HEADER TRANSFERASE/ANTIBIOTIC 11-JAN-19 6NML TITLE TERNARY STRUCTURE OF THE T130K MUTANT OF ANT-4'' WITH NEOMYCIN AND TITLE 2 AMPCPP 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 6NML 1 LINK REVDAT 4 06-MAY-20 6NML 1 JRNL REVDAT 3 26-FEB-20 6NML 1 JRNL REVDAT 2 29-JAN-20 6NML 1 JRNL REVDAT 1 15-JAN-20 6NML 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. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 39958 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1984 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 45.4332 - 4.8185 0.99 2922 195 0.1677 0.1764 REMARK 3 2 4.8185 - 3.8252 0.99 2808 159 0.1526 0.2002 REMARK 3 3 3.8252 - 3.3419 0.99 2823 112 0.1795 0.1824 REMARK 3 4 3.3419 - 3.0364 0.98 2778 117 0.2060 0.2681 REMARK 3 5 3.0364 - 2.8188 0.99 2737 145 0.2153 0.2507 REMARK 3 6 2.8188 - 2.6526 0.98 2743 130 0.2252 0.2539 REMARK 3 7 2.6526 - 2.5198 0.98 2690 154 0.2206 0.2848 REMARK 3 8 2.5198 - 2.4101 0.98 2737 114 0.2136 0.2539 REMARK 3 9 2.4101 - 2.3173 0.96 2633 138 0.2244 0.2727 REMARK 3 10 2.3173 - 2.2374 0.96 2618 158 0.2251 0.2486 REMARK 3 11 2.2374 - 2.1674 0.96 2618 139 0.2320 0.2975 REMARK 3 12 2.1674 - 2.1055 0.96 2647 133 0.2478 0.2824 REMARK 3 13 2.1055 - 2.0500 0.96 2607 141 0.2527 0.2707 REMARK 3 14 2.0500 - 2.0000 0.95 2613 149 0.2707 0.2990 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) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.400 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 : 0.006 4392 REMARK 3 ANGLE : 0.872 5995 REMARK 3 CHIRALITY : 0.053 668 REMARK 3 PLANARITY : 0.004 748 REMARK 3 DIHEDRAL : 25.123 1559 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 6NML 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_1000239003. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40016 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 45.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.55300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 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 (%): 51.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% PEG 8K, 0.1 M TRIS PH 8.0, 0.1-0.2 REMARK 280 M MGCL2, 2MM NEOMYCIN, 4MM AMPCPP, 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 29.60500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.19000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.01500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.19000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.60500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.01500 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: 10070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -80.0 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 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 OE2 GLU A 52 O3 NMY A 800 2.06 REMARK 500 OD1 ASP A 206 O HOH A 901 2.12 REMARK 500 OE2 GLU B 117 O HOH B 901 2.17 REMARK 500 OH TYR B 27 O HOH B 902 2.17 REMARK 500 OD1 ASP A 50 O HOH A 902 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 141 CD GLU A 141 OE1 -0.081 REMARK 500 GLU A 141 CD GLU A 141 OE2 -0.068 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 GLU A 60 CA - CB - CG ANGL. DEV. = -15.6 