HEADER OXIDOREDUCTASE 03-OCT-24 9GZ0 TITLE FEFE HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS LABELLED WITH TITLE 2 CYANOPHENYLALANINE - OXIDISED STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PERIPLASMIC [FE] HYDROGENASE LARGE SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FE HYDROGENLYASE; COMPND 5 EC: 1.12.7.2; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: ENGINEERED VARIANT CONTAINING CYANOPHENYLALANINE (4CF) COMPND 8 AT POSITION 27; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: PERIPLASMIC [FE] HYDROGENASE SMALL SUBUNIT; COMPND 11 CHAIN: B; COMPND 12 SYNONYM: FE HYDROGENLYASE SMALL CHAIN; COMPND 13 EC: 1.12.7.2; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DESULFOVIBRIO DESULFURICANS; SOURCE 3 ORGANISM_TAXID: 876; SOURCE 4 GENE: HYDA, DVU_1769; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: DESULFOVIBRIO DESULFURICANS; SOURCE 9 ORGANISM_TAXID: 876; SOURCE 10 GENE: HYDB, DVU_1770; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS METALLOPROTEIN IRON-SULFUR CLUSTER HYDROGENASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.B.CARR,Z.DUAN,P.RODROGUEZ-MACIA,K.A.VINCENT REVDAT 3 30-JUL-25 9GZ0 1 JRNL REVDAT 2 11-JUN-25 9GZ0 1 JRNL REVDAT 1 28-MAY-25 9GZ0 0 JRNL AUTH Z.DUAN,J.WEI,S.B.CARR,M.RAMIREZ,R.M.EVANS,P.A.ASH, JRNL AUTH 2 P.RODRIGUEZ-MACIA,A.SACHDEVA,K.A.VINCENT JRNL TITL CYANOPHENYLALANINE AS AN INFRARED PROBE FOR IRON-SULFUR JRNL TITL 2 CLUSTER REDOX STATE IN MULTICENTER METALLOENZYMES. JRNL REF CHEMBIOCHEM V. 26 00251 2025 JRNL REFN ESSN 1439-7633 JRNL PMID 40347495 JRNL DOI 10.1002/CBIC.202500251 REMARK 2 REMARK 2 RESOLUTION. 1.02 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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) : 1.02 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.93 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 199927 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.144 REMARK 3 R VALUE (WORKING SET) : 0.142 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 9778 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 44.9300 - 3.1700 1.00 6799 309 0.1322 0.1428 REMARK 3 2 3.1700 - 2.5100 1.00 6489 346 0.1324 0.1587 REMARK 3 3 2.5100 - 2.2000 1.00 6474 317 0.1157 0.1495 REMARK 3 4 2.2000 - 2.0000 1.00 6377 370 0.1073 0.1292 REMARK 3 5 2.0000 - 1.8500 1.00 6399 358 0.1055 0.1247 REMARK 3 6 1.8500 - 1.7400 1.00 6402 293 0.1046 0.1281 REMARK 3 7 1.7400 - 1.6600 1.00 6360 329 0.1013 0.1250 REMARK 3 8 1.6600 - 1.5800 1.00 6416 310 0.1049 0.1255 REMARK 3 9 1.5800 - 1.5200 1.00 6368 301 0.1062 0.1400 REMARK 3 10 1.5200 - 1.4700 1.00 6352 304 0.1146 0.1458 REMARK 3 11 1.4700 - 1.4200 1.00 6302 350 0.1293 0.1558 REMARK 3 12 1.4200 - 1.3800 1.00 6303 342 0.1378 0.1751 REMARK 3 13 1.3800 - 1.3500 1.00 6332 334 0.1396 0.1675 REMARK 3 14 1.3500 - 1.3100 1.00 6331 319 0.1462 0.1862 REMARK 3 15 1.3100 - 1.2800 1.00 6381 288 0.1562 0.1726 REMARK 3 16 1.2800 - 1.2600 1.00 6358 297 0.1632 0.1850 REMARK 3 17 1.2600 - 1.2300 1.00 6323 285 0.1750 0.2015 REMARK 