5DK6 - Header Asymmetric Unit

HEADER HYDROLASE 03-SEP-15 5DK6

TITLE CRYSTAL STRUCTURE OF A 5'-METHYLTHIOADENOSINE/S-ADENOSYLHOMOCYSTEINE TITLE 2 (MTA/SAH) NUCLEOSIDASE (MTAN) FROM COLWELLIA PSYCHRERYTHRAEA 34H TITLE 3 (CPS_4743, TARGET PSI-029300) IN COMPLEX WITH ADENINE AT 2.27 A TITLE 4 RESOLUTION

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-METHYLTHIOADENOSINE/S-ADENOSYLHOMOCYSTEINE NUCLEOSIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MTAN,5'-METHYLTHIOADENOSINE NUCLEOSIDASE,MTA NUCLEOSIDASE,S- COMPND 5 ADENOSYLHOMOCYSTEINE NUCLEOSIDASE,SRH NUCLEOSIDASE; COMPND 6 EC: 3.2.2.9; COMPND 7 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: COLWELLIA PSYCHRERYTHRAEA; SOURCE 3 ORGANISM_TAXID: 167879; SOURCE 4 STRAIN: 34H / ATCC BAA-681; SOURCE 5 GENE: MTNN, CPS_4743; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET

KEYWDS HYDROLASE, MTA/SAH NUCLEOSIDASE FAMILY, MTAN, GAMMAPROTEOBACTERIA, KEYWDS 2 VIBRIO PSYCHROERYTHUS, ADENINE, PROTEIN-LIGAND COMPLEX, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, PSI-BIOLOGY, STRUCTURAL GENOMICS, NEW YORK KEYWDS 4 STRUCTURAL GENOMICS RESEARCH CONSORTIUM, NYSGRC

EXPDTA X-RAY DIFFRACTION

AUTHOR D.M.HIMMEL,R.BHOSLE,R.TORO,M.AHMED,B.HILLERICH,A.GIZZI,S.GARFORTH, AUTHOR 2 A.KAR,M.K.CHAN,J.LAFLUER,H.PATEL,B.MATIKAINEN,S.CHAMALA,S.LIM, AUTHOR 3 A.CELIKGIL,G.VILLEGAS,B.EVANS,J.LOVE,A.FISER,R.D.SEIDEL,J.B.BONANNO, AUTHOR 4 S.C.ALMO,NEW YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM (NYSGRC)

REVDAT 1 04-NOV-15 5DK6 0

JRNL AUTH D.M.HIMMEL,R.BHOSLE,R.TORO,M.AHMED,B.HILLERICH,A.GIZZI, JRNL AUTH 2 S.GARFORTH,A.KAR,M.K.CHAN,J.LAFLUER,H.PATEL,B.MATIKAINEN, JRNL AUTH 3 S.CHAMALA,S.LIM,A.CELIKGIL,G.VILLEGAS,B.EVANS,J.LOVE, JRNL AUTH 4 A.FISER,R.D.SEIDEL,J.B.BONANNO,S.C.ALMO, JRNL AUTH 5 NEW YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM (NYSGRC) JRNL TITL CRYSTAL STRUCTURE OF A JRNL TITL 2 5'-METHYLTHIOADENOSINE/S-ADENOSYLHOMOCYSTEINE JRNL TITL 3 (MTA/SAH)NUCLEOSIDASE (MTAN) FROM COLWELLIA PSYCHRERYTHRAEA JRNL TITL 4 34H (CPS_4743, TARGET PSI-029300) IN COMPLEX WITH ADENINE AT JRNL TITL 5 2.27 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.THOMAS,S.A.CAMERON,S.C.ALMO,E.S.BURGOS,S.A.GULAB, REMARK 1 AUTH 2 V.L.SCHRAMM REMARK 1 TITL ACTIVE SITE AND REMOTE CONTRIBUTIONS TO CATALYSIS IN REMARK 1 TITL 2 METHYLTHIOADENOSINE NUCLEOSIDASES. REMARK 1 REF BIOCHEMISTRY V. 54 2520 2015 REMARK 1 REFN ISSN 1520-4995 REMARK 1 PMID 25806409 REMARK 1 DOI 10.1021/BI501487W REMARK 1 REFERENCE 2 REMARK 1 AUTH J.A.GUTIERREZ,T.CROWDER,A.RINALDO-MATTHIS,M.C.HO,S.C.ALMO, REMARK 1 AUTH 2 V.L.SCHRAMM REMARK 1 TITL TRANSITION STATE ANALOGS OF 5'-METHYLTHIOADENOSINE REMARK 1 TITL 2 NUCLEOSIDASE DISRUPT QUORUM SENSING. REMARK 1 REF NAT. CHEM. BIOL. V. 5 251 2009 REMARK 1 REFN ESSN 1552-4469 REMARK 1 PMID 19270684 REMARK 1 DOI 10.1038/NCHEMBIO.153

