HEADER TRANSFERASE/ANTIBIOTIC 16-MAY-19 6P04 TITLE BINARY STRUCTURE OF THE E52D MUTANT OF ANT-4'' WITH NEOMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: KANAMYCIN NUCLEOTIDYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.7.-; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SP.; SOURCE 3 ORGANISM_TAXID: 1409; SOURCE 4 GENE: KNT, KAN; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI-PICHIA PASTORIS SHUTTLE VECTOR SOURCE 6 PPPARG4; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 1182032 KEYWDS AMINOGLYCOSIDE NUCELOTIDYL TRANSFERASE (ANT), AMINOGLYCOSIDE KEYWDS 2 MODIFYING ENZYMES (AGMES), DNA POLYMERASE, ANTIBIOTIC, TRANSFERASE- KEYWDS 3 ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.SELVARAJ,M.J.CUNEO REVDAT 4 11-OCT-23 6P04 1 LINK REVDAT 3 20-MAY-20 6P04 1 JRNL REVDAT 2 06-MAY-20 6P04 1 JRNL REVDAT 1 29-JAN-20 6P04 0 JRNL AUTH B.SELVARAJ,S.KOCAMAN,M.TRIFAS,E.H.SERPERSU,M.J.CUNEO JRNL TITL "CATCH AND RELEASE": A VARIATION OF THE ARCHETYPAL JRNL TITL 2 NUCLEOTIDYL TRANSFER REACTION JRNL REF ACS CATALYSIS V. 10 3548 2020 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/ACSCATAL.9B05201 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.13_2998: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.23 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 26263 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.430 REMARK 3 FREE R VALUE TEST SET COUNT : 1427 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 49.2363 - 4.9539 0.93 2525 152 0.1626 0.1699 REMARK 3 2 4.9539 - 3.9326 0.97 2475 153 0.1470 0.1706 REMARK 3 3 3.9326 - 3.4356 0.97 2486 152 0.1743 0.2298 REMARK 3 4 3.4356 - 3.1216 0.97 2446 165 0.2058 0.2584 REMARK 3 5 3.1216 - 2.8979 0.98 2460 153 0.2295 0.2851 REMARK 3 6 2.8979 - 2.7270 0.99 2498 135 0.2377 0.3090 REMARK 3 7 2.7270 - 2.5905 0.99 2499 141 0.2416 0.2948 REMARK 3 8 2.5905 - 2.4777 0.99 2512 116 0.2378 0.3340 REMARK 3 9 2.4777 - 2.3823 0.99 2500 122 0.2550 0.3038 REMARK 3 10 2.3823 - 2.3001 0.98 2435 138 0.2847 0.3444 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.690 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 4371 REMARK 3 ANGLE : 0.804 5961 REMARK 3 CHIRALITY : 0.044 667 REMARK 3 PLANARITY : 0.006 757 REMARK 3 DIHEDRAL : 7.685 3468 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 6P04 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1000241695. