PDB Short entry for 1SY3 HEADER TRANSPORT PROTEIN 31-MAR-04 1SY3 TITLE 1.00 A CRYSTAL STRUCTURE OF D30N MUTANT OF NITROPHORIN 4 FROM RHODNIUS TITLE 2 PROLIXUS COMPLEXED WITH NITRIC OXIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROPHORIN 4; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NP4; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODNIUS PROLIXUS; SOURCE 3 ORGANISM_TAXID: 13249; SOURCE 4 ORGAN: SALIVARY GLAND; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET17B KEYWDS LIPOCALIN, BETA BARREL, FERROUS HEME, NITRIC OXIDE, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.M.MAES,A.WEICHSEL,J.F.ANDERSEN,D.SHEPLEY,W.R.MONTFORT REVDAT 4 23-AUG-23 1SY3 1 REMARK REVDAT 3 27-OCT-21 1SY3 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1SY3 1 VERSN REVDAT 1 08-JUN-04 1SY3 0 JRNL AUTH E.M.MAES,A.WEICHSEL,J.F.ANDERSEN,D.SHEPLEY,W.R.MONTFORT JRNL TITL ROLE OF BINDING SITE LOOPS IN CONTROLLING NITRIC OXIDE JRNL TITL 2 RELEASE: STRUCTURE AND KINETICS OF MUTANT FORMS OF JRNL TITL 3 NITROPHORIN 4 JRNL REF BIOCHEMISTRY V. 43 6679 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15157102 JRNL DOI 10.1021/BI049748A REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 TITL LIGAND-INDUCED HEME RUFFLING AND BENT NO GEOMETRY IN REMARK 1 TITL 2 ULTRA-HIGH-RESOLUTION STRUCTURES OF NITROPHORIN 4 REMARK 1 REF BIOCHEMISTRY V. 40 11327 2001 REMARK 1 REFN ISSN 0006-2960 REMARK 2 REMARK 2 RESOLUTION. 1.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 9.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 75616 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) : 0.143 REMARK 3 R VALUE (WORKING SET) : 0.142 REMARK 3 FREE R VALUE : 0.159 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4005 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) : 1.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5799 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1200 REMARK 3 BIN FREE R VALUE SET COUNT : 286 REMARK 3 BIN FREE R VALUE : 0.1370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1428 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 319 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 3.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 7.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.026 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.026 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.013 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.228 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1623 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1345 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2231 ; 1.699 ; 2.043 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3166 ; 2.100 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 201 ; 7.389 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 238 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1833 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 306 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 286 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1502 ; 0.256 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 903 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 195 ; 0.119 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.216 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 14 ; 0.167 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.223 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 47 ; 0.130 ; 0.200 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): 985 ; 1.327 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1580 ; 2.000 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 632 ; 2.134 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 638 ; 3.019 ; 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): 1617 ; 1.098 ; 2.