HEADER TRANSFERASE 01-DEC-03 1VH3 TITLE CRYSTAL STRUCTURE OF CMP-KDO SYNTHETASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-DEOXY-MANNO-OCTULOSONATE CYTIDYLYLTRANSFERASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: CMP-KDO SYNTHETASE, CMP-2-KETO-3-DEOXYOCTULOSONIC ACID COMPND 5 SYNTHETASE, CKS; COMPND 6 EC: 2.7.7.38; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HAEMOPHILUS INFLUENZAE; SOURCE 3 ORGANISM_TAXID: 727; SOURCE 4 GENE: KDSB, HI0058; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STRUCTURAL GENOMICS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR STRUCTURAL GENOMIX REVDAT 5 09-OCT-24 1VH3 1 REMARK REVDAT 4 27-DEC-23 1VH3 1 REMARK LINK REVDAT 3 24-FEB-09 1VH3 1 VERSN REVDAT 2 30-AUG-05 1VH3 1 JRNL REVDAT 1 30-DEC-03 1VH3 0 JRNL AUTH J.BADGER,J.M.SAUDER,J.M.ADAMS,S.ANTONYSAMY,K.BAIN, JRNL AUTH 2 M.G.BERGSEID,S.G.BUCHANAN,M.D.BUCHANAN,Y.BATIYENKO, JRNL AUTH 3 J.A.CHRISTOPHER,S.EMTAGE,A.EROSHKINA,I.FEIL,E.B.FURLONG, JRNL AUTH 4 K.S.GAJIWALA,X.GAO,D.HE,J.HENDLE,A.HUBER,K.HODA,P.KEARINS, JRNL AUTH 5 C.KISSINGER,B.LAUBERT,H.A.LEWIS,J.LIN,K.LOOMIS,D.LORIMER, JRNL AUTH 6 G.LOUIE,M.MALETIC,C.D.MARSH,I.MILLER,J.MOLINARI, JRNL AUTH 7 H.J.MULLER-DIECKMANN,J.M.NEWMAN,B.W.NOLAND,B.PAGARIGAN, JRNL AUTH 8 F.PARK,T.S.PEAT,K.W.POST,S.RADOJICIC,A.RAMOS,R.ROMERO, JRNL AUTH 9 M.E.RUTTER,W.E.SANDERSON,K.D.SCHWINN,J.TRESSER,J.WINHOVEN, JRNL AUTH10 T.A.WRIGHT,L.WU,J.XU,T.J.HARRIS JRNL TITL STRUCTURAL ANALYSIS OF A SET OF PROTEINS RESULTING FROM A JRNL TITL 2 BACTERIAL GENOMICS PROJECT JRNL REF PROTEINS V. 60 787 2005 JRNL REFN ISSN 0887-3585 JRNL PMID 16021622 JRNL DOI 10.1002/PROT.20541 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 4.0 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 22724 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.256 REMARK 3 FREE R VALUE : 0.307 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1162 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5278 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 72 REMARK 3 SOLVENT ATOMS : 94 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.06200 REMARK 3 B22 (A**2) : 0.58300 REMARK 3 B33 (A**2) : 0.48000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.031 ; NULL REMARK 3 ANGLE DISTANCE (A) : 2.337 ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.044 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.135 ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 3.388 ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.252 ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.311 ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : 1.912 ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.971 ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1VH3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000001862. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 32-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795, 0.9641 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22726 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 19.