HEADER OXIDOREDUCTASE 12-MAY-20 7C3I TITLE STRUCTURE OF L-LYSINE OXIDASE D212A/D315A COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-LYSINE OXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.4.3.14; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HYPOCREA RUFA; SOURCE 3 ORGANISM_TAXID: 5547; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: SOLUBL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PCOLD IV KEYWDS L-AMINO ACID OXIDASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.KITAGAWA,Y.MATSUMOTO,K.INAGAKI,K.IMADA REVDAT 3 29-NOV-23 7C3I 1 REMARK REVDAT 2 04-NOV-20 7C3I 1 JRNL REVDAT 1 23-SEP-20 7C3I 0 JRNL AUTH H.KONDO,M.KITAGAWA,Y.MATSUMOTO,M.SAITO,M.AMANO,S.SUGIYAMA, JRNL AUTH 2 T.TAMURA,H.KUSAKABE,K.INAGAKI,K.IMADA JRNL TITL STRUCTURAL BASIS OF STRICT SUBSTRATE RECOGNITION OF L-LYSINE JRNL TITL 2 ALPHA-OXIDASE FROM TRICHODERMA VIRIDE. JRNL REF PROTEIN SCI. V. 29 2213 2020 JRNL REFN ESSN 1469-896X JRNL PMID 32894626 JRNL DOI 10.1002/PRO.3946 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.91 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 52468 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 2665 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 74.9100 - 6.1400 0.96 2711 141 0.1776 0.1767 REMARK 3 2 6.1400 - 4.8700 0.99 2693 137 0.1719 0.2299 REMARK 3 3 4.8700 - 4.2600 1.00 2674 141 0.1462 0.1775 REMARK 3 4 4.2600 - 3.8700 0.98 2623 141 0.1520 0.1768 REMARK 3 5 3.8700 - 3.5900 0.93 2489 120 0.1991 0.2619 REMARK 3 6 3.5900 - 3.3800 1.00 2674 144 0.1758 0.2124 REMARK 3 7 3.3800 - 3.2100 0.98 2591 123 0.1768 0.2128 REMARK 3 8 3.2100 - 3.0700 0.98 2586 148 0.1906 0.2352 REMARK 3 9 3.0700 - 2.9500 0.99 2595 170 0.1804 0.2236 REMARK 3 10 2.9500 - 2.8500 1.00 2603 147 0.1899 0.2264 REMARK 3 11 2.8500 - 2.7600 0.99 2619 141 0.1934 0.2801 REMARK 3 12 2.7600 - 2.6800 1.00 2623 144 0.1860 0.2319 REMARK 3 13 2.6800 - 2.6100 1.00 2646 123 0.1869 0.3120 REMARK 3 14 2.6100 - 2.5500 1.00 2636 114 0.1824 0.2286 REMARK 3 15 2.5500 - 2.4900 1.00 2630 125 0.1811 0.2232 REMARK 3 16 2.4900 - 2.4400 1.00 2631 131 0.1836 0.2659 REMARK 3 17 2.4400 - 2.3900 1.00 2591 145 0.1818 0.2686 REMARK 3 18 2.3900 - 2.3400 1.00 2578 173 0.1977 0.2751 REMARK 3 19 2.3400 - 2.3000 1.00 2610 157 0.2079 0.2547 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) : 0.213 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.601 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.85 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.94 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 : 0.005 8406 REMARK 3 ANGLE : 0.706 11436 REMARK 3 CHIRALITY : 0.045 1200 REMARK 3 PLANARITY : 0.005 1444 REMARK 3 DIHEDRAL : 6.372 6708 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 7C3I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1300016957. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-APR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52760 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 85.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.24900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3X0V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1% (W/V) PEG 400, 0.1 M TRIS-HCL PH REMARK 280 7.5, 2.1 M AMMONIUM SULFATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.78000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.78000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 58.22500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 85.14550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 58.22500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 85.14550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.78000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 58.22500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 85.14550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.78000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 58.22500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 85.14550 REMARK 290 SMTRY3 8 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: 9830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 ALA A 1 REMARK 465 GLU A 2 REMARK 465 GLU A 3 REMARK 465 PRO A 389 REMARK 465 PRO A 390 REMARK 465 TYR A 510 REMARK 465 GLY A 511 REMARK 465 LEU A 512 REMARK 465 GLN A 513 REMARK 465 GLU A 514 REMARK 465 LEU A 515 REMARK 465 GLU A 516 REMARK 465 THR A 517 REMARK 465 GLY A 518 REMARK 465 LYS A 519 REMARK 465 HIS A 520 REMARK 465 GLY A 521 REMARK 465 THR A 522 REMARK 465 ALA A 523 REMARK 465 HIS A 524 REMARK 465 LEU A 525 REMARK 465 GLN A 526 REMARK 465 PHE A 527 REMARK 465 ILE A 528 REMARK 465 LEU A 529 REMARK 465 GLY A 530 REMARK 465 SER A 531 REMARK 465 LEU A 532 REMARK 465 PRO A 533 REMARK 465 LYS A 534 REMARK 465 GLU A 535 REMARK 465 TYR A 536 REMARK 465 GLN A 537 REMARK 465 VAL A 538 REMARK 465 LYS A 539 REMARK 465 ILE A 540 REMARK 465 ALA B 1 REMARK 465 GLU B 2 REMARK 465 GLU B 3 REMARK 465 PRO B 389 REMARK 465 PRO B 390 REMARK 465 TYR B 510 REMARK 465 GLY B 511 REMARK 465 LEU B 512 REMARK 465 GLN B 513 REMARK 465 GLU B 514 REMARK 465 LEU B 515 REMARK 465 GLU B 516 REMARK 465 THR B 517 REMARK 465 GLY B 518 REMARK 465 LYS B 519 REMARK 465 HIS B 520 REMARK 465 GLY B 521 REMARK 465 THR B 522 REMARK 465 ALA B 523 REMARK 465 HIS B 524 REMARK 465 LEU B 525 REMARK 465 GLN B 526 REMARK 465 PHE B 527 REMARK 465 ILE B 528 REMARK 465 LEU B 529 REMARK 465 GLY B 530 REMARK 465 SER B 531 REMARK 465 LEU B 532 REMARK 465 PRO B 533 REMARK 465 LYS B 534 REMARK 465 GLU