HEADER HYDROLASE 10-DEC-20 7B7A TITLE ENDO-POLYGALACTURONASE FROM ARABIDOPSIS THALIANA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PECTIN LYASE-LIKE SUPERFAMILY PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POLYGALACTURONASE-LIKE PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: AT5G14650, T15N1.140, T15N1_140; SOURCE 6 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: X33 KEYWDS PECTINASE, BETA-SHEETS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.SAFRAN,W.TABI,O.HABRYLO,J.BOUCKAERT,V.LEFEBVRE,F.SENECHAL,J.PELLOUX REVDAT 3 07-FEB-24 7B7A 1 REMARK REVDAT 2 14-JUN-23 7B7A 1 JRNL REVDAT 1 22-JUN-22 7B7A 0 JRNL AUTH J.SAFRAN,W.TABI,V.UNG,A.LEMAIRE,O.HABRYLO,J.BOUCKAERT, JRNL AUTH 2 M.ROUFFLE,A.VOXEUR,P.PONGRAC,S.BASSARD,R.MOLINIE, JRNL AUTH 3 J.X.FONTAINE,S.PILARD,C.PAU-ROBLOT,E.BONNIN,D.S.LARSEN, JRNL AUTH 4 M.MOREL-ROUHIER,J.M.GIRARDET,V.LEFEBVRE,F.SENECHAL, JRNL AUTH 5 D.MERCADANTE,J.PELLOUX JRNL TITL PLANT POLYGALACTURONASE STRUCTURES SPECIFY ENZYME DYNAMICS JRNL TITL 2 AND PROCESSIVITIES TO FINE-TUNE CELL WALL PECTINS. JRNL REF PLANT CELL 2023 JRNL REFN ESSN 1532-298X JRNL PMID 37202370 JRNL DOI 10.1093/PLCELL/KOAD134 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2_3874 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 83634 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.144 REMARK 3 R VALUE (WORKING SET) : 0.142 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4182 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 34.5000 - 4.0400 0.99 2731 144 0.1743 0.2106 REMARK 3 2 4.0400 - 3.2100 0.99 2718 143 0.1329 0.1675 REMARK 3 3 3.2100 - 2.8000 0.99 2739 144 0.1419 0.1572 REMARK 3 4 2.8000 - 2.5400 0.99 2724 143 0.1446 0.1727 REMARK 3 5 2.5400 - 2.3600 0.99 2733 144 0.1381 0.1622 REMARK 3 6 2.3600 - 2.2200 0.99 2713 143 0.1261 0.1558 REMARK 3 7 2.2200 - 2.1100 0.99 2730 144 0.1239 0.1569 REMARK 3 8 2.1100 - 2.0200 0.98 2729 143 0.1253 0.1641 REMARK 3 9 2.0200 - 1.9400 0.98 2680 141 0.1222 0.1606 REMARK 3 10 1.9400 - 1.8700 0.98 2719 143 0.1203 0.1583 REMARK 3 11 1.8700 - 1.8200 0.98 2646 140 0.1248 0.1592 REMARK 3 12 1.8200 - 1.7600 0.98 2692 141 0.1315 0.1723 REMARK 3 13 1.7600 - 1.7200 0.97 2701 143 0.1325 0.1814 REMARK 3 14 1.7200 - 1.6800 0.97 2642 139 0.1285 0.1768 REMARK 3 15 1.6800 - 1.6400 0.97 2689 141 0.1312 0.1796 REMARK 3 16 1.6400 - 1.6000 0.96 2636 139 0.1324 0.1681 REMARK 3 17 1.6000 - 1.5700 0.96 2644 139 0.1302 0.1795 REMARK 3 18 1.5700 - 1.5400 0.96 2645 140 0.1246 0.1448 REMARK 3 19 1.5400 - 1.5100 0.96 2637 139 0.1291 0.1751 REMARK 3 20 1.5100 - 1.4900 0.96 2652 139 0.1393 0.2068 REMARK 3 21 1.4900 - 1.4600 0.96 2684 142 0.1551 0.1989 REMARK 3 22 1.4600 - 1.4400 0.95 2549 134 0.1711 0.2205 REMARK 3 23 1.4400 - 1.4200 0.93 2593 136 0.1627 0.2110 REMARK 3 24 1.4200 - 1.4000 0.93 2521 133 0.1695 0.2129 REMARK 3 25 1.4000 - 1.3800 0.93 2615 138 0.1678 0.2342 REMARK 3 26 1.3800 - 1.3600 0.93 2534 133 0.1687 0.2123 REMARK 3 27 1.3600 - 1.3500 0.92 2528 133 0.1813 0.2110 REMARK 3 28 1.3500 - 1.3300 0.92 2582 135 0.1922 0.2569 REMARK 3 29 1.3300 - 1.3100 0.92 2511 