HEADER SUGAR BINDING PROTEIN 21-MAY-20 7C66 TITLE CRYSTAL STRUCTURE OF BETA-GLYCOSIDES-BINDING PROTEIN OF ABC TITLE 2 TRANSPORTER IN A CLOSED STATE BOUND TO CELLOBIOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUGAR ABC TRANSPORTER, PERIPLASMIC SUGAR-BINDING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS (STRAIN HB8 / ATCC 27634 / SOURCE 3 DSM 579); SOURCE 4 ORGANISM_TAXID: 300852; SOURCE 5 STRAIN: HB8 / ATCC 27634 / DSM 579; SOURCE 6 ATCC: 27634; SOURCE 7 GENE: TTHB082; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMI; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS CONFORMATIONAL DYNAMICS, SUBSTRATE-BINDING PROTEIN, INDUCED-FIT KEYWDS 2 MECHANISM, TWO-STEP LIGAND BINDING, VENUS FLY-TRAP MECHANISM, SUGAR KEYWDS 3 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.P.KANAUJIA,M.CHANDRAVANSHI,R.SAMANTA REVDAT 3 29-NOV-23 7C66 1 REMARK REVDAT 2 14-OCT-20 7C66 1 JRNL REVDAT 1 16-SEP-20 7C66 0 JRNL AUTH M.CHANDRAVANSHI,R.SAMANTA,S.P.KANAUJIA JRNL TITL CONFORMATIONAL TRAPPING OF A BETA-GLUCOSIDES-BINDING PROTEIN JRNL TITL 2 UNVEILS THE SELECTIVE TWO-STEP LIGAND-BINDING MECHANISM OF JRNL TITL 3 ABC IMPORTERS. JRNL REF J.MOL.BIOL. V. 432 5711 2020 JRNL REFN ESSN 1089-8638 JRNL PMID 32866452 JRNL DOI 10.1016/J.JMB.2020.08.021 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 34036 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1750 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2519 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.69 REMARK 3 BIN R VALUE (WORKING SET) : 0.2410 REMARK 3 BIN FREE R VALUE SET COUNT : 94 REMARK 3 BIN FREE R VALUE : 0.2880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6406 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 79 REMARK 3 SOLVENT ATOMS : 423 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.85000 REMARK 3 B22 (A**2) : 0.83000 REMARK 3 B33 (A**2) : -1.68000 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): 0.467 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.262 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.188 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.496 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6659 ; 0.013 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 6135 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9057 ; 1.748 ; 1.650 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14217 ; 1.403 ; 1.577 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 834 ; 6.698 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 316 ;35.125 ;22.089 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1012 ;17.775 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;19.858 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 840 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7474 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1440 ; 0.001 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1 418 B 1 418 12982 0.110 0.050 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 1 A 418 REMARK 3 ORIGIN FOR THE GROUP (A): -4.2827 -16.5302 29.1705 REMARK 3 T TENSOR REMARK 3 T11: 0.1072 T22: 0.0025 REMARK 3 T33: 0.0019 T12: 0.0143 REMARK 3 T13: -0.0010 T23: 0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.4789 