B 535 REMARK 465 TYR B 536 REMARK 465 GLN B 537 REMARK 465 VAL B 538 REMARK 465 LYS B 539 REMARK 465 ILE B 540 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 709 O HOH B 955 1.98 REMARK 500 OE2 GLU A 240 O HOH A 701 1.99 REMARK 500 OE1 GLU B 418 O HOH B 701 2.10 REMARK 500 O HOH A 983 O HOH A 1024 2.12 REMARK 500 O HOH B 860 O HOH B 1023 2.13 REMARK 500 O HOH B 746 O HOH B 967 2.14 REMARK 500 O HOH B 717 O HOH B 1029 2.15 REMARK 500 OE1 GLN B 401 O HOH B 702 2.15 REMARK 500 O HOH A 724 O HOH A 866 2.16 REMARK 500 O HOH A 968 O HOH A 1033 2.17 REMARK 500 O HOH A 868 O HOH A 1021 2.18 REMARK 500 OE2 GLU B 147 O HOH B 703 2.18 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 ALA A 15 50.57 -115.21 REMARK 500 MET A 67 -13.66 -146.13 REMARK 500 ARG A 348 -58.76 64.66 REMARK 500 SER A 372 -139.28 63.23 REMARK 500 VAL A 435 -54.35 -133.31 REMARK 500 SER A 470 37.35 -87.96 REMARK 500 ALA B 15 51.02 -116.88 REMARK 500 MET B 67 -16.77 -146.16 REMARK 500 ASN B 200 -2.59 79.67 REMARK 500 CYS B 337 56.53 -141.52 REMARK 500 ARG B 348 -62.49 63.84 REMARK 500 SER B 372 -139.70 61.40 REMARK 500 VAL B 435 -54.11 -136.22 REMARK 500 SER B 470 41.00 -90.92 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 A1054 DISTANCE = 5.82 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE B 604 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3X0V RELATED DB: PDB REMARK 900 RELATED ID: 7C3H RELATED DB: PDB DBREF1 7C3I A 1 540 UNP A0A0J9X1X3_HYPRU DBREF2 7C3I A A0A0J9X1X3 1 540 DBREF1 7C3I B 1 540 UNP A0A0J9X1X3_HYPRU DBREF2 7C3I B A0A0J9X1X3 1 540 SEQADV 7C3I ALA A 212 UNP A0A0J9X1X ASP 212 ENGINEERED MUTATION SEQADV 7C3I ALA A 315 UNP A0A0J9X1X ASP 315 ENGINEERED MUTATION SEQADV 7C3I ALA B 212 UNP A0A0J9X1X ASP 212 ENGINEERED MUTATION SEQADV 7C3I ALA B 315 UNP A0A0J9X1X ASP 315 ENGINEERED MUTATION SEQRES 1 A 540 ALA GLU GLU GLU LEU PRO PRO ARG LYS VAL CYS ILE VAL SEQRES 2 A 540 GLY ALA GLY VAL SER GLY LEU TYR ILE ALA MET ILE LEU SEQRES 3 A 540 ASP ASP LEU LYS ILE PRO ASN LEU THR TYR ASP ILE PHE SEQRES 4 A 540 GLU SER SER SER ARG THR GLY GLY ARG LEU TYR THR HIS SEQRES 5 A 540 HIS PHE THR ASP ALA LYS HIS ASP TYR TYR ASP ILE GLY SEQRES 6 A 540 ALA MET ARG TYR PRO ASP ILE PRO SER MET LYS ARG THR SEQRES 7 A 540 PHE ASN LEU PHE LYS ARG THR GLY MET PRO LEU ILE LYS SEQRES 8 A 540 TYR TYR LEU ASP GLY GLU ASN THR PRO GLN LEU TYR ASN SEQRES 9 A 540 ASN HIS PHE PHE ALA LYS GLY VAL VAL ASP PRO TYR MET SEQRES 10 A 540 VAL SER VAL ALA ASN GLY GLY THR VAL PRO ASP ASP VAL SEQRES 11 A 540 VAL ASP SER VAL GLY GLU LYS LEU GLN GLN ALA PHE GLY SEQRES 12 A 540 TYR TYR LYS GLU LYS LEU ALA GLU ASP PHE ASP LYS GLY SEQRES 13 A 540 PHE ASP GLU LEU MET LEU VAL ASP ASP MET THR THR ARG SEQRES 14 A 540 GLU TYR LEU LYS ARG GLY