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 321 ; 3.724 ; 2.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 1569 ; 2.937 ; 2.000 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 : BABINET MODEL WITH 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 1SY3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-04. REMARK 100 THE DEPOSITION ID IS D_1000022084. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.900 REMARK 200 MONOCHROMATOR : BENT GE(111) MONOCHROMATOR REMARK 200 OPTICS : BENT CONICAL SI-MIRROR (RH REMARK 200 COATING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDISPLAYF REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85604 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.000 REMARK 200 RESOLUTION RANGE LOW (A) : 10.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 5.120 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : 0.07300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.06 REMARK 200 R MERGE FOR SHELL (I) : 0.12400 REMARK 200 R SYM FOR SHELL (I) : 0.12400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1KOI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM PHOSPHATE 3.2 M, PH 5.6, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 35.21550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.36450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.21550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 21.36450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 848 LIES ON A SPECIAL POSITION. 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 PHE A 18 58.79 -92.97 REMARK 500 LEU A 130 56.19 -110.35 REMARK 500 LEU A 130 57.13 -102.53 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 HEM A 185 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 59 NE2 REMARK 620 2 HEM A 185 NA 86.6 REMARK 620 3 HEM A 185 NB 89.4 89.9 REMARK 620 4 HEM A 185 NC 89.1 175.7 90.9 REMARK 620 5 HEM A 185 ND 88.8 89.9 178.2 89.2 REMARK 620 6 NO A 186 N 178.4 91.9 91.3 92.3 90.5 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 PO4 A 587 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 185 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO A 186 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KOI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF WILD-TYPE NITROPHORIN 4 FROM RHODNIUS PROLIXUS REMARK 900 COMPLEXED WITH NITRIC OXIDE REMARK 900 RELATED ID: 1SXU RELATED DB: PDB REMARK 900 1.36 A CRYSTAL STRUCTURE OF D30N MUTANT OF NITROPHORIN 4 FROM REMARK 900 RHODNIUS PROLIXUS COMPLEXED WITH IMIDAZOLE REMARK 900 RELATED ID: 1SXW RELATED DB: PDB REMARK 900 1.05 A CRYSTAL STRUCTURE OF D30A MUTANT OF NITROPHORIN 4 FROM REMARK 900 RHODNIUS PROLIXUS COMPLEXED WITH NITRIC OXIDE REMARK 900 RELATED ID: 1SXX RELATED DB: PDB REMARK 900 1.0 A CRYSTAL STRUCTURE OF D129A/L130A MUTANT OF NITROPHORIN 4 REMARK 900 COMPLEXED WITH NITRIC OXIDE REMARK 900 RELATED ID: 1SXY RELATED DB: PDB REMARK 900 1.07 A CRYSTAL STRUCTURE OF D30N MUTANT OF NITROPHORIN 4 FROM REMARK 900 RHODNIUS PROLIXUS REMARK 900 RELATED ID: 1SY0 RELATED DB: PDB REMARK 900 1.15 A CRYSTAL STRUCTURE OF T121V MUTANT OF NITROPHORIN 4 FROM