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 3.580 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.12500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SE-MET MAD PHASING REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 88.74000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.14050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 88.74000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.14050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 MSE A 1 REMARK 465 PHE A 11 REMARK 465 ALA A 12 REMARK 465 SER A 13 REMARK 465 SER A 14 REMARK 465 ARG A 15 REMARK 465 LEU A 16 REMARK 465 PRO A 17 REMARK 465 GLY A 18 REMARK 465 LYS A 19 REMARK 465 PRO A 20 REMARK 465 LEU A 21 REMARK 465 ALA A 22 REMARK 465 ASP A 23 REMARK 465 ILE A 24 REMARK 465 LYS A 25 REMARK 465 GLY A 26 REMARK 465 LYS A 27 REMARK 465 ALA A 230 REMARK 465 LYS A 231 REMARK 465 GLU A 232 REMARK 465 VAL A 233 REMARK 465 PRO A 234 REMARK 465 ALA A 235 REMARK 465 VAL A 236 REMARK 465 GLY A 237 REMARK 465 VAL A 238 REMARK 465 ASP A 239 REMARK 465 THR A 240 REMARK 465 ALA A 241 REMARK 465 GLU A 242 REMARK 465 ASP A 243 REMARK 465 LEU A 244 REMARK 465 GLU A 245 REMARK 465 LYS A 246 REMARK 465 VAL A 247 REMARK 465 ARG A 248 REMARK 465 ALA A 249 REMARK 465 ILE A 250 REMARK 465 LEU A 251 REMARK 465 ALA A 252 REMARK 465 ALA A 253 REMARK 465 ASN A 254 REMARK 465 GLY A 255 REMARK 465 SER A 256 REMARK 465 HIS A 257 REMARK 465 HIS A 258 REMARK 465 HIS A 259 REMARK 465 HIS A 260 REMARK 465 HIS A 261 REMARK 465 HIS A 262 REMARK 465 MSE B 1 REMARK 465 SER B 13 REMARK 465 SER B 14 REMARK 465 ILE B 250 REMARK 465 LEU B 251 REMARK 465 ALA B 252 REMARK 465 ALA B 253 REMARK 465 ASN B 254 REMARK 465 GLY B 255 REMARK 465 SER B 256 REMARK 465 HIS B 257 REMARK 465 HIS B 258 REMARK 465 HIS B 259 REMARK 465 HIS B 260 REMARK 465 HIS B 261 REMARK 465 HIS B 262 REMARK 465 MSE C 1 REMARK 465 MSE C 168 REMARK 465 ASN C 169 REMARK 465 LEU C 170 REMARK 465 GLN C 171 REMARK 465 ASP C 172 REMARK 465 VAL C 173 REMARK 465 GLN C 174 REMARK 465 LYS C 175 REMARK 465 VAL C 176 REMARK 465 GLN C 177 REMARK 465 ILE C 250 REMARK 465 LEU C 251 REMARK 465 ALA C 252 REMARK 465 ALA C 253 REMARK 465 ASN C 254 REMARK 465 GLY C 255 REMARK 465 SER C 256 REMARK 465 HIS C 257 REMARK 465 HIS C 258 REMARK 465 HIS C 259 REMARK 465 HIS C 260 REMARK 465 HIS C 261 REMARK 465 HIS C 262 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 A 36 CG CD CE NZ REMARK 470 GLU A 84 CG CD OE1 OE2 REMARK 470 ARG A 110 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 111 CG CD OE1 NE2 REMARK 470 LYS A 129 CD CE NZ REMARK 470 GLN A 201 CD OE1 NE2 REMARK 470 ARG B 15 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 16 CG CD1 CD2 REMARK 470 ILE B 24 CG1 CG2 CD1 REMARK 470 LYS B 25 CG CD CE NZ REMARK 470 LYS B 27 CG CD CE