1KCC - Header Asymmetric Unit

HEADER HYDROLASE 08-NOV-01 1KCC

TITLE ENDOPOLYGALACTURONASE I FROM STEREUM PURPUREUM COMPLEXED WITH A TITLE 2 GALACTURONATE AT 1.00 A RESOLUTION.

COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDOPOLYGALACTURONASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-335; COMPND 5 EC: 3.2.1.15

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHONDROSTEREUM PURPUREUM; SOURCE 3 ORGANISM_TAXID: 58369; SOURCE 4 STRAIN: ASP-4B

KEYWDS BETA HELICAL STRUCTURE, GLYCOSIDE HYDROLASE, SILVER-LEAF INDUCING KEYWDS 2 SUBSTANCE, HYDROLASE

EXPDTA X-RAY DIFFRACTION

AUTHOR T.SHIMIZU,T.NAKATSU,K.MIYAIRI,T.OKUNO,H.KATO

REVDAT 5 14-OCT-15 1KCC 1 HETNAM HETSYN REVDAT 4 13-JUL-11 1KCC 1 VERSN REVDAT 3 24-FEB-09 1KCC 1 VERSN REVDAT 2 04-DEC-02 1KCC 1 REMARK REVDAT 1 05-JUN-02 1KCC 0

JRNL AUTH T.SHIMIZU,T.NAKATSU,K.MIYAIRI,T.OKUNO,H.KATO JRNL TITL ACTIVE-SITE ARCHITECTURE OF ENDOPOLYGALACTURONASE I FROM JRNL TITL 2 STEREUM PURPUREUM REVEALED BY CRYSTAL STRUCTURES IN NATIVE JRNL TITL 3 AND LIGAND-BOUND FORMS AT ATOMIC RESOLUTION. JRNL REF BIOCHEMISTRY V. 41 6651 2002 JRNL REFN ISSN 0006-2960 JRNL PMID 12022868 JRNL DOI 10.1021/BI025541A

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.SHIMIZU,T.NAKATSU,K.MIYAIRI,T.OKUNO,H.KATO REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY STUDY OF REMARK 1 TITL 2 ENDOPOLYGALACTURONASE FROM THE PATHOGENIC FUNGUS STEREUM REMARK 1 TITL 3 PURPUREUM REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 57 1171 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444901009568 REMARK 1 REFERENCE 2 REMARK 1 AUTH T.SHIMIZU,K.MIYAIRI,T.OKUNO REMARK 1 TITL DETERMINATION OF GLYCOSYLATION SITES, DISULFIDE BRIDGES, AND REMARK 1 TITL 2 THE C-TERMINUS OF STEREUM PURPUREUM MATURE REMARK 1 TITL 3 ENDOPOLYGALACTURONASE I BY ELECTROSPRAY IONIZATION MASS REMARK 1 TITL 4 SPECTROMETRY REMARK 1 REF EUR.J.BIOCHEM. V. 267 2380 2000 REMARK 1 REFN ISSN 0014-2956 REMARK 1 DOI 10.1046/J.1432-1327.2000.01249.X REMARK 1 REFERENCE 3 REMARK 1 AUTH Y.HASUI,Y.FUKUI,J.KIKUCHI,N.KATO,K.MIYAIRI,T.OKUNO REMARK 1 TITL ISOLATION, CHARACTERIZATION, AND SUGAR CHAIN STRUCTURE OF REMARK 1 TITL 2 ENDOPG IA, IB AND IC FROM STEREUM PURPUREUM REMARK 1 REF BIOSCI.BIOTECHNOL.BIOCHEM. V. 62 852 1998 REMARK 1 REFN ISSN 0916-8451

REMARK 2 REMARK 2 RESOLUTION. 1.00 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.1 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.109 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.114 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.140 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 7627 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 144672 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.103 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.107 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.133 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 6332 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 120113 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2415 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 585 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 2982.98 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 0.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 20 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 27865 REMARK 3 NUMBER OF RESTRAINTS : 33653 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.016 REMARK 3 ANGLE DISTANCES (A) : 0.031 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.034 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.089 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.101 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.000 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.006 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.039 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.092 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1KCC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-NOV-01. REMARK 100 THE RCSB ID CODE IS RCSB014805.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-OCT-00 REMARK 200 TEMPERATURE (KELVIN) : 90 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.7 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 152404 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.000 REMARK 200 RESOLUTION RANGE LOW (A) : 25.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.17200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1K5C REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, PH 5.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 ALA A 1 REMARK 465 THR A 2

