HEADER LYASE 20-JUN-13 4LAM TITLE CRYSTAL STRUCTURE OF CORDYCEPS MILITARIS IDCASE D323N MUTANT IN TITLE 2 COMPLEX WITH 5-CARBOXYL-URACIL COMPND MOL_ID: 1; COMPND 2 MOLECULE: URACIL-5-CARBOXYLATE DECARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CORDYCEPS MILITARIS; SOURCE 3 ORGANISM_TAXID: 983644; SOURCE 4 STRAIN: CM01; SOURCE 5 GENE: CCM_01452; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODON PLUS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28SUMO KEYWDS PYRIMIDINE METABOLISM, IDCASE, DECARBOXYLASE, URACIL, DNA KEYWDS 2 DECARBOXYLATION, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR S.XU,W.LI,J.ZHU,J.DING REVDAT 4 08-NOV-23 4LAM 1 REMARK SEQADV LINK REVDAT 3 15-NOV-17 4LAM 1 REMARK REVDAT 2 12-FEB-14 4LAM 1 JRNL REVDAT 1 02-OCT-13 4LAM 0 JRNL AUTH S.XU,W.LI,J.ZHU,R.WANG,Z.LI,G.L.XU,J.DING JRNL TITL CRYSTAL STRUCTURES OF ISOOROTATE DECARBOXYLASES REVEAL A JRNL TITL 2 NOVEL CATALYTIC MECHANISM OF 5-CARBOXYL-URACIL JRNL TITL 3 DECARBOXYLATION AND SHED LIGHT ON THE SEARCH FOR DNA JRNL TITL 4 DECARBOXYLASE. JRNL REF CELL RES. V. 23 1296 2013 JRNL REFN ISSN 1001-0602 JRNL PMID 23917530 JRNL DOI 10.1038/CR.2013.107 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 46175 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2340 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3164 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.1810 REMARK 3 BIN FREE R VALUE SET COUNT : 184 REMARK 3 BIN FREE R VALUE : 0.2550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5590 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.14000 REMARK 3 B22 (A**2) : 0.14000 REMARK 3 B33 (A**2) : -0.28000 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): 0.149 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.869 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5794 ; 0.005 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5646 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7866 ; 1.083 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12992 ; 1.468 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 727 ; 4.997 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 227 ;34.405 ;23.216 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 909 ;13.425 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;14.077 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 893 ; 0.062 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6444 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1278 ; 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): 2923 ; 1.527 ; 3.093 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2922 ; 1.527 ; 3.092 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3645 ; 1.524 ; 4.615 