HEADER LYASE 28-APR-16 5JMD TITLE HEPARINASE III-BT4657 GENE PRODUCT, METHYLATED LYSINES COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEPARINASE III PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON; SOURCE 3 ORGANISM_TAXID: 226186; SOURCE 4 STRAIN: ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482; SOURCE 5 GENE: BT_4657; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS PL12, HEPARINASEIII, BT4657 GENE PRODUCT, BACTEROIDES KEYWDS 2 THETAIOTAOMICRON, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR T.S.ULAGANATHAN,R.SHI,D.YAO,M.-L.GARRON,M.CHERNEY,M.CYGLER REVDAT 4 17-JAN-18 5JMD 1 REMARK REVDAT 3 18-JAN-17 5JMD 1 JRNL REVDAT 2 28-SEP-16 5JMD 1 JRNL REVDAT 1 25-MAY-16 5JMD 0 JRNL AUTH T.ULAGANATHAN,R.SHI,D.YAO,R.X.GU,M.L.GARRON,M.CHERNEY, JRNL AUTH 2 D.P.TIELEMAN,E.STERNER,G.LI,L.LI,R.J.LINHARDT,M.CYGLER JRNL TITL CONFORMATIONAL FLEXIBILITY OF PL12 FAMILY HEPARINASES: JRNL TITL 2 STRUCTURE AND SUBSTRATE SPECIFICITY OF HEPARINASE III FROM JRNL TITL 3 BACTEROIDES THETAIOTAOMICRON (BT4657). JRNL REF GLYCOBIOLOGY V. 27 176 2017 JRNL REFN ESSN 1460-2423 JRNL PMID 27621378 JRNL DOI 10.1093/GLYCOB/CWW096 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 33448 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.221 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 1687 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 40.5225 - 5.4905 1.00 2710 145 0.2057 0.2456 REMARK 3 2 5.4905 - 4.3596 1.00 2670 150 0.1906 0.2168 REMARK 3 3 4.3596 - 3.8090 1.00 2634 147 0.1922 0.2279 REMARK 3 4 3.8090 - 3.4610 1.00 2624 156 0.2000 0.2343 REMARK 3 5 3.4610 - 3.2130 1.00 2631 141 0.2266 0.2921 REMARK 3 6 3.2130 - 3.0236 1.00 2638 159 0.2286 0.2497 REMARK 3 7 3.0236 - 2.8722 1.00 2605 153 0.2503 0.3093 REMARK 3 8 2.8722 - 2.7472 1.00 2654 122 0.2607 0.3070 REMARK 3 9 2.7472 - 2.6415 1.00 2679 116 0.2758 0.3527 REMARK 3 10 2.6415 - 2.5504 1.00 2621 137 0.2810 0.3559 REMARK 3 11 2.5504 - 2.4706 1.00 2625 123 0.2968 0.3669 REMARK 3 12 2.4706 - 2.4000 1.00 2670 138 0.3079 0.3539 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.230 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 : 0.003 5295 REMARK 3 ANGLE : 0.583 7198 REMARK 3 CHIRALITY : 0.041 742 REMARK 3 PLANARITY : 0.004 946 REMARK 3 DIHEDRAL : 15.609 3080 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND ((RESSEQ 21:275)) REMARK 3 ORIGIN FOR THE GROUP (A): -5.6484 11.4305 45.1572 REMARK 3 T TENSOR REMARK 3 T11: 0.2844 T22: 0.2894 REMARK 3 T33: 0.3568 