HEADER SUGAR BINDING PROTEIN 07-JUN-18 6DNT TITLE UDP-N-ACETYLGLUCOSAMINE 4-EPIMERASE FROM METHANOBREVIBACTER TITLE 2 RUMINANTIUM M1 IN COMPLEX WITH UDP-N-ACETYLMURAMIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT EPIMERASE/DEHYDRATASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOBREVIBACTER RUMINANTIUM (STRAIN ATCC SOURCE 3 35063 / DSM 1093 / JCM 13430 / OCM 146 / M1); SOURCE 4 ORGANISM_COMMON: METHANOBACTERIUM RUMINANTIUM; SOURCE 5 ORGANISM_TAXID: 634498; SOURCE 6 STRAIN: ATCC 35063 / DSM 1093 / JCM 13430 / OCM 146 / M1; SOURCE 7 GENE: MRU_1413; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UDP-N-ACETYLGLUCOSAMINE, WBPP, 4-EPIMERASE, UDP-N-ACETYLMURAMIC ACID, KEYWDS 2 SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR V.CARBONE,L.R.SCHOFIELD,C.SANG,A.J.SUTHERLAND-SMITH,R.S.RONIMUS REVDAT 3 11-OCT-23 6DNT 1 LINK REVDAT 2 26-DEC-18 6DNT 1 JRNL REVDAT 1 03-OCT-18 6DNT 0 JRNL AUTH V.CARBONE,L.R.SCHOFIELD,C.SANG,A.J.SUTHERLAND-SMITH, JRNL AUTH 2 R.S.RONIMUS JRNL TITL STRUCTURAL DETERMINATION OF ARCHAEAL UDP-N-ACETYLGLUCOSAMINE JRNL TITL 2 4-EPIMERASE FROM METHANOBREVIBACTER RUMINANTIUM M1 IN JRNL TITL 3 COMPLEX WITH THE BACTERIAL CELL WALL INTERMEDIATE JRNL TITL 4 UDP-N-ACETYLMURAMIC ACID. JRNL REF PROTEINS V. 86 1306 2018 JRNL REFN ESSN 1097-0134 JRNL PMID 30242905 JRNL DOI 10.1002/PROT.25606 REMARK 2 REMARK 2 RESOLUTION. 1.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 43115 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.172 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 2149 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) : 1.66 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2868 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.2190 REMARK 3 BIN FREE R VALUE SET COUNT : 128 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2441 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 105 REMARK 3 SOLVENT ATOMS : 301 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : -0.14000 REMARK 3 B12 (A**2) : 0.02000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.079 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.076 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.051 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.509 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2735 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2570 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3725 ; 1.389 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5965 ; 0.895 ; 2.982 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 338 ; 5.808 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 123 ;38.572 ;26.098 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 475 ;13.172 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;19.143 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 404 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3105 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 589 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 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 : NULL 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 : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6DNT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1000235026. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-NOV-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95370 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.28 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45299 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 41.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 12.90 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 56.9 REMARK 200 DATA REDUNDANCY IN SHELL : 10.40 REMARK 200 R MERGE FOR SHELL (I) : 0.77300 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: MOLREP REMARK 200 STARTING MODEL: 3RU7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M NACL, 0.1 M BIS-TRIS PH 5.9 AND REMARK 280 25% (W/V) PEG 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.57233 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 55.14467 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 55.14467 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 27.57233 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: 6120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25000 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -55.14467 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 ZN ZN A 403 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 793 LIES ON A SPECIAL POSITION. 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 -32 REMARK 465 HIS A -31 REMARK 465 HIS A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 GLY A -25 REMARK 465 LYS A -24 REMARK 465 PRO A -23 REMARK 465 ILE A -22 REMARK 465 PRO A -21 REMARK 465 ASN A -20 REMARK 465 PRO A -19 REMARK 465 LEU A -18 REMARK 465 LEU A -17 REMARK 465 GLY A -16 REMARK 465 LEU A -15 REMARK 465 ASP A -14 REMARK 465 SER A -13 REMARK 465 THR A -12 REMARK 465 GLU A -11 REMARK 465 ASN A -10 REMARK 465 LEU A -9 REMARK 465 TYR A -8 REMARK 465 PHE A -7 REMARK 465 GLN A -6 REMARK 465 GLY A -5 REMARK 465 ILE A -4 REMARK 465 ASP A -3 REMARK 465 PRO A -2 REMARK 465 PHE A -1 REMARK 465 THR A 0 REMARK 465 GLU A 311 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 SER A 119 -164.00 -103.22 REMARK 500 PHE A 172 -139.70 -95.05 REMARK 500 ARG A 178 3.67 81.81 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 801 DISTANCE = 6.99 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 ZN A 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 209 OE1 REMARK 620 2 GLU A 209 OE1 0.0 REMARK 620 3 HIS A 275 NE2 102.0 102.0 REMARK 620 4 HIS A 275 NE2 102.0 102.0 0.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPZ A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 407 DBREF 6DNT A 1 311 UNP D3E402 D3E402_METRM 1 311 SEQADV 6DNT MET A -32 UNP D3E402 EXPRESSION TAG SEQADV 6DNT HIS A -31 UNP D3E402 EXPRESSION TAG SEQADV 6DNT HIS A -30 UNP D3E402 EXPRESSION TAG SEQADV 6DNT HIS A -29 UNP D3E402 EXPRESSION TAG SEQADV 6DNT HIS A -28 UNP D3E402 EXPRESSION TAG SEQADV 6DNT HIS A -27 UNP D3E402 EXPRESSION TAG SEQADV 6DNT HIS A -26 UNP D3E402 EXPRESSION TAG SEQADV 6DNT GLY A -25 UNP D3E402 EXPRESSION TAG SEQADV 6DNT LYS A -24 UNP D3E402 EXPRESSION TAG SEQADV 6DNT PRO A -23 UNP D3E402 EXPRESSION TAG SEQADV 6DNT ILE A -22 UNP D3E402 EXPRESSION TAG