HEADER OXIDOREDUCTASE 21-SEP-06 2IFQ TITLE CRYSTAL STRUCTURE OF S-NITROSO THIOREDOXIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: THIOREDOXIN; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: ATL-DERIVED FACTOR, ADF, SURFACE-ASSOCIATED SULPHYDRYL COMPND 5 PROTEIN, SASP; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: S-NITROSOCYSTEINE AT POSITION 69; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: THIOREDOXIN; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: ATL-DERIVED FACTOR, ADF, SURFACE-ASSOCIATED SULPHYDRYL COMPND 12 PROTEIN, SASP; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: NO MODIFICATION AT POSITION 69 AS A RESULT OF COMPND 15 PHOTOREDUCTION OF THE SNO GROUP SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TXN, TRDX, TRX, TRX1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-3A; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: TXN, TRDX, TRX, TRX1; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET-3A KEYWDS S-NITROSOCYSTEINE, PHOROTEDUCTION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.WEICHSEL,W.R.MONTFORT REVDAT 4 30-AUG-23 2IFQ 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 2IFQ 1 VERSN REVDAT 2 06-FEB-07 2IFQ 1 JRNL REVDAT 1 05-DEC-06 2IFQ 0 JRNL AUTH A.WEICHSEL,J.L.BRAILEY,W.R.MONTFORT JRNL TITL BURIED S-NITROSOCYSTEINE REVEALED IN CRYSTAL STRUCTURES OF JRNL TITL 2 HUMAN THIOREDOXIN. JRNL REF BIOCHEMISTRY V. 46 1219 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17260951 JRNL DOI 10.1021/BI061878R REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.WEICHSEL,J.R.GASDASKA,G.POWIS,W.R.MONTFORT REMARK 1 TITL CRYSTAL STRUCTURES OF REDUCED, OXIDIZED, AND MUTATED HUMAN REMARK 1 TITL 2 THIOREDOXIN: EVIDENCE FOR A REGULATORY HOMODIMER REMARK 1 REF STRUCTURE V. 4 735 1996 REMARK 1 REFN ISSN 0969-2126 REMARK 2 REMARK 2 RESOLUTION. 1.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 25.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 73521 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3882 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) : 5468 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.1620 REMARK 3 BIN FREE R VALUE SET COUNT : 311 REMARK 3 BIN FREE R VALUE : 0.1830 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2467 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 102 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.39000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : 0.14000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.03000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.052 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.049 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.024 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.145 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2771 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1891 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3758 ; 1.960 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4711 ; 0.998 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 372 ; 6.275 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 124 ;29.516 ;27.016 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 531 ;14.112 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 417 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3122 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 515 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 525 ; 0.276 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1815 ; 0.192 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1340 ; 0.189 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1469 ; 0.109 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 96 ; 0.140 ; 0.200 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): 