10 20 30 40 50 60 70 80 2OMA - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER ISOMERASE 21-JAN-07 2OMA
TITLE CRYSTALLOGRAPHIC ANALYSIS OF A CHEMICALLY MODIFIED TRIOSEPHOSPHATE TITLE 2 ISOMERASE FROM TRYPANOSOMA CRUZI WITH DITHIOBENZYLAMINE (DTBA)
COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRIOSEPHOSPHATE ISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TIM, TRIOSE- PHOSPHATE ISOMERASE; COMPND 5 EC: 5.3.1.1; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA CRUZI; SOURCE 3 ORGANISM_TAXID: 5693; SOURCE 4 STRAIN: MEXICAN NINOA STRAIN; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL23(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET23A
KEYWDS TRIOSEPHOSPHATE ISOMERASE, TRYPANOSOMA CRUZI, PROTEIN INTERFACES, KEYWDS 2 DITHIOBISBENZYLAMINE, ISOMERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR A.RODRIGUEZ-ROMERO,A.GOMEZ-PUYOU
REVDAT 3 13-JUL-11 2OMA 1 VERSN REVDAT 2 24-FEB-09 2OMA 1 VERSN REVDAT 1 20-NOV-07 2OMA 0
JRNL AUTH V.OLIVARES-ILLANA,A.RODRIGUEZ-ROMERO,I.BECKER,M.BERZUNZA, JRNL AUTH 2 J.GARCIA,R.PEREZ-MONTFORT,N.CABRERA,F.LOPEZ-CALAHORRA, JRNL AUTH 3 M.T.DE GOMEZ-PUYOU,A.GOMEZ-PUYOU JRNL TITL PERTURBATION OF THE DIMER INTERFACE OF TRIOSEPHOSPHATE JRNL TITL 2 ISOMERASE AND ITS EFFECT ON TRYPANOSOMA CRUZI. JRNL REF PLOS NEGL TROP DIS V. 1 E1 2007 JRNL REFN ISSN 1935-2727 JRNL PMID 17989778 JRNL DOI 10.1371/JOURNAL.PNTD.0000001
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.TELLEZ-VALENCIA,V.OLIVARES-ILLANA,A.HERNANDEZ-SANTOYO, REMARK 1 AUTH 2 R.PEREZ-MONTFORT,M.COSTAS,A.RODRIGUEZ-ROMERO, REMARK 1 AUTH 3 F.LOPEZ-CALAHORRA,M.TUENA DE GOMEZ-PUYOU,A.GOMEZ-PUYOU REMARK 1 TITL INACTIVATION OF TRIOSEPHOSPHATE ISOMERASE FROM TRYPANOSOMA REMARK 1 TITL 2 CRUZI BY AN AGENT AN AGENT THAT PERTURBS ITS DIMER REMARK 1 TITL 3 INTERFACE. REMARK 1 REF J.MOL.BIOL. V. 341 1355 2004 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 15321726 REMARK 1 DOI 10.1016/J.JMB.2004.06.056
REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 3 NUMBER OF REFLECTIONS : 23141 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1248 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1783 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.2960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3846 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 267 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.22000 REMARK 3 B22 (A**2) : -0.35000 REMARK 3 B33 (A**2) : 0.13000 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): 0.363 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.241 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.137 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.324 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.910 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4002 ; 0.022 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5431 ; 1.914 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 498 ; 6.306 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 166 ;38.200 ;24.096 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 662 ;14.881 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;18.424 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 623 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2948 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1977 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2637 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 306 ; 0.205 ; 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): 42 ; 0.253 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.245 ; 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): 2578 ; 1.588 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4001 ; 1.733 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1654 ; 3.096 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1430 ; 4.342 ; 4.500 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 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 251 REMARK 3 ORIGIN FOR THE GROUP (A): 3.6386 -0.0798 -4.8227 REMARK 3 T TENSOR REMARK 3 T11: -0.0039 T22: -0.0180 REMARK 3 T33: -0.0054 T12: 0.0136 REMARK 3 T13: -0.0093 T23: 0.0005 REMARK 3 L TENSOR REMARK 3 L11: 0.0382 L22: 0.3634 REMARK 3 L33: 0.4809 L12: -0.0488 REMARK 3 L13: -0.1342 L23: 0.1199 REMARK 3 S TENSOR REMARK 3 S11: 0.0063 S12: 0.0179 S13: 0.0241 REMARK 3 S21: -0.0419 S22: 0.0302 S23: 0.0024 REMARK 3 S31: -0.0331 S32: 0.0082 S33: -0.0365 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 251 REMARK 3 ORIGIN FOR THE GROUP (A): 13.3632 -20.4982 -31.7605 REMARK 3 T TENSOR REMARK 3 T11: -0.0237 T22: -0.0124 REMARK 3 T33: -0.0063 T12: 0.0101 REMARK 3 T13: -0.0040 T23: -0.0189 REMARK 3 L TENSOR REMARK 3 L11: 0.1805 L22: 0.1437 REMARK 3 L33: 0.2145 L12: 0.1087 REMARK 3 L13: -0.1450 L23: 0.0003 REMARK 3 S TENSOR REMARK 3 S11: -0.0307 S12: 0.0136 S13: -0.0066 REMARK 3 S21: 0.0220 S22: -0.0026 S23: -0.0457 REMARK 3 S31: -0.0398 S32: -0.0660 S33: 0.0333 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. ATOMS ARE ASSIGNED REDUCED OCCUPANCIES WHEN ELECTRON REMARK 3 DENSITY IS WEAK OR ATOMS HAVE PARTIAL OCCUPANCY.