DEGREES REMARK 500 GLN B 91 CA - CB - CG ANGL. DEV. = -14.6 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 -127.22 REMARK 500 GLU A 63 88.35 -164.14 REMARK 500 TYR B 37 -166.67 -127.88 REMARK 500 GLU B 63 91.08 -161.91 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 802 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 50 OD2 REMARK 620 2 GLU A 52 OE1 100.9 REMARK 620 3 GLU A 52 OE2 112.3 11.4 REMARK 620 4 NMY A 800 O4 163.6 79.7 69.1 REMARK 620 5 APC A 801 O2A 110.3 74.0 69.8 85.7 REMARK 620 6 HOH A 936 O 88.0 83.5 85.3 75.8 153.1 REMARK 620 7 GLU B 145 OE2 117.6 141.0 129.8 61.7 96.4 91.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 803 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 50 OD1 REMARK 620 2 GLU A 52 OE1 97.3 REMARK 620 3 GLU A 52 OE2 105.6 11.5 REMARK 620 4 APC A 801 O1G 84.8 170.8 169.6 REMARK 620 5 APC A 801 O1B 165.5 97.0 88.9 80.8 REMARK 620 6 APC A 801 O2A 95.9 78.3 85.6 92.6 84.5 REMARK 620 7 HOH A 939 O 101.4 86.0 76.7 102.4 82.1 157.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 802 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 145 OE1 REMARK 620 2 ASP B 50 OD2 93.0 REMARK 620 3 GLU B 52 OE1 169.7 97.2 REMARK 620 4 NMY B 800 O4 76.3 162.2 93.4 REMARK 620 5 APC B 801 O2A 96.2 109.4 81.8 86.2 REMARK 620 6 HOH B 955 O 93.1 81.5 87.0 84.9 165.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 803 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 50 OD1 REMARK 620 2 GLU B 52 OE2 99.3 REMARK 620 3 APC B 801 O3G 83.3 168.9 REMARK 620 4 APC B 801 O1B 157.4 87.1 86.7 REMARK 620 5 APC B 801 O2A 84.8 78.0 91.6 75.4 REMARK 620 6 HOH B 937 O 99.8 88.4 101.9 102.0 166.2 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 800 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue APC A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NMY B 800 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue APC B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 803 DBREF 6NML A 1 253 UNP Q57514 Q57514_GEOSE 1 253 DBREF 6NML B 1 253 UNP Q57514 Q57514_GEOSE 1 253 SEQADV 6NML GLY A -2 UNP Q57514 EXPRESSION TAG SEQADV 6NML SER A -1 UNP Q57514 EXPRESSION TAG SEQADV 6NML HIS A 0 UNP Q57514 EXPRESSION TAG SEQADV 6NML ASP A 80 UNP Q57514 TYR 80 CONFLICT SEQADV 6NML GLY B -2 UNP Q57514 EXPRESSION TAG SEQADV 6NML SER B -1 UNP Q57514 EXPRESSION TAG SEQADV 6NML HIS B 0 UNP Q57514 EXPRESSION TAG SEQADV 6NML 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 800 42 HET APC A 801 31 HET MG A 802 1 HET MG A 803 1 HET NMY B 800 42 HET APC B 801 31 HET MG B 802 1 HET MG B 803 1 HETNAM NMY NEOMYCIN HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETNAM MG MAGNESIUM ION HETSYN NMY MYCIFRADIN; NEOMAS; PIMAVECORT; VONAMYCIN HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE FORMUL 3 NMY 2(C23 H46 N6 O13) FORMUL 4 APC 2(C11 H18 N5 O12 P3) FORMUL 5 MG 4(MG 2+) FORMUL 11 HOH *368(H2 O) HELIX 1 AA1 THR A 8 GLY A 28 1 21 HELIX 2 AA2 TYR A 37 ARG A 42 1 6 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 ARG A 182 1 22 HELIX 11 AB2 THR A 187 ALA A 189 5 3 HELIX 12 AB3 SER A 190 VAL A 196 1 7 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 