HEADER HYDROLASE 30-AUG-21 7PLD TITLE CAULOBACTER CRESCENTUS XYLONOLACTONASE WITH (R)-4-HYDROXY-2- TITLE 2 PYRROLIDONE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SMP-30/CGR1 FAMILY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: XYLONOLACTONASE; COMPND 5 EC: 3.1.1.68; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAULOBACTER VIBRIOIDES (STRAIN ATCC 19089 / SOURCE 3 CB15); SOURCE 4 ORGANISM_COMMON: CAULOBACTER CRESCENTUS; SOURCE 5 ORGANISM_TAXID: 190650; SOURCE 6 STRAIN: ATCC 19089 / CB15; SOURCE 7 GENE: CC_0820; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PBAT4-XYLC KEYWDS XYLC, LACTONASE, MONONUCLEAR IRON, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.PAAKKONEN,N.HAKULINEN,J.ROUVINEN REVDAT 3 31-JAN-24 7PLD 1 REMARK REVDAT 2 16-FEB-22 7PLD 1 JRNL REMARK REVDAT 1 24-NOV-21 7PLD 0 JRNL AUTH J.PAAKKONEN,N.HAKULINEN,M.ANDBERG,A.KOIVULA,J.ROUVINEN JRNL TITL THREE-DIMENSIONAL STRUCTURE OF XYLONOLACTONASE FROM JRNL TITL 2 CAULOBACTER CRESCENTUS: A MONONUCLEAR IRON ENZYME OF THE JRNL TITL 3 6-BLADED BETA-PROPELLER HYDROLASE FAMILY. JRNL REF PROTEIN SCI. V. 31 371 2022 JRNL REFN ESSN 1469-896X JRNL PMID 34761460 JRNL DOI 10.1002/PRO.4229 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 65864 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3292 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 78.1400 - 4.9000 1.00 2797 133 0.1617 0.1779 REMARK 3 2 4.9000 - 3.8900 1.00 2686 136 0.1210 0.1450 REMARK 3 3 3.8900 - 3.4000 1.00 2657 135 0.1512 0.1977 REMARK 3 4 3.4000 - 3.0900 1.00 2637 133 0.1619 0.1961 REMARK 3 5 3.0900 - 2.8700 1.00 2640 132 0.1817 0.1991 REMARK 3 6 2.8700 - 2.7000 1.00 2617 144 0.1859 0.2254 REMARK 3 7 2.7000 - 2.5600 1.00 2604 144 0.1900 0.2421 REMARK 3 8 2.5600 - 2.4500 1.00 2579 159 0.1859 0.2377 REMARK 3 9 2.4500 - 2.3600 1.00 2627 123 0.1890 0.2605 REMARK 3 10 2.3600 - 2.2800 1.00 2609 141 0.1954 0.2382 REMARK 3 11 2.2800 - 2.2000 0.98 2570 120 0.2922 0.3523 REMARK 3 12 2.2000 - 2.1400 1.00 2577 147 0.1940 0.2789 REMARK 3 13 2.1400 - 2.0900 1.00 2588 138 0.1865 0.2390 REMARK 3 14 2.0900 - 2.0300 1.00 2620 131 0.1863 0.2564 REMARK 3 15 2.0300 - 1.9900 1.00 2588 136 0.1976 0.2599 REMARK 3 16 1.9900 - 1.9500 1.00 2584 144 0.2269 0.2806 REMARK 3 17 1.9500 - 1.9100 1.00 2571 141 0.3399 0.3827 REMARK 3 18 1.9100 - 1.8700 0.99 2558 157 0.3021 0.3406 REMARK 3 19 1.8700 - 1.8400 1.00 2599 132 0.3074 0.3196 REMARK 3 20 1.8400 - 1.8100 1.00 2578 123 0.3048 0.3280 REMARK 3 21 1.8100 - 1.7800 1.00 2588 140 0.3078 0.3486 REMARK 3 22 1.7800 - 1.7500 1.00 2565 126 0.3306 0.3767 REMARK 3 23 1.7500 - 1.7200 0.98 2541 141 0.3725 0.3939 REMARK 3 24 1.7200 - 1.7000 0.99 2592 136 0.3867 0.4362 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) : 0.242 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.970 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.43 