GLY PRO LYS GLY GLU ALA PRO SEQRES 15 A 540 LYS TYR ASP PHE PHE ALA ILE GLN TRP MET GLU THR GLN SEQRES 16 A 540 ASN THR GLY THR ASN LEU PHE ASP GLN ALA PHE SER GLU SEQRES 17 A 540 SER VAL ILE ALA SER PHE ASP PHE ASP ASN PRO THR LYS SEQRES 18 A 540 PRO GLU TRP TYR CYS ILE GLU GLY GLY THR SER LEU LEU SEQRES 19 A 540 VAL ASP ALA MET LYS GLU THR LEU VAL HIS LYS VAL GLN SEQRES 20 A 540 ASN ASN LYS ARG VAL GLU ALA ILE SER ILE ASP LEU ASP SEQRES 21 A 540 ALA PRO ASP ASP GLY ASN MET SER VAL LYS ILE GLY GLY SEQRES 22 A 540 LYS ASP TYR SER GLY TYR SER THR VAL PHE ASN THR THR SEQRES 23 A 540 ALA LEU GLY CYS LEU ASP ARG MET ASP LEU ARG GLY LEU SEQRES 24 A 540 ASN LEU HIS PRO THR GLN ALA ASP ALA ILE ARG CYS LEU SEQRES 25 A 540 HIS TYR ALA ASN SER THR LYS VAL ALA LEU LYS PHE SER SEQRES 26 A 540 TYR PRO TRP TRP ILE LYS ASP CYS GLY ILE THR CYS GLY SEQRES 27 A 540 GLY ALA ALA SER THR ASP LEU PRO LEU ARG THR CYS VAL SEQRES 28 A 540 TYR PRO SER TYR ASN LEU GLY ASP THR GLY GLU ALA VAL SEQRES 29 A 540 LEU LEU ALA SER TYR THR TRP SER GLN ASP ALA THR ARG SEQRES 30 A 540 ILE GLY SER LEU VAL LYS ASP ALA PRO PRO GLN PRO PRO SEQRES 31 A 540 LYS GLU ASP GLU LEU VAL GLU LEU ILE LEU GLN ASN LEU SEQRES 32 A 540 ALA ARG LEU HIS ALA GLU HIS MET THR TYR GLU LYS ILE SEQRES 33 A 540 LYS GLU ALA TYR THR GLY VAL TYR HIS ALA TYR CYS TRP SEQRES 34 A 540 ALA ASN ASP PRO ASN VAL GLY GLY ALA PHE ALA LEU PHE SEQRES 35 A 540 GLY PRO GLY GLN PHE SER ASN LEU TYR PRO TYR LEU MET SEQRES 36 A 540 ARG PRO ALA ALA GLY GLY LYS PHE HIS ILE VAL GLY GLU SEQRES 37 A 540 ALA SER SER VAL HIS HIS ALA TRP ILE ILE GLY SER LEU SEQRES 38 A 540 GLU SER ALA TYR THR ALA VAL TYR GLN PHE LEU TYR LYS SEQRES 39 A 540 TYR LYS MET TRP ASP TYR LEU ARG LEU LEU LEU GLU ARG SEQRES 40 A 540 TRP GLN TYR GLY LEU GLN GLU LEU GLU THR GLY LYS HIS SEQRES 41 A 540 GLY THR ALA HIS LEU GLN PHE ILE LEU GLY SER LEU PRO SEQRES 42 A 540 LYS GLU TYR GLN VAL LYS ILE SEQRES 1 B 540 ALA GLU GLU GLU LEU PRO PRO ARG LYS VAL CYS ILE VAL SEQRES 2 B 540 GLY ALA GLY VAL SER GLY LEU TYR ILE ALA MET ILE LEU SEQRES 3 B 540 ASP ASP LEU LYS ILE PRO ASN LEU THR TYR ASP ILE PHE SEQRES 4 B 540 GLU SER SER SER ARG THR GLY GLY ARG LEU TYR THR HIS SEQRES 5 B 540 HIS PHE THR ASP ALA LYS HIS ASP TYR TYR ASP ILE GLY SEQRES 6 B 540 ALA MET ARG TYR PRO ASP ILE PRO SER MET LYS ARG THR SEQRES 7 B 540 PHE ASN LEU PHE LYS ARG THR GLY MET PRO LEU ILE LYS SEQRES 8 B 540 TYR TYR LEU ASP GLY GLU ASN THR PRO GLN LEU TYR ASN SEQRES 9 B 540 ASN HIS PHE PHE ALA LYS GLY VAL VAL ASP PRO TYR MET SEQRES 10 B 540 VAL SER VAL ALA ASN GLY GLY THR VAL PRO ASP ASP VAL SEQRES 11 B 540 VAL ASP SER VAL GLY GLU LYS LEU GLN GLN ALA PHE GLY SEQRES 12 B 540 TYR TYR LYS GLU LYS LEU ALA GLU ASP PHE ASP LYS GLY SEQRES 13 B 540 PHE