HEADER ELECTRON TRANSPORT PROTEIN 09-JUL-01 1JJU TITLE STRUCTURE OF A QUINOHEMOPROTEIN AMINE DEHYDROGENASE WITH A TITLE 2 UNIQUE REDOX COFACTOR AND HIGHLY UNUSUAL CROSSLINKING COMPND MOL_ID: 1; COMPND 2 MOLECULE: QUINOHEMOPROTEIN AMINE DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: QUINOHEMOPROTEIN AMINE DEHYDROGENASE; COMPND 6 CHAIN: B; COMPND 7 MOL_ID: 3; COMPND 8 MOLECULE: QUINOHEMOPROTEIN AMINE DEHYDROGENASE; COMPND 9 CHAIN: C SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARACOCCUS DENITRIFICANS; SOURCE 3 ORGANISM_TAXID: 266; SOURCE 4 STRAIN: IFO12442; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: PARACOCCUS DENITRIFICANS; SOURCE 7 ORGANISM_TAXID: 266; SOURCE 8 STRAIN: IFO12442; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: PARACOCCUS DENITRIFICANS; SOURCE 11 ORGANISM_TAXID: 266; SOURCE 12 STRAIN: IFO12442 KEYWDS QUINOHEMOPROTEIN, AMINE DEHYDROGENASE, ELECTRON TRANSPORT KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.DATTA,Y.MORI,K.TAKAGI,K.KAWAGUCHI,Z.-W.CHEN,K.KANO, AUTHOR 2 T.IKEDA,T.OKAJIMA,S.KURODA,K.TANIZAWA,F.S.MATHEWS REVDAT 3 24-FEB-09 1JJU 1 VERSN REVDAT 2 01-APR-03 1JJU 1 JRNL REVDAT 1 12-DEC-01 1JJU 0 JRNL AUTH S.DATTA,Y.MORI,K.TAKAGI,K.KAWAGUCHI,Z.W.CHEN, JRNL AUTH 2 T.OKAJIMA,S.KURODA,T.IKEDA,K.KANO,K.TANIZAWA, JRNL AUTH 3 F.S.MATHEWS JRNL TITL STRUCTURE OF A QUINOHEMOPROTEIN AMINE JRNL TITL 2 DEHYDROGENASE WITH AN UNCOMMON REDOX COFACTOR AND JRNL TITL 3 HIGHLY UNUSUAL CROSSLINKING. JRNL REF PROC.NATL.ACAD.SCI.USA V. 98 14268 2001 JRNL REFN ISSN 0027-8424 JRNL PMID 11717396 JRNL DOI 10.1073/PNAS.241429098 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.4 REMARK 3 NUMBER OF REFLECTIONS : 58964 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 5993 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 56.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3480 REMARK 3 BIN FREE R VALUE : 0.3790 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 649 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6961 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 87 REMARK 3 SOLVENT ATOMS : 650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.60 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.40 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.33 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.46 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.50 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.33 REMARK 3 BSOL : 48.64 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1JJU COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUL-01. REMARK 100 THE RCSB ID CODE IS RCSB013857. