HEADER TRANSFERASE 31-OCT-21 7Q4I TITLE CRYSTAL STRUCTURE OF DMC1GALT1 IN COMPLEX WITH UDP-MN2+ AND THE APD- TITLE 2 TGALNAC-RP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOPROTEIN-N-ACETYLGALACTOSAMINE 3-BETA- COMPND 3 GALACTOSYLTRANSFERASE 1; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: CORE 1 O-GLYCAN T-SYNTHASE,CORE 1 UDP-GALACTOSE:N- COMPND 6 ACETYLGALACTOSAMINE-ALPHA-R BETA 1,3-GALACTOSYLTRANSFERASE 1,CORE 1 COMPND 7 BETA1,C1GALT1,CORE 1 BETA3-GAL-T1; COMPND 8 EC: 2.4.1.122; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: MUCIN-1; COMPND 12 CHAIN: G, F; COMPND 13 SYNONYM: MUC-1,BREAST CARCINOMA-ASSOCIATED ANTIGEN DF3,CANCER ANTIGEN COMPND 14 15-3,CA 15-3,CARCINOMA-ASSOCIATED MUCIN,EPISIALIN,H23AG,KREBS VON DEN COMPND 15 LUNGEN-6,KL-6,PEMT,PEANUT-REACTIVE URINARY MUCIN,PUM,POLYMORPHIC COMPND 16 EPITHELIAL MUCIN,PEM,TUMOR-ASSOCIATED EPITHELIAL MEMBRANE ANTIGEN, COMPND 17 EMA,TUMOR-ASSOCIATED MUCIN; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 3 ORGANISM_COMMON: FRUIT FLY; SOURCE 4 ORGANISM_TAXID: 7227; SOURCE 5 GENE: C1GALTA, CG9520; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606 KEYWDS C1GALT1, T-SYNTHASE, T ANTIGEN, TN ANTIGEN, MUCIN-TYPE O- KEYWDS 2 GLYCOSYLATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.M.GONZALEZ-RAMIREZ,H.COELHO,I.COMPANON,A.S.GROSSO,Z.YANG, AUTHOR 2 Y.NARIMATSU,H.CLAUSEN,F.MARCELO,F.CORZANA,R.HURTADO-GUERRERO REVDAT 3 01-MAY-24 7Q4I 1 REMARK REVDAT 2 16-NOV-22 7Q4I 1 JRNL REVDAT 1 13-APR-22 7Q4I 0 JRNL AUTH A.M.GONZALEZ-RAMIREZ,A.S.GROSSO,Z.YANG,I.COMPANON,H.COELHO, JRNL AUTH 2 Y.NARIMATSU,H.CLAUSEN,F.MARCELO,F.CORZANA,R.HURTADO-GUERRERO JRNL TITL STRUCTURAL BASIS FOR THE SYNTHESIS OF THE CORE 1 STRUCTURE JRNL TITL 2 BY C1GALT1. JRNL REF NAT COMMUN V. 13 2398 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35504880 JRNL DOI 10.1038/S41467-022-29833-0 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 21579 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.800 REMARK 3 FREE R VALUE TEST SET COUNT : 841 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) : 1585 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.2260 REMARK 3 BIN FREE R VALUE SET COUNT : 49 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4656 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 92 REMARK 3 SOLVENT ATOMS : 74 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.15000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : -0.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.71000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.624 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.270 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.205 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.877 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4899 ; 0.011 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4434 ; 0.003 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6657 ; 1.769 ; 1.695 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10243 ; 1.420 ; 1.633 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 560 ; 7.636 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 265 ;32.386 ;22.113 