HEADER METAL TRANSPORT 25-JAN-11 3QHB TITLE CRYSTAL STRUCTURE OF OXIDIZED SYMERYTHRIN FROM CYANOPHORA PARADOXA COMPND MOL_ID: 1; COMPND 2 MOLECULE: SYMERYTHRIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ORF180; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CYANOPHORA PARADOXA; SOURCE 3 ORGANISM_TAXID: 2762; SOURCE 4 CELLULAR_LOCATION: PLASTID; CYANELLE; SOURCE 5 GENE: ORF180; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PT7-7 KEYWDS FOUR-HELIX BUNDLE, CARBOXYLATE BRIDGED-DIIRON, FERRITIN-LIKE KEYWDS 2 SUPERFAMILY, METAL TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR R.B.COOLEY,D.J.ARP,P.A.KARPLUS REVDAT 3 13-SEP-23 3QHB 1 REMARK LINK REVDAT 2 01-JUN-11 3QHB 1 JRNL REVDAT 1 25-MAY-11 3QHB 0 JRNL AUTH R.B.COOLEY,T.W.RHOADS,D.J.ARP,P.A.KARPLUS JRNL TITL A DIIRON PROTEIN AUTOGENERATES A VALINE-PHENYLALANINE JRNL TITL 2 CROSS-LINK. JRNL REF SCIENCE V. 332 929 2011 JRNL REFN ISSN 0036-8075 JRNL PMID 21596985 JRNL DOI 10.1126/SCIENCE.1205687 REMARK 2 REMARK 2 RESOLUTION. 1.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 102004 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 + TEST SET) : 0.102 REMARK 3 R VALUE (WORKING SET) : 0.101 REMARK 3 FREE R VALUE : 0.125 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5397 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.23 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7503 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.12 REMARK 3 BIN R VALUE (WORKING SET) : 0.1280 REMARK 3 BIN FREE R VALUE SET COUNT : 388 REMARK 3 BIN FREE R VALUE : 0.1660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2756 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 555 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.08000 REMARK 3 B12 (A**2) : 0.03000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.028 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.028 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.015 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.705 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.984 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.978 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3053 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2017 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4178 ; 3.625 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4966 ; 3.014 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 420 ; 5.304 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 152 ;41.679 ;25.132 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 540 ;13.698 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;18.676 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 468 ; 0.272 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3577 ; 0.021 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 623 ; 0.012 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1921 ; 4.199 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 769 ; 2.005 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3106 ; 5.520 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1132 ; 8.787 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1051 ;11.749 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 5070 ; 4.412 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 559 ;22.754 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4992 ; 9.835 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3QHB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000063644. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 REMARK 200 MONOCHROMATOR : SI(220) ASYMMETRIC CUT SINGLE REMARK 200 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC Q315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.18 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 107444 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.200 REMARK 200 RESOLUTION RANGE LOW (A) : 30.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 17.80 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : 0.07900 REMARK 200 FOR THE DATA SET : 23.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.70 REMARK 200 R MERGE FOR SHELL (I) : 0.33500 REMARK 200 R SYM FOR SHELL (I) : 0.33500 REMARK 200 FOR SHELL : 6.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 1RYT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, NH4CL, BISTRIS, PH 5.5, REMARK 280 HANGING DROP, TEMPERATURE 279K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.85133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 15.42567 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 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 GLU A 8 CG CD OE1 OE2 REMARK 470 GLU A 150 CD OE1 OE2 REMARK 470 GLU A 178 CG CD OE1 OE2 REMARK 470 GLU B 8 CG CD OE1 OE2 REMARK 470 LYS B 88 CG CD CE NZ REMARK 470 GLU B 150 CD OE1 OE2 REMARK 470 GLU B 178 CG 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 A 250 O HOH A 329 1.78 REMARK 500 O HOH B 278 O HOH B 343 1.80 REMARK 500 O HOH A 193 O HOH A 417 1.85 REMARK 500 O HOH A 326 O HOH A 351 2.01 REMARK 500 O HOH A 217 O HOH A 417 2.04 REMARK 500 O HOH B 346 O HOH B 475 2.05 REMARK 500 CD LYS B 160 O HOH B 386 2.06 REMARK 500 CE1 PHE B 16 CG2 VAL B 100 2.13 REMARK 500 O HOH B 534 O HOH B 539 2.15 REMARK 500 CE2 PHE A 16 CG2 VAL A 100 2.16 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 265 O HOH B 445 2665 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 3 CB - CG - CD2 ANGL. DEV. = 19.7 DEGREES REMARK 500 ASN A 4 O - C - N ANGL. DEV. = -17.0 DEGREES REMARK 500 TYR A 5 CB - CA - C ANGL. DEV. = 12.4 DEGREES REMARK 500 TYR A 5 CB - CG - CD1 ANGL. DEV. = 3.7 DEGREES REMARK 500 TYR A 5 CD1 - CE1 - CZ ANGL. DEV. = 8.1 DEGREES REMARK 500 TYR A 5 CA - C - O ANGL. DEV. = -14.8 DEGREES REMARK 500 TYR A 5 O - C - N ANGL. DEV. = -13.8 DEGREES REMARK 500 MET A 11 CG - SD - CE ANGL. DEV. = -25.9 DEGREES REMARK 500 MET A 11 CG - SD - CE ANGL. DEV. = -17.2 DEGREES REMARK 500 ASP A 14 CB - CG - OD2 ANGL. DEV. = 9.0 DEGREES REMARK 500 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A 27 OD1 - CG - OD2 ANGL. DEV. = -11.9 DEGREES REMARK 500 ASP A 27 CB - CG - OD2 ANGL. DEV. = 9.4 DEGREES REMARK 500 CYS A 43 CA - CB - SG ANGL. DEV. = 9.2 DEGREES REMARK 500 TYR A 45 CB - CG - CD2 