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-99 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRROR + NI FILTER REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58964 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.4 REMARK 200 DATA REDUNDANCY : 8.000 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 50.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.21700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, TERT-BUTANOL, CITRATE, PH REMARK 280 5.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 107.24450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 49.74450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.74450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 53.62225 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.74450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 49.74450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 160.86675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.74450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.74450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 53.62225 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 49.74450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.74450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 160.86675 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 107.24450 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 300 REMARK: MOLECULE IS HETEROTRIMER IN SOLUTION 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -96.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 15 CE1 HIS A 15 NE2 0.117 REMARK 500 HIS A 126 CE1 HIS A 126 NE2 0.118 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 HIS A 15 CB - CG - CD2 ANGL. DEV. = -11.0 DEGREES REMARK 500 HIS A 15 ND1 - CG - CD2 ANGL. DEV. = 11.5 DEGREES REMARK 500 HIS A 104 CB - CG - CD2 ANGL. DEV. = -11.0 DEGREES REMARK 500 HIS A 104 ND1 - CG - CD2 ANGL. DEV. = 11.1 DEGREES REMARK 500 HIS A 126 CB - CG - CD2 ANGL. DEV. = -11.2 DEGREES REMARK 500 HIS A 126 ND1 - CG - CD2 ANGL. DEV. = 11.4 DEGREES REMARK 500 GLY A 392 N - CA - C ANGL. DEV. = -15.5 DEGREES REMARK 500 GLN A 393 N - CA - C ANGL. DEV. = 25.2 DEGREES REMARK 500 GLY A 467 N - CA - C ANGL. DEV. = -24.6 DEGREES REMARK 500 GLU A 468 N - CA - C ANGL. DEV. = 24.0 DEGREES REMARK 500 PRO A 469 C - N - CA ANGL. DEV. = -9.6 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 ALA A 10 -51.28 -123.88 REMARK 500 ARG A 25 -57.99 72.91 REMARK 500 GLU A 76 -18.50 81.51 REMARK 500 CYS A 103 -60.54 -105.68 REMARK 500 ASP A 171 161.98 169.49 REMARK 500 SER A 174 151.53 -49.32 REMARK 500 ASP A 235 105.87 -163.38 REMARK 500 SER A 260 89.72 -168.57 REMARK 500 ILE A 288 134.80 -33.64 REMARK 500 THR A 328 118.85 -168.18 