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 782 ;17.226 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;20.748 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 604 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5448 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1168 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2242 ; 2.826 ; 3.189 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2240 ; 2.825 ; 3.186 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2797 ; 4.341 ; 4.774 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2798 ; 4.341 ; 4.776 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2657 ; 3.622 ; 3.582 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2658 ; 3.622 ; 3.582 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3860 ; 5.665 ; 5.210 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5415 ; 7.613 ;36.336 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5405 ; 7.613 ;36.324 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 87 364 B 87 364 9246 0.08 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 7Q4I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-NOV-21. REMARK 100 THE DEPOSITION ID IS D_1292118972. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9919 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22437 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.14300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.1000 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) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.82500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: PHASER REMARK 200 STARTING MODEL: AF-Q9NS00-F1-MODEL_V1.PDB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM THIOCYANATE, POLYETHYLENE REMARK 280 GLYCOL MONOMETHYL ETHER 2,000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K 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 40.22250 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, G, F 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 SER A 73 REMARK 465 GLY A 74 REMARK 465 PRO A 75 REMARK 465 GLU A 76 REMARK 465 GLN A 77 REMARK 465 ASP A 78 REMARK 465 VAL A 79 REMARK 465 GLY A 80 REMARK 465 GLY A 81 REMARK 465 HIS A 82 REMARK 465 GLU A 83 REMARK 465 HIS A 84 REMARK 465 VAL A 85 REMARK 465 HIS A 86 REMARK 465 ILE A 366 REMARK 465 LYS A 367 REMARK 465 GLU A 368 REMARK 465 GLN A 369 REMARK 465 ALA A 370 REMARK 465 THR A 371 REMARK 465 GLU A 372 REMARK 465 SER A 373 REMARK 465 THR A 374 REMARK 465 SER A 375 REMARK 465 ASP A 376 REMARK 465 GLY A 377 REMARK 465 VAL A 378 REMARK 465 SER A 379 REMARK 465 LYS A 380 REMARK 465 ARG A 381 REMARK 465 SER A 382 REMARK 465 ALA A 383 REMARK 465 GLU A 384 REMARK 465 THR A 385 REMARK 465 LYS A 386 REMARK 465 THR A 387 REMARK 465 GLN A 388 REMARK 465 SER B 73 REMARK 465 GLY B 74 REMARK 465 PRO B 75 REMARK 465 GLU B 76 REMARK 465 GLN B 77 REMARK 465 ASP B 78 REMARK 465 VAL B 79 REMARK 465 GLY B 80 REMARK 465 GLY B 81 REMARK 465 HIS B 82 REMARK 465 GLU B 83 REMARK 465 HIS B 84 REMARK 465 VAL B 85 REMARK 465 LYS B 367 REMARK 465 GLU B 368 REMARK 465 GLN B 369 REMARK 465 ALA B 370 REMARK 465 THR B 371 REMARK 465 GLU B 372 REMARK 465 SER B 373 REMARK 465 