REMARK 900 RHODNIUS PROLIXUS REMARK 900 RELATED ID: 1SY1 RELATED DB: PDB REMARK 900 1.0 A CRYSTAL STRUCTURE OF T121V MUTANT OF NITROPHORIN 4 COMPLEXED REMARK 900 WITH NITRIC OXIDE REMARK 900 RELATED ID: 1SY2 RELATED DB: PDB REMARK 900 1.0 A CRYSTAL STRUCTURE OF D129A/L130A MUTANT OF NITROPHORIN 4 DBREF 1SY3 A 1 184 UNP Q94734 NP4_RHOPR 22 205 SEQADV 1SY3 ASN A 30 UNP Q94734 ASP 51 ENGINEERED MUTATION SEQRES 1 A 184 ALA CYS THR LYS ASN ALA ILE ALA GLN THR GLY PHE ASN SEQRES 2 A 184 LYS ASP LYS TYR PHE ASN GLY ASP VAL TRP TYR VAL THR SEQRES 3 A 184 ASP TYR LEU ASN LEU GLU PRO ASP ASP VAL PRO LYS ARG SEQRES 4 A 184 TYR CYS ALA ALA LEU ALA ALA GLY THR ALA SER GLY LYS SEQRES 5 A 184 LEU LYS GLU ALA LEU TYR HIS TYR ASP PRO LYS THR GLN SEQRES 6 A 184 ASP THR PHE TYR ASP VAL SER GLU LEU GLN VAL GLU SER SEQRES 7 A 184 LEU GLY LYS TYR THR ALA ASN PHE LYS LYS VAL ASP LYS SEQRES 8 A 184 ASN GLY ASN VAL LYS VAL ALA VAL THR ALA GLY ASN TYR SEQRES 9 A 184 TYR THR PHE THR VAL MET TYR ALA ASP ASP SER SER ALA SEQRES 10 A 184 LEU ILE HIS THR CYS LEU HIS LYS GLY ASN LYS ASP LEU SEQRES 11 A 184 GLY ASP LEU TYR ALA VAL LEU ASN ARG ASN LYS ASP ALA SEQRES 12 A 184 ALA ALA GLY ASP LYS VAL LYS SER ALA VAL SER ALA ALA SEQRES 13 A 184 THR LEU GLU PHE SER LYS PHE ILE SER THR LYS GLU ASN SEQRES 14 A 184 ASN CYS ALA TYR ASP ASN ASP SER LEU LYS SER LEU LEU SEQRES 15 A 184 THR LYS HET PO4 A 587 5 HET HEM A 185 43 HET NO A 186 2 HETNAM PO4 PHOSPHATE ION HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM NO NITRIC OXIDE HETSYN HEM HEME HETSYN NO NITROGEN MONOXIDE FORMUL 2 PO4 O4 P 3- FORMUL 3 HEM C34 H32 FE N4 O4 FORMUL 4 NO N O FORMUL 5 HOH *319(H2 O) HELIX 1 1 ASN A 13 PHE A 18 1 6 HELIX 2 2 GLU A 32 VAL A 36 5 5 HELIX 3 3 GLY A 146 ALA A 156 1 11 HELIX 4 4 GLU A 159 PHE A 163 5 5 HELIX 5 5 ASP A 174 LEU A 182 1 9 SHEET 1 A 7 VAL A 95 VAL A 97 0 SHEET 2 A 7 LYS A 87 VAL A 89 -1 N LYS A 88 O LYS A 96 SHEET 3 A 7 THR A 67 SER A 78 -1 N VAL A 71 O LYS A 87 SHEET 4 A 7 LYS A 52 TYR A 60 -1 N GLU A 55 O SER A 72 SHEET 5 A 7 CYS A 41 ALA A 49 -1 N GLY A 47 O LYS A 54 SHEET 6 A 7 ASN A 19 ASN A 30 -1 N TRP A 23 O LEU A 44 SHEET 7 A 7 ILE A 164 SER A 165 -1 O ILE A 164 N TYR A 28 SHEET 1 B 9 VAL A 95 VAL A 97 0 SHEET 2 B 9 LYS A 87 VAL A 89 -1 N LYS A 88 O LYS A 96 SHEET 3 B 9 THR A 67 SER A 78 -1 N VAL A 71 O LYS A 87 SHEET 4 B 9 LYS A 81 ASN A 85 -1 O THR A 83 N GLN A 75 SHEET 5 B 9 ASN A 103 ALA A 112 -1 O TYR A 105 N ALA A 84 SHEET 6 B 9 SER A 116 LYS A 125 -1 O HIS A 124 N TYR A 104 SHEET 7 B 9 ASP A 129 ASN A 138 -1 O LEU A 137 N ALA A 117 SHEET 8 B 9 ASN A 19 ASN A 30 -1 N LEU A 29 O TYR A 134 SHEET 9 B 9 ILE A 164 SER A 165 -1 O ILE A 164 N TYR A 28 SSBOND 1 CYS A 2 CYS A 122 1555 1555 2.05 SSBOND 2 CYS A 41 CYS A 171 1555 1555 2.03 LINK NE2 HIS A 59 FE HEM A 185 1555 1555 2.06 LINK FE HEM A 185 N NO A 186 1555 1555 1.79 SITE 1 AC1 8 THR A 10 GLY A 11 PRO A 37 LYS A 38 SITE 2 AC1 8 ARG A 39 LYS A 63 HOH A 669 HOH A 695 SITE 1 AC2 17 VAL A 25 VAL A 36 TYR A 40 LEU A 44 SITE 2 AC2 17 LEU A 57 HIS A 59 PHE A 68 ASP A 70 SITE 3 AC2 17 PHE A 86 LYS A 88 TYR A 105 LEU A 123 SITE 4 AC2 17 LYS A 125 LEU A 130 LEU A 133 NO A 186 SITE 5 AC2 17 HOH A 836 SITE 1 AC3 4 LEU A 123 LEU A 133 HEM A 185 HOH A 894 CRYST1 70.431 42.729 53.124 90.00 94.27 90.00 C 1 2 1 4 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 0.014198 0.000000 0.001059 0.00000 SCALE2 0.000000 0.023403 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018876 0.00000