HEADER HYDROLASE 28-APR-08 3CZ8 TITLE CRYSTAL STRUCTURE OF PUTATIVE SPORULATION-SPECIFIC GLYCOSYLASE YDHD TITLE 2 FROM BACILLUS SUBTILIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE SPORULATION-SPECIFIC GLYCOSYLASE YDHD; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 96-403; COMPND 5 EC: 3.2.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168; SOURCE 3 ORGANISM_TAXID: 224308; SOURCE 4 STRAIN: 168 / JH642; SOURCE 5 GENE: YDHD, BSU05710; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC) KEYWDS STRUCTURAL GENOMICS, UNCHARACTERIZED PROTEIN, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, PSI-2, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, NYSGXRC, CARBOHYDRATE METABOLISM, GLYCOSIDASE, HYDROLASE, KEYWDS 4 POLYSACCHARIDE DEGRADATION, SPORULATION EXPDTA X-RAY DIFFRACTION AUTHOR Y.PATSKOVSKY,R.ROMERO,M.RUTTER,S.CHANG,M.MALETIC,D.SMITH, AUTHOR 2 S.R.WASSERMAN,J.M.SAUDER,S.K.BURLEY,S.C.ALMO,NEW YORK SGX RESEARCH AUTHOR 3 CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 10 21-FEB-24 3CZ8 1 REMARK REVDAT 9 20-OCT-21 3CZ8 1 SEQADV SHEET REVDAT 8 03-FEB-21 3CZ8 1 AUTHOR JRNL REMARK SEQADV REVDAT 7 14-NOV-18 3CZ8 1 AUTHOR REVDAT 6 25-OCT-17 3CZ8 1 REMARK REVDAT 5 13-JUL-11 3CZ8 1 VERSN REVDAT 4 09-JUN-09 3CZ8 1 REVDAT REVDAT 3 24-FEB-09 3CZ8 1 VERSN REVDAT 2 23-DEC-08 3CZ8 1 AUTHOR KEYWDS REVDAT 1 27-MAY-08 3CZ8 0 JRNL AUTH Y.PATSKOVSKY,R.ROMERO,M.RUTTER,S.CHANG,M.MALETIC,D.SMITH, JRNL AUTH 2 S.R.WASSERMAN,J.M.SAUDER,S.K.BURLEY,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE GLYCOSYLASE YDHD FROM BACILLUS JRNL TITL 2 SUBTILIS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0034 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 37618 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1212 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2761 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 84 REMARK 3 BIN FREE R VALUE : 0.3330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4768 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 192 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.65000 REMARK 3 B22 (A**2) : 0.65000 REMARK 3 B33 (A**2) : -0.97000 REMARK 3 B12 (A**2) : 0.32000 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): 0.240 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.212 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.171 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.780 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5096 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6978 ; 1.301 ; 1.941 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 644 ; 9.453 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 250 ;33.267 ;22.960 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 781 ;17.194 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;14.094 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 765 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3984 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2372 ; 0.133 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3480 ; 0.303 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 464 ; 0.163 ; 0.500 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): 35 ; 0.083 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 11 ; 0.175 ; 0.500 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): 3139 ; 5.503 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5002 ; 7.339 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2256 ;10.551 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1954 ;12.974 ; 6.000 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 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 96 A 402 1 REMARK 3 1 B 96 B 402 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 2265 ; 0.44 ; 0.50 REMARK 3 TIGHT THERMAL 1 B (A**2): 2265 ; 8.45 ; 5.00 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 3CZ8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000047391. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 77.0 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 : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41723 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -0.