HEADER OXIDOREDUCTASE 15-JUL-16 5KVS TITLE SUBSTRATE ANALOG AND NADP+ BOUND STRUCTURE OF IRP3, A THIAZOLINYL TITLE 2 IMINE REDUCTASE FROM YERSINIA ENTEROCOLITICA COMPND MOL_ID: 1; COMPND 2 MOLECULE: IRP3 PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA ENTEROCOLITICA; SOURCE 3 ORGANISM_TAXID: 630; SOURCE 4 ATCC: 33114; SOURCE 5 GENE: IRP3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS IMINE REDUCTASE, OXIDOREDUCTASE, IRP3, SIDEROPHORE, SUBSTRATE ANALOG, KEYWDS 2 HPTT-COOH, YERSINIABACTIN EXPDTA X-RAY DIFFRACTION AUTHOR K.M.MENEELY,A.L.LAMB REVDAT 5 04-OCT-23 5KVS 1 REMARK REVDAT 4 27-NOV-19 5KVS 1 REMARK REVDAT 3 20-SEP-17 5KVS 1 JRNL REMARK REVDAT 2 05-OCT-16 5KVS 1 JRNL REVDAT 1 21-SEP-16 5KVS 0 JRNL AUTH K.M.MENEELY,T.A.RONNEBAUM,A.P.RILEY,T.E.PRISINZANO,A.L.LAMB JRNL TITL HOLO STRUCTURE AND STEADY STATE KINETICS OF THE THIAZOLINYL JRNL TITL 2 IMINE REDUCTASES FOR SIDEROPHORE BIOSYNTHESIS. JRNL REF BIOCHEMISTRY V. 55 5423 2016 JRNL REFN ISSN 0006-2960 JRNL PMID 27601130 JRNL DOI 10.1021/ACS.BIOCHEM.6B00735 REMARK 2 REMARK 2 RESOLUTION. 1.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.04 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 196796 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.174 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 9896 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 36.0511 - 3.9604 0.99 6508 335 0.1643 0.1687 REMARK 3 2 3.9604 - 3.1441 0.99 6361 361 0.1567 0.1573 REMARK 3 3 3.1441 - 2.7468 0.99 6341 359 0.1582 0.1798 REMARK 3 4 2.7468 - 2.4957 0.98 6361 327 0.1500 0.1562 REMARK 3 5 2.4957 - 2.3169 0.98 6316 308 0.1409 0.1567 REMARK 3 6 2.3169 - 2.1803 0.98 6264 323 0.1463 0.1634 REMARK 3 7 2.1803 - 2.0711 0.98 6314 338 0.1490 0.1603 REMARK 3 8 2.0711 - 1.9810 0.98 6311 327 0.1485 0.1522 REMARK 3 9 1.9810 - 1.9047 0.98 6296 358 0.1507 0.1711 REMARK 3 10 1.9047 - 1.8390 0.98 6348 325 0.1521 0.1597 REMARK 3 11 1.8390 - 1.7815 0.98 6301 334 0.1522 0.1847 REMARK 3 12 1.7815 - 1.7306 0.98 6312 314 0.1526 0.1769 REMARK 3 13 1.7306 - 1.6850 0.98 6328 355 0.1492 0.1684 REMARK 3 14 1.6850 - 1.6439 0.98 6327 331 0.1513 0.1663 REMARK 3 15 1.6439 - 1.6065 0.99 6368 356 0.1600 0.1889 REMARK 3 16 1.6065 - 1.5723 0.99 6360 342 0.1610 0.1886 REMARK 3 17 1.5723 - 1.5409 0.99 6425 314 0.1646 0.1896 REMARK 3 18 1.5409 - 1.5118 0.99 6382 355 0.1693 0.1928 REMARK 3 19 1.5118 - 1.4848 1.00 6355 342 0.1745 0.2077 REMARK 3 20 1.4848 - 1.4596 1.00 6451 355 0.1826 0.1956 REMARK 3 21 1.4596 - 1.4361 1.00 6382 317 0.1921 0.2073 REMARK 3 22 1.4361 - 1.4140 1.00 6483 291 0.1992 0.2214 REMARK 3 23 1.4140 - 1.3932 1.00 6381 366 