REMARK 4 REMARK 4 2OMA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-FEB-07. REMARK 100 THE RCSB ID CODE IS RCSB041312.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-06 REMARK 200 TEMPERATURE (KELVIN) : 113.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23141 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 41.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.31600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.800 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: PDB ENTRY 1TCD REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5 MICROL OF THE PROTEIN SOLUTION WERE REMARK 280 MIXED WITH 5 MICROL OF 2 % POLYETHYLENE GLYCOL 400, 0.1 M HEPES, REMARK 280 2.0M AMMONIUM SULFATE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K, PH 7.50. CRYSTAL SOAKED IN DITHIOBENZYLAMINE
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 21.60300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 73.21350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.66850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 73.21350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.60300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.66850 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DIMER
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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 5060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -124.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 LYS B 218 CG CD CE NZ
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 OE1 GLN B 225 O HOH B 1044 3644 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 GLU B 133 CB GLU B 133 CG 0.115 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 B 135 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 135 NE - CZ - NH2 ANGL. DEV. = -4.0 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 LYS A 14 -155.27 44.75 REMARK 500 LYS B 14 -130.32 27.37 REMARK 500 ASN B 16 -158.97 -120.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 GLU A 158 23.0 L L OUTSIDE RANGE REMARK 500 VAL B 151 20.8 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1TCD RELATED DB: PDB
DBREF 2OMA A 2 251 UNP P52270 TPIS_TRYCR 2 251 DBREF 2OMA B 2 251 UNP P52270 TPIS_TRYCR 2 251
SEQADV 2OMA CS1 A 118 UNP P52270 CYS 118 MODIFIED RESIDUE SEQADV 2OMA CS1 B 118 UNP P52270 CYS 118 MODIFIED RESIDUE
