HEADER OXIDOREDUCTASE 23-SEP-20 7D4C TITLE STRUCTURE OF L-LYSINE OXIDASE PRECURSOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-LYSINE ALPHA-OXIDASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HYPOCREA RUFA; SOURCE 3 ORGANISM_TAXID: 5547; SOURCE 4 GENE: LYSOX; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: SOLU BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCOLD IV KEYWDS L-AMINO ACID OXIDASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR N.ITO,M.KITAGAWA,Y.MATSUMOTO,K.INAGAKI,K.IMADA REVDAT 3 29-NOV-23 7D4C 1 REMARK REVDAT 2 24-FEB-21 7D4C 1 JRNL REVDAT 1 10-FEB-21 7D4C 0 JRNL AUTH M.KITAGAWA,N.ITO,Y.MATSUMOTO,M.SAITO,T.TAMURA,H.KUSAKABE, JRNL AUTH 2 K.INAGAKI,K.IMADA JRNL TITL STRUCTURAL BASIS OF ENZYME ACTIVITY REGULATION BY THE JRNL TITL 2 PROPEPTIDE OF L-LYSINE ALPHA-OXIDASE PRECURSOR FROM JRNL TITL 3 TRICHODERMA VIRIDE . JRNL REF J STRUCT BIOL X V. 5 00044 2021 JRNL REFN ESSN 2590-1524 JRNL PMID 33554108 JRNL DOI 10.1016/J.YJSBX.2021.100044 REMARK 2 REMARK 2 RESOLUTION. 1.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 76.98 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 3 NUMBER OF REFLECTIONS : 38412 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920 REMARK 3 FREE R VALUE TEST SET COUNT : 1890 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 76.9750 - 4.7476 1.00 2999 149 0.1886 0.1710 REMARK 3 2 4.7476 - 3.7684 0.94 2711 158 0.1593 0.1944 REMARK 3 3 3.7684 - 3.2920 0.84 2430 115 0.1869 0.2533 REMARK 3 4 3.2920 - 2.9910 1.00 2839 159 0.1907 0.2091 REMARK 3 5 2.9910 - 2.7766 1.00 2830 144 0.2051 0.2273 REMARK 3 6 2.7766 - 2.6129 0.86 2427 126 0.1978 0.2426 REMARK 3 7 2.6129 - 2.4820 1.00 2841 130 0.2027 0.2311 REMARK 3 8 2.4820 - 2.3740 1.00 2802 152 0.2012 0.2539 REMARK 3 9 2.3740 - 2.2826 1.00 2855 141 0.2144 0.2694 REMARK 3 10 2.2826 - 2.2038 0.50 1387 71 0.4513 0.5569 REMARK 3 11 2.2038 - 2.1349 1.00 2814 149 0.2235 0.2414 REMARK 3 12 2.1349 - 2.0739 1.00 2222 113 0.2066 0.2636 REMARK 3 13 2.0739 - 2.0193 1.00 2603 139 0.2207 0.2752 REMARK 3 14 2.0193 - 1.9700 1.00 2762 144 0.2304 0.2688 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.550 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.00 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 4931 REMARK 3 ANGLE : 0.821 6710 REMARK 3 CHIRALITY : 0.030 708 REMARK 3 PLANARITY : 0.005 859 REMARK 3 DIHEDRAL : 14.101 1795 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 7D4C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-SEP-20. REMARK 100 THE DEPOSITION ID IS D_1300018719. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-APR-17 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 : 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 PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39115 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.970 REMARK 200 RESOLUTION RANGE LOW (A) : 94.