REMARK 500 ASN A 388 -8.73 -53.08 REMARK 500 GLN A 393 -65.24 67.01 REMARK 500 PRO A 394 9.46 47.36 REMARK 500 ASP A 399 166.77 1.16 REMARK 500 ASN A 453 47.80 -78.60 REMARK 500 GLU A 468 -36.80 77.96 REMARK 500 THR A 479 -169.13 -113.73 REMARK 500 THR B 35 142.88 178.62 REMARK 500 LEU B 84 -108.36 52.90 REMARK 500 ALA B 87 119.68 -162.10 REMARK 500 THR B 138 -71.69 -94.31 REMARK 500 ILE B 172 -65.95 -139.89 REMARK 500 GLN B 191 46.60 -162.52 REMARK 500 TYR B 259 -89.95 -173.52 REMARK 500 ALA B 299 -74.24 67.43 REMARK 500 LEU B 300 -148.98 -105.95 REMARK 500 SER B 326 -138.99 50.00 REMARK 500 TRP C 15 -61.35 -124.79 REMARK 500 ASN C 52 -68.10 -142.20 REMARK 500 PRO C 76 30.07 -53.22 REMARK 500 GLU C 77 102.33 64.33 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 A1120 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH A1121 DISTANCE = 5.26 ANGSTROMS REMARK 525 HOH B1131 DISTANCE = 5.63 ANGSTROMS REMARK 525 HOH B1157 DISTANCE = 5.26 ANGSTROMS REMARK 525 HOH B1168 DISTANCE = 5.18 ANGSTROMS REMARK 525 HOH A1284 DISTANCE = 5.47 ANGSTROMS REMARK 525 HOH A1304 DISTANCE = 5.10 ANGSTROMS REMARK 525 HOH A1314 DISTANCE = 5.13 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 HEM A 991 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 15 NE2 REMARK 620 2 MET A 43 SD 177.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 992 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 104 NE2 REMARK 620 2 HIS A 126 NE2 175.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA C 996 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TBU C 993 O REMARK 620 2 TRQ C 43 O6 77.5 REMARK 620 3 ASP C 33 OD2 146.6 78.8 REMARK 620 4 ASP C 33 OD1 129.1 129.6 56.0 REMARK 620 5 HOH B1167 O 133.7 97.9 72.8 89.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA C 996 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 991 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 992 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TBU C 993 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TBU B 994 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TBU A 995 DBREF 1JJU A 1 489 UNP Q8VUT0 Q8VUT0_PARDE 24 512 DBREF 1JJU B 1 337 UNP Q8VUS7 Q8VUS7_PARDE 22 358 DBREF 1JJU C 1 79 UNP Q8VUS8 QADG_PARDE 1 79 SEQRES 1 A 489 VAL THR GLY GLU GLU VAL LEU GLN ASN ALA CYS ALA ALA SEQRES 2 A 489 CYS HIS VAL GLN HIS GLU ASP GLY ARG TRP GLU ARG ILE SEQRES 3 A 489 ASP ALA ALA ARG LYS THR PRO GLU GLY TRP ASP MET THR SEQRES 4 A 489 VAL THR ARG MET MET ARG ASN HIS GLY VAL ALA LEU GLU SEQRES 5 A 489 PRO GLU GLU ARG ALA ALA ILE VAL ARG HIS LEU SER ASP SEQRES 6 A 489 THR ARG GLY LEU SER LEU ALA GLU THR GLU GLU ARG ARG SEQRES 7 A 489 TYR ILE LEU GLU ARG