NZ REMARK 470 ARG B 110 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 171 CG CD OE1 NE2 REMARK 470 GLN B 174 CG CD OE1 NE2 REMARK 470 GLU B 232 CG CD OE1 OE2 REMARK 470 ALA B 235 CB REMARK 470 VAL B 236 CB CG1 CG2 REMARK 470 ASP B 239 CB CG OD1 OD2 REMARK 470 THR B 240 CB OG1 CG2 REMARK 470 ALA B 241 CB REMARK 470 ASP B 243 CB CG OD1 OD2 REMARK 470 GLU B 245 CG CD OE1 OE2 REMARK 470 LYS B 246 CG CD CE NZ REMARK 470 VAL B 247 CB CG1 CG2 REMARK 470 ARG B 248 CB CG CD NE CZ NH1 NH2 REMARK 470 ARG C 10 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 25 CG CD CE NZ REMARK 470 SER C 69 OG REMARK 470 ASN C 71 CG OD1 ND2 REMARK 470 GLU C 77 CG CD OE1 OE2 REMARK 470 ARG C 78 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 84 CD OE1 OE2 REMARK 470 LYS C 129 CG CD CE NZ REMARK 470 GLU C 134 CB CG CD OE1 OE2 REMARK 470 GLU C 135 CG CD OE1 OE2 REMARK 470 LEU C 136 CG CD1 CD2 REMARK 470 TYR C 162 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG C 164 CG CD NE CZ NH1 NH2 REMARK 470 GLN C 166 CG CD OE1 NE2 REMARK 470 PHE C 167 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG C 184 CG CD NE CZ NH1 NH2 REMARK 470 VAL C 200 CG1 CG2 REMARK 470 LEU C 210 CG CD1 CD2 REMARK 470 GLU C 211 CB CG CD OE1 OE2 REMARK 470 GLU C 214 CG CD OE1 OE2 REMARK 470 ARG C 217 CD NE CZ NH1 NH2 REMARK 470 ARG C 224 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 242 CG CD OE1 OE2 REMARK 470 LYS C 246 CG CD CE NZ 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 LEU A 103 CA - CB - CG ANGL. DEV. = 15.4 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 ARG A 44 128.89 -173.70 REMARK 500 ASN A 71 68.15 -68.26 REMARK 500 PRO A 105 108.71 -52.07 REMARK 500 TYR A 154 149.65 -171.51 REMARK 500 ILE B 24 -88.61 -89.41 REMARK 500 LYS B 25 -97.08 -88.95 REMARK 500 LYS B 27 155.72 176.91 REMARK 500 HIS B 32 -70.22 -49.82 REMARK 500 GLN B 39 1.47 -66.54 REMARK 500 PHE B 61 2.64 -69.85 REMARK 500 LEU B 103 43.39 -96.24 REMARK 500 ASN B 120 69.13 -69.87 REMARK 500 GLN B 171 -65.28 -102.48 REMARK 500 LYS B 212 39.06 70.89 REMARK 500 ARG C 10 104.17 -55.21 REMARK 500 ASN C 91 34.70 -99.16 REMARK 500 PRO C 139 24.13 -74.42 REMARK 500 GLN C 166 -90.51 -60.73 REMARK 500 ASP C 180 33.04 -95.06 REMARK 500 ASP C 239 0.91 -150.88 REMARK 500 ARG C 248 4.69 -66.43 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 CMK A 263 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CMK B 263 DBREF 1VH3 A 2 254 UNP P44490 KDSB_HAEIN 1 253 DBREF 1VH3 B 2 254 UNP P44490 KDSB_HAEIN 1 253 DBREF 1VH3 C 2 254 UNP P44490 KDSB_HAEIN 1 253 SEQADV 1VH3 MSE A 1 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 MSE A 29 UNP P44490 MET 28 MODIFIED RESIDUE SEQADV 1VH3 MSE A 67 UNP P44490 MET 66 MODIFIED RESIDUE SEQADV 1VH3 MSE A 123 UNP P44490 MET 122 MODIFIED RESIDUE SEQADV 1VH3 MSE A 168 UNP P44490 MET 167 MODIFIED RESIDUE SEQADV 1VH3 GLY A 255 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 