HEADER BIOSYNTHETIC PROTEIN 03-FEB-21 7LLD TITLE CRYSTAL STRUCTURE OF GENB4 IN COMPLEX WITH EXTERNAL ALDIMINE OF PLP- TITLE 2 SISOMICIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: C-6' AMINOTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GNTH, NEAMINE TRANSAMINASE/2'-DEAMINO-2'-HYDROXYNEAMINE COMPND 5 TRANSAMINASE/NEOMYCIN C TRANSAMINASE, PUTATIVE GENTAMICIN COMPND 6 AMINOTRANSFERASE IV; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MICROMONOSPORA ECHINOSPORA; SOURCE 3 ORGANISM_TAXID: 1877; SOURCE 4 GENE: GNTH, GENB4, JD80_03664; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PLP-DEPENDENT ENZYME, GENTAMICIN, BIOSYNTHESIS, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.S.BURY,F.HUANG,P.F.LEADLAY,M.V.B.DIAS REVDAT 2 03-APR-24 7LLD 1 REMARK REVDAT 1 22-SEP-21 7LLD 0 JRNL AUTH P.S.BURY,F.HUANG,P.F.LEADLAY,M.V.B.DIAS JRNL TITL CRYSTAL STRUCTURE OF GENB4 IN COMPLEX WITH EXTERNAL ALDIMINE JRNL TITL 2 OF PLP-SISOMICIN JRNL REF ACS CATALYSIS 2021 JRNL REFN ESSN 2155-5435 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2-4158 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.73 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 195053 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.147 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 9722 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 39.7300 - 4.3500 1.00 6613 332 0.1544 0.1907 REMARK 3 2 4.3500 - 3.4600 0.99 6346 321 0.1335 0.1498 REMARK 3 3 3.4600 - 3.0200 0.99 6285 322 0.1407 0.1689 REMARK 3 4 3.0200 - 2.7400 1.00 6249 330 0.1421 0.1843 REMARK 3 5 2.7400 - 2.5500 1.00 6237 338 0.1430 0.1785 REMARK 3 6 2.5500 - 2.4000 1.00 6250 329 0.1330 0.1812 REMARK 3 7 2.4000 - 2.2800 1.00 6172 349 0.1320 0.1710 REMARK 3 8 2.2800 - 2.1800 0.97 6065 301 0.1663 0.2021 REMARK 3 9 2.1800 - 2.0900 1.00 6165 357 0.1252 0.1813 REMARK 3 10 2.0900 - 2.0200 1.00 6188 352 0.1207 0.1851 REMARK 3 11 2.0200 - 1.9600 1.00 6185 328 0.1217 0.1732 REMARK 3 12 1.9600 - 1.9000 0.98 6082 297 0.1921 0.2511 REMARK 3 13 1.9000 - 1.8500 0.99 6110 310 0.1499 0.2157 REMARK 3 14 1.8500 - 1.8100 1.00 6216 301 0.1280 0.1848 REMARK 3 15 1.8100 - 1.7700 1.00 6196 309 0.1242 0.1844 REMARK 3 16 1.7700 - 1.7300 1.00 6152 330 0.1225 0.1918 REMARK 3 17 1.7300 - 1.6900 1.00 6143 354 0.1362 0.2075 REMARK 3 18 1.6900 - 1.6600 1.00 6074 362 0.1296 0.2014 REMARK 3 19 1.6600 - 1.6300 1.00 6167 333 0.1280 0.1874 REMARK 3 20 1.6300 - 1.6000 1.00 6205 312 0.1351 0.2064 REMARK 3 21 1.6000 - 1.5800 1.00 6127 339 0.1405 0.2162 REMARK 3 22 1.5800 - 1.5500 1.00 6152 299 0.1438 0.2093 REMARK 3 23 1.5500 - 1.5300 1.00 6160 309 0.1506 0.1970 REMARK 3 24 1.5300 - 1.5100 1.00 6130 356 0.1631 0.2377 REMARK 3 25 1.5100 - 1.4900 1.00 6176 300 0.1716 0.2346 REMARK 3 26 1.4900 - 1.4700 1.00 6165 304 0.1915 0.2440 REMARK 3 27 1.4700 - 1.4500 1.00 6167 313 0.2035 0.2585 REMARK 3 28 1.4500 - 1.4300 1.00 6137 310 0.2135 0.2894 REMARK 3 29 1.4300 - 1.4200 1.00 6121 306 0.2145 0.2561 REMARK 3 30 1.4200 - 1.4000 0.96 5896 319 0.2561 0.2985 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.77 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 7LLD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-FEB-21. REMARK 100 THE DEPOSITION ID IS D_1000254621. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 291 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X12 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 195485 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 46.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MRBUMP REMARK 200 STARTING MODEL: SEVERAL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15 M DL-MALIC ACID AND 20% PEG 3350, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K 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 35.72750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 93.01550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.51800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 93.01550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.72750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.51800 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: 9730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -85.0 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 HIS B 0 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 96 CD OE1 OE2 REMARK 470 GLU A 416 CG CD OE1 OE2 REMARK 470 GLU B 96 CG CD OE1 OE2 REMARK 470 GLU B 406 CG CD OE1 OE2 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 307 O HOH A 701 1.88 REMARK 500 O HOH A 701 O HOH A 703 1.95 REMARK 500 OE1 GLU A 427 O HOH A 702 1.96 REMARK 500 O HOH B 987 O HOH B 1170 2.01 REMARK 500 O HOH A 702 O HOH A 1213 2.09 REMARK 500 O HOH A 731 O HOH A 1139 2.10 REMARK 500 OE1 GLU B 427 ND2 ASN B 431 2.12 REMARK 500 OE1 GLU B 427 ND2 ASN B 431 2.13 REMARK 500 O HOH A 1133 O HOH B 891 2.13 REMARK 500 O HOH A 1146 O HOH A 1192 2.14 REMARK 500 O HOH A 796 O HOH B 993 2.14 REMARK 500 O HOH A 844 O HOH B 887 2.15 REMARK 500 OE1 GLU B 398 NH2 ARG B 413 2.15 REMARK 500 O HOH A 1159 O HOH B 738 2.16 REMARK 500 NH2 ARG A 374 O HOH A 703 2.16 REMARK 500 OE1 GLU B 397 O HOH B 601 2.17 REMARK 500 O HOH A 810 O HOH B 770 2.17 REMARK 500 O HOH A 1138 O HOH A 1201 2.17 REMARK 500 O HOH A 1125 O HOH A 1193 2.18 REMARK 500 O HOH A 890 O HOH A 1145 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 949 O HOH B 1170 3544 1.97 REMARK 500 O HOH A 971 O HOH B 604 1545 2.19 REMARK 500 OE2 GLU B 8 O HOH A 1145 3554 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 TYR A 348 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 GLU B 212 OE1 - CD - OE2 ANGL. DEV. = -23.9 DEGREES REMARK 500 GLU B 212 CG - CD - OE1 ANGL. DEV. = 26.7 DEGREES REMARK 500 GLU B 212 