SEQADV 6DNT PRO A -21 UNP D3E402 EXPRESSION TAG SEQADV 6DNT ASN A -20 UNP D3E402 EXPRESSION TAG SEQADV 6DNT PRO A -19 UNP D3E402 EXPRESSION TAG SEQADV 6DNT LEU A -18 UNP D3E402 EXPRESSION TAG SEQADV 6DNT LEU A -17 UNP D3E402 EXPRESSION TAG SEQADV 6DNT GLY A -16 UNP D3E402 EXPRESSION TAG SEQADV 6DNT LEU A -15 UNP D3E402 EXPRESSION TAG SEQADV 6DNT ASP A -14 UNP D3E402 EXPRESSION TAG SEQADV 6DNT SER A -13 UNP D3E402 EXPRESSION TAG SEQADV 6DNT THR A -12 UNP D3E402 EXPRESSION TAG SEQADV 6DNT GLU A -11 UNP D3E402 EXPRESSION TAG SEQADV 6DNT ASN A -10 UNP D3E402 EXPRESSION TAG SEQADV 6DNT LEU A -9 UNP D3E402 EXPRESSION TAG SEQADV 6DNT TYR A -8 UNP D3E402 EXPRESSION TAG SEQADV 6DNT PHE A -7 UNP D3E402 EXPRESSION TAG SEQADV 6DNT GLN A -6 UNP D3E402 EXPRESSION TAG SEQADV 6DNT GLY A -5 UNP D3E402 EXPRESSION TAG SEQADV 6DNT ILE A -4 UNP D3E402 EXPRESSION TAG SEQADV 6DNT ASP A -3 UNP D3E402 EXPRESSION TAG SEQADV 6DNT PRO A -2 UNP D3E402 EXPRESSION TAG SEQADV 6DNT PHE A -1 UNP D3E402 EXPRESSION TAG SEQADV 6DNT THR A 0 UNP D3E402 EXPRESSION TAG SEQRES 1 A 344 MET HIS HIS HIS HIS HIS HIS GLY LYS PRO ILE PRO ASN SEQRES 2 A 344 PRO LEU LEU GLY LEU ASP SER THR GLU ASN LEU TYR PHE SEQRES 3 A 344 GLN GLY ILE ASP PRO PHE THR MET LYS ASP LYS ASN VAL SEQRES 4 A 344 VAL VAL THR GLY GLY LEU GLY PHE ILE GLY SER HIS ILE SEQRES 5 A 344 VAL ASP ALA LEU ILE ASP ASP ASN LYS VAL THR ILE ILE SEQRES 6 A 344 ASP ASN LEU SER SER GLY LYS MET GLU ASN LEU ASN ASN SEQRES 7 A 344 PRO ASN HIS GLU ASN LEU THR ILE ILE LYS GLU ASP LEU SEQRES 8 A 344 MET ASP ALA ASP LEU GLU LYS ILE LEU LYS ASP LYS ASP SEQRES 9 A 344 TYR VAL PHE HIS LEU ALA ALA LEU ALA SER VAL PRO GLY SEQRES 10 A 344 SER VAL ALA GLU PRO LEU ARG TYR ASN GLN ASN ASN ILE SEQRES 11 A 344 ASP ALA SER LEU LYS LEU PHE ILE ALA CYS LYS ASN ASN SEQRES 12 A 344 ASN ILE LYS LYS VAL ILE PHE SER SER SER SER ALA VAL SEQRES 13 A 344 TYR GLY GLU ASN PRO ASN MET PRO LEU LYS GLU SER GLU SEQRES 14 A 344 ASN PHE LEU PRO CYS SER PRO TYR ALA ALA GLN LYS ALA SEQRES 15 A 344 SER CYS GLU LEU TYR LEU LYS SER PHE HIS GLU SER TYR SEQRES 16 A 344 GLY LEU ASP TYR VAL ALA LEU ARG TYR PHE ASN VAL PHE SEQRES 17 A 344 GLY PRO ARG GLN ASP GLU ASN SER PRO TYR ALA ALA VAL SEQRES 18 A 344 ILE PRO LYS PHE ILE SER ALA ILE LEU ASN GLY GLU SER SEQRES 19 A 344 PRO VAL ILE TYR GLY ASP GLY GLU GLN SER ARG ASP PHE SEQRES 20 A 344 ILE TYR VAL LYS GLU ILE ALA LYS ALA ASN ILE LEU SER SEQRES 21 A 344 ALA GLU SER ASP TYR ASN GLY VAL ILE ASN VAL ALA LEU SEQRES 22 A 344 GLY LYS SER MET THR ILE ASN ARG LEU PHE GLU ILE ILE SEQRES 23 A 344 SER ASP VAL LEU GLU SER ASP ILE ASP VAL LYS TYR LEU SEQRES 24 A 344 ASP GLU ARG PRO GLY ASP ILE LYS HIS SER LEU ALA ASP SEQRES 25 A 344 ILE SER ASN LEU ASP LYS ILE SER PHE LYS PRO ASP GLU SEQRES 26 A 344 ASP LYS PHE GLU GLU GLN LEU ARG GLU THR VAL LYS TRP SEQRES 27 A 344 PHE ILE SER GLN MET GLU HET NAD A 401 44 HET EPZ A 402 44 HET ZN A 403 1 HET EDO A 404 4 HET EDO A 405 8 HET EDO A 406 4 HET EDO A 407 4 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM EPZ (2R)-2-{[(2R,3R,4R,5S,6R)-3-(ACETYLAMINO)-2-{[(S)- HETNAM 2 EPZ {[(R)-{[(2R,3S,4R,5R)-5-(2,4-DIOXO-3,4- HETNAM 3 EPZ DIHYDROPYRIMIDIN-1(2H)-YL)-3,4- HETNAM 