HEADER ELECTRON TRANSPORT 15-NOV-10 3PLY TITLE STRUCTURE OF OXIDIZED P96G MUTANT OF AMICYANIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMICYANIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 27-131; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARACOCCUS DENITRIFICANS; SOURCE 3 ORGANISM_TAXID: 266; SOURCE 4 GENE: AMI, MAUC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMEG KEYWDS TYPE-I BLUE COPPER PROTEIN; BETA SANDWICH, ELECTRON TRANSPORT, METAL- KEYWDS 2 BINDING EXPDTA X-RAY DIFFRACTION AUTHOR N.SUKUMAR,V.L.DAVIDSON REVDAT 3 06-SEP-23 3PLY 1 REMARK SEQADV LINK REVDAT 2 02-MAR-11 3PLY 1 JRNL REVDAT 1 09-FEB-11 3PLY 0 JRNL AUTH M.CHOI,N.SUKUMAR,F.S.MATHEWS,A.LIU,V.L.DAVIDSON JRNL TITL PROLINE 96 OF THE COPPER LIGAND LOOP OF AMICYANIN REGULATES JRNL TITL 2 ELECTRON TRANSFER FROM METHYLAMINE DEHYDROGENASE BY JRNL TITL 3 POSITIONING OTHER RESIDUES AT THE PROTEIN-PROTEIN INTERFACE. JRNL REF BIOCHEMISTRY V. 50 1265 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21268585 JRNL DOI 10.1021/BI101794Y REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 28971 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.291 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.460 REMARK 3 FREE R VALUE TEST SET COUNT : 1871 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE 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 : 0.83 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 67.43 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.51600 REMARK 3 B22 (A**2) : 1.51600 REMARK 3 B33 (A**2) : -3.03200 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.008 3311 REMARK 3 ANGLE : 1.128 4499 REMARK 3 CHIRALITY : 0.077 501 REMARK 3 PLANARITY : 0.005 578 REMARK 3 DIHEDRAL : 13.948 1189 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:105) REMARK 3 ORIGIN FOR THE GROUP (A): 51.1316 -4.6800 -11.7522 REMARK 3 T TENSOR REMARK 3 T11: 0.8520 T22: 0.2413 REMARK 3 T33: 0.1041 T12: 0.3099 REMARK 3 T13: 0.0478 T23: 0.0207 REMARK 3 L TENSOR REMARK 3 L11: 1.5509 L22: 2.2059 REMARK 3 L33: 0.0465 L12: -0.0565 REMARK 3 L13: -0.2219 L23: -0.1619 REMARK 3 S TENSOR REMARK 3 S11: -0.5226 S12: -0.5717 S13: -0.0526 REMARK 3 S21: 1.2625 S22: 0.3528 S23: -0.0546 REMARK 3 S31: 0.2350 S32: 0.2441 S33: 0.1086 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN B AND RESID 1:105) REMARK 3 ORIGIN FOR THE GROUP (A): 37.4751 11.4244 -28.8751 REMARK 3 T TENSOR REMARK 3 T11: 0.1587 T22: -0.0654 REMARK 3 T33: 0.0453 T12: 0.1926 REMARK 3 T13: 0.0937 T23: -0.0720 REMARK 3 L TENSOR REMARK 3 L11: 0.4695 L22: 0.3126 REMARK 3 L33: 3.7081 L12: -0.1110 REMARK 3 L13: 0.1387 L23: -1.0866 REMARK 3 S TENSOR REMARK 3 S11: -0.0490 S12: 0.0188 S13: 0.0787 REMARK 3 S21: 0.0084 S22: 0.2531 S23: 0.0553 REMARK 3 S31: -0.1131 S32: -0.4965 S33: -0.1094 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN C AND RESID 1:105) REMARK 3 ORIGIN FOR THE GROUP (A): 47.4704 22.8824 -6.6445 REMARK 3 T TENSOR REMARK 3 T11: 0.2414 T22: 0.2619 