HEADER TRANSFERASE 02-JAN-16 5HBQ TITLE C63D MUTANT OF THE RHODANESE DOMAIN OF YGAP COMPND MOL_ID: 1; COMPND 2 MOLECULE: INNER MEMBRANE PROTEIN YGAP; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RHODANESE DOMAIN, UNP RESIDUES 2-109; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: YGAP, B2668, JW2643; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: STAR KEYWDS S-NITROSYLATION, S-SULFHYDRATION, RHODANESE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.EICHMANN,C.TZITZILONIS,T.NAKAMURA,W.KWIATKOWSKI,I.MASLENNIKOV, AUTHOR 2 S.CHOE,S.A.LIPTON,R.RIEK REVDAT 3 10-JAN-24 5HBQ 1 REMARK REVDAT 2 28-SEP-16 5HBQ 1 JRNL REVDAT 1 10-AUG-16 5HBQ 0 JRNL AUTH C.EICHMANN,C.TZITZILONIS,T.NAKAMURA,W.KWIATKOWSKI, JRNL AUTH 2 I.MASLENNIKOV,S.CHOE,S.A.LIPTON,R.RIEK JRNL TITL S-NITROSYLATION INDUCES STRUCTURAL AND DYNAMICAL CHANGES IN JRNL TITL 2 A RHODANESE FAMILY PROTEIN. JRNL REF J.MOL.BIOL. V. 428 3737 2016 JRNL REFN ESSN 1089-8638 JRNL PMID 27473602 JRNL DOI 10.1016/J.JMB.2016.07.010 REMARK 2 REMARK 2 RESOLUTION. 1.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 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) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 12627 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 658 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) : 1.66 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 REFLECTION IN BIN (WORKING SET) : 947 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.02 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 41 REMARK 3 BIN FREE R VALUE : 0.4030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 789 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 98 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.07 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.49000 REMARK 3 B22 (A**2) : -2.49000 REMARK 3 B33 (A**2) : 4.98000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.021 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.022 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.075 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.046 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 847 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 842 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1158 ; 1.579 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1951 ; 0.994 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 116 ; 5.879 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 40 ;36.984 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 152 ;13.806 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;12.419 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 133 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 971 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 179 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 425 ; 1.128 ; 1.755 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 424 ; 1.123 ; 1.751 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 533 ; 1.673 ; 2.628 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 534 ; 1.673 ; 2.633 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 422 ; 1.489 ; 1.942 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 423 ; 1.487 ; 1.947 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 619 ; 2.341 ; 2.847 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 993 ; 4.559 ;14.513 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 961 ; 4.341 ;14.141 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.618 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : -H,-K,L REMARK 3 TWIN FRACTION : 0.382 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 : 1.20 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 5HBQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000216796. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.127 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13404 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.660 REMARK 200 RESOLUTION RANGE LOW (A) : 38.