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.30 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 : 0.006 4627 REMARK 3 ANGLE : 0.815 6326 REMARK 3 CHIRALITY : 0.055 700 REMARK 3 PLANARITY : 0.006 831 REMARK 3 DIHEDRAL : 6.365 640 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 : 1 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 4 through 68 or REMARK 3 resid 70 through 90 or resid 92 through REMARK 3 149 or resid 151 through 174 or resid 176 REMARK 3 through 179 or resid 181 through 226 or REMARK 3 resid 228 through 260 or (resid 261 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB or name CG )) or resid 262 REMARK 3 through 290)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 4 or (resid 5 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB or name CG )) or resid 6 through REMARK 3 68 or resid 70 through 77 or (resid 78 REMARK 3 and (name N or name CA or name C or name REMARK 3 O or name CB or name CG )) or resid 79 REMARK 3 through 90 or resid 92 through 149 or REMARK 3 resid 151 through 174 or resid 176 REMARK 3 through 179 or resid 181 through 226 or REMARK 3 resid 228 through 287 or (resid 288 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB or name CG or name CD or name NE ) REMARK 3 ) or resid 289 through 290)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7PLD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-SEP-21. REMARK 100 THE DEPOSITION ID IS D_1292114827. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-FEB-19 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 : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91587 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS JAN 26, 2018 (BUILT REMARK 200 20180808) REMARK 200 DATA SCALING SOFTWARE : XDS JAN 26, 2018 (BUILT REMARK 200 20180808), AIMLESS 0.7.3, REMARK 200 POINTLESS 1.11.17, STARANISO REMARK 200 2.2.1 (20181029) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73394 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 85.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.05300 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) : 1.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.90500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MR-ROSETTA, PHASER 2.8.1 REMARK 200 STARTING MODEL: 4GN7 REMARK 200 REMARK 200 REMARK: TWO-DIMENSIONAL, RECTANGULAR REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, HEPES BUFFER, PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, 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 39.62700 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 39.62700 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 43.87350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 85.86450 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.87350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 85.86450 