10 20 30 40 50 60 70 80 1JVD - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 29-AUG-01 1JVD
TITLE CRYSTAL STRUCTURE OF HUMAN AGX2 COMPLEXED WITH UDPGLCNAC
COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDPGLCNAC PYROPHOSPHORYLASE (AGX2); COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE; COMPND 5 EC: 2.7.7.23; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: AGX2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: XL1 BLUE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRU277
KEYWDS NUCLEOTIDYLTRANSFERASE, ALTERNATIVE SPLICING
EXPDTA X-RAY DIFFRACTION
AUTHOR C.PENEFF,Y.BOURNE
REVDAT 2 24-FEB-09 1JVD 1 VERSN REVDAT 1 29-AUG-02 1JVD 0
JRNL AUTH C.PENEFF,P.FERRARI,V.CHARRIER,Y.TABURET,C.MONNIER, JRNL AUTH 2 V.ZAMBONI,J.WINTER,M.HARNOIS,F.FASSY,Y.BOURNE JRNL TITL CRYSTAL STRUCTURES OF TWO HUMAN PYROPHOSPHORYLASE JRNL TITL 2 ISOFORMS IN COMPLEXES WITH UDPGLC(GAL)NAC: ROLE OF JRNL TITL 3 THE ALTERNATIVELY SPLICED INSERT IN THE ENZYME JRNL TITL 4 OLIGOMERIC ASSEMBLY AND ACTIVE SITE ARCHITECTURE. JRNL REF EMBO J. V. 20 6191 2001 JRNL REFN ISSN 0261-4189 JRNL PMID 11707391 JRNL DOI 10.1093/EMBOJ/20.22.6191
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1498298.170 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 43565 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 SET) : 0.193 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2180 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6888 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE : 0.3090 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 333 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.017 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7667 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 78 REMARK 3 SOLVENT ATOMS : 310 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 15.09000 REMARK 3 B22 (A**2) : -6.10000 REMARK 3 B33 (A**2) : -8.99000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -4.64000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM SIGMAA (A) : 0.23 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.35 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.34 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 2.00 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.18 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 40.60 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : UD1.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : UD1.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1JVD COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-SEP-01. REMARK 100 THE RCSB ID CODE IS RCSB014226.