SEQRES 1 A 250 ALA SER LYS PRO GLN PRO ILE ALA ALA ALA ASN TRP LYS SEQRES 2 A 250 CYS ASN GLY SER GLU SER LEU LEU VAL PRO LEU ILE GLU SEQRES 3 A 250 THR LEU ASN ALA ALA THR PHE ASP HIS ASP VAL GLN CYS SEQRES 4 A 250 VAL VAL ALA PRO THR PHE LEU HIS ILE PRO MET THR LYS SEQRES 5 A 250 ALA ARG LEU THR ASN PRO LYS PHE GLN ILE ALA ALA GLN SEQRES 6 A 250 ASN ALA ILE THR ARG SER GLY ALA PHE THR GLY GLU VAL SEQRES 7 A 250 SER LEU GLN ILE LEU LYS ASP TYR GLY ILE SER TRP VAL SEQRES 8 A 250 VAL LEU GLY HIS SER GLU ARG ARG LEU TYR TYR GLY GLU SEQRES 9 A 250 THR ASN GLU ILE VAL ALA GLU LYS VAL ALA GLN ALA CS1 SEQRES 10 A 250 ALA ALA GLY PHE HIS VAL ILE VAL CYS VAL GLY GLU THR SEQRES 11 A 250 ASN GLU GLU ARG GLU ALA GLY ARG THR ALA ALA VAL VAL SEQRES 12 A 250 LEU THR GLN LEU ALA ALA VAL ALA GLN LYS LEU SER LYS SEQRES 13 A 250 GLU ALA TRP SER ARG VAL VAL ILE ALA TYR GLU PRO VAL SEQRES 14 A 250 TRP ALA ILE GLY THR GLY LYS VAL ALA THR PRO GLN GLN SEQRES 15 A 250 ALA GLN GLU VAL HIS GLU LEU LEU ARG ARG TRP VAL ARG SEQRES 16 A 250 SER LYS LEU GLY THR ASP ILE ALA ALA GLN LEU ARG ILE SEQRES 17 A 250 LEU TYR GLY GLY SER VAL THR ALA LYS ASN ALA ARG THR SEQRES 18 A 250 LEU TYR GLN MET ARG ASP ILE ASN GLY PHE LEU VAL GLY SEQRES 19 A 250 GLY ALA SER LEU LYS PRO GLU PHE VAL GLU ILE ILE GLU SEQRES 20 A 250 ALA THR LYS SEQRES 1 B 250 ALA SER LYS PRO GLN PRO ILE ALA ALA ALA ASN TRP LYS SEQRES 2 B 250 CYS ASN GLY SER GLU SER LEU LEU VAL PRO LEU ILE GLU SEQRES 3 B 250 THR LEU ASN ALA ALA THR PHE ASP HIS ASP VAL GLN CYS SEQRES 4 B 250 VAL VAL ALA PRO THR PHE LEU HIS ILE PRO MET THR LYS SEQRES 5 B 250 ALA ARG LEU THR ASN PRO LYS PHE GLN ILE ALA ALA GLN SEQRES 6 B 250 ASN ALA ILE THR ARG SER GLY ALA PHE THR GLY GLU VAL SEQRES 7 B 250 SER LEU GLN ILE LEU LYS ASP TYR GLY ILE SER TRP VAL SEQRES 8 B 250 VAL LEU GLY HIS SER GLU ARG ARG LEU TYR TYR GLY GLU SEQRES 9 B 250 THR ASN GLU ILE VAL ALA GLU LYS VAL ALA GLN ALA CS1 SEQRES 10 B 250 ALA ALA GLY PHE HIS VAL ILE VAL CYS VAL GLY GLU THR SEQRES 11 B 250 ASN GLU GLU ARG GLU ALA GLY ARG THR ALA ALA VAL VAL SEQRES 12 B 250 LEU THR GLN LEU ALA ALA VAL ALA GLN LYS LEU SER LYS SEQRES 13 B 250 GLU ALA TRP SER ARG VAL VAL ILE ALA TYR GLU PRO VAL SEQRES 14 B 250 TRP ALA ILE GLY THR GLY LYS VAL ALA THR PRO GLN GLN SEQRES 15 B 250 ALA GLN GLU VAL HIS GLU LEU LEU ARG ARG TRP VAL ARG SEQRES 16 B 250 SER LYS LEU GLY THR ASP ILE ALA ALA GLN LEU ARG ILE SEQRES 17 B 250 LEU TYR GLY GLY SER VAL THR ALA LYS ASN ALA ARG THR SEQRES 18 B 250 LEU TYR GLN MET ARG ASP ILE ASN GLY PHE LEU VAL GLY SEQRES 19 B 250 GLY ALA SER LEU LYS PRO GLU PHE VAL GLU ILE ILE GLU SEQRES 20 B 250 ALA THR LYS
MODRES 2OMA CS1 A 118 CYS S-(2-ANILINYL-SULFANYL)-CYSTEINE MODRES 2OMA CS1 B 118 CYS S-(2-ANILINYL-SULFANYL)-CYSTEINE
HET CS1 A 118 14 HET CS1 B 118 14 HET SO4 A1001 5 HET SO4 A1002 5 HET SO4 A1003 5 HET SO4 B1004 5 HET SO4 A1005 5 HET SO4 B1006 5 HET SO4 A1007 5 HET SO4 B1008 5 HET SO4 B1009 5 HET PGE B 800 10 HET PEG A 700 7 HET PEG A 701 7 HET PEG B 702 7