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 11436 ; 2.448 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 63 ;16.450 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 11519 ;11.391 ; 5.000 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 5 A 376 REMARK 3 ORIGIN FOR THE GROUP (A): 95.2945 -32.9429 -3.9450 REMARK 3 T TENSOR REMARK 3 T11: 0.0036 T22: 0.0096 REMARK 3 T33: 0.0097 T12: 0.0003 REMARK 3 T13: -0.0014 T23: -0.0022 REMARK 3 L TENSOR REMARK 3 L11: 0.0024 L22: 0.0762 REMARK 3 L33: 0.2190 L12: 0.0079 REMARK 3 L13: -0.0227 L23: -0.0850 REMARK 3 S TENSOR REMARK 3 S11: 0.0004 S12: 0.0012 S13: -0.0003 REMARK 3 S21: -0.0085 S22: -0.0015 S23: -0.0050 REMARK 3 S31: -0.0036 S32: -0.0146 S33: 0.0011 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 6 B 374 REMARK 3 ORIGIN FOR THE GROUP (A): 63.5288 -35.5795 2.1473 REMARK 3 T TENSOR REMARK 3 T11: 0.0101 T22: 0.0156 REMARK 3 T33: 0.0035 T12: -0.0014 REMARK 3 T13: 0.0008 T23: -0.0014 REMARK 3 L TENSOR REMARK 3 L11: 0.1375 L22: 0.0021 REMARK 3 L33: 0.0050 L12: 0.0128 REMARK 3 L13: 0.0156 L23: -0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0080 S12: 0.0036 S13: 0.0001 REMARK 3 S21: 0.0027 S22: -0.0051 S23: 0.0002 REMARK 3 S31: 0.0002 S32: 0.0075 S33: -0.0029 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 U VALUES: RESIDUAL ONLY REMARK 4 REMARK 4 4LAM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080390. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-APR-13 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 : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46222 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.23200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 4HK5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% POLYETHYLENE GLYCOL 3350, 0.2M REMARK 280 MGCL2, 0.1M TRIS-HCL, PH 8.5, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 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 67.21050 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 33.60525 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 100.81575 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: 7600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 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 ALA A 2 REMARK 465 ALA A 3 REMARK 465 SER A 4 REMARK 465 GLU A 331 REMARK 465 GLU A 332 REMARK 465 ASP A 333 REMARK 465 VAL A 334 REMARK 465 GLN A 335 REMARK 465 GLY A 336 REMARK 465 PRO A 337 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 ALA B 3 REMARK 465 SER B 4 REMARK 465 THR B 5 REMARK 465 ASP B 40 REMARK 465 ASP B 60 REMARK 465 ALA B 375 REMARK 465 GLU B 376 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 PRO A 37 -18.16 -49.96 REMARK 500 ALA A 59 -65.03 -105.09 REMARK 500 PRO A 99 35.79 -98.90 REMARK 500 TRP A 100 -127.95 54.56 REMARK 500 TYR A 158 -2.54 74.55 REMARK 500 HIS A 197 -47.34 -179.35 REMARK 500 LYS A 374 -68.12 -141.03 REMARK 500 ALA A 375 -99.80 -29.91 REMARK 500 TRP B 100 -126.78 55.56 REMARK 500 HIS B 197 -45.46 -162.