0.2085 0.2331 REMARK 3 24 1.3932 - 1.3736 1.00 6355 387 0.2159 0.2065 REMARK 3 25 1.3736 - 1.3550 1.00 6474 342 0.2154 0.2507 REMARK 3 26 1.3550 - 1.3374 1.00 6358 320 0.2265 0.2128 REMARK 3 27 1.3374 - 1.3207 1.00 6457 315 0.2206 0.2361 REMARK 3 28 1.3207 - 1.3048 0.93 5983 312 0.2424 0.2583 REMARK 3 29 1.3048 - 1.2896 0.82 5248 297 0.2533 0.2642 REMARK 3 30 1.2896 - 1.2751 0.58 3750 190 0.2857 0.2964 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.060 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.26 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.60 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 : 0.008 6115 REMARK 3 ANGLE : 1.252 8410 REMARK 3 CHIRALITY : 0.081 923 REMARK 3 PLANARITY : 0.008 1077 REMARK 3 DIHEDRAL : 16.145 2248 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 9.9785 36.1634 15.6200 REMARK 3 T TENSOR REMARK 3 T11: 0.0659 T22: 0.1141 REMARK 3 T33: 0.0887 T12: 0.0064 REMARK 3 T13: -0.0003 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.2021 L22: 0.9038 REMARK 3 L33: 0.3335 L12: -0.0144 REMARK 3 L13: -0.0494 L23: -0.2077 REMARK 3 S TENSOR REMARK 3 S11: 0.0175 S12: 0.0091 S13: 0.0074 REMARK 3 S21: -0.0231 S22: 0.0226 S23: 0.0694 REMARK 3 S31: -0.0265 S32: -0.0196 S33: -0.0380 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 5KVS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1000222808. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1887 REMARK 200 MONOCHROMATOR : SI(111) SIDE SCATTERING I-BEAM REMARK 200 BENT SINGLE CRYSTAL; ASYMMETRIC REMARK 200 CUT 4.9650 DEG. REMARK 200 OPTICS : RH COATED FLAT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 196862 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.280 REMARK 200 RESOLUTION RANGE LOW (A) : 39.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.48800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 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: 5KVQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM FORMATE, PH 7.3, 20% PEG REMARK 280 3,350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 297K 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 74.27650 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -62.0 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 PRO A 2 REMARK 465 SER A 3 REMARK 465 ALA A 4 REMARK 465 ASN A 358 REMARK 465 ASP A 359 REMARK 465 ASP A 360 REMARK 465 ASP A 361 REMARK 465 LYS A 362 REMARK 465 GLU A 363 REMARK 465 ALA A 364 REMARK 465 LEU A 365 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 PRO B 2 REMARK 465 SER B 3 REMARK 465 ALA B 4 REMARK 465 ASP B 359 REMARK 465 ASP B 360 REMARK 