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 0.52700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 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 (%): 41.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL PH8.5 AND 2.0 M REMARK 280 AMMONIUM DIHYDROGEN PHOSPHATE, 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 47.03500 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 47.03500 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 47.58000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.46000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 47.58000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.46000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 47.03500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 47.58000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.46000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.03500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 47.58000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.46000 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: 9670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1018 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1035 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1054 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1113 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1216 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1269 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1415 LIES ON A SPECIAL POSITION. 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 MET A 1 REMARK 465 ASP A 2 REMARK 465 GLU A 45 REMARK 465 GLY A 46 REMARK 465 ARG A 47 REMARK 465 PHE A 48 REMARK 465 LEU A 49 REMARK 465 GLY A 50 REMARK 465 LEU A 71 REMARK 465 LEU A 72 REMARK 465 LYS A 73 REMARK 465 GLU A 74 REMARK 465 ALA A 75 REMARK 465 PRO A 76 REMARK 465 ARG A 77 REMARK 465 ALA A 78 REMARK 465 GLU A 612 REMARK 465 TYR A 613 REMARK 465 GLN A 614 REMARK 465 VAL A 615 REMARK 465 LYS A 616 REMARK 465 ILE A 617 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 A 1348 O HOH A 1461 1.84 REMARK 500 O HOH A 1473 O HOH A 1515 1.90 REMARK 500 OE1 GLU A 32 O HOH A 1001 1.90 REMARK 500 OE2 GLU A 583 O HOH A 1002 1.92 REMARK 500 O HOH A 1302 O HOH A 1390 1.94 REMARK 500 O HOH A 1353 O HOH A 1419 1.95 REMARK 500 O HOH A 1452 O HOH A 1479 1.95 REMARK 500 O HOH A 1205 O HOH A 1221 1.96 REMARK 500 O HOH A 1370 O HOH A 1402 1.96 REMARK 500 O HOH A 1480 O HOH A 1549 1.99 REMARK 500 NZ LYS A 107 O HOH A 1003 2.00 REMARK 500 O3 PO4 A 901 O HOH A 1004 2.00 REMARK 500 O HOH A 1278 O HOH A 1293 2.01 REMARK 500 OD2 ASP A 384 O HOH A 1005 2.02 REMARK 500 O HOH A 1047 O HOH A 1067 2.03 REMARK 500 O HOH A 1288 O HOH A 1416 2.03 REMARK 500 OH TYR A 432 O HOH A 1006 2.04 REMARK 500 O HOH A 1408 O HOH A 1425 2.05 REMARK 