GLU PRO VAL ALA TRP ASP GLU GLY SEQRES 8 A 489 PRO ASP THR SER MET THR GLN THR CYS GLY ARG CYS HIS SEQRES 9 A 489 SER TYR ALA ARG VAL ALA LEU GLN ARG ARG THR PRO GLU SEQRES 10 A 489 ASP TRP LYS HIS LEU VAL ASN PHE HIS LEU GLY GLN PHE SEQRES 11 A 489 PRO THR LEU GLU TYR GLN ALA LEU ALA ARG ASP ARG ASP SEQRES 12 A 489 TRP TRP GLY ILE ALA GLN ALA GLU ILE ILE PRO PHE LEU SEQRES 13 A 489 ALA ARG THR TYR PRO LEU GLY GLU ALA PRO ASP ALA TYR SEQRES 14 A 489 ALA ASP ASP ALA SER GLY ALA TYR VAL LEU ALA GLY ARG SEQRES 15 A 489 GLN PRO GLY ARG GLY ASP TYR THR GLY ARG LEU VAL LEU SEQRES 16 A 489 LYS LYS ALA GLY GLU ASP TYR GLU VAL THR MET THR LEU SEQRES 17 A 489 ASP PHE ALA ASP GLY SER ARG SER PHE SER GLY THR GLY SEQRES 18 A 489 ARG ILE LEU GLY ALA GLY GLU TRP ARG ALA THR LEU SER SEQRES 19 A 489 ASP GLY THR VAL THR ILE ARG GLN ILE PHE ALA LEU GLN SEQRES 20 A 489 ASP GLY ARG PHE SER GLY ARG TRP HIS ASP ALA ASP SER SEQRES 21 A 489 ASP VAL ILE GLY GLY ARG LEU ALA ALA VAL LYS ALA ASP SEQRES 22 A 489 ALA ALA PRO GLN VAL LEU ALA VAL ALA PRO ALA ARG LEU SEQRES 23 A 489 LYS ILE GLY GLU GLU THR GLN LEU ARG VAL ALA GLY THR SEQRES 24 A 489 GLY LEU GLY SER ASP LEU THR LEU PRO GLU GLY VAL ALA SEQRES 25 A 489 GLY SER VAL GLU SER ALA GLY ASN GLY VAL THR VAL LEU SEQRES 26 A 489 LYS LEU THR ALA THR GLY THR PRO GLY PRO VAL SER LEU SEQRES 27 A 489 GLU LEU GLY GLY GLN LYS VAL ASP LEU VAL ALA TYR ASP SEQRES 28 A 489 ARG PRO ASP ARG ILE SER ILE VAL PRO ASP LEU THR ILE SEQRES 29 A 489 ALA ARG ILE GLY GLY ASN GLY GLY PRO ILE PRO LYS VAL SEQRES 30 A 489 PRO ALA GLN PHE GLU ALA MET GLY TRP LEU ASN GLY PRO SEQRES 31 A 489 ASP GLY GLN PRO GLY THR GLY ASP ASP ILE ALA LEU GLY SEQRES 32 A 489 ALA PHE PRO ALA SER TRP ALA THR ASP ASN PHE ASP GLU SEQRES 33 A 489 GLU ALA GLU LYS MET GLN ASP ALA LYS TYR ALA GLY SER SEQRES 34 A 489 ILE ASP ASP THR GLY LEU PHE THR PRO ALA GLU ALA GLY SEQRES 35 A 489 PRO ASN PRO GLU ARG PRO MET GLN THR ASN ASN ALA GLY SEQRES 36 A 489 ASN LEU LYS VAL ILE ALA THR VAL ASP ALA GLU GLY GLU SEQRES 37 A 489 PRO LEU SER ALA GLU ALA HIS LEU TYR ALA THR VAL GLN SEQRES 38 A 489 ARG PHE VAL ASP ALA PRO ILE ARG SEQRES 1 B 337 ARG ASP TYR ILE LEU ALA PRO ALA ARG PRO ASP LYS LEU SEQRES 2 B 337 VAL VAL ILE ASP THR GLU LYS MET ALA VAL ASP LYS VAL SEQRES 3 B 337 ILE THR ILE ALA ASP ALA GLY PRO THR PRO MET VAL PRO SEQRES 4 B 337 MET VAL ALA PRO GLY GLY ARG ILE ALA TYR ALA THR VAL SEQRES 5 B 337 ASN LYS SER GLU SER LEU VAL LYS ILE ASP LEU VAL THR SEQRES 6 B 337 GLY GLU THR LEU GLY ARG ILE ASP LEU SER THR PRO GLU SEQRES 7 B 337 GLU ARG VAL LYS SER LEU PHE GLY ALA ALA LEU SER PRO SEQRES 8 B 337 ASP GLY LYS THR LEU ALA ILE TYR GLU SER PRO VAL ARG SEQRES 9 B 337 LEU