36 ; 0.335 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 70 ; 0.249 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 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): 2216 ; 2.548 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 688 ; 1.374 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2802 ; 3.070 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1219 ; 4.278 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 936 ; 5.499 ; 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): 3407 ; 2.655 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 98 ;11.053 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2674 ; 5.508 ; 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 2IFQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039520. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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) : 0.9002 REMARK 200 MONOCHROMATOR : BENT GE(111) REMARK 200 OPTICS : BENT SI-MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR (MSC/RIGAKU) REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR (MSC/RIGAKU) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79717 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.200 REMARK 200 RESOLUTION RANGE LOW (A) : 25.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1000 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) : 1.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.24000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 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 2HXK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 32% PEG 4000, 50 MM SODIUM PHOSPHATE, REMARK 280 ETHANOL, PH 7.0, 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 58.04000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 12.87450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.04000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 12.87450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 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 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 C 118 LIES ON A SPECIAL POSITION. 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 32 CB CYS A 32 SG -0.115 REMARK 500 CYS C 62 CB CYS C 62 SG -0.140 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 ASP A 64 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP C 64 CB - CG - OD1 ANGL. DEV. = 7.2 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 TYR A 49 78.94 -103.98 REMARK 500 LYS A 72 -1.47 -142.14 REMARK 500 CYS B 62 70.43 -111.14 REMARK 500 LYS B 72 -69.87 -122.91 REMARK 500 LYS B 72 -67.62 -122.91 REMARK 500 TYR C 49 73.42 -101.86 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 MET B 1 VAL B 2 150.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH C 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH C 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH C 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH B 106 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HXK RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH S-NITROSOCYSTEINE AT POSITIONS 62 AND 69 REMARK 900 RELATED ID: 1ERT RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH NO MODIFICATIONS DBREF 2IFQ A 1 105 UNP P10599 THIO_HUMAN 0 104 DBREF 2IFQ C 1 105 UNP P10599 THIO_HUMAN 0 104 DBREF 2IFQ B 1 105 UNP P10599 THIO_HUMAN 0 104 SEQADV 2IFQ SNC A 69 UNP P10599 CYS 68 MODIFIED RESIDUE SEQADV 2IFQ SNC C 69 UNP P10599 CYS 68 MODIFIED RESIDUE SEQRES 1 A 105 MET VAL LYS GLN ILE GLU SER LYS THR ALA PHE GLN GLU SEQRES 2 A 105 ALA LEU ASP ALA ALA GLY ASP LYS LEU VAL VAL VAL ASP SEQRES 3 A 105 PHE SER ALA THR TRP CYS GLY PRO CYS LYS MET ILE LYS SEQRES 4 A 105 PRO PHE PHE HIS SER LEU SER GLU LYS TYR SER ASN VAL SEQRES 5 A 105 ILE PHE LEU