REMARK 3 T33: 0.1946 T12: 0.1049 REMARK 3 T13: 0.0134 T23: -0.0343 REMARK 3 L TENSOR REMARK 3 L11: 1.7672 L22: 2.9979 REMARK 3 L33: 1.6607 L12: -0.2279 REMARK 3 L13: 0.8765 L23: 1.7831 REMARK 3 S TENSOR REMARK 3 S11: 0.1054 S12: -0.2083 S13: -0.1572 REMARK 3 S21: 0.2644 S22: 0.1361 S23: -0.4501 REMARK 3 S31: 0.3350 S32: 0.1225 S33: -0.2353 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN D AND RESID 1:105) REMARK 3 ORIGIN FOR THE GROUP (A): 21.9866 0.6873 -7.7620 REMARK 3 T TENSOR REMARK 3 T11: 0.7698 T22: 0.4799 REMARK 3 T33: 0.2297 T12: -0.2374 REMARK 3 T13: 0.5775 T23: -0.2157 REMARK 3 L TENSOR REMARK 3 L11: 0.1484 L22: 0.8426 REMARK 3 L33: 1.2268 L12: -0.0791 REMARK 3 L13: -0.1249 L23: 1.0101 REMARK 3 S TENSOR REMARK 3 S11: -0.2115 S12: 0.0433 S13: -0.0916 REMARK 3 S21: 0.8607 S22: -0.5833 S23: 0.3633 REMARK 3 S31: 0.9949 S32: -0.8419 S33: 0.7294 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN 'A' REMARK 3 SELECTION : CHAIN ['B''C''D'] REMARK 3 ATOM PAIRS NUMBER : 804 REMARK 3 RMSD : 0.058 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3PLY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-NOV-10. REMARK 100 THE DEPOSITION ID IS D_1000062535. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.14 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30860 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 0.55700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: 1AAC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8M SODIUM/POTASSIUM PHOSPHATE PH REMARK 280 7.5, 40MM AMMONIUM SULFATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 73.25000 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 36.62500 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 36.62500 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 73.25000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 350 REMARK 350 BIOMOLECULE: 3 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: 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 350 REMARK 350 BIOMOLECULE: 4 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: D 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 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 ASP D 1 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 29 CD CE NZ REMARK 480 GLU A 64 CG CD OE1 OE2 REMARK 480 GLU B 15 CG CD OE1 OE2 REMARK 480 LYS B 73 CE NZ REMARK 480 ASP C 18 CB CG OD1 OD2 REMARK 480 GLU C 64 CG CD OE1 OE2 REMARK 480 LYS C 68 CD CE NZ REMARK 480 ILE D 5 CG1 CD1 REMARK 480 ILE D 21 CB CG1 CG2 CD1 REMARK 480 LYS D 27 CD CE NZ REMARK 480 LYS D 38 CB CG CD CE NZ REMARK 480 VAL D 39 CB CG1 CG2 REMARK 480 PHE D 57 CG CD1 CD2 CE1 CE2 CZ REMARK 480 GLU D 64 CB CG CD OE1 OE2 REMARK 480 PHE D 82 CG CD1 CD2 CE1 CE2 CZ REMARK 480 ARG D 99 CD NE CZ NH1 NH2 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 CYS A 92 CB CYS A 92 SG -0.112 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 C 35 CA - CB - CG ANGL. DEV. = 14.3 