THR B 374 REMARK 465 SER B 375 REMARK 465 ASP B 376 REMARK 465 GLY B 377 REMARK 465 VAL B 378 REMARK 465 SER B 379 REMARK 465 LYS B 380 REMARK 465 ARG B 381 REMARK 465 SER B 382 REMARK 465 ALA B 383 REMARK 465 GLU B 384 REMARK 465 THR B 385 REMARK 465 LYS B 386 REMARK 465 THR B 387 REMARK 465 GLN B 388 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 ALA G 1 N CA CB REMARK 470 ALA F 1 N CA CB 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 F 5 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG F 5 NE - CZ - NH2 ANGL. DEV. = 6.0 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 LYS A 115 -58.09 -126.64 REMARK 500 THR A 122 -103.21 -105.95 REMARK 500 ASP A 138 117.39 -164.76 REMARK 500 TYR A 213 -15.87 78.50 REMARK 500 HIS A 294 74.77 -61.76 REMARK 500 ASP A 296 90.88 -26.98 REMARK 500 GLU A 311 -143.77 57.90 REMARK 500 LYS B 115 -57.76 -129.42 REMARK 500 THR B 122 -101.46 -104.35 REMARK 500 TYR B 213 -22.29 76.54 REMARK 500 ASP B 296 32.58 36.34 REMARK 500 LYS B 297 40.77 -97.92 REMARK 500 GLU B 311 -144.30 59.32 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 CYS A 315 CYS A 316 -142.36 REMARK 500 CYS B 315 CYS B 316 -142.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 181 OD2 REMARK 620 2 ASP A 183 OD1 100.4 REMARK 620 3 ASP A 183 OD2 155.9 55.5 REMARK 620 4 HIS A 324 NE2 91.7 88.3 89.7 REMARK 620 5 UDP A 401 O1A 100.5 90.9 79.8 167.7 REMARK 620 6 UDP A 401 O2B 91.9 167.0 112.2 87.2 90.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 181 OD2 REMARK 620 2 ASP B 183 OD1 95.6 REMARK 620 3 ASP B 183 OD2 150.7 55.3 REMARK 620 4 HIS B 324 NE2 93.0 87.2 89.3 REMARK 620 5 UDP B 401 O1A 101.8 93.3 78.8 165.1 REMARK 620 6 UDP B 401 O1B 98.2 165.6 111.1 87.8 88.1 REMARK 620 N 1 2 3 4 5 DBREF 7Q4I A 73 388 UNP Q7K237 C1GLT_DROME 73 388 DBREF 7Q4I B 73 388 UNP Q7K237 C1GLT_DROME 73 388 DBREF 7Q4I G 1 6 UNP P15941 MUC1_HUMAN 141 146 DBREF 7Q4I F 1 6 UNP P15941 MUC1_HUMAN 141 146 SEQRES 1 A 316 SER GLY PRO GLU GLN ASP VAL GLY GLY HIS GLU HIS VAL SEQRES 2 A 316 HIS GLU ASN SER THR ILE ALA GLU ARG LEU TYR SER GLU SEQRES 3 A 316 VAL ARG VAL LEU CYS TRP ILE MET THR ASN PRO SER ASN SEQRES 4 A 316 HIS GLN LYS LYS ALA ARG HIS VAL LYS ARG THR TRP GLY SEQRES 5 A 316 LYS ARG CYS ASN LYS LEU ILE PHE MET SER SER ALA LYS SEQRES 6 A 316 ASP ASP GLU LEU ASP ALA VAL ALA LEU PRO VAL GLY GLU SEQRES 7 A 316 GLY ARG ASN ASN LEU TRP GLY LYS THR LYS GLU ALA TYR SEQRES 8 A 316 LYS TYR ILE TYR GLU HIS HIS ILE ASN ASP ALA ASP TRP SEQRES 9 A 316 PHE LEU LYS ALA ASP ASP ASP THR TYR THR ILE VAL GLU SEQRES 10 A 316 ASN MET ARG TYR MET LEU TYR PRO TYR SER PRO GLU THR SEQRES 11 A 316 PRO VAL TYR PHE GLY CYS LYS PHE LYS PRO TYR VAL LYS SEQRES 12 A 316 GLN GLY TYR MET SER GLY GLY ALA GLY TYR VAL LEU SER SEQRES 13 A 316 ARG GLU ALA VAL ARG ARG PHE VAL VAL GLU ALA LEU PRO SEQRES 14 A 316 ASN PRO LYS LEU CYS LYS SER ASP ASN SER GLY ALA GLU SEQRES 15 A 316 ASP VAL GLU ILE GLY LYS CYS LEU GLN ASN VAL ASN VAL SEQRES 16 A 316 LEU ALA GLY ASP SER ARG ASP SER ASN GLY ARG GLY ARG SEQRES 17 A 316 PHE PHE PRO PHE VAL PRO GLU HIS HIS LEU ILE PRO SER SEQRES 18 A 316 HIS THR ASP LYS LYS PHE TRP TYR TRP GLN TYR ILE PHE SEQRES 19 A 316 TYR LYS THR