500 O ASP A 292 O HOH A 1007 2.05 REMARK 500 O HOH A 1392 O HOH A 1445 2.06 REMARK 500 O HOH A 1437 O HOH A 1554 2.10 REMARK 500 O HOH A 1174 O HOH A 1408 2.10 REMARK 500 O HOH A 1261 O HOH A 1399 2.11 REMARK 500 O GLU A 80 O HOH A 1008 2.13 REMARK 500 O HOH A 1490 O HOH A 1561 2.14 REMARK 500 O THR A 274 O HOH A 1009 2.15 REMARK 500 OE1 GLU A 228 O HOH A 1010 2.15 REMARK 500 O HOH A 1395 O HOH A 1552 2.17 REMARK 500 OD1 ASP A 451 O HOH A 1011 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 1539 O HOH A 1560 4555 1.86 REMARK 500 O HOH A 1370 O HOH A 1495 8455 1.87 REMARK 500 O HOH A 1068 O HOH A 1281 6554 2.01 REMARK 500 O HOH A 1072 O HOH A 1385 3554 2.13 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 PRO A 296 C - N - CD ANGL. DEV. = -16.9 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 PRO A 41 75.86 -105.08 REMARK 500 MET A 144 -27.74 -143.36 REMARK 500 SER A 210 32.55 -140.15 REMARK 500 ARG A 251 -33.53 -131.65 REMARK 500 PRO A 296 -155.51 -90.14 REMARK 500 THR A 297 34.57 -78.88 REMARK 500 LYS A 298 50.48 -119.05 REMARK 500 ARG A 425 -63.08 64.98 REMARK 500 ASN A 433 30.26 -140.75 REMARK 500 SER A 449 -135.71 55.54 REMARK 500 HIS A 487 -15.41 -142.15 REMARK 500 VAL A 512 -60.47 -134.08 REMARK 500 HIS A 550 31.79 -95.56 REMARK 500 PRO A 610 -174.87 -62.31 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 A1567 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A1568 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH A1569 DISTANCE = 6.56 ANGSTROMS REMARK 525 HOH A1570 DISTANCE = 6.91 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 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 903 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3X0V RELATED DB: PDB REMARK 900 THE MATURE FORM OF THIS ENTRY DBREF1 7D4C A 1 617 UNP A0A0G4DCU0_HYPRU DBREF2 7D4C A A0A0G4DCU0 1 617 SEQRES 1 A 617 MET ASP ASN VAL ASP PHE ALA GLU SER VAL ARG THR ARG SEQRES 2 A 617 TRP ALA ARG ARG LEU ILE ARG GLU LYS VAL ALA LYS GLU SEQRES 3 A 617 LEU ASN ILE LEU THR GLU ARG LEU GLY GLU VAL PRO GLY SEQRES 4 A 617 ILE PRO PRO PRO ARG GLU GLY ARG PHE LEU GLY GLY GLY SEQRES 5 A 617 TYR SER HIS ASP ASN LEU PRO SER ASP PRO LEU TYR SER SEQRES 6 A 617 SER ILE LYS PRO ALA LEU LEU LYS GLU ALA PRO ARG ALA SEQRES 7 A 617 GLU GLU GLU LEU PRO PRO ARG LYS VAL CYS ILE VAL GLY SEQRES 8 A 617 ALA GLY VAL SER GLY LEU TYR ILE ALA MET ILE LEU ASP SEQRES 9 A 617 ASP LEU LYS ILE PRO ASN LEU THR TYR ASP ILE PHE GLU SEQRES 10 A 617 SER SER SER ARG THR GLY GLY ARG LEU TYR THR HIS HIS SEQRES 11 A 617 PHE THR ASP ALA LYS HIS ASP TYR TYR ASP ILE GLY ALA SEQRES 12 A 617 MET ARG TYR PRO ASP ILE PRO SER MET LYS ARG THR PHE SEQRES 13 A 617 ASN LEU PHE LYS ARG THR GLY MET PRO LEU ILE LYS TYR SEQRES 14 A 617 TYR LEU ASP GLY GLU ASN THR PRO GLN LEU TYR ASN ASN SEQRES 15 A 617 HIS PHE PHE ALA LYS GLY VAL VAL ASP PRO