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.62700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.87350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 85.86450 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.62700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.87350 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 85.86450 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 MET B 1 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 GLN A 5 CD OE1 NE2 REMARK 470 ARG A 78 CD NE CZ NH1 NH2 REMARK 470 ARG A 288 CZ NH1 NH2 REMARK 470 GLU B 261 CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 443 O HOH B 467 1.74 REMARK 500 OD2 ASP A 54 O HOH A 401 1.76 REMARK 500 O HOH B 554 O HOH B 568 1.80 REMARK 500 O HOH A 570 O HOH A 639 1.84 REMARK 500 OE1 GLU A 46 O HOH A 402 1.85 REMARK 500 O HOH B 485 O HOH B 640 1.88 REMARK 500 NH1 ARG A 35 O HOH A 403 1.94 REMARK 500 O HOH A 600 O HOH A 658 1.96 REMARK 500 O HOH B 576 O HOH B 597 1.97 REMARK 500 O HOH B 488 O HOH B 611 1.97 REMARK 500 O HOH B 554 O HOH B 647 1.98 REMARK 500 O HOH A 646 O HOH A 685 1.98 REMARK 500 O05 7UK B 304 O HOH B 401 1.99 REMARK 500 O HOH A 686 O HOH A 694 2.00 REMARK 500 O HOH A 500 O HOH A 619 2.00 REMARK 500 O HOH A 572 O HOH A 677 2.02 REMARK 500 O HOH A 461 O HOH A 618 2.02 REMARK 500 O HOH A 598 O HOH A 694 2.04 REMARK 500 O HOH B 598 O HOH B 637 2.04 REMARK 500 O HOH A 602 O HOH A 681 2.04 REMARK 500 O HOH A 417 O HOH A 436 2.05 REMARK 500 O HOH A 404 O HOH A 579 2.07 REMARK 500 O HOH A 590 O HOH A 665 2.07 REMARK 500 O HOH A 651 O HOH A 700 2.09 REMARK 500 O HOH A 611 O HOH A 626 2.09 REMARK 500 O HOH A 510 O HOH A 601 2.09 REMARK 500 O HOH A 589 O HOH A 616 2.10 REMARK 500 O HOH B 621 O HOH B 645 2.10 REMARK 500 O HOH A 570 O HOH A 659 2.11 REMARK 500 O HOH A 543 O HOH A 558 2.12 REMARK 500 O HOH B 576 O HOH B 589 2.12 REMARK 500 O HOH A 407 O HOH A 436 2.12 REMARK 500 O HOH B 628 O HOH B 643 2.12 REMARK 500 O HOH A 598 O HOH A 686 2.13 REMARK 500 O HOH B 579 O HOH B 586 2.14 REMARK 500 O HOH B 445 O HOH B 647 2.14 REMARK 500 O HOH B 585 O HOH B 660 2.15 REMARK 500 O HOH A 494 O HOH A 630 2.16 REMARK 500 O HOH A 401 O HOH A 629 2.16 REMARK 500 O HOH A 422 O HOH A 680 2.16 REMARK 500 O HOH A 639 O HOH B 556 2.17 REMARK 500 O HOH A 671 O HOH A 699 2.17 REMARK 500 O HOH B 494 O HOH B 620 2.17 REMARK 500 OD1 ASN A 180 O HOH A 404 2.17 REMARK 500 O HOH A 552 O HOH A 632 2.17 REMARK 500 O HOH A 696 O HOH A 699 2.18 REMARK 500 O HOH A 587 O HOH A 651 2.19 REMARK 500 O HOH B 537 O HOH B 562 2.19 REMARK 500 O HOH A 671 O HOH A 696 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 B 527 O HOH B 527 4555 1.92 REMARK 500 O HOH A 467 O HOH B 593 7555 1.99 REMARK 500 OG1 THR B 7 OG1 THR B 7 4556 2.00 REMARK 500 O HOH A 456 O HOH A 499 6555 2.07 REMARK 500 O HOH B 671 O HOH B 671 4555 2.12 REMARK 500 O HOH A 665 