HEADER SUGAR BINDING PROTEIN 18-MAY-07 2PZL TITLE CRYSTAL STRUCTURE OF THE BORDETELLA BRONCHISEPTICA ENZYME WBMG IN TITLE 2 COMPLEX WITH NAD AND UDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE NUCLEOTIDE SUGAR EPIMERASE/ DEHYDRATASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BORDETELLA BRONCHISEPTICA; SOURCE 3 ORGANISM_TAXID: 518; SOURCE 4 GENE: BBLPS1.15, WBMG; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS ROSSMANN FOLD, PROTEIN-NAD COMPLEX, PROTEIN-NUCLEOTIDE COMPLEX, SUGAR KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.D.KING,N.J.HARMER,D.J.MASKELL,T.L.BLUNDELL REVDAT 5 30-AUG-23 2PZL 1 REMARK SEQADV REVDAT 4 12-NOV-14 2PZL 1 KEYWDS REVDAT 3 24-FEB-09 2PZL 1 VERSN REVDAT 2 11-DEC-07 2PZL 1 JRNL REVDAT 1 02-OCT-07 2PZL 0 JRNL AUTH J.D.KING,N.J.HARMER,A.PRESTON,C.M.PALMER,M.REJZEK,R.A.FIELD, JRNL AUTH 2 T.L.BLUNDELL,D.J.MASKELL JRNL TITL PREDICTING PROTEIN FUNCTION FROM STRUCTURE--THE ROLES OF JRNL TITL 2 SHORT-CHAIN DEHYDROGENASE/REDUCTASE ENZYMES IN BORDETELLA JRNL TITL 3 O-ANTIGEN BIOSYNTHESIS. JRNL REF J.MOL.BIOL. V. 374 749 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17950751 JRNL DOI 10.1016/J.JMB.2007.09.055 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH N.J.HARMER,J.D.KING,C.M.PALMER,A.PRESTON,D.J.MASKELL, REMARK 1 AUTH 2 T.L.BLUNDELL REMARK 1 TITL CLONING, EXPRESSION, PURIFICATION AND PRELIMINARY REMARK 1 TITL 2 CRYSTALLOGRAPHIC ANALYSIS OF THE SHORT-CHAIN DEHYDROGENASE REMARK 1 TITL 3 ENZYMES WBMF, WBMG AND WBMH FROM BORDETELLA BRONCHISEPTICA. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 63 711 2007 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 17671375 REMARK 1 DOI 10.1107/S174430910703477X REMARK 2 REMARK 2 RESOLUTION. 2.39 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) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 26162 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1385 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1848 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.2560 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4653 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 130 REMARK 3 SOLVENT ATOMS : 154 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.11000 REMARK 3 B22 (A**2) : 0.18000 REMARK 3 B33 (A**2) : -0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.13000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.403 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.251 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.189 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.064 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4925 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6741 ; 1.593 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 620 ; 7.233 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 185 ;33.398 ;23.946 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 738 ;15.129 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;16.098 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 778 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3685 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2141 ; 0.197 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3329 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 234 ; 0.163 ; 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): 