3 18 1.2300 - 1.2100 1.00 6309 314 0.1784 0.2030 REMARK 3 19 1.2100 - 1.1900 1.00 6303 313 0.1929 0.2065 REMARK 3 20 1.1900 - 1.1700 1.00 6335 330 0.2006 0.2350 REMARK 3 21 1.1700 - 1.1500 1.00 6287 344 0.2136 0.2366 REMARK 3 22 1.1500 - 1.1300 1.00 6268 328 0.2274 0.2472 REMARK 3 23 1.1300 - 1.1100 1.00 6274 354 0.2474 0.2802 REMARK 3 24 1.1100 - 1.1000 1.00 6260 329 0.2638 0.2647 REMARK 3 25 1.1000 - 1.0800 1.00 6230 351 0.2811 0.2931 REMARK 3 26 1.0800 - 1.0700 1.00 6269 373 0.2915 0.2982 REMARK 3 27 1.0700 - 1.0600 1.00 6245 342 0.3178 0.3272 REMARK 3 28 1.0600 - 1.0400 1.00 6298 321 0.3326 0.3438 REMARK 3 29 1.0400 - 1.0300 1.00 6217 345 0.3467 0.3557 REMARK 3 30 1.0300 - 1.0200 0.96 6088 282 0.3656 0.3748 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.124 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.031 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.95 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.96 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 : 0.012 3957 REMARK 3 ANGLE : 1.331 5402 REMARK 3 CHIRALITY : 0.102 577 REMARK 3 PLANARITY : 0.014 687 REMARK 3 DIHEDRAL : 6.244 541 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 9GZ0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-OCT-24. REMARK 100 THE DEPOSITION ID IS D_1292142222. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUL-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.02 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 200276 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.020 REMARK 200 RESOLUTION RANGE LOW (A) : 62.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 26.70 REMARK 200 R MERGE (I) : 0.13000 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) : 1.02 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 26.70 REMARK 200 R MERGE FOR SHELL (I) : 3.60000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.500 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: NULL REMARK 200 REMARK 200 REMARK: DARK BROWN PLATES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.9 M LISO4 100 MM NA ACETATE 24-30% REMARK 280 PEG 6000, PH 6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 24.86950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.93050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.91700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.93050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.86950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.91700 REMARK 290 SMTRY3 4 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: 8670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -141.0 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 GLU A 396 REMARK 465 ALA A 397 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 217 O HOH B 220 1.44 REMARK 500 OE1 GLN A 29 O HOH A 1101 1.47 REMARK 500 O HOH A 1399 O HOH A 1428 1.83 REMARK 500 O HOH A 1399 O HOH A 1400 1.89 REMARK 500 OE2 GLU A 12 O HOH A 1102 1.94 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 1288 O HOH B 311 3545 2.12 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 163 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ARG A 3 156.81 -44.02 REMARK 500 ARG A 8 -9.94 78.80 REMARK 500 MET A 13 48.70 -84.78 REMARK 500 THR A 213 -84.38 -123.62 REMARK 500 LYS A 247 35.86 -144.25 REMARK 500 PHE A 324 79.30 -108.07 REMARK 500 TYR B 75 -57.42 -143.81 REMARK 500 GLU B 77 -61.63 78.