CG - CD - OE2 ANGL. DEV. = -22.8 DEGREES REMARK 500 LYS B 238 CD - CE - NZ ANGL. DEV. = -21.0 DEGREES REMARK 500 ARG B 378 CD - NE - CZ ANGL. DEV. = 20.4 DEGREES REMARK 500 ARG B 378 NE - CZ - NH1 ANGL. DEV. = -6.4 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 THR A 14 -26.56 -156.85 REMARK 500 ILE A 21 -72.99 -123.22 REMARK 500 ALA A 53 -0.23 72.40 REMARK 500 TYR A 75 -58.27 -130.23 REMARK 500 PHE A 173 25.39 -148.50 REMARK 500 GLN A 265 -139.97 -155.82 REMARK 500 TYR A 268 2.16 -66.69 REMARK 500 MET A 324 61.53 -163.53 REMARK 500 PHE A 408 17.35 -140.62 REMARK 500 THR B 14 -27.93 -156.27 REMARK 500 ILE B 21 -72.37 -124.37 REMARK 500 ALA B 53 -1.45 72.41 REMARK 500 TYR B 75 -57.52 -132.08 REMARK 500 THR B 77 -65.25 -107.00 REMARK 500 PHE B 173 27.53 -144.35 REMARK 500 GLN B 265 -164.34 -176.19 REMARK 500 MET B 324 58.77 -165.01 REMARK 500 ASP B 414 67.43 -108.24 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 GLU B 212 0.13 SIDE CHAIN REMARK 500 ARG B 378 0.15 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN B 444 14.24 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 A1325 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A1326 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A1327 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A1328 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH A1329 DISTANCE = 6.78 ANGSTROMS REMARK 525 HOH A1330 DISTANCE = 7.02 ANGSTROMS REMARK 525 HOH A1331 DISTANCE = 7.04 ANGSTROMS REMARK 525 HOH A1332 DISTANCE = 7.75 ANGSTROMS REMARK 525 HOH A1333 DISTANCE = 9.23 ANGSTROMS REMARK 525 HOH B1262 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH B1263 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH B1264 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH B1265 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH B1266 DISTANCE = 6.31 ANGSTROMS REMARK 525 HOH B1267 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH B1268 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH B1269 DISTANCE = 6.90 ANGSTROMS REMARK 525 HOH B1270 DISTANCE = 7.09 ANGSTROMS REMARK 525 HOH B1271 DISTANCE = 7.23 ANGSTROMS REMARK 525 HOH B1272 DISTANCE = 7.32 ANGSTROMS REMARK 525 HOH B1273 DISTANCE = 7.76 ANGSTROMS REMARK 525 HOH B1274 DISTANCE = 7.98 ANGSTROMS DBREF 7LLD A 1 445 UNP Q6QVT7 Q6QVT7_MICEC 1 445 DBREF 7LLD B 1 445 UNP Q6QVT7 Q6QVT7_MICEC 1 445 SEQADV 7LLD HIS A 0 UNP Q6QVT7 EXPRESSION TAG SEQADV 7LLD HIS B 0 UNP Q6QVT7 EXPRESSION TAG SEQRES 1 A 446 HIS MET ASN TYR ARG GLU LEU ILE GLU ARG ALA ARG ARG SEQRES 2 A 446 THR THR ALA ALA GLU GLU TYR ASP ILE SER GLY ARG TYR SEQRES 3 A 446 PRO SER VAL ILE ALA HIS ALA GLU GLY ALA TRP MET THR SEQRES 4 A 446 ASP LEU SER GLY ASN ARG TYR VAL ASP LEU THR GLY ALA SEQRES 5 A 446 ASP ALA ALA VAL ILE LEU GLY TYR ARG HIS PRO ALA VAL SEQRES 6 A 446 ASN GLU ALA ILE THR ARG GLN ILE ARG ASP TYR GLY THR