HETNAM CS1 S-(2-ANILINYL-SULFANYL)-CYSTEINE HETNAM SO4 SULFATE ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER
HETSYN CS1 3-[(2-AMINOPHENYL)DITHIO]-L-ALANINE
FORMUL 1 CS1 2(C9 H12 N2 O2 S2) FORMUL 3 SO4 9(O4 S 2-) FORMUL 12 PGE C6 H14 O4 FORMUL 13 PEG 3(C4 H10 O3) FORMUL 16 HOH *267(H2 O)
HELIX 1 1 SER A 18 ALA A 32 1 15 HELIX 2 2 THR A 45 LEU A 47 5 3 HELIX 3 3 HIS A 48 LEU A 56 1 9 HELIX 4 4 SER A 80 TYR A 87 1 8 HELIX 5 5 HIS A 96 TYR A 103 1 8 HELIX 6 6 THR A 106 ALA A 120 1 15 HELIX 7 7 THR A 131 ALA A 137 1 7 HELIX 8 8 ARG A 139 GLN A 153 1 15 HELIX 9 9 LYS A 154 LEU A 155 5 2 HELIX 10 10 SER A 156 SER A 161 5 6 HELIX 11 11 PRO A 169 ILE A 173 5 5 HELIX 12 12 THR A 180 GLY A 200 1 21 HELIX 13 13 GLY A 200 LEU A 207 1 8 HELIX 14 14 THR A 216 GLN A 225 1 10 HELIX 15 15 GLY A 235 LYS A 240 5 6 HELIX 16 16 PRO A 241 ALA A 249 1 9 HELIX 17 17 SER B 18 ALA B 32 1 15 HELIX 18 18 THR B 45 LEU B 47 5 3 HELIX 19 19 HIS B 48 LEU B 56 1 9 HELIX 20 20 SER B 80 TYR B 87 1 8 HELIX 21 21 HIS B 96 TYR B 103 1 8 HELIX 22 22 THR B 106 ALA B 120 1 15 HELIX 23 23 THR B 131 ALA B 137 1 7 HELIX 24 24 ARG B 139 LYS B 154 1 16 HELIX 25 25 LEU B 155 SER B 161 5 7 HELIX 26 26 PRO B 169 GLY B 174 1 6 HELIX 27 27 THR B 180 GLY B 200 1 21 HELIX 28 28 GLY B 200 LEU B 207 1 8 HELIX 29 29 ASN B 219 GLN B 225 1 7 HELIX 30 30 GLY B 235 PRO B 241 5 7 HELIX 31 31 GLU B 242 ALA B 249 1 8
SHEET 1 A 9 ILE A 8 ASN A 12 0 SHEET 2 A 9 GLN A 39 ALA A 43 1 O VAL A 41 N ALA A 11 SHEET 3 A 9 PHE A 61 ALA A 65 1 O GLN A 62 N VAL A 42 SHEET 4 A 9 TRP A 91 LEU A 94 1 O VAL A 93 N ALA A 65 SHEET 5 A 9 HIS A 123 VAL A 128 1 O ILE A 125 N LEU A 94 SHEET 6 A 9 VAL A 163 TYR A 167 1 O VAL A 164 N VAL A 126 SHEET 7 A 9 ARG A 208 GLY A 212 1 O LEU A 210 N TYR A 167 SHEET 8 A 9 GLY A 231 VAL A 234 1 O GLY A 231 N TYR A 211 SHEET 9 A 9 ILE A 8 ASN A 12 1 N ASN A 12 O VAL A 234 SHEET 1 B 9 ILE B 8 ASN B 12 0 SHEET 2 B 9 GLN B 39 ALA B 43 1 O VAL B 41 N ALA B 11 SHEET 3 B 9 PHE B 61 ALA B 65 1 O ALA B 64 N VAL B 42 SHEET 4 B 9 TRP B 91 LEU B 94 1 O VAL B 93 N ALA B 65 SHEET 5 B 9 HIS B 123 VAL B 128 1 O CYS B 127 N LEU B 94 SHEET 6 B 9 VAL B 163 TYR B 167 1 O VAL B 164 N VAL B 126 SHEET 7 B 9 ILE B 209 TYR B 211 1 O LEU B 210 N TYR B 167 SHEET 8 B 9 GLY B 231 VAL B 234 1 O GLY B 231 N TYR B 211 SHEET 9 B 9 ILE B 8 ASN B 12 1 N ALA B 10 O PHE B 232
LINK C ALA A 117 N CS1 A 118 1555 1555 1.32 LINK C CS1 A 118 N ALA A 119 1555 1555 1.33 LINK C ALA B 117 N CS1 B 118 1555 1555 1.33 LINK C CS1 B 118 N ALA B 119 1555 1555 1.33
CRYST1 43.206 75.337 146.427 90.00 90.00 90.00 P 21 21 21 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 0.023145 0.000000 0.000000 0.00000
SCALE2 0.000000 0.013274 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006829 0.00000