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.2000 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 (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.74000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM SODIUM CACODYLATE PH 7.0, 1.2M REMARK 280 SODIUM ACETATE, 10% GLYCEROL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 125.36067 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 62.68033 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 94.02050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 31.34017 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 156.70083 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: 4430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.7 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 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 93 REMARK 465 SER A 94 REMARK 465 LEU A 95 REMARK 465 ARG A 115 REMARK 465 GLU A 116 REMARK 465 LEU A 117 REMARK 465 ILE A 118 REMARK 465 ASN A 119 REMARK 465 ASP A 120 REMARK 465 GLU A 404 REMARK 465 GLY A 405 REMARK 465 HIS A 406 REMARK 465 HIS A 407 REMARK 465 HIS A 408 REMARK 465 HIS A 409 REMARK 465 HIS A 410 REMARK 465 HIS A 411 REMARK 465 MET B 93 REMARK 465 SER B 94 REMARK 465 LEU B 95 REMARK 465 ARG B 115 REMARK 465 GLU B 116 REMARK 465 LEU B 117 REMARK 465 ILE B 118 REMARK 465 ASN B 119 REMARK 465 ASP B 120 REMARK 465 TYR B 121 REMARK 465 ALA B 122 REMARK 465 PRO B 123 REMARK 465 TYR B 124 REMARK 465 GLU B 404 REMARK 465 GLY B 405 REMARK 465 HIS B 406 REMARK 465 HIS B 407 REMARK 465 HIS B 408 REMARK 465 HIS B 409 REMARK 465 HIS B 410 REMARK 465 HIS B 411 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 ASN A 167 44.28 -105.00 REMARK 500 THR A 169 -168.97 -123.98 REMARK 500 PRO A 323 90.08 20.24 REMARK 500 ASN B 167 48.44 -103.52 REMARK 500 THR B 169 -157.38 -129.13 REMARK 500 PRO B 323 90.68 20.74 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 PHE A 131 GLU A 132 -47.61 REMARK 500 ILE A 322 PRO A 323 -110.34 REMARK 500 PHE B 131 GLU B 132 -41.74 REMARK 500 ILE B 322 PRO B 323 -112.82 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 GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 508 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11097P RELATED DB: TARGETDB DBREF 3CZ8 A 96 402 UNP O05495 YDHD_BACSU 96 403 DBREF 3CZ8 B 96 402 UNP O05495 YDHD_BACSU 96 403 SEQADV 3CZ8 MET A 93 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 SER A 94 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 LEU A 95 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 GLY A 376 UNP O05495 ASP 376 ENGINEERED MUTATION SEQADV 3CZ8 GLU A 404 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 GLY A 405 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS A 406 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS A 407 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS A 408 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS A 409 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS A 410 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS A 411 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 MET B 93 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 SER B 94 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 LEU B 95 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 GLY B 376 UNP O05495 ASP 376 ENGINEERED MUTATION SEQADV 3CZ8 GLU B 404 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 GLY B 405 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS B 406 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS B 407 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS B 408 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS B 409 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS B 410 UNP O05495 EXPRESSION TAG SEQADV 3CZ8 HIS B 411 UNP O05495 EXPRESSION TAG SEQRES 1 A 319 MET SER LEU SER ASN TYR ILE ALA GLY THR LEU SER PHE SEQRES 2 A 319 TYR VAL LEU ARG ASN PRO ASP LEU ASP ARG GLU LEU ILE SEQRES 3 A 319 ASN ASP TYR ALA PRO TYR SER SER SER ILE SER ILE PHE SEQRES 4 A 319 GLU TYR HIS ILE ALA PRO ASN GLY ASP ILE ALA ASN