ANGL. DEV. = 4.6 DEGREES REMARK 500 PHE A 48 CB - CG - CD1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 53 CD - NE - CZ ANGL. DEV. = 31.7 DEGREES REMARK 500 ARG A 53 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 53 NE - CZ - NH1 ANGL. DEV. = -17.7 DEGREES REMARK 500 ARG A 53 NE - CZ - NH2 ANGL. DEV. = 18.0 DEGREES REMARK 500 ARG A 54 CD - NE - CZ ANGL. DEV. = 12.2 DEGREES REMARK 500 ARG A 54 NE - CZ - NH1 ANGL. DEV. = 8.6 DEGREES REMARK 500 ARG A 54 NE - CZ - NH2 ANGL. DEV. = -4.6 DEGREES REMARK 500 LYS A 69 CD - CE - NZ ANGL. DEV. = -19.0 DEGREES REMARK 500 LYS A 80 CD - CE - NZ ANGL. DEV. = 20.1 DEGREES REMARK 500 TYR A 82 CB - CG - CD2 ANGL. DEV. = -4.9 DEGREES REMARK 500 TYR A 82 CG - CD2 - CE2 ANGL. DEV. = -7.8 DEGREES REMARK 500 LEU A 85 CB - CG - CD2 ANGL. DEV. = 13.9 DEGREES REMARK 500 GLU A 86 CA - CB - CG ANGL. DEV. = 14.3 DEGREES REMARK 500 GLU A 86 CG - CD - OE2 ANGL. DEV. = -14.2 DEGREES REMARK 500 ASP A 89 CB - CG - OD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 ARG A 98 NE - CZ - NH1 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG A 98 NE - CZ - NH2 ANGL. DEV. = 5.2 DEGREES REMARK 500 VAL A 100 CB - CA - C ANGL. DEV. = 13.1 DEGREES REMARK 500 VAL A 100 CA - CB - CG1 ANGL. DEV. = -14.3 DEGREES REMARK 500 VAL A 100 CA - CB - CG2 ANGL. DEV. = 11.3 DEGREES REMARK 500 GLU A 104 OE1 - CD - OE2 ANGL. DEV. = 15.9 DEGREES REMARK 500 GLU A 104 CG - CD - OE1 ANGL. DEV. = -14.2 DEGREES REMARK 500 ASP A 108 CB - CG - OD1 ANGL. DEV. = 13.4 DEGREES REMARK 500 ASP A 108 CB - CG - OD2 ANGL. DEV. = -16.7 DEGREES REMARK 500 ARG A 119 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 TYR A 136 CB - CG - CD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 TYR A 136 CB - CG - CD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 TYR A 136 CG - CD1 - CE1 ANGL. DEV. = 6.5 DEGREES REMARK 500 GLU A 145 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ASN A 175 CB - CG - OD1 ANGL. DEV. = 14.1 DEGREES REMARK 500 ASN A 175 O - C - N ANGL. DEV. = -10.6 DEGREES REMARK 500 LEU A 177 O - C - N ANGL. DEV. = -14.9 DEGREES REMARK 500 GLU A 178 CB - CA - C ANGL. DEV. = 14.4 DEGREES REMARK 500 GLU A 178 O - C - N ANGL. DEV. = -11.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 111 ANGLE DEVIATIONS. 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 4 -12.76 95.53 REMARK 500 ASN A 4 43.48 95.53 REMARK 500 TYR A 5 -151.13 145.10 REMARK 500 PHE A 10 125.47 -39.94 REMARK 500 MET A 11 15.92 58.41 REMARK 500 CYS A 43 -59.77 -126.65 REMARK 500 CYS A 43 -64.64 -124.88 REMARK 500 LYS A 134 -68.40 -125.78 REMARK 500 ASN B 4 -9.74 95.65 REMARK 500 ASN B 4 40.95 95.65 REMARK 500 TYR B 5 -148.21 150.57 REMARK 500 CYS B 43 -51.14 -130.62 REMARK 500 CYS B 43 -68.98 -123.56 REMARK 500 LYS B 134 -67.71 -125.79 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 GLU A 92 0.07 SIDE CHAIN REMARK 500 GLU A 145 0.11 SIDE CHAIN REMARK 500 GLU B 95 0.07 SIDE CHAIN REMARK 500 TYR B 136 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASN A 4 -23.62 REMARK 500 TYR A 5 -33.69 REMARK 500 LEU A 177 -25.95 REMARK 500 ASN B 4 -23.20 REMARK 500 TYR B 5 -27.33 REMARK 500 LEU B 177 -25.62 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 FE A 181 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 37 OE2 REMARK 620 2 GLU A 40 OE1 86.6 REMARK 620 3 GLU A 40 OE1 87.8 7.5 REMARK 620 4 GLU A 71 OE1 95.6 92.5 84.9 REMARK 620 5 GLU A 131 OE2 85.7 85.0 92.5 177.1 REMARK 620 6 GLU A 162 OE1 93.4 168.7 176.0 98.8 83.7 REMARK 620 7 HOH A 190 O 175.8 91.4 90.7 88.1 90.5 87.