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 HIS A 95 73.67 -119.90 REMARK 500 ALA D 12 -85.24 -62.02 REMARK 500 ALA D 13 159.23 163.50 REMARK 500 ALA D 14 -25.44 73.57 REMARK 500 VAL D 58 159.99 -37.73 REMARK 500 GLU D 64 -80.38 -12.04 REMARK 500 LYS D 74 105.75 -47.08 REMARK 500 GLU D 75 33.60 81.21 REMARK 500 TYR D 88 74.35 -111.81 REMARK 500 ASP D 89 155.88 -47.73 REMARK 500 PHE D 97 21.56 -74.33 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 CU A 106 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 53 ND1 REMARK 620 2 CYS A 92 SG 137.6 REMARK 620 3 HIS A 95 ND1 98.9 121.5 REMARK 620 4 MET A 98 SD 80.8 104.1 97.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU B 106 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 53 ND1 REMARK 620 2 CYS B 92 SG 137.2 REMARK 620 3 HIS B 95 ND1 99.9 115.4 REMARK 620 4 MET B 98 SD 86.2 110.3 98.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU C 106 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 53 ND1 REMARK 620 2 CYS C 92 SG 127.2 REMARK 620 3 HIS C 95 ND1 106.7 107.9 REMARK 620 4 MET C 98 SD 87.9 114.3 111.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU D 106 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 53 ND1 REMARK 620 2 CYS D 92 SG 120.6 REMARK 620 3 HIS D 95 ND1 116.2 122.9 REMARK 620 4 MET D 98 SD 68.6 108.4 96.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU B 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU C 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K C 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU D 106 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AAC RELATED DB: PDB REMARK 900 NATIVE OXDIZED AMICYANIN AT 1.3A STRUCTURE REMARK 900 RELATED ID: 2OV0 RELATED DB: PDB REMARK 900 HIGH RESOLUTION (0.75A) NATIVE OXDIZED AMICYANIN STRUCTURE REMARK 900 RELATED ID: 2GB2 RELATED DB: PDB REMARK 900 P52G MUTANT OF AMICYANIN IN THE CU(II) STATE. REMARK 900 RELATED ID: 3IE9 RELATED DB: PDB REMARK 900 STRUCTURE OF OXIDIZED M98L MUTANT OF AMICYANIN DBREF 3PLY A 1 105 UNP P22364 AMCY_PARDE 27 131 DBREF 3PLY B 1 105 UNP P22364 AMCY_PARDE 27 131 DBREF 3PLY C 1 105 UNP P22364 AMCY_PARDE 27 131 DBREF 3PLY D 1 105 UNP P22364 AMCY_PARDE 27 131 SEQADV 3PLY GLY A 96 UNP P22364 PRO 122 ENGINEERED MUTATION SEQADV 3PLY GLY B 96 UNP P22364 PRO 122 ENGINEERED MUTATION SEQADV 3PLY GLY C 96 UNP P22364 PRO 122 ENGINEERED MUTATION SEQADV 3PLY GLY D 96 UNP P22364 PRO 122 ENGINEERED MUTATION SEQRES 1 A 105 ASP LYS ALA THR ILE PRO SER GLU SER PRO PHE ALA ALA SEQRES 2 A 105 ALA GLU VAL ALA ASP GLY ALA ILE VAL VAL ASP ILE ALA SEQRES 3 A 105 LYS MET LYS TYR GLU THR PRO GLU LEU HIS VAL LYS VAL SEQRES 4 A 105 GLY ASP THR VAL THR TRP ILE ASN ARG GLU ALA MET PRO SEQRES 5 A 105 HIS ASN VAL HIS PHE VAL ALA GLY VAL LEU GLY GLU ALA SEQRES 6 A 105 ALA LEU LYS GLY PRO MET MET LYS LYS GLU GLN ALA TYR SEQRES 7 A 105 SER LEU THR PHE THR GLU ALA GLY THR TYR ASP TYR HIS SEQRES 8 A 105 CYS THR PRO HIS GLY PHE MET ARG GLY LYS VAL VAL VAL SEQRES 9 A 105 