ASP GLU GLY LEU ASP CYS CYS SER ASP ASN SEQRES 20 A 316 ALA ILE SER PHE HIS TYR VAL SER PRO ASN GLN MET TYR SEQRES 21 A 316 VAL LEU ASP TYR LEU ILE TYR HIS LEU ARG PRO TYR GLY SEQRES 22 A 316 ILE ILE ASN THR PRO ASP ALA LEU PRO ASN LYS LEU ALA SEQRES 23 A 316 VAL GLY GLU LEU MET PRO GLU ILE LYS GLU GLN ALA THR SEQRES 24 A 316 GLU SER THR SER ASP GLY VAL SER LYS ARG SER ALA GLU SEQRES 25 A 316 THR LYS THR GLN SEQRES 1 B 316 SER GLY PRO GLU GLN ASP VAL GLY GLY HIS GLU HIS VAL SEQRES 2 B 316 HIS GLU ASN SER THR ILE ALA GLU ARG LEU TYR SER GLU SEQRES 3 B 316 VAL ARG VAL LEU CYS TRP ILE MET THR ASN PRO SER ASN SEQRES 4 B 316 HIS GLN LYS LYS ALA ARG HIS VAL LYS ARG THR TRP GLY SEQRES 5 B 316 LYS ARG CYS ASN LYS LEU ILE PHE MET SER SER ALA LYS SEQRES 6 B 316 ASP ASP GLU LEU ASP ALA VAL ALA LEU PRO VAL GLY GLU SEQRES 7 B 316 GLY ARG ASN ASN LEU TRP GLY LYS THR LYS GLU ALA TYR SEQRES 8 B 316 LYS TYR ILE TYR GLU HIS HIS ILE ASN ASP ALA ASP TRP SEQRES 9 B 316 PHE LEU LYS ALA ASP ASP ASP THR TYR THR ILE VAL GLU SEQRES 10 B 316 ASN MET ARG TYR MET LEU TYR PRO TYR SER PRO GLU THR SEQRES 11 B 316 PRO VAL TYR PHE GLY CYS LYS PHE LYS PRO TYR VAL LYS SEQRES 12 B 316 GLN GLY TYR MET SER GLY GLY ALA GLY TYR VAL LEU SER SEQRES 13 B 316 ARG GLU ALA VAL ARG ARG PHE VAL VAL GLU ALA LEU PRO SEQRES 14 B 316 ASN PRO LYS LEU CYS LYS SER ASP ASN SER GLY ALA GLU SEQRES 15 B 316 ASP VAL GLU ILE GLY LYS CYS LEU GLN ASN VAL ASN VAL SEQRES 16 B 316 LEU ALA GLY ASP SER ARG ASP SER ASN GLY ARG GLY ARG SEQRES 17 B 316 PHE PHE PRO PHE VAL PRO GLU HIS HIS LEU ILE PRO SER SEQRES 18 B 316 HIS THR ASP LYS LYS PHE TRP TYR TRP GLN TYR ILE PHE SEQRES 19 B 316 TYR LYS THR ASP GLU GLY LEU ASP CYS CYS SER ASP ASN SEQRES 20 B 316 ALA ILE SER PHE HIS TYR VAL SER PRO ASN GLN MET TYR SEQRES 21 B 316 VAL LEU ASP TYR LEU ILE TYR HIS LEU ARG PRO TYR GLY SEQRES 22 B 316 ILE ILE ASN THR PRO ASP ALA LEU PRO ASN LYS LEU ALA SEQRES 23 B 316 VAL GLY GLU LEU MET PRO GLU ILE LYS GLU GLN ALA THR SEQRES 24 B 316 GLU SER THR SER ASP GLY VAL SER LYS ARG SER ALA GLU SEQRES 25 B 316 THR LYS THR GLN SEQRES 1 G 6 ALA PRO ASP THR ARG LPD SEQRES 1 F 6 ALA PRO ASP THR ARG LPD MODRES 7Q4I LPD G 6 PRO MODIFIED RESIDUE MODRES 7Q4I LPD F 6 PRO MODIFIED RESIDUE HET LPD G 6 8 HET LPD F 6 8 HET UDP A 401 25 HET EDO A 402 4 HET MN A 403 1 HET UDP B 401 25 HET EDO B 402 4 HET MN B 403 1 HET A2G G 101 14 HET EDO F 101 4 HET A2G F 102 14 HETNAM LPD L-PROLINAMIDE HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETNAM MN MANGANESE (II) ION HETNAM A2G 2-ACETAMIDO-2-DEOXY-ALPHA-D-GALACTOPYRANOSE HETSYN EDO ETHYLENE GLYCOL HETSYN A2G N-ACETYL-ALPHA-D-GALACTOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 A2G ALPHA-D-GALACTOSE; 2-ACETAMIDO-2-DEOXY-D-GALACTOSE; 2- HETSYN 3 A2G ACETAMIDO-2-DEOXY-GALACTOSE; N-ACETYL-2-DEOXY-2-AMINO- HETSYN 4 A2G GALACTOSE FORMUL 3 LPD 2(C5 H10 N2 O) FORMUL 5 UDP 2(C9 H14 N2 O12 P2) FORMUL 6 EDO 3(C2 H6 O2) FORMUL 7 MN 2(MN 2+) FORMUL 11 A2G 2(C8 H15 N O6) FORMUL 14 HOH *74(H2 O) HELIX 1 AA1 SER A 89 VAL A 99 1 11 HELIX 2 AA2 ASN A 108 HIS A 112 5 5 HELIX 3 AA3 LYS A 115 THR A 122 1 8 HELIX 4 AA4 TRP A 123 CYS A 127 5 5 HELIX 5 AA5 GLY A 151 ASN A 153 5 3 HELIX 6 AA6 ASN