SEQRES 7 A 446 THR PHE ALA SER THR LEU SER VAL PRO ARG VAL GLU LEU SEQRES 8 A 446 ALA GLU ARG MET CYS GLU ARG TYR GLU CYS ALA GLU LYS SEQRES 9 A 446 VAL VAL PHE HIS LYS THR GLY THR GLU GLY THR ALA MET SEQRES 10 A 446 ALA VAL ARG LEU ALA ARG ALA ALA THR GLY ARG GLU LEU SEQRES 11 A 446 VAL LEU SER SER GLY TYR HIS GLY TRP HIS GLU TRP GLN SEQRES 12 A 446 MET ALA GLY GLU GLU PHE GLY TYR GLN GLN SER THR GLY SEQRES 13 A 446 VAL VAL GLY PHE GLY TYR ASN GLU LYS ALA LEU ALA LYS SEQRES 14 A 446 MET LEU GLU ALA PHE GLY GLU GLN VAL ALA GLY VAL ILE SEQRES 15 A 446 VAL SER PRO GLU VAL LEU TYR PHE ASP LEU ASP HIS TYR SEQRES 16 A 446 ARG ARG MET SER ALA LEU CYS ALA ARG TYR ASP VAL PRO SEQRES 17 A 446 PHE MET LEU ASP GLU VAL TYR THR GLY PHE ARG ALA GLY SEQRES 18 A 446 PRO LYS GLY VAL HIS GLY LEU GLY VAL PRO ALA ASP VAL SEQRES 19 A 446 VAL VAL LEU GLY LYS GLY LEU ALA ASN GLY HIS SER LEU SEQRES 20 A 446 ALA ALA VAL MET GLY ARG ARG ASP ILE ILE ASP ALA TYR SEQRES 21 A 446 ASP VAL SER GLY ILE GLN GLY THR TYR THR ARG GLU VAL SEQRES 22 A 446 PRO PRO MET ALA ALA ALA LEU ALA VAL PHE GLU VAL LEU SEQRES 23 A 446 ASP THR PRO GLY VAL TYR GLU HIS ALA GLU ALA MET GLY SEQRES 24 A 446 ARG ARG LEU ALA ASP GLY MET ARG GLU ILE LEU THR GLY SEQRES 25 A 446 GLU GLY ILE PRO ASN TRP VAL GLY GLY PRO ALA LEU MET SEQRES 26 A 446 PHE ASP VAL VAL LEU PRO ASN ASP ASP LEU GLY TRP GLU SEQRES 27 A 446 ILE TYR LYS THR ALA HIS ASP PHE GLY VAL TYR PHE GLU SEQRES 28 A 446 ASP SER GLY THR GLN LEU VAL THR ALA ALA PHE ASP GLU SEQRES 29 A 446 ALA ALA VAL ASP HIS ALA LEU THR ALA PHE ARG LYS ALA SEQRES 30 A 446 THR ARG GLN VAL VAL ALA ASP ARG PRO ASP ILE ALA PRO SEQRES 31 A 446 THR SER GLY GLY GLU LEU THR GLU GLU ARG LYS LEU ASP SEQRES 32 A 446 PHE ALA GLU GLU ALA PHE GLY GLY LEU LEU ARG ASP ASP SEQRES 33 A 446 GLU ARG THR ASN ALA LEU ILE ASP GLU THR ILE GLU LYS SEQRES 34 A 446 VAL VAL ASN ARG ASP ARG SER ILE LYS PRO VAL LEU PHE SEQRES 35 A 446 PRO ALA GLN ASN SEQRES 1 B 446 HIS MET ASN TYR ARG GLU LEU ILE GLU ARG ALA ARG ARG SEQRES 2 B 446 THR THR ALA ALA GLU GLU TYR ASP ILE SER GLY ARG TYR SEQRES 3 B 446 PRO SER VAL ILE ALA HIS ALA GLU GLY ALA TRP MET THR SEQRES 4 B 446 ASP LEU SER GLY ASN ARG TYR VAL ASP LEU THR GLY ALA SEQRES 5 B 446 ASP ALA ALA VAL ILE LEU GLY TYR ARG HIS PRO ALA VAL SEQRES 6 B 446 ASN GLU ALA ILE THR ARG GLN ILE ARG ASP TYR GLY THR SEQRES 7 B 446 THR PHE ALA SER THR LEU SER VAL PRO ARG VAL GLU LEU SEQRES 8 B 446 ALA GLU ARG MET CYS GLU ARG TYR GLU CYS ALA GLU LYS SEQRES 9 B 446 VAL VAL PHE HIS LYS THR GLY THR GLU GLY THR ALA MET SEQRES 10 B 446 ALA VAL ARG LEU ALA ARG ALA ALA THR GLY ARG GLU LEU SEQRES 11 B 446 VAL LEU SER SER GLY TYR HIS GLY TRP HIS GLU TRP GLN SEQRES 12 B 446 MET ALA GLY GLU GLU PHE GLY TYR GLN GLN SER THR GLY SEQRES 13 B 446 VAL VAL GLY PHE GLY TYR ASN GLU LYS ALA LEU ALA LYS SEQRES 14 B 446 MET LEU GLU ALA PHE GLY GLU