GLU SEQRES 1 B 105 ASP LYS ALA THR ILE PRO SER GLU SER PRO PHE ALA ALA SEQRES 2 B 105 ALA GLU VAL ALA ASP GLY ALA ILE VAL VAL ASP ILE ALA SEQRES 3 B 105 LYS MET LYS TYR GLU THR PRO GLU LEU HIS VAL LYS VAL SEQRES 4 B 105 GLY ASP THR VAL THR TRP ILE ASN ARG GLU ALA MET PRO SEQRES 5 B 105 HIS ASN VAL HIS PHE VAL ALA GLY VAL LEU GLY GLU ALA SEQRES 6 B 105 ALA LEU LYS GLY PRO MET MET LYS LYS GLU GLN ALA TYR SEQRES 7 B 105 SER LEU THR PHE THR GLU ALA GLY THR TYR ASP TYR HIS SEQRES 8 B 105 CYS THR PRO HIS GLY PHE MET ARG GLY LYS VAL VAL VAL SEQRES 9 B 105 GLU SEQRES 1 C 105 ASP LYS ALA THR ILE PRO SER GLU SER PRO PHE ALA ALA SEQRES 2 C 105 ALA GLU VAL ALA ASP GLY ALA ILE VAL VAL ASP ILE ALA SEQRES 3 C 105 LYS MET LYS TYR GLU THR PRO GLU LEU HIS VAL LYS VAL SEQRES 4 C 105 GLY ASP THR VAL THR TRP ILE ASN ARG GLU ALA MET PRO SEQRES 5 C 105 HIS ASN VAL HIS PHE VAL ALA GLY VAL LEU GLY GLU ALA SEQRES 6 C 105 ALA LEU LYS GLY PRO MET MET LYS LYS GLU GLN ALA TYR SEQRES 7 C 105 SER LEU THR PHE THR GLU ALA GLY THR TYR ASP TYR HIS SEQRES 8 C 105 CYS THR PRO HIS GLY PHE MET ARG GLY LYS VAL VAL VAL SEQRES 9 C 105 GLU SEQRES 1 D 105 ASP LYS ALA THR ILE PRO SER GLU SER PRO PHE ALA ALA SEQRES 2 D 105 ALA GLU VAL ALA ASP GLY ALA ILE VAL VAL ASP ILE ALA SEQRES 3 D 105 LYS MET LYS TYR GLU THR PRO GLU LEU HIS VAL LYS VAL SEQRES 4 D 105 GLY ASP THR VAL THR TRP ILE ASN ARG GLU ALA MET PRO SEQRES 5 D 105 HIS ASN VAL HIS PHE VAL ALA GLY VAL LEU GLY GLU ALA SEQRES 6 D 105 ALA LEU LYS GLY PRO MET MET LYS LYS GLU GLN ALA TYR SEQRES 7 D 105 SER LEU THR PHE THR GLU ALA GLY THR TYR ASP TYR HIS SEQRES 8 D 105 CYS THR PRO HIS GLY PHE MET ARG GLY LYS VAL VAL VAL SEQRES 9 D 105 GLU HET CU A 106 1 HET NA A 107 1 HET NA A 108 1 HET CU B 106 1 HET CU C 106 1 HET PO4 C 107 5 HET PO4 C 108 5 HET K C 109 1 HET CU D 106 1 HETNAM CU COPPER (II) ION HETNAM NA SODIUM ION HETNAM PO4 PHOSPHATE ION HETNAM K POTASSIUM ION FORMUL 5 CU 4(CU 2+) FORMUL 6 NA 2(NA 1+) FORMUL 10 PO4 2(O4 P 3-) FORMUL 12 K K 1+ FORMUL 14 HOH *180(H2 O) HELIX 1 1 ALA A 14 VAL A 16 5 3 HELIX 2 2 ALA B 14 VAL B 16 5 3 HELIX 3 3 ALA C 14 VAL C 16 5 3 SHEET 1 A 3 ALA A 3 THR A 4 0 SHEET 2 A 3 GLN A 76 PHE A 82 -1 O THR A 81 N THR A 4 SHEET 3 A 3 PHE A 11 ALA A 12 -1 N PHE A 11 O ALA A 77 SHEET 1 B 5 ALA A 3 THR A 4 0 SHEET 2 B 5 GLN A 76 PHE A 82 -1 O THR A 81 N THR A 4 SHEET 3 B 5 THR A 42 ASN A 47 -1 N TRP A 45 O TYR A 78 SHEET 4 B 5 ILE A 21 ALA A 26 1 N VAL A 23 O ILE A 46 SHEET 5 B 5 LYS A 29 TYR A 30 -1 O LYS A 29 N ALA A 26 SHEET 1 C 3 GLU A 34 LYS A 38 0 SHEET 2 C 3 ARG A 99 GLU A 105 1 O VAL A 103 N LEU A 35 SHEET 3 C 3 GLY A 86 HIS A 91 -1 N GLY A 86 O VAL A 104 SHEET 1 D 2 HIS A 56 PHE A 57 0 SHEET 2 D 2 LEU A 67 LYS A 68 -1 O LEU A 67 N PHE A 57 SHEET 1 E 3 ALA B 3 THR B 4 0 SHEET 2 E 3 GLN B 76 PHE B 82 -1 O THR B 81 N THR B 4 SHEET 3 E 3 PHE B 11 ALA B 12 -1 N PHE B 11 O ALA B 77 SHEET 1 F 5 ALA B 3 THR B 4 0 SHEET 2 F 5 GLN B 76 PHE B 82 -1 O THR B 81 N THR B 4 SHEET 3 F 5 THR B 42 