HEADER OXYGEN TRANSPORT 17-OCT-95 1NOL TITLE OXYGENATED HEMOCYANIN (SUBUNIT TYPE II) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMOCYANIN (SUBUNIT TYPE II); COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LIMULUS POLYPHEMUS; SOURCE 3 ORGANISM_COMMON: ATLANTIC HORSESHOE CRAB; SOURCE 4 ORGANISM_TAXID: 6850; SOURCE 5 TISSUE: HEMOLYMPH KEYWDS OXYGEN TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR B.HAZES,W.G.J.HOL REVDAT 4 18-APR-18 1NOL 1 REMARK REVDAT 3 24-FEB-09 1NOL 1 VERSN REVDAT 2 01-APR-03 1NOL 1 JRNL REVDAT 1 08-MAR-96 1NOL 0 JRNL AUTH B.HAZES,K.A.MAGNUS,C.BONAVENTURA,J.BONAVENTURA,Z.DAUTER, JRNL AUTH 2 K.H.KALK,W.G.HOL JRNL TITL CRYSTAL STRUCTURE OF DEOXYGENATED LIMULUS POLYPHEMUS SUBUNIT JRNL TITL 2 II HEMOCYANIN AT 2.18 A RESOLUTION: CLUES FOR A MECHANISM JRNL TITL 3 FOR ALLOSTERIC REGULATION. JRNL REF PROTEIN SCI. V. 2 597 1993 JRNL REFN ISSN 0961-8368 JRNL PMID 8518732 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.VOLBEDA,W.G.J.HOL REMARK 1 TITL CRYSTAL STRUCTURE OF HEXAMERIC HAEMOCYANIN FROM PANULIRUS REMARK 1 TITL 2 INTERRUPTUS REFINED AT 3.2 ANGSTROMS RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 209 249 1989 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 2 REMARK 1 AUTH H.NAKASHIMA,P.Q.BEHRENS,M.D.MOORE,E.YOKOTA,A.F.RIGGS REMARK 1 TITL STRUCTURE OF HEMOCYANIN II FROM THE HORSESHOE CRAB, LIMULUS REMARK 1 TITL 2 POLYPHEMUS REMARK 1 REF J.BIOL.CHEM. V. 261 10526 1986 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 2.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 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) (%) : 83.4 REMARK 3 NUMBER OF REFLECTIONS : 24024 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4933 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.67 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.018 REMARK 3 BOND ANGLES (DEGREES) : 3.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.500 ; 0.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.000 ; 1.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.000 ; 1.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.000 ; 2.000 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: THE NON-STANDARD RHOMBOHEDRAL SETTING REMARK 3 OF R 3 2 WAS USED. REMARK 4 REMARK 4 1NOL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000175350. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 6.5-7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : DIFFRACTOMETER REMARK 200 DETECTOR MANUFACTURER : ENRAF-NONIUS FAST REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MADNES, KABSCH, PROFILES REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24861 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 33.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 83.7 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR 2.