GLN VAL ALA GLY VAL ILE SEQRES 15 B 446 VAL SER PRO GLU VAL LEU TYR PHE ASP LEU ASP HIS TYR SEQRES 16 B 446 ARG ARG MET SER ALA LEU CYS ALA ARG TYR ASP VAL PRO SEQRES 17 B 446 PHE MET LEU ASP GLU VAL TYR THR GLY PHE ARG ALA GLY SEQRES 18 B 446 PRO LYS GLY VAL HIS GLY LEU GLY VAL PRO ALA ASP VAL SEQRES 19 B 446 VAL VAL LEU GLY LYS GLY LEU ALA ASN GLY HIS SER LEU SEQRES 20 B 446 ALA ALA VAL MET GLY ARG ARG ASP ILE ILE ASP ALA TYR SEQRES 21 B 446 ASP VAL SER GLY ILE GLN GLY THR TYR THR ARG GLU VAL SEQRES 22 B 446 PRO PRO MET ALA ALA ALA LEU ALA VAL PHE GLU VAL LEU SEQRES 23 B 446 ASP THR PRO GLY VAL TYR GLU HIS ALA GLU ALA MET GLY SEQRES 24 B 446 ARG ARG LEU ALA ASP GLY MET ARG GLU ILE LEU THR GLY SEQRES 25 B 446 GLU GLY ILE PRO ASN TRP VAL GLY GLY PRO ALA LEU MET SEQRES 26 B 446 PHE ASP VAL VAL LEU PRO ASN ASP ASP LEU GLY TRP GLU SEQRES 27 B 446 ILE TYR LYS THR ALA HIS ASP PHE GLY VAL TYR PHE GLU SEQRES 28 B 446 ASP SER GLY THR GLN LEU VAL THR ALA ALA PHE ASP GLU SEQRES 29 B 446 ALA ALA VAL ASP HIS ALA LEU THR ALA PHE ARG LYS ALA SEQRES 30 B 446 THR ARG GLN VAL VAL ALA ASP ARG PRO ASP ILE ALA PRO SEQRES 31 B 446 THR SER GLY GLY GLU LEU THR GLU GLU ARG LYS LEU ASP SEQRES 32 B 446 PHE ALA GLU GLU ALA PHE GLY GLY LEU LEU ARG ASP ASP SEQRES 33 B 446 GLU ARG THR ASN ALA LEU ILE ASP GLU THR ILE GLU LYS SEQRES 34 B 446 VAL VAL ASN ARG ASP ARG SER ILE LYS PRO VAL LEU PHE SEQRES 35 B 446 PRO ALA GLN ASN HET PG4 A 601 13 HET YS7 A 602 46 HET CL A 603 1 HET CL A 604 1 HET SBV B 501 46 HET CL B 502 1 HET CL B 503 1 HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM YS7 (1R,2S,3S,4R,6S)-4,6-DIAMINO-3-{[3-DEOXY-4-C-METHYL-3- HETNAM 2 YS7 (METHYLAMINO)-BETA-L-ARABINOPYRANOSYL]OXY}-2- HETNAM 3 YS7 HYDROXYCYCLOHEXYL 2-AMINO-2,3,4,6-TETRADEOXY-6-[({3- HETNAM 4 YS7 HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4- HETNAM 5 YS7 YL}METHYL)AMINO]-ALPHA-D-ERYTHRO-HEXOPYRANOSIDE HETNAM CL CHLORIDE ION HETNAM SBV (1R,2S,3S,4R,6S)-4,6-DIAMINO-3-{[3-DEOXY-4-C-METHYL-3- HETNAM 2 SBV (METHYLAMINO)-BETA-L-ARABINOPYRANOSYL]OXY}-2- HETNAM 3 SBV HYDROXYCYCLOHEXYL 2-AMINO-2,3,4,6-TETRADEOXY-6-[({3- HETNAM 4 SBV HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4- HETNAM 5 SBV YL}METHYL)AMINO]-BETA-L-THREO-HEXOPYRANOSIDE HETSYN SBV PLP-SISOMICIN FORMUL 3 PG4 C8 H18 O5 FORMUL 4 YS7 C27 H49 N6 O12 P FORMUL 5 CL 4(CL 1-) FORMUL 7 SBV C27 H49 N6 O12 P FORMUL 10 HOH *1307(H2 O) HELIX 1 AA1 ASN A 2 THR A 14 1 13 HELIX 2 AA2 ALA A 16 ILE A 21 1 6 HELIX 3 AA3 HIS A 61 TYR A 75 1 15 HELIX 4 AA4 SER A 84 TYR A 98 1 15 HELIX 5 AA5 THR A 109 GLY A 126 1 18 HELIX 6 AA6 HIS A 139 GLU A 146 1 8 HELIX 7 AA7 ASN A 162 GLY A 174 1 13 HELIX 8 AA8 ASP A 190 TYR A 204 1 15 HELIX 9 AA9 LYS A 222 LEU A 227 1 6 HELIX 10 AB1 ARG A 252 ASP A 257 1 6 HELIX 11 AB2 ALA A 258 GLY A 263 1 6 HELIX 12 AB3 GLY A 266 GLU A 271 5 6 HELIX 13 AB4 VAL A 272 ASP A 