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-99 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9310 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 : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43625 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG600, PH 5.7, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 35.64050 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA.
REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6630 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 1 REMARK 465 ASN A 57 REMARK 465 GLN A 58 REMARK 465 SER A 59 REMARK 465 SER A 60 REMARK 465 HIS A 61 REMARK 465 GLN A 62 REMARK 465 LYS A 63 REMARK 465 ASN A 64 REMARK 465 VAL A 65 REMARK 465 ASP A 66 REMARK 465 ALA A 67 REMARK 465 GLY A 113 REMARK 465 THR A 114 REMARK 465 ARG A 115 REMARK 465 LEU A 116 REMARK 465 GLY A 117 REMARK 465 ASN A 457 REMARK 465 GLY A 458 REMARK 465 LYS A 459 REMARK 465 SER A 460 REMARK 465 GLU A 461 REMARK 465 THR A 462 REMARK 465 ILE A 463 REMARK 465 THR A 464 REMARK 465 ALA A 465 REMARK 465 ASP A 466 REMARK 465 VAL A 467 REMARK 465 ASN A 468 REMARK 465 HIS A 469 REMARK 465 ASN A 470 REMARK 465 LEU A 471 REMARK 465 LYS A 472 REMARK 465 ASP A 473 REMARK 465 ALA A 474 REMARK 465 ASN A 475 REMARK 465 ASP A 476 REMARK 465 VAL A 518 REMARK 465 LYS A 519 REMARK 465 ASN A 520 REMARK 465 GLY A 521 REMARK 465 ILE A 522 REMARK 465 MET B 1 REMARK 465 SER B 59 REMARK 465 SER B 60 REMARK 465 HIS B 61 REMARK 465 GLN B 62 REMARK 465 LYS B 63 REMARK 465 LEU B 116 REMARK 465 GLY B 117 REMARK 465 VAL B 118 REMARK 465 SER B 454 REMARK 465 ALA B 455 REMARK 465 THR B 456 REMARK 465 ASN B 457 REMARK 465 GLY B 458 REMARK 465 LYS B 459 REMARK 465 SER B 460 REMARK 465 GLU B 461 REMARK 465 THR B 462 REMARK 465 ILE B 463 REMARK 465 THR B 464 REMARK 465 ALA B 465 REMARK 465 ASP B 466 REMARK 465 VAL B 467 REMARK 465 ASN B 468 REMARK 465 HIS B 469 REMARK 465 ASN B 470 REMARK 465 LEU B 471 REMARK 465 LYS B 472 REMARK 465 ASP B 473 REMARK 465 ALA B 474 REMARK 465 ASN B 475 REMARK 465 ASP B 476 REMARK 465 LYS B 519 REMARK 465 ASN B 520 REMARK 465 GLY B 521 REMARK 465 ILE B 522
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 ARG A 74 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 112 CB CG CD OE1 NE2 REMARK 470 LYS B 12 CG CD CE NZ REMARK 470 ARG B 68 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 74 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 115 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 410 CG OD1 OD2
REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 908 O HOH A 1085 2.00 REMARK 500 O ILE B 160 O HOH B 945 2.09 REMARK 500 O HOH A 908 O HOH A 995 2.13 REMARK 500 OG SER B 203 OD1 ASP B 205 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 142 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 142 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 VAL A 252 CB - CA - C ANGL. DEV. = -16.1 DEGREES REMARK 500 ARG B 142 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 PRO B 478 C - N - CA ANGL. DEV. = 42.2 DEGREES REMARK 500 PRO B 478 C - N - CD ANGL. DEV. = -45.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PRO A 288 67.33 -68.28 REMARK 500 CYS A 293 -163.47 -168.30 REMARK 500 VAL A 344 -51.88 -135.88 REMARK 500 ASP A 362 -162.42 -76.51 REMARK 500 LYS A 415 -164.55 -118.24 REMARK 500 SER A 454 71.88 -57.82 REMARK 500 ALA A 455 38.24 39.22 REMARK 500 ALA A 490 30.60 -143.65 REMARK 500 THR B 81 -61.38 -99.98 REMARK 500 GLN B 100 1.03 -69.53 REMARK 500 GLN B 112 -101.44 -97.94 REMARK 500 THR B 114 99.85 -162.61 REMARK 500 LYS B 152 42.28 -71.32 REMARK 500 TYR B 153 -17.33 -158.75 REMARK 500 ARG B 169 -75.02 -64.81 REMARK 500 ASP B 261 103.26 -45.08 REMARK 500 PHE B 323 77.43 -102.89 REMARK 500 VAL B 344 -51.60 -140.72 REMARK 500 ASP B 384 5.46 -68.12 REMARK 500 SER B 411 10.99 -149.96 REMARK 500 ASP B 442 172.49 -56.09 REMARK 500 PRO B 478 97.53 -174.66 REMARK 500 ALA B 490 34.43 -142.19 REMARK 500 ASP B 510 -164.88 -129.71 REMARK 500 LEU B 517 37.13 -73.18 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 UD1 A 901 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD1 B 902
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JV1 RELATED DB: PDB REMARK 900 STRUCTURE OF AGX1 COMPLEXED WITH UDPGLCNAC REMARK 900 RELATED ID: 1JV3 RELATED DB: PDB REMARK 900 STRUCTURE OF AGX1 COMPLEXED WITH UDPGALNAC REMARK 900 RELATED ID: 1JVG RELATED DB: PDB REMARK 900 STRUCTURE OF AGX2 COMPLEXED WITH UDPGALNAC
DBREF 1JVD A 1 522 UNP Q16222 UAP1_HUMAN 1 522 DBREF 1JVD B 1 522 UNP Q16222 UAP1_HUMAN 1 522
SEQADV 1JVD GLY A 445 UNP Q16222 SER 445 SEE REMARK 999 SEQADV 1JVD SER A 454 UNP Q16222 GLN 454 SEE REMARK 999 SEQADV 1JVD GLY B 445 UNP Q16222 SER 445 SEE REMARK 999 SEQADV 1JVD SER B 454 UNP Q16222 GLN 454 SEE REMARK 999
SEQRES 1 A 522 MET ASN ILE ASN ASP LEU LYS LEU THR LEU SER LYS ALA SEQRES 2 A 522 GLY GLN GLU HIS LEU LEU ARG PHE TRP ASN GLU LEU GLU SEQRES 3 A 522 GLU ALA GLN GLN VAL GLU LEU TYR ALA GLU LEU GLN ALA SEQRES 4 A 522 MET ASN PHE GLU GLU LEU ASN PHE PHE PHE GLN LYS ALA SEQRES 5 A 522 ILE GLU GLY PHE ASN GLN SER SER HIS GLN LYS ASN VAL SEQRES 6 A 522 ASP ALA ARG MET GLU PRO VAL PRO ARG GLU VAL LEU GLY SEQRES 7 A 522 SER ALA THR ARG ASP GLN ASP GLN LEU GLN ALA TRP GLU