SER A 256 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS A 257 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS A 258 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS A 259 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS A 260 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS A 261 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS A 262 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 MSE B 1 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 MSE B 29 UNP P44490 MET 28 MODIFIED RESIDUE SEQADV 1VH3 MSE B 67 UNP P44490 MET 66 MODIFIED RESIDUE SEQADV 1VH3 MSE B 123 UNP P44490 MET 122 MODIFIED RESIDUE SEQADV 1VH3 MSE B 168 UNP P44490 MET 167 MODIFIED RESIDUE SEQADV 1VH3 GLY B 255 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 SER B 256 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS B 257 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS B 258 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS B 259 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS B 260 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS B 261 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS B 262 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 MSE C 1 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 MSE C 29 UNP P44490 MET 28 MODIFIED RESIDUE SEQADV 1VH3 MSE C 67 UNP P44490 MET 66 MODIFIED RESIDUE SEQADV 1VH3 MSE C 123 UNP P44490 MET 122 MODIFIED RESIDUE SEQADV 1VH3 MSE C 168 UNP P44490 MET 167 MODIFIED RESIDUE SEQADV 1VH3 GLY C 255 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 SER C 256 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS C 257 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS C 258 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS C 259 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS C 260 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS C 261 UNP P44490 CLONING ARTIFACT SEQADV 1VH3 HIS C 262 UNP P44490 CLONING ARTIFACT SEQRES 1 A 262 MSE SER PHE THR VAL ILE ILE PRO ALA ARG PHE ALA SER SEQRES 2 A 262 SER ARG LEU PRO GLY LYS PRO LEU ALA ASP ILE LYS GLY SEQRES 3 A 262 LYS PRO MSE ILE GLN HIS VAL PHE GLU LYS ALA LEU GLN SEQRES 4 A 262 SER GLY ALA SER ARG VAL ILE ILE ALA THR ASP ASN GLU SEQRES 5 A 262 ASN VAL ALA ASP VAL ALA LYS SER PHE GLY ALA GLU VAL SEQRES 6 A 262 CYS MSE THR SER VAL ASN HIS ASN SER GLY THR GLU ARG SEQRES 7 A 262 LEU ALA GLU VAL VAL GLU LYS LEU ALA ILE PRO ASP ASN SEQRES 8 A 262 GLU ILE ILE VAL ASN ILE GLN GLY ASP GLU PRO LEU ILE SEQRES 9 A 262 PRO PRO VAL ILE VAL ARG GLN VAL ALA ASP ASN LEU ALA SEQRES 10 A 262 LYS PHE ASN VAL ASN MSE ALA SER LEU ALA VAL LYS ILE SEQRES 11 A 262 HIS ASP ALA GLU GLU LEU PHE ASN PRO ASN ALA VAL LYS SEQRES 12 A 262 VAL LEU THR ASP LYS ASP GLY TYR VAL LEU TYR PHE SER SEQRES 13 A 262 ARG SER VAL ILE PRO TYR ASP ARG ASP GLN PHE MSE ASN SEQRES 14 A 262 LEU GLN ASP VAL GLN LYS VAL GLN LEU SER ASP ALA TYR SEQRES 15 A 