18 ; 0.142 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.192 ; 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): 3149 ; 0.712 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4994 ; 1.274 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1999 ; 1.871 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1745 ; 2.785 ; 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): 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 -1 A 306 5 REMARK 3 1 B -1 B 306 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1217 ; 0.12 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 1079 ; 0.30 ; 5.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1217 ; 0.95 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 1079 ; 1.63 ; 10.00 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: NULL REMARK 4 REMARK 4 2PZL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042962. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.488 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27549 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.390 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 4.470 REMARK 200 R MERGE (I) : 0.10300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.46 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.45 REMARK 200 R MERGE FOR SHELL (I) : 0.32800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.980 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SINGLE WAVELENGTH REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: RELATED PDB ENTRY 2PZK WAS SOLVED BY MAD, AND USED REMARK 200 AS A STARTING MODEL. REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS, 0.2 M MGCL2, 16-18 % (W/W) REMARK 280 PEG 8000. UDP-GLUCOSE WAS ADDED BY SOAKING AT 10 MM PRIOR TO REMARK 280 CRYOPROTECTION. PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K 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 95.61300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.89600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 95.61300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.89600 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 UNIT IS A DIMER, FORMED FROM CHAINS A AND B. 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 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS 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 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 LYS A 309 REMARK 465 THR A 310 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 THR B 245 REMARK 465 LEU B 246 REMARK 465 ALA B 247 REMARK 465 GLU B 248 REMARK 465 ALA B 307 REMARK 465 PRO B 308 REMARK 465 LYS B 309 REMARK 465 THR B 310 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 GLU A 248 CG CD OE1 OE2 REMARK 470 LYS A 283 CD CE NZ 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 NH2 ARG B 122 O ALA B 257 2.18 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 68 76.47 44.62 REMARK 500 TYR A 79 -23.25 -171.79 REMARK 500 VAL A 108 153.50 -48.63 REMARK 500 ALA A 135 48.95 -159.34 REMARK 500 SER B -1 39.38 -143.50 REMARK 500 PRO B 43 82.21 -69.76 REMARK 500 LYS B 68 70.00 54.21 REMARK 500 TYR B 79 -19.38 -168.48 REMARK 500 VAL B 93 -63.28 -92.35 REMARK 500 ALA B 135 48.22 -158.60 REMARK 500 PHE B 137 13.08 -145.65 REMARK 500 MET B 152 0.02 -63.94 REMARK 500 ASP B 193 59.79 -90.94 REMARK 500 ALA B 254 135.36 -27.40 REMARK 500 PRO B 255 88.91 9.69 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 ALA B 254 PRO B 255 87.