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 243 0.12 SIDE CHAIN 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 A1495 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A1496 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A1497 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH B 338 DISTANCE = 6.54 ANGSTROMS 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 LI A1008 LI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 20 O REMARK 620 2 LEU A 242 O 113.4 REMARK 620 3 HOH A1220 O 120.2 102.5 REMARK 620 4 HOH A1362 O 106.1 115.0 99.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1003 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 35 SG REMARK 620 2 SF4 A1003 S1 102.8 REMARK 620 3 SF4 A1003 S3 120.7 105.2 REMARK 620 4 SF4 A1003 S4 115.7 106.0 105.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1003 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 38 SG REMARK 620 2 SF4 A1003 S1 125.2 REMARK 620 3 SF4 A1003 S2 97.8 103.8 REMARK 620 4 SF4 A1003 S3 118.1 102.6 107.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1003 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 41 SG REMARK 620 2 SF4 A1003 S1 108.0 REMARK 620 3 SF4 A1003 S2 112.0 106.8 REMARK 620 4 SF4 A1003 S4 119.6 105.4 104.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1002 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 45 SG REMARK 620 2 SF4 A1002 S1 114.3 REMARK 620 3 SF4 A1002 S2 112.4 103.0 REMARK 620 4 SF4 A1002 S4 116.9 104.2 104.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1002 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 66 SG REMARK 620 2 SF4 A1002 S2 117.1 REMARK 620 3 SF4 A1002 S3 105.5 104.0 REMARK 620 4 SF4 A1002 S4 119.3 105.1 104.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1002 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 69 SG REMARK 620 2 SF4 A1002 S1 99.9 REMARK 620 3 SF4 A1002 S2 126.3 102.8 REMARK 620 4 SF4 A1002 S3 117.5 104.1 103.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1002 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 72 SG REMARK 620 2 SF4 A1002 S1 109.9 REMARK 620 3 SF4 A1002 S3 107.7 105.8 REMARK 620 4 SF4 A1002 S4 124.7 104.4 102.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1003 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 76 SG REMARK 620 2 SF4 A1003 S2 110.2 REMARK 620 3 SF4 A1003 S3 113.5 107.1 REMARK 620 4 SF4 A1003 S4 117.7 103.7 103.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1001 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 179 SG REMARK 620 2 SF4 A1001 S1 115.5 REMARK 620 3 SF4 A1001 S2 109.9 105.1 REMARK 620 4 SF4 A1001 S3 115.4 105.0 105.