132 0.2022 0.2591 REMARK 3 30 1.3100 - 1.3000 0.92 2535 134 0.2020 0.2522 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.117 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.623 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.84 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 3266 REMARK 3 ANGLE : 1.531 4473 REMARK 3 CHIRALITY : 0.111 532 REMARK 3 PLANARITY : 0.011 582 REMARK 3 DIHEDRAL : 15.761 1216 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7B7A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-DEC-20. REMARK 100 THE DEPOSITION ID IS D_1292112692. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100.15 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 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 : AIMLESS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 83670 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 34.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.77700 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: 1RMG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM FLUORIDE, 0.1 M BIS-TRIS REMARK 280 PROPANE PH 8.5, 20 % W/V PEG 3350 (H1 CONDITION, PACT PREMIER REMARK 280 PLATE), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291.15K 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 TOTAL BURIED SURFACE AREA: 2160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, 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 ARG A 1 REMARK 465 TYR A 2 REMARK 465 SER A 3 REMARK 465 VAL A 4 REMARK 465 TYR A 5 REMARK 465 TRP A 6 REMARK 465 LYS A 7 REMARK 465 GLY A 8 REMARK 465 ASN A 9 REMARK 465 ARG A 10 REMARK 465 ARG A 11 REMARK 465 SER A 12 REMARK 465 ILE A 13 REMARK 465 ALA A 14 REMARK 465 GLU A 15 REMARK 465 GLY A 16 REMARK 465 GLY A 17 REMARK 465 SER A 18 REMARK 465 GLN A 410 REMARK 465 LYS A 411 REMARK 465 LEU A 412 REMARK 465 ILE A 413 REMARK 465 SER A 414 REMARK 465 GLU A 415 REMARK 465 GLU A 416 REMARK 465 ASP A 417 REMARK 465 LEU A 418 REMARK 465 ASN A 419 REMARK 465 SER A 420 REMARK 465 ALA A 421 REMARK 465 VAL A 422 REMARK 465 ASP A 423 REMARK 465 HIS A 424 REMARK 465 HIS A 425 REMARK 465 HIS A 426 REMARK 465 HIS A 427 REMARK 465 HIS A 428 REMARK 465 HIS A 429 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 HA VAL A 127 HE3 MET A 132 1.14 REMARK 500 HG12 VAL A 51 HB3 SER A 54 1.18 REMARK 500 HE21 GLN A 220 O HOH A 501 1.39 REMARK 500 SG CYS A 388 O HOH A 894 1.45 REMARK 500 N ALA A 52 HE2 LYS A 77 1.57 REMARK 500 C VAL A 51 HE2 LYS A 77 1.59 REMARK 500 O HOH A 726 O HOH A 852 1.69 REMARK 500 O HOH A 599 O HOH A 944 1.70 REMARK 500 C6 BMA B 3 C1 MAN B 4 1.98 REMARK 500 O HOH A 630 O HOH A 993 2.00 REMARK 500 O HOH A 944 O HOH A 993 2.00 REMARK 500 O HOH A 894 O HOH A 925 2.01 REMARK 500 NE2 GLN A 220 O HOH A 501 2.04 REMARK 500 O HOH A 726 O HOH A 805 2.04 REMARK 500 O HOH A 635 O HOH A 961 2.06 REMARK 500 O HOH A 631 O HOH A 764 2.06 REMARK 500 O HOH A 963 O HOH A 982 2.06 REMARK 500 O HOH A 617 O HOH A 742 2.07 REMARK 500 O6 BMA B 3 C2 MAN B 4 2.09 REMARK 500 O HOH A 901 O HOH A 996 2.10 REMARK 500 O6 BMA B 3 O5 MAN B 4 2.10 REMARK 