GLU LEU THR HIS PHE GLU VAL GLN PRO THR ARG VAL SEQRES 10 B 337 ALA LEU TYR ASP ALA GLU THR LEU SER ARG ARG LYS ALA SEQRES 11 B 337 PHE GLU ALA PRO ARG GLN ILE THR MET LEU ALA TRP ALA SEQRES 12 B 337 ARG ASP GLY SER LYS LEU TYR GLY LEU GLY ARG ASP LEU SEQRES 13 B 337 HIS VAL MET ASP PRO GLU ALA GLY THR LEU VAL GLU ASP SEQRES 14 B 337 LYS PRO ILE GLN SER TRP GLU ALA GLU THR TYR ALA GLN SEQRES 15 B 337 PRO ASP VAL LEU ALA VAL TRP ASN GLN HIS GLU SER SER SEQRES 16 B 337 GLY VAL MET ALA THR PRO PHE TYR THR ALA ARG LYS ASP SEQRES 17 B 337 ILE ASP PRO ALA ASP PRO THR ALA TYR ARG THR GLY LEU SEQRES 18 B 337 LEU THR MET ASP LEU GLU THR GLY GLU MET ALA MET ARG SEQRES 19 B 337 GLU VAL ARG ILE MET ASP VAL PHE TYR PHE SER THR ALA SEQRES 20 B 337 VAL ASN PRO ALA LYS THR ARG ALA PHE GLY ALA TYR ASN SEQRES 21 B 337 VAL LEU GLU SER PHE ASP LEU GLU LYS ASN ALA SER ILE SEQRES 22 B 337 LYS ARG VAL PRO LEU PRO HIS SER TYR TYR SER VAL ASN SEQRES 23 B 337 VAL SER THR ASP GLY SER THR VAL TRP LEU GLY GLY ALA SEQRES 24 B 337 LEU GLY ASP LEU ALA ALA TYR ASP ALA GLU THR LEU GLU SEQRES 25 B 337 LYS LYS GLY GLN VAL ASP LEU PRO GLY ASN ALA SER MET SEQRES 26 B 337 SER LEU ALA SER VAL ARG LEU PHE THR ARG ASP GLU SEQRES 1 C 79 MET ASN ALA LEU VAL GLY CYS THR THR SER PHE ASP PRO SEQRES 2 C 79 GLY TRP GLU VAL ASP ALA PHE GLY ALA VAL SER ASN LEU SEQRES 3 C 79 CYS GLN PRO MET GLU ALA ASP LEU TYR GLY CYS ALA ASP SEQRES 4 C 79 PRO CYS TRP TRQ PRO ALA GLN VAL ALA ASP THR LEU ASN SEQRES 5 C 79 THR TYR PRO ASN TRP SER ALA GLY ALA ASP ASP VAL MET SEQRES 6 C 79 GLN ASP TRP ARG LYS LEU GLN SER VAL PHE PRO GLU THR SEQRES 7 C 79 LYS MODRES 1JJU TRQ C 43 TRP HET TRQ C 43 16 HET NA C 996 1 HET HEM A 991 43 HET HEM A 992 43 HET TBU C 993 5 HET TBU B 994 5 HET TBU A 995 5 HETNAM TRQ 2-AMINO-3-(6,7-DIOXO-6,7-DIHYDRO-1H-INDOL-3-YL)- HETNAM 2 TRQ PROPIONIC ACID HETNAM NA SODIUM ION HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM TBU TERTIARY-BUTYL ALCOHOL HETSYN HEM HEME HETSYN TBU 2-METHYL-2-PROPANOL FORMUL 3 TRQ C11 H10 N2 O4 FORMUL 4 NA NA 1+ FORMUL 5 HEM 2(C34 H32 FE N4 O4) FORMUL 7 TBU 3(C4 H10 O) FORMUL 10 HOH *635(H2 O) HELIX 1 1 GLY A 3 ALA A 10 1 8 HELIX 2 2 CYS A 11 ALA A 13 5 3 HELIX 3 3 PRO A 33 HIS A 47 1 15 HELIX 4 4 PRO A 53 ARG A 67 1 15 HELIX 5 5 LEU A 71 THR A 74 5 4 HELIX 6 6 ARG A 78 ILE A 80 5 3 HELIX 7 7 THR A 94 GLY A 101 1 8 HELIX 8 8 TYR A 106 LEU A 111 1 6 HELIX 9 9 PRO A 116 GLN A 129 1 14 HELIX 10 10 LEU A 133 TYR A 135 5 3 HELIX 11 11 TRP A 144 THR A 159 1 16 HELIX 12 12 GLU A 416 MET A 421 1 6 HELIX 13 13 ASP A 423 LYS A 425 5 3 HELIX 14 14 PRO A 448 GLN A 450 5 3 HELIX 15 15 THR B 18 LYS B 20 5 3 HELIX 16 16 PRO B 320 ASN B 322 5 3 HELIX 17 