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1001 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 234 SG REMARK 620 2 SF4 A1001 S2 108.4 REMARK 620 3 SF4 A1001 S3 123.8 105.3 REMARK 620 4 SF4 A1001 S4 105.4 108.4 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1001 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 378 SG REMARK 620 2 SF4 A1001 S1 118.3 REMARK 620 3 SF4 A1001 S2 106.4 105.1 REMARK 620 4 SF4 A1001 S4 117.0 102.2 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A1001 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 382 SG REMARK 620 2 SF4 A1001 S1 118.8 REMARK 620 3 SF4 A1001 S3 106.1 105.7 REMARK 620 4 SF4 A1001 S4 117.5 102.4 105.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 4WW A1004 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 382 SG REMARK 620 2 4WW A1004 S1 94.8 REMARK 620 3 4WW A1004 C3 91.9 173.3 REMARK 620 4 4WW A1004 S2 97.7 88.0 91.6 REMARK 620 5 4WW A1004 C5 174.4 87.7 85.7 87.5 REMARK 620 6 4WW A1004 C4 94.3 78.8 100.2 162.9 81.2 REMARK 620 N 1 2 3 4 5 DBREF 9GZ0 A 2 397 UNP P07598 PHFL_NITV2 2 397 DBREF 9GZ0 B 36 123 UNP P07603 PHFS_DESVH 36 123 SEQRES 1 A 396 SER ARG THR VAL MET GLU ARG ILE GLU TYR GLU MET HIS SEQRES 2 A 396 THR PRO ASP PRO LYS ALA ASP PRO ASP LYS LEU HIS 4CF SEQRES 3 A 396 VAL GLN ILE ASP GLU ALA LYS CYS ILE GLY CYS ASP THR SEQRES 4 A 396 CYS SER GLN TYR CYS PRO THR ALA ALA ILE PHE GLY GLU SEQRES 5 A 396 MET GLY GLU PRO HIS SER ILE PRO HIS ILE GLU ALA CYS SEQRES 6 A 396 ILE ASN CYS GLY GLN CYS LEU THR HIS CYS PRO GLU ASN SEQRES 7 A 396 ALA ILE TYR GLU ALA GLN SER TRP VAL PRO GLU VAL GLU SEQRES 8 A 396 LYS LYS LEU LYS ASP GLY LYS VAL LYS CYS ILE ALA MET SEQRES 9 A 396 PRO ALA PRO ALA VAL ARG TYR ALA LEU GLY ASP ALA PHE SEQRES 10 A 396 GLY MET PRO VAL GLY SER VAL THR THR GLY LYS MET LEU SEQRES 11 A 396 ALA ALA LEU GLN LYS LEU GLY PHE ALA HIS CYS TRP ASP SEQRES 12 A 396 THR GLU PHE THR ALA ASP VAL THR ILE TRP GLU GLU GLY SEQRES 13 A 396 SER GLU PHE VAL GLU ARG LEU THR LYS LYS SER ASP MET SEQRES 14 A 396 PRO LEU PRO GLN PHE THR SER CYS CYS PRO GLY TRP GLN SEQRES 15 A 396 LYS TYR ALA GLU THR TYR TYR PRO GLU LEU LEU PRO HIS SEQRES 16 A 396 PHE SER THR CYS LYS SER PRO ILE GLY MET ASN GLY ALA SEQRES 17 A 396 LEU ALA LYS THR TYR GLY ALA GLU ARG MET LYS TYR ASP SEQRES 18 A 396 PRO LYS GLN VAL TYR THR VAL SER ILE MET PRO CYS ILE SEQRES 19 A 396 ALA LYS LYS TYR GLU GLY LEU ARG PRO GLU LEU LYS SER SEQRES 20 A 396 SER GLY MET ARG ASP ILE ASP ALA THR LEU THR THR ARG SEQRES 21 A 396 GLU LEU ALA TYR MET ILE LYS LYS ALA GLY ILE ASP PHE SEQRES 22 A 396 ALA LYS LEU PRO ASP GLY LYS ARG ASP SER LEU MET GLY SEQRES 23 A 396 GLU SER THR GLY GLY ALA THR ILE PHE GLY VAL THR GLY SEQRES 24 A 396 GLY VAL MET GLU ALA ALA LEU ARG PHE ALA TYR GLU ALA SEQRES 25 A 396 VAL THR GLY LYS LYS PRO ASP SER TRP ASP PHE LYS ALA SEQRES 26 A 396 VAL ARG GLY LEU ASP GLY ILE LYS GLU ALA THR VAL ASN SEQRES 27 A 396 VAL GLY GLY THR ASP VAL LYS VAL ALA VAL VAL HIS GLY SEQRES 28 A 396 ALA LYS ARG PHE LYS GLN