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: R 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 Z,X,Y REMARK 290 3555 Y,Z,X REMARK 290 4555 -Y,-X,-Z REMARK 290 5555 -X,-Z,-Y REMARK 290 6555 -Z,-Y,-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 0.499698 0.288617 0.816702 0.00000 REMARK 290 SMTRY2 2 0.866200 -0.166499 -0.471143 0.00000 REMARK 290 SMTRY3 2 0.000000 0.942857 -0.333199 0.00000 REMARK 290 SMTRY1 3 0.499698 0.866200 0.000000 0.00000 REMARK 290 SMTRY2 3 0.288617 -0.166499 0.942857 0.00000 REMARK 290 SMTRY3 3 0.816702 -0.471143 -0.333199 0.00000 REMARK 290 SMTRY1 4 -0.499698 -0.866200 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866200 0.499698 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 -0.333199 -0.942857 0.00000 REMARK 290 SMTRY3 5 0.000000 -0.942857 0.333199 0.00000 REMARK 290 SMTRY1 6 -0.499698 -0.288617 -0.816702 0.00000 REMARK 290 SMTRY2 6 -0.288617 -0.833501 0.471143 0.00000 REMARK 290 SMTRY3 6 -0.816702 0.471143 0.333199 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 300 REMARK: BIOLOGICAL UNIT REMARK 300 THE CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS PRESENTED REMARK 300 BELOW GENERATE THE SUBUNITS OF THE POLYMERIC MOLECULE. REMARK 300 REMARK 300 APPLIED TO RESIDUES: 1 .. 633 REMARK 300 REMARK 300 A HEMOCYANIN HEXAMER IS OBTAINED BY APPLYING THE REMARK 300 CRYSTALLOGRAPHIC SYMMETRY OPERATORS. HOWEVER, ONE REMARK 300 SHOULD REMEMBER THAT IN THE BIOLOGICAL MOLECULE THERE REMARK 300 ARE 8 OF THESE HEXAMERS AND THAT EACH HEXAMER CONSISTS REMARK 300 OF SEVERAL CHAINS WITH RELATED BUT DIFFERENT AMINO ACID REMARK 300 SEQUENCES. REMARK 300 REMARK 300 SYMMETRY1 1 0.000000 0.000000 1.000000 0.00000 REMARK 300 SYMMETRY2 1 1.000000 0.000000 0.000000 0.00000 REMARK 300 SYMMETRY3 1 0.000000 1.000000 0.000000 0.00000 REMARK 300 REMARK 300 SYMMETRY1 2 0.000000 1.000000 0.000000 0.00000 REMARK 300 SYMMETRY2 2 0.000000 0.000000 1.000000 0.00000 REMARK 300 SYMMETRY3 2 1.000000 0.000000 0.000000 0.00000 REMARK 300 REMARK 300 SYMMETRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 300 SYMMETRY2 3 -1.000000 0.000000 0.000000 0.00000 REMARK 300 SYMMETRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 300 REMARK 300 SYMMETRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 300 SYMMETRY2 4 0.000000 0.000000 -1.000000 0.00000 REMARK 300 SYMMETRY3 4 0.000000 -1.000000 0.000000 0.00000 REMARK 300 REMARK 300 SYMMETRY1 5 0.000000 0.000000 -1.000000 0.00000 REMARK 300 SYMMETRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 300 SYMMETRY3 5 -1.000000 0.000000 0.000000 0.00000 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 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 400 REMARK 400 COMPOUND REMARK 400 THE STRUCTURE IS BELIEVED TO REPRESENT AN OXYGENATED REMARK 400 LOW OXYGEN AFFINITY (OR T-STATE) CONFORMATION. 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 ILE A 22 REMARK 465 GLY A 23 REMARK 465 ASP A 24 REMARK 465 GLY A 25 REMARK 465 ASP A 26 REMARK 465 LYS A 27 REMARK 465 HIS A 28 REMARK 465 LYS A 29 REMARK 465 VAL A 134 REMARK 465 ARG A 135 REMARK 465 PRO A 136 REMARK 465 GLU A 137 REMARK 465 PHE A 138 REMARK 465 ASN A 527 REMARK 465 GLU A 528 REMARK 465 HIS A 529 REMARK 465 LYS A 530 REMARK 465 ASP A 569 REMARK 465 GLY A 570 REMARK 465 SER A 571 REMARK 465 GLU A 572 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 ASP A 32 CG OD1 OD2 REMARK 470 HIS A 133 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 146 CG OD1 OD2 REMARK 470 GLN A 148 CG CD OE1 NE2 REMARK 470 ASP A 149 CG OD1 OD2 REMARK 470 ASN A 152 CG OD1 ND2 REMARK 470 GLU A 412 CG CD OE1 OE2 REMARK 470 LEU A 505 CG CD1 CD2 REMARK 470 LYS A 550 CG CD CE NZ REMARK 470 SER A 573 OG 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 