REMARK 2 REMARK 2 RESOLUTION. 2.27 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : MLHL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.27 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.28 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.450 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 20433 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1002 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 25.2798 - 4.3315 0.99 2978 170 0.1790 0.2064 REMARK 3 2 4.3315 - 3.4408 1.00 2835 149 0.1796 0.2104 REMARK 3 3 3.4408 - 3.0066 0.99 2783 164 0.2061 0.2416 REMARK 3 4 3.0066 - 2.7321 0.99 2795 125 0.2286 0.2557 REMARK 3 5 2.7321 - 2.5365 1.00 2766 145 0.2439 0.2738 REMARK 3 6 2.5365 - 2.3870 0.99 2768 124 0.2768 0.2928 REMARK 3 7 2.3870 - 2.2676 0.91 2506 125 0.2987 0.3245 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 31.60 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.270 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.16 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 1843 REMARK 3 ANGLE : 1.201 2493 REMARK 3 CHIRALITY : 0.043 295 REMARK 3 PLANARITY : 0.005 321 REMARK 3 DIHEDRAL : 18.474 657 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 5DK6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213175.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97931 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK 1.99.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37023 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.268 REMARK 200 RESOLUTION RANGE LOW (A) : 26.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -0.300 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.27 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.33700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.148 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX 1.9-1692 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN (37.95 MG/ML, 20 MM HEPES PH REMARK 280 7.5, 150 MM SODIUM CHLORIDE, 5% V/V GLYCEROL, 5 MM DTT) WERE REMARK 280 COMBINED WITH AN EQUAL VOLUME OF RESERVOIR (100 MM BICINE PH 8.0, REMARK 280 1.98 M AMMONIUM SULFATE, 135 MM SODIUM SUCCINATE, 4 MM GLYCINE, REMARK 280 15 MM CYMAL-7); CRYOPROTECTION (75 MM BICINE PH 8.0, 1.49 M REMARK 280 AMMONIUM SULFATE, 101 MM SODIUM SUCCINATE, 3 MM GLYCINE, 11 MM REMARK 280 CYMAL-7), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 46.89400 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 23.44700 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 35.17050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 11.72350 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 58.61750 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.89400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 23.44700 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 11.72350 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 35.17050 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 58.61750 REMARK 290 REMARK 290 REMARK: NULL

REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA.

REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 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 72.71350 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 125.94348 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 82.06450

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 HOH A 407 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 474 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 MSE A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 SER A -15 REMARK 465 SER A -14 REMARK 465 GLY A -13 REMARK 465 VAL A -12 REMARK 465 ASP A -11 REMARK 465 LEU A -10 REMARK 465 GLY A -9 REMARK 465 THR A -8 REMARK 465 GLU A -7 REMARK 465 ASN A -6 REMARK 465 THR A 139 REMARK 465 ALA A 140 REMARK 465 GLY A 141 REMARK 465 GLU A 142 REMARK 465 ALA A 242 REMARK 465 ALA A 243

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 VAL A 86 129.67 -37.80 REMARK 500 GLU A 134 43.61 -96.13 REMARK 500 GLU A 180 -22.49 -140.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ILE A 133 GLU A 134 137.47 REMARK 500 GLU A 134 GLN A 135 -140.50 REMARK 500 GLN A 135 LEU A 136 -115.53 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 GLY A 301

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GLY A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADE A 302