465 ASP B 361 REMARK 465 LYS B 362 REMARK 465 GLU B 363 REMARK 465 ALA B 364 REMARK 465 LEU B 365 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 HH TYR B 128 H72N NAP B 401 1.18 REMARK 500 O HOH B 515 O HOH B 518 1.79 REMARK 500 O HOH A 723 O HOH B 686 1.82 REMARK 500 NH1 ARG B 9 O HOH B 501 2.13 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 HH21 ARG A 46 O HOH B 701 2645 1.54 REMARK 500 O LEU A 309 HH22 ARG B 46 2646 1.57 REMARK 500 NH2 ARG B 9 OE1 GLU B 259 2655 2.16 REMARK 500 OE2 GLU A 269 O HOH A 651 2656 2.18 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 ARG A 161 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 287 NE - CZ - NH2 ANGL. DEV. = -3.2 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 LYS A 16 -93.61 -95.45 REMARK 500 ALA A 39 -148.63 -152.45 REMARK 500 PHE A 127 -62.42 78.25 REMARK 500 LEU A 148 -160.78 -103.60 REMARK 500 THR A 292 -57.76 -126.79 REMARK 500 HIS A 349 59.97 -92.86 REMARK 500 LYS B 16 -94.20 -94.70 REMARK 500 ALA B 39 -146.88 -151.43 REMARK 500 PHE B 127 -62.36 77.92 REMARK 500 LEU B 148 -161.59 -104.82 REMARK 500 ARG B 267 69.18 -118.33 REMARK 500 THR B 292 -55.29 -125.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6XR A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6XR B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT B 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KVQ RELATED DB: PDB DBREF 5KVS A 1 365 UNP O54512 O54512_YEREN 1 365 DBREF 5KVS B 1 365 UNP O54512 O54512_YEREN 1 365 SEQADV 5KVS MET A -19 UNP O54512 INITIATING METHIONINE SEQADV 5KVS GLY A -18 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER A -17 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER A -16 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS A -15 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS A -14 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS A -13 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS A -12 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS A -11 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS A -10 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER A -9 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER A -8 UNP O54512 EXPRESSION TAG SEQADV 5KVS GLY A -7 UNP O54512 EXPRESSION TAG SEQADV 5KVS LEU A -6 UNP O54512 EXPRESSION TAG SEQADV 5KVS VAL A -5 UNP O54512 EXPRESSION TAG SEQADV 5KVS PRO A -4 UNP O54512 EXPRESSION TAG SEQADV 5KVS ARG A -3 UNP O54512 EXPRESSION TAG SEQADV 5KVS GLY A -2 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER A -1 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS A 0 UNP O54512 EXPRESSION TAG