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26344 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 49.225 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.16200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.64400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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: 1KNY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 8K, 0.1 M TRIS PH8.0, 0.1M REMARK 280 MGCL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 29.35000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.91000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.22500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.91000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.35000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.22500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 408 O HOH B 402 2.17 REMARK 500 OH TYR B 110 O HOH B 401 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 42 CD - NE - CZ ANGL. DEV. = 19.4 DEGREES REMARK 500 ARG A 42 NE - CZ - NH1 ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG A 42 NE - CZ - NH2 ANGL. DEV. = -14.3 DEGREES REMARK 500 THR A 44 CA - CB - CG2 ANGL. DEV. = -8.6 DEGREES REMARK 500 GLU A 221 CG - CD - OE2 ANGL. DEV. = -12.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 37 -167.01 -124.31 REMARK 500 GLU A 63 89.68 -163.27 REMARK 500 SER A 105 25.17 -141.23 REMARK 500 ASP A 111 108.38 -160.74 REMARK 500 GLU A 142 -58.27 -123.66 REMARK 500 TYR B 37 -167.77 -128.11 REMARK 500 GLU B 63 91.50 -161.74 REMARK 500 SER B 105 27.70 -140.84 REMARK 500 ASP B 111 110.97 -160.52 REMARK 500 GLU B 142 -59.89 -124.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 42 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 145 OE2 REMARK 620 2 NMY A 301 O4 75.4 REMARK 620 3 HOH A 405 O 77.2 53.5 REMARK 620 4 GLU B 76 OE2 135.6 120.8 147.0 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 NMY A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NMY A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NLT RELATED DB: PDB REMARK 900 RELATED ID: 6NMK RELATED DB: PDB REMARK 900 RELATED ID: 6NML RELATED DB: PDB REMARK 900 RELATED ID: 6NMM RELATED DB: PDB REMARK 900 RELATED ID: 6NMN RELATED DB: PDB REMARK 900 RELATED ID: 6POI RELATED DB: PDB DBREF 6P04 A 1 253 UNP P05058 KANU_BACSP 1 253 DBREF 6P04 B 1 253 UNP P05058 KANU_BACSP 1 253 SEQADV 6P04 GLY A -2 UNP P05058 EXPRESSION TAG SEQADV 6P04 SER A -1 UNP P05058 EXPRESSION TAG SEQADV 6P04 HIS A 0 UNP P05058 EXPRESSION TAG SEQADV 6P04 ASP A 52 UNP P05058 GLU 52 ENGINEERED MUTATION SEQADV 6P04 GLY B -2 UNP P05058 EXPRESSION TAG SEQADV 6P04 SER B -1 UNP P05058 EXPRESSION TAG SEQADV 6P04 HIS B 0 UNP P05058 EXPRESSION TAG SEQADV 6P04 ASP B 52 UNP P05058 GLU 52 ENGINEERED MUTATION SEQRES 1 A 256 GLY SER HIS MET ASN GLY PRO ILE ILE MET THR ARG GLU SEQRES 2 A 256 GLU ARG MET LYS