HEADER TRANSFERASE/ANTIBIOTIC 11-JAN-19 6NMK TITLE BINARY COMPLEX STRUCTURE OF THE T130K MUTANT OF ANT-4'' WITH NEOMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: KANAMYCIN NUCLEOTIDYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_COMMON: BACILLUS STEAROTHERMOPHILUS; SOURCE 4 ORGANISM_TAXID: 1422; 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 MODIFYING KEYWDS 2 ENZYMES (AGMES) DNA POLYMERASE, ANTIBIOTIC, TRANSFERASE-ANTIBIOTIC KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.J.CUNEO,B.SELVARAJ REVDAT 5 13-MAR-24 6NMK 1 LINK REVDAT 4 06-MAY-20 6NMK 1 JRNL REVDAT 3 26-FEB-20 6NMK 1 JRNL REVDAT 2 29-JAN-20 6NMK 1 JRNL REVDAT 1 15-JAN-20 6NMK 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 2020 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/ACSCATAL.9B05201 REMARK 2 REMARK 2 RESOLUTION. 1.94 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) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.07 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 45511 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.130 REMARK 3 FREE R VALUE TEST SET COUNT : 2334 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 51.0862 - 4.8842 0.98 2774 159 0.1618 0.1678 REMARK 3 2 4.8842 - 3.8771 0.99 2697 139 0.1366 0.1660 REMARK 3 3 3.8771 - 3.3872 0.99 2625 151 0.1512 0.1793 REMARK 3 4 3.3872 - 3.0775 0.99 2609 139 0.1783 0.2428 REMARK 3 5 3.0775 - 2.8569 0.99 2605 153 0.1862 0.2093 REMARK 3 6 2.8569 - 2.6885 0.98 2561 122 0.1941 0.2426 REMARK 3 7 2.6885 - 2.5539 0.97 2559 141 0.1824 0.2340 REMARK 3 8 2.5539 - 2.4427 0.97 2579 124 0.1794 0.2231 REMARK 3 9 2.4427 - 2.3487 0.97 2527 135 0.1773 0.2366 REMARK 3 10 2.3487 - 2.2676 0.97 2525 137 0.1796 0.2404 REMARK 3 11 2.2676 - 2.1967 0.95 2471 144 0.1779 0.2226 REMARK 3 12 2.1967 - 2.1339 0.95 2493 137 0.1837 0.2608 REMARK 3 13 2.1339 - 2.0777 0.95 2455 126 0.1884 0.2356 REMARK 3 14 2.0777 - 2.0271 0.95 2495 127 0.1844 0.2538 REMARK 3 15 2.0271 - 1.9810 0.93 2425 118 0.1955 0.3246 REMARK 3 16 1.9810 - 1.9388 0.93 2402 142 0.1925 0.2361 REMARK 3 17 1.9388 - 1.9000 0.93 2375 140 0.2042 0.2518 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.050 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 : 0.012 4411 REMARK 3 ANGLE : 1.205 6020 REMARK 3 CHIRALITY : 0.069 671 REMARK 3 PLANARITY : 0.007 769 REMARK 3 DIHEDRAL : 5.924 3496 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 6NMK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1000238995. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-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 : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45570 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 51.