L22: 0.2733 REMARK 3 L33: 0.2684 L12: 0.1373 REMARK 3 L13: -0.0881 L23: -0.0238 REMARK 3 S TENSOR REMARK 3 S11: 0.0159 S12: 0.0022 S13: -0.0105 REMARK 3 S21: 0.0027 S22: -0.0074 S23: -0.0060 REMARK 3 S31: -0.0053 S32: 0.0061 S33: -0.0086 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 1 B 418 REMARK 3 ORIGIN FOR THE GROUP (A): -19.5159 -1.1051 7.8946 REMARK 3 T TENSOR REMARK 3 T11: 0.0660 T22: 0.0204 REMARK 3 T33: 0.0127 T12: 0.0208 REMARK 3 T13: -0.0069 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.2837 L22: 0.4013 REMARK 3 L33: 0.7202 L12: -0.1635 REMARK 3 L13: -0.1720 L23: 0.2765 REMARK 3 S TENSOR REMARK 3 S11: -0.0323 S12: -0.0138 S13: 0.0371 REMARK 3 S21: -0.0031 S22: 0.0133 S23: 0.0241 REMARK 3 S31: 0.0120 S32: 0.0413 S33: 0.0190 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: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 7C66 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1300017079. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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 MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : VARIMAX HF REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 7.2.2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35932 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 64.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.19400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.51600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: 7C63 REMARK 200 REMARK 200 REMARK: ORTHORHOMBIC REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULPHATE, 35% PEG 8000, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 32.12000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.45500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.41000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.45500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.12000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.41000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 0 REMARK 465 HIS A 419 REMARK 465 HIS A 420 REMARK 465 HIS A 421 REMARK 465 HIS A 422 REMARK 465 MET B 0 REMARK 465 HIS B 419 REMARK 465 HIS B 420 REMARK 465 HIS B 421 REMARK 465 HIS B 422 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 739 O HOH A 823 1.94 REMARK 500 O HOH B 747 O HOH B 759 1.95 REMARK 500 O HOH A 734 O HOH B 663 2.13 REMARK 500 NH2 ARG A 102 O HOH A 601 2.18 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 A 117 CD GLU A 117 OE2 -0.067 REMARK 500 GLU A 193 CD GLU A 193 OE2 0.073 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 260 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 260 NE - CZ - NH2 ANGL. DEV. = -3.1 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 PHE A 270 33.73 -143.53 REMARK 500 GLN B 14 73.77 -118.02 REMARK 500 ASN B 175 -9.00 66.83 REMARK 500 PHE B 270 30.83 -149.59 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 LYS A 174 ASN A 175 149.69 REMARK 500 REMARK 500 REMARK: NULL DBREF 7C66 A 1 416 UNP Q53W80 Q53W80_THET8 19 434 DBREF 7C66 B 1 416 UNP Q53W80 Q53W80_THET8 19 434 SEQADV 7C66 MET A 0 UNP Q53W80 INITIATING METHIONINE SEQADV 7C66 HIS A 417 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS A 418 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS A 419 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS A 420 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS A 421 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS A 422 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 MET B 0 UNP Q53W80 INITIATING METHIONINE SEQADV 7C66 HIS B 417 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS B 418 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS B 419 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS B 420 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS B 421 UNP Q53W80 EXPRESSION TAG SEQADV 7C66 HIS B 422 UNP Q53W80 EXPRESSION TAG SEQRES 1 A 423 MET GLN LYS THR LEU GLU VAL TRP ILE MET PRO ASN SER SEQRES 2 A 423 PRO GLN PRO ALA GLU ASP PHE LYS ALA LEU VAL ALA PRO SEQRES 3 A 423 PHE GLU LYS ALA HIS GLY VAL GLU VAL LYS VAL THR VAL SEQRES 4 A 423 LEU ASP TRP GLY VAL ALA TRP THR LYS ILE THR THR ALA SEQRES 5 A 423 ALA THR SER GLY VAL GLY PRO ASP LEU THR GLN LEU GLY SEQRES 6 A 423 THR THR TRP VAL GLY ALA ILE SER ALA MET GLY VAL LEU SEQRES 7 A 423 GLU PRO VAL ASP ASP VAL LEU GLU ALA LEU GLY GLY GLU SEQRES 8 A 423 LYS ALA TYR LEU PRO ALA VAL TRP ARG THR THR ARG LEU SEQRES 9 A 423 GLU GLY ALA ARG GLN ALA THR ALA VAL PRO TRP PHE SER SEQRES 10 A 423 GLU LEU ARG ALA PHE TYR TYR ARG THR ASP ALA LEU LYS SEQRES 11 A 423 ALA ALA GLY VAL ASN PRO ALA GLU MET PHE ALA SER TRP SEQRES 12 A 423 GLN GLY PHE GLU ALA GLY LEU ALA ARG LEU LYS ALA SER SEQRES 13 A 423 SER PHE ARG ASP PRO GLU THR LYS ALA PRO LEU ALA PRO SEQRES 14 A 423 LEU CYS THR PRO GLY LYS ASN SER TRP ASP VAL LEU HIS SEQRES 15 A 423 ASN ALA ALA PRO TRP ILE TRP GLY ALA GLY GLY GLU ILE SEQRES 16 A 423 VAL ARG GLN ALA GLY GLY ARG TRP GLN SER ALA LEU ASN SEQRES 17 A 423 SER PRO GLU SER LEU GLU GLY LEU TYR PHE PHE LEU SER SEQRES 18 A 423 LEU ALA GLN LYS GLY TYR VAL PRO ALA GLU SER LEU GLU SEQRES 19 A 423 LYS ASN THR ALA GLN ILE GLU ALA ASP PHE GLN ALA GLY SEQRES 20 A 423 LYS CYS ALA VAL PHE ALA SER GLY PRO TRP MET ILE GLN SEQRES 21 A 423 ARG ALA GLN VAL PRO GLU ALA LYS GLY GLY PHE ALA GLU SEQRES 22 A 423 ARG THR ALA ALA LYS ASN LEU GLY VAL ALA PRO TYR PRO SEQRES 23 A 423 ALA GLY PRO LYS GLY ARG TYR THR PHE PHE GLY GLY SER SEQRES 24 A 423 ASN LEU ALA LEU PHE ASN PHE SER LYS ASN LYS PRO LEU SEQRES 25 A 423 ALA LYS GLU LEU LEU LYS TYR LEU GLY GLY PRO GLU ALA SEQRES 26 A 423 GLN VAL ARG TYR ALA GLN MET THR GLY MET LEU PRO ALA SEQRES 27 A 423 LEU ARG SER ALA TRP SER ASP PRO SER PHE GLN GLN ASN SEQRES 28 A 423 PRO LEU LEU ARG THR PHE ILE GLN ALA ALA GLN PHE GLY SEQRES 29 A 423 ARG THR TYR PRO SER LEU ALA GLY TRP GLY GLY VAL GLU SEQRES 30 A 423 ASN LEU ALA VAL GLN HIS LEU GLY MET ALA TRP ASP LEU SEQRES 31 A 423 VAL ALA GLN GLY ARG LEU THR ARG GLU ALA LEU LYS ASP SEQRES 32 A 423 LEU MET ASP LYS ALA SER ALA ALA ILE ASN GLN ALA LEU SEQRES 33 A 423 ARG HIS HIS HIS HIS HIS HIS SEQRES 1 B 423 MET GLN LYS THR LEU GLU VAL TRP ILE MET PRO ASN SER SEQRES 2 B 423 PRO GLN PRO ALA GLU ASP PHE LYS ALA LEU VAL ALA PRO SEQRES 3 B 423 PHE GLU LYS ALA HIS GLY VAL GLU VAL LYS VAL THR VAL SEQRES 4 B 423 LEU ASP TRP GLY VAL ALA TRP THR LYS ILE THR THR ALA SEQRES 5 B 423 ALA THR SER