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 182 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 71 OE2 REMARK 620 2 GLU A 128 OE2 103.4 REMARK 620 3 GLU A 128 OE1 161.6 59.3 REMARK 620 4 GLU A 162 OE2 109.1 147.4 88.0 REMARK 620 5 HIS A 165 ND1 88.2 96.1 99.5 88.0 REMARK 620 6 HOH A 190 O 85.8 85.1 86.2 94.1 174.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 181 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 37 OE2 REMARK 620 2 GLU B 40 OE1 85.9 REMARK 620 3 GLU B 40 OE1 91.0 7.2 REMARK 620 4 GLU B 71 OE1 95.7 90.8 85.3 REMARK 620 5 GLU B 131 OE2 85.6 87.3 92.7 177.6 REMARK 620 6 GLU B 162 OE1 92.3 169.8 173.9 99.4 82.5 REMARK 620 7 HOH B 192 O 176.1 92.8 87.9 88.0 90.7 88.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 182 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 71 OE2 REMARK 620 2 GLU B 128 OE2 103.2 REMARK 620 3 GLU B 128 OE1 161.2 59.4 REMARK 620 4 GLU B 162 OE2 109.2 147.4 88.1 REMARK 620 5 HIS B 165 ND1 88.2 95.9 100.2 87.6 REMARK 620 6 HOH B 192 O 85.0 85.4 86.2 94.9 173.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 181 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 181 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QHC RELATED DB: PDB DBREF 3QHB A 2 180 UNP P48329 YCX8_CYAPA 2 180 DBREF 3QHB B 2 180 UNP P48329 YCX8_CYAPA 2 180 SEQRES 1 A 179 GLY LEU ASN TYR ASN GLN GLU ASP PHE MET GLY LEU ASP SEQRES 2 A 179 ARG PHE PHE GLN ASP ALA VAL SER HIS ASN ASN THR ASP SEQRES 3 A 179 ALA ASN ALA ALA SER SER ILE GLU VAL GLU MET TYR GLU SEQRES 4 A 179 CYS ASP CYS MET TYR PRO THR PHE ALA GLU ILE ALA ARG SEQRES 5 A 179 ARG SER GLY GLN PRO GLU ILE GLY ALA MET PHE ASP ALA SEQRES 6 A 179 ILE ALA LYS GLU GLU GLY MET HIS ALA GLN LEU LEU THR SEQRES 7 A 179 LYS LEU TYR SER GLU LEU GLU VAL LYS ASP SER ALA GLU SEQRES 8 A 179 THR LEU GLU ALA LYS ARG LEU VAL SER THR ILE GLU SER SEQRES 9 A 179 GLN ILE ASP ALA VAL ALA SER ASP SER ARG GLY LEU ARG SEQRES 10 A 179 ARG ALA LEU GLU THR ALA LEU GLU VAL GLU THR ILE GLU SEQRES 11 A 179 SER GLN LYS THR TYR PRO ALA PHE ALA LYS LEU ALA ALA SEQRES 12 A 179 GLU GLN GLY ASN MET GLU VAL ALA THR ALA PHE GLU ALA SEQRES 13 A 179 ILE VAL LYS SER GLU THR LYS HIS ALA ASN TRP VAL LYS SEQRES 14 A 179 ARG ALA LEU GLU ASN LEU LEU GLU VAL ALA SEQRES 1 B 179 GLY LEU ASN TYR ASN GLN GLU ASP PHE MET GLY LEU ASP SEQRES 2 B 179 ARG PHE PHE GLN ASP ALA VAL SER HIS ASN ASN THR ASP SEQRES 3 B 179 ALA ASN ALA ALA SER SER ILE GLU VAL GLU MET TYR GLU SEQRES 4 B 179 CYS ASP CYS MET TYR PRO THR PHE ALA GLU ILE ALA ARG SEQRES 5 B 179 ARG SER GLY GLN PRO GLU ILE GLY ALA MET PHE ASP ALA SEQRES 6 B 179 ILE ALA LYS GLU GLU GLY MET HIS ALA GLN LEU LEU THR SEQRES 7 B 179 LYS LEU TYR SER