4 EPZ DIHYDROXYTETRAHYDROFURAN-2-YL]METHOXY}(HYDROXY) HETNAM 5 EPZ PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-5-HYDROXY-6- HETNAM 6 EPZ (HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-4-YL]OXY}PROPANOIC HETNAM 7 EPZ ACID HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NAD C21 H27 N7 O14 P2 FORMUL 3 EPZ C20 H31 N3 O19 P2 FORMUL 4 ZN ZN 2+ FORMUL 5 EDO 4(C2 H6 O2) FORMUL 9 HOH *301(H2 O) HELIX 1 AA1 GLY A 13 ILE A 24 1 12 HELIX 2 AA2 LYS A 39 LEU A 43 5 5 HELIX 3 AA3 ASP A 62 LEU A 67 1 6 HELIX 4 AA4 SER A 81 GLU A 88 1 8 HELIX 5 AA5 GLU A 88 ILE A 97 1 10 HELIX 6 AA6 ILE A 97 ASN A 110 1 14 HELIX 7 AA7 ALA A 122 GLY A 125 5 4 HELIX 8 AA8 SER A 142 GLY A 163 1 22 HELIX 9 AA9 ALA A 187 ASN A 198 1 12 HELIX 10 AB1 VAL A 217 SER A 230 1 14 HELIX 11 AB2 ILE A 246 LEU A 257 1 12 HELIX 12 AB3 ILE A 280 SER A 287 5 8 HELIX 13 AB4 LYS A 294 GLN A 309 1 16 SHEET 1 AA1 7 LEU A 51 ILE A 54 0 SHEET 2 AA1 7 LYS A 28 ILE A 32 1 N ILE A 31 O THR A 52 SHEET 3 AA1 7 ASN A 5 THR A 9 1 N VAL A 6 O THR A 30 SHEET 4 AA1 7 TYR A 72 HIS A 75 1 O PHE A 74 N VAL A 7 SHEET 5 AA1 7 LYS A 114 SER A 120 1 O ILE A 116 N VAL A 73 SHEET 6 AA1 7 TYR A 166 TYR A 171 1 O LEU A 169 N PHE A 117 SHEET 7 AA1 7 GLY A 234 VAL A 238 1 O VAL A 238 N ARG A 170 SHEET 1 AA2 2 ASN A 173 PHE A 175 0 SHEET 2 AA2 2 PHE A 214 TYR A 216 1 O ILE A 215 N ASN A 173 SHEET 1 AA3 2 VAL A 203 TYR A 205 0 SHEET 2 AA3 2 LYS A 264 LEU A 266 1 O LEU A 266 N ILE A 204 SHEET 1 AA4 2 SER A 211 ARG A 212 0 SHEET 2 AA4 2 MET A 244 THR A 245 -1 O MET A 244 N ARG A 212 LINK OE1 GLU A 209 ZN ZN A 403 1555 1555 2.05 LINK OE1 GLU A 209 ZN ZN A 403 1555 5554 1.95 LINK NE2 HIS A 275 ZN ZN A 403 1555 1555 2.14 LINK NE2 HIS A 275 ZN ZN A 403 1555 5554 2.09 CISPEP 1 MET A 130 PRO A 131 0 -2.21 SITE 1 AC1 35 GLY A 10 LEU A 12 GLY A 13 PHE A 14 SITE 2 AC1 35 ILE A 15 ASP A 33 ASN A 34 LEU A 35 SITE 3 AC1 35 SER A 36 SER A 37 GLY A 38 GLU A 56 SITE 4 AC1 35 ASP A 57 LEU A 58 LEU A 76 ALA A 77 SITE 5 AC1 35 ALA A 78 ALA A 80 ASN A 95 SER A 118 SITE 6 AC1 35 SER A 119 TYR A 144 LYS A 148 TYR A 171 SITE 7 AC1 35 PHE A 172 VAL A 174 EPZ A 402 HOH A 518 SITE 8 AC1 35 HOH A 536 HOH A 547 HOH A 569 HOH A 582 SITE 9 AC1 35 HOH A 623 HOH A 624 HOH A 650 SITE 1 AC2 32 ALA A 80 SER A 120 SER A 121 TYR A 144 SITE 2 AC2 32 PHE A 172 ASN A 173 TYR A 185 ALA A 187 SITE 3 AC2 32 VAL A 188 LYS A 191 VAL A 203 ILE A 204 SITE 4 AC2 32 TYR A 205 GLN A 210 ARG A 212 ILE A 246 SITE 5 AC2 32 ARG A 269 ASP A 272 NAD A 401 HOH A 507 SITE 6 AC2 32 HOH A 525 HOH A 526 HOH A 559 HOH A 564 SITE 7 AC2 32 HOH A 567 HOH A 613 HOH A 624 HOH A 641 SITE 8 AC2 32 HOH A 659 HOH A 674 HOH A 680 HOH A 681 SITE 1 AC3 2 GLU A 209 HIS A 275 SITE 1 AC4 6 ALA A 80 SER A 81 TYR A 92 HOH A 536 SITE 2 AC4 6 HOH A 544 HOH A 569 SITE 1 AC5 5 ASN A 247 PHE A 250 GLU A 251 ASP A 262 SITE 2 AC5 5 TYR A 265 SITE 1 AC6 4 ASP A 207 GLU A 268 HOH A 514 HOH A 589 SITE 1 AC7 2 ASP A 60 GLN A 94 CRYST1 89.497 89.497 82.717 90.00 90.00 120.00 P 31 2 1 6 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 0.011174 0.006451 0.000000 0.00000 SCALE2 0.000000 0.012902 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012089 0.00000