GLY VAL GLY PRO ASP LEU THR GLN LEU GLY SEQRES 6 B 423 THR THR TRP VAL GLY ALA ILE SER ALA MET GLY VAL LEU SEQRES 7 B 423 GLU PRO VAL ASP ASP VAL LEU GLU ALA LEU GLY GLY GLU SEQRES 8 B 423 LYS ALA TYR LEU PRO ALA VAL TRP ARG THR THR ARG LEU SEQRES 9 B 423 GLU GLY ALA ARG GLN ALA THR ALA VAL PRO TRP PHE SER SEQRES 10 B 423 GLU LEU ARG ALA PHE TYR TYR ARG THR ASP ALA LEU LYS SEQRES 11 B 423 ALA ALA GLY VAL ASN PRO ALA GLU MET PHE ALA SER TRP SEQRES 12 B 423 GLN GLY PHE GLU ALA GLY LEU ALA ARG LEU LYS ALA SER SEQRES 13 B 423 SER PHE ARG ASP PRO GLU THR LYS ALA PRO LEU ALA PRO SEQRES 14 B 423 LEU CYS THR PRO GLY LYS ASN SER TRP ASP VAL LEU HIS SEQRES 15 B 423 ASN ALA ALA PRO TRP ILE TRP GLY ALA GLY GLY GLU ILE SEQRES 16 B 423 VAL ARG GLN ALA GLY GLY ARG TRP GLN SER ALA LEU ASN SEQRES 17 B 423 SER PRO GLU SER LEU GLU GLY LEU TYR PHE PHE LEU SER SEQRES 18 B 423 LEU ALA GLN LYS GLY TYR VAL PRO ALA GLU SER LEU GLU SEQRES 19 B 423 LYS ASN THR ALA GLN ILE GLU ALA ASP PHE GLN ALA GLY SEQRES 20 B 423 LYS CYS ALA VAL PHE ALA SER GLY PRO TRP MET ILE GLN SEQRES 21 B 423 ARG ALA GLN VAL PRO GLU ALA LYS GLY GLY PHE ALA GLU SEQRES 22 B 423 ARG THR ALA ALA LYS ASN LEU GLY VAL ALA PRO TYR PRO SEQRES 23 B 423 ALA GLY PRO LYS GLY ARG TYR THR PHE PHE GLY GLY SER SEQRES 24 B 423 ASN LEU ALA LEU PHE ASN PHE SER LYS ASN LYS PRO LEU SEQRES 25 B 423 ALA LYS GLU LEU LEU LYS TYR LEU GLY GLY PRO GLU ALA SEQRES 26 B 423 GLN VAL ARG TYR ALA GLN MET THR GLY MET LEU PRO ALA SEQRES 27 B 423 LEU ARG SER ALA TRP SER ASP PRO SER PHE GLN GLN ASN SEQRES 28 B 423 PRO LEU LEU ARG THR PHE ILE GLN ALA ALA GLN PHE GLY SEQRES 29 B 423 ARG THR TYR PRO SER LEU ALA GLY TRP GLY GLY VAL GLU SEQRES 30 B 423 ASN LEU ALA VAL GLN HIS LEU GLY MET ALA TRP ASP LEU SEQRES 31 B 423 VAL ALA GLN GLY ARG LEU THR ARG GLU ALA LEU LYS ASP SEQRES 32 B 423 LEU MET ASP LYS ALA SER ALA ALA ILE ASN GLN ALA LEU SEQRES 33 B 423 ARG HIS HIS HIS HIS HIS HIS HET GLC C 1 12 HET BGC C 2 11 HET GLC D 1 12 HET BGC D 2 11 HET CL A 501 1 HET CL A 502 1 HET SO3 A 503 4 HET EDO A 504 4 HET PEG A 505 7 HET CL B 501 1 HET SO2 B 502 3 HET EDO B 503 4 HET EDO B 504 4 HET EDO B 505 4 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM BGC BETA-D-GLUCOPYRANOSE HETNAM CL CHLORIDE ION HETNAM SO3 SULFITE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM SO2 SULFUR DIOXIDE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 GLC 2(C6 H12 O6) FORMUL 3 BGC 2(C6 H12 O6) FORMUL 5 CL 3(CL 1-) FORMUL 7 SO3 O3 S 2- FORMUL 8 EDO 4(C2 H6 O2) FORMUL 9 PEG C4 H10 O3 FORMUL 11 SO2 O2 S FORMUL 15 HOH *423(H2 O) HELIX 1 AA1 GLN A 14 GLY A 31 1 18 HELIX 2 AA2 ASP A 40 GLY A 55 1 16 HELIX 3 AA3 TRP A 67 ALA A 73 1 7 HELIX 4 AA4 VAL A 80 LEU A 87 1 8 HELIX 5 AA5 GLY A 88 TYR A 93 5 6 HELIX 6 AA6 LEU A 94 ARG A 99 1 6 HELIX 7 AA7 THR A 100 ARG A 102 5 3 HELIX 8 AA8 THR A 125 ALA A 131 1 7 HELIX 9 AA9 ASN A 134 PHE A 139 1 6 HELIX 10 AB1 SER A 141 SER A 155 1 15 HELIX 11 AB2 TRP A 177 ALA A 190 1 14 HELIX 12 AB3 SER A 208 LYS A 224 1 17 HELIX 13 AB4 PRO A 228 LYS A 234 5 7 HELIX 14 AB5 ASN A 235 ALA A 245 1 11 HELIX 15 AB6 PRO A 255 GLN A 262 1 8 HELIX 16 AB7 VAL A 263 GLY A 268 5 6 HELIX 17 AB8 ARG A 273 ASN A 278 1 6 HELIX 18 AB9 ASN A 308 GLY