ASP GLU LEU MET LEU VAL ASP ASP MET THR THR ARG SEQRES 14 B 540 GLU TYR LEU LYS ARG GLY GLY PRO LYS GLY GLU ALA PRO SEQRES 15 B 540 LYS TYR ASP PHE PHE ALA ILE GLN TRP MET GLU THR GLN SEQRES 16 B 540 ASN THR GLY THR ASN LEU PHE ASP GLN ALA PHE SER GLU SEQRES 17 B 540 SER VAL ILE ALA SER PHE ASP PHE ASP ASN PRO THR LYS SEQRES 18 B 540 PRO GLU TRP TYR CYS ILE GLU GLY GLY THR SER LEU LEU SEQRES 19 B 540 VAL ASP ALA MET LYS GLU THR LEU VAL HIS LYS VAL GLN SEQRES 20 B 540 ASN ASN LYS ARG VAL GLU ALA ILE SER ILE ASP LEU ASP SEQRES 21 B 540 ALA PRO ASP ASP GLY ASN MET SER VAL LYS ILE GLY GLY SEQRES 22 B 540 LYS ASP TYR SER GLY TYR SER THR VAL PHE ASN THR THR SEQRES 23 B 540 ALA LEU GLY CYS LEU ASP ARG MET ASP LEU ARG GLY LEU SEQRES 24 B 540 ASN LEU HIS PRO THR GLN ALA ASP ALA ILE ARG CYS LEU SEQRES 25 B 540 HIS TYR ALA ASN SER THR LYS VAL ALA LEU LYS PHE SER SEQRES 26 B 540 TYR PRO TRP TRP ILE LYS ASP CYS GLY ILE THR CYS GLY SEQRES 27 B 540 GLY ALA ALA SER THR ASP LEU PRO LEU ARG THR CYS VAL SEQRES 28 B 540 TYR PRO SER TYR ASN LEU GLY ASP THR GLY GLU ALA VAL SEQRES 29 B 540 LEU LEU ALA SER TYR THR TRP SER GLN ASP ALA THR ARG SEQRES 30 B 540 ILE GLY SER LEU VAL LYS ASP ALA PRO PRO GLN PRO PRO SEQRES 31 B 540 LYS GLU ASP GLU LEU VAL GLU LEU ILE LEU GLN ASN LEU SEQRES 32 B 540 ALA ARG LEU HIS ALA GLU HIS MET THR TYR GLU LYS ILE SEQRES 33 B 540 LYS GLU ALA TYR THR GLY VAL TYR HIS ALA TYR CYS TRP SEQRES 34 B 540 ALA ASN ASP PRO ASN VAL GLY GLY ALA PHE ALA LEU PHE SEQRES 35 B 540 GLY PRO GLY GLN PHE SER ASN LEU TYR PRO TYR LEU MET SEQRES 36 B 540 ARG PRO ALA ALA GLY GLY LYS PHE HIS ILE VAL GLY GLU SEQRES 37 B 540 ALA SER SER VAL HIS HIS ALA TRP ILE ILE GLY SER LEU SEQRES 38 B 540 GLU SER ALA TYR THR ALA VAL TYR GLN PHE LEU TYR LYS SEQRES 39 B 540 TYR LYS MET TRP ASP TYR LEU ARG LEU LEU LEU GLU ARG SEQRES 40 B 540 TRP GLN TYR GLY LEU GLN GLU LEU GLU THR GLY LYS HIS SEQRES 41 B 540 GLY THR ALA HIS LEU GLN PHE ILE LEU GLY SER LEU PRO SEQRES 42 B 540 LYS GLU TYR GLN VAL LYS ILE HET FAD A 601 53 HET SO4 A 602 5 HET GOL A 603 6 HET EPE A 604 15 HET FAD B 601 53 HET SO4 B 602 5 HET GOL B 603 6 HET EPE B 604 15 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EPE HEPES FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 SO4 2(O4 S 2-) FORMUL 5 GOL 2(C3 H8 O3) FORMUL 6 EPE 2(C8 H18 N2 O4 S) FORMUL 11 HOH *710(H2 O) HELIX 1 AA1 GLY A 16 LYS A 30 1 15 HELIX 2 AA2 ILE A 72 SER A 74 5 3 HELIX 3 AA3 MET A 75 THR A 85 1 11 HELIX 4 AA4 SER A 119 GLY A 123 5 5 HELIX 5 AA5 PRO A 127 ASP A 132 1 6 HELIX 6 AA6 SER A 133 ASP A 152 1 20 HELIX 7 AA7 ASP A 152 MET A 161 1 10 HELIX 8 AA8 LEU A 162 ASP A 164 5 3 HELIX 9 AA9 THR A 167 GLY A 175 1 9 HELIX 10 AB1 ASP A 185 THR A 197 1 13 HELIX 11 AB2 ASN A 200 GLN A 204 5 