286 1 15 HELIX 14 AB5 GLY A 289 GLU A 312 1 24 HELIX 15 AB6 ASP A 333 ASP A 344 1 12 HELIX 16 AB7 ASP A 362 ARG A 384 1 23 HELIX 17 AB8 THR A 396 GLY A 409 1 14 HELIX 18 AB9 ASP A 415 ASN A 431 1 17 HELIX 19 AC1 ASN B 2 THR B 14 1 13 HELIX 20 AC2 ALA B 16 ILE B 21 1 6 HELIX 21 AC3 HIS B 61 TYR B 75 1 15 HELIX 22 AC4 SER B 84 TYR B 98 1 15 HELIX 23 AC5 THR B 109 GLY B 126 1 18 HELIX 24 AC6 HIS B 139 GLU B 146 1 8 HELIX 25 AC7 ASN B 162 GLY B 174 1 13 HELIX 26 AC8 ASP B 190 TYR B 204 1 15 HELIX 27 AC9 LYS B 222 LEU B 227 1 6 HELIX 28 AD1 ARG B 252 ASP B 257 1 6 HELIX 29 AD2 ALA B 258 GLY B 263 1 6 HELIX 30 AD3 GLY B 266 GLU B 271 5 6 HELIX 31 AD4 VAL B 272 ASP B 286 1 15 HELIX 32 AD5 GLY B 289 GLU B 312 1 24 HELIX 33 AD6 ASP B 333 HIS B 343 1 11 HELIX 34 AD7 ASP B 362 ARG B 384 1 23 HELIX 35 AD8 THR B 396 GLY B 409 1 14 HELIX 36 AD9 ASP B 415 ASN B 431 1 17 SHEET 1 AA1 4 ILE A 29 GLU A 33 0 SHEET 2 AA1 4 TRP A 36 ASP A 39 -1 O THR A 38 N HIS A 31 SHEET 3 AA1 4 ARG A 44 ASP A 47 -1 O TYR A 45 N MET A 37 SHEET 4 AA1 4 VAL A 347 TYR A 348 1 O TYR A 348 N VAL A 46 SHEET 1 AA2 8 LYS A 103 HIS A 107 0 SHEET 2 AA2 8 ALA A 247 GLY A 251 -1 O VAL A 249 N VAL A 105 SHEET 3 AA2 8 VAL A 233 LEU A 236 -1 N VAL A 234 O MET A 250 SHEET 4 AA2 8 PHE A 208 GLU A 212 1 N LEU A 210 O VAL A 233 SHEET 5 AA2 8 VAL A 177 VAL A 182 1 N VAL A 180 O MET A 209 SHEET 6 AA2 8 LEU A 129 SER A 133 1 N LEU A 129 O ALA A 178 SHEET 7 AA2 8 VAL A 156 GLY A 158 1 O VAL A 157 N VAL A 130 SHEET 8 AA2 8 GLY A 149 TYR A 150 -1 N GLY A 149 O GLY A 158 SHEET 1 AA3 3 TRP A 317 GLY A 319 0 SHEET 2 AA3 3 PHE A 325 VAL A 328 -1 O VAL A 328 N TRP A 317 SHEET 3 AA3 3 THR A 354 GLN A 355 -1 O GLN A 355 N PHE A 325 SHEET 1 AA4 4 ILE B 29 GLU B 33 0 SHEET 2 AA4 4 TRP B 36 ASP B 39 -1 O THR B 38 N ALA B 30 SHEET 3 AA4 4 ARG B 44 ASP B 47 -1 O TYR B 45 N MET B 37 SHEET 4 AA4 4 VAL B 347 TYR B 348 1 O TYR B 348 N VAL B 46 SHEET 1 AA5 8 LYS B 103 HIS B 107 0 SHEET 2 AA5 8 ALA B 247 GLY B 251 -1 O VAL B 249 N VAL B 105 SHEET 3 AA5 8 VAL B 233 LEU B 236 -1 N LEU B 236 O ALA B 248 SHEET 4 AA5 8 PHE B 208 GLU B 212 1 N LEU B 210 O VAL B 233 SHEET 5 AA5 8 VAL B 177 VAL B 182 1 N VAL B 180 O MET B 209 SHEET 6 AA5 8 LEU B 129 SER B 133 1 N LEU B 129 O ALA B 178 SHEET 7 AA5 8 VAL B 156 GLY B 158 1 O VAL B 157 N VAL B 130 SHEET 8 AA5 8 GLY B 149 TYR B 150 -1 N GLY B 149 O GLY B 158 SHEET 1 AA6 3 TRP B 317 GLY B 319 0 SHEET 2 AA6 3 PHE B 325 VAL B 328 -1 O VAL B 328 N TRP B 317 SHEET 3 AA6 3 THR B 354 GLN B 355 -1 O GLN B 355 N PHE B 325 LINK NZ LYS A 238 C24 YS7 A 602 1555 1555 1.43 CISPEP 1 PHE A 441 PRO A 442 0 0.25 CISPEP 2 PHE B 441 PRO B 442 0 1.53 CRYST1 71.455 75.036 186.031 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 0.013995 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013327 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005375 0.00000