SEQADV 5KVS MET B -19 UNP O54512 INITIATING METHIONINE SEQADV 5KVS GLY B -18 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER B -17 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER B -16 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS B -15 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS B -14 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS B -13 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS B -12 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS B -11 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS B -10 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER B -9 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER B -8 UNP O54512 EXPRESSION TAG SEQADV 5KVS GLY B -7 UNP O54512 EXPRESSION TAG SEQADV 5KVS LEU B -6 UNP O54512 EXPRESSION TAG SEQADV 5KVS VAL B -5 UNP O54512 EXPRESSION TAG SEQADV 5KVS PRO B -4 UNP O54512 EXPRESSION TAG SEQADV 5KVS ARG B -3 UNP O54512 EXPRESSION TAG SEQADV 5KVS GLY B -2 UNP O54512 EXPRESSION TAG SEQADV 5KVS SER B -1 UNP O54512 EXPRESSION TAG SEQADV 5KVS HIS B 0 UNP O54512 EXPRESSION TAG SEQRES 1 A 385 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 385 LEU VAL PRO ARG GLY SER HIS MET PRO SER ALA SER PRO SEQRES 3 A 385 LYS GLN ARG VAL LEU ILE VAL GLY ALA LYS PHE GLY GLU SEQRES 4 A 385 MET TYR LEU ASN ALA PHE MET GLN PRO PRO GLU GLY LEU SEQRES 5 A 385 GLU LEU VAL GLY LEU LEU ALA GLN GLY SER ALA ARG SER SEQRES 6 A 385 ARG GLU LEU ALA HIS ALA PHE GLY ILE PRO LEU TYR THR SEQRES 7 A 385 SER PRO GLU GLN ILE THR GLY MET PRO ASP ILE ALA CYS SEQRES 8 A 385 ILE VAL VAL ARG SER THR VAL ALA GLY GLY ALA GLY THR SEQRES 9 A 385 GLN LEU ALA ARG HIS PHE LEU ALA ARG GLY VAL HIS VAL SEQRES 10 A 385 ILE GLN GLU HIS PRO LEU HIS PRO ASP ASP ILE SER SER SEQRES 11 A 385 LEU GLN THR LEU ALA GLN GLU GLN GLY CYS CYS TYR TRP SEQRES 12 A 385 ILE ASN THR PHE TYR PRO HIS THR ARG ALA GLY ARG THR SEQRES 13 A 385 TRP LEU ARG ASP ALA GLN GLN LEU ARG ARG CYS LEU ALA SEQRES 14 A 385 LYS THR PRO PRO VAL VAL HIS ALA THR THR SER ARG GLN SEQRES 15 A 385 LEU LEU TYR SER THR LEU ASP LEU LEU LEU LEU ALA LEU SEQRES 16 A 385 GLY VAL ASP THR ALA ALA VAL GLU CYS ASP VAL VAL GLY SEQRES 17 A 385 SER PHE SER ASP PHE HIS CYS LEU ARG LEU PHE TRP PRO SEQRES 18 A 385 GLU GLY GLU ALA CYS LEU LEU LEU GLN ARG TYR LEU ASP SEQRES 19 A 385 PRO ASP ASP PRO ASP MET HIS SER LEU ILE MET HIS ARG SEQRES 20 A 385 LEU LEU LEU GLY TRP PRO GLU GLY HIS LEU SER LEU GLU SEQRES 21 A 385 ALA SER TYR GLY PRO VAL ILE TRP SER SER SER LEU PHE SEQRES 22 A 385 VAL ALA ASP HIS GLN GLU ASN ALA HIS SER LEU TYR ARG SEQRES 23 A 385 ARG PRO GLU ILE LEU ARG ASP