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.5000 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) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.37400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16-17% PEG 8K, 0.1 M TRIS PH 7-8, 0.1 REMARK 280 -0.2 M MGCL2, 2-4 MM NEOMYCIN, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 29.50000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.98500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.85500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.98500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.50000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.85500 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: 7840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -57.0 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 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 OD1 ASP B 206 O HOH B 401 1.84 REMARK 500 O HOH A 583 O HOH A 591 1.85 REMARK 500 OH TYR A 27 O HOH A 401 1.91 REMARK 500 O HOH A 467 O HOH A 570 2.04 REMARK 500 O HOH A 597 O HOH A 600 2.04 REMARK 500 O17 NMY B 302 O HOH B 402 2.05 REMARK 500 O HOH A 590 O HOH A 596 2.07 REMARK 500 O HOH A 426 O HOH A 480 2.10 REMARK 500 OD2 ASP B 206 O HOH B 403 2.13 REMARK 500 O HOH A 417 O HOH A 466 2.15 REMARK 500 O HOH B 404 O HOH B 422 2.16 REMARK 500 O17 NMY A 301 O HOH A 402 2.16 REMARK 500 O HOH A 558 O HOH A 569 2.17 REMARK 500 OD2 ASP A 133 O HOH A 403 2.18 REMARK 500 O HOH B 434 O HOH B 517 2.19 REMARK 500 NZ LYS A 118 O HOH A 404 2.19 REMARK 500 O20 NMY B 302 O HOH B 404 2.19 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 LYS A 14 CA - CB - CG ANGL. DEV. = 13.5 DEGREES REMARK 500 LYS A 14 CB - CG - CD ANGL. DEV. = -18.5 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 -166.96 -127.52 REMARK 500 GLU A 63 91.97 -161.28 REMARK 500 TYR B 37 -167.55 -124.07 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 OE1 REMARK 620 2 NMY B 302 O4 114.6 REMARK 620 3 HOH B 463 O 97.5 99.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 NMY A 301 O4 REMARK 620 2 HOH A 459 O 95.0 REMARK 620 3 GLU B 145 OE1 86.1 119.9 REMARK 620 4 GLU B 145 OE2 114.9 77.4 49.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 551 O REMARK 620 2 HOH A 583 O 76.0 REMARK 620 3 HOH A 591 O 84.5 45.7 REMARK 620 4 HOH A 597 O 72.3 125.7 156.8 REMARK 620 5 HOH A 600 O 86.6 95.6 141.2 40.5 REMARK 620 6 HOH B 566 O 171.7 95.7 89.9 113.3 94.1 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 NMY A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NMY B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NLT RELATED DB: PDB REMARK 900 THIS CONTAINS THE SAME PROTEIN AS IN 6BLT BUT COMPLEXED WITH REMARK 900 NEOMYCIN DBREF 6NMK A 1 253 UNP Q57514 Q57514_GEOSE 1 253 DBREF 6NMK B 1 253 UNP Q57514 Q57514_GEOSE 1 253 SEQADV 6NMK GLY A -2 UNP Q57514 EXPRESSION TAG SEQADV 6NMK SER A -1 UNP Q57514 EXPRESSION TAG SEQADV 6NMK HIS A 0 UNP Q57514 EXPRESSION TAG SEQADV 6NMK ASP A 80 UNP Q57514 TYR 80 CONFLICT SEQADV 6NMK GLY B -2 UNP Q57514 EXPRESSION TAG SEQADV 6NMK SER B -1 UNP Q57514 EXPRESSION TAG SEQADV 6NMK HIS B 0 UNP Q57514 EXPRESSION TAG SEQADV 6NMK ASP B 80 UNP Q57514 TYR 80 CONFLICT 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 GLU 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 GLU 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 301 42 HET MG A 302 1 HET CA A 303 1 HET MG B 301 1 HET NMY B 302 42 