HEADER METAL BINDING PROTEIN 26-JUL-22 7YLS TITLE STRUCTURE OF A BACTERIA PROTEIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: AROMATIC-RING-HYDROXYLATING DIOXYGENASE BETA SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: RIESKE (2FE-2S) DOMAIN PROTEIN; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VARIOVORAX PARADOXUS; SOURCE 3 ORGANISM_TAXID: 34073; SOURCE 4 GENE: VAPAR_1494; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: VARIOVORAX PARADOXUS; SOURCE 9 ORGANISM_TAXID: 34073; SOURCE 10 GENE: VAPAR_1493; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS A BACTERIA PROTEIN COMPLEX, FLAVOPROTEIN, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.ZHANG,Y.J.MA,G.M.YU,X.Z.LI REVDAT 2 03-APR-24 7YLS 1 REMARK REVDAT 1 14-JUN-23 7YLS 0 JRNL AUTH H.ZHANG,Y.J.MA,G.M.YU,X.Z.LI JRNL TITL STRUCTURE OF A BACTERIA PROTEIN COMPLEX JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20_4459 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 77215 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 3815 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 37.6100 - 5.3900 1.00 2889 140 0.1917 0.1747 REMARK 3 2 5.3900 - 4.2800 1.00 2788 131 0.1390 0.1664 REMARK 3 3 4.2800 - 3.7400 1.00 2757 156 0.1309 0.1363 REMARK 3 4 3.7400 - 3.4000 1.00 2730 153 0.1372 0.1729 REMARK 3 5 3.4000 - 3.1500 1.00 2687 162 0.1395 0.1599 REMARK 3 6 3.1500 - 2.9700 1.00 2727 151 0.1488 0.1445 REMARK 3 7 2.9700 - 2.8200 1.00 2708 173 0.1500 0.1533 REMARK 3 8 2.8200 - 2.7000 1.00 2711 150 0.1484 0.1807 REMARK 3 9 2.7000 - 2.5900 1.00 2710 130 0.1522 0.1745 REMARK 3 10 2.5900 - 2.5000 1.00 2729 144 0.1525 0.1979 REMARK 3 11 2.5000 - 2.4300 1.00 2685 139 0.1494 0.1657 REMARK 3 12 2.4200 - 2.3600 1.00 2757 125 0.1579 0.1735 REMARK 3 13 2.3600 - 2.2900 1.00 2709 130 0.1507 0.1747 REMARK 3 14 2.2900 - 2.2400 1.00 2705 132 0.1490 0.1974 REMARK 3 15 2.2400 - 2.1900 1.00 2712 144 0.1522 0.1585 REMARK 3 16 2.1900 - 2.1400 1.00 2694 160 0.1487 0.1879 REMARK 3 17 2.1400 - 2.1000 1.00 2665 149 0.1493 0.1728 REMARK 3 18 2.1000 - 2.0600 1.00 2714 124 0.1458 0.1461 REMARK 3 19 2.0600 - 2.0200 1.00 2688 165 0.1429 0.1668 REMARK 3 20 2.0200 - 1.9900 1.00 2697 142 0.1565 0.1995 REMARK 3 21 1.9900 - 1.9500 1.00 2703 120 0.1633 0.1924 REMARK 3 22 1.9500 - 1.9200 1.00 2711 136 0.1646 0.1839 REMARK 3 23 1.9200 - 1.9000 1.00 2752 94 0.1789 0.2238 REMARK 3 24 1.9000 - 1.8700 1.00 2693 151 0.1815 0.1889 REMARK 3 25 1.8700 - 1.8400 1.00 2654 145 0.1797 0.1761 REMARK 3 26 1.8400 - 1.8200 1.00 2715 139 0.1872 0.2032 REMARK 3 27 1.8200 - 1.8000 1.00 2710 130 0.2013 0.2587 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) : 0.119 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.414 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.23 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.88 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 : 0.013 4929 REMARK 3 ANGLE : 1.233 6674 REMARK 3 CHIRALITY : 0.067 696 REMARK 3 PLANARITY : 0.016 882 REMARK 3 DIHEDRAL : 6.507 663 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): 46.0861 15.9231 44.9213 REMARK 3 T TENSOR REMARK 3 T11: 0.2588 T22: 0.1642 REMARK 3 T33: 0.2269 T12: 0.0743 REMARK 3 T13: 0.0697 T23: 0.0606 REMARK 3 L TENSOR REMARK 3 L11: 0.6736 L22: 0.4662 REMARK 3 L33: 0.6653 L12: -0.2950 REMARK 3 L13: 0.0638 L23: -0.1500 REMARK 3 S TENSOR REMARK 3 S11: -0.0356 S12: -0.0553 S13: -0.1340 REMARK 3 S21: 0.0069 S22: 0.0116 S23: 0.0085 REMARK 3 S31: 0.1686 S32: 0.0323 S33: 0.0084 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 7YLS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-JUL-22. REMARK 100 THE DEPOSITION ID IS D_1300031181. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77237 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 135.610 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 26.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.9300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX 1.20_4459 REMARK 200 STARTING MODEL: ALPHAFOLD2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2-METHYL-2,4-PENTANEDIOL, SODIUM REMARK 280 CACODYLATE TRIHYDRATE, MAGNESIUM ACETATE TETRAHYDRATE, 1,3- REMARK 280 PROPANEDIOL, LIQUID DIFFUSION, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X 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 0.00000 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 0.00000 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 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 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: 4370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 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 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 A 348 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 440 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 ALA A 2 REMARK 465 GLY A 3 REMARK 465 THR A 4 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 LYS B 282 CG CD CE NZ REMARK 470 LYS B 408 CG CD CE NZ 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 H LYS B 282 O HOH B 603 1.34 REMARK 500 HD21 ASN B 94 O HOH B 602 1.49 REMARK 500 O HOH A 409 O HOH A 422 1.74 REMARK 500 OD1 ASP B 17 O HOH B 601 1.90 REMARK 500 ND2 ASN B 94 O HOH B 602 1.96 REMARK 500 N LYS B 282 O HOH B 603 2.04 REMARK 500 O HOH B 889 O HOH B 910 2.05 REMARK 500 O HOH B 899 O HOH B 916 2.09 REMARK 500 O HOH B 831 O HOH B 913 2.14 REMARK 500 OE2 GLU B 137 O HOH B 604 2.18 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 835 O HOH B 856 5555 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 TYR A 59 69.93 -151.42 REMARK 500 LEU A 160 -167.43 -109.57 REMARK 500 HIS B 37 -80.25 -121.55 REMARK 500 HIS B 87 -85.93 -84.99 REMARK 500 VAL B 219 -62.26 -108.27 REMARK 500 TRP B 232 49.92 -140.96 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 25 0.16 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 A 440 DISTANCE = 6.18 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 FES B 501 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 85 SG REMARK 620 2 FES B 501 S1 109.3 REMARK 620 3 FES B 501 S2 111.4 106.5 REMARK 620 4 CYS B 106 SG 109.3 106.5 113.