T12: 0.0286 REMARK 3 T13: 0.0197 T23: 0.0165 REMARK 3 L TENSOR REMARK 3 L11: 2.5714 L22: 2.9626 REMARK 3 L33: 1.5675 L12: 0.7705 REMARK 3 L13: 0.8840 L23: 0.6503 REMARK 3 S TENSOR REMARK 3 S11: 0.0653 S12: -0.1113 S13: 0.0278 REMARK 3 S21: 0.0265 S22: -0.1100 S23: 0.2541 REMARK 3 S31: 0.0749 S32: -0.0640 S33: 0.0510 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND ((RESSEQ 276:338) OR (RESSEQ 362:392)) REMARK 3 ORIGIN FOR THE GROUP (A): 17.3939 6.2160 28.3505 REMARK 3 T TENSOR REMARK 3 T11: 0.5777 T22: 0.4302 REMARK 3 T33: 0.5446 T12: 0.0989 REMARK 3 T13: 0.0409 T23: 0.0080 REMARK 3 L TENSOR REMARK 3 L11: 3.2691 L22: 2.1836 REMARK 3 L33: 4.3277 L12: -1.5247 REMARK 3 L13: -2.3301 L23: 2.4879 REMARK 3 S TENSOR REMARK 3 S11: 0.2267 S12: 0.1847 S13: 0.2671 REMARK 3 S21: -0.5897 S22: 0.0347 S23: -0.1969 REMARK 3 S31: -0.7740 S32: 0.0365 S33: -0.2419 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND ((RESSEQ 339:361) OR (RESSEQ 393:666)) REMARK 3 ORIGIN FOR THE GROUP (A): 18.3329 -12.6092 6.0313 REMARK 3 T TENSOR REMARK 3 T11: 0.5016 T22: 0.5773 REMARK 3 T33: 0.3491 T12: 0.0697 REMARK 3 T13: 0.0149 T23: 0.0291 REMARK 3 L TENSOR REMARK 3 L11: 2.3632 L22: 3.7923 REMARK 3 L33: 3.6339 L12: -0.2738 REMARK 3 L13: -0.7197 L23: 1.1877 REMARK 3 S TENSOR REMARK 3 S11: 0.0557 S12: 0.5150 S13: -0.1608 REMARK 3 S21: -0.4433 S22: -0.1363 S23: 0.3037 REMARK 3 S31: -0.0307 S32: -0.4420 S33: 0.0781 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 5JMD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-APR-16. REMARK 100 THE DEPOSITION ID IS D_1000220851. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33448 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 40.517 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 100MM TRIS PH8.5, 200MM REMARK 280 MAGNESIUM CHLORIDE AND 500MM NDSB 201 ADDITIVE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 40.20600 REMARK 290 SMTRY3 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 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 SER A 12 REMARK 465 ASP A 13 REMARK 465 SER A 14 REMARK 465 GLU A 15 REMARK 465 ASN A 16 REMARK 465 LEU A 17 REMARK 465 TYR A 18 REMARK 465 PHE A 19 REMARK 465 GLN A 20 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 LYS A 77 CD CE NZ REMARK 470 LYS A 78 CG CD CE NZ REMARK 470 LYS A 83 CG CD CE NZ REMARK 470 LYS A 101 CG CD CE NZ REMARK 470 LYS A 152 CD CE NZ REMARK 470 LYS A 169 CG CD CE NZ REMARK 470 LYS A 172 CG CD CE NZ REMARK 470 LYS A 173 CG