3 NE2 HIS A 3 CD2 -0.070 REMARK 500 HIS A 50 NE2 HIS A 50 CD2 -0.071 REMARK 500 HIS A 53 NE2 HIS A 53 CD2 -0.074 REMARK 500 HIS A 59 NE2 HIS A 59 CD2 -0.067 REMARK 500 HIS A 99 NE2 HIS A 99 CD2 -0.068 REMARK 500 HIS A 173 NE2 HIS A 173 CD2 -0.077 REMARK 500 HIS A 177 NE2 HIS A 177 CD2 -0.067 REMARK 500 HIS A 281 NE2 HIS A 281 CD2 -0.073 REMARK 500 HIS A 292 NE2 HIS A 292 CD2 -0.077 REMARK 500 HIS A 317 CG HIS A 317 CD2 0.060 REMARK 500 HIS A 399 NE2 HIS A 399 CD2 -0.069 REMARK 500 HIS A 419 NE2 HIS A 419 CD2 -0.070 REMARK 500 HIS A 503 NE2 HIS A 503 CD2 -0.070 REMARK 500 HIS A 513 CG HIS A 513 CD2 0.055 REMARK 500 HIS A 522 NE2 HIS A 522 CD2 -0.067 REMARK 500 HIS A 555 NE2 HIS A 555 CD2 -0.071 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 33 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 58 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 TRP A 65 CD1 - CG - CD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 TRP A 65 CE2 - CD2 - CG ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 100 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 100 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 TYR A 162 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 TYR A 163 CB - CG - CD2 ANGL. DEV. = 4.2 DEGREES REMARK 500 TYR A 163 CB - CG - CD1 ANGL. DEV. = -4.9 DEGREES REMARK 500 ARG A 164 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 TRP A 174 CD1 - CG - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 TRP A 174 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP A 174 CG - CD2 - CE3 ANGL. DEV. = 5.9 DEGREES REMARK 500 TRP A 176 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP A 176 CE2 - CD2 - CG ANGL. DEV. = -5.5 DEGREES REMARK 500 TRP A 184 CE2 - CD2 - CG ANGL. DEV. = -4.9 DEGREES REMARK 500 ARG A 195 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 195 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 273 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 273 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 GLU A 309 CA - C - N ANGL. DEV. = 13.6 DEGREES REMARK 500 TRP A 326 CD1 - CG - CD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 TRP A 326 CE2 - CD2 - CG ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 356 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 356 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 TRP A 363 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP A 363 CE2 - CD2 - CG ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 365 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 365 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 411 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 411 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 460 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 480 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 481 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 481 NE - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 TRP A 538 CD1 - CG - CD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 TRP A 538 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 TRP A 563 CD1 - CG - CD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 602 NE - CZ - NH1 ANGL. DEV. = 3.3 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 