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 12 CD CE NZ REMARK 470 LYS A 146 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 NZ LYS A 110 O HOH A 2533 0.66 REMARK 500 ND2 ASN A 268 O HOH A 2337 1.28 REMARK 500 O HOH A 2360 O HOH A 2578 1.39 REMARK 500 O HOH A 2211 O HOH A 2461 1.55 REMARK 500 N CYS A 3 O HOH A 2261 1.61 REMARK 500 OD1 ASN A 268 O HOH A 2337 1.65 REMARK 500 ND2 ASN A 268 O HOH A 2247 1.73 REMARK 500 O HOH A 2265 O HOH A 2519 1.82 REMARK 500 CE LYS A 110 O HOH A 2533 1.84 REMARK 500 O HOH A 2544 O HOH A 2565 1.94 REMARK 500 CG ASN A 268 O HOH A 2337 1.95 REMARK 500 O HOH A 2306 O HOH A 2577 2.02 REMARK 500 O HOH A 2088 O HOH A 2369 2.12 REMARK 500 O HOH A 2205 O HOH A 2520 2.13 REMARK 500 O HOH A 2217 O HOH A 2370 2.17 REMARK 500 O HOH A 2350 O HOH A 2406 2.17 REMARK 500 O HOH A 2237 O HOH A 2261 2.17 REMARK 500 O HOH A 2229 O HOH A 2581 2.18 REMARK 500 O7 NAG A 2002 O HOH A 2185 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2237 O HOH A 2574 1655 1.12 REMARK 500 O HOH A 2261 O HOH A 2574 1655 1.69 REMARK 500 O HOH A 2248 O HOH A 2364 1556 1.87 REMARK 500 NZ LYS A 214 O HOH A 2140 1556 1.93 REMARK 500 O HOH A 2022 O HOH A 2309 1565 1.95 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 LEU A 133 CB - CG - CD2 ANGL. DEV. = 10.6 DEGREES REMARK 500 ARG A 185 CD - NE - CZ ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 185 NE - CZ - NH2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ILE A 213 CB - CG1 - CD1 ANGL. DEV. = 17.7 DEGREES REMARK 500 ARG A 220 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG A 231 NE - CZ - NH1 ANGL. DEV. = 3.9 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 ASP A 86 17.58 -141.43 REMARK 500 ASN A 92 -172.04 -172.45 REMARK 500 ALA A 119 -119.78 -151.64 REMARK 500 ALA A 129 -169.97 -175.68 REMARK 500 THR A 152 52.01 -91.67 REMARK 500 ASN A 183 71.73 68.22 REMARK 500 ASN A 268 68.29 33.30 REMARK 500 ARG A 295 -70.63 -68.54 REMARK 500 ASP A 325 -128.29 57.37 REMARK 500 TYR A 334 -17.09 -163.60 REMARK 500 REMARK 500 REMARK: NULL

REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2485 DISTANCE = 6.31 ANGSTROMS REMARK 525 HOH A2486 DISTANCE = 6.87 ANGSTROMS REMARK 525 HOH A2506 DISTANCE = 7.60 ANGSTROMS REMARK 525 HOH A2563 DISTANCE = 6.80 ANGSTROMS REMARK 525 HOH A2585 DISTANCE = 6.53 ANGSTROMS

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTR A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 2003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 2004

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1K5C RELATED DB: PDB REMARK 900 1K5C CONTAINS AN UNLIGANDED STRUCTURE OF THE SAME ENZYME. REMARK 900 RELATED ID: 1KCD RELATED DB: PDB REMARK 900 1KCD CONTAINS THE SAME ENZYME COMPLEXED WITH TWO REMARK 900 GALACTURONATE.