17 MET C 30 ALA C 32 5 3 HELIX 18 18 ASP C 33 ASP C 39 1 7 HELIX 19 19 TRP C 68 LYS C 70 5 3 SHEET 1 A 2 ALA A 29 LYS A 31 0 SHEET 2 A 2 GLN A 112 ARG A 114 -1 O ARG A 113 N ARG A 30 SHEET 1 B 9 GLY A 175 GLN A 183 0 SHEET 2 B 9 GLY A 187 ALA A 198 -1 N GLY A 187 O GLN A 183 SHEET 3 B 9 ASP A 201 PHE A 210 -1 O ASP A 201 N ALA A 198 SHEET 4 B 9 GLY A 213 LEU A 224 -1 O GLY A 213 N PHE A 210 SHEET 5 B 9 GLU A 228 ASP A 235 -1 O GLU A 228 N LEU A 224 SHEET 6 B 9 VAL A 238 GLN A 247 -1 O VAL A 238 N ASP A 235 SHEET 7 B 9 ARG A 250 ASP A 257 -1 O ARG A 250 N GLN A 247 SHEET 8 B 9 GLY A 264 LYS A 271 -1 N GLY A 265 O TRP A 255 SHEET 9 B 9 GLY A 175 GLN A 183 -1 N VAL A 178 O VAL A 270 SHEET 1 C 4 GLN A 277 LYS A 287 0 SHEET 2 C 4 THR A 292 THR A 299 -1 N ARG A 295 O ALA A 282 SHEET 3 C 4 VAL A 322 ALA A 329 -1 N THR A 323 O VAL A 296 SHEET 4 C 4 VAL A 311 SER A 317 -1 N ALA A 312 O THR A 328 SHEET 1 D 4 ARG A 285 LYS A 287 0 SHEET 2 D 4 GLN A 343 TYR A 350 1 O VAL A 348 N LEU A 286 SHEET 3 D 4 GLY A 334 LEU A 340 -1 O GLY A 334 N ALA A 349 SHEET 4 D 4 LEU A 305 THR A 306 -1 N THR A 306 O GLU A 339 SHEET 1 E 3 ARG A 355 VAL A 359 0 SHEET 2 E 3 GLU A 382 LEU A 387 -1 O GLU A 382 N VAL A 359 SHEET 3 E 3 ILE A 400 PHE A 405 -1 N ILE A 400 O LEU A 387 SHEET 1 F 4 LEU A 362 ARG A 366 0 SHEET 2 F 4 SER A 471 THR A 479 1 O HIS A 475 N THR A 363 SHEET 3 F 4 GLY A 455 VAL A 463 -1 N GLY A 455 O ALA A 478 SHEET 4 F 4 ALA A 407 ASN A 413 -1 N SER A 408 O THR A 462 SHEET 1 G 3 ALA A 379 GLN A 380 0 SHEET 2 G 3 LEU A 435 PRO A 438 -1 N PHE A 436 O ALA A 379 SHEET 3 G 3 GLY A 428 ASP A 431 -1 O SER A 429 N THR A 437 SHEET 1 H 4 ALA B 22 THR B 28 0 SHEET 2 H 4 LYS B 12 ASP B 17 -1 O LEU B 13 N ILE B 27 SHEET 3 H 4 ASP B 2 ALA B 8 -1 O ILE B 4 N ILE B 16 SHEET 4 H 4 ARG B 331 THR B 334 -1 O ARG B 331 N LEU B 5 SHEET 1 I 4 VAL B 38 VAL B 41 0 SHEET 2 I 4 ILE B 47 VAL B 52 -1 O TYR B 49 N MET B 40 SHEET 3 I 4 SER B 57 ASP B 62 -1 N SER B 57 O VAL B 52 SHEET 4 I 4 THR B 68 ASP B 73 -1 N LEU B 69 O LYS B 60 SHEET 1 J 8 GLU B 79 LYS B 82 0 SHEET 2 J 8 THR B 95 GLU B 106 -1 N SER B 101 O LYS B 82 SHEET 3 J 8 HIS B 109 VAL B 112 -1 O HIS B 109 N GLU B 106 SHEET 4 J 8 THR B 95 GLU B 106 -1 N ARG B 104 O GLU B 111 SHEET 5 J 8 ALA B 87 LEU B 89 -1 O ALA B 88 N ALA B 97 SHEET 6 J 8 THR B 95 GLU B 106 -1 N ALA B 97 O ALA B 88 SHEET 7 J 8 ARG B 116 ASP B 121 -1 O ARG B 116 N GLU B 100 SHEET 8 J 8 SER B 126 GLU B 132 -1 O SER B 126 N ASP B 121 SHEET 1 K 4 MET B 139 TRP B 142 0 SHEET 2 K 4 LEU B 149 LEU B 152 -1 N TYR B 150 O ALA B 141 SHEET 3 K 4 LEU B 156 ASP B 160 -1 N HIS B 157 O GLY B 151 SHEET 4 K 4 THR B 165 LYS B 170 -1 O THR B 165 N ASP B 160 SHEET 1 L 