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 UDP A 402 REMARK 610 UDP B 402 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP B 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2PZK RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE ABSENCE OF NUCLEOTIDE; IDENTICAL CRYSTAL REMARK 900 FORM. DBREF 2PZL A 1 310 UNP O87988 O87988_BORBR 1 310 DBREF 2PZL B 1 310 UNP O87988 O87988_BORBR 1 310 SEQADV 2PZL MET A -19 UNP O87988 EXPRESSION TAG SEQADV 2PZL GLY A -18 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER A -17 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER A -16 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS A -15 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS A -14 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS A -13 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS A -12 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS A -11 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS A -10 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER A -9 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER A -8 UNP O87988 EXPRESSION TAG SEQADV 2PZL GLY A -7 UNP O87988 EXPRESSION TAG SEQADV 2PZL LEU A -6 UNP O87988 EXPRESSION TAG SEQADV 2PZL VAL A -5 UNP O87988 EXPRESSION TAG SEQADV 2PZL PRO A -4 UNP O87988 EXPRESSION TAG SEQADV 2PZL ARG A -3 UNP O87988 EXPRESSION TAG SEQADV 2PZL GLY A -2 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER A -1 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS A 0 UNP O87988 EXPRESSION TAG SEQADV 2PZL MET B -19 UNP O87988 EXPRESSION TAG SEQADV 2PZL GLY B -18 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER B -17 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER B -16 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS B -15 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS B -14 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS B -13 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS B -12 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS B -11 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS B -10 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER B -9 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER B -8 UNP O87988 EXPRESSION TAG SEQADV 2PZL GLY B -7 UNP O87988 EXPRESSION TAG SEQADV 2PZL LEU B -6 UNP O87988 EXPRESSION TAG SEQADV 2PZL VAL B -5 UNP O87988 EXPRESSION TAG SEQADV 2PZL PRO B -4 UNP O87988 EXPRESSION TAG SEQADV 2PZL ARG B -3 UNP O87988 EXPRESSION TAG SEQADV 2PZL GLY B -2 UNP O87988 EXPRESSION TAG SEQADV 2PZL SER B -1 UNP O87988 EXPRESSION TAG SEQADV 2PZL HIS B 0 UNP O87988 EXPRESSION TAG SEQRES 1 A 330 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 330 LEU VAL PRO ARG GLY SER HIS MET ARG ILE LEU ILE THR SEQRES 3 A 330 GLY GLY ALA GLY CYS LEU GLY SER ASN LEU ILE GLU HIS SEQRES 4 A 330 TRP LEU PRO GLN GLY HIS GLU ILE LEU VAL ILE ASP ASN SEQRES 5 A 330 PHE ALA THR GLY LYS ARG GLU VAL LEU PRO PRO VAL ALA SEQRES 6 A 330 GLY LEU SER VAL ILE GLU GLY SER VAL THR ASP ALA GLY SEQRES 7 A 330 LEU LEU GLU ARG ALA PHE ASP SER PHE LYS PRO THR HIS SEQRES 8 A 330 VAL VAL HIS SER ALA ALA ALA TYR LYS ASP PRO ASP ASP SEQRES 9 A 330 TRP ALA GLU ASP ALA ALA THR ASN VAL GLN GLY SER