CD CE NZ REMARK 470 GLU A 176 CG CD OE1 OE2 REMARK 470 LEU A 177 CG CD1 CD2 REMARK 470 VAL A 178 CG1 CG2 REMARK 470 ASP A 180 CG OD1 OD2 REMARK 470 LYS A 182 CE NZ REMARK 470 LYS A 184 CG CD CE NZ REMARK 470 LYS A 362 CG CD CE NZ REMARK 470 LYS A 366 CG CD CE NZ REMARK 470 LYS A 373 CD CE NZ REMARK 470 LYS A 377 CG CD CE NZ REMARK 470 LYS A 382 CG CD CE NZ REMARK 470 GLU A 390 CG CD OE1 OE2 REMARK 470 GLU A 462 CG CD OE1 OE2 REMARK 470 GLU A 465 CG CD OE1 OE2 REMARK 470 GLN A 466 CG CD OE1 NE2 REMARK 470 LYS A 484 CD CE NZ REMARK 470 LYS A 513 CG CD CE NZ REMARK 470 LYS A 516 CD CE NZ REMARK 470 LYS A 540 CG CD CE NZ REMARK 470 LYS A 551 CG CD CE NZ REMARK 470 GLN A 566 CG CD OE1 NE2 REMARK 470 GLU A 568 CG CD OE1 OE2 REMARK 470 LYS A 574 CG CD CE NZ REMARK 470 GLU A 581 CG CD OE1 OE2 REMARK 470 LYS A 587 CG CD CE NZ REMARK 470 ARG A 597 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 601 CG CD CE NZ REMARK 470 LYS A 610 CG CD CE NZ REMARK 470 ASP A 612 CG OD1 OD2 REMARK 470 LYS A 628 CG CD CE NZ REMARK 470 ASP A 631 CG OD1 OD2 REMARK 470 LYS A 634 CG CD CE NZ REMARK 470 LYS A 638 CG CD CE NZ REMARK 470 LYS A 640 CD CE NZ REMARK 470 LYS A 642 CG CD CE NZ REMARK 470 LYS A 654 CD CE NZ REMARK 470 LYS A 658 CG CD CE NZ REMARK 470 LYS A 659 CG CD CE NZ REMARK 470 LYS A 665 CG CD CE NZ 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 PHE A 443 OG SER A 571 2.18 REMARK 500 OD1 ASP A 355 OG SER A 454 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 ASN A 509 C PRO A 510 N 0.116 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 103 75.61 -114.03 REMARK 500 LYS A 121 71.28 -67.17 REMARK 500 LEU A 177 62.10 -101.17 REMARK 500 SER A 179 -104.71 -69.12 REMARK 500 ASP A 180 49.65 -176.14 REMARK 500 ASN A 241 45.06 -141.54 REMARK 500 ASP A 244 54.52 -91.22 REMARK 500 GLN A 245 -162.32 60.07 REMARK 500 CYS A 352 48.53 -90.02 REMARK 500 SER A 354 -131.19 58.00 REMARK 500 MET A 397 -90.76 -112.71 REMARK 500 ALA A 424 87.26 -161.07 REMARK 500 PHE A 429 -153.46 -135.25 REMARK 500 TYR A 455 -53.23 76.83 REMARK 500 TYR A 457 -155.85 -78.45 REMARK 500 GLU A 462 -34.56 -173.01 REMARK 500 VAL A 463 -26.58 82.33 REMARK 500 ASN A 477 74.38 -105.56 REMARK 500 THR A 478 -159.32 -153.81 REMARK 500 GLU A 490 72.71 -151.11 REMARK 500 THR A 527 -56.33 -130.41 REMARK 500 SER A 557 98.83 -160.29 REMARK 500 GLN A 566 52.98 -117.48 REMARK 500 ASN A 613 -138.01 -145.06 REMARK 500 ASN A 656 28.60 49.94 REMARK 500 GLN A 660 108.91 -165.00 