PRO PRO GLY LEU THR ARG SEQRES 24 A 385 SER ALA ALA PRO LEU SER TRP ARG ASP CYS CYS GLU THR SEQRES 25 A 385 VAL GLY PRO GLU GLY VAL SER TRP LEU LEU HIS GLN LEU SEQRES 26 A 385 ARG SER HIS LEU ALA GLY GLU HIS PRO PRO VAL ALA CYS SEQRES 27 A 385 GLN ASN VAL HIS GLN ILE ALA LEU SER ARG LEU TRP GLN SEQRES 28 A 385 GLN ILE LEU ARG LYS THR GLY ASN ALA GLU ILE ARG ARG SEQRES 29 A 385 LEU THR PRO PRO HIS HIS ASP ARG LEU ALA GLY PHE TYR SEQRES 30 A 385 ASN ASP ASP ASP LYS GLU ALA LEU SEQRES 1 B 385 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 385 LEU VAL PRO ARG GLY SER HIS MET PRO SER ALA SER PRO SEQRES 3 B 385 LYS GLN ARG VAL LEU ILE VAL GLY ALA LYS PHE GLY GLU SEQRES 4 B 385 MET TYR LEU ASN ALA PHE MET GLN PRO PRO GLU GLY LEU SEQRES 5 B 385 GLU LEU VAL GLY LEU LEU ALA GLN GLY SER ALA ARG SER SEQRES 6 B 385 ARG GLU LEU ALA HIS ALA PHE GLY ILE PRO LEU TYR THR SEQRES 7 B 385 SER PRO GLU GLN ILE THR GLY MET PRO ASP ILE ALA CYS SEQRES 8 B 385 ILE VAL VAL ARG SER THR VAL ALA GLY GLY ALA GLY THR SEQRES 9 B 385 GLN LEU ALA ARG HIS PHE LEU ALA ARG GLY VAL HIS VAL SEQRES 10 B 385 ILE GLN GLU HIS PRO LEU HIS PRO ASP ASP ILE SER SER SEQRES 11 B 385 LEU GLN THR LEU ALA GLN GLU GLN GLY CYS CYS TYR TRP SEQRES 12 B 385 ILE ASN THR PHE TYR PRO HIS THR ARG ALA GLY ARG THR SEQRES 13 B 385 TRP LEU ARG ASP ALA GLN GLN LEU ARG ARG CYS LEU ALA SEQRES 14 B 385 LYS THR PRO PRO VAL VAL HIS ALA THR THR SER ARG GLN SEQRES 15 B 385 LEU LEU TYR SER THR LEU ASP LEU LEU LEU LEU ALA LEU SEQRES 16 B 385 GLY VAL ASP THR ALA ALA VAL GLU CYS ASP VAL VAL GLY SEQRES 17 B 385 SER PHE SER ASP PHE HIS CYS LEU ARG LEU PHE TRP PRO SEQRES 18 B 385 GLU GLY GLU ALA CYS LEU LEU LEU GLN ARG TYR LEU ASP SEQRES 19 B 385 PRO ASP ASP PRO ASP MET HIS SER LEU ILE MET HIS ARG SEQRES 20 B 385 LEU LEU LEU GLY TRP PRO GLU GLY HIS LEU SER LEU GLU SEQRES 21 B 385 ALA SER TYR GLY PRO VAL ILE TRP SER SER SER LEU PHE SEQRES 22 B 385 VAL ALA ASP HIS GLN GLU ASN ALA HIS SER LEU TYR ARG SEQRES 23 B 385 ARG PRO GLU ILE LEU ARG ASP PRO PRO GLY LEU THR ARG SEQRES 24 B 385 SER ALA ALA PRO LEU SER TRP ARG ASP CYS CYS GLU THR SEQRES 25 B 385 VAL GLY PRO GLU GLY VAL SER TRP LEU LEU HIS GLN LEU SEQRES 26 B 385 ARG SER HIS LEU ALA GLY GLU HIS PRO PRO VAL ALA CYS SEQRES 27 B 385 GLN ASN VAL HIS GLN ILE ALA LEU SER ARG LEU TRP GLN SEQRES 28 B 385 GLN ILE LEU ARG LYS THR GLY ASN ALA GLU ILE ARG ARG SEQRES 29 B 385 LEU THR PRO PRO HIS HIS ASP ARG LEU ALA GLY PHE TYR SEQRES 30 B 385 ASN ASP ASP ASP LYS GLU ALA LEU HET NAP A 401 73 HET 6XR A 402 29 HET EDO A 403 10 HET FMT A 404 4 HET NAP B 401 146 HET 6XR B 402 29 HET EDO B 403 10 HET FMT B 404 4 