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 P6G A 403 REMARK 610 P6G A 404 REMARK 610 P6G A 405 REMARK 610 P6G B 403 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 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 12 NE2 REMARK 620 2 HIS A 14 NE2 90.7 REMARK 620 3 HIS A 195 NE2 91.8 91.8 REMARK 620 4 ASN A 323 OD1 87.0 90.3 177.6 REMARK 620 5 5CU A 402 O4 173.5 94.6 84.2 96.9 REMARK 620 6 5CU A 402 O52 97.2 169.1 95.5 82.6 78.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 12 NE2 REMARK 620 2 HIS B 14 NE2 88.6 REMARK 620 3 HIS B 195 NE2 90.2 92.6 REMARK 620 4 ASN B 323 OD1 90.7 90.5 176.8 REMARK 620 5 5CU B 402 O4 173.2 95.7 84.4 94.5 REMARK 620 6 5CU B 402 O53 101.8 167.9 93.5 83.3 74.5 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 ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5CU A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P6G A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P6G A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P6G A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5CU B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P6G B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LAK RELATED DB: PDB REMARK 900 RELATED ID: 4LAL RELATED DB: PDB REMARK 900 RELATED ID: 4LAN RELATED DB: PDB REMARK 900 RELATED ID: 4LAO RELATED DB: PDB DBREF 4LAM A 1 376 UNP G3J531 G3J531_CORMM 1 376 DBREF 4LAM B 1 376 UNP G3J531 G3J531_CORMM 1 376 SEQADV 4LAM ASN A 323 UNP G3J531 ASP 323 ENGINEERED MUTATION SEQADV 4LAM ASN B 323 UNP G3J531 ASP 323 ENGINEERED MUTATION SEQRES 1 A 376 MET ALA ALA SER THR PRO VAL VAL VAL ASP ILE HIS THR SEQRES 2 A 376 HIS MET TYR PRO PRO SER TYR ILE ALA MET LEU GLU LYS SEQRES 3 A 376 ARG GLN THR ILE PRO LEU VAL ARG THR PHE PRO GLN ALA SEQRES 4 A 376 ASP GLU PRO ARG LEU ILE LEU LEU SER SER GLU LEU ALA SEQRES 5 A 376 ALA LEU ASP ALA ALA LEU ALA ASP PRO ALA ALA LYS LEU SEQRES 6 A 376 PRO GLY ARG PRO LEU SER THR HIS PHE ALA SER LEU ALA SEQRES 7 A 376 GLN LYS MET HIS PHE MET ASP THR ASN GLY ILE ARG VAL SEQRES 8 A 376 SER VAL ILE SER LEU ALA ASN PRO TRP PHE ASP PHE LEU SEQRES 9 A 376 ALA PRO ASP GLU ALA PRO GLY ILE ALA ASP ALA VAL ASN SEQRES 10 A 376 ALA GLU PHE SER ASP MET CYS ALA GLN HIS VAL GLY ARG SEQRES 11 A 376 LEU PHE PHE PHE ALA ALA LEU PRO LEU SER ALA PRO VAL SEQRES 12 A 376 ASP ALA VAL LYS ALA SER ILE GLU ARG VAL LYS ASN LEU SEQRES 13 A 376 LYS TYR CYS ARG GLY ILE ILE LEU