500 O ASN A 402 O HOH A 502 2.12 REMARK 500 O HOH A 964 O HOH A 1052 2.12 REMARK 500 O HOH A 511 O HOH A 828 2.14 REMARK 500 O HOH A 733 O HOH A 962 2.15 REMARK 500 ND2 ASN A 255 O5 NAG C 1 2.16 REMARK 500 O HOH A 540 O HOH A 889 2.16 REMARK 500 O HOH A 893 O HOH A 909 2.17 REMARK 500 O HOH A 525 O HOH A 611 2.17 REMARK 500 OE1 GLN A 198 O HOH A 503 2.18 REMARK 500 O HOH A 873 O HOH A 990 2.18 REMARK 500 O HOH A 722 O HOH A 828 2.19 REMARK 500 OE1 GLU A 265 O HOH A 505 2.19 REMARK 500 OD2 ASP A 193 O HOH A 506 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 CA GLY A 134 NH1 ARG A 207 1655 2.08 REMARK 500 O HOH A 612 O HOH A 845 1455 2.08 REMARK 500 O HOH A 669 O HOH A 853 1455 2.12 REMARK 500 O HOH A 742 O HOH A 962 1655 2.14 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 THR A 34 -36.73 -140.16 REMARK 500 ALA A 53 14.76 58.79 REMARK 500 TRP A 104 -70.60 -81.10 REMARK 500 ASP A 131 62.80 61.92 REMARK 500 GLN A 165 -117.04 -146.77 REMARK 500 SER A 175 72.32 72.92 REMARK 500 SER A 175 77.63 69.65 REMARK 500 ASP A 202 62.42 62.69 REMARK 500 ASP A 214 -153.95 -146.47 REMARK 500 ASP A 260 63.43 64.50 REMARK 500 GLN A 284 76.52 69.24 REMARK 500 CYS A 306 29.04 -152.23 REMARK 500 ASN A 322 70.55 54.74 REMARK 500 ASN A 322 61.02 63.85 REMARK 500 ASN A 327 67.70 62.45 REMARK 500 LYS A 334 -120.38 -134.12 REMARK 500 LEU A 345 83.99 -162.28 REMARK 500 LEU A 345 83.99 -161.85 REMARK 500 SER A 401 90.77 -68.85 REMARK 500 ASN A 403 -75.40 -119.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN A 111 12.23 REMARK 500 GLN A 111 14.20 REMARK 500 CYS A 233 -12.71 REMARK 500 SER A 281 14.17 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 A1063 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A1065 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH A1066 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A1068 DISTANCE = 6.07 ANGSTROMS REMARK 525 HOH A1070 DISTANCE = 6.42 ANGSTROMS DBREF 7B7A A 1 406 UNP Q9LYJ5 Q9LYJ5_ARATH 30 435 SEQADV 7B7A PHE A 407 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A LEU A 408 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A GLU A 409 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A GLN A 410 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A LYS A 411 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A LEU A 412 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A ILE A 413 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A SER A 414 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A GLU A 415 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A GLU A 416 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A ASP A 417 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A LEU A 418 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A ASN A 419 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A SER A 420 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A ALA A 421 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A VAL A 422 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A ASP A 423 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A