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 701 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 433 OE1 REMARK 620 2 ASP A 451 OD2 162.8 REMARK 620 3 HOH A 802 O 89.5 107.7 REMARK 620 4 HOH A 822 O 83.6 79.4 168.1 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 MG A 701 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5JMF RELATED DB: PDB DBREF 5JMD A 23 666 UNP Q89YS4 Q89YS4_BACTN 23 666 SEQADV 5JMD SER A 12 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD ASP A 13 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD SER A 14 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD GLU A 15 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD ASN A 16 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD LEU A 17 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD TYR A 18 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD PHE A 19 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD GLN A 20 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD GLY A 21 UNP Q89YS4 EXPRESSION TAG SEQADV 5JMD SER A 22 UNP Q89YS4 EXPRESSION TAG SEQRES 1 A 655 SER ASP SER GLU ASN LEU TYR PHE GLN GLY SER GLN GLU SEQRES 2 A 655 LEU LYS SER GLU VAL PHE SER LEU LEU ASN LEU ASP TYR SEQRES 3 A 655 PRO GLY LEU GLU LYS VAL LYS ALA LEU HIS GLN GLU GLY SEQRES 4 A 655 LYS ASP GLU ASP ALA ALA MLY ALA LEU LEU ASP TYR TYR SEQRES 5 A 655 ARG ALA ARG THR ASN VAL LYS THR PRO ASP ILE ASN LEU SEQRES 6 A 655 LYS LYS ILE THR ILE GLY LYS GLU GLU GLN GLN TRP ALA SEQRES 7 A 655 ASP ASP GLY LEU LYS HIS THR PHE PHE VAL HIS LYS GLY SEQRES 8 A 655 TYR GLN PRO SER TYR ASN TYR GLY GLU ASP ILE ASN TRP SEQRES 9 A 655 GLN TYR TRP PRO VAL LYS ASP ASN GLU LEU ARG TRP GLN SEQRES 10 A 655 LEU HIS ARG HIS LYS TRP PHE THR PRO MET GLY LYS ALA SEQRES 11 A 655 TYR ARG VAL SER GLY ASP GLU LYS TYR ALA LYS GLU TRP SEQRES 12 A 655 ALA TYR GLN TYR ILE ASP TRP ILE LYS LYS ASN PRO LEU SEQRES 13 A 655 VAL LYS MET ASP LYS LYS GLU TYR GLU LEU VAL SER ASP SEQRES 14 A 655 GLY LYS ILE LYS GLY GLU VAL GLU ASN VAL ARG PHE ALA SEQRES 15 A 655 TRP ARG PRO LEU GLU VAL SER ASN ARG LEU GLN ASP GLN SEQRES 16 A 655 THR THR GLN PHE GLN LEU PHE LEU PRO SER PRO SER PHE SEQRES 17 A 655 THR PRO ASP PHE LEU THR GLU PHE LEU VAL ASN TYR HIS SEQRES 18 A 655 LYS HIS ALA VAL HIS ILE LEU ALA ASN TYR SER ASP GLN SEQRES 19 A 655 GLY ASN HIS LEU LEU PHE GLU ALA GLN ARG MET ILE TYR SEQRES 20 A 655 ALA GLY ALA PHE PHE PRO GLU PHE LYS GLU ALA PRO ALA SEQRES 21 A 655 TRP ARG LYS SER GLY ILE ASP ILE LEU ASN ARG