SEQRES 8 A 522 SER GLU GLY LEU PHE GLN ILE SER GLN ASN LYS VAL ALA SEQRES 9 A 522 VAL LEU LEU LEU ALA GLY GLY GLN GLY THR ARG LEU GLY SEQRES 10 A 522 VAL ALA TYR PRO LYS GLY MET TYR ASP VAL GLY LEU PRO SEQRES 11 A 522 SER ARG LYS THR LEU PHE GLN ILE GLN ALA GLU ARG ILE SEQRES 12 A 522 LEU LYS LEU GLN GLN VAL ALA GLU LYS TYR TYR GLY ASN SEQRES 13 A 522 LYS CYS ILE ILE PRO TRP TYR ILE MET THR SER GLY ARG SEQRES 14 A 522 THR MET GLU SER THR LYS GLU PHE PHE THR LYS HIS LYS SEQRES 15 A 522 TYR PHE GLY LEU LYS LYS GLU ASN VAL ILE PHE PHE GLN SEQRES 16 A 522 GLN GLY MET LEU PRO ALA MET SER PHE ASP GLY LYS ILE SEQRES 17 A 522 ILE LEU GLU GLU LYS ASN LYS VAL SER MET ALA PRO ASP SEQRES 18 A 522 GLY ASN GLY GLY LEU TYR ARG ALA LEU ALA ALA GLN ASN SEQRES 19 A 522 ILE VAL GLU ASP MET GLU GLN ARG GLY ILE TRP SER ILE SEQRES 20 A 522 HIS VAL TYR CYS VAL ASP ASN ILE LEU VAL LYS VAL ALA SEQRES 21 A 522 ASP PRO ARG PHE ILE GLY PHE CYS ILE GLN LYS GLY ALA SEQRES 22 A 522 ASP CYS GLY ALA LYS VAL VAL GLU LYS THR ASN PRO THR SEQRES 23 A 522 GLU PRO VAL GLY VAL VAL CYS ARG VAL ASP GLY VAL TYR SEQRES 24 A 522 GLN VAL VAL GLU TYR SER GLU ILE SER LEU ALA THR ALA SEQRES 25 A 522 GLN LYS ARG SER SER ASP GLY ARG LEU LEU PHE ASN ALA SEQRES 26 A 522 GLY ASN ILE ALA ASN HIS PHE PHE THR VAL PRO PHE LEU SEQRES 27 A 522 ARG ASP VAL VAL ASN VAL TYR GLU PRO GLN LEU GLN HIS SEQRES 28 A 522 HIS VAL ALA GLN LYS LYS ILE PRO TYR VAL ASP THR GLN SEQRES 29 A 522 GLY GLN LEU ILE LYS PRO ASP LYS PRO ASN GLY ILE LYS SEQRES 30 A 522 MET GLU LYS PHE VAL PHE ASP ILE PHE GLN PHE ALA LYS SEQRES 31 A 522 LYS PHE VAL VAL TYR GLU VAL LEU ARG GLU ASP GLU PHE SEQRES 32 A 522 SER PRO LEU LYS ASN ALA ASP SER GLN ASN GLY LYS ASP SEQRES 33 A 522 ASN PRO THR THR ALA ARG HIS ALA LEU MET SER LEU HIS SEQRES 34 A 522 HIS CYS TRP VAL LEU ASN ALA GLY GLY HIS PHE ILE ASP SEQRES 35 A 522 GLU ASN GLY SER ARG LEU PRO ALA ILE PRO ARG SER ALA SEQRES 36 A 522 THR ASN GLY LYS SER GLU THR ILE THR ALA ASP VAL ASN SEQRES 37 A 522 HIS ASN LEU LYS ASP ALA ASN ASP VAL PRO ILE GLN CYS SEQRES 38 A 522 GLU ILE SER PRO LEU ILE SER TYR ALA GLY GLU GLY LEU SEQRES 39 A 522 GLU SER TYR VAL ALA ASP LYS GLU PHE HIS ALA PRO LEU SEQRES 40 A 522 ILE ILE ASP GLU ASN GLY VAL HIS GLU LEU VAL LYS ASN SEQRES 41 A 522 GLY ILE SEQRES 1 B 522 MET ASN ILE ASN ASP LEU LYS LEU THR LEU SER LYS ALA SEQRES 2 B 522 GLY GLN GLU HIS LEU LEU ARG PHE TRP ASN GLU LEU GLU SEQRES 3 B 522 GLU ALA GLN GLN VAL GLU LEU TYR ALA GLU LEU GLN ALA SEQRES 4 B 522 MET ASN PHE GLU GLU LEU ASN PHE PHE PHE GLN LYS ALA SEQRES 5 B 522 ILE GLU GLY PHE ASN GLN SER SER HIS GLN LYS ASN VAL SEQRES 6 B 522 