HIS A 424 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A HIS A 425 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A HIS A 426 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A HIS A 427 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A HIS A 428 UNP Q9LYJ5 EXPRESSION TAG SEQADV 7B7A HIS A 429 UNP Q9LYJ5 EXPRESSION TAG SEQRES 1 A 429 ARG TYR SER VAL TYR TRP LYS GLY ASN ARG ARG SER ILE SEQRES 2 A 429 ALA GLU GLY GLY SER SER GLY THR ILE ASN VAL LEU ASP SEQRES 3 A 429 HIS GLY ALA LYS GLY ASP GLY THR SER ASP ASP THR LYS SEQRES 4 A 429 ALA PHE GLU ASP ALA TRP GLN VAL ALA CYS LYS VAL ALA SEQRES 5 A 429 ALA SER THR LEU LEU VAL PRO SER GLY SER THR PHE LEU SEQRES 6 A 429 VAL GLY PRO VAL SER PHE LEU GLY LYS GLU CYS LYS GLU SEQRES 7 A 429 LYS ILE VAL PHE GLN LEU GLU GLY LYS ILE ILE ALA PRO SEQRES 8 A 429 THR SER ALA SER ALA TRP GLY SER GLY LEU LEU GLN TRP SEQRES 9 A 429 ILE GLU PHE LYS ALA LEU GLN GLY ILE THR ILE LYS GLY SEQRES 10 A 429 LYS GLY ILE ILE ASP GLY ARG GLY SER VAL TRP TRP ASN SEQRES 11 A 429 ASP MET MET GLY THR LYS MET PRO ARG THR LYS PRO THR SEQRES 12 A 429 ALA LEU ARG PHE TYR GLY SER ASN GLY VAL THR VAL SER SEQRES 13 A 429 GLY ILE THR ILE GLN ASN SER PRO GLN THR HIS LEU LYS SEQRES 14 A 429 PHE ASP ASN CYS ILE SER ILE GLN VAL SER ASP PHE THR SEQRES 15 A 429 THR SER SER PRO GLY ASP SER PRO ASN THR ASP GLY ILE SEQRES 16 A 429 HIS LEU GLN ASN SER GLN ASP ALA VAL ILE TYR ARG SER SEQRES 17 A 429 THR LEU ALA CYS GLY ASP ASP CYS ILE SER ILE GLN THR SEQRES 18 A 429 GLY CYS SER ASN ILE ASN ILE HIS ASP VAL ASP CYS GLY SEQRES 19 A 429 PRO GLY HIS GLY ILE SER ILE GLY GLY LEU GLY LYS ASP SEQRES 20 A 429 ASN THR LYS ALA CYS VAL SER ASN ILE THR VAL ARG ASP SEQRES 21 A 429 VAL THR MET HIS GLU THR THR ASN GLY VAL ARG ILE LYS SEQRES 22 A 429 SER TRP GLN GLY GLY SER GLY SER VAL LYS GLN VAL MET SEQRES 23 A 429 PHE SER ASN ILE GLN VAL SER ASN VAL ALA ASN PRO ILE SEQRES 24 A 429 ILE ILE ASP GLN TYR TYR CYS ASP GLY GLY GLY CYS HIS SEQRES 25 A 429 ASN GLU THR SER ALA VAL ALA VAL SER ASN ILE ASN TYR SEQRES 26 A 429 ILE ASN ILE LYS GLY THR TYR THR LYS GLU PRO VAL ARG SEQRES 27 A 429 PHE ALA CYS SER ASP SER LEU PRO CYS THR GLY ILE SER SEQRES 28 A 429 LEU SER THR ILE GLU LEU LYS PRO ALA THR GLY LYS ALA SEQRES 29 A 429 SER SER LEU ASP PRO PHE CYS TRP LYS ALA HIS GLY GLU SEQRES 30 A 429 LEU LYS THR LYS THR LEU PRO PRO ILE GLN CYS LEU LYS SEQRES 31 A 429 THR GLU LYS SER PRO GLU ALA ALA SER ARG SER ASN ASN SEQRES 32 A 429 ASP ALA CYS PHE LEU GLU GLN LYS LEU ILE SER GLU GLU SEQRES 33 A 429 ASP LEU ASN SER ALA VAL ASP HIS HIS HIS HIS HIS HIS HET NAG C 1 22 HET NAG C 2 22 HET NAG B 1 22 HET NAG B 2 22 HET BMA B 3 16 HET MAN B 4 18 HET MAN B 5 19 HET MAN B 6 19 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 2 NAG 4(C8 H15 N O6) FORMUL 3 BMA C6 H12 O6 FORMUL 3 MAN 3(C6 H12 O6) FORMUL 4 HOH *582(H2 O) HELIX 1 AA1 LEU A 25 GLY A 28 5 4 HELIX 2 AA2 ASP A 37 CYS A 49 1 13 HELIX 3 AA3 SER A 93 TRP A 97 5 5 HELIX 4 AA4 GLY A 125 ASN A 130 1 6 HELIX 5 AA5 THR A 361 SER A 366 1 6 HELIX 6 AA6 SER A 394 ARG A 400 1 7 SHEET 1 AA113 