SER A 31 134.03 148.01 REMARK 500 GLU A 66 29.48 -79.45 REMARK 500 ALA A 132 48.29 -68.45 REMARK 500 GLU A 140 -45.95 166.42 REMARK 500 SER A 141 150.67 -36.83 REMARK 500 GLN A 148 -2.84 -53.84 REMARK 500 ASP A 149 -142.18 67.74 REMARK 500 THR A 150 152.85 170.85 REMARK 500 LYS A 191 134.72 -32.61 REMARK 500 ALA A 244 -4.90 -58.60 REMARK 500 SER A 245 -7.38 -165.74 REMARK 500 ASP A 289 32.95 -74.11 REMARK 500 ASN A 316 95.38 -164.62 REMARK 500 ASN A 322 54.99 -157.77 REMARK 500 ASP A 336 61.31 -151.78 REMARK 500 ASP A 390 -16.30 72.08 REMARK 500 ASP A 395 148.17 -171.03 REMARK 500 ALA A 400 -157.67 -153.58 REMARK 500 SER A 428 125.27 -170.22 REMARK 500 SER A 451 -169.61 -78.29 REMARK 500 SER A 507 126.06 -31.65 REMARK 500 HIS A 513 122.43 -173.72 REMARK 500 HIS A 522 -168.17 -74.75 REMARK 500 PRO A 591 30.39 -72.19 REMARK 500 HIS A 605 36.67 -85.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 525 LEU A 526 113.53 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 TYR A 434 0.11 SIDE CHAIN 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 629 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 173 NE2 REMARK 620 2 HIS A 204 NE2 105.1 REMARK 620 3 PER A 631 O1 120.1 84.5 REMARK 620 4 HIS A 177 NE2 92.6 107.0 141.8 REMARK 620 5 PER A 631 O2 147.0 100.7 42.6 99.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 630 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PER A 631 O1 REMARK 620 2 PER A 631 O2 39.5 REMARK 620 3 HIS A 324 NE2 133.4 105.7 REMARK 620 4 HIS A 364 NE2 102.1 136.6 88.3 REMARK 620 5 HIS A 328 NE2 115.4 105.9 102.0 111.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 632 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 781 O REMARK 620 2 ASP A 578 O 84.2 REMARK 620 3 HOH A 794 O 91.3 167.1 REMARK 620 4 ASP A 578 OD1 92.6 81.5 86.7 REMARK 620 5 SER A 507 O 80.8 101.8 89.3 172.2 REMARK 620 6 THR A 510 O 166.4 83.4 99.7 80.1 107.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CUA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR COPPER A REMARK 800 REMARK 800 SITE_IDENTIFIER: CUB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR COPPER B REMARK 800 REMARK 800 SITE_IDENTIFIER: ANI REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR ANIONS (NITRATE AND CHLORIDE REMARK 800 BINDING HAS BEEN OBSERVED) REMARK 800 REMARK 800 SITE_IDENTIFIER: CAL REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CALCIUM ION. THIS SITE MAY ALSO REMARK 800 BIND SODIUM (SEE PDB ENTRY 1LLA) REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 629 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 630 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 632 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 633 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PER A 631 DBREF 1NOL A 1 628 UNP P04253 HCY2_LIMPO 1 628 SEQADV 1NOL ILE A 9 UNP P04253 VAL 9 CONFLICT SEQRES 1 A 628 THR LEU HIS ASP LYS GLN ILE ARG ILE CYS HIS LEU PHE SEQRES 2 A 628 GLU GLN LEU SER SER ALA THR VAL ILE GLY ASP GLY ASP SEQRES 3 A 628 LYS HIS LYS HIS SER ASP ARG LEU LYS ASN VAL GLY LYS SEQRES 4 A 628 LEU GLN PRO GLY ALA ILE PHE SER CYS PHE HIS PRO ASP SEQRES 5 A 628 HIS LEU GLU GLU ALA ARG HIS LEU TYR GLU VAL PHE TRP SEQRES 6 A 628 GLU ALA GLY ASP PHE ASN ASP PHE ILE GLU ILE ALA LYS SEQRES 7 A 628 GLU