ILE SEQRES 10 A 330 ASN VAL ALA LYS ALA ALA SER LYS ALA GLY VAL LYS ARG SEQRES 11 A 330 LEU LEU ASN PHE GLN THR ALA LEU CYS TYR GLY ARG PRO SEQRES 12 A 330 ALA THR VAL PRO ILE PRO ILE ASP SER PRO THR ALA PRO SEQRES 13 A 330 PHE THR SER TYR GLY ILE SER LYS THR ALA GLY GLU ALA SEQRES 14 A 330 PHE LEU MET MET SER ASP VAL PRO VAL VAL SER LEU ARG SEQRES 15 A 330 LEU ALA ASN VAL THR GLY PRO ARG LEU ALA ILE GLY PRO SEQRES 16 A 330 ILE PRO THR PHE TYR LYS ARG LEU LYS ALA GLY GLN LYS SEQRES 17 A 330 CYS PHE CYS SER ASP THR VAL ARG ASP PHE LEU ASP MET SEQRES 18 A 330 SER ASP PHE LEU ALA ILE ALA ASP LEU SER LEU GLN GLU SEQRES 19 A 330 GLY ARG PRO THR GLY VAL PHE ASN VAL SER THR GLY GLU SEQRES 20 A 330 GLY HIS SER ILE LYS GLU VAL PHE ASP VAL VAL LEU ASP SEQRES 21 A 330 TYR VAL GLY ALA THR LEU ALA GLU PRO VAL PRO VAL VAL SEQRES 22 A 330 ALA PRO GLY ALA ASP ASP VAL PRO SER VAL VAL LEU ASP SEQRES 23 A 330 PRO SER LYS THR GLU THR GLU PHE GLY TRP LYS ALA LYS SEQRES 24 A 330 VAL ASP PHE LYS ASP THR ILE THR GLY GLN LEU ALA TRP SEQRES 25 A 330 TYR ASP LYS TYR GLY VAL THR ASP ILE PHE SER HIS LEU SEQRES 26 A 330 SER ALA PRO LYS THR SEQRES 1 B 330 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 330 LEU VAL PRO ARG GLY SER HIS MET ARG ILE LEU ILE THR SEQRES 3 B 330 GLY GLY ALA GLY CYS LEU GLY SER ASN LEU ILE GLU HIS SEQRES 4 B 330 TRP LEU PRO GLN GLY HIS GLU ILE LEU VAL ILE ASP ASN SEQRES 5 B 330 PHE ALA THR GLY LYS ARG GLU VAL LEU PRO PRO VAL ALA SEQRES 6 B 330 GLY LEU SER VAL ILE GLU GLY SER VAL THR ASP ALA GLY SEQRES 7 B 330 LEU LEU GLU ARG ALA PHE ASP SER PHE LYS PRO THR HIS SEQRES 8 B 330 VAL VAL HIS SER ALA ALA ALA TYR LYS ASP PRO ASP ASP SEQRES 9 B 330 TRP ALA GLU ASP ALA ALA THR ASN VAL GLN GLY SER ILE SEQRES 10 B 330 ASN VAL ALA LYS ALA ALA SER LYS ALA GLY VAL LYS ARG SEQRES 11 B 330 LEU LEU ASN PHE GLN THR ALA LEU CYS TYR GLY ARG PRO SEQRES 12 B 330 ALA THR VAL PRO ILE PRO ILE ASP SER PRO THR ALA PRO SEQRES 13 B 330 PHE THR SER TYR GLY ILE SER LYS THR ALA GLY GLU ALA SEQRES 14 B 330 PHE LEU MET MET SER ASP VAL PRO VAL VAL SER LEU ARG SEQRES 15 B 330 LEU ALA ASN VAL THR GLY PRO ARG LEU ALA ILE GLY PRO SEQRES 16 B 330 ILE PRO THR PHE TYR LYS ARG LEU LYS ALA GLY GLN LYS SEQRES 17 B 330 CYS PHE CYS SER ASP THR VAL ARG ASP PHE LEU ASP MET SEQRES 18 B 330 SER ASP PHE LEU ALA ILE ALA ASP LEU SER LEU GLN GLU SEQRES 19 B 330 GLY ARG PRO THR GLY VAL PHE ASN VAL SER THR GLY GLU SEQRES 20 B 330 GLY HIS SER ILE LYS GLU VAL PHE ASP VAL VAL LEU ASP SEQRES 21 B 330 TYR VAL GLY ALA THR LEU ALA GLU PRO VAL PRO VAL VAL SEQRES 22 B 330 ALA PRO GLY ALA ASP ASP VAL PRO SER VAL VAL LEU ASP SEQRES 23 B 330 PRO SER LYS THR GLU THR GLU PHE GLY TRP LYS ALA LYS SEQRES 24 B 330 VAL ASP PHE LYS ASP THR ILE THR GLY GLN LEU ALA TRP SEQRES 25 B 330 TYR ASP LYS TYR GLY VAL THR ASP ILE PHE SER HIS LEU SEQRES 26 B 330 SER ALA PRO LYS THR HET NAD A 401 44 HET UDP A 402 21 HET NAD B 401 44 HET UDP B 402 21 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM UDP URIDINE-5'-DIPHOSPHATE FORMUL 3 NAD 2(C21 H27 N7 O14 P2) FORMUL 4 UDP 2(C9 H14 N2 O12 P2) FORMUL 7 HOH *154(H2 O) HELIX 1 1 GLY A 10 LEU A 21 1 12 HELIX 2 2 PRO A 22 GLY A 24 5 3 HELIX 3 3 LYS A 37 LEU A 41 5 5 HELIX 4 4 ASP A 56 LYS A 68 1 13 HELIX 5 5 ASP A 84 VAL A 93 1 10 HELIX 6 6 VAL A 93 ALA A 106 1 14 HELIX 7 7 LEU A 118 GLY A 121 5 4 HELIX 