ASP ALA ARG MET GLU PRO VAL PRO ARG GLU VAL LEU GLY SEQRES 7 B 522 SER ALA THR ARG ASP GLN ASP GLN LEU GLN ALA TRP GLU SEQRES 8 B 522 SER GLU GLY LEU PHE GLN ILE SER GLN ASN LYS VAL ALA SEQRES 9 B 522 VAL LEU LEU LEU ALA GLY GLY GLN GLY THR ARG LEU GLY SEQRES 10 B 522 VAL ALA TYR PRO LYS GLY MET TYR ASP VAL GLY LEU PRO SEQRES 11 B 522 SER ARG LYS THR LEU PHE GLN ILE GLN ALA GLU ARG ILE SEQRES 12 B 522 LEU LYS LEU GLN GLN VAL ALA GLU LYS TYR TYR GLY ASN SEQRES 13 B 522 LYS CYS ILE ILE PRO TRP TYR ILE MET THR SER GLY ARG SEQRES 14 B 522 THR MET GLU SER THR LYS GLU PHE PHE THR LYS HIS LYS SEQRES 15 B 522 TYR PHE GLY LEU LYS LYS GLU ASN VAL ILE PHE PHE GLN SEQRES 16 B 522 GLN GLY MET LEU PRO ALA MET SER PHE ASP GLY LYS ILE SEQRES 17 B 522 ILE LEU GLU GLU LYS ASN LYS VAL SER MET ALA PRO ASP SEQRES 18 B 522 GLY ASN GLY GLY LEU TYR ARG ALA LEU ALA ALA GLN ASN SEQRES 19 B 522 ILE VAL GLU ASP MET GLU GLN ARG GLY ILE TRP SER ILE SEQRES 20 B 522 HIS VAL TYR CYS VAL ASP ASN ILE LEU VAL LYS VAL ALA SEQRES 21 B 522 ASP PRO ARG PHE ILE GLY PHE CYS ILE GLN LYS GLY ALA SEQRES 22 B 522 ASP CYS GLY ALA LYS VAL VAL GLU LYS THR ASN PRO THR SEQRES 23 B 522 GLU PRO VAL GLY VAL VAL CYS ARG VAL ASP GLY VAL TYR SEQRES 24 B 522 GLN VAL VAL GLU TYR SER GLU ILE SER LEU ALA THR ALA SEQRES 25 B 522 GLN LYS ARG SER SER ASP GLY ARG LEU LEU PHE ASN ALA SEQRES 26 B 522 GLY ASN ILE ALA ASN HIS PHE PHE THR VAL PRO PHE LEU SEQRES 27 B 522 ARG ASP VAL VAL ASN VAL TYR GLU PRO GLN LEU GLN HIS SEQRES 28 B 522 HIS VAL ALA GLN LYS LYS ILE PRO TYR VAL ASP THR GLN SEQRES 29 B 522 GLY GLN LEU ILE LYS PRO ASP LYS PRO ASN GLY ILE LYS SEQRES 30 B 522 MET GLU LYS PHE VAL PHE ASP ILE PHE GLN PHE ALA LYS SEQRES 31 B 522 LYS PHE VAL VAL TYR GLU VAL LEU ARG GLU ASP GLU PHE SEQRES 32 B 522 SER PRO LEU LYS ASN ALA ASP SER GLN ASN GLY LYS ASP SEQRES 33 B 522 ASN PRO THR THR ALA ARG HIS ALA LEU MET SER LEU HIS SEQRES 34 B 522 HIS CYS TRP VAL LEU ASN ALA GLY GLY HIS PHE ILE ASP SEQRES 35 B 522 GLU ASN GLY SER ARG LEU PRO ALA ILE PRO ARG SER ALA SEQRES 36 B 522 THR ASN GLY LYS SER GLU THR ILE THR ALA ASP VAL ASN SEQRES 37 B 522 HIS ASN LEU LYS ASP ALA ASN ASP VAL PRO ILE GLN CYS SEQRES 38 B 522 GLU ILE SER PRO LEU ILE SER TYR ALA GLY GLU GLY LEU SEQRES 39 B 522 GLU SER TYR VAL ALA ASP LYS GLU PHE HIS ALA PRO LEU SEQRES 40 B 522 ILE ILE ASP GLU ASN GLY VAL HIS GLU LEU VAL LYS ASN SEQRES 41 B 522 GLY ILE
HET UD1 A 901 39 HET UD1 B 902 39
HETNAM UD1 URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE
FORMUL 3 UD1 2(C17 H27 N3 O17 P2) FORMUL 5 HOH *310(H2 O)