GLY THR SER GLY LEU SEQRES 14 A 376 GLY LYS GLY LEU ASP ASP PRO HIS LEU LEU PRO VAL PHE SEQRES 15 A 376 GLU ALA VAL ALA ASP ALA LYS LEU LEU VAL PHE LEU HIS SEQRES 16 A 376 PRO HIS TYR GLY LEU PRO ASN GLU VAL TYR GLY PRO ARG SEQRES 17 A 376 SER GLU GLU TYR GLY HIS VAL LEU PRO LEU ALA LEU GLY SEQRES 18 A 376 PHE PRO MET GLU THR THR ILE ALA VAL ALA ARG MET TYR SEQRES 19 A 376 MET ALA GLY VAL PHE ASP HIS VAL ARG ASN LEU GLN MET SEQRES 20 A 376 LEU LEU ALA HIS SER GLY GLY THR LEU PRO PHE LEU ALA SEQRES 21 A 376 GLY ARG ILE GLU SER CYS ILE VAL HIS ASP GLY HIS LEU SEQRES 22 A 376 VAL LYS THR GLY LYS VAL PRO LYS ASP ARG ARG THR ILE SEQRES 23 A 376 TRP THR VAL LEU LYS GLU GLN ILE TYR LEU ASP ALA VAL SEQRES 24 A 376 ILE TYR SER GLU VAL GLY LEU GLN ALA ALA ILE ALA SER SEQRES 25 A 376 SER GLY ALA ASP ARG LEU MET PHE GLY THR ASN HIS PRO SEQRES 26 A 376 PHE PHE PRO PRO ILE GLU GLU ASP VAL GLN GLY PRO TRP SEQRES 27 A 376 ASP SER SER ARG LEU ASN ALA GLN ALA VAL ILE LYS ALA SEQRES 28 A 376 VAL GLY GLU GLY SER SER ASP ALA ALA ALA VAL MET GLY SEQRES 29 A 376 LEU ASN ALA VAL ARG VAL LEU SER LEU LYS ALA GLU SEQRES 1 B 376 MET ALA ALA SER THR PRO VAL VAL VAL ASP ILE HIS THR SEQRES 2 B 376 HIS MET TYR PRO PRO SER TYR ILE ALA MET LEU GLU LYS SEQRES 3 B 376 ARG GLN THR ILE PRO LEU VAL ARG THR PHE PRO GLN ALA SEQRES 4 B 376 ASP GLU PRO ARG LEU ILE LEU LEU SER SER GLU LEU ALA SEQRES 5 B 376 ALA LEU ASP ALA ALA LEU ALA ASP PRO ALA ALA LYS LEU SEQRES 6 B 376 PRO GLY ARG PRO LEU SER THR HIS PHE ALA SER LEU ALA SEQRES 7 B 376 GLN LYS MET HIS PHE MET ASP THR ASN GLY ILE ARG VAL SEQRES 8 B 376 SER VAL ILE SER LEU ALA ASN PRO TRP PHE ASP PHE LEU SEQRES 9 B 376 ALA PRO ASP GLU ALA PRO GLY ILE ALA ASP ALA VAL ASN SEQRES 10 B 376 ALA GLU PHE SER ASP MET CYS ALA GLN HIS VAL GLY ARG SEQRES 11 B 376 LEU PHE PHE PHE ALA ALA LEU PRO LEU SER ALA PRO VAL SEQRES 12 B 376 ASP ALA VAL LYS ALA SER ILE GLU ARG VAL LYS ASN LEU SEQRES 13 B 376 LYS TYR CYS ARG GLY ILE ILE LEU GLY THR SER GLY LEU SEQRES 14 B 376 GLY LYS GLY LEU ASP ASP PRO HIS LEU LEU PRO VAL PHE SEQRES 15 B 376 GLU ALA VAL ALA ASP ALA LYS LEU LEU VAL PHE LEU HIS SEQRES 16 B 376 PRO HIS TYR GLY LEU PRO ASN GLU VAL TYR GLY PRO ARG SEQRES 17 B 376 SER GLU GLU TYR GLY HIS VAL LEU PRO LEU ALA LEU GLY SEQRES 18 B 376 PHE PRO MET GLU THR THR ILE ALA VAL ALA ARG MET TYR SEQRES 19 B 376 MET ALA GLY VAL PHE ASP HIS VAL ARG ASN LEU GLN MET SEQRES 20 B 376 LEU LEU ALA HIS SER GLY GLY THR LEU PRO PHE LEU ALA SEQRES 21 B 376 GLY ARG ILE GLU SER CYS ILE VAL HIS ASP GLY HIS LEU SEQRES 22 B 376 VAL LYS THR GLY LYS VAL PRO LYS ASP ARG ARG THR ILE SEQRES 23 B 376 TRP THR VAL LEU LYS GLU GLN ILE TYR LEU ASP ALA VAL SEQRES 24 B 376 ILE TYR SER GLU VAL GLY LEU GLN