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FES B 501 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 87 ND1 REMARK 620 2 FES B 501 S1 113.5 REMARK 620 3 FES B 501 S2 112.4 104.0 REMARK 620 4 HIS B 109 ND1 96.3 112.6 118.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 505 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 216 NE2 REMARK 620 2 HIS B 221 NE2 105.2 REMARK 620 3 ASP B 377 OD1 77.6 85.5 REMARK 620 4 ASP B 377 OD2 117.7 106.8 53.7 REMARK 620 5 HOH B 891 O 111.2 111.5 156.6 104.5 REMARK 620 N 1 2 3 4 DBREF 7YLS A 1 162 UNP C5CSP7 C5CSP7_VARPS 1 162 DBREF 7YLS B 1 437 UNP C5CSP6 C5CSP6_VARPS 1 437 SEQADV 7YLS GLN A 97 UNP C5CSP7 THR 97 CONFLICT SEQADV 7YLS VAL A 106 UNP C5CSP7 ALA 106 CONFLICT SEQADV 7YLS LEU A 107 UNP C5CSP7 VAL 107 CONFLICT SEQADV 7YLS ARG A 135 UNP C5CSP7 GLN 135 CONFLICT SEQADV 7YLS GLU B 135 UNP C5CSP6 ALA 135 CONFLICT SEQADV 7YLS ARG B 146 UNP C5CSP6 LYS 146 CONFLICT SEQADV 7YLS ASP B 165 UNP C5CSP6 GLY 165 CONFLICT SEQADV 7YLS ALA B 300 UNP C5CSP6 GLU 300 CONFLICT SEQADV 7YLS SER B 405 UNP C5CSP6 ALA 405 CONFLICT SEQRES 1 A 162 MET ALA GLY THR GLU VAL THR ARG GLN ASP LEU ILE ASP SEQRES 2 A 162 PHE VAL VAL ASN GLU ALA HIS LEU LEU ASP THR ARG ARG SEQRES 3 A 162 TYR GLU GLU TRP ASN ALA LEU PHE THR ASP ASP ALA PHE SEQRES 4 A 162 TYR TRP VAL PRO LEU VAL PRO ASP GLN GLU ASP GLY LEU SEQRES 5 A 162 ASN HIS THR SER HIS LEU TYR GLU ASP LYS LEU LEU ARG SEQRES 6 A 162 GLU LEU ARG ILE GLU ARG LEU LYS SER PRO ARG ALA PHE SEQRES 7 A 162 SER GLN GLN PRO PRO SER ARG CYS HIS HIS LEU LEU GLN SEQRES 8 A 162 VAL PRO VAL VAL GLU GLN PHE ASP ALA GLU GLY ASN ARG SEQRES 9 A 162 PHE VAL LEU ARG THR GLY PHE HIS TYR THR GLU SER GLN SEQRES 10 A 162 GLY ASP GLU LEU GLN PHE TYR VAL GLY THR PHE PHE HIS SEQRES 11 A 162 HIS LEU THR VAL ARG ASP GLY ALA LEU ARG MET THR LEU SEQRES 12 A 162 LYS ARG VAL ASN LEU LEU ASN CYS ASP ALA ALA LEU PRO SEQRES 13 A 162 ALA VAL GLN LEU PHE ILE SEQRES 1 B 437 MET THR SER TYR ARG ASP ASN PRO ASP ALA ILE ARG ALA SEQRES 2 B 437 LEU VAL GLN ASP ASP ARG VAL HIS ARG ASP LEU TYR THR SEQRES 3 B 437 SER GLN GLU LEU PHE GLU LEU GLU GLN GLU HIS PHE PHE SEQRES 4 B 437 ALA ASN THR TRP ASN TYR VAL GLY HIS GLU SER GLN LEU SEQRES 5 B 437 PRO LYS PRO GLY ASP TRP ILE SER ASN GLU ILE ALA GLY SEQRES 6 B 437 ARG PRO LEU ILE VAL ALA ARG HIS SER ASP GLY SER VAL SEQRES 7 B 437 ARG ALA MET MET ASN ARG CYS ALA HIS LYS GLY SER ARG SEQRES 8 B 437 LEU VAL ASN GLY PRO