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM 6XR (4~{R})-2-[2-(2-HYDROXYPHENYL)-1,3-THIAZOL-4-YL]-4,5- HETNAM 2 6XR DIHYDRO-1,3-THIAZOLE-4-CARBOXYLIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM FMT FORMIC ACID HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NAP 2(C21 H28 N7 O17 P3) FORMUL 4 6XR 2(C13 H10 N2 O3 S2) FORMUL 5 EDO 2(C2 H6 O2) FORMUL 6 FMT 2(C H2 O2) FORMUL 11 HOH *474(H2 O) HELIX 1 AA1 GLY A 18 ALA A 24 1 7 HELIX 2 AA2 PHE A 25 GLN A 27 5 3 HELIX 3 AA3 SER A 42 GLY A 53 1 12 HELIX 4 AA4 SER A 59 ILE A 63 5 5 HELIX 5 AA5 SER A 76 GLY A 80 5 5 HELIX 6 AA6 ALA A 82 ARG A 93 1 12 HELIX 7 AA7 HIS A 104 GLY A 119 1 16 HELIX 8 AA8 PHE A 127 HIS A 130 5 4 HELIX 9 AA9 THR A 131 LEU A 148 1 18 HELIX 10 AB1 LEU A 163 GLY A 176 1 14 HELIX 11 AB2 ASP A 178 VAL A 182 5 5 HELIX 12 AB3 SER A 285 THR A 292 1 8 HELIX 13 AB4 THR A 292 ALA A 310 1 19 HELIX 14 AB5 PRO A 315 CYS A 318 5 4 HELIX 15 AB6 GLN A 319 GLY A 338 1 20 HELIX 16 AB7 HIS A 349 ALA A 354 5 6 HELIX 17 AB8 GLY B 18 ASN B 23 1 6 HELIX 18 AB9 ALA B 24 MET B 26 5 3 HELIX 19 AC1 SER B 42 GLY B 53 1 12 HELIX 20 AC2 SER B 59 ILE B 63 5 5 HELIX 21 AC3 SER B 76 GLY B 80 5 5 HELIX 22 AC4 ALA B 82 ARG B 93 1 12 HELIX 23 AC5 HIS B 104 GLY B 119 1 16 HELIX 24 AC6 PHE B 127 HIS B 130 5 4 HELIX 25 AC7 THR B 131 LEU B 148 1 18 HELIX 26 AC8 LEU B 163 GLY B 176 1 14 HELIX 27 AC9 ASP B 178 VAL B 182 5 5 HELIX 28 AD1 SER B 285 THR B 292 1 8 HELIX 29 AD2 THR B 292 ALA B 310 1 19 HELIX 30 AD3 PRO B 315 CYS B 318 5 4 HELIX 31 AD4 GLN B 319 GLY B 338 1 20 HELIX 32 AD5 HIS B 349 ARG B 352 5 4 HELIX 33 AD6 LEU B 353 ASN B 358 1 6 SHEET 1 AA1 6 LEU A 56 TYR A 57 0 SHEET 2 AA1 6 LEU A 32 LEU A 38 1 N LEU A 37 O TYR A 57 SHEET 3 AA1 6 GLN A 8 VAL A 13 1 N VAL A 10 O GLU A 33 SHEET 4 AA1 6 ILE A 69 ILE A 72 1 O CYS A 71 N LEU A 11 SHEET 5 AA1 6 HIS A 96 GLU A 100 1 O HIS A 96 N ALA A 70 SHEET 6 AA1 6 TYR A 122 ASN A 125 1 O TRP A 123 N GLN A 99 SHEET 1 AA2 8 GLU A 183 SER A 189 0 SHEET 2 AA2 8 PHE A 193 TRP A 200 -1 O PHE A 199 N GLU A 183 SHEET 3 AA2 8 GLY A 203 GLN A 210 -1 O LEU A 207 N LEU A 196 SHEET 4 AA2 8 VAL A 154 THR A 159 1 N ALA A 157 O LEU A 208 SHEET 5 AA2 8 ARG A 227 TRP A 232 -1 O GLY A 231 N VAL A 154 SHEET 6 AA2 8 GLY A 235 LEU A 239 -1 O LEU A 237 N LEU A 230 SHEET 7 AA2 8 VAL A 246 SER A 250 -1 O SER A 249 N HIS A 236 SHEET 8 AA2 8 LEU A 277 SER A 280 -1 O ARG A 279 N VAL A 246 SHEET 1 AA3 2 TYR A 212 LEU A 213 0 SHEET 2 AA3 2 GLU A 341 ILE A 342 1 O GLU A 341 N LEU A 213 SHEET 1 AA4 6 LEU B 56 TYR B 57 0 SHEET 2 AA4 6 LEU B 32 LEU B 38 1 N LEU B 37 O TYR B 57 SHEET 3 AA4 6 GLN B 8 VAL B 13 1 