5 HELIX 12 AB3 ALA A 205 ASP A 217 1 13 HELIX 13 AB4 THR A 231 THR A 241 1 11 HELIX 14 AB5 ALA A 287 MET A 294 1 8 HELIX 15 AB6 LEU A 296 ASN A 300 5 5 HELIX 16 AB7 HIS A 302 LEU A 312 1 11 HELIX 17 AB8 PRO A 327 ASP A 332 1 6 HELIX 18 AB9 SER A 372 SER A 380 1 9 HELIX 19 AC1 ASP A 393 HIS A 407 1 15 HELIX 20 AC2 THR A 412 ALA A 419 1 8 HELIX 21 AC3 ALA A 430 ASP A 432 5 3 HELIX 22 AC4 GLY A 445 LEU A 450 1 6 HELIX 23 AC5 LEU A 450 MET A 455 1 6 HELIX 24 AC6 GLY A 467 SER A 471 5 5 HELIX 25 AC7 TRP A 476 TYR A 495 1 20 HELIX 26 AC8 MET A 497 GLN A 509 1 13 HELIX 27 AC9 GLY B 16 LYS B 30 1 15 HELIX 28 AD1 ILE B 72 SER B 74 5 3 HELIX 29 AD2 MET B 75 GLY B 86 1 12 HELIX 30 AD3 SER B 119 GLY B 123 5 5 HELIX 31 AD4 PRO B 127 ASP B 132 1 6 HELIX 32 AD5 SER B 133 ASP B 152 1 20 HELIX 33 AD6 ASP B 152 MET B 161 1 10 HELIX 34 AD7 LEU B 162 ASP B 164 5 3 HELIX 35 AD8 THR B 167 GLY B 175 1 9 HELIX 36 AD9 ASP B 185 THR B 197 1 13 HELIX 37 AE1 ASN B 200 GLN B 204 5 5 HELIX 38 AE2 ALA B 205 ASP B 217 1 13 HELIX 39 AE3 THR B 231 LEU B 242 1 12 HELIX 40 AE4 ALA B 287 ARG B 293 1 7 HELIX 41 AE5 LEU B 296 ASN B 300 5 5 HELIX 42 AE6 HIS B 302 LEU B 312 1 11 HELIX 43 AE7 PRO B 327 ASP B 332 1 6 HELIX 44 AE8 SER B 372 SER B 380 1 9 HELIX 45 AE9 ASP B 393 HIS B 407 1 15 HELIX 46 AF1 THR B 412 ALA B 419 1 8 HELIX 47 AF2 ALA B 430 ASP B 432 5 3 HELIX 48 AF3 GLY B 445 LEU B 450 1 6 HELIX 49 AF4 LEU B 450 MET B 455 1 6 HELIX 50 AF5 GLY B 467 SER B 471 5 5 HELIX 51 AF6 TRP B 476 TYR B 495 1 20 HELIX 52 AF7 MET B 497 GLN B 509 1 13 SHEET 1 AA1 4 LEU A 34 PHE A 39 0 SHEET 2 AA1 4 ARG A 8 VAL A 13 1 N ILE A 12 O ASP A 37 SHEET 3 AA1 4 VAL A 282 ASN A 284 1 O PHE A 283 N VAL A 13 SHEET 4 AA1 4 PHE A 463 ILE A 465 1 O HIS A 464 N ASN A 284 SHEET 1 AA2 2 THR A 51 HIS A 53 0 SHEET 2 AA2 2 TYR A 61 ASP A 63 -1 O TYR A 62 N HIS A 52 SHEET 1 AA3 3 TYR A 69 PRO A 70 0 SHEET 2 AA3 3 TRP A 224 ILE A 227 -1 O TYR A 225 N TYR A 69 SHEET 3 AA3 3 LEU A 89 TYR A 92 -1 N ILE A 90 O CYS A 226 SHEET 1 AA4 4 HIS A 106 PHE A 107 0 SHEET 2 AA4 4 GLN A 101 TYR A 103 -1 N TYR A 103 O HIS A 106 SHEET 3 AA4 4 ALA A 340 THR A 343 1 O SER A 342 N LEU A 102 SHEET 4 AA4 4 THR A 349 VAL A 351 -1 O CYS A 350 N ALA A 341 SHEET 1 AA5 3 VAL A 252 ILE A 257 0 SHEET 2 AA5 3 MET A 267 ILE A 271 -1 O LYS A 270 N GLU A 253 SHEET 3 AA5 3 LYS A 274 TYR A 279 -1 O TYR A 276 N VAL A 269 SHEET 1 AA6 2 TYR A 314 ALA A 315 0 SHEET 2 AA6 2 PHE A 439 ALA A 440 -1 O PHE A 439 N ALA A 315 SHEET 1 AA7 3 ALA A 363 TRP A 371 0 SHEET 2 AA7 3 SER A 317 PHE A 324 -1 N PHE A 324 O ALA A 363 SHEET 3 AA7 3 TYR A 420 CYS A 428 -1 O HIS A 425 N ALA A 321 SHEET 1 AA8 4 LEU B 34 PHE B 39 0 SHEET 2 AA8 4 ARG B 8 VAL B 13 1 N ILE B 12 O ASP B 37 SHEET 3 AA8 4 THR B 281 ASN B 284 