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4WKB RELATED DB: PDB REMARK 900 VIBRIO CHOLERAE 5'-METHYLTHIOADENOSINE/S-ADENOSYL HOMOCYSTEINE REMARK 900 NUCLEOSIDASE (MTAN) COMPLEXED WITH METHYLTHIO-DADME-IMMUCILLIN-A REMARK 900 RELATED ID: 4X24 RELATED DB: PDB REMARK 900 VIBRIO CHOLERAE 5'-METHYLTHIOADENOSINE/S-ADENOSYL HOMOCYSTEINE REMARK 900 NUCLEOSIDASE (MTAN) COMPLEXED WITH METHYLTHIO-DADME-IMMUCILLIN-A REMARK 900 RELATED ID: 3DP9 RELATED DB: PDB REMARK 900 VIBRIO CHOLERAE 5'-METHYLTHIOADENOSINE/S-ADENOSYL HOMOCYSTEINE REMARK 900 NUCLEOSIDASE (MTAN) COMPLEXED WITH BUTYLTHIO-DADME-IMMUCILLIN A REMARK 900 RELATED ID: 4G89 RELATED DB: PDB REMARK 900 K. PNEUMONIAE MTA/ADOHCY NUCLEOSIDASE IN COMPLEX WITH FRAGMENTED S- REMARK 900 ADENOSYL-L-HOMOCYSTEINE REMARK 900 RELATED ID: 4QEZ RELATED DB: PDB REMARK 900 5'-METHYLTHIOADENOSINE/S-ADENOSYLHOMOCYSTEINE NUCLEOSIDASE FROM REMARK 900 BACILLUS ANTHRACIS REMARK 900 RELATED ID: NYSGRC-029300 RELATED DB: TARGETTRACK

DBREF 5DK6 A 1 243 UNP Q47UY5 MTNN_COLP3 1 243

SEQADV 5DK6 MSE A -22 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 HIS A -21 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 HIS A -20 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 HIS A -19 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 HIS A -18 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 HIS A -17 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 HIS A -16 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 SER A -15 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 SER A -14 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 GLY A -13 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 VAL A -12 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 ASP A -11 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 LEU A -10 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 GLY A -9 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 THR A -8 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 GLU A -7 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 ASN A -6 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 LEU A -5 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 TYR A -4 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 PHE A -3 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 GLN A -2 UNP Q47UY5 EXPRESSION TAG SEQADV 5DK6 SER A -1 UNP Q47UY5 EXPRESSION TAG

SEQRES 1 A 265 MSE HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 265 GLY THR GLU ASN LEU TYR PHE GLN SER MSE LYS ALA GLY SEQRES 3 A 265 ILE ILE GLY ALA MSE GLU PRO GLU VAL ALA ILE LEU LYS SEQRES 4 A 265 GLU LYS LEU THR ASP ALA LYS SER THR GLU HIS ALA GLY SEQRES 5 A 265 TYR THR PHE HIS GLN GLY GLN LEU ASP GLY SER ASP VAL SEQRES 6 A 265 VAL ILE VAL GLN SER GLY ILE GLY LYS VAL ALA ALA ALA SEQRES 7 A 265 LEU ALA THR ALA ILE LEU ILE ASP ARG PHE GLN VAL ASP SEQRES 8 A 265 TYR VAL VAL ASN THR GLY SER ALA GLY GLY PHE ASP ALA SEQRES 9 A 265 SER LEU LYS VAL GLY ASP ILE VAL VAL SER SER GLU VAL SEQRES 10 A 265 ARG TYR HIS ASP VAL ASP LEU THR ALA PHE GLY TYR GLU SEQRES 11 A 265 ILE GLY GLN LEU PRO ALA ASN PRO ALA ALA PHE MSE PRO SEQRES 12 A 265 HIS ASP ASP LEU VAL ALA ALA ALA LYS LYS GLY ILE GLU SEQRES 13 A 265 GLN LEU SER GLN THR ALA GLY GLU ASN ILE LYS ALA VAL SEQRES 14 A 265 THR GLY LEU ILE THR THR GLY ASP THR PHE MSE THR LYS SEQRES 15 A 265 GLU GLU ASP VAL ALA LYS ALA ARG ALA ASN PHE PRO THR SEQRES 16 A 265 MSE ALA ALA VAL GLU MSE GLU GLY ALA ALA ILE ALA GLN SEQRES 17 A 265 ALA CYS LEU GLN LEU LYS THR PRO PHE VAL VAL ILE ARG SEQRES 18 A 265 SER LEU SER ASP ILE ALA GLY LYS GLU SER PRO HIS THR SEQRES 19 A 265 PHE GLU GLU TYR LEU GLU THR ALA ALA VAL ASN SER SER SEQRES 20 A 265 GLN LEU VAL LEU ASN MSE LEU GLY GLN LEU LYS GLY LYS SEQRES 21 A 265 VAL LEU SER ALA ALA