GLU VAL SEQRES 22 A 655 ASN VAL GLN VAL TYR ASN ASP GLY GLY GLN PHE GLU LEU SEQRES 23 A 655 ASP PRO HIS TYR HIS LEU ALA ALA ILE ASN ILE PHE CYS SEQRES 24 A 655 LYS ALA LEU GLY ILE ALA ASP VAL ASN GLY PHE ARG ASN SEQRES 25 A 655 GLU PHE PRO GLN GLU TYR LEU ASP THR ILE GLU LYS MET SEQRES 26 A 655 ILE MET PHE TYR ALA ASN ILE SER PHE PRO ASP TYR THR SEQRES 27 A 655 ASN PRO CYS PHE SER ASP ALA LYS ILE THR GLU LYS LYS SEQRES 28 A 655 GLU MET LEU LYS ASN TYR ARG ALA TRP SER LYS LEU PHE SEQRES 29 A 655 PRO LYS ASN GLU THR ILE LYS TYR LEU ALA THR ASP GLY SEQRES 30 A 655 LYS GLU GLY ALA LEU PRO ASP TYR MET SER LYS GLY PHE SEQRES 31 A 655 LEU LYS SER GLY PHE PHE VAL PHE ARG ASN SER TRP GLY SEQRES 32 A 655 MET ASP ALA THR GLN MET VAL VAL LYS ALA GLY PRO LYS SEQRES 33 A 655 GLY PHE TRP HIS CYS GLN PRO ASP ASN GLY THR PHE GLU SEQRES 34 A 655 MET TRP PHE ASN GLY LYS ASN LEU PHE PRO ASP SER GLY SEQRES 35 A 655 SER TYR VAL TYR ALA GLY GLU GLY GLU VAL MET GLU GLN SEQRES 36 A 655 ARG ASN TRP HIS ARG GLN THR SER VAL HIS ASN THR VAL SEQRES 37 A 655 THR LEU ASP ASN LYS ASN LEU GLU THR THR GLU SER VAL SEQRES 38 A 655 THR LYS LEU TRP GLN PRO GLU GLY ASN ILE GLN THR LEU SEQRES 39 A 655 VAL THR GLU ASN PRO SER TYR LYS ASN PHE LYS HIS ARG SEQRES 40 A 655 ARG SER VAL PHE PHE VAL ASP ASN THR TYR PHE VAL ILE SEQRES 41 A 655 VAL ASP GLU VAL SER GLY SER ALA LYS GLY SER VAL ASN SEQRES 42 A 655 LEU HIS TYR GLN MET PRO LYS GLY GLU ILE ALA ASN SER SEQRES 43 A 655 ARG GLU ASP MET THR PHE LEU THR GLN PHE GLU ASP GLY SEQRES 44 A 655 SER ASN MET LYS LEU GLN CYS PHE GLY PRO GLU GLY MET SEQRES 45 A 655 SER MET LYS LYS GLU PRO GLY TRP CYS SER THR ALA TYR SEQRES 46 A 655 ARG LYS ARG TYR LYS ARG MET ASN VAL SER PHE ASN VAL SEQRES 47 A 655 LYS LYS ASP ASN GLU ASN ALA VAL ARG TYR ILE THR VAL SEQRES 48 A 655 ILE TYR PRO VAL LYS LYS SER ALA ASP ALA PRO LYS PHE SEQRES 49 A 655 ASP ALA LYS PHE LYS ASN LYS THR PHE ASP GLU ASN GLY SEQRES 50 A 655 LEU GLU ILE GLU VAL LYS VAL ASN GLY LYS LYS GLN SER SEQRES 51 A 655 LEU LYS TYR LYS LEU MODRES 5JMD MLY A 57 LYS MODIFIED RESIDUE HET MLY A 57 11 HET MG A 701 1 HETNAM MLY N-DIMETHYL-LYSINE HETNAM MG MAGNESIUM ION FORMUL 1 MLY C8 H18 N2 O2 FORMUL 2 MG MG 2+ FORMUL 3 HOH *122(H2 O) HELIX 1 AA1 GLU A 28 LEU A 33 1 6 HELIX 2 AA2 LEU A 40 GLU A 49 1 10 HELIX 3 AA3 LYS A 51 ARG A 66 1 16 HELIX 4 AA4 GLY A 82 LYS A 94 1 13 HELIX 5 AA5 ASP A 122 GLN A 128 1 7 HELIX 6 AA6 LEU A 129 HIS A 132 5 4 HELIX 7 AA7 TRP A 134 GLY A 146 1 13 HELIX 8 AA8 ASP A 147 