GLN SEQRES 5 A 319 LEU ASN ASP ALA ALA ALA ILE GLU THR THR TRP GLN ARG SEQRES 6 A 319 ARG VAL THR PRO LEU ALA THR ILE THR ASN LEU THR SER SEQRES 7 A 319 GLY GLY PHE SER THR GLU ILE VAL HIS GLN VAL LEU ASN SEQRES 8 A 319 ASN PRO THR ALA ARG THR ASN LEU VAL ASN ASN ILE TYR SEQRES 9 A 319 ASP LEU VAL SER THR ARG GLY TYR GLY GLY VAL THR ILE SEQRES 10 A 319 ASP PHE GLU GLN VAL SER ALA ALA ASP ARG ASP LEU PHE SEQRES 11 A 319 THR GLY PHE LEU ARG GLN LEU ARG ASP ARG LEU GLN ALA SEQRES 12 A 319 GLY GLY TYR VAL LEU THR ILE ALA VAL PRO ALA LYS THR SEQRES 13 A 319 SER ASP ASN ILE PRO TRP LEU ARG GLY TYR ASP TYR GLY SEQRES 14 A 319 GLY ILE GLY ALA VAL VAL ASN TYR MET PHE ILE MET ALA SEQRES 15 A 319 TYR ASP TRP HIS HIS ALA GLY SER GLU PRO GLY PRO VAL SEQRES 16 A 319 ALA PRO ILE THR GLU ILE ARG ARG THR ILE GLU PHE THR SEQRES 17 A 319 ILE ALA GLN VAL PRO SER ARG LYS ILE ILE ILE GLY VAL SEQRES 18 A 319 PRO LEU TYR GLY TYR ASP TRP ILE ILE PRO TYR GLN PRO SEQRES 19 A 319 GLY THR VAL ALA SER ALA ILE SER ASN GLN ASN ALA ILE SEQRES 20 A 319 GLU ARG ALA MET ARG TYR GLN ALA PRO ILE GLN TYR SER SEQRES 21 A 319 ALA GLU TYR GLN SER PRO PHE PHE ARG TYR SER ASP GLN SEQRES 22 A 319 GLN GLY ARG THR HIS GLU VAL TRP PHE GLU GLY VAL ARG SEQRES 23 A 319 SER MET SER ARG LYS MET GLN ILE VAL ARG GLU TYR ARG SEQRES 24 A 319 LEU GLN ALA ILE GLY ALA TRP GLN LEU THR LEU ALA GLU SEQRES 25 A 319 GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 319 MET SER LEU SER ASN TYR ILE ALA GLY THR LEU SER PHE SEQRES 2 B 319 TYR VAL LEU ARG ASN PRO ASP LEU ASP ARG GLU LEU ILE SEQRES 3 B 319 ASN ASP TYR ALA PRO TYR SER SER SER ILE SER ILE PHE SEQRES 4 B 319 GLU TYR HIS ILE ALA PRO ASN GLY ASP ILE ALA ASN GLN SEQRES 5 B 319 LEU ASN ASP ALA ALA ALA ILE GLU THR THR TRP GLN ARG SEQRES 6 B 319 ARG VAL THR PRO LEU ALA THR ILE THR ASN LEU THR SER SEQRES 7 B 319 GLY GLY PHE SER THR GLU ILE VAL HIS GLN VAL LEU ASN SEQRES 8 B 319 ASN PRO THR ALA ARG THR ASN LEU VAL ASN ASN ILE TYR SEQRES 9 B 319 ASP LEU VAL SER THR ARG GLY TYR GLY GLY VAL THR ILE SEQRES 10 B 319 ASP PHE GLU GLN VAL SER ALA ALA ASP ARG ASP LEU PHE SEQRES 11 B 319 THR GLY PHE LEU ARG GLN LEU ARG ASP ARG LEU GLN ALA SEQRES 12 B 319 GLY GLY TYR VAL LEU THR ILE ALA VAL PRO ALA LYS THR SEQRES 13 B 319 SER ASP ASN ILE PRO TRP LEU ARG GLY TYR ASP TYR GLY SEQRES 14 B 319 GLY ILE GLY ALA VAL VAL ASN TYR MET PHE ILE MET ALA SEQRES 15 B 319 TYR ASP TRP HIS HIS ALA GLY SER GLU PRO GLY PRO VAL SEQRES 16 B 319 ALA PRO ILE THR GLU ILE ARG ARG THR ILE GLU PHE THR SEQRES 17 B 319 ILE ALA GLN VAL PRO SER ARG LYS ILE ILE ILE GLY VAL SEQRES 18 B 319 PRO LEU TYR GLY TYR ASP TRP ILE ILE PRO TYR GLN PRO SEQRES 19 B 319 GLY THR VAL ALA SER ALA ILE SER ASN GLN ASN ALA ILE SEQRES 20 B 319 GLU ARG ALA MET ARG TYR GLN ALA PRO ILE GLN TYR SER SEQRES 21 B 319 ALA GLU TYR GLN SER PRO PHE PHE ARG TYR SER ASP GLN SEQRES 22 B 319 GLN GLY ARG THR HIS GLU VAL TRP PHE GLU GLY VAL ARG SEQRES 23 B 319 SER MET SER ARG LYS MET GLN ILE VAL ARG GLU TYR ARG SEQRES 24 B 319 LEU GLN ALA ILE GLY ALA TRP GLN LEU THR LEU ALA GLU SEQRES 25 B 319 GLY HIS HIS HIS HIS HIS HIS HET GOL A 501 6 HET GOL A 502 6 HET GOL A 505 6 HET GOL A 506 6 HET GOL B 503 6 HET GOL B 504 6 HET GOL B 507 6 HET GOL B 508 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 8(C3 H8 O3) FORMUL 11 HOH *192(H2 O) HELIX 1 1 PRO A 111 ASP A 114 5 4 HELIX 2 13 PRO B 111 ASP B 114 5 4 SHEET 1 A 2 GLY A 101 ARG A 109 0 SHEET 2 A 2 GLY A 101 ARG A 109 -1 SHEET 1 D 2 ALA B 100 ARG B 109 0 SHEET 2 D 2 ALA B 100 ARG B 109 -1 SITE 1 AC1 4 TYR A 124 SER A 126 SER A 127 THR A 160 SITE 1 AC2 5 LEU A 103 PHE A 173 ASP A 210 GLU A 212 SITE 2 AC2 5 LEU B 402 SITE 1 AC3 2 TYR B 106 SER B 126 SITE 1 AC4 4 LEU B 103 PHE B 131 GLU B 212 TRP B 398 SITE 1 AC5 3 ILE A 339 GLU A 375 GLN B 336 SITE 1 AC6 2 GLN A 399 THR A 401 SITE 1 AC7 3 ALA B 246 MET B 273 TYR B 275 SITE 1 AC8 3 SER B 126 SER B 127 TYR B 269 CRYST1 84.965 84.965 188.041 90.00 90.00 120.00 P 65 12 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 0.011770 0.006795 0.000000 0.00000 SCALE2 0.000000 0.013590 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005318 0.00000