GLU LEU GLU VAL LYS ASP SER ALA GLU SEQRES 8 B 179 THR LEU GLU ALA LYS ARG LEU VAL SER THR ILE GLU SER SEQRES 9 B 179 GLN ILE ASP ALA VAL ALA SER ASP SER ARG GLY LEU ARG SEQRES 10 B 179 ARG ALA LEU GLU THR ALA LEU GLU VAL GLU THR ILE GLU SEQRES 11 B 179 SER GLN LYS THR TYR PRO ALA PHE ALA LYS LEU ALA ALA SEQRES 12 B 179 GLU GLN GLY ASN MET GLU VAL ALA THR ALA PHE GLU ALA SEQRES 13 B 179 ILE VAL LYS SER GLU THR LYS HIS ALA ASN TRP VAL LYS SEQRES 14 B 179 ARG ALA LEU GLU ASN LEU LEU GLU VAL ALA HET FE A 182 1 HET FE A 181 1 HET FE B 182 1 HET FE B 181 1 HETNAM FE FE (III) ION FORMUL 3 FE 4(FE 3+) FORMUL 7 HOH *555(H2 O) HELIX 1 1 ASP A 9 PHE A 17 5 9 HELIX 2 2 ASN A 25 CYS A 43 1 19 HELIX 3 3 CYS A 43 SER A 55 1 13 HELIX 4 4 GLN A 57 TYR A 82 1 26 HELIX 5 5 SER A 90 GLN A 106 1 17 HELIX 6 6 GLN A 106 ASP A 113 1 8 HELIX 7 7 SER A 114 LYS A 134 1 21 HELIX 8 8 LYS A 134 GLN A 146 1 13 HELIX 9 9 ASN A 148 GLU A 178 1 31 HELIX 10 10 ASP B 9 PHE B 17 5 9 HELIX 11 11 ASN B 25 CYS B 43 1 19 HELIX 12 12 CYS B 43 SER B 55 1 13 HELIX 13 13 GLN B 57 TYR B 82 1 26 HELIX 14 14 SER B 90 GLN B 106 1 17 HELIX 15 15 GLN B 106 ASP B 113 1 8 HELIX 16 16 SER B 114 LYS B 134 1 21 HELIX 17 17 LYS B 134 GLN B 146 1 13 HELIX 18 18 ASN B 148 GLU B 178 1 31 LINK CD1 PHE A 17 CG1 VAL A 127 1555 1555 1.55 LINK CD1 PHE B 17 CG1 VAL B 127 1555 1555 1.55 LINK OE2 GLU A 37 FE FE A 181 1555 1555 2.01 LINK OE1BGLU A 40 FE FE A 181 1555 1555 1.92 LINK OE1AGLU A 40 FE FE A 181 1555 1555 2.25 LINK OE1 GLU A 71 FE FE A 181 1555 1555 2.10 LINK OE2 GLU A 71 FE FE A 182 1555 1555 2.02 LINK OE2 GLU A 128 FE FE A 182 1555 1555 2.19 LINK OE1 GLU A 128 FE FE A 182 1555 1555 2.22 LINK OE2 GLU A 131 FE FE A 181 1555 1555 2.09 LINK OE1 GLU A 162 FE FE A 181 1555 1555 2.10 LINK OE2 GLU A 162 FE FE A 182 1555 1555 2.05 LINK ND1 HIS A 165 FE FE A 182 1555 1555 2.21 LINK FE FE A 181 O HOH A 190 1555 1555 2.07 LINK FE FE A 182 O HOH A 190 1555 1555 2.16 LINK OE2 GLU B 37 FE FE B 181 1555 1555 2.02 LINK OE1BGLU B 40 FE FE B 181 1555 1555 1.98 LINK OE1AGLU B 40 FE FE B 181 1555 1555 2.23 LINK OE1 GLU B 71 FE FE B 181 1555 1555 2.11 LINK OE2 GLU B 71 FE FE B 182 1555 1555 2.03 LINK OE2 GLU B 128 FE FE B 182 1555 1555 2.21 LINK OE1 GLU B 128 FE FE B 182 1555 1555 2.22 LINK OE2 GLU B 131 FE FE B 181 1555 1555 2.11 LINK OE1 GLU B 162 FE FE B 181 1555 1555 2.11 LINK OE2 GLU B 162 FE FE B 182 1555 1555 2.03 LINK ND1 HIS B 165 FE FE B 182 1555 1555 2.18 LINK FE FE B 181 O HOH B 192 1555 1555 2.06 LINK FE FE B 182 O HOH B 192 1555 1555 2.17 SITE 1 AC1 6 GLU A 71 GLU A 128 GLU A 162 HIS A 165 SITE 2 AC1 6 FE A 181 HOH A 190 SITE 1 AC2 7 GLU A 37 GLU A 40 GLU A 71 GLU A 131 SITE 2 AC2 7 GLU A 162 FE A 182 HOH A 190 SITE 1 AC3 6 GLU B 71 GLU B 128 GLU B 162 HIS B 165 SITE 2 AC3 6 FE B 181 HOH B 192 SITE 1 AC4 7 GLU B 37 GLU B 40 GLU B 71 GLU B 131 SITE 2 AC4 7 GLU B 162 FE B 182 HOH B 192 CRYST1 81.593 81.593 46.277 90.00 90.00 120.00 P 32 6 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 0.012256 0.007076 0.000000 0.00000 SCALE2 0.000000 0.014152 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021609 0.00000