DBREF 1KCC A 1 335 UNP P79074 P79074_9AGAR 25 359

SEQRES 1 A 335 ALA THR CYS THR VAL LYS SER VAL ASP ASP ALA LYS ASP SEQRES 2 A 335 ILE ALA GLY CYS SER ALA VAL THR LEU ASN GLY PHE THR SEQRES 3 A 335 VAL PRO ALA GLY ASN THR LEU VAL LEU ASN PRO ASP LYS SEQRES 4 A 335 GLY ALA THR VAL THR MET ALA GLY ASP ILE THR PHE ALA SEQRES 5 A 335 LYS THR THR LEU ASP GLY PRO LEU PHE THR ILE ASP GLY SEQRES 6 A 335 THR GLY ILE ASN PHE VAL GLY ALA ASP HIS ILE PHE ASP SEQRES 7 A 335 GLY ASN GLY ALA LEU TYR TRP ASP GLY LYS GLY THR ASN SEQRES 8 A 335 ASN GLY THR HIS LYS PRO HIS PRO PHE LEU LYS ILE LYS SEQRES 9 A 335 GLY SER GLY THR TYR LYS LYS PHE GLU VAL LEU ASN SER SEQRES 10 A 335 PRO ALA GLN ALA ILE SER VAL GLY PRO THR ASP ALA HIS SEQRES 11 A 335 LEU THR LEU ASP GLY ILE THR VAL ASP ASP PHE ALA GLY SEQRES 12 A 335 ASP THR LYS ASN LEU GLY HIS ASN THR ASP GLY PHE ASP SEQRES 13 A 335 VAL SER ALA ASN ASN VAL THR ILE GLN ASN CYS ILE VAL SEQRES 14 A 335 LYS ASN GLN ASP ASP CYS ILE ALA ILE ASN ASP GLY ASN SEQRES 15 A 335 ASN ILE ARG PHE GLU ASN ASN GLN CYS SER GLY GLY HIS SEQRES 16 A 335 GLY ILE SER ILE GLY SER ILE ALA THR GLY LYS HIS VAL SEQRES 17 A 335 SER ASN VAL VAL ILE LYS GLY ASN THR VAL THR ARG SER SEQRES 18 A 335 MET TYR GLY VAL ARG ILE LYS ALA GLN ARG THR ALA THR SEQRES 19 A 335 SER ALA SER VAL SER GLY VAL THR TYR ASP ALA ASN THR SEQRES 20 A 335 ILE SER GLY ILE ALA LYS TYR GLY VAL LEU ILE SER GLN SEQRES 21 A 335 SER TYR PRO ASP ASP VAL GLY ASN PRO GLY THR GLY ALA SEQRES 22 A 335 PRO PHE SER ASP VAL ASN PHE THR GLY GLY ALA THR THR SEQRES 23 A 335 ILE LYS VAL ASN ASN ALA ALA THR ARG VAL THR VAL GLU SEQRES 24 A 335 CYS GLY ASN CYS SER GLY ASN TRP ASN TRP SER GLN LEU SEQRES 25 A 335 THR VAL THR GLY GLY LYS ALA GLY THR ILE LYS SER ASP SEQRES 26 A 335 LYS ALA LYS ILE THR GLY GLY GLN TYR LEU

MODRES 1KCC ASN A 92 ASN GLYCOSYLATION SITE MODRES 1KCC ASN A 161 ASN GLYCOSYLATION SITE

HET GTR A1001 13 HET NAG A2001 14 HET NAG A2002 14 HET CL A2003 1 HET NA A2004 1

HETNAM GTR BETA-D-GALACTOPYRANURONIC ACID HETNAM NAG N-ACETYL-D-GLUCOSAMINE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION

HETSYN GTR GALACTURONIC ACID

FORMUL 2 GTR C6 H10 O7 FORMUL 3 NAG 2(C8 H15 N O6) FORMUL 5 CL CL 1- FORMUL 6 NA NA 1+ FORMUL 7 HOH *585(H2 O)