262 LEU ARG HIS ILE GLY ILE TYR ALA TYR ARG ALA GLY PHE SEQRES 16 A 262 ILE LYS GLN TYR VAL GLN TRP ALA PRO THR GLN LEU GLU SEQRES 17 A 262 ASN LEU GLU LYS LEU GLU GLN LEU ARG VAL LEU TYR ASN SEQRES 18 A 262 GLY GLU ARG ILE HIS VAL GLU LEU ALA LYS GLU VAL PRO SEQRES 19 A 262 ALA VAL GLY VAL ASP THR ALA GLU ASP LEU GLU LYS VAL SEQRES 20 A 262 ARG ALA ILE LEU ALA ALA ASN GLY SER HIS HIS HIS HIS SEQRES 21 A 262 HIS HIS SEQRES 1 B 262 MSE SER PHE THR VAL ILE ILE PRO ALA ARG PHE ALA SER SEQRES 2 B 262 SER ARG LEU PRO GLY LYS PRO LEU ALA ASP ILE LYS GLY SEQRES 3 B 262 LYS PRO MSE ILE GLN HIS VAL PHE GLU LYS ALA LEU GLN SEQRES 4 B 262 SER GLY ALA SER ARG VAL ILE ILE ALA THR ASP ASN GLU SEQRES 5 B 262 ASN VAL ALA ASP VAL ALA LYS SER PHE GLY ALA GLU VAL SEQRES 6 B 262 CYS MSE THR SER VAL ASN HIS ASN SER GLY THR GLU ARG SEQRES 7 B 262 LEU ALA GLU VAL VAL GLU LYS LEU ALA ILE PRO ASP ASN SEQRES 8 B 262 GLU ILE ILE VAL ASN ILE GLN GLY ASP GLU PRO LEU ILE SEQRES 9 B 262 PRO PRO VAL ILE VAL ARG GLN VAL ALA ASP ASN LEU ALA SEQRES 10 B 262 LYS PHE ASN VAL ASN MSE ALA SER LEU ALA VAL LYS ILE SEQRES 11 B 262 HIS ASP ALA GLU GLU LEU PHE ASN PRO ASN ALA VAL LYS SEQRES 12 B 262 VAL LEU THR ASP LYS ASP GLY TYR VAL LEU TYR PHE SER SEQRES 13 B 262 ARG SER VAL ILE PRO TYR ASP ARG ASP GLN PHE MSE ASN SEQRES 14 B 262 LEU GLN ASP VAL GLN LYS VAL GLN LEU SER ASP ALA TYR SEQRES 15 B 262 LEU ARG HIS ILE GLY ILE TYR ALA TYR ARG ALA GLY PHE SEQRES 16 B 262 ILE LYS GLN TYR VAL GLN TRP ALA PRO THR GLN LEU GLU SEQRES 17 B 262 ASN LEU GLU LYS LEU GLU GLN LEU ARG VAL LEU TYR ASN SEQRES 18 B 262 GLY GLU ARG ILE HIS VAL GLU LEU ALA LYS GLU VAL PRO SEQRES 19 B 262 ALA VAL GLY VAL ASP THR ALA GLU ASP LEU GLU LYS VAL SEQRES 20 B 262 ARG ALA ILE LEU ALA ALA ASN GLY SER HIS HIS HIS HIS SEQRES 21 B 262 HIS HIS SEQRES 1 C 262 MSE SER PHE THR VAL ILE ILE PRO ALA ARG PHE ALA SER SEQRES 2 C 262 SER ARG LEU PRO GLY LYS PRO LEU ALA ASP ILE LYS GLY SEQRES 3 C 262 LYS PRO MSE ILE GLN HIS VAL PHE GLU LYS ALA LEU GLN SEQRES 4 C 262 SER GLY ALA SER ARG VAL ILE ILE ALA THR ASP ASN GLU SEQRES 5 C 262 ASN VAL ALA ASP VAL ALA LYS SER PHE GLY ALA GLU VAL SEQRES 6 C 262 CYS MSE THR SER VAL ASN HIS ASN SER GLY THR GLU ARG SEQRES 7 C 262 LEU ALA GLU VAL VAL GLU LYS LEU ALA ILE PRO ASP ASN SEQRES 8 C 262 GLU ILE ILE VAL ASN ILE GLN GLY ASP GLU PRO LEU ILE SEQRES 9 C 262 PRO PRO VAL ILE VAL ARG GLN VAL ALA ASP ASN LEU ALA SEQRES 10 C 262 LYS PHE ASN VAL ASN MSE ALA SER LEU ALA VAL LYS ILE SEQRES 11 C 262 HIS ASP ALA GLU GLU LEU PHE ASN PRO ASN ALA VAL LYS SEQRES 12 C 262 VAL LEU THR ASP LYS ASP GLY TYR VAL LEU TYR PHE SER SEQRES 13 C 262 ARG SER VAL ILE PRO TYR ASP ARG ASP GLN PHE MSE ASN SEQRES 14 C 262 LEU GLN ASP VAL GLN LYS VAL GLN LEU SER ASP ALA TYR SEQRES 15 C 262 LEU ARG HIS ILE GLY ILE TYR ALA TYR ARG ALA GLY PHE SEQRES 16 C 262 ILE LYS GLN TYR VAL GLN TRP ALA PRO THR GLN LEU GLU SEQRES 17 C 262 ASN LEU GLU LYS LEU GLU GLN