8 8 THR A 138 MET A 152 1 15 HELIX 9 9 GLY A 174 ALA A 185 1 12 HELIX 10 10 MET A 201 LEU A 212 1 12 HELIX 11 11 ILE A 231 GLY A 243 1 13 HELIX 12 12 PRO A 267 GLY A 275 1 9 HELIX 13 13 ASP A 281 GLY A 297 1 17 HELIX 14 14 GLY B 10 LEU B 21 1 12 HELIX 15 15 PRO B 22 GLY B 24 5 3 HELIX 16 16 LYS B 37 LEU B 41 5 5 HELIX 17 17 ASP B 56 LYS B 68 1 13 HELIX 18 18 ASP B 84 VAL B 93 1 10 HELIX 19 19 VAL B 93 ALA B 106 1 14 HELIX 20 20 LEU B 118 GLY B 121 5 4 HELIX 21 21 THR B 138 MET B 152 1 15 HELIX 22 22 GLY B 174 ALA B 185 1 12 HELIX 23 23 MET B 201 LEU B 212 1 12 HELIX 24 24 ILE B 231 GLY B 243 1 13 HELIX 25 25 PRO B 267 GLY B 275 1 9 HELIX 26 26 ASP B 281 GLY B 297 1 17 SHEET 1 A 7 LEU A 47 GLU A 51 0 SHEET 2 A 7 GLU A 26 ASP A 31 1 N VAL A 29 O ILE A 50 SHEET 3 A 7 ARG A 2 THR A 6 1 N ILE A 3 O GLU A 26 SHEET 4 A 7 HIS A 71 HIS A 74 1 O VAL A 73 N LEU A 4 SHEET 5 A 7 ARG A 110 THR A 116 1 O LEU A 112 N VAL A 72 SHEET 6 A 7 VAL A 158 LEU A 163 1 O VAL A 159 N ASN A 113 SHEET 7 A 7 GLY A 219 VAL A 223 1 O VAL A 223 N ARG A 162 SHEET 1 B 2 ASN A 165 THR A 167 0 SHEET 2 B 2 PHE A 198 ASP A 200 1 O LEU A 199 N ASN A 165 SHEET 1 C 2 CYS A 191 SER A 192 0 SHEET 2 C 2 VAL A 252 VAL A 253 1 O VAL A 253 N CYS A 191 SHEET 1 D 3 HIS A 229 SER A 230 0 SHEET 2 D 3 VAL A 195 ARG A 196 -1 N ARG A 196 O HIS A 229 SHEET 3 D 3 SER A 262 VAL A 263 1 O VAL A 263 N VAL A 195 SHEET 1 E 7 LEU B 47 GLU B 51 0 SHEET 2 E 7 GLU B 26 ASP B 31 1 N VAL B 29 O SER B 48 SHEET 3 E 7 ARG B 2 THR B 6 1 N ILE B 3 O GLU B 26 SHEET 4 E 7 HIS B 71 HIS B 74 1 O VAL B 73 N LEU B 4 SHEET 5 E 7 ARG B 110 THR B 116 1 O LEU B 112 N VAL B 72 SHEET 6 E 7 VAL B 158 LEU B 163 1 O LEU B 161 N GLN B 115 SHEET 7 E 7 GLY B 219 VAL B 223 1 O PHE B 221 N ARG B 162 SHEET 1 F 2 ASN B 165 THR B 167 0 SHEET 2 F 2 PHE B 198 ASP B 200 1 O LEU B 199 N THR B 167 SHEET 1 G 2 CYS B 191 SER B 192 0 SHEET 2 G 2 VAL B 252 VAL B 253 1 O VAL B 253 N CYS B 191 SHEET 1 H 2 VAL B 195 ARG B 196 0 SHEET 2 H 2 HIS B 229 SER B 230 -1 O HIS B 229 N ARG B 196 CISPEP 1 VAL A 126 PRO A 127 0 -9.93 CISPEP 2 VAL B -5 PRO B -4 0 -1.40 CISPEP 3 VAL B 126 PRO B 127 0 -6.91 SITE 1 AC1 29 GLY A 7 ALA A 9 GLY A 10 CYS A 11 SITE 2 AC1 29 LEU A 12 ASP A 31 ASN A 32 PHE A 33 SITE 3 AC1 29 ALA A 34 THR A 35 GLY A 36 GLY A 52 SITE 4 AC1 29 SER A 53 VAL A 54 SER A 75 ALA A 76 SITE 5 AC1 29 ALA A 77 TYR A 79 THR A 91 PHE A 114 SITE 6 AC1 29 GLN A 115 THR A 116 TYR A 140 LYS A 144 SITE 7 AC1 29 ALA A 164 VAL A 166 HOH A 418 HOH A 462 SITE 8 AC1 29 HOH A 483 SITE 1 AC2 28 GLY B 7 ALA B 9 GLY B 10 CYS B 11 SITE 2 AC2 28 LEU B 12 ASP B 31 ASN B 32 PHE B 33 SITE 3 AC2 28 ALA B 34 THR B 35 GLY B 36 GLY B 52 SITE 4 AC2 28 SER B 53 VAL B 54 SER B 75 ALA B 76 SITE 5 AC2 28 ALA B 77 TYR B 79 THR B 91 PHE B 114 SITE 6 AC2 28 GLN B 115 TYR B 140 LYS B 144 ALA B 164 SITE 7 AC2 28 ASN B 165 VAL B 166 HOH B 409 HOH B 427 SITE 1 AC3 8 PRO A 175 PHE A 190 CYS A 191 SER A 192 SITE 2 AC3 8 THR A 194 ILE A 231 ASP A 259 HOH A 405 SITE 1 AC4 9 THR B 178 PHE B 179 PHE B 190 CYS B 191 SITE 2 AC4 9 SER B 192 THR B 194 ILE B 231 ASP B 259 SITE 3 AC4 9 HOH B 456 CRYST1 191.226 49.792 75.912 90.00 101.12 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 0.005229 0.000000 0.001028 0.00000 SCALE2 0.000000 0.020084 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013425 0.00000