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.66 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.67000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 5HBL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM ACETATE IN 0.1 M TRIS HCL REMARK 280 PH 8.5, AND 30% PEG 4000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,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 17.55567 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 35.11133 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL 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 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 MET A -18 REMARK 465 LYS A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 GLU A -8 REMARK 465 ASN A -7 REMARK 465 LEU A -6 REMARK 465 TYR A -5 REMARK 465 PHE A -4 REMARK 465 GLN A -3 REMARK 465 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 ALA A 1 REMARK 465 LEU A 2 REMARK 465 LYS A 106 REMARK 465 SER A 107 REMARK 465 GLN A 108 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 360 O HOH A 373 2665 2.03 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 ASP A 63 -158.38 -138.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 398 DISTANCE = 6.37 ANGSTROMS 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 NA A 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 63 OD1 REMARK 620 2 THR A 69 OG1 90.2 REMARK 620 3 LEU A 88 O 120.4 122.9 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HBL RELATED DB: PDB REMARK 900 THIS PROTEIN IS A C63D MUTANT OF 5HBL DBREF 5HBQ A 1 108 UNP P55734 YGAP_ECOLI 2 109 SEQADV 5HBQ MET A -18 UNP P55734 INITIATING METHIONINE SEQADV 5HBQ LYS A -17 UNP P55734 EXPRESSION TAG SEQADV 5HBQ SER A -16 UNP P55734 EXPRESSION TAG SEQADV 5HBQ SER A -15 UNP P55734 EXPRESSION TAG SEQADV 5HBQ HIS A -14 UNP P55734 EXPRESSION TAG SEQADV 5HBQ HIS A -13 UNP P55734 EXPRESSION TAG SEQADV 5HBQ HIS A -12 UNP P55734 EXPRESSION TAG SEQADV 5HBQ HIS A -11 UNP P55734 EXPRESSION TAG SEQADV 5HBQ HIS A -10 UNP P55734 EXPRESSION TAG SEQADV 5HBQ HIS A -9 UNP P55734 EXPRESSION TAG SEQADV 5HBQ GLU A -8 UNP P55734 EXPRESSION TAG SEQADV 5HBQ ASN A -7 UNP P55734 EXPRESSION TAG SEQADV 5HBQ LEU A -6 UNP P55734 EXPRESSION TAG SEQADV 5HBQ TYR A -5 UNP P55734 EXPRESSION TAG SEQADV 5HBQ PHE A -4 UNP P55734 EXPRESSION TAG SEQADV 5HBQ GLN A -3 UNP P55734 EXPRESSION TAG SEQADV 5HBQ SER A -2 UNP P55734 EXPRESSION TAG SEQADV 5HBQ ASN A -1 UNP P55734 EXPRESSION TAG SEQADV 5HBQ ALA A 0 UNP P55734 EXPRESSION TAG SEQADV 5HBQ ASP A 63 UNP P55734 CYS 64 ENGINEERED MUTATION SEQRES 1 A 127 MET LYS SER SER HIS HIS HIS HIS HIS HIS GLU ASN LEU SEQRES 2 A 127 TYR PHE GLN SER ASN ALA ALA LEU THR THR ILE SER PRO SEQRES 3 A 127 HIS ASP ALA GLN GLU LEU ILE ALA ARG GLY ALA LYS LEU SEQRES 4 A 127 ILE ASP ILE ARG ASP ALA ASP GLU TYR LEU ARG GLU HIS SEQRES 5 A 127 ILE PRO GLU ALA ASP LEU ALA PRO LEU SER VAL LEU GLU SEQRES 6 A 127 GLN SER GLY LEU PRO ALA LYS LEU ARG HIS GLU GLN ILE SEQRES 7 A 127 ILE PHE HIS ASP GLN ALA GLY LYS ARG THR SER ASN ASN SEQRES 8 A 127 ALA ASP LYS LEU ALA ALA ILE ALA ALA PRO ALA GLU ILE SEQRES 9 A 127 PHE LEU LEU GLU ASP GLY ILE ASP GLY TRP LYS LYS ALA SEQRES 10 A 127 GLY LEU PRO VAL ALA VAL ASN LYS SER GLN HET CL A 201 1 HET NA A 202 1 HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 2 CL CL 1- FORMUL 3 NA NA 1+ FORMUL 4 HOH *98(H2 O) HELIX 1 AA1 SER A 6 ARG A 16 1 11 HELIX 2 AA2 ASP A 25 ARG A 31 1 7 HELIX 3 AA3 PRO A 41 GLY A 49 1 9 HELIX 4 AA4 PRO A 51 ARG A 55 5 5 HELIX 5 AA5 GLY A 66 ASN A 72 1 7 HELIX 6 AA6 ASN A 72 ALA A 80 1 9 HELIX 7 AA7 ASP A 90 ALA A 98 1 9 SHEET 1 AA1 5 THR A 4 ILE A 5 0 SHEET 2 AA1 5 GLU A 84 LEU A 88 1 O LEU A 87 N ILE A 5 SHEET 3 AA1 5 GLN A 58 HIS A 62 1 N PHE A 61 O LEU A 88 SHEET 4 AA1 5 LYS A 19 ASP A 22 1 N LYS A 19 O ILE A 60 SHEET 5 AA1 5 ASP A 38 LEU A 39 1 O ASP A 38 N LEU A 20 SHEET 1 AA2 2 GLU A 32 HIS A 33 0 SHEET 2 AA2 2 ALA A 103 VAL A 104 -1 O ALA A 103 N HIS A 33 LINK OD1 ASP A 63 NA NA A 202 1555 1555 2.85 LINK OG1 THR A 69 NA NA A 202 1555 1555 2.78 LINK O LEU A 88 NA NA A 202 1555 1555 2.76 CISPEP 1 ALA A 81 PRO A 82 0 6.91 SITE 1 AC1 4 ASP A 63 ALA A 65 LYS A 67 ARG A 68 SITE 1 AC2 4 HIS A 62 ASP A 63 THR A 69 LEU A 88 CRYST1 43.896 43.896 52.667 90.00 90.00 120.00 P 31 3 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 0.022781 0.013153 0.000000 0.00000 SCALE2 0.000000 0.026305 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018987 0.00000