HELIX 1 1 ASN A 2 ALA A 13 1 12 HELIX 2 2 GLN A 15 ARG A 20 5 6 HELIX 3 3 PHE A 21 LEU A 25 5 5 HELIX 4 4 GLU A 26 GLN A 38 1 13 HELIX 5 5 ASN A 41 GLY A 55 1 15 HELIX 6 6 PRO A 73 GLU A 75 5 3 HELIX 7 7 GLN A 86 GLN A 100 1 15 HELIX 8 8 PRO A 121 TYR A 125 5 5 HELIX 9 9 THR A 134 GLY A 155 1 22 HELIX 10 10 THR A 170 HIS A 181 1 12 HELIX 11 11 LYS A 182 LEU A 186 5 5 HELIX 12 12 LYS A 187 GLU A 189 5 3 HELIX 13 13 GLY A 222 GLY A 224 5 3 HELIX 14 14 GLY A 225 GLN A 233 1 9 HELIX 15 15 ASN A 234 ARG A 242 1 9 HELIX 16 16 ASP A 261 LYS A 271 1 11 HELIX 17 17 GLU A 303 ILE A 307 5 5 HELIX 18 18 SER A 308 GLN A 313 1 6 HELIX 19 19 VAL A 335 VAL A 344 1 10 HELIX 20 20 TYR A 345 LEU A 349 5 5 HELIX 21 21 PHE A 381 ALA A 389 5 9 HELIX 22 22 LEU A 398 PHE A 403 1 6 HELIX 23 23 ASN A 417 ALA A 436 1 20 HELIX 24 24 LEU A 494 ALA A 499 1 6 HELIX 25 25 ILE B 3 GLY B 14 1 12 HELIX 26 26 GLN B 15 ARG B 20 5 6 HELIX 27 27 PHE B 21 LEU B 25 5 5 HELIX 28 28 GLU B 26 ALA B 39 1 14 HELIX 29 29 ASN B 41 GLY B 55 1 15 HELIX 30 30 ASN B 64 ARG B 68 1 5 HELIX 31 31 PRO B 73 GLU B 75 5 3 HELIX 32 32 ASP B 83 ASP B 85 5 3 HELIX 33 33 GLN B 86 GLN B 100 1 15 HELIX 34 34 PRO B 121 TYR B 125 5 5 HELIX 35 35 THR B 134 GLY B 155 1 22 HELIX 36 36 THR B 170 HIS B 181 1 12 HELIX 37 37 LYS B 182 LEU B 186 5 5 HELIX 38 38 LYS B 187 GLU B 189 5 3 HELIX 39 39 GLY B 222 GLY B 224 5 3 HELIX 40 40 GLY B 225 GLN B 233 1 9 HELIX 41 41 ASN B 234 GLN B 241 1 8 HELIX 42 42 ASP B 261 LYS B 271 1 11 HELIX 43 43 GLU B 303 ILE B 307 5 5 HELIX 44 44 SER B 308 LYS B 314 1 7 HELIX 45 45 VAL B 335 VAL B 344 1 10 HELIX 46 46 TYR B 345 LEU B 349 5 5 HELIX 47 47 PHE B 381 ALA B 389 5 9 HELIX 48 48 LEU B 398 PHE B 403 1 6 HELIX 49 49 ASN B 408 GLN B 412 5 5 HELIX 50 50 ASN B 417 ALA B 436 1 20 HELIX 51 51 LEU B 494 ALA B 499 1 6
SHEET 1 A 3 MET A 69 GLU A 70 0 SHEET 2 A 3 VAL A 291 VAL A 295 -1 O ARG A 294 N GLU A 70 SHEET 3 A 3 VAL A 298 VAL A 302 -1 O VAL A 298 N VAL A 295 SHEET 1 B 8 LEU A 77 SER A 79 0 SHEET 2 B 8 PHE A 392 GLU A 396 1 O GLU A 396 N GLY A 78 SHEET 3 B 8 CYS A 275 GLU A 281 1 N VAL A 279 O TYR A 395 SHEET 4 B 8 ALA A 325 THR A 334 -1 O GLY A 326 N VAL A 280 SHEET 5 B 8 SER A 246 CYS A 251 -1 N VAL A 249 O HIS A 331 SHEET 6 B 8 VAL A 103 ALA A 109 1 N LEU A 106 O HIS A 248 SHEET 7 B 8 TRP A 162 THR A 166 1 O TYR A 163 N LEU A 107 SHEET 8 B 8 VAL A 191 GLN A 195 1 O ILE A 192 N ILE A 164 SHEET 1 C 2 MET A 198 PRO A 200 0 SHEET 2 C 2 MET A 218 PRO A 220 -1 O ALA A 219 N LEU A 199 SHEET 1 D 3 MET A 202 SER A 203 0 SHEET 2 D 3 GLY A 375 GLU A 379 -1 O ILE A 376 N MET A 202 SHEET 3 D 3 HIS A 352 LYS A 356 -1 N HIS A 352 O GLU A 379 SHEET 1 E 2 LEU A 210 GLU A 212 0 SHEET 2 E 2 LYS