GLU VAL ASP VAL ASP ASP CYS GLN ASP VAL SEQRES 6 A 105 ALA SER GLU SNC GLU VAL LYS CYS MET PRO THR PHE GLN SEQRES 7 A 105 PHE PHE LYS LYS GLY GLN LYS VAL GLY GLU PHE SER GLY SEQRES 8 A 105 ALA ASN LYS GLU LYS LEU GLU ALA THR ILE ASN GLU LEU SEQRES 9 A 105 VAL SEQRES 1 B 105 MET VAL LYS GLN ILE GLU SER LYS THR ALA PHE GLN GLU SEQRES 2 B 105 ALA LEU ASP ALA ALA GLY ASP LYS LEU VAL VAL VAL ASP SEQRES 3 B 105 PHE SER ALA THR TRP CYS GLY PRO CYS LYS MET ILE LYS SEQRES 4 B 105 PRO PHE PHE HIS SER LEU SER GLU LYS TYR SER ASN VAL SEQRES 5 B 105 ILE PHE LEU GLU VAL ASP VAL ASP ASP CYS GLN ASP VAL SEQRES 6 B 105 ALA SER GLU CYS GLU VAL LYS CYS MET PRO THR PHE GLN SEQRES 7 B 105 PHE PHE LYS LYS GLY GLN LYS VAL GLY GLU PHE SER GLY SEQRES 8 B 105 ALA ASN LYS GLU LYS LEU GLU ALA THR ILE ASN GLU LEU SEQRES 9 B 105 VAL SEQRES 1 C 105 MET VAL LYS GLN ILE GLU SER LYS THR ALA PHE GLN GLU SEQRES 2 C 105 ALA LEU ASP ALA ALA GLY ASP LYS LEU VAL VAL VAL ASP SEQRES 3 C 105 PHE SER ALA THR TRP CYS GLY PRO CYS LYS MET ILE LYS SEQRES 4 C 105 PRO PHE PHE HIS SER LEU SER GLU LYS TYR SER ASN VAL SEQRES 5 C 105 ILE PHE LEU GLU VAL ASP VAL ASP ASP CYS GLN ASP VAL SEQRES 6 C 105 ALA SER GLU SNC GLU VAL LYS CYS MET PRO THR PHE GLN SEQRES 7 C 105 PHE PHE LYS LYS GLY GLN LYS VAL GLY GLU PHE SER GLY SEQRES 8 C 105 ALA ASN LYS GLU LYS LEU GLU ALA THR ILE ASN GLU LEU SEQRES 9 C 105 VAL MODRES 2IFQ SNC A 69 CYS S-NITROSO-CYSTEINE MODRES 2IFQ SNC C 69 CYS S-NITROSO-CYSTEINE HET SNC A 69 8 HET SNC C 69 8 HET EOH B 106 3 HET EOH C 106 3 HET EOH C 107 3 HET EOH C 108 4 HETNAM SNC S-NITROSO-CYSTEINE HETNAM EOH ETHANOL FORMUL 1 SNC 2(C3 H6 N2 O3 S) FORMUL 4 EOH 4(C2 H6 O) FORMUL 8 HOH *102(H2 O) HELIX 1 1 SER A 7 ALA A 18 1 12 HELIX 2 2 CYS A 32 TYR A 49 1 18 HELIX 3 3 CYS A 62 SNC A 69 1 8 HELIX 4 4 ASN A 93 VAL A 105 1 13 HELIX 5 5 SER B 7 ALA B 18 1 12 HELIX 6 6 CYS B 32 TYR B 49 1 18 HELIX 7 7 CYS B 62 CYS B 69 1 8 HELIX 8 8 ASN B 93 VAL B 105 1 13 HELIX 9 9 SER C 7 ALA C 17 1 11 HELIX 10 10 CYS C 32 TYR C 49 1 18 HELIX 11 11 CYS C 62 SNC C 69 1 8 HELIX 12 12 ASN C 93 VAL C 105 1 13 SHEET 1 A 5 LYS A 3 ILE A 5 0 SHEET 2 A 5 ILE A 53 ASP A 58 1 O GLU A 56 N ILE A 5 SHEET 3 A 5 VAL A 23 SER A 28 1 N VAL A 24 O ILE A 53 SHEET 4 A 5 THR A 76 LYS A 81 -1 O THR A 76 N PHE A 27 SHEET 5 A 5 GLN A 84 SER A 90 -1 O PHE A 89 N PHE A 77 SHEET 1 B 5 LYS B 3 ILE B 5 0 SHEET 2 B 5 ILE B 53 ASP B 58 1 O GLU B 56 N ILE B 5 SHEET 3 B 5 VAL B 23 SER B 28 1 N VAL B 24 O ILE B 53 SHEET 4 B 5 THR B 76 LYS B 81 -1 O THR B 76 N PHE B 27 SHEET 5 B 5 GLN B 84 SER B 90 -1 O PHE B 89 N PHE B 77 SHEET 1 C 5 LYS C 3 ILE C 5 0 SHEET 2 C 5 ILE C 53 ASP C 58 1 O PHE C 54 N LYS C 3 SHEET 3 C 5 VAL C 23 SER C 28 1 N VAL C 24 O LEU C 55 SHEET 4 C 5 THR C 76 LYS C 81 -1 O THR C 76 N PHE C 27 SHEET 5 C 5 GLN C 84 SER C 90 -1 O PHE C 89 N PHE C 77 SSBOND 1 CYS A 32 CYS A 35 1555 1555 2.57 SSBOND 2 CYS A 73 CYS B 73 1555 1555 2.01 SSBOND 3 CYS B 32 CYS B 35 1555 1555 2.18 SSBOND 4 CYS C 32 CYS C 35 1555 1555 2.14 LINK C GLU A 68 N SNC A 69 1555 1555 1.34 LINK C SNC A 69 N GLU A 70 1555 1555 1.33 LINK C GLU C 68 N SNC C 69 1555 1555 1.32 LINK C SNC C 69 N GLU C 70 1555 1555 1.33 CISPEP 1 MET A 74 PRO A 75 0 -13.25 CISPEP 2 MET B 74 PRO B 75 0 -0.54 CISPEP 3 MET C 74 PRO C 75 0 -14.77 SITE 1 AC1 6 GLN C 4 GLU C 6 ALA C 10 VAL C 86 SITE 2 AC1 6 GLY C 87 GLU C 103 SITE 1 AC2 6 LEU C 15 PHE C 80 LYS C 82 GLY C 83 SITE 2 AC2 6 HOH C 110 HOH C 131 SITE 1 AC3 5 PHE B 41 LYS B 94 GLU C 47 LYS C 48 SITE 2 AC3 5 LYS C 82 SITE 1 AC4 4 GLY B 33 THR C 9 GLN C 84 LYS C 85 CRYST1 116.080 25.749 85.860 90.00 97.97 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008615 0.000000 0.001207 0.00000 SCALE2 0.000000 0.038837 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011761 0.00000