ALA ALA ILE ALA SER SEQRES 25 B 376 SER GLY ALA ASP ARG LEU MET PHE GLY THR ASN HIS PRO SEQRES 26 B 376 PHE PHE PRO PRO ILE GLU GLU ASP VAL GLN GLY PRO TRP SEQRES 27 B 376 ASP SER SER ARG LEU ASN ALA GLN ALA VAL ILE LYS ALA SEQRES 28 B 376 VAL GLY GLU GLY SER SER ASP ALA ALA ALA VAL MET GLY SEQRES 29 B 376 LEU ASN ALA VAL ARG VAL LEU SER LEU LYS ALA GLU HET ZN A 401 1 HET 5CU A 402 11 HET P6G A 403 13 HET P6G A 404 7 HET P6G A 405 13 HET ZN B 401 1 HET 5CU B 402 11 HET P6G B 403 13 HETNAM ZN ZINC ION HETNAM 5CU 2,4-DIOXO-1,2,3,4-TETRAHYDROPYRIMIDINE-5-CARBOXYLIC HETNAM 2 5CU ACID HETNAM P6G HEXAETHYLENE GLYCOL HETSYN P6G POLYETHYLENE GLYCOL PEG400 FORMUL 3 ZN 2(ZN 2+) FORMUL 4 5CU 2(C5 H4 N2 O4) FORMUL 5 P6G 4(C12 H26 O7) FORMUL 11 HOH *280(H2 O) HELIX 1 1 PRO A 17 LYS A 26 1 10 HELIX 2 2 LEU A 47 SER A 49 5 3 HELIX 3 3 GLU A 50 ASP A 60 1 11 HELIX 4 4 SER A 71 ALA A 75 5 5 HELIX 5 5 SER A 76 GLY A 88 1 13 HELIX 6 6 GLU A 108 GLN A 126 1 19 HELIX 7 7 PRO A 142 ASN A 155 1 14 HELIX 8 8 ASP A 175 HIS A 177 5 3 HELIX 9 9 LEU A 178 ALA A 188 1 11 HELIX 10 10 PRO A 201 GLY A 206 5 6 HELIX 11 11 ARG A 208 TYR A 212 5 5 HELIX 12 12 HIS A 214 LEU A 220 1 7 HELIX 13 13 LEU A 220 ALA A 236 1 17 HELIX 14 14 GLY A 237 VAL A 242 1 6 HELIX 15 15 ALA A 250 GLY A 254 1 5 HELIX 16 16 THR A 255 HIS A 269 1 15 HELIX 17 17 ASP A 270 THR A 276 1 7 HELIX 18 18 THR A 285 GLN A 293 1 9 HELIX 19 19 SER A 302 GLY A 314 1 13 HELIX 20 20 ASP A 339 GLY A 353 1 15 HELIX 21 21 SER A 356 GLY A 364 1 9 HELIX 22 22 GLY A 364 LEU A 371 1 8 HELIX 23 23 PRO B 17 ARG B 27 1 11 HELIX 24 24 LEU B 47 SER B 49 5 3 HELIX 25 25 GLU B 50 ALA B 59 1 10 HELIX 26 26 SER B 71 ALA B 75 5 5 HELIX 27 27 SER B 76 ASN B 87 1 12 HELIX 28 28 GLU B 108 GLN B 126 1 19 HELIX 29 29 PRO B 142 ASN B 155 1 14 HELIX 30 30 ASP B 175 HIS B 177 5 3 HELIX 31 31 LEU B 178 ALA B 188 1 11 HELIX 32 32 PRO B 201 GLY B 206 5 6 HELIX 33 33 ARG B 208 GLY B 213 5 6 HELIX 34 34 HIS B 214 LEU B 220 1 7 HELIX 35 35 LEU B 220 ALA B 236 1 17 HELIX 36 36 GLY B 237 VAL B 242 1 6 HELIX 37 37 HIS B 251 GLY B 254 5 4 HELIX 38 38 THR B 255 HIS B 269 1 15 HELIX 39 39 ASP B 270 THR B 276 1 7 HELIX 40 40 THR B 285 GLN B 293 1 9 HELIX 41 41 SER B 302 GLY B 314 1 13 HELIX 42 42 TRP B 338 GLY B 353 1 16 HELIX 43 43 SER B 356 GLY B 364 1 9 HELIX 44 44 GLY B 364 SER B 372 1 9 SHEET 1 A 8 VAL A 9 MET A 15 0 SHEET 2 A 8 VAL A 91 LEU A 96 1 O VAL A 93 N ASP A 10 SHEET 3 A 8 LEU A 131 ALA A 135 1 O PHE A 134 N ILE A 94 SHEET 4 A 8 CYS A 159 LEU A 164 1 O GLY A 161 N ALA A 135 SHEET 5 A 8 LEU A 191 LEU A 194 1 O PHE A 193 N ILE A 162 SHEET 6 A 8 MET A 247 LEU A 249 1 O LEU A 248 N VAL A 192 SHEET 7 A 8 ILE A 294 ASP A 297 1 O TYR A 295 N MET A 247 SHEET 