N VAL B 10 O GLU B 33 SHEET 4 AA4 6 ILE B 69 ILE B 72 1 O CYS B 71 N LEU B 11 SHEET 5 AA4 6 HIS B 96 GLU B 100 1 O ILE B 98 N ILE B 72 SHEET 6 AA4 6 TYR B 122 ASN B 125 1 O TRP B 123 N GLN B 99 SHEET 1 AA5 8 GLU B 183 SER B 189 0 SHEET 2 AA5 8 PHE B 193 TRP B 200 -1 O ARG B 197 N ASP B 185 SHEET 3 AA5 8 GLY B 203 GLN B 210 -1 O LEU B 207 N LEU B 196 SHEET 4 AA5 8 VAL B 154 THR B 159 1 N ALA B 157 O LEU B 208 SHEET 5 AA5 8 HIS B 226 TRP B 232 -1 O GLY B 231 N VAL B 154 SHEET 6 AA5 8 GLY B 235 LEU B 239 -1 O LEU B 237 N LEU B 230 SHEET 7 AA5 8 VAL B 246 SER B 250 -1 O SER B 249 N HIS B 236 SHEET 8 AA5 8 LEU B 277 SER B 280 -1 O ARG B 279 N VAL B 246 SHEET 1 AA6 2 TYR B 212 LEU B 213 0 SHEET 2 AA6 2 GLU B 341 ILE B 342 1 O GLU B 341 N LEU B 213 CISPEP 1 HIS A 101 PRO A 102 0 1.62 CISPEP 2 GLY A 244 PRO A 245 0 3.43 CISPEP 3 HIS B 101 PRO B 102 0 2.53 CISPEP 4 GLY B 244 PRO B 245 0 2.78 SITE 1 AC1 31 GLY A 14 ALA A 15 LYS A 16 PHE A 17 SITE 2 AC1 31 ALA A 39 GLN A 40 GLY A 41 SER A 42 SITE 3 AC1 31 ARG A 44 SER A 45 VAL A 73 VAL A 74 SITE 4 AC1 31 ARG A 75 ALA A 82 GLU A 100 HIS A 101 SITE 5 AC1 31 PRO A 102 GLN A 162 6XR A 402 HOH A 517 SITE 6 AC1 31 HOH A 520 HOH A 523 HOH A 526 HOH A 555 SITE 7 AC1 31 HOH A 577 HOH A 602 HOH A 610 HOH A 640 SITE 8 AC1 31 HOH A 672 HOH A 674 HOH A 700 SITE 1 AC2 12 LYS A 16 PHE A 17 MET A 20 TYR A 128 SITE 2 AC2 12 LEU A 163 MET A 220 NAP A 401 HOH A 520 SITE 3 AC2 12 HOH A 532 LEU B 252 VAL B 254 LEU B 264 SITE 1 AC3 7 SER A 251 LEU A 252 PHE A 253 LEU A 271 SITE 2 AC3 7 ARG A 272 ASP A 273 HIS B 350 SITE 1 AC4 6 TYR A 212 HIS A 221 LEU A 223 HOH A 665 SITE 2 AC4 6 PRO B 233 HOH B 643 SITE 1 AC5 32 GLY B 14 ALA B 15 LYS B 16 PHE B 17 SITE 2 AC5 32 ALA B 39 GLN B 40 GLY B 41 SER B 42 SITE 3 AC5 32 ARG B 44 SER B 45 VAL B 73 VAL B 74 SITE 4 AC5 32 ARG B 75 ALA B 82 GLU B 100 HIS B 101 SITE 5 AC5 32 PRO B 102 TYR B 128 GLN B 162 6XR B 402 SITE 6 AC5 32 HOH B 505 HOH B 506 HOH B 549 HOH B 568 SITE 7 AC5 32 HOH B 577 HOH B 585 HOH B 589 HOH B 592 SITE 8 AC5 32 HOH B 593 HOH B 661 HOH B 670 HOH B 682 SITE 1 AC6 10 LEU A 252 VAL A 254 LEU A 264 LYS B 16 SITE 2 AC6 10 PHE B 17 TYR B 128 LEU B 163 ASP B 219 SITE 3 AC6 10 MET B 220 NAP B 401 SITE 1 AC7 7 HIS A 350 SER B 251 LEU B 252 PHE B 253 SITE 2 AC7 7 LEU B 271 ARG B 272 ASP B 273 SITE 1 AC8 5 PRO A 233 HOH A 663 TYR B 212 HIS B 221 SITE 2 AC8 5 HOH B 525 CRYST1 41.389 148.553 65.396 90.00 95.30 90.00 P 1 21 1 4 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 0.024161 0.000000 0.002240 0.00000 SCALE2 0.000000 0.006732 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015357 0.00000