A 321 1 14 HELIX 19 AC1 GLY A 321 GLY A 333 1 13 HELIX 20 AC2 LEU A 338 SER A 343 5 6 HELIX 21 AC3 ASP A 344 GLN A 349 1 6 HELIX 22 AC4 ASN A 350 ALA A 360 1 11 HELIX 23 AC5 GLY A 371 GLN A 392 1 22 HELIX 24 AC6 THR A 396 HIS A 417 1 22 HELIX 25 AC7 GLN B 14 GLY B 31 1 18 HELIX 26 AC8 ASP B 40 GLY B 55 1 16 HELIX 27 AC9 TRP B 67 ALA B 73 1 7 HELIX 28 AD1 VAL B 80 LEU B 87 1 8 HELIX 29 AD2 GLY B 88 TYR B 93 5 6 HELIX 30 AD3 LEU B 94 ARG B 99 1 6 HELIX 31 AD4 THR B 100 ARG B 102 5 3 HELIX 32 AD5 THR B 125 ALA B 131 1 7 HELIX 33 AD6 ASN B 134 PHE B 139 1 6 HELIX 34 AD7 SER B 141 SER B 155 1 15 HELIX 35 AD8 TRP B 177 ALA B 190 1 14 HELIX 36 AD9 SER B 208 LYS B 224 1 17 HELIX 37 AE1 PRO B 228 LYS B 234 5 7 HELIX 38 AE2 ASN B 235 ALA B 245 1 11 HELIX 39 AE3 PRO B 255 ALA B 261 1 7 HELIX 40 AE4 GLN B 262 VAL B 263 5 2 HELIX 41 AE5 PRO B 264 GLY B 268 5 5 HELIX 42 AE6 ARG B 273 LYS B 277 5 5 HELIX 43 AE7 ASN B 308 GLY B 321 1 14 HELIX 44 AE8 GLY B 321 GLY B 333 1 13 HELIX 45 AE9 LEU B 338 GLN B 348 5 11 HELIX 46 AF1 ASN B 350 ALA B 359 1 10 HELIX 47 AF2 GLY B 371 GLN B 392 1 22 HELIX 48 AF3 THR B 396 HIS B 417 1 22 SHEET 1 AA1 6 GLU A 33 VAL A 38 0 SHEET 2 AA1 6 THR A 3 ILE A 8 1 N LEU A 4 O LYS A 35 SHEET 3 AA1 6 LEU A 60 GLY A 64 1 O GLN A 62 N TRP A 7 SHEET 4 AA1 6 THR A 293 LEU A 302 -1 O ASN A 299 N LEU A 63 SHEET 5 AA1 6 VAL A 112 LEU A 118 -1 N GLU A 117 O GLY A 296 SHEET 6 AA1 6 LEU A 335 PRO A 336 -1 O LEU A 335 N SER A 116 SHEET 1 AA2 5 GLU A 33 VAL A 38 0 SHEET 2 AA2 5 THR A 3 ILE A 8 1 N LEU A 4 O LYS A 35 SHEET 3 AA2 5 LEU A 60 GLY A 64 1 O GLN A 62 N TRP A 7 SHEET 4 AA2 5 THR A 293 LEU A 302 -1 O ASN A 299 N LEU A 63 SHEET 5 AA2 5 GLY A 363 ARG A 364 1 O ARG A 364 N THR A 293 SHEET 1 AA3 3 VAL A 250 SER A 253 0 SHEET 2 AA3 3 ALA A 120 ARG A 124 -1 N TYR A 122 O PHE A 251 SHEET 3 AA3 3 LEU A 279 ALA A 282 -1 O GLY A 280 N TYR A 123 SHEET 1 AA4 2 VAL A 195 GLN A 197 0 SHEET 2 AA4 2 TRP A 202 SER A 204 -1 O GLN A 203 N ARG A 196 SHEET 1 AA5 6 GLU B 33 VAL B 38 0 SHEET 2 AA5 6 THR B 3 ILE B 8 1 N LEU B 4 O LYS B 35 SHEET 3 AA5 6 LEU B 60 GLY B 64 1 O GLN B 62 N TRP B 7 SHEET 4 AA5 6 THR B 293 LEU B 302 -1 O ASN B 299 N LEU B 63 SHEET 5 AA5 6 VAL B 112 LEU B 118 -1 N GLU B 117 O GLY B 296 SHEET 6 AA5 6 LEU B 335 PRO B 336 -1 O LEU B 335 N SER B 116 SHEET 1 AA6 5 GLU B 33 VAL B 38 0 SHEET 2 AA6 5 THR B 3 ILE B 8 1 N LEU B 4 O LYS B 35 SHEET 3 AA6 5 LEU B 60 GLY B 64 1 O GLN B 62 N TRP B 7 SHEET 4 AA6 5 THR B 293 LEU B 302 -1 O ASN B 299 N LEU B 63 SHEET 5 AA6 5 GLY B 363 ARG B 364 1 O ARG B 364 N THR B 293 SHEET 1 AA7 3 VAL B 250 SER B 253 0 SHEET 2 AA7 3 ALA B 120 ARG B 124 -1 N TYR B 122 O PHE B 251 SHEET 3 AA7 3 LEU B 279 ALA B 282 -1 O ALA B 282 N PHE B 121 SHEET 1 AA8 2 VAL B 195 ALA B 198 0 SHEET 2 AA8 2 ARG B 201 SER B 204 -1 O GLN B 203 N ARG B 196 SSBOND 1 CYS A 170 CYS A 248 1555 1555 2.14 SSBOND 2 CYS B 170 CYS B 248 1555 1555 2.11 LINK O4 GLC C 1 C1 BGC C 2 1555 1555 1.40 LINK O4 GLC D 1 C1 BGC D 2 1555 1555 1.41 CRYST1 64.240 110.820 110.910 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 0.015567 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009024 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009016 0.00000