3 VAL B 197 ARG B 206 0 SHEET 2 L 3 TYR B 217 ASP B 225 -1 N ARG B 218 O THR B 204 SHEET 3 L 3 GLU B 230 ILE B 238 -1 N ALA B 232 O THR B 223 SHEET 1 M 4 TYR B 243 VAL B 248 0 SHEET 2 M 4 ARG B 254 TYR B 259 -1 N PHE B 256 O ALA B 247 SHEET 3 M 4 VAL B 261 ASP B 266 -1 O GLU B 263 N GLY B 257 SHEET 4 M 4 ALA B 271 PRO B 277 -1 O ALA B 271 N ASP B 266 SHEET 1 N 4 SER B 284 VAL B 287 0 SHEET 2 N 4 THR B 293 GLY B 297 -1 N TRP B 295 O ASN B 286 SHEET 3 N 4 ASP B 302 ASP B 307 -1 O ALA B 304 N LEU B 296 SHEET 4 N 4 LYS B 313 ASP B 318 -1 N LYS B 314 O ALA B 305 LINK SG CYS C 37 CE3 TRQ C 43 1555 1555 1.81 LINK SG CYS C 7 CG GLU C 16 1555 1555 1.82 LINK SG CYS C 41 CB ASP C 49 1555 1555 1.81 LINK SG CYS C 27 CB ASP C 33 1555 1555 1.81 LINK CAB HEM A 991 SG CYS A 11 1555 1555 1.80 LINK CAC HEM A 991 SG CYS A 14 1555 1555 1.86 LINK FE HEM A 991 NE2 HIS A 15 1555 1555 2.07 LINK FE HEM A 991 SD MET A 43 1555 1555 2.38 LINK CAB HEM A 992 SG CYS A 100 1555 1555 1.79 LINK CAC HEM A 992 SG CYS A 103 1555 1555 1.83 LINK FE HEM A 992 NE2 HIS A 104 1555 1555 2.09 LINK FE HEM A 992 NE2 HIS A 126 1555 1555 2.04 LINK C TRP C 42 N TRQ C 43 1555 1555 1.33 LINK C TRQ C 43 N PRO C 44 1555 1555 1.34 LINK NA NA C 996 O TBU C 993 1555 1555 2.39 LINK NA NA C 996 O6 TRQ C 43 1555 1555 2.45 LINK NA NA C 996 OD2 ASP C 33 1555 1555 2.50 LINK NA NA C 996 OD1 ASP C 33 1555 1555 2.13 LINK NA NA C 996 O HOH B1167 1555 1555 2.67 CISPEP 1 ALA A 282 PRO A 283 0 -0.57 CISPEP 2 VAL A 359 PRO A 360 0 0.10 CISPEP 3 ARG B 9 PRO B 10 0 0.30 CISPEP 4 GLY B 33 PRO B 34 0 0.19 CISPEP 5 ASP C 12 PRO C 13 0 0.02 CISPEP 6 GLN C 28 PRO C 29 0 -0.34 SITE 1 AC1 6 PHE B 244 HOH B1167 ASP C 12 ASP C 33 SITE 2 AC1 6 TRQ C 43 TBU C 993 SITE 1 AC2 19 ALA A 10 CYS A 11 CYS A 14 HIS A 15 SITE 2 AC2 19 ARG A 25 ILE A 26 THR A 39 ARG A 42 SITE 3 AC2 19 MET A 43 HIS A 47 VAL A 49 ARG A 114 SITE 4 AC2 19 PHE A 125 HEM A 992 HOH A1139 HOH A1267 SITE 5 AC2 19 LEU B 107 THR B 108 HIS B 109 SITE 1 AC3 24 LYS A 31 THR A 39 ARG A 42 ARG A 45 SITE 2 AC3 24 THR A 99 CYS A 100 ARG A 102 CYS A 103 SITE 3 AC3 24 HIS A 104 ARG A 108 VAL A 109 GLN A 112 SITE 4 AC3 24 ARG A 114 LEU A 122 HIS A 126 PHE A 130 SITE 5 AC3 24 GLN A 136 LEU A 156 HEM A 991 HOH A 996 SITE 6 AC3 24 HOH A1001 HOH A1007 HOH A1008 HOH A1059 SITE 1 AC4 6 PHE B 244 ASP C 12 GLY C 36 TRP C 42 SITE 2 AC4 6 TRQ C 43 NA C 996 SITE 1 AC5 1 GLU B 132 SITE 1 AC6 4 ASP A 257 ILE A 263 HOH A1119 ARG B 128 CRYST1 99.489 99.489 214.489 90.00 90.00 90.00 P 41 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010051 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010051 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004662 0.00000