LEU ARG VAL LEU TYR ASN SEQRES 18 C 262 GLY GLU ARG ILE HIS VAL GLU LEU ALA LYS GLU VAL PRO SEQRES 19 C 262 ALA VAL GLY VAL ASP THR ALA GLU ASP LEU GLU LYS VAL SEQRES 20 C 262 ARG ALA ILE LEU ALA ALA ASN GLY SER HIS HIS HIS HIS SEQRES 21 C 262 HIS HIS MODRES 1VH3 MSE A 29 MET SELENOMETHIONINE MODRES 1VH3 MSE A 67 MET SELENOMETHIONINE MODRES 1VH3 MSE A 123 MET SELENOMETHIONINE MODRES 1VH3 MSE A 168 MET SELENOMETHIONINE MODRES 1VH3 MSE B 29 MET SELENOMETHIONINE MODRES 1VH3 MSE B 67 MET SELENOMETHIONINE MODRES 1VH3 MSE B 123 MET SELENOMETHIONINE MODRES 1VH3 MSE B 168 MET SELENOMETHIONINE MODRES 1VH3 MSE C 29 MET SELENOMETHIONINE MODRES 1VH3 MSE C 67 MET SELENOMETHIONINE MODRES 1VH3 MSE C 123 MET SELENOMETHIONINE HET MSE A 29 8 HET MSE A 67 8 HET MSE A 123 8 HET MSE A 168 8 HET MSE B 29 8 HET MSE B 67 8 HET MSE B 123 8 HET MSE B 168 8 HET MSE C 29 8 HET MSE C 67 8 HET MSE C 123 8 HET CMK A 263 36 HET CMK B 263 72 HETNAM MSE SELENOMETHIONINE HETNAM CMK CYTIDINE 5'-MONOPHOSPHATE 3-DEOXY-BETA-D-GULO-OCT-2- HETNAM 2 CMK ULO-PYRANOSONIC ACID HETSYN CMK CMP-2-KETO-3-DEOXY-OCTULOSONIC ACID FORMUL 1 MSE 11(C5 H11 N O2 SE) FORMUL 4 CMK 2(C17 H26 N3 O15 P) FORMUL 6 HOH *94(H2 O) HELIX 1 1 PRO A 28 SER A 40 1 13 HELIX 2 2 ASN A 51 PHE A 61 1 11 HELIX 3 3 SER A 74 LEU A 86 1 13 HELIX 4 4 PRO A 105 PHE A 119 1 15 HELIX 5 5 ASP A 132 PHE A 137 1 6 HELIX 6 6 ASP A 163 MSE A 168 1 6 HELIX 7 7 ALA A 193 TRP A 202 1 10 HELIX 8 8 THR A 205 LYS A 212 1 8 HELIX 9 9 GLN A 215 ASN A 221 1 7 HELIX 10 10 PRO B 28 GLN B 39 1 12 HELIX 11 11 ASN B 51 GLY B 62 1 12 HELIX 12 12 SER B 74 LEU B 86 1 13 HELIX 13 13 PRO B 105 PHE B 119 1 15 HELIX 14 14 ASP B 132 PHE B 137 1 6 HELIX 15 15 ASP B 163 MSE B 168 1 6 HELIX 16 16 ALA B 193 TRP B 202 1 10 HELIX 17 17 THR B 205 LYS B 212 1 8 HELIX 18 18 GLN B 215 ASN B 221 1 7 HELIX 19 19 THR B 240 ALA B 249 1 10 HELIX 20 20 GLY C 18 LEU C 21 5 4 HELIX 21 21 MSE C 29 SER C 40 1 12 HELIX 22 22 ASN C 51 PHE C 61 1 11 HELIX 23 23 SER C 74 ALA C 87 1 14 HELIX 24 24 PRO C 105 PHE C 119 1 15 HELIX 25 25 ASP C 132 PHE C 137 1 6 HELIX 26 26 ALA C 193 GLN C 201 1 9 HELIX 27 27 THR C 205 LYS C 212 1 8 HELIX 28 28 GLU C 214 ASN C 221 1 8 HELIX 29 29 THR C 240 ARG C 248 1 9 SHEET 1 A 7 GLU A 64 MSE A 67 0 SHEET 2 A 7 VAL A 45 THR A 49 1 N ILE A 47 O CYS A 66 SHEET 3 A 7 THR A 4 ALA A 9 1 N ALA A 9 O ALA A 48 SHEET 4 A 7 ILE A 93 ILE A 97 1 O ILE A 93 N THR A 4 SHEET 5 A 7 LEU A 183 ARG A 192 -1 O TYR A 191 N ILE A 94 SHEET 6 A 7 LYS A 143 THR A 146 -1 N VAL A 144 O LEU A 183 SHEET 7 A 7 VAL A 152 SER A 156 -1 O SER A 156 N LYS A 143 SHEET 1 B 7 GLU A 64 MSE A 67 0 SHEET 2 B 7 VAL A 45 THR A 49 1 N ILE A 47 O CYS A 66 SHEET 3 B 7 THR A 4 ALA A 9 1 N ALA A 9 O ALA A 48 SHEET 4 B 7 ILE A 93 ILE A 97 1 O ILE A 93 N THR A 4 SHEET 5 B 7 LEU A 183 ARG A 192 -1 O TYR A 191 N ILE A 94 SHEET 6 B 7 ALA A 124 LYS A 129 -1 N VAL A 128 O ARG A 184 SHEET 7 B 7 HIS A 226 GLU A 228 1 O HIS