1 O PHE B 283 N VAL B 13 SHEET 4 AA8 4 PHE B 463 ILE B 465 1 O HIS B 464 N ASN B 284 SHEET 1 AA9 2 THR B 51 HIS B 53 0 SHEET 2 AA9 2 TYR B 61 ASP B 63 -1 O TYR B 62 N HIS B 52 SHEET 1 AB1 3 TYR B 69 PRO B 70 0 SHEET 2 AB1 3 TRP B 224 ILE B 227 -1 O TYR B 225 N TYR B 69 SHEET 3 AB1 3 LEU B 89 TYR B 92 -1 N ILE B 90 O CYS B 226 SHEET 1 AB2 4 HIS B 106 PHE B 107 0 SHEET 2 AB2 4 GLN B 101 TYR B 103 -1 N TYR B 103 O HIS B 106 SHEET 3 AB2 4 ALA B 340 THR B 343 1 O SER B 342 N LEU B 102 SHEET 4 AB2 4 THR B 349 VAL B 351 -1 O CYS B 350 N ALA B 341 SHEET 1 AB3 3 VAL B 252 ILE B 257 0 SHEET 2 AB3 3 MET B 267 ILE B 271 -1 O LYS B 270 N GLU B 253 SHEET 3 AB3 3 LYS B 274 TYR B 279 -1 O TYR B 276 N VAL B 269 SHEET 1 AB4 2 TYR B 314 ALA B 315 0 SHEET 2 AB4 2 PHE B 439 ALA B 440 -1 O PHE B 439 N ALA B 315 SHEET 1 AB5 3 ALA B 363 TRP B 371 0 SHEET 2 AB5 3 SER B 317 PHE B 324 -1 N PHE B 324 O ALA B 363 SHEET 3 AB5 3 TYR B 420 CYS B 428 -1 O HIS B 425 N ALA B 321 SITE 1 AC1 43 VAL A 13 GLY A 14 GLY A 16 VAL A 17 SITE 2 AC1 43 SER A 18 PHE A 39 GLU A 40 SER A 41 SITE 3 AC1 43 GLY A 47 ARG A 48 LEU A 49 ILE A 64 SITE 4 AC1 43 GLY A 65 ALA A 66 MET A 67 ARG A 68 SITE 5 AC1 43 TYR A 69 LYS A 250 ARG A 251 VAL A 252 SITE 6 AC1 43 THR A 285 THR A 286 CYS A 290 MET A 294 SITE 7 AC1 43 SER A 317 TRP A 429 ASN A 434 ALA A 438 SITE 8 AC1 43 PHE A 439 GLY A 467 GLU A 468 ALA A 475 SITE 9 AC1 43 TRP A 476 ILE A 477 SER A 480 HOH A 725 SITE 10 AC1 43 HOH A 766 HOH A 779 HOH A 780 HOH A 841 SITE 11 AC1 43 HOH A 847 HOH A 899 HOH A 976 SITE 1 AC2 4 SER A 42 SER A 43 ASN A 434 HOH A 964 SITE 1 AC3 4 ASP A 71 PHE A 79 LEU A 89 TYR A 225 SITE 1 AC4 8 GLU A 4 LEU A 5 MET A 497 TRP A 498 SITE 2 AC4 8 ASP A 499 TYR A 500 HOH A 715 HOH A 794 SITE 1 AC5 43 VAL B 13 GLY B 14 GLY B 16 VAL B 17 SITE 2 AC5 43 SER B 18 PHE B 39 GLU B 40 SER B 41 SITE 3 AC5 43 GLY B 47 ARG B 48 LEU B 49 ILE B 64 SITE 4 AC5 43 GLY B 65 ALA B 66 MET B 67 ARG B 68 SITE 5 AC5 43 TYR B 69 LYS B 250 ARG B 251 VAL B 252 SITE 6 AC5 43 THR B 285 THR B 286 CYS B 290 MET B 294 SITE 7 AC5 43 TYR B 369 TRP B 429 ASN B 434 ALA B 438 SITE 8 AC5 43 PHE B 439 GLY B 467 GLU B 468 ALA B 475 SITE 9 AC5 43 TRP B 476 ILE B 477 SER B 480 HOH B 726 SITE 10 AC5 43 HOH B 738 HOH B 758 HOH B 778 HOH B 867 SITE 11 AC5 43 HOH B 868 HOH B 914 HOH B 984 SITE 1 AC6 3 SER B 42 SER B 43 ASN B 434 SITE 1 AC7 4 ASP B 71 PHE B 79 TYR B 225 HOH B 753 SITE 1 AC8 7 GLU B 4 MET B 497 TRP B 498 ASP B 499 SITE 2 AC8 7 TYR B 500 HOH B 749 HOH B 871 CRYST1 116.450 170.291 119.560 90.00 90.00 90.00 C 2 2 21 16 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 0.008587 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005872 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008364 0.00000