O HOH B 656 7555 2.12 REMARK 500 O HOH A 560 O HOH B 643 4555 2.15 REMARK 500 O HOH A 681 O HOH B 493 4555 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 ASN A 101 -107.83 -135.26 REMARK 500 ASP A 196 -118.41 -98.69 REMARK 500 ASN B 101 -107.87 -135.40 REMARK 500 ASP B 191 -169.80 -66.78 REMARK 500 ASP B 196 -115.15 -98.39 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 FE2 A 302 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 18 OE1 REMARK 620 2 ASN A 146 OD1 172.8 REMARK 620 3 ASP A 196 OD1 90.4 90.7 REMARK 620 4 HOH A 417 O 78.6 102.3 160.4 REMARK 620 5 HOH A 481 O 88.6 84.2 104.5 91.4 REMARK 620 6 HOH A 532 O 88.3 98.9 81.9 81.7 172.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 B 305 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 18 OE1 REMARK 620 2 ASN B 146 OD1 166.3 REMARK 620 3 ASP B 196 OD1 88.1 85.3 REMARK 620 4 7UK B 301 O01 106.1 86.4 93.4 REMARK 620 5 7UK B 301 O01 102.1 89.9 89.9 5.2 REMARK 620 6 HOH B 462 O 83.9 84.7 95.2 167.1 172.3 REMARK 620 7 HOH B 490 O 89.9 96.4 177.4 88.6 92.0 83.1 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3G4E RELATED DB: PDB REMARK 900 HOMOLOGOUS STRUCTURE REMARK 900 RELATED ID: 4GN7 RELATED DB: PDB REMARK 900 HOMOLOGOUS STRUCTURE DBREF 7PLD A 3 290 UNP Q9A9Z1 Q9A9Z1_CAUVC 2 289 DBREF 7PLD B 3 290 UNP Q9A9Z1 Q9A9Z1_CAUVC 2 289 SEQADV 7PLD MET A 1 UNP Q9A9Z1 INITIATING METHIONINE SEQADV 7PLD ALA A 2 UNP Q9A9Z1 EXPRESSION TAG SEQADV 7PLD MET B 1 UNP Q9A9Z1 INITIATING METHIONINE SEQADV 7PLD ALA B 2 UNP Q9A9Z1 EXPRESSION TAG SEQRES 1 A 290 MET ALA THR ALA GLN VAL THR CYS VAL TRP ASP LEU LYS SEQRES 2 A 290 ALA THR LEU GLY GLU GLY PRO ILE TRP HIS GLY ASP THR SEQRES 3 A 290 LEU TRP PHE VAL ASP ILE LYS GLN ARG LYS ILE HIS ASN SEQRES 4 A 290 TYR HIS PRO ALA THR GLY GLU ARG PHE SER PHE ASP ALA SEQRES 5 A 290 PRO ASP GLN VAL THR PHE LEU ALA PRO ILE VAL GLY ALA SEQRES 6 A 290 THR GLY PHE VAL VAL GLY LEU LYS THR GLY ILE HIS ARG SEQRES 7 A 290 PHE HIS PRO ALA THR GLY PHE SER LEU LEU LEU GLU VAL SEQRES 8 A 290 GLU ASP ALA ALA LEU ASN ASN ARG PRO ASN ASP ALA THR SEQRES 9 A 290 VAL ASP ALA GLN GLY ARG LEU TRP PHE GLY THR MET HIS SEQRES 10 A 290 ASP GLY GLU GLU ASN ASN SER GLY SER LEU TYR ARG MET SEQRES 11 A 290 ASP LEU THR GLY VAL ALA ARG MET ASP ARG ASP ILE CYS SEQRES 12 A 290 ILE THR ASN GLY PRO CYS VAL SER PRO ASP GLY LYS THR SEQRES 13 A 290 PHE TYR HIS THR ASP THR LEU GLU LYS THR ILE TYR ALA SEQRES 14 A 290 PHE ASP LEU ALA GLU ASP GLY LEU LEU SER ASN LYS ARG SEQRES 15 A 290 VAL PHE VAL GLN PHE ALA LEU GLY ASP ASP VAL TYR PRO SEQRES 16 A 290 ASP GLY SER VAL VAL ASP SER GLU GLY TYR LEU TRP THR SEQRES 17 A 290 ALA LEU TRP GLY GLY PHE GLY ALA VAL ARG PHE SER PRO SEQRES 18 A 290 GLN GLY ASP ALA VAL THR ARG ILE GLU LEU PRO ALA PRO SEQRES 19 A 290 ASN VAL THR LYS PRO CYS PHE GLY GLY PRO ASP LEU LYS SEQRES 20 A 290 THR LEU TYR PHE THR THR ALA