ASN A 165 1 19 HELIX 9 AA9 ASP A 171 GLU A 176 1 6 HELIX 10 AB1 GLY A 181 TRP A 194 1 14 HELIX 11 AB2 ARG A 195 LEU A 214 1 20 HELIX 12 AB3 THR A 220 ALA A 240 1 21 HELIX 13 AB4 GLY A 246 PHE A 263 1 18 HELIX 14 AB5 GLU A 268 VAL A 288 1 21 HELIX 15 AB6 ASP A 298 VAL A 318 1 21 HELIX 16 AB7 PHE A 321 PHE A 325 5 5 HELIX 17 AB8 PRO A 326 SER A 344 1 19 HELIX 18 AB9 GLU A 360 PHE A 375 1 16 HELIX 19 AC1 ASN A 378 ASP A 387 1 10 HELIX 20 AC2 VAL A 463 ARG A 471 1 9 HELIX 21 AC3 GLN A 472 HIS A 476 5 5 HELIX 22 AC4 LYS A 628 ALA A 632 5 5 SHEET 1 AA1 2 THR A 96 PHE A 97 0 SHEET 2 AA1 2 TYR A 107 ASN A 108 -1 O TYR A 107 N PHE A 97 SHEET 1 AA2 5 LYS A 399 PHE A 401 0 SHEET 2 AA2 5 PHE A 406 ARG A 410 -1 O VAL A 408 N LYS A 399 SHEET 3 AA2 5 THR A 418 LYS A 423 -1 O VAL A 422 N PHE A 407 SHEET 4 AA2 5 PHE A 439 PHE A 443 -1 O TRP A 442 N GLN A 419 SHEET 5 AA2 5 LYS A 446 ASN A 447 -1 O LYS A 446 N PHE A 443 SHEET 1 AA3 4 VAL A 479 LEU A 481 0 SHEET 2 AA3 4 GLY A 541 GLN A 548 -1 O ASN A 544 N THR A 480 SHEET 3 AA3 4 LYS A 598 LYS A 611 -1 O LYS A 611 N GLY A 541 SHEET 4 AA3 4 SER A 584 ALA A 595 -1 N GLU A 588 O ASN A 604 SHEET 1 AA4 8 VAL A 492 GLN A 497 0 SHEET 2 AA4 8 ILE A 502 TYR A 512 -1 O THR A 504 N GLN A 497 SHEET 3 AA4 8 PHE A 515 VAL A 524 -1 O ARG A 519 N THR A 507 SHEET 4 AA4 8 TYR A 528 SER A 536 -1 O TYR A 528 N VAL A 524 SHEET 5 AA4 8 VAL A 617 VAL A 626 -1 O THR A 621 N ILE A 531 SHEET 6 AA4 8 ASN A 572 PHE A 578 -1 N LYS A 574 O TYR A 624 SHEET 7 AA4 8 THR A 562 THR A 565 -1 N THR A 565 O MET A 573 SHEET 8 AA4 8 ILE A 554 ALA A 555 -1 N ALA A 555 O LEU A 564 SHEET 1 AA5 3 PHE A 635 PHE A 639 0 SHEET 2 AA5 3 GLY A 648 VAL A 655 -1 O GLU A 652 N LYS A 638 SHEET 3 AA5 3 LYS A 658 LYS A 665 -1 O GLN A 660 N VAL A 653 LINK C ALA A 56 N MLY A 57 1555 1555 1.33 LINK C MLY A 57 N ALA A 58 1555 1555 1.33 LINK OE1 GLN A 433 MG MG A 701 1555 1555 2.10 LINK OD2 ASP A 451 MG MG A 701 1555 1555 2.17 LINK MG MG A 701 O HOH A 802 1555 1555 2.28 LINK MG MG A 701 O HOH A 822 1555 1555 2.00 CISPEP 1 GLN A 104 PRO A 105 0 -0.16 CISPEP 2 ALA A 458 GLY A 459 0 -1.55 CISPEP 3 GLU A 460 GLY A 461 0 -2.32 CISPEP 4 GLU A 462 VAL A 463 0 4.36 SITE 1 AC1 5 GLN A 433 ASP A 451 HIS A 476 HOH A 802 SITE 2 AC1 5 HOH A 822 CRYST1 66.359 80.412 83.543 90.00 104.08 90.00 P 1 21 1 2 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 0.015070 0.000000 0.003779 0.00000 SCALE2 0.000000 0.012436 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012341 0.00000