HETNAM NMY NEOMYCIN HETNAM MG MAGNESIUM ION HETNAM CA CALCIUM ION HETSYN NMY MYCIFRADIN; NEOMAS; PIMAVECORT; VONAMYCIN FORMUL 3 NMY 2(C23 H46 N6 O13) FORMUL 4 MG 2(MG 2+) FORMUL 5 CA CA 2+ FORMUL 8 HOH *387(H2 O) HELIX 1 AA1 THR A 8 GLY A 28 1 21 HELIX 2 AA2 GLY A 38 ARG A 42 1 5 HELIX 3 AA3 GLU A 82 SER A 90 1 9 HELIX 4 AA4 ASP A 95 HIS A 100 1 6 HELIX 5 AA5 GLY A 101 SER A 105 5 5 HELIX 6 AA6 GLY A 114 SER A 125 1 12 HELIX 7 AA7 GLU A 127 GLU A 142 1 16 HELIX 8 AA8 GLU A 142 GLY A 157 1 16 HELIX 9 AA9 PRO A 158 THR A 160 5 3 HELIX 10 AB1 PHE A 161 HIS A 181 1 21 HELIX 11 AB2 THR A 187 ALA A 189 5 3 HELIX 12 AB3 SER A 190 LYS A 197 1 8 HELIX 13 AB4 GLY A 204 GLY A 215 1 12 HELIX 14 AB5 ASP A 219 GLY A 242 1 24 HELIX 15 AB6 THR B 8 GLY B 28 1 21 HELIX 16 AB7 GLY B 38 GLN B 43 1 6 HELIX 17 AB8 GLU B 82 SER B 90 1 9 HELIX 18 AB9 ASP B 95 HIS B 100 1 6 HELIX 19 AC1 GLY B 101 SER B 105 5 5 HELIX 20 AC2 GLY B 114 SER B 125 1 12 HELIX 21 AC3 GLU B 127 GLU B 142 1 16 HELIX 22 AC4 GLU B 142 GLY B 157 1 16 HELIX 23 AC5 PRO B 158 THR B 160 5 3 HELIX 24 AC6 PHE B 161 ARG B 182 1 22 HELIX 25 AC7 THR B 187 ALA B 189 5 3 HELIX 26 AC8 SER B 190 GLN B 198 1 9 HELIX 27 AC9 GLY B 204 GLY B 215 1 12 HELIX 28 AD1 ASP B 219 GLY B 242 1 24 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 CYS A 55 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 CYS B 55 O ASN B 78 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 OE1 GLU A 145 MG MG A 302 1555 1555 2.12 LINK O4 NMY A 301 MG MG B 301 1555 1555 2.54 LINK MG MG A 302 O4 NMY B 302 1555 1555 2.59 LINK MG MG A 302 O HOH B 463 1555 1555 2.63 LINK CA CA A 303 O HOH A 551 1555 1555 2.15 LINK CA CA A 303 O HOH A 583 1555 1555 2.36 LINK CA CA A 303 O HOH A 591 1555 1555 2.42 LINK CA CA A 303 O HOH A 597 1555 1555 3.13 LINK CA CA A 303 O HOH A 600 1555 1555 2.22 LINK CA CA A 303 O HOH B 566 1555 1455 2.24 LINK O HOH A 459 MG MG B 301 1555 1555 2.98 LINK OE1 GLU B 145 MG MG B 301 1555 1555 2.86 LINK OE2 GLU B 145 MG MG B 301 1555 1555 2.34 CISPEP 1 GLY A 3 PRO A 4 0 6.22 CISPEP 2 GLY A 157 PRO A 158 0 -1.14 CISPEP 3 GLY B 3 PRO B 4 0 5.32 CISPEP 4 GLY B 157 PRO B 158 0 -1.69 SITE 1 AC1 19 TYR A 37 GLU A 52 GLU A 63 GLU A 67 SITE 2 AC1 19 GLU A 76 ASP A 80 TYR A 88 GLN A 102 SITE 3 AC1 19 HOH A 402 HOH A 412 HOH A 434 HOH A 447 SITE 4 AC1 19 HOH A 490 HOH A 493 HOH A 500 HOH A 517 SITE 5 AC1 19 GLU B 141 GLU B 145 MG B 301 SITE 1 AC2 5 GLU A 145 LYS B 74 GLU B 76 NMY B 302 SITE 2 AC2 5 HOH B 463 SITE 1 AC3 5 HOH A 551 HOH A 583 HOH A 591 HOH A 600 SITE 2 AC3 5 HOH B 566 SITE 1 AC4 4 GLU A 76 NMY A 301 HOH A 459 GLU B 145 SITE 1 AC5 18 GLU A 141 GLU A 145 MG A 302 TYR B 37 SITE 2 AC5 18 GLU B 52 GLU B 63 GLU B 67 GLU B 76 SITE 3 AC5 18 ASP B 80 TYR B 88 GLN B 102 HOH B 402 SITE 4 AC5 18 HOH B 404 HOH B 416 HOH B 473 HOH B 509 SITE 5 AC5 18 HOH B 518 HOH B 533 CRYST1 59.000 97.710 101.970 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 0.016949 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010234 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009807 0.00000