THR A 21 ASN A 23 0 SHEET 2 AA113 THR A 55 VAL A 58 1 O THR A 55 N ILE A 22 SHEET 3 AA113 VAL A 81 LEU A 84 1 O GLN A 83 N LEU A 56 SHEET 4 AA113 GLN A 111 LYS A 116 1 O THR A 114 N PHE A 82 SHEET 5 AA113 ASN A 151 SER A 156 1 O SER A 156 N ILE A 115 SHEET 6 AA113 ILE A 174 SER A 179 1 O ILE A 174 N GLY A 152 SHEET 7 AA113 GLN A 201 ALA A 211 1 O TYR A 206 N VAL A 178 SHEET 8 AA113 THR A 182 SER A 184 1 N THR A 183 O THR A 209 SHEET 9 AA113 THR A 159 GLN A 161 1 N ILE A 160 O THR A 182 SHEET 10 AA113 ILE A 120 ASP A 122 1 N ILE A 121 O GLN A 161 SHEET 11 AA113 LYS A 87 ILE A 89 1 N ILE A 88 O ASP A 122 SHEET 12 AA113 THR A 63 LEU A 65 1 N PHE A 64 O LYS A 87 SHEET 13 AA113 ASP A 32 ASP A 36 1 N GLY A 33 O THR A 63 SHEET 1 AA213 THR A 21 ASN A 23 0 SHEET 2 AA213 THR A 55 VAL A 58 1 O THR A 55 N ILE A 22 SHEET 3 AA213 VAL A 81 LEU A 84 1 O GLN A 83 N LEU A 56 SHEET 4 AA213 GLN A 111 LYS A 116 1 O THR A 114 N PHE A 82 SHEET 5 AA213 ASN A 151 SER A 156 1 O SER A 156 N ILE A 115 SHEET 6 AA213 ILE A 174 SER A 179 1 O ILE A 174 N GLY A 152 SHEET 7 AA213 GLN A 201 ALA A 211 1 O TYR A 206 N VAL A 178 SHEET 8 AA213 CYS A 223 CYS A 233 1 O ASP A 232 N LEU A 210 SHEET 9 AA213 LYS A 250 HIS A 264 1 O THR A 262 N CYS A 233 SHEET 10 AA213 SER A 279 VAL A 295 1 O SER A 288 N VAL A 258 SHEET 11 AA213 ALA A 319 TYR A 332 1 O ASN A 324 N PHE A 287 SHEET 12 AA213 CYS A 347 PRO A 359 1 O SER A 351 N TYR A 325 SHEET 13 AA213 ALA A 374 LEU A 378 1 O GLU A 377 N ILE A 350 SHEET 1 AA311 VAL A 69 LEU A 72 0 SHEET 2 AA311 GLN A 103 LYS A 108 1 O GLU A 106 N PHE A 71 SHEET 3 AA311 THR A 143 TYR A 148 1 O THR A 143 N TRP A 104 SHEET 4 AA311 LEU A 168 ASP A 171 1 O LYS A 169 N PHE A 147 SHEET 5 AA311 ILE A 195 GLN A 198 1 O HIS A 196 N LEU A 168 SHEET 6 AA311 ILE A 217 ILE A 219 1 O SER A 218 N ILE A 195 SHEET 7 AA311 ILE A 239 LEU A 244 1 O SER A 240 N ILE A 217 SHEET 8 AA311 ASN A 268 SER A 274 1 O LYS A 273 N ILE A 241 SHEET 9 AA311 ASN A 297 ASP A 302 1 O ASP A 302 N ILE A 272 SHEET 10 AA311 VAL A 337 ALA A 340 1 O ALA A 340 N ILE A 301 SHEET 11 AA311 PHE A 370 TRP A 372 1 O PHE A 370 N PHE A 339 SSBOND 1 CYS A 49 CYS A 76 1555 1555 2.03 SSBOND 2 CYS A 216 CYS A 233 1555 1555 2.05 SSBOND 3 CYS A 252 CYS A 406 1555 1555 2.05 SSBOND 4 CYS A 306 CYS A 311 1555 1555 2.05 SSBOND 5 CYS A 341 CYS A 347 1555 1555 2.03 SSBOND 6 CYS A 371 CYS A 388 1555 1555 2.05 LINK ND2 ASN A 255 C1 NAG C 1 1555 1555 1.40 LINK ND2 ASN A 313 C1 NAG B 1 1555 1555 1.55 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.43 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.41 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.41 LINK O6 BMA B 3 C1 MAN B 4 1555 1555 0.99 LINK O3 BMA B 3 C1 MAN B 6 1555 1555 1.42 LINK O3 MAN B 4 C1 MAN B 5 1555 1555 1.42 CISPEP 1 GLY A 234 PRO A 235 0 -4.99 CISPEP 2 GLY A 242 GLY A 243 0 6.33 CISPEP 3 LEU A 383 PRO A 384 0 -7.98 CRYST1 38.970 41.830 63.330 93.25 99.86 114.95 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 0.025661 0.011939 0.006249 0.00000 SCALE2 0.000000 0.026367 0.003846 0.00000 SCALE3 0.000000 0.000000 0.016197 0.00000