MODRES 5DK6 MSE A 1 MET MODIFIED RESIDUE MODRES 5DK6 MSE A 9 MET MODIFIED RESIDUE MODRES 5DK6 MSE A 120 MET MODIFIED RESIDUE MODRES 5DK6 MSE A 158 MET MODIFIED RESIDUE MODRES 5DK6 MSE A 174 MET MODIFIED RESIDUE MODRES 5DK6 MSE A 179 MET MODIFIED RESIDUE MODRES 5DK6 MSE A 231 MET MODIFIED RESIDUE

HET MSE A 1 8 HET MSE A 9 8 HET MSE A 120 8 HET MSE A 158 8 HET MSE A 174 8 HET MSE A 179 8 HET MSE A 231 8 HET GLY A 301 4 HET ADE A 302 10

HETNAM MSE SELENOMETHIONINE HETNAM GLY GLYCINE HETNAM ADE ADENINE

FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 2 GLY C2 H5 N O2 FORMUL 3 ADE C5 H5 N5 FORMUL 4 HOH *101(H2 O)

HELIX 1 AA1 GLU A 10 LYS A 19 1 10 HELIX 2 AA2 GLY A 51 GLN A 67 1 17 HELIX 3 AA3 LEU A 102 GLY A 106 5 5 HELIX 4 AA4 HIS A 122 ILE A 133 1 12 HELIX 5 AA5 LYS A 160 PHE A 171 1 12 HELIX 6 AA6 GLU A 180 LEU A 191 1 12 HELIX 7 AA7 GLU A 208 LEU A 235 1 28

SHEET 1 AA110 THR A 21 HIS A 28 0 SHEET 2 AA110 TYR A 31 LEU A 38 -1 O GLN A 35 N LYS A 24 SHEET 3 AA110 SER A 41 GLN A 47 -1 O ILE A 45 N HIS A 34 SHEET 4 AA110 ALA A 3 GLY A 7 1 N ILE A 5 O VAL A 44 SHEET 5 AA110 TYR A 70 GLY A 79 1 O VAL A 72 N GLY A 4 SHEET 6 AA110 PHE A 195 ILE A 204 1 O ILE A 198 N ASN A 73 SHEET 7 AA110 ILE A 89 TYR A 97 -1 N VAL A 90 O ARG A 199 SHEET 8 AA110 ALA A 146 THR A 153 1 O VAL A 147 N VAL A 91 SHEET 9 AA110 MSE A 174 GLU A 178 1 O ALA A 175 N LEU A 150 SHEET 10 AA110 TYR A 70 GLY A 79 -1 N GLY A 78 O VAL A 177

LINK C SER A -1 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N LYS A 2 1555 1555 1.32 LINK C ALA A 8 N MSE A 9 1555 1555 1.33 LINK C MSE A 9 N GLU A 10 1555 1555 1.34 LINK C PHE A 119 N MSE A 120 1555 1555 1.33 LINK C MSE A 120 N PRO A 121 1555 1555 1.32 LINK C PHE A 157 N MSE A 158 1555 1555 1.33 LINK C MSE A 158 N THR A 159 1555 1555 1.33 LINK C THR A 173 N MSE A 174 1555 1555 1.34 LINK C MSE A 174 N ALA A 175 1555 1555 1.32 LINK C GLU A 178 N MSE A 179 1555 1555 1.33 LINK C MSE A 179 N GLU A 180 1555 1555 1.33 LINK C ASN A 230 N MSE A 231 1555 1555 1.33 LINK C MSE A 231 N LEU A 232 1555 1555 1.33

SITE 1 AC1 1 MSE A 9 SITE 1 AC2 10 ALA A 77 GLY A 78 PHE A 157 MSE A 158 SITE 2 AC2 10 VAL A 177 GLU A 178 MSE A 179 SER A 202 SITE 3 AC2 10 ASP A 203 HOH A 469

CRYST1 145.427 145.427 70.341 90.00 90.00 120.00 P 65 2 2 12

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 0.006876 0.003970 0.000000 0.00000

SCALE2 0.000000 0.007940 0.000000 0.00000

SCALE3 0.000000 0.000000 0.014216 0.00000