ARG B 42 1 5 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 VAL B 196 1 7 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 MET A 57 O ASP A 80 SHEET 4 AA1 5 VAL A 31 VAL A 36 -1 N LYS A 32 O VAL A 56 SHEET 5 AA1 5 LEU A 107 ASP A 111 -1 O TYR A 110 N ILE A 34 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 OD2AASP A 50 MG MG A 802 1555 1555 2.06 LINK OD1AASP A 50 MG MG A 803 1555 1555 2.00 LINK OE1AGLU A 52 MG MG A 802 1555 1555 2.78 LINK OE2BGLU A 52 MG MG A 802 1555 1555 2.99 LINK OE1BGLU A 52 MG MG A 803 1555 1555 2.18 LINK OE2AGLU A 52 MG MG A 803 1555 1555 2.01 LINK OE1 GLU A 145 MG MG B 802 1555 1555 2.26 LINK O4 NMY A 800 MG MG A 802 1555 1555 2.19 LINK O2A APC A 801 MG MG A 802 1555 1555 2.25 LINK O1G APC A 801 MG MG A 803 1555 1555 2.41 LINK O1B APC A 801 MG MG A 803 1555 1555 2.12 LINK O2A APC A 801 MG MG A 803 1555 1555 2.28 LINK MG MG A 802 O HOH A 936 1555 1555 2.46 LINK MG MG A 802 OE2 GLU B 145 1555 1555 2.97 LINK MG MG A 803 O HOH A 939 1555 1555 2.58 LINK OD2 ASP B 50 MG MG B 802 1555 1555 2.14 LINK OD1 ASP B 50 MG MG B 803 1555 1555 2.15 LINK OE1 GLU B 52 MG MG B 802 1555 1555 2.22 LINK OE2 GLU B 52 MG MG B 803 1555 1555 2.02 LINK O4 NMY B 800 MG MG B 802 1555 1555 2.15 LINK O2A APC B 801 MG MG B 802 1555 1555 2.12 LINK O3G APC B 801 MG MG B 803 1555 1555 2.12 LINK O1B APC B 801 MG MG B 803 1555 1555 2.10 LINK O2A APC B 801 MG MG B 803 1555 1555 2.61 LINK MG MG B 802 O HOH B 955 1555 1555 2.34 LINK MG MG B 803 O HOH B 937 1555 1555 2.15 CISPEP 1 GLY A 157 PRO A 158 0 -0.55 CISPEP 2 GLY B 157 PRO B 158 0 -0.50 SITE 1 AC1 20 TYR A 37 GLU A 52 GLU A 63 GLU A 67 SITE 2 AC1 20 GLU A 76 ASP A 80 TYR A 88 GLN A 102 SITE 3 AC1 20 APC A 801 MG A 802 HOH A 909 HOH A 917 SITE 4 AC1 20 HOH A 922 HOH A 930 HOH A 936 HOH A 971 SITE 5 AC1 20 HOH A1003 HOH A1031 GLU B 141 GLU B 145 SITE 1 AC2 20 GLY A 38 SER A 39 ARG A 42 SER A 49 SITE 2 AC2 20 ASP A 50 GLU A 52 LEU A 98 THR A 99 SITE 3 AC2 20 GLY A 101 GLN A 102 THR A 186 THR A 187 SITE 4 AC2 20 NMY A 800 MG A 802 MG A 803 HOH A 904 SITE 5 AC2 20 HOH A 945 HOH A1011 GLU B 145 LYS B 149 SITE 1 AC3 7 ASP A 50 GLU A 52 NMY A 800 APC A 801 SITE 2 AC3 7 MG A 803 HOH A 936 GLU B 145 SITE 1 AC4 5 ASP A 50 GLU A 52 APC A 801 MG A 802 SITE 2 AC4 5 HOH A 939 SITE 1 AC5 17 GLU A 141 GLU A 145 TYR B 37 GLU B 52 SITE 2 AC5 17 GLU B 63 GLU B 67 GLU B 76 ASP B 80 SITE 3 AC5 17 TYR B 88 GLN B 102 APC B 801 MG B 802 SITE 4 AC5 17 HOH B 919 HOH B 930 HOH B 955 HOH B 987 SITE 5 AC5 17 HOH B 989 SITE 1 AC6 23 GLU A 145 LYS A 149 HOH A 958 GLY B 38 SITE 2 AC6 23 SER B 39 ARG B 42 SER B 49 ASP B 50 SITE 3 AC6 23 GLU B 52 LEU B 98 THR B 99 GLY B 101 SITE 4 AC6 23 GLN B 102 THR B 186 THR B 187 NMY B 800 SITE 5 AC6 23 MG B 802 MG B 803 HOH B 904 HOH B 915 SITE 6 AC6 23 HOH B 925 HOH B 952 HOH B 999 SITE 1 AC7 6 GLU A 145 ASP B 50 GLU B 52 NMY B 800 SITE 2 AC7 6 APC B 801 HOH B 955 SITE 1 AC8 4 ASP B 50 GLU B 52 APC B 801 HOH B 937 CRYST1 59.210 98.030 102.380 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 0.016889 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010201 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009768 0.00000