VAL CYS ASP ASP VAL LYS ALA SEQRES 29 A 396 GLY LYS SER PRO TYR HIS PHE ILE GLU TYR MET ALA CYS SEQRES 30 A 396 PRO GLY GLY CYS VAL CYS GLY GLY GLY GLN PRO VAL MET SEQRES 31 A 396 PRO GLY VAL LEU GLU ALA SEQRES 1 B 88 VAL LYS GLN ILE LYS ASP TYR MET LEU ASP ARG ILE ASN SEQRES 2 B 88 GLY VAL TYR GLY ALA ASP ALA LYS PHE PRO VAL ARG ALA SEQRES 3 B 88 SER GLN ASP ASN THR GLN VAL LYS ALA LEU TYR LYS SER SEQRES 4 B 88 TYR LEU GLU LYS PRO LEU GLY HIS LYS SER HIS ASP LEU SEQRES 5 B 88 LEU HIS THR HIS TRP PHE ASP LYS SER LYS GLY VAL LYS SEQRES 6 B 88 GLU LEU THR THR ALA GLY LYS LEU PRO ASN PRO ARG ALA SEQRES 7 B 88 SER GLU PHE GLU GLY PRO TYR PRO TYR GLU MODRES 9GZ0 4CF A 27 PHE MODIFIED RESIDUE HET 4CF A 27 20 HET SF4 A1001 8 HET SF4 A1002 8 HET SF4 A1003 8 HET 4WW A1004 17 HET CL A1005 1 HET CL A1006 1 HET CL A1007 1 HET LI A1008 1 HETNAM 4CF 4-CYANO-L-PHENYLALANINE HETNAM SF4 IRON/SULFUR CLUSTER HETNAM 4WW BIS(CYANIDO-KAPPAC)(DICARBONYL)-MU-(OXOMETHYLIDENE)[MU- HETNAM 2 4WW PROPANE-1,3-BIS(THIOLATE)-1KAPPA~2~S~1~, HETNAM 3 4WW S~3~:2KAPPA~2~S~1~,S~3~] DIIRON(2+) HETNAM CL CHLORIDE ION HETNAM LI LITHIUM ION HETSYN 4WW PROPANE-DITHIOLATO-BRIDGED [2FE2S] CLUSTER FORMUL 1 4CF C10 H10 N2 O2 FORMUL 3 SF4 3(FE4 S4) FORMUL 6 4WW C8 H6 FE2 N2 O3 S2 2+ FORMUL 7 CL 3(CL 1-) FORMUL 10 LI LI 1+ FORMUL 11 HOH *535(H2 O) HELIX 1 AA1 ASP A 21 LEU A 25 5 5 HELIX 2 AA2 ASP A 39 CYS A 45 1 7 HELIX 3 AA3 HIS A 62 CYS A 66 5 5 HELIX 4 AA4 CYS A 72 CYS A 76 5 5 HELIX 5 AA5 TRP A 87 LYS A 96 1 10 HELIX 6 AA6 PRO A 108 GLY A 119 5 12 HELIX 7 AA7 THR A 126 GLY A 138 1 13 HELIX 8 AA8 ASP A 144 THR A 165 1 22 HELIX 9 AA9 CYS A 179 TYR A 190 1 12 HELIX 10 AB1 PRO A 191 PHE A 197 5 7 HELIX 11 AB2 SER A 202 LYS A 212 1 11 HELIX 12 AB3 THR A 213 LYS A 220 1 8 HELIX 13 AB4 ASP A 222 LYS A 224 5 3 HELIX 14 AB5 ILE A 235 LEU A 242 1 8 HELIX 15 AB6 THR A 260 ALA A 270 1 11 HELIX 16 AB7 ASP A 273 LEU A 277 5 5 HELIX 17 AB8 THR A 290 ILE A 295 1 6 HELIX 18 AB9 PHE A 296 VAL A 298 5 3 HELIX 19 AC1 GLY A 300 GLY A 316 1 17 HELIX 20 AC2 PHE A 324 ARG A 328 5 5 HELIX 21 AC3 ARG A 355 ALA A 365 1 11 HELIX 22 AC4 GLY A 381 GLY A 385 5 5 HELIX 23 AC5 GLN B 38 PHE B 57 1 20 HELIX 24 AC6 ALA B 61 ASP B 64 5 4 HELIX 25 AC7 ASN B 65 TYR B 75 1 11 HELIX 26 AC8 GLY B 81 HIS B 89 1 9 HELIX 27 AC9 SER B 96 ALA B 105 1 10 HELIX 28 AD1 ARG B 112 GLU B 117 5 6 SHEET 1 AA1 2 THR A 4 MET A 6 0 SHEET 2 AA1 2 ILE A 9 TYR A 11 -1 O ILE A 9 N MET A 6 SHEET 1 AA2 2 VAL A 28 ILE A 30 0 SHEET 2 AA2 2 ILE A 81 GLU A 83 -1 O TYR A 82 N GLN A 29 SHEET 1 AA3 4 HIS A 141 CYS A 142 0 SHEET 2 AA3 4 LYS A 101 PRO A 106 1 N ALA A 104 O HIS A 141 SHEET 3 AA3 4 VAL A 226 MET A 232 1 O TYR A 227 N ILE A 103 SHEET 4 AA3 4 ALA A 256 THR A 259 1 O LEU A 258 N SER A 230 SHEET 1 AA4 4 GLN A 174 PHE A 175 0 SHEET 2 AA4 4 PHE A 372 MET A 376 1 O ILE A 373 N GLN A 174 SHEET 3 AA4 4 THR A 343 HIS A 351 1 N VAL A 350 O GLU A 374 SHEET 4 AA4 4 ILE A 333 VAL A 340 -1 N LYS A 334 O VAL A 349 LINK C HIS A 26 N 4CF A 27 1555 1555 1.32 LINK C 4CF A 27 N