CYS GLY ASN THR GLY LYS PHE PHE SEQRES 9 B 437 ARG CYS PRO TYR HIS ALA TRP THR PHE LYS THR ASP GLY SEQRES 10 B 437 SER LEU LEU ALA ILE PRO LEU LYS THR GLY TYR GLU ASN SEQRES 11 B 437 THR ALA LEU HIS GLU CYS GLU SER ALA LYS GLY LEU THR SEQRES 12 B 437 THR LEU ARG TYR VAL ARG SER HIS ARG GLY PHE ILE PHE SEQRES 13 B 437 VAL LYS ILE SER ASP ALA GLY PRO ASP PHE ASP ASP TYR SEQRES 14 B 437 PHE GLY ASP SER LEU SER SER ILE ASP ASN MET ALA ASP SEQRES 15 B 437 ARG SER PRO GLU GLY GLU LEU GLU ILE ALA GLY GLY CYS SEQRES 16 B 437 LEU ARG PHE MET HIS GLN CYS ASN TRP LYS MET PHE VAL SEQRES 17 B 437 GLU ASN LEU ASN ASP THR MET HIS PRO MET VAL ALA HIS SEQRES 18 B 437 GLU SER SER ALA GLY THR ALA LYS ARG MET TRP ALA ASP SEQRES 19 B 437 LYS PRO GLU ASP GLU PRO LYS PRO MET ALA VAL GLU GLN SEQRES 20 B 437 PHE ALA PRO PHE MET SER ASP TYR LYS PHE PHE GLU ASP SEQRES 21 B 437 MET GLY ILE ARG THR TYR ASP ASN GLY HIS SER PHE THR SEQRES 22 B 437 GLY VAL HIS PHE SER ILE HIS SER LYS TYR LYS ALA ILE SEQRES 23 B 437 PRO ALA TYR ASP ASP ALA MET LYS ALA ARG TYR GLY GLU SEQRES 24 B 437 ALA LYS THR ALA GLN ILE LEU GLY MET ALA ARG HIS ASN SEQRES 25 B 437 THR VAL TYR TYR PRO ASN LEU THR ILE LYS GLY ALA ILE SEQRES 26 B 437 GLN ALA ILE ARG VAL VAL LYS PRO ILE SER ALA ASP ARG SEQRES 27 B 437 THR LEU ILE GLU SER TRP THR PHE ARG LEU LYS GLY ALA SEQRES 28 B 437 PRO PRO GLU LEU LEU GLN ARG THR THR MET TYR ASN ARG SEQRES 29 B 437 LEU ILE ASN SER PRO PHE SER VAL VAL GLY HIS ASP ASP SEQRES 30 B 437 LEU GLN ALA TYR ARG GLY MET GLN ALA GLY LEU HIS ALA SEQRES 31 B 437 SER GLY ASN GLU TRP VAL SER LEU HIS ARG ASN TYR ASP SEQRES 32 B 437 PRO SER GLU LEU LYS GLY GLY GLU ILE THR THR GLY GLY SEQRES 33 B 437 THR ASN GLU LEU PRO MET ARG ASN GLN TYR ARG ALA TRP SEQRES 34 B 437 VAL GLN ARG MET THR GLU THR MET HET ACT A 201 7 HET FES B 501 4 HET GOL B 502 14 HET ACT B 503 7 HET ACT B 504 7 HET FE B 505 1 HETNAM ACT ACETATE ION HETNAM FES FE2/S2 (INORGANIC) CLUSTER HETNAM GOL GLYCEROL HETNAM FE FE (III) ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ACT 3(C2 H3 O2 1-) FORMUL 4 FES FE2 S2 FORMUL 5 GOL C3 H8 O3 FORMUL 8 FE FE 3+ FORMUL 9 HOH *472(H2 O) HELIX 1 AA1 THR A 7 THR A 24 1 18 HELIX 2 AA2 ARG A 26 LEU A 33 1 8 HELIX 3 AA3 ASP A 61 LEU A 72 1 12 HELIX 4 AA4 ALA A 77 GLN A 81 5 5 HELIX 5 AA5 ASN B 7 LEU B 14 1 8 HELIX 6 AA6 ARG B 22 SER B 27 1 6 HELIX 7 AA7 SER B 27 HIS B 37 1 11 HELIX 8 AA8 PHE B 38 ASN B 41 5 4 HELIX 9 AA9 SER B 50 LEU B 52 5 3 HELIX 10 AB1 LEU B 124 GLU B 129 5 6 HELIX 11 AB2 THR B 131 GLY B 141 5 11 HELIX 12 AB3 ASP B 165 GLY B 171 1 7 HELIX 13 AB4 LEU B 174 ARG B 183 1 10 HELIX 14 AB5 ASN B 203 LEU B 211 1 9 HELIX 15 AB6 HIS B 216 HIS B 221 1 6 HELIX 16 AB7 HIS B 221 MET B 231 1 11 HELIX 17 AB8 PRO B 242 ALA B 249 1 8 HELIX 18 AB9 PRO B 250 SER B 253 5 4 HELIX 19 AC1 ASP B 254 GLY B 262 1 9 HELIX 20 AC2 ASP B 267 GLY B 269 5 3 