A 154 ILE A 171 1 18 HELIX 7 AA7 ILE A 187 TYR A 196 1 10 HELIX 8 AA8 ARG A 229 GLU A 238 1 10 HELIX 9 AA9 ALA A 253 VAL A 265 1 13 HELIX 10 AB1 VAL A 285 ILE A 291 1 7 HELIX 11 AB2 PHE A 299 ILE A 305 1 7 HELIX 12 AB3 SER A 327 HIS A 340 1 14 HELIX 13 AB4 SER B 89 VAL B 99 1 11 HELIX 14 AB5 ASN B 108 HIS B 112 5 5 HELIX 15 AB6 LYS B 115 THR B 122 1 8 HELIX 16 AB7 TRP B 123 CYS B 127 5 5 HELIX 17 AB8 GLY B 151 ASN B 153 5 3 HELIX 18 AB9 ASN B 154 ILE B 171 1 18 HELIX 19 AC1 ILE B 187 TYR B 196 1 10 HELIX 20 AC2 ARG B 229 ALA B 239 1 11 HELIX 21 AC3 ALA B 253 VAL B 265 1 13 HELIX 22 AC4 VAL B 285 ILE B 291 1 7 HELIX 23 AC5 PHE B 299 ILE B 305 1 7 HELIX 24 AC6 SER B 327 HIS B 340 1 14 SHEET 1 AA1 7 VAL A 144 ALA A 145 0 SHEET 2 AA1 7 LYS A 129 SER A 134 1 N SER A 134 O VAL A 144 SHEET 3 AA1 7 VAL A 101 MET A 106 1 N ILE A 105 O MET A 133 SHEET 4 AA1 7 TRP A 176 ASP A 181 1 O LEU A 178 N TRP A 104 SHEET 5 AA1 7 TYR A 225 SER A 228 -1 O TYR A 225 N LYS A 179 SHEET 6 AA1 7 VAL A 204 PHE A 206 -1 N PHE A 206 O VAL A 226 SHEET 7 AA1 7 LEU A 268 ALA A 269 1 O LEU A 268 N TYR A 205 SHEET 1 AA2 2 THR A 184 THR A 186 0 SHEET 2 AA2 2 SER A 322 HIS A 324 -1 O PHE A 323 N TYR A 185 SHEET 1 AA3 2 LYS A 209 PHE A 210 0 SHEET 2 AA3 2 TYR A 218 MET A 219 -1 O TYR A 218 N PHE A 210 SHEET 1 AA4 2 ILE A 347 ASN A 348 0 SHEET 2 AA4 2 GLU B 87 ASN B 88 -1 O ASN B 88 N ILE A 347 SHEET 1 AA5 7 VAL B 144 ALA B 145 0 SHEET 2 AA5 7 LYS B 129 SER B 134 1 N PHE B 132 O VAL B 144 SHEET 3 AA5 7 VAL B 101 MET B 106 1 N CYS B 103 O LYS B 129 SHEET 4 AA5 7 TRP B 176 ASP B 181 1 O LEU B 178 N TRP B 104 SHEET 5 AA5 7 TYR B 225 SER B 228 -1 O TYR B 225 N LYS B 179 SHEET 6 AA5 7 VAL B 204 PHE B 206 -1 N VAL B 204 O SER B 228 SHEET 7 AA5 7 LEU B 268 ALA B 269 1 O LEU B 268 N TYR B 205 SHEET 1 AA6 2 THR B 184 THR B 186 0 SHEET 2 AA6 2 SER B 322 HIS B 324 -1 O PHE B 323 N TYR B 185 SHEET 1 AA7 2 LYS B 209 PHE B 210 0 SHEET 2 AA7 2 TYR B 218 MET B 219 -1 O TYR B 218 N PHE B 210 SSBOND 1 CYS A 103 CYS A 127 1555 1555 2.03 SSBOND 2 CYS A 246 CYS A 261 1555 1555 2.16 SSBOND 3 CYS A 315 CYS A 316 1555 1555 2.07 SSBOND 4 CYS B 103 CYS B 127 1555 1555 2.07 SSBOND 5 CYS B 246 CYS B 261 1555 1555 2.15 SSBOND 6 CYS B 315 CYS B 316 1555 1555 2.07 LINK OG1 THR G 4 C1 A2G G 101 1555 1555 1.38 LINK C ARG G 5 N LPD G 6 1555 1555 1.36 LINK OG1 THR F 4 C1 A2G F 102 1555 1555 1.44 LINK C ARG F 5 N LPD F 6 1555 1555 1.35 LINK OD2 ASP A 181 MN MN A 403 1555 1555 2.22 LINK OD1 ASP A 183 MN MN A 403 1555 1555 2.18 LINK OD2 ASP A 183 MN MN A 403 1555 1555 2.44 LINK NE2 HIS A 324 MN MN A 403 1555 1555 2.21 LINK O1A UDP A 401 MN MN A 403 1555 1555 2.10 LINK O2B UDP A 401 MN MN A 403 1555 1555 2.12 LINK OD2 ASP B 181 MN MN B 403 1555 1555 2.18 LINK OD1 ASP B 183 MN MN B 403 1555 1555 2.25 LINK OD2 ASP B 183 MN MN B 403 1555 1555 2.44 LINK NE2 HIS B 324 MN MN B 403 1555 1555 2.21 LINK O1A UDP B 401 MN MN B 403 1555 1555 2.15 LINK O1B UDP B 401 MN MN B 403 1555 1555 2.03 CRYST1 50.241 80.445 71.949 90.00 93.19 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 0.019904 0.000000 0.001110 0.00000 SCALE2 0.000000 0.012431 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013920 0.00000