8 A 8 LEU A 318 MET A 319 1 O MET A 319 N LEU A 296 SHEET 1 B 3 LEU A 32 ARG A 34 0 SHEET 2 B 3 ARG A 43 ILE A 45 -1 O ARG A 43 N ARG A 34 SHEET 3 B 3 ARG A 68 PRO A 69 -1 O ARG A 68 N LEU A 44 SHEET 1 C 8 VAL B 9 MET B 15 0 SHEET 2 C 8 VAL B 91 LEU B 96 1 O VAL B 93 N ASP B 10 SHEET 3 C 8 LEU B 131 ALA B 135 1 O PHE B 134 N ILE B 94 SHEET 4 C 8 CYS B 159 LEU B 164 1 O GLY B 161 N ALA B 135 SHEET 5 C 8 LEU B 191 LEU B 194 1 O PHE B 193 N ILE B 162 SHEET 6 C 8 MET B 247 LEU B 249 1 O LEU B 248 N VAL B 192 SHEET 7 C 8 ILE B 294 ASP B 297 1 O TYR B 295 N MET B 247 SHEET 8 C 8 LEU B 318 MET B 319 1 O MET B 319 N LEU B 296 SHEET 1 D 3 LEU B 32 ARG B 34 0 SHEET 2 D 3 ARG B 43 ILE B 45 -1 O ARG B 43 N ARG B 34 SHEET 3 D 3 ARG B 68 PRO B 69 -1 O ARG B 68 N LEU B 44 LINK NE2 HIS A 12 ZN ZN A 401 1555 1555 2.26 LINK NE2 HIS A 14 ZN ZN A 401 1555 1555 2.30 LINK NE2 HIS A 195 ZN ZN A 401 1555 1555 2.27 LINK OD1 ASN A 323 ZN ZN A 401 1555 1555 2.23 LINK ZN ZN A 401 O4 5CU A 402 1555 1555 2.09 LINK ZN ZN A 401 O52 5CU A 402 1555 1555 2.19 LINK NE2 HIS B 12 ZN ZN B 401 1555 1555 2.32 LINK NE2 HIS B 14 ZN ZN B 401 1555 1555 2.36 LINK NE2 HIS B 195 ZN ZN B 401 1555 1555 2.31 LINK OD1 ASN B 323 ZN ZN B 401 1555 1555 2.24 LINK ZN ZN B 401 O4 5CU B 402 1555 1555 2.17 LINK ZN ZN B 401 O53 5CU B 402 1555 1555 2.21 CISPEP 1 THR A 5 PRO A 6 0 -2.18 CISPEP 2 ILE A 30 PRO A 31 0 -0.56 CISPEP 3 ASN A 98 PRO A 99 0 0.89 CISPEP 4 HIS A 324 PRO A 325 0 2.57 CISPEP 5 ILE B 30 PRO B 31 0 1.02 CISPEP 6 ASN B 98 PRO B 99 0 2.38 CISPEP 7 HIS B 324 PRO B 325 0 2.82 SITE 1 AC1 5 HIS A 12 HIS A 14 HIS A 195 ASN A 323 SITE 2 AC1 5 5CU A 402 SITE 1 AC2 14 HIS A 12 HIS A 14 ARG A 68 ASN A 98 SITE 2 AC2 14 HIS A 195 LEU A 218 PHE A 222 HIS A 251 SITE 3 AC2 14 ASN A 323 PHE A 326 PHE A 327 ZN A 401 SITE 4 AC2 14 ARG B 262 HOH B 503 SITE 1 AC3 9 TYR A 234 MET A 235 GLY A 237 ASP A 240 SITE 2 AC3 9 LYS A 278 ARG A 283 HOH A 566 HOH A 602 SITE 3 AC3 9 GLU B 211 SITE 1 AC4 5 ASP A 102 SER A 140 SER A 167 TYR A 198 SITE 2 AC4 5 HOH A 661 SITE 1 AC5 6 ALA A 148 ARG A 152 HOH A 578 HOH A 650 SITE 2 AC5 6 HOH A 669 ARG B 152 SITE 1 AC6 5 HIS B 12 HIS B 14 HIS B 195 ASN B 323 SITE 2 AC6 5 5CU B 402 SITE 1 AC7 13 ARG A 262 HIS B 12 HIS B 14 ARG B 68 SITE 2 AC7 13 ASN B 98 HIS B 195 LEU B 218 PHE B 222 SITE 3 AC7 13 HIS B 251 ASN B 323 PHE B 326 ZN B 401 SITE 4 AC7 13 HOH B 509 SITE 1 AC8 7 GLU A 211 TYR B 234 MET B 235 GLY B 237 SITE 2 AC8 7 ASP B 240 LYS B 278 HOH B 563 CRYST1 77.361 77.361 134.421 90.00 90.00 90.00 P 41 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 0.012926 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012926 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007439 0.00000