TYR MET VAL SEQRES 16 A 617 SER VAL ALA ASN GLY GLY THR VAL PRO ASP ASP VAL VAL SEQRES 17 A 617 ASP SER VAL GLY GLU LYS LEU GLN GLN ALA PHE GLY TYR SEQRES 18 A 617 TYR LYS GLU LYS LEU ALA GLU ASP PHE ASP LYS GLY PHE SEQRES 19 A 617 ASP GLU LEU MET LEU VAL ASP ASP MET THR THR ARG GLU SEQRES 20 A 617 TYR LEU LYS ARG GLY GLY PRO LYS GLY GLU ALA PRO LYS SEQRES 21 A 617 TYR ASP PHE PHE ALA ILE GLN TRP MET GLU THR GLN ASN SEQRES 22 A 617 THR GLY THR ASN LEU PHE ASP GLN ALA PHE SER GLU SER SEQRES 23 A 617 VAL ILE ASP SER PHE ASP PHE ASP ASN PRO THR LYS PRO SEQRES 24 A 617 GLU TRP TYR CYS ILE GLU GLY GLY THR SER LEU LEU VAL SEQRES 25 A 617 ASP ALA MET LYS GLU THR LEU VAL HIS LYS VAL GLN ASN SEQRES 26 A 617 ASN LYS ARG VAL GLU ALA ILE SER ILE ASP LEU ASP ALA SEQRES 27 A 617 PRO ASP ASP GLY ASN MET SER VAL LYS ILE GLY GLY LYS SEQRES 28 A 617 ASP TYR SER GLY TYR SER THR VAL PHE ASN THR THR ALA SEQRES 29 A 617 LEU GLY CYS LEU ASP ARG MET ASP LEU ARG GLY LEU ASN SEQRES 30 A 617 LEU HIS PRO THR GLN ALA ASP ALA ILE ARG CYS LEU HIS SEQRES 31 A 617 TYR ASP ASN SER THR LYS VAL ALA LEU LYS PHE SER TYR SEQRES 32 A 617 PRO TRP TRP ILE LYS ASP CYS GLY ILE THR CYS GLY GLY SEQRES 33 A 617 ALA ALA SER THR ASP LEU PRO LEU ARG THR CYS VAL TYR SEQRES 34 A 617 PRO SER TYR ASN LEU GLY ASP THR GLY GLU ALA VAL LEU SEQRES 35 A 617 LEU ALA SER TYR THR TRP SER GLN ASP ALA THR ARG ILE SEQRES 36 A 617 GLY SER LEU VAL LYS ASP ALA PRO PRO GLN PRO PRO LYS SEQRES 37 A 617 GLU ASP GLU LEU VAL GLU LEU ILE LEU GLN ASN LEU ALA SEQRES 38 A 617 ARG LEU HIS ALA GLU HIS MET THR TYR GLU LYS ILE LYS SEQRES 39 A 617 GLU ALA TYR THR GLY VAL TYR HIS ALA TYR CYS TRP ALA SEQRES 40 A 617 ASN ASP PRO ASN VAL GLY GLY ALA PHE ALA LEU PHE GLY SEQRES 41 A 617 PRO GLY GLN PHE SER ASN LEU TYR PRO TYR LEU MET ARG SEQRES 42 A 617 PRO ALA ALA GLY GLY LYS PHE HIS ILE VAL GLY GLU ALA SEQRES 43 A 617 SER SER VAL HIS HIS ALA TRP ILE ILE GLY SER LEU GLU SEQRES 44 A 617 SER ALA TYR THR ALA VAL TYR GLN PHE LEU TYR LYS TYR SEQRES 45 A 617 LYS MET TRP ASP TYR LEU ARG LEU LEU LEU GLU ARG TRP SEQRES 46 A 617 GLN TYR GLY LEU GLN GLU LEU GLU THR GLY LYS HIS GLY SEQRES 47 A 617 THR ALA HIS LEU GLN PHE ILE LEU GLY SER LEU PRO LYS SEQRES 48 A 617 GLU TYR GLN VAL LYS ILE HET FAD A 900 53 HET PO4 A 901 5 HET PO4 A 902 5 HET PO4 A 903 5 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM PO4 PHOSPHATE ION FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 PO4 3(O4 P 3-) FORMUL 6 HOH *570(H2 O) HELIX 1 AA1 ASP A 5 GLU A 32 1 28 HELIX 2 AA2 LEU A 63 ILE A 67 5 5 HELIX 3 AA3 GLY A 93 LYS A 107 1 15 HELIX 4 AA4 ILE A 149 SER A 151 5 3 HELIX 5 AA5 MET A 152 THR A 162 1 11 HELIX 6 AA6 SER A 196 GLY A 200 5 5 HELIX 7 AA7 SER A 210 ASP A 229 1 20 HELIX 8 AA8 ASP A 229 LEU A 239 1 11 HELIX 9 AA9 THR A 244 LYS A 250 1 7 HELIX 10 AB1 ASP A 262 ASN A 273 1 12 HELIX 11 AB2 ALA A 282 