1.34 LINK C ALA A 350 N MSE A 351 1555 1555 1.33 LINK C MSE A 351 N GLU A 352 1555 1555 1.33 LINK C THR A 365 N MSE A 366 1555 1555 1.33 LINK C MSE A 366 N TYR A 367 1555 1555 1.34 LINK C ASP A 368 N MSE A 369 1555 1555 1.33 LINK C MSE A 369 N LEU A 370 1555 1555 1.33 LINK C GLY A 388 N MSE A 389 1555 1555 1.33 LINK C MSE A 389 N ALA A 390 1555 1555 1.33 LINK C GLY A 425 N MSE A 426 1555 1555 1.33 LINK C MSE A 426 N VAL A 427 1555 1555 1.33 LINK C GLU A 431 N MSE A 432 1555 1555 1.33 LINK C MSE A 432 N GLU A 433 1555 1555 1.33 LINK O SER A 307 NA NA A 454 1555 1555 2.68 LINK OE2 GLU A 303 NA NA A 454 1555 1555 2.88 LINK O GLY A 277 NA NA A 454 1555 1555 2.91 LINK O LEU A 338 NA NA A 454 1555 1555 3.11 LINK O CYS A 276 NA NA A 454 1555 1555 3.17 SITE 1 AC1 7 ASN A 238 SER A 239 ARG A 240 THR A 241 SITE 2 AC1 7 HOH A 485 HOH A 777 HOH A 789 SITE 1 AC2 6 ASN A 98 GLY A 99 GLY A 413 HOH A 458 SITE 2 AC2 6 HOH A 760 HOH A 787 SITE 1 AC3 1 TYR A 11 SITE 1 AC4 3 ALA A 390 ARG A 394 HOH A 482 SITE 1 AC5 5 ASN A 27 GLY A 29 GLU A 352 ARG A 353 SITE 2 AC5 5 HOH A 578 SITE 1 AC6 7 CYS A 276 GLY A 277 GLU A 303 SER A 307 SITE 2 AC6 7 CYS A 309 LEU A 338 VAL A 340 SITE 1 AC7 10 LYS A 116 GLY A 277 VAL A 278 GLY A 279 SITE 2 AC7 10 GLY A 280 GLY A 281 PRO A 282 HOH A 831 SITE 3 AC7 10 HOH A 835 HOH A 841 SITE 1 AC8 1 HIS A 51 SITE 1 AC9 9 LYS A 116 SER A 165 THR A 166 GLY A 167 SITE 2 AC9 9 ASN A 168 LEU A 169 ASP A 236 HOH A 834 SITE 3 AC9 9 HOH A 841 CRYST1 56.460 188.390 46.590 90.00 90.00 90.00 P 21 21 2 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 0.017712 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005308 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021464 0.00000 HETATM 1 N AMSE A 1 -28.647 -5.992 -37.598 0.50 40.86 N HETATM 2 N BMSE A 1 -29.540 -8.110 -38.388 0.50 40.25 N HETATM 3 CA AMSE A 1 -28.806 -7.470 -37.472 0.50 40.84 C HETATM 4 CA BMSE A 1 -29.042 -7.868 -37.000 0.50 40.21 C HETATM 5 C AMSE A 1 -27.521 -8.140 -36.965 0.50 40.57 C HETATM 6 C BMSE A 1 -27.842 -8.745 -36.640 0.50 40.19 C HETATM 7 O AMSE A 1 -26.941 -7.712 -35.965 0.50 40.55 O HETATM 8 O BMSE A 1 -27.596 -9.010 -35.457 0.50 40.26 O HETATM 9 CB AMSE A 1 -29.262 -8.073 -38.811 0.50 41.04 C HETATM 10 CB BMSE A 1 -30.171 -8.060 -35.979 0.50 40.18 C HETATM 11 CG AMSE A 1 -28.592 -7.474 -40.048 0.50 41.71 C HETATM 12 CG BMSE A 1 -29.728 -8.074 -34.513 0.50 40.12 C HETATM 13 SE AMSE A 1 -29.321 -5.737 -40.575 0.50 43.90 SE HETATM 14 SE BMSE A 1 -29.746 -6.338 -33.601 0.50 40.02 SE HETATM 15 CE AMSE A 1 -28.245 -5.430 -42.174 0.50 43.14 C HETATM 16 CE BMSE A 1 -31.344 -5.582 -34.417 0.50 40.06 C