ILE VAL HIS GLU ILE LYS GLU ARG ILE SEQRES 3 A 256 LEU ASP LYS TYR GLY ASP ASP VAL LYS ALA ILE GLY VAL SEQRES 4 A 256 TYR GLY SER LEU GLY ARG GLN THR ASP GLY PRO TYR SER SEQRES 5 A 256 ASP ILE ASP MET MET CYS VAL MET SER THR GLU GLU ALA SEQRES 6 A 256 GLU PHE SER HIS GLU TRP THR THR GLY GLU TRP LYS VAL SEQRES 7 A 256 GLU VAL ASN PHE ASP SER GLU GLU ILE LEU LEU ASP TYR SEQRES 8 A 256 ALA SER GLN VAL GLU SER ASP TRP PRO LEU THR HIS GLY SEQRES 9 A 256 GLN PHE PHE SER ILE LEU PRO ILE TYR ASP SER GLY GLY SEQRES 10 A 256 TYR LEU GLU LYS VAL TYR GLN THR ALA LYS SER VAL GLU SEQRES 11 A 256 ALA GLN LYS PHE HIS ASP ALA ILE CYS ALA LEU ILE VAL SEQRES 12 A 256 GLU GLU LEU PHE GLU TYR ALA GLY LYS TRP ARG ASN ILE SEQRES 13 A 256 ARG VAL GLN GLY PRO THR THR PHE LEU PRO SER LEU THR SEQRES 14 A 256 VAL GLN VAL ALA MET ALA GLY ALA MET LEU ILE GLY LEU SEQRES 15 A 256 HIS HIS ARG ILE CYS TYR THR THR SER ALA SER VAL LEU SEQRES 16 A 256 THR GLU ALA VAL LYS GLN SER ASP LEU PRO SER GLY TYR SEQRES 17 A 256 ASP HIS LEU CYS GLN PHE VAL MET SER GLY GLN LEU SER SEQRES 18 A 256 ASP SER GLU LYS LEU LEU GLU SER LEU GLU ASN PHE TRP SEQRES 19 A 256 ASN GLY ILE GLN GLU TRP THR GLU ARG HIS GLY TYR ILE SEQRES 20 A 256 VAL ASP VAL SER LYS ARG ILE PRO PHE SEQRES 1 B 256 GLY SER HIS MET ASN GLY PRO ILE ILE MET THR ARG GLU SEQRES 2 B 256 GLU ARG MET LYS ILE VAL HIS GLU ILE LYS GLU ARG ILE SEQRES 3 B 256 LEU ASP LYS TYR GLY ASP ASP VAL LYS ALA ILE GLY VAL SEQRES 4 B 256 TYR GLY SER LEU GLY ARG GLN THR ASP GLY PRO TYR SER SEQRES 5 B 256 ASP ILE ASP MET MET CYS VAL MET SER THR GLU GLU ALA SEQRES 6 B 256 GLU PHE SER HIS GLU TRP THR THR GLY GLU TRP LYS VAL SEQRES 7 B 256 GLU VAL ASN PHE ASP SER GLU GLU ILE LEU LEU ASP TYR SEQRES 8 B 256 ALA SER GLN VAL GLU SER ASP TRP PRO LEU THR HIS GLY SEQRES 9 B 256 GLN PHE PHE SER ILE LEU PRO ILE TYR ASP SER GLY GLY SEQRES 10 B 256 TYR LEU GLU LYS VAL TYR GLN THR ALA LYS SER VAL GLU SEQRES 11 B 256 ALA GLN LYS PHE HIS ASP ALA ILE CYS ALA LEU ILE VAL SEQRES 12 B 256 GLU GLU LEU PHE GLU TYR ALA GLY LYS TRP ARG ASN ILE SEQRES 13 B 256 ARG VAL GLN GLY PRO THR THR PHE LEU PRO SER LEU THR SEQRES 14 B 256 VAL GLN VAL ALA MET ALA GLY ALA MET LEU ILE GLY LEU SEQRES 15 B 256 HIS HIS ARG ILE CYS TYR THR THR SER ALA SER VAL LEU SEQRES 16 B 256 THR GLU ALA VAL LYS GLN SER ASP LEU PRO SER GLY TYR SEQRES 17 B 256 ASP HIS LEU CYS GLN PHE VAL MET SER GLY GLN LEU SER SEQRES 18 B 256 ASP SER GLU LYS LEU LEU GLU SER LEU GLU ASN PHE TRP SEQRES 19 B 256 ASN GLY ILE GLN GLU TRP THR GLU ARG HIS GLY TYR ILE SEQRES 20 B 256 VAL ASP VAL SER LYS ARG ILE PRO PHE HET NMY A 300 42 HET NMY A 301 42 HET MG A 302 1 HETNAM