A 226 N SER A 125 SHEET 1 C 7 GLU B 64 MSE B 67 0 SHEET 2 C 7 ARG B 44 THR B 49 1 N ILE B 47 O CYS B 66 SHEET 3 C 7 PHE B 3 ALA B 9 1 N VAL B 5 O ILE B 46 SHEET 4 C 7 ILE B 93 ILE B 97 1 O VAL B 95 N THR B 4 SHEET 5 C 7 LEU B 183 ARG B 192 -1 O TYR B 191 N ILE B 94 SHEET 6 C 7 MSE B 123 LYS B 129 -1 N VAL B 128 O ARG B 184 SHEET 7 C 7 ILE B 225 LEU B 229 1 O HIS B 226 N SER B 125 SHEET 1 D 2 LYS B 143 THR B 146 0 SHEET 2 D 2 VAL B 152 SER B 156 -1 O SER B 156 N LYS B 143 SHEET 1 E 7 GLU C 64 MSE C 67 0 SHEET 2 E 7 ARG C 44 THR C 49 1 N ILE C 47 O GLU C 64 SHEET 3 E 7 THR C 4 PRO C 8 1 N VAL C 5 O ARG C 44 SHEET 4 E 7 ILE C 93 ASN C 96 1 O VAL C 95 N THR C 4 SHEET 5 E 7 LEU C 183 ARG C 192 -1 O TYR C 191 N ILE C 94 SHEET 6 E 7 MSE C 123 LYS C 129 -1 N VAL C 128 O ARG C 184 SHEET 7 E 7 HIS C 226 LEU C 229 1 O HIS C 226 N SER C 125 SHEET 1 F 2 ASP C 23 ILE C 24 0 SHEET 2 F 2 LYS C 27 PRO C 28 -1 O LYS C 27 N ILE C 24 SHEET 1 G 2 LYS C 143 THR C 146 0 SHEET 2 G 2 VAL C 152 SER C 156 -1 O LEU C 153 N LEU C 145 LINK C PRO A 28 N MSE A 29 1555 1555 1.32 LINK C MSE A 29 N ILE A 30 1555 1555 1.34 LINK C CYS A 66 N MSE A 67 1555 1555 1.32 LINK C MSE A 67 N THR A 68 1555 1555 1.32 LINK C ASN A 122 N MSE A 123 1555 1555 1.33 LINK C MSE A 123 N ALA A 124 1555 1555 1.33 LINK C PHE A 167 N MSE A 168 1555 1555 1.33 LINK C MSE A 168 N ASN A 169 1555 1555 1.32 LINK C PRO B 28 N MSE B 29 1555 1555 1.33 LINK C MSE B 29 N ILE B 30 1555 1555 1.33 LINK C CYS B 66 N MSE B 67 1555 1555 1.32 LINK C MSE B 67 N THR B 68 1555 1555 1.32 LINK C ASN B 122 N MSE B 123 1555 1555 1.33 LINK C MSE B 123 N ALA B 124 1555 1555 1.32 LINK C PHE B 167 N MSE B 168 1555 1555 1.32 LINK C MSE B 168 N ASN B 169 1555 1555 1.33 LINK C PRO C 28 N MSE C 29 1555 1555 1.32 LINK C MSE C 29 N ILE C 30 1555 1555 1.33 LINK C CYS C 66 N MSE C 67 1555 1555 1.33 LINK C MSE C 67 N THR C 68 1555 1555 1.34 LINK C ASN C 122 N MSE C 123 1555 1555 1.33 LINK C MSE C 123 N ALA C 124 1555 1555 1.32 CISPEP 1 ILE A 160 PRO A 161 0 3.22 CISPEP 2 ILE B 160 PRO B 161 0 -6.29 CISPEP 3 ILE C 160 PRO C 161 0 -0.07 SITE 1 AC1 21 PRO A 8 ALA A 9 ARG A 10 HIS A 72 SITE 2 AC1 21 ASN A 73 SER A 74 ARG A 78 GLN A 98 SITE 3 AC1 21 GLY A 99 ASP A 100 VAL A 142 ARG A 157 SITE 4 AC1 21 LYS A 175 HIS A 185 TYR A 189 GLU A 214 SITE 5 AC1 21 GLN A 215 HOH A 287 HOH A 294 HOH A 297 SITE 6 AC1 21 HOH A 304 SITE 1 AC2 24 ARG A 164 PRO B 8 ALA B 9 ARG B 10 SITE 2 AC2 24 LYS B 19 HIS B 72 ASN B 73 SER B 74 SITE 3 AC2 24 GLY B 75 ARG B 78 GLN B 98 GLY B 99 SITE 4 AC2 24 ASP B 100 ASN B 140 VAL B 142 ARG B 157 SITE 5 AC2 24 HIS B 185 TYR B 189 LYS B 212 LEU B 213 SITE 6 AC2 24 GLU B 214 GLN B 215 VAL B 238 HOH B 287 CRYST1 177.480 48.281 96.488 90.00 90.00 90.00 P 21 21 2 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 0.005634 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020712 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010364 0.00000