ALA ARG THR PHE VAL ASN GLU GLY LEU PHE ALA PHE SEQRES 8 A 628 ALA ALA GLU VAL ALA VAL LEU HIS ARG ASP ASP CYS LYS SEQRES 9 A 628 GLY LEU TYR VAL PRO PRO VAL GLN GLU ILE PHE PRO ASP SEQRES 10 A 628 LYS PHE ILE PRO SER ALA ALA ILE ASN GLU ALA PHE LYS SEQRES 11 A 628 LYS ALA HIS VAL ARG PRO GLU PHE ASP GLU SER PRO ILE SEQRES 12 A 628 LEU VAL ASP VAL GLN ASP THR GLY ASN ILE LEU ASP PRO SEQRES 13 A 628 GLU TYR ARG LEU ALA TYR TYR ARG GLU ASP VAL GLY ILE SEQRES 14 A 628 ASN ALA HIS HIS TRP HIS TRP HIS LEU VAL TYR PRO SER SEQRES 15 A 628 THR TRP ASN PRO LYS TYR PHE GLY LYS LYS LYS ASP ARG SEQRES 16 A 628 LYS GLY GLU LEU PHE TYR TYR MET HIS GLN GLN MET CYS SEQRES 17 A 628 ALA ARG TYR ASP CYS GLU ARG LEU SER ASN GLY MET HIS SEQRES 18 A 628 ARG MET LEU PRO PHE ASN ASN PHE ASP GLU PRO LEU ALA SEQRES 19 A 628 GLY TYR ALA PRO HIS LEU THR HIS VAL ALA SER GLY LYS SEQRES 20 A 628 TYR TYR SER PRO ARG PRO ASP GLY LEU LYS LEU ARG ASP SEQRES 21 A 628 LEU GLY ASP ILE GLU ILE SER GLU MET VAL ARG MET ARG SEQRES 22 A 628 GLU ARG ILE LEU ASP SER ILE HIS LEU GLY TYR VAL ILE SEQRES 23 A 628 SER GLU ASP GLY SER HIS LYS THR LEU ASP GLU LEU HIS SEQRES 24 A 628 GLY THR ASP ILE LEU GLY ALA LEU VAL GLU SER SER TYR SEQRES 25 A 628 GLU SER VAL ASN HIS GLU TYR TYR GLY ASN LEU HIS ASN SEQRES 26 A 628 TRP GLY HIS VAL THR MET ALA ARG ILE HIS ASP PRO ASP SEQRES 27 A 628 GLY ARG PHE HIS GLU GLU PRO GLY VAL MET SER ASP THR SEQRES 28 A 628 SER THR SER LEU ARG ASP PRO ILE PHE TYR ASN TRP HIS SEQRES 29 A 628 ARG PHE ILE ASP ASN ILE PHE HIS GLU TYR LYS ASN THR SEQRES 30 A 628 LEU LYS PRO TYR ASP HIS ASP VAL LEU ASN PHE PRO ASP SEQRES 31 A 628 ILE GLN VAL GLN ASP VAL THR LEU HIS ALA ARG VAL ASP SEQRES 32 A 628 ASN VAL VAL HIS THR PHE MET ARG GLU GLN GLU LEU GLU SEQRES 33 A 628 LEU LYS HIS GLY ILE ASN PRO GLY ASN ALA ARG SER ILE SEQRES 34 A 628 LYS ALA ARG TYR TYR HIS LEU ASP HIS GLU PRO PHE SER SEQRES 35 A 628 TYR ALA VAL ASN VAL GLN ASN ASN SER ALA SER ASP LYS SEQRES 36 A 628 HIS ALA THR VAL ARG ILE PHE LEU ALA PRO LYS TYR ASP SEQRES 37 A 628 GLU LEU GLY ASN GLU ILE LYS ALA ASP GLU LEU ARG ARG SEQRES 38 A 628 THR ALA ILE GLU LEU ASP LYS PHE LYS THR ASP LEU HIS SEQRES 39 A 628 PRO GLY LYS ASN THR VAL VAL ARG HIS SER LEU ASP SER SEQRES 40 A 628 SER VAL THR LEU SER HIS GLN PRO THR PHE GLU ASP LEU SEQRES 41 A 628 LEU HIS GLY VAL GLY LEU ASN GLU HIS LYS SER GLU TYR SEQRES 42 A 628 CYS SER CYS GLY TRP PRO SER HIS LEU LEU VAL PRO LYS SEQRES 43 A 628 GLY ASN ILE LYS GLY MET GLU TYR HIS LEU PHE VAL MET SEQRES 44 A 628 LEU THR ASP TRP ASP LYS ASP LYS VAL ASP GLY SER GLU SEQRES 45 A 628 SER VAL ALA CYS VAL ASP ALA VAL SER TYR CYS GLY ALA SEQRES 46 A 628 ARG ASP HIS LYS TYR PRO ASP LYS LYS PRO MET GLY PHE SEQRES 47 A 628 PRO PHE ASP ARG PRO ILE HIS THR GLU HIS ILE SER ASP SEQRES 48 A 628 PHE LEU THR ASN ASN MET PHE ILE LYS ASP ILE LYS ILE SEQRES 49 A 628 LYS PHE HIS GLU HET CU A 629 1 HET CU A 630 1 HET CA A 632 1 HET NO3 A 633 4 HET PER A 631 2 HETNAM CU COPPER (II) ION HETNAM CA CALCIUM ION HETNAM NO3 NITRATE ION HETNAM PER PEROXIDE ION FORMUL 2 CU 2(CU 2+) FORMUL 4 CA CA 2+ FORMUL 5 NO3 N O3 1- FORMUL 6 PER O2 2- FORMUL 7 HOH *212(H2 O) HELIX 1 1 LEU A 2 PHE A 13 1 12 HELIX 2 2 ASP A 32 LEU A 34 5 3 HELIX 3 3 PRO A 51 TRP A 65 1 15 HELIX 4 4 PHE A 70 THR A 82 1 13 HELIX 