ARG LYS GLY LEU SER ASP SEQRES 21 A 290 GLU THR LEU ALA GLN TYR PRO LEU ALA GLY GLY VAL PHE SEQRES 22 A 290 ALA VAL PRO VAL ASP VAL ALA GLY GLN PRO GLN HIS GLU SEQRES 23 A 290 VAL ARG LEU VAL SEQRES 1 B 290 MET ALA THR ALA GLN VAL THR CYS VAL TRP ASP LEU LYS SEQRES 2 B 290 ALA THR LEU GLY GLU GLY PRO ILE TRP HIS GLY ASP THR SEQRES 3 B 290 LEU TRP PHE VAL ASP ILE LYS GLN ARG LYS ILE HIS ASN SEQRES 4 B 290 TYR HIS PRO ALA THR GLY GLU ARG PHE SER PHE ASP ALA SEQRES 5 B 290 PRO ASP GLN VAL THR PHE LEU ALA PRO ILE VAL GLY ALA SEQRES 6 B 290 THR GLY PHE VAL VAL GLY LEU LYS THR GLY ILE HIS ARG SEQRES 7 B 290 PHE HIS PRO ALA THR GLY PHE SER LEU LEU LEU GLU VAL SEQRES 8 B 290 GLU ASP ALA ALA LEU ASN ASN ARG PRO ASN ASP ALA THR SEQRES 9 B 290 VAL ASP ALA GLN GLY ARG LEU TRP PHE GLY THR MET HIS SEQRES 10 B 290 ASP GLY GLU GLU ASN ASN SER GLY SER LEU TYR ARG MET SEQRES 11 B 290 ASP LEU THR GLY VAL ALA ARG MET ASP ARG ASP ILE CYS SEQRES 12 B 290 ILE THR ASN GLY PRO CYS VAL SER PRO ASP GLY LYS THR SEQRES 13 B 290 PHE TYR HIS THR ASP THR LEU GLU LYS THR ILE TYR ALA SEQRES 14 B 290 PHE ASP LEU ALA GLU ASP GLY LEU LEU SER ASN LYS ARG SEQRES 15 B 290 VAL PHE VAL GLN PHE ALA LEU GLY ASP ASP VAL TYR PRO SEQRES 16 B 290 ASP GLY SER VAL VAL ASP SER GLU GLY TYR LEU TRP THR SEQRES 17 B 290 ALA LEU TRP GLY GLY PHE GLY ALA VAL ARG PHE SER PRO SEQRES 18 B 290 GLN GLY ASP ALA VAL THR ARG ILE GLU LEU PRO ALA PRO SEQRES 19 B 290 ASN VAL THR LYS PRO CYS PHE GLY GLY PRO ASP LEU LYS SEQRES 20 B 290 THR LEU TYR PHE THR THR ALA ARG LYS GLY LEU SER ASP SEQRES 21 B 290 GLU THR LEU ALA GLN TYR PRO LEU ALA GLY GLY VAL PHE SEQRES 22 B 290 ALA VAL PRO VAL ASP VAL ALA GLY GLN PRO GLN HIS GLU SEQRES 23 B 290 VAL ARG LEU VAL HET 7UK A 301 14 HET FE2 A 302 1 HET 7UK B 301 28 HET 7UK B 302 14 HET 7UK B 303 14 HET 7UK B 304 14 HET FE2 B 305 1 HETNAM 7UK (R)-4-HYDROXY-2-PYRROLIDONE HETNAM FE2 FE (II) ION HETSYN 7UK (4R)-4-OXIDANYLPYRROLIDIN-2-ONE; (R)-4- HETSYN 2 7UK HYDROXYPYRROLIDIN-2-ONE FORMUL 3 7UK 5(C4 H7 N O2) FORMUL 4 FE2 2(FE 2+) FORMUL 10 HOH *579(H2 O) HELIX 1 AA1 ASP A 93 LEU A 96 5 4 HELIX 2 AA2 SER A 259 TYR A 266 1 8 HELIX 3 AA3 ASP B 93 LEU B 96 5 4 HELIX 4 AA4 SER B 259 TYR B 266 1 8 SHEET 1 AA1 4 THR A 7 TRP A 10 0 SHEET 2 AA1 4 VAL A 272 PRO A 276 -1 O ALA A 274 N THR A 7 SHEET 3 AA1 4 THR A 248 ALA A 254 -1 N LEU A 249 O VAL A 275 SHEET 4 AA1 4 ASN A 235 GLY A 242 -1 N GLY A 242 O THR A 248 SHEET 1 AA2 4 GLY A 17 HIS A 23 0 SHEET 2 AA2 4 THR A 26 ASP A 31 -1 O THR A 26 N HIS A 23 SHEET 3 AA2 4 LYS A 36 TYR A 40 -1 O HIS A 38 N PHE A 29 SHEET 4 AA2 4 ARG A 47 ASP A 51 -1 O PHE A 50 N ILE A 37 SHEET 1 AA3 4 VAL A 56 PRO A 61 0 SHEET 2 AA3 4 PHE A 68 LEU A 72 -1 O VAL A 69 N ALA A 60 SHEET 3 AA3 4 GLY A 75 HIS A 80 -1 O HIS A 77 N VAL A 70 SHEET 4 AA3 4 GLY A 84 LEU A 89 -1 O SER A 86 N ARG A 78 SHEET 1 AA4 4 ASN A 98 VAL A 105 0 SHEET 