VAL A 28 1555 1555 1.34 LINK O ALA A 20 LI LI A1008 1555 1555 1.99 LINK SG CYS A 35 FE2 SF4 A1003 1555 1555 2.29 LINK SG CYS A 38 FE4 SF4 A1003 1555 1555 2.26 LINK SG CYS A 41 FE3 SF4 A1003 1555 1555 2.24 LINK SG CYS A 45 FE3 SF4 A1002 1555 1555 2.29 LINK SG CYS A 66 FE1 SF4 A1002 1555 1555 2.29 LINK SG CYS A 69 FE4 SF4 A1002 1555 1555 2.31 LINK SG CYS A 72 FE2 SF4 A1002 1555 1555 2.30 LINK SG CYS A 76 FE1 SF4 A1003 1555 1555 2.28 LINK SG CYS A 179 FE4 SF4 A1001 1555 1555 2.26 LINK SG CYS A 234 FE1 SF4 A1001 1555 1555 2.27 LINK O LEU A 242 LI LI A1008 1555 1555 1.98 LINK SG CYS A 378 FE3 SF4 A1001 1555 1555 2.27 LINK SG CYS A 382 FE2 SF4 A1001 1555 1555 2.28 LINK SG CYS A 382 FE1 4WW A1004 1555 1555 2.47 LINK LI LI A1008 O HOH A1220 1555 1555 1.99 LINK LI LI A1008 O HOH A1362 1555 1555 1.80 CISPEP 1 LEU A 172 PRO A 173 0 0.42 CISPEP 2 LEU B 108 PRO B 109 0 3.53 CRYST1 49.739 87.834 89.861 90.00 90.00 90.00 P 21 21 21 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 0.020105 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011385 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011128 0.00000 CONECT 314 7585 CONECT 402 418 CONECT 417 419 422 437 CONECT 418 402 422 CONECT 419 417 CONECT 420 421 425 CONECT 421 420 CONECT 422 417 418 423 430 CONECT 423 422 424 431 432 CONECT 424 423 426 427 CONECT 425 420 428 429 CONECT 426 424 428 433 CONECT 427 424 429 434 CONECT 428 425 426 435 CONECT 429 425 427 436 CONECT 430 422 CONECT 431 423 CONECT 432 423 CONECT 433 426 CONECT 434 427 CONECT 435 428 CONECT 436 429 CONECT 437 417 CONECT 553 7558 CONECT 589 7560 CONECT 625 7559 CONECT 684 7551 CONECT 979 7549 CONECT 1022 7552 CONECT 1056 7550 CONECT 1116 7557 CONECT 2775 7544 CONECT 3641 7541 CONECT 3765 7585 CONECT 5873 7543 CONECT 5911 7542 7577 CONECT 7541 3641 7546 7547 7548 CONECT 7542 5911 7545 7547 7548 CONECT 7543 5873 7545 7546 7548 CONECT 7544 2775 7545 7546 7547 CONECT 7545 7542 7543 7544 CONECT 7546 7541 7543 7544 CONECT 7547 7541 7542 7544 CONECT 7548 7541 7542 7543 CONECT 7549 979 7554 7555 7556 CONECT 7550 1056 7553 7555 7556 CONECT 7551 684 7553 7554 7556 CONECT 7552 1022 7553 7554 7555 CONECT 7553 7550 7551 7552 CONECT 7554 7549 7551 7552 CONECT 7555 7549 7550 7552 CONECT 7556 7549 7550 7551 CONECT 7557 1116 7562 7563 7564 CONECT 7558 553 7561 7563 7564 CONECT 7559 625 7561 7562 7564 CONECT 7560 589 7561 7562 7563 CONECT 7561 7558 7559 7560 CONECT 7562 7557 7559 7560 CONECT 7563 7557 7558 7560 CONECT 7564 7557 7558 7559 CONECT 7565 7569 7581 CONECT 7566 7567 7581 CONECT 7567 7566 7572 7577 CONECT 7568 7577 7578 CONECT 7569 7565 7572 7577 CONECT 7570 7571 CONECT 7571 7570 7572 CONECT 7572 7567 7569 7571 7573 CONECT 7572 7575 CONECT 7573 7572 7574 7577 CONECT 7574 7573 CONECT 7575 7572 7576 CONECT 7576 7575 CONECT 7577 5911 7567 7568 7569 CONECT 7577 7573 7579 CONECT 7578 7568 CONECT 7579 7577 7580 CONECT 7580 7579 CONECT 7581 7565 7566 CONECT 7585 314 3765 7705 7847 CONECT 7705 7585 CONECT 7847 7585 MASTER 471 0 9 28 12 0 0 6 4295 2 82 38 END