HELIX 21 AC3 ILE B 286 GLY B 298 1 13 HELIX 22 AC4 GLY B 298 MET B 308 1 11 HELIX 23 AC5 PRO B 353 SER B 368 1 16 HELIX 24 AC6 SER B 371 LEU B 388 1 18 HELIX 25 AC7 ASP B 403 GLY B 409 5 7 HELIX 26 AC8 GLU B 419 GLU B 435 1 17 SHEET 1 AA1 6 SER A 56 GLU A 60 0 SHEET 2 AA1 6 PHE A 34 PRO A 43 -1 N TYR A 40 O GLU A 60 SHEET 3 AA1 6 ALA A 138 LEU A 148 1 O LYS A 144 N TRP A 41 SHEET 4 AA1 6 GLU A 120 ARG A 135 -1 N THR A 127 O ASN A 147 SHEET 5 AA1 6 ARG A 104 GLN A 117 -1 N THR A 109 O PHE A 128 SHEET 6 AA1 6 ARG A 85 LEU A 90 -1 N LEU A 89 O HIS A 112 SHEET 1 AA2 6 SER A 56 GLU A 60 0 SHEET 2 AA2 6 PHE A 34 PRO A 43 -1 N TYR A 40 O GLU A 60 SHEET 3 AA2 6 ALA A 138 LEU A 148 1 O LYS A 144 N TRP A 41 SHEET 4 AA2 6 GLU A 120 ARG A 135 -1 N THR A 127 O ASN A 147 SHEET 5 AA2 6 ARG A 104 GLN A 117 -1 N THR A 109 O PHE A 128 SHEET 6 AA2 6 VAL A 94 ASP A 99 -1 N VAL A 94 O ARG A 108 SHEET 1 AA3 2 ARG B 19 HIS B 21 0 SHEET 2 AA3 2 TRP B 395 SER B 397 -1 O VAL B 396 N VAL B 20 SHEET 1 AA4 3 ASN B 44 HIS B 48 0 SHEET 2 AA4 3 PHE B 154 LYS B 158 -1 O ILE B 155 N GLY B 47 SHEET 3 AA4 3 TYR B 147 HIS B 151 -1 N ARG B 149 O PHE B 156 SHEET 1 AA5 4 VAL B 78 MET B 82 0 SHEET 2 AA5 4 ARG B 66 ARG B 72 -1 N ILE B 69 O MET B 81 SHEET 3 AA5 4 ASP B 57 ILE B 63 -1 N ASN B 61 O LEU B 68 SHEET 4 AA5 4 CYS B 97 ASN B 99 -1 O GLY B 98 N TRP B 58 SHEET 1 AA6 3 PHE B 103 ARG B 105 0 SHEET 2 AA6 3 THR B 112 LYS B 114 -1 O PHE B 113 N PHE B 104 SHEET 3 AA6 3 LEU B 119 ALA B 121 -1 O LEU B 120 N THR B 112 SHEET 1 AA7 3 LEU B 189 ILE B 191 0 SHEET 2 AA7 3 ARG B 338 LEU B 348 -1 O ARG B 347 N GLU B 190 SHEET 3 AA7 3 LEU B 196 HIS B 200 -1 N LEU B 196 O SER B 343 SHEET 1 AA8 8 LEU B 189 ILE B 191 0 SHEET 2 AA8 8 ARG B 338 LEU B 348 -1 O ARG B 347 N GLU B 190 SHEET 3 AA8 8 ALA B 327 SER B 335 -1 N LYS B 332 O LEU B 340 SHEET 4 AA8 8 LEU B 319 ILE B 321 -1 N THR B 320 O ARG B 329 SHEET 5 AA8 8 ASN B 312 TYR B 315 -1 N TYR B 315 O LEU B 319 SHEET 6 AA8 8 SER B 271 THR B 273 -1 N SER B 271 O VAL B 314 SHEET 7 AA8 8 ILE B 263 THR B 265 -1 N ARG B 264 O PHE B 272 SHEET 8 AA8 8 ILE B 412 THR B 414 -1 O THR B 414 N ILE B 263 LINK SG CYS B 85 FE2 FES B 501 1555 1555 2.37 LINK ND1 HIS B 87 FE1 FES B 501 1555 1555 2.07 LINK SG CYS B 106 FE2 FES B 501 1555 1555 2.27 LINK ND1 HIS B 109 FE1 FES B 501 1555 1555 2.06 LINK NE2 HIS B 216 FE FE B 505 1555 1555 2.04 LINK NE2 HIS B 221 FE FE B 505 1555 1555 1.97 LINK OD1 ASP B 377 FE FE B 505 1555 1555 2.64 LINK OD2 ASP B 377 FE FE B 505 1555 1555 1.96 LINK FE FE B 505 O HOH B 891 1555 1555 2.34 CISPEP 1 GLN A 81 PRO A 82 0 1.55 CISPEP 2 TYR B 316 PRO B 317 0 9.31 CRYST1 135.613 135.613 135.613 90.00 90.00 90.00 P 2 3 12 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 0.007374 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007374 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007374 0.00000