ASN B 47 -1 N TRP B 45 O TYR B 78 SHEET 4 F 5 ILE B 21 ALA B 26 1 N VAL B 23 O THR B 44 SHEET 5 F 5 LYS B 29 TYR B 30 -1 O LYS B 29 N ALA B 26 SHEET 1 G 3 GLU B 34 LYS B 38 0 SHEET 2 G 3 ARG B 99 GLU B 105 1 O VAL B 103 N LEU B 35 SHEET 3 G 3 GLY B 86 HIS B 91 -1 N GLY B 86 O VAL B 104 SHEET 1 H 2 HIS B 56 PHE B 57 0 SHEET 2 H 2 LEU B 67 LYS B 68 -1 O LEU B 67 N PHE B 57 SHEET 1 I 3 ALA C 3 THR C 4 0 SHEET 2 I 3 GLN C 76 PHE C 82 -1 O THR C 81 N THR C 4 SHEET 3 I 3 PHE C 11 ALA C 12 -1 N PHE C 11 O ALA C 77 SHEET 1 J 5 ALA C 3 THR C 4 0 SHEET 2 J 5 GLN C 76 PHE C 82 -1 O THR C 81 N THR C 4 SHEET 3 J 5 THR C 42 ASN C 47 -1 N VAL C 43 O LEU C 80 SHEET 4 J 5 ILE C 21 ALA C 26 1 N VAL C 23 O THR C 44 SHEET 5 J 5 LYS C 29 TYR C 30 -1 O LYS C 29 N ALA C 26 SHEET 1 K 3 GLU C 34 VAL C 37 0 SHEET 2 K 3 ARG C 99 VAL C 104 1 O VAL C 103 N LEU C 35 SHEET 3 K 3 GLY C 86 HIS C 91 -1 N GLY C 86 O VAL C 104 SHEET 1 L 2 HIS C 56 PHE C 57 0 SHEET 2 L 2 LEU C 67 LYS C 68 -1 O LEU C 67 N PHE C 57 SHEET 1 M 5 ALA D 3 THR D 4 0 SHEET 2 M 5 TYR D 78 PHE D 82 -1 O THR D 81 N THR D 4 SHEET 3 M 5 VAL D 43 ASN D 47 -1 N VAL D 43 O LEU D 80 SHEET 4 M 5 ILE D 21 ALA D 26 1 N VAL D 23 O THR D 44 SHEET 5 M 5 LYS D 29 TYR D 30 -1 O LYS D 29 N ALA D 26 SHEET 1 N 3 GLU D 34 VAL D 37 0 SHEET 2 N 3 LYS D 101 VAL D 104 1 O VAL D 103 N LEU D 35 SHEET 3 N 3 GLY D 86 TYR D 88 -1 N TYR D 88 O VAL D 102 SHEET 1 O 2 HIS D 56 PHE D 57 0 SHEET 2 O 2 LEU D 67 LYS D 68 -1 O LEU D 67 N PHE D 57 SHEET 1 P 2 HIS D 91 CYS D 92 0 SHEET 2 P 2 HIS D 95 ARG D 99 -1 O HIS D 95 N CYS D 92 LINK ND1 HIS A 53 CU CU A 106 1555 1555 2.04 LINK SG CYS A 92 CU CU A 106 1555 1555 2.12 LINK ND1 HIS A 95 CU CU A 106 1555 1555 2.00 LINK SD MET A 98 CU CU A 106 1555 1555 3.11 LINK ND1 HIS B 53 CU CU B 106 1555 1555 1.96 LINK SG CYS B 92 CU CU B 106 1555 1555 2.32 LINK ND1 HIS B 95 CU CU B 106 1555 1555 2.12 LINK SD MET B 98 CU CU B 106 1555 1555 2.93 LINK ND1 HIS C 53 CU CU C 106 1555 1555 1.92 LINK SG CYS C 92 CU CU C 106 1555 1555 2.21 LINK ND1 HIS C 95 CU CU C 106 1555 1555 2.08 LINK SD MET C 98 CU CU C 106 1555 1555 2.84 LINK ND1 HIS D 53 CU CU D 106 1555 1555 2.29 LINK SG CYS D 92 CU CU D 106 1555 1555 2.25 LINK ND1 HIS D 95 CU CU D 106 1555 1555 2.13 LINK SD MET D 98 CU CU D 106 1555 1555 3.25 SITE 1 AC1 4 HIS A 53 CYS A 92 HIS A 95 MET A 98 SITE 1 AC2 3 SER A 7 TYR A 78 SER A 79 SITE 1 AC3 6 PHE A 57 VAL A 58 VAL A 61 LEU A 62 SITE 2 AC3 6 ALA A 65 LEU A 67 SITE 1 AC4 4 HIS B 53 CYS B 92 HIS B 95 MET B 98 SITE 1 AC5 4 HIS C 53 CYS C 92 HIS C 95 MET C 98 SITE 1 AC6 4 GLU C 49 ALA C 50 HOH C 130 LYS D 29 SITE 1 AC7 3 ALA B 65 HIS C 36 HOH C 151 SITE 1 AC8 4 GLY B 60 HOH B 110 VAL C 22 THR C 32 SITE 1 AC9 4 HIS D 53 CYS D 92 HIS D 95 MET D 98 CRYST1 97.279 97.279 109.875 90.00 90.00 120.00 P 32 2 1 24 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 0.010280 0.005935 0.000000 0.00000 SCALE2 0.000000 0.011870 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009101 0.00000