SER A 290 1 9 HELIX 12 AB3 THR A 308 THR A 318 1 11 HELIX 13 AB4 ALA A 364 ARG A 370 1 7 HELIX 14 AB5 LEU A 373 ASN A 377 5 5 HELIX 15 AB6 HIS A 379 LEU A 389 1 11 HELIX 16 AB7 PRO A 404 ASP A 409 1 6 HELIX 17 AB8 SER A 449 SER A 457 1 9 HELIX 18 AB9 ASP A 470 HIS A 484 1 15 HELIX 19 AC1 THR A 489 ALA A 496 1 8 HELIX 20 AC2 ALA A 507 ASP A 509 5 3 HELIX 21 AC3 GLY A 522 ARG A 533 1 12 HELIX 22 AC4 GLY A 544 SER A 548 5 5 HELIX 23 AC5 TRP A 553 TYR A 572 1 20 HELIX 24 AC6 MET A 574 TRP A 585 1 12 HELIX 25 AC7 THR A 599 GLY A 607 1 9 SHEET 1 AA1 4 LEU A 111 PHE A 116 0 SHEET 2 AA1 4 ARG A 85 VAL A 90 1 N ILE A 89 O ASP A 114 SHEET 3 AA1 4 THR A 358 ASN A 361 1 O PHE A 360 N CYS A 88 SHEET 4 AA1 4 PHE A 540 ILE A 542 1 O HIS A 541 N ASN A 361 SHEET 1 AA2 2 THR A 128 HIS A 130 0 SHEET 2 AA2 2 TYR A 138 ASP A 140 -1 O TYR A 139 N HIS A 129 SHEET 1 AA3 3 TYR A 146 PRO A 147 0 SHEET 2 AA3 3 TRP A 301 ILE A 304 -1 O TYR A 302 N TYR A 146 SHEET 3 AA3 3 LEU A 166 TYR A 169 -1 N TYR A 169 O TRP A 301 SHEET 1 AA4 4 HIS A 183 PHE A 184 0 SHEET 2 AA4 4 GLN A 178 TYR A 180 -1 N TYR A 180 O HIS A 183 SHEET 3 AA4 4 ALA A 417 THR A 420 1 O SER A 419 N LEU A 179 SHEET 4 AA4 4 THR A 426 VAL A 428 -1 O CYS A 427 N ALA A 418 SHEET 1 AA5 3 VAL A 329 ILE A 334 0 SHEET 2 AA5 3 MET A 344 ILE A 348 -1 O LYS A 347 N GLU A 330 SHEET 3 AA5 3 LYS A 351 TYR A 356 -1 O TYR A 353 N VAL A 346 SHEET 1 AA6 2 HIS A 390 ASP A 392 0 SHEET 2 AA6 2 PHE A 516 LEU A 518 -1 O LEU A 518 N HIS A 390 SHEET 1 AA7 3 ALA A 440 TRP A 448 0 SHEET 2 AA7 3 SER A 394 PHE A 401 -1 N VAL A 397 O SER A 445 SHEET 3 AA7 3 TYR A 497 CYS A 505 -1 O HIS A 502 N ALA A 398 CISPEP 1 GLY A 253 PRO A 254 0 0.32 CISPEP 2 LYS A 255 GLY A 256 0 1.12 CISPEP 3 ASN A 295 PRO A 296 0 -18.23 CISPEP 4 PRO A 466 PRO A 467 0 -2.85 SITE 1 AC1 42 VAL A 90 GLY A 91 GLY A 93 VAL A 94 SITE 2 AC1 42 SER A 95 GLU A 117 SER A 118 GLY A 124 SITE 3 AC1 42 ARG A 125 LEU A 126 ILE A 141 GLY A 142 SITE 4 AC1 42 ALA A 143 MET A 144 ARG A 145 TYR A 146 SITE 5 AC1 42 LYS A 327 ARG A 328 VAL A 329 THR A 362 SITE 6 AC1 42 THR A 363 CYS A 367 MET A 371 TRP A 506 SITE 7 AC1 42 ASN A 511 ALA A 515 GLY A 544 GLU A 545 SITE 8 AC1 42 ALA A 552 TRP A 553 ILE A 554 SER A 557 SITE 9 AC1 42 HOH A1015 HOH A1071 HOH A1104 HOH A1105 SITE 10 AC1 42 HOH A1120 HOH A1129 HOH A1163 HOH A1165 SITE 11 AC1 42 HOH A1201 HOH A1218 SITE 1 AC2 5 TYR A 127 HIS A 129 HOH A1004 HOH A1122 SITE 2 AC2 5 HOH A1354 SITE 1 AC3 6 THR A 244 ARG A 246 PHE A 279 ASP A 280 SITE 2 AC3 6 PRO A 521 HOH A1035 SITE 1 AC4 6 GLU A 21 SER A 54 HIS A 55 HOH A1048 SITE 2 AC4 6 HOH A1061 HOH A1123 CRYST1 95.160 130.920 94.070 90.00 90.00 90.00 C 2 2 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 0.010509 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007638 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010630 0.00000