2 AA4 4 LEU A 111 HIS A 117 -1 O TRP A 112 N THR A 104 SHEET 3 AA4 4 GLY A 125 ASP A 131 -1 O MET A 130 N LEU A 111 SHEET 4 AA4 4 GLY A 134 ILE A 142 -1 O MET A 138 N LEU A 127 SHEET 1 AA5 4 THR A 145 VAL A 150 0 SHEET 2 AA5 4 THR A 156 ASP A 161 -1 O TYR A 158 N CYS A 149 SHEET 3 AA5 4 THR A 166 LEU A 172 -1 O TYR A 168 N HIS A 159 SHEET 4 AA5 4 LEU A 178 GLN A 186 -1 O VAL A 185 N ILE A 167 SHEET 1 AA6 4 TYR A 194 VAL A 200 0 SHEET 2 AA6 4 LEU A 206 TRP A 211 -1 O TRP A 211 N TYR A 194 SHEET 3 AA6 4 GLY A 215 PHE A 219 -1 O PHE A 219 N LEU A 206 SHEET 4 AA6 4 ALA A 225 GLU A 230 -1 O VAL A 226 N ARG A 218 SHEET 1 AA7 4 THR B 7 TRP B 10 0 SHEET 2 AA7 4 VAL B 272 PRO B 276 -1 O ALA B 274 N THR B 7 SHEET 3 AA7 4 THR B 248 THR B 253 -1 N LEU B 249 O VAL B 275 SHEET 4 AA7 4 VAL B 236 GLY B 242 -1 N CYS B 240 O TYR B 250 SHEET 1 AA8 4 GLY B 17 HIS B 23 0 SHEET 2 AA8 4 THR B 26 ASP B 31 -1 O VAL B 30 N GLU B 18 SHEET 3 AA8 4 LYS B 36 TYR B 40 -1 O HIS B 38 N PHE B 29 SHEET 4 AA8 4 ARG B 47 ASP B 51 -1 O PHE B 50 N ILE B 37 SHEET 1 AA9 4 VAL B 56 PRO B 61 0 SHEET 2 AA9 4 PHE B 68 LEU B 72 -1 O VAL B 69 N ALA B 60 SHEET 3 AA9 4 GLY B 75 HIS B 80 -1 O HIS B 77 N VAL B 70 SHEET 4 AA9 4 GLY B 84 LEU B 89 -1 O SER B 86 N ARG B 78 SHEET 1 AB1 4 ASN B 98 VAL B 105 0 SHEET 2 AB1 4 LEU B 111 HIS B 117 -1 O TRP B 112 N THR B 104 SHEET 3 AB1 4 GLY B 125 ASP B 131 -1 O MET B 130 N LEU B 111 SHEET 4 AB1 4 GLY B 134 ILE B 142 -1 O MET B 138 N LEU B 127 SHEET 1 AB2 4 THR B 145 VAL B 150 0 SHEET 2 AB2 4 THR B 156 ASP B 161 -1 O TYR B 158 N CYS B 149 SHEET 3 AB2 4 THR B 166 LEU B 172 -1 O TYR B 168 N HIS B 159 SHEET 4 AB2 4 LEU B 178 GLN B 186 -1 O PHE B 184 N ILE B 167 SHEET 1 AB3 4 TYR B 194 VAL B 200 0 SHEET 2 AB3 4 LEU B 206 TRP B 211 -1 O TRP B 207 N VAL B 199 SHEET 3 AB3 4 GLY B 215 PHE B 219 -1 O PHE B 219 N LEU B 206 SHEET 4 AB3 4 ALA B 225 GLU B 230 -1 O VAL B 226 N ARG B 218 LINK OE1 GLU A 18 FE FE2 A 302 1555 1555 2.03 LINK OD1 ASN A 146 FE FE2 A 302 1555 1555 2.22 LINK OD1 ASP A 196 FE FE2 A 302 1555 1555 2.32 LINK FE FE2 A 302 O HOH A 417 1555 1555 2.45 LINK FE FE2 A 302 O HOH A 481 1555 1555 1.84 LINK FE FE2 A 302 O HOH A 532 1555 1555 2.04 LINK OE1 GLU B 18 FE FE2 B 305 1555 1555 2.11 LINK OD1 ASN B 146 FE FE2 B 305 1555 1555 2.26 LINK OD1 ASP B 196 FE FE2 B 305 1555 1555 2.05 LINK O01A7UK B 301 FE FE2 B 305 1555 1555 2.03 LINK O01B7UK B 301 FE FE2 B 305 1555 1555 1.89 LINK FE FE2 B 305 O HOH B 462 1555 1555 1.92 LINK FE FE2 B 305 O HOH B 490 1555 1555 2.25 CRYST1 87.747 171.729 79.254 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 0.011396 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005823 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012618 0.00000 MTRIX1 1 0.909398 0.214863 0.356131 -14.91847 1 MTRIX2 1 -0.152993 0.969008 -0.193952 -34.58476 1 MTRIX3 1 -0.386767 0.121894 0.914086 8.22579 1