A 215 VAL A 216 -1 O LYS A 215 N GLU A 212 SHEET 1 F 2 TYR A 360 VAL A 361 0 SHEET 2 F 2 LEU A 367 ILE A 368 -1 O ILE A 368 N TYR A 360 SHEET 1 G 2 HIS A 439 PHE A 440 0 SHEET 2 G 2 GLU A 502 PHE A 503 1 O PHE A 503 N HIS A 439 SHEET 1 H 3 CYS A 481 ILE A 483 0 SHEET 2 H 3 LEU A 507 ASP A 510 1 O LEU A 507 N GLU A 482 SHEET 3 H 3 GLY A 513 GLU A 516 -1 O HIS A 515 N ILE A 508 SHEET 1 I 3 MET B 69 GLU B 70 0 SHEET 2 I 3 VAL B 291 VAL B 295 -1 O ARG B 294 N GLU B 70 SHEET 3 I 3 VAL B 298 VAL B 302 -1 O GLN B 300 N CYS B 293 SHEET 1 J 8 LEU B 77 SER B 79 0 SHEET 2 J 8 PHE B 392 VAL B 397 1 O VAL B 394 N GLY B 78 SHEET 3 J 8 CYS B 275 GLU B 281 1 N ALA B 277 O TYR B 395 SHEET 4 J 8 ALA B 325 THR B 334 -1 O PHE B 332 N GLY B 276 SHEET 5 J 8 SER B 246 CYS B 251 -1 N VAL B 249 O HIS B 331 SHEET 6 J 8 VAL B 103 LEU B 108 1 N ALA B 104 O SER B 246 SHEET 7 J 8 TRP B 162 THR B 166 1 O TYR B 163 N VAL B 105 SHEET 8 J 8 VAL B 191 GLN B 195 1 O PHE B 194 N THR B 166 SHEET 1 K 2 MET B 198 PRO B 200 0 SHEET 2 K 2 MET B 218 PRO B 220 -1 O ALA B 219 N LEU B 199 SHEET 1 L 3 MET B 202 SER B 203 0 SHEET 2 L 3 GLY B 375 GLU B 379 -1 O ILE B 376 N MET B 202 SHEET 3 L 3 HIS B 352 LYS B 356 -1 N LYS B 356 O GLY B 375 SHEET 1 M 2 LEU B 210 GLU B 212 0 SHEET 2 M 2 LYS B 215 VAL B 216 -1 O LYS B 215 N GLU B 212 SHEET 1 N 2 TYR B 360 VAL B 361 0 SHEET 2 N 2 LEU B 367 ILE B 368 -1 O ILE B 368 N TYR B 360 SHEET 1 O 2 HIS B 439 PHE B 440 0 SHEET 2 O 2 GLU B 502 PHE B 503 1 O PHE B 503 N HIS B 439 SHEET 1 P 3 CYS B 481 ILE B 483 0 SHEET 2 P 3 LEU B 507 ASP B 510 1 O LEU B 507 N GLU B 482 SHEET 3 P 3 GLY B 513 GLU B 516 -1 O HIS B 515 N ILE B 508
CISPEP 1 VAL A 477 PRO A 478 0 0.15 CISPEP 2 ALA A 505 PRO A 506 0 -0.23 CISPEP 3 ALA B 505 PRO B 506 0 0.38
SITE 1 AC1 23 LEU A 108 ALA A 109 GLY A 110 MET A 165 SITE 2 AC1 23 GLN A 196 PRO A 220 GLY A 222 ASN A 223 SITE 3 AC1 23 CYS A 251 VAL A 252 VAL A 289 GLY A 290 SITE 4 AC1 23 GLU A 303 TYR A 304 ASN A 327 PHE A 381 SITE 5 AC1 23 PHE A 383 PHE A 403 LYS A 407 HOH A 931 SITE 6 AC1 23 HOH A 972 HOH A1020 ARG B 453 SITE 1 AC2 24 ARG A 453 LEU B 108 ALA B 109 GLY B 110 SITE 2 AC2 24 GLY B 111 MET B 165 GLN B 196 PRO B 220 SITE 3 AC2 24 GLY B 222 ASN B 223 CYS B 251 VAL B 252 SITE 4 AC2 24 VAL B 289 GLY B 290 GLU B 303 TYR B 304 SITE 5 AC2 24 ASN B 327 PHE B 381 PHE B 383 PHE B 403 SITE 6 AC2 24 LYS B 407 HOH B 916 HOH B 939 HOH B1019
CRYST1 86.543 71.281 91.390 90.00 92.82 90.00 P 1 21 1 4
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 0.011555 0.000000 0.000569 0.00000
SCALE2 0.000000 0.014029 0.000000 0.00000
SCALE3 0.000000 0.000000 0.010955 0.00000