NMY NEOMYCIN HETNAM MG MAGNESIUM ION HETSYN NMY MYCIFRADIN; NEOMAS; PIMAVECORT; VONAMYCIN FORMUL 3 NMY 2(C23 H46 N6 O13) FORMUL 5 MG MG 2+ FORMUL 6 HOH *143(H2 O) HELIX 1 AA1 THR A 8 GLY A 28 1 21 HELIX 2 AA2 GLU A 82 SER A 90 1 9 HELIX 3 AA3 ASP A 95 HIS A 100 1 6 HELIX 4 AA4 GLY A 101 SER A 105 5 5 HELIX 5 AA5 GLY A 114 SER A 125 1 12 HELIX 6 AA6 GLU A 127 GLU A 142 1 16 HELIX 7 AA7 GLU A 142 GLY A 157 1 16 HELIX 8 AA8 PRO A 158 THR A 160 5 3 HELIX 9 AA9 PHE A 161 ARG A 182 1 22 HELIX 10 AB1 THR A 187 ALA A 189 5 3 HELIX 11 AB2 SER A 190 LYS A 197 1 8 HELIX 12 AB3 GLY A 204 GLY A 215 1 12 HELIX 13 AB4 ASP A 219 HIS A 241 1 23 HELIX 14 AB5 THR B 8 GLY B 28 1 21 HELIX 15 AB6 GLU B 82 SER B 90 1 9 HELIX 16 AB7 ASP B 95 HIS B 100 1 6 HELIX 17 AB8 GLY B 101 SER B 105 5 5 HELIX 18 AB9 GLY B 114 SER B 125 1 12 HELIX 19 AC1 GLU B 127 GLU B 142 1 16 HELIX 20 AC2 GLU B 142 GLY B 157 1 16 HELIX 21 AC3 PRO B 158 THR B 160 5 3 HELIX 22 AC4 PHE B 161 ARG B 182 1 22 HELIX 23 AC5 SER B 190 VAL B 196 1 7 HELIX 24 AC6 GLY B 204 GLY B 215 1 12 HELIX 25 AC7 ASP B 219 HIS B 241 1 23 SHEET 1 AA1 5 GLU A 63 THR A 69 0 SHEET 2 AA1 5 LYS A 74 SER A 81 -1 O PHE A 79 N PHE A 64 SHEET 3 AA1 5 ILE A 51 MET A 57 1 N MET A 57 O ASP A 80 SHEET 4 AA1 5 VAL A 31 TYR A 37 -1 N LYS A 32 O VAL A 56 SHEET 5 AA1 5 LEU A 107 ASP A 111 -1 O LEU A 107 N VAL A 36 SHEET 1 AA2 5 GLU B 63 THR B 69 0 SHEET 2 AA2 5 LYS B 74 SER B 81 -1 O PHE B 79 N PHE B 64 SHEET 3 AA2 5 ILE B 51 MET B 57 1 N MET B 57 O ASP B 80 SHEET 4 AA2 5 VAL B 31 TYR B 37 -1 N LYS B 32 O VAL B 56 SHEET 5 AA2 5 LEU B 107 ASP B 111 -1 O LEU B 107 N VAL B 36 LINK OE2 GLU A 145 MG MG A 302 1555 1555 2.90 LINK O4 NMY A 301 MG MG A 302 1555 1555 2.46 LINK MG MG A 302 O HOH A 405 1555 1555 2.74 LINK MG MG A 302 OE2 GLU B 76 1555 1555 2.56 CISPEP 1 GLY A 3 PRO A 4 0 -0.88 CISPEP 2 GLY A 157 PRO A 158 0 -3.05 CISPEP 3 GLY B 157 PRO B 158 0 -4.08 SITE 1 AC1 14 TYR A 37 ASP A 52 GLU A 63 GLU A 67 SITE 2 AC1 14 GLU A 76 ASP A 80 TYR A 88 GLN A 102 SITE 3 AC1 14 HOH A 403 HOH A 422 HOH A 425 GLU B 141 SITE 4 AC1 14 GLU B 145 HOH B 402 SITE 1 AC2 15 GLU A 141 GLU A 145 MG A 302 HOH A 405 SITE 2 AC2 15 HOH A 415 HOH A 445 TYR B 37 ASP B 52 SITE 3 AC2 15 GLU B 63 GLU B 67 GLU B 76 ASP B 80 SITE 4 AC2 15 TYR B 88 GLN B 102 HOH B 443 SITE 1 AC3 7 GLU A 145 NMY A 301 HOH A 405 ASP B 50 SITE 2 AC3 7 ASP B 52 LYS B 74 GLU B 76 CRYST1 58.700 98.450 101.820 90.00 90.00 90.00 P 21 21 21 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 0.017036 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010157 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009821 0.00000