5 5 GLU A 86 HIS A 99 1 14 HELIX 6 6 ASP A 101 CYS A 103 5 3 HELIX 7 7 VAL A 111 ILE A 114 1 4 HELIX 8 8 PRO A 116 LYS A 118 5 3 HELIX 9 9 SER A 122 LYS A 131 1 10 HELIX 10 10 PRO A 156 ARG A 164 5 9 HELIX 11 11 VAL A 167 VAL A 179 1 13 HELIX 12 12 PRO A 186 PHE A 189 1 4 HELIX 13 13 LYS A 196 ASN A 218 1 23 HELIX 14 14 ILE A 266 LEU A 282 1 17 HELIX 15 15 GLY A 300 VAL A 308 1 9 HELIX 16 16 HIS A 317 TYR A 320 1 4 HELIX 17 17 LEU A 323 ALA A 332 1 10 HELIX 18 18 ILE A 334 ASP A 336 5 3 HELIX 19 19 VAL A 347 SER A 349 5 3 HELIX 20 20 SER A 354 ARG A 356 5 3 HELIX 21 21 PRO A 358 THR A 377 5 20 HELIX 22 22 HIS A 383 LEU A 386 1 4 HELIX 23 23 ALA A 476 THR A 482 1 7 HELIX 24 24 SER A 504 ASP A 506 5 3 HELIX 25 25 PHE A 517 LEU A 521 1 5 HELIX 26 26 SER A 540 LEU A 542 5 3 HELIX 27 27 TRP A 563 ASP A 566 1 4 HELIX 28 28 VAL A 580 CYS A 583 1 4 HELIX 29 29 ILE A 609 PHE A 612 5 4 SHEET 1 A 7 ILE A 143 ASP A 146 0 SHEET 2 A 7 ILE A 429 HIS A 438 1 N LYS A 430 O ILE A 143 SHEET 3 A 7 VAL A 405 GLU A 416 -1 N LEU A 415 O ALA A 431 SHEET 4 A 7 MET A 617 PHE A 626 1 N LYS A 623 O VAL A 406 SHEET 5 A 7 MET A 552 ASP A 562 -1 N VAL A 558 O PHE A 618 SHEET 6 A 7 LYS A 455 PRO A 465 -1 N ALA A 464 O HIS A 555 SHEET 7 A 7 ILE A 484 LEU A 493 -1 N LEU A 493 O LYS A 455 SHEET 1 B 2 TYR A 284 ILE A 286 0 SHEET 2 B 2 HIS A 292 THR A 294 -1 N LYS A 293 O VAL A 285 SHEET 1 C 3 GLY A 496 HIS A 503 0 SHEET 2 C 3 SER A 442 ASN A 449 -1 N ASN A 449 O GLY A 496 SHEET 3 C 3 ILE A 391 HIS A 399 -1 N HIS A 399 O SER A 442 SSBOND 1 CYS A 534 CYS A 576 1555 1555 2.02 SSBOND 2 CYS A 536 CYS A 583 1555 1555 2.02 LINK CU CU A 629 NE2 HIS A 173 1555 1555 1.94 LINK CU CU A 629 NE2 HIS A 204 1555 1555 2.31 LINK CU CU A 629 O1 PER A 631 1555 1555 1.82 LINK CU CU A 629 NE2 HIS A 177 1555 1555 2.03 LINK CU CU A 629 O2 PER A 631 1555 1555 1.93 LINK CU CU A 630 O1 PER A 631 1555 1555 1.97 LINK CU CU A 630 O2 PER A 631 1555 1555 2.06 LINK CU CU A 630 NE2 HIS A 324 1555 1555 1.97 LINK CU CU A 630 NE2 HIS A 364 1555 1555 1.95 LINK CU CU A 630 NE2 HIS A 328 1555 1555 2.34 LINK CA CA A 632 O HOH A 781 1555 1555 2.46 LINK CA CA A 632 O ASP A 578 1555 1555 2.07 LINK CA CA A 632 O HOH A 794 1555 1555 1.83 LINK CA CA A 632 OD1 ASP A 578 1555 1555 2.52 LINK CA CA A 632 O SER A 507 1555 1555 2.24 LINK CA CA A 632 O THR A 510 1555 1555 2.35 CISPEP 1 GLU A 309 SER A 310 0 -3.21 CISPEP 2 PHE A 598 PRO A 599 0 -1.41 SITE 1 CUA 3 HIS A 173 HIS A 177 HIS A 204 SITE 1 CUB 3 HIS A 324 HIS A 328 HIS A 364 SITE 1 ANI 2 SER A 47 ARG A 333 SITE 1 CAL 5 SER A 507 THR A 510 ASP A 578 HOH A 781 SITE 2 CAL 5 HOH A 794 SITE 1 AC1 5 HIS A 173 HIS A 177 HIS A 204 CU A 630 SITE 2 AC1 5 PER A 631 SITE 1 AC2 5 HIS A 324 HIS A 328 HIS A 364 CU A 629 SITE 2 AC2 5 PER A 631 SITE 1 AC3 5 SER A 507 THR A 510 ASP A 578 HOH A 781 SITE 2 AC3 5 HOH A 794 SITE 1 AC4 6 SER A 47 HIS A 50 VAL A 329 ALA A 332 SITE 2 AC4 6 ARG A 333 SER A 349 SITE 1 AC5 10 PHE A 49 HIS A 173 HIS A 177 HIS A 204 SITE 2 AC5 10 HIS A 324 HIS A 328 PHE A 360 HIS A 364 SITE 3 AC5 10 CU A 629 CU A 630 CRYST1 117.002 117.002 117.002 60.02 60.02 60.02 R 3 2 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 0.008547 -0.004931 -0.003487 0.00000 SCALE2 0.000000 0.009867 -0.003487 0.00000 SCALE3 0.000000 0.000000 0.010465 0.00000