HELIX 1 1 ASP A 9 ILE A 14 5 6 HELIX 2 2 ASN A 80 TYR A 84 5 5 HELIX 3 3 PHE A 141 LEU A 148 5 8

SHEET 1 A46 THR A 4 VAL A 5 0 SHEET 2 A46 ALA A 19 LEU A 22 1 O THR A 21 N VAL A 5 SHEET 3 A46 THR A 42 MET A 45 1 O THR A 42 N VAL A 20 SHEET 4 A46 PHE A 61 VAL A 71 1 O ASN A 69 N VAL A 43 SHEET 5 A46 LEU A 33 LEU A 35 1 O LEU A 33 N THR A 62 SHEET 6 A46 PHE A 61 VAL A 71 1 O THR A 62 N LEU A 35 SHEET 7 A46 LEU A 101 LYS A 110 1 O LYS A 102 N ILE A 63 SHEET 8 A46 ILE A 122 ASP A 134 1 N SER A 123 O LEU A 101 SHEET 9 A46 PHE A 155 SER A 158 1 O ASP A 156 N VAL A 124 SHEET 10 A46 ILE A 176 GLU A 187 1 O ALA A 177 N VAL A 157 SHEET 11 A46 VAL A 162 GLN A 165 1 O VAL A 162 N ARG A 185 SHEET 12 A46 ILE A 122 ASP A 134 1 O LEU A 131 N THR A 163 SHEET 13 A46 VAL A 162 GLN A 165 1 O THR A 163 N LEU A 133 SHEET 14 A46 ILE A 176 GLU A 187 1 O ASN A 183 N VAL A 162 SHEET 15 A46 ILE A 197 ILE A 202 1 N SER A 198 O ILE A 176 SHEET 16 A46 THR A 217 GLN A 230 1 O GLY A 224 N ILE A 197 SHEET 17 A46 THR A 247 TYR A 262 1 O THR A 247 N VAL A 218 SHEET 18 A46 THR A 285 VAL A 289 1 O THR A 286 N ILE A 248 SHEET 19 A46 LEU A 312 THR A 315 1 O THR A 313 N ILE A 287 SHEET 20 A46 THR A 285 VAL A 289 1 O THR A 285 N THR A 313 SHEET 21 A46 THR A 247 TYR A 262 1 N ILE A 248 O THR A 286 SHEET 22 A46 THR A 294 GLU A 299 1 N THR A 294 O LYS A 253 SHEET 23 A46 ILE A 322 LYS A 323 1 N LYS A 323 O VAL A 298 SHEET 24 A46 THR A 294 GLU A 299 1 O VAL A 298 N LYS A 323 SHEET 25 A46 THR A 247 TYR A 262 1 O LYS A 253 N THR A 294 SHEET 26 A46 THR A 217 GLN A 230 1 O VAL A 218 N SER A 249 SHEET 27 A46 GLN A 190 SER A 192 1 N CYS A 191 O THR A 217 SHEET 28 A46 ILE A 168 LYS A 170 1 N VAL A 169 O GLN A 190 SHEET 29 A46 THR A 137 ASP A 139 1 N VAL A 138 O ILE A 168 SHEET 30 A46 GLU A 113 LEU A 115 1 N VAL A 114 O THR A 137 SHEET 31 A46 ILE A 76 ASP A 78 1 O PHE A 77 N LEU A 115 SHEET 32 A46 ILE A 49 PHE A 51 1 O ILE A 49 N ASP A 78 SHEET 33 A46 PHE A 25 VAL A 27 1 O PHE A 25 N THR A 50 SHEET 34 A46 ILE A 49 PHE A 51 1 O THR A 50 N VAL A 27 SHEET 35 A46 ILE A 76 ASP A 78 1 O ILE A 76 N ILE A 49 SHEET 36 A46 GLU A 113 LEU A 115 1 O GLU A 113 N PHE A 77 SHEET 37 A46 THR A 137 ASP A 139 1 O THR A 137 N VAL A 114 SHEET 38 A46 ILE A 168 LYS A 170 1 O ILE A 168 N VAL A 138 SHEET 39 A46 GLN A 190 SER A 192 1 O GLN A 190 N VAL A 169 SHEET 40 A46 THR A 217 GLN A 230 1 O THR A 217 N CYS A 191 SHEET 41 A46 ILE A 197 ILE A 202 1 N ILE A 197 O GLY A 224 SHEET 42 A46 ILE A 176 GLU A 187 1 O ILE A 176 N SER A 198 SHEET 43 A46 HIS A 207 LYS A 214 1 O HIS A 207 N GLY A 181 SHEET 44 A46 SER A 237 ASP A 244 1 O SER A 237 N VAL A 208 SHEET 45 A46 PHE A 275 PHE A 280 1 N SER A 276 O VAL A 238 SHEET 46 A46 CYS A 303 SER A 304 1 N SER A 304 O PHE A 275 SHEET 1 B 2 ASN A 306 ASN A 308 0 SHEET 2 B 2 LYS A 328 THR A 330 1 O LYS A 328 N TRP A 307

SSBOND 1 CYS A 3 CYS A 17 1555 1555 2.08 SSBOND 2 CYS A 175 CYS A 191 1555 1555 2.02 SSBOND 3 CYS A 300 CYS A 303 1555 1555 2.06

LINK ND2 ASN A 92 C1 NAG A2001 1555 1555 1.47 LINK ND2 ASN A 161 C1 NAG A2002 1555 1555 1.46 LINK OG SER A 158 NA NA A2004 1555 1555 2.99

CISPEP 1 GLY A 58 PRO A 59 0 0.78 CISPEP 2 HIS A 98 PRO A 99 0 -15.28 CISPEP 3 GLY A 125 PRO A 126 0 -2.06 CISPEP 4 GLY A 200 SER A 201 0 12.52 CISPEP 5 TYR A 262 PRO A 263 0 7.72

SITE 1 AC1 13 ASN A 91 HIS A 150 ASN A 151 ASP A 173 SITE 2 AC1 13 HIS A 195 ARG A 226 LYS A 228 TYR A 262 SITE 3 AC1 13 HOH A2024 HOH A2190 HOH A2210 HOH A2293 SITE 4 AC1 13 HOH A2391 SITE 1 AC2 6 ASP A 13 LYS A 88 ASN A 92 HOH A2500 SITE 2 AC2 6 HOH A2518 HOH A2586 SITE 1 AC3 4 ASN A 160 ASN A 161 ASN A 182 HOH A2185 SITE 1 AC4 4 GLY A 30 THR A 54 THR A 55 ASN A 308 SITE 1 AC5 3 ASP A 156 SER A 158 ASN A 179

CRYST1 46.